Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009387.1 Hibiscus syriacus cultivar Beakdansim tig00113279_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: 929501
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 5
Found at i:637747 original size:130 final size:128
Alignment explanation
Indices: 637418--638033 Score: 631
Period size: 130 Copynumber: 4.7 Consensus size: 128
637408 TTTGAAATTG
* * * *
637418 AAATATG-AAAAGGGATCTACTCCATTGTTCTTCAGGGTAGATCATATCTGAAAATGTTGATTCA
1 AAATATGAAAAAGGGATCTGCTCCACTGCTCTTCAGGGTAGATCATATCTGGAAATGTTGATTCA
* * * * * * * * *
637482 TTCCACTACTCTTCAGAGAAGATTGAATCGAAGTAAATTTGTTCCACTGCTCCTCAAGGAAAATC
66 TTCCACTA-TTTTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACT-ATCCTCAGGGAAGATC
* * *
637547 AAATATGGAAAAAGGGGATCTACTCCGCTGCTCTTCAGGGTAGATTATATCTGGAAATGTTGATT
1 AAATAT-GAAAAA-GGGATCTGCTCCACTGCTCTTCAGGGTAGATCATATCTGGAAATGTTGATT
* * * * * * *
637612 TATTCCACTGTTATTCATGGAAGATTGAATAGAGGCATACTTGTTCCAGTTATTCTCAGGGAAGA
64 CATTCCACTATT-TTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCA-CTATCCTCAGGGAAGA
637677 TC
127 TC
* * * * * * *
637679 AAATATGAAAAAGGGATATGCTCTATTACTCTTCAGGGTAGATTAAATCTGGAAACGTTGATTCA
1 AAATATGAAAAAGGGATCTGCTCCACTGCTCTTCAGGGTAGATCATATCTGGAAATGTTGATTCA
* * * *
637744 TTCCACTACTTTTCAAGGAATATTGAATCGAGGCAGATTTGTTCCACTATTCCTCATGGAAGATC
66 TTCCACTA-TTTTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTA-TCCTCAGGGAAGATC
* * * * *
637809 AAATATGAAAAAGGGATCTGCTCCGCTACTCTTTAGGGTATATCATATCTGGAAATATTGATTCA
1 AAATATGAAAAAGGGATCTGCTCCACTGCTCTTCAGGGTAGATCATATCTGGAAATGTTGATTCA
* * * * * *
637874 TTCTATTGGTTTTTAGGGGATATTGAATCGAGGCAGACTTGTTCCACTACTCCTCAGGGAAGATC
66 TTCCACT-ATTTTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTA-TCCTCAGGGAAGATC
* * * * * * *
637939 AAATCTGGAAAAAGGAGATATGCTCCACTGCTTTTTAGGGTAGATCAGATATGGAAACGTTGATT
1 AAATAT-GAAAAAGG-GATCTGCTCCACTGCTCTTCAGGGTAGATCATATCTGGAAATGTTGATT
*
638004 CATTCCACTATTTTTTAGGGAAGATTGAAT
64 CATTCCACTA-TTTTCAGGGAAGATTGAAT
638034 TGAATTCAAT
Statistics
Matches: 404, Mismatches: 72, Indels: 19
0.82 0.15 0.04
Matches are distributed among these distances:
129 8 0.02
130 210 0.52
131 21 0.05
132 164 0.41
133 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.32
Consensus pattern (128 bp):
AAATATGAAAAAGGGATCTGCTCCACTGCTCTTCAGGGTAGATCATATCTGGAAATGTTGATTCA
TTCCACTATTTTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTATCCTCAGGGAAGATC
Found at i:637961 original size:262 final size:262
Alignment explanation
Indices: 637418--638033 Score: 731
Period size: 262 Copynumber: 2.4 Consensus size: 262
637408 TTTGAAATTG
* * * ** * * *
637418 AAATATG-AAAAGGGATCTACTCCATTGTTCTTCAGGGTAGATCATATCTGAAAATGTTGATTCA
1 AAATATGAAAAAGGGATATGCTCCACTACTCTTCAGGGTAGATCAAATCTGGAAACGTTGATTCA
* * *
637482 TTCCACTACTCTTC-AGAGAAGATTGAATCGAAGTAAATTTGTTCCACTGCTCCTCAAGGAAAAT
66 TTCCACTACTTTTCAAG-GAAGATTGAATCGAAGCAAATTTGTTCCACTACTCCTCAAGGAAAAT
* * *
637546 CAAATATGGAAAAAGGGGATCTACTCCGCTGCTCTTCAGGGTAGATTATATCTGGAAATGTTGAT
130 CAAATATGGAAAAAGGGGATCTACTCCGCTACTCTTCAGGGTAGATCATATCTGGAAATATTGAT
* * * * *
637611 TTATTCCACTGTTATTCATGGAAGATTGAATAGAGGCATACTTGTTCCAGTTATTCTCAGGGAAG
195 TCATTCCACTGTTATTCAGGGAAGATTGAATAGAGGCAGACTTGTTCCAGCTATCCTCAGGGAAG
637676 ATC
260 ATC
* * *
637679 AAATATGAAAAAGGGATATGCTCTATTACTCTTCAGGGTAGATTAAATCTGGAAACGTTGATTCA
1 AAATATGAAAAAGGGATATGCTCCACTACTCTTCAGGGTAGATCAAATCTGGAAACGTTGATTCA
* * * * * *
637744 TTCCACTACTTTTCAAGGAATATTGAATCGAGGCAGATTTGTTCCACTATTCCTCATGGAAGATC
66 TTCCACTACTTTTCAAGGAAGATTGAATCGAAGCAAATTTGTTCCACTACTCCTCAAGGAAAATC
* * *
637809 AAATAT-GAAAAA-GGGATCTGCTCCGCTACTCTTTAGGGTATATCATATCTGGAAATATTGATT
131 AAATATGGAAAAAGGGGATCTACTCCGCTACTCTTCAGGGTAGATCATATCTGGAAATATTGATT
* * * * * *
637872 CATTCTATTGGTT-TTTAGGGGATATTGAATCGAGGCAGACTTGTTCCA-CTACTCCTCAGGGAA
196 CATTCCACT-GTTATTCAGGGAAGATTGAATAGAGGCAGACTTGTTCCAGCTA-TCCTCAGGGAA
637935 GATC
259 GATC
* * * * * *
637939 AAATCTGGAAAAAGGAGATATGCTCCACTGCTTTTTAGGGTAGATCAGATATGGAAACGTTGATT
1 AAATAT-GAAAAAGG-GATATGCTCCACTACTCTTCAGGGTAGATCAAATCTGGAAACGTTGATT
* * *
638004 CATTCCACTATTTTTTAGGGAAGATTGAAT
64 CATTCCACTACTTTTCAAGGAAGATTGAAT
638034 TGAATTCAAT
Statistics
Matches: 301, Mismatches: 48, Indels: 11
0.84 0.13 0.03
Matches are distributed among these distances:
259 2 0.01
260 99 0.33
261 24 0.08
262 174 0.58
263 2 0.01
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.32
Consensus pattern (262 bp):
AAATATGAAAAAGGGATATGCTCCACTACTCTTCAGGGTAGATCAAATCTGGAAACGTTGATTCA
TTCCACTACTTTTCAAGGAAGATTGAATCGAAGCAAATTTGTTCCACTACTCCTCAAGGAAAATC
AAATATGGAAAAAGGGGATCTACTCCGCTACTCTTCAGGGTAGATCATATCTGGAAATATTGATT
CATTCCACTGTTATTCAGGGAAGATTGAATAGAGGCAGACTTGTTCCAGCTATCCTCAGGGAAGA
TC
Found at i:639360 original size:12 final size:12
Alignment explanation
Indices: 639346--639399 Score: 69
Period size: 13 Copynumber: 4.7 Consensus size: 12
639336 TTTATTTTAT
639346 TTTTTTC-TTTC
1 TTTTTTCATTTC
639357 TTTTTT--TTTC
1 TTTTTTCATTTC
*
639367 ATTTTTCATTTC
1 TTTTTTCATTTC
639379 TTTTTTCATTTTC
1 TTTTTTCA-TTTC
639392 TTTTTTCA
1 TTTTTTCA
639400 GGCGAAGTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
10 9 0.24
11 6 0.16
12 11 0.29
13 12 0.32
ACGTcount: A:0.07, C:0.15, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTTTTCATTTC
Found at i:639365 original size:5 final size:5
Alignment explanation
Indices: 639320--639348 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
639310 TTGAACCCCC
639320 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
639349 TTTCTTTCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTA
Found at i:651753 original size:23 final size:23
Alignment explanation
Indices: 651713--651775 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
651703 CATTTTATAT
* *
651713 GGCACTACAGTGCAATTCTACGC
1 GGCACTTCGGTGCAATTCTACGC
* * * *
651736 GGTACTTCGGTGCCATTCTATGT
1 GGCACTTCGGTGCAATTCTACGC
651759 GGCACTTCGGTGCAATT
1 GGCACTTCGGTGCAATT
651776 TATACGAGCT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.19, C:0.25, G:0.25, T:0.30
Consensus pattern (23 bp):
GGCACTTCGGTGCAATTCTACGC
Found at i:652619 original size:14 final size:14
Alignment explanation
Indices: 652600--652626 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
652590 CTATGGGTGA
652600 CTACTTACAATTGC
1 CTACTTACAATTGC
652614 CTACTTACAATTG
1 CTACTTACAATTG
652627 ATATCAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.26, G:0.07, T:0.37
Consensus pattern (14 bp):
CTACTTACAATTGC
Found at i:653258 original size:109 final size:110
Alignment explanation
Indices: 653082--653351 Score: 307
Period size: 109 Copynumber: 2.5 Consensus size: 110
653072 TCACTACACA
* * * * * *
653082 TGACTAAAATGCAAAAACACACTTAAA-TAAGGGGGACTAAACAACAAAT-ATTCCAATAAATAC
1 TGACAAAAATGCAAAAACACGC-TAAACTTAGAGGGACTAAACAACAATTAACTCCAATAAATAC
*
653145 ATAACATAG-AAGAAAAAGGGTAAATAACAATTTTGGTCCTCGTAGG
65 ATAACA-AGTAAGAAAAAGGGTAAATAACAATTTTGGTCCTCGCAGG
* *
653191 TGACAAAAATGCAAAAACACGCTAAACTTAGAGGGACTAAACATA-AATTAACT-CAATCAATAT
1 TGACAAAAATGCAAAAACACGCTAAACTTAGAGGGACTAAACA-ACAATTAACTCCAATAAATAC
* * * *
653254 ATAACACGTATGAAAAAGGGTAAATACCAATTTTGGTCCTTGCAGG
65 ATAACAAGTAAGAAAAAGGGTAAATAACAATTTTGGTCCTCGCAGG
* ** * * *
653300 TGACCAAAATGCAAAAAGGCGCTAAACCTATAGGGACTAAACAATAATTAAC
1 TGACAAAAATGCAAAAACACGCTAAACTTAGAGGGACTAAACAACAATTAAC
653352 CCTTAACTTT
Statistics
Matches: 138, Mismatches: 18, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
108 6 0.04
109 129 0.93
110 3 0.02
ACGTcount: A:0.47, C:0.16, G:0.16, T:0.21
Consensus pattern (110 bp):
TGACAAAAATGCAAAAACACGCTAAACTTAGAGGGACTAAACAACAATTAACTCCAATAAATACA
TAACAAGTAAGAAAAAGGGTAAATAACAATTTTGGTCCTCGCAGG
Found at i:654219 original size:20 final size:20
Alignment explanation
Indices: 654194--654231 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
654184 TTGGGTTTGT
654194 AAAATAAAAAAATAATTATA
1 AAAATAAAAAAATAATTATA
*
654214 AAAATAAAATAATAATTA
1 AAAATAAAAAAATAATTA
654232 ATAATTATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (20 bp):
AAAATAAAAAAATAATTATA
Found at i:655015 original size:13 final size:13
Alignment explanation
Indices: 654997--655021 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
654987 TAACAGCCAT
654997 GAAGCAACAGTAC
1 GAAGCAACAGTAC
655010 GAAGCAACAGTA
1 GAAGCAACAGTA
655022 TTTTGAGGTT
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:0.48, C:0.20, G:0.24, T:0.08
Consensus pattern (13 bp):
GAAGCAACAGTAC
Found at i:658163 original size:67 final size:66
Alignment explanation
Indices: 658018--658150 Score: 250
Period size: 67 Copynumber: 2.0 Consensus size: 66
658008 TACTTGGAAA
658018 CCATATGCAG-AATACGGAAATCAGAATTCAAAACAGTAAATATGGTAATTCAGATGTCAGATAA
1 CCATATGCAGAAATACGGAAATCAGAATTCAAAACAGTAAATATGGTAATTCAGATGTCAGATAA
658082 T
66 T
658083 CCATATGCAGAAATACGGAAATCAGAATTCAAAACAGTAAAATATGGTAATTCAGATGTCAGATA
1 CCATATGCAGAAATACGGAAATCAGAATTCAAAACAGT-AAATATGGTAATTCAGATGTCAGATA
658148 AT
65 AT
658150 C
1 C
658151 AGATTTTAGA
Statistics
Matches: 66, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
65 10 0.15
66 27 0.41
67 29 0.44
ACGTcount: A:0.45, C:0.14, G:0.17, T:0.24
Consensus pattern (66 bp):
CCATATGCAGAAATACGGAAATCAGAATTCAAAACAGTAAATATGGTAATTCAGATGTCAGATAA
T
Found at i:659127 original size:18 final size:18
Alignment explanation
Indices: 659100--659145 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
659090 CGGTCAACGT
*
659100 TCAACTGGTCGGATCGGG
1 TCAACGGGTCGGATCGGG
* * *
659118 TCAATGGGTCGGGTCTGG
1 TCAACGGGTCGGATCGGG
659136 TCAACGGGTC
1 TCAACGGGTC
659146 AGGTCGAAAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.15, C:0.22, G:0.39, T:0.24
Consensus pattern (18 bp):
TCAACGGGTCGGATCGGG
Found at i:659150 original size:18 final size:18
Alignment explanation
Indices: 659116--659150 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
659106 GGTCGGATCG
* *
659116 GGTCAATGGGTCGGGTCT
1 GGTCAACGGGTCAGGTCT
659134 GGTCAACGGGTCAGGTC
1 GGTCAACGGGTCAGGTC
659151 GAAACCGGTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.14, C:0.20, G:0.43, T:0.23
Consensus pattern (18 bp):
GGTCAACGGGTCAGGTCT
Found at i:665772 original size:9 final size:8
Alignment explanation
Indices: 665746--665770 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
665736 AATTAATATA
665746 TATTTTTT
1 TATTTTTT
665754 TATTTTTT
1 TATTTTTT
665762 TATTTTTT
1 TATTTTTT
665770 T
1 T
665771 TACAAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TATTTTTT
Found at i:665808 original size:29 final size:29
Alignment explanation
Indices: 665776--665845 Score: 86
Period size: 29 Copynumber: 2.4 Consensus size: 29
665766 TTTTTTACAA
665776 AATTACAAAAATAACACCATTTTAAAATT
1 AATTACAAAAATAACACCATTTTAAAATT
* * * *
665805 AATTACCAATATAGCACCATTTTCAAATT
1 AATTACAAAAATAACACCATTTTAAAATT
* *
665834 ATTTACTAAAAT
1 AATTACAAAAAT
665846 GCCTTTTTTA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.49, C:0.16, G:0.01, T:0.34
Consensus pattern (29 bp):
AATTACAAAAATAACACCATTTTAAAATT
Found at i:677264 original size:16 final size:16
Alignment explanation
Indices: 677222--677273 Score: 63
Period size: 15 Copynumber: 3.4 Consensus size: 16
677212 ATGATAACTC
677222 ATTAATAATAT-TTTT
1 ATTAATAATATATTTT
*
677237 ATCAATAA-ATATTTT
1 ATTAATAATATATTTT
* *
677252 ATTAAAAATATATATT
1 ATTAATAATATATTTT
677268 ATTAAT
1 ATTAAT
677274 GTTTTTTAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
14 2 0.07
15 17 0.57
16 11 0.37
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (16 bp):
ATTAATAATATATTTT
Found at i:679073 original size:19 final size:19
Alignment explanation
Indices: 679049--679085 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
679039 CACAAATTCA
679049 CTAATTTGTCTTTCTTTTT
1 CTAATTTGTCTTTCTTTTT
679068 CTAATTTGTCTTTCTTTT
1 CTAATTTGTCTTTCTTTT
679086 GAGGACAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.11, C:0.16, G:0.05, T:0.68
Consensus pattern (19 bp):
CTAATTTGTCTTTCTTTTT
Found at i:679734 original size:9 final size:9
Alignment explanation
Indices: 679722--679783 Score: 56
Period size: 9 Copynumber: 7.0 Consensus size: 9
679712 TAAAATAAAT
679722 AAAAAATAA
1 AAAAAATAA
679731 AAAAAATAA
1 AAAAAATAA
*
679740 AAAAAGA-AG
1 AAAAA-ATAA
679749 AAAAAA-AA
1 AAAAAATAA
* *
679757 TATAAATAA
1 AAAAAATAA
*
679766 AACAAATAA
1 AAAAAATAA
*
679775 ATAAAATAA
1 AAAAAATAA
679784 TAATAAAAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
8 6 0.14
9 36 0.84
10 1 0.02
ACGTcount: A:0.82, C:0.02, G:0.03, T:0.13
Consensus pattern (9 bp):
AAAAAATAA
Found at i:679738 original size:20 final size:21
Alignment explanation
Indices: 679697--679805 Score: 96
Period size: 23 Copynumber: 5.0 Consensus size: 21
679687 AAGAAAGCAA
* **
679697 AAATAAAATAGTAAGTAAAAT
1 AAATAAAAAAGTAAAAAAAAT
679718 AAATAAAAAA-TAAAAAAAAT
1 AAATAAAAAAGTAAAAAAAAT
*
679738 AAA-AAAAGAAGAAAAAAAATAT
1 AAATAAAA-AAGTAAAAAAA-AT
* *
679760 AAATAAAACAAATAAATAAAAT
1 AAATAAAA-AAGTAAAAAAAAT
*
679782 AATAATAAAAAAGTAAAAATAAT
1 -A-AATAAAAAAGTAAAAAAAAT
679805 A
1 A
679806 TATATATATA
Statistics
Matches: 71, Mismatches: 11, Indels: 11
0.76 0.12 0.12
Matches are distributed among these distances:
19 4 0.06
20 13 0.18
21 16 0.23
22 8 0.11
23 23 0.32
24 7 0.10
ACGTcount: A:0.77, C:0.01, G:0.05, T:0.17
Consensus pattern (21 bp):
AAATAAAAAAGTAAAAAAAAT
Found at i:679764 original size:35 final size:38
Alignment explanation
Indices: 679723--679803 Score: 105
Period size: 35 Copynumber: 2.2 Consensus size: 38
679713 AAAATAAATA
679723 AAAAATAAAAAAAATAAA-AAAAGAAGAA-AAAAAA-T
1 AAAAATAAAAAAAATAAATAAAAGAAGAATAAAAAAGT
* * * *
679758 ATAAATAAAACAAATAAATAAAATAATAATAAAAAAGT
1 AAAAATAAAAAAAATAAATAAAAGAAGAATAAAAAAGT
679796 AAAAATAA
1 AAAAATAA
679804 TATATATATA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
35 16 0.42
36 8 0.21
37 6 0.16
38 8 0.21
ACGTcount: A:0.80, C:0.01, G:0.04, T:0.15
Consensus pattern (38 bp):
AAAAATAAAAAAAATAAATAAAAGAAGAATAAAAAAGT
Found at i:679767 original size:13 final size:12
Alignment explanation
Indices: 679697--679798 Score: 73
Period size: 13 Copynumber: 8.2 Consensus size: 12
679687 AAGAAAGCAA
* *
679697 AAATAAAATAGT
1 AAATAAAAAAAT
*
679709 AAGTAAAATAAAT
1 AAATAAAA-AAAT
*
679722 AAA-AAATAAAAA
1 AAATAAA-AAAAT
*
679734 AAATAAAAAAAG
1 AAATAAAAAAAT
*
679746 AAGAAAAAAAATAT
1 AA-ATAAAAAA-AT
679760 AAATAAAACAAAT
1 AAATAAAA-AAAT
*
679773 AAATAAAATAAT
1 AAATAAAAAAAT
*
679785 -AATAAAAAAGT
1 AAATAAAAAAAT
679796 AAA
1 AAA
679799 AATAATATAT
Statistics
Matches: 71, Mismatches: 12, Indels: 14
0.73 0.12 0.14
Matches are distributed among these distances:
11 9 0.13
12 27 0.38
13 30 0.42
14 5 0.07
ACGTcount: A:0.77, C:0.01, G:0.05, T:0.17
Consensus pattern (12 bp):
AAATAAAAAAAT
Found at i:680067 original size:41 final size:41
Alignment explanation
Indices: 680022--680122 Score: 193
Period size: 41 Copynumber: 2.5 Consensus size: 41
680012 CAAATTCGTG
*
680022 TTCCATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATT
1 TTCCATTTCGCGTTGCGATAGTTGAAAATCGCATTGCGATT
680063 TTCCATTTCGCGTTGCGATAGTTGAAAATCGCATTGCGATT
1 TTCCATTTCGCGTTGCGATAGTTGAAAATCGCATTGCGATT
680104 TTCCATTTCGCGTTGCGAT
1 TTCCATTTCGCGTTGCGAT
680123 TTTTCATTTC
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 59 1.00
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.38
Consensus pattern (41 bp):
TTCCATTTCGCGTTGCGATAGTTGAAAATCGCATTGCGATT
Found at i:680116 original size:61 final size:61
Alignment explanation
Indices: 680050--680183 Score: 250
Period size: 61 Copynumber: 2.2 Consensus size: 61
680040 TAGTTGAAAA
680050 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATCGCATTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATCGCATTGCGATTTTCCATT
* *
680111 TCGCGTTGCGATTTTTCATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATCGCATTGCGATTTTCCATT
680172 TCGCGTTGCGAT
1 TCGCGTTGCGAT
680184 AGTTAAAAAT
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 71 1.00
ACGTcount: A:0.16, C:0.21, G:0.23, T:0.40
Consensus pattern (61 bp):
TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATCGCATTGCGATTTTCCATT
Found at i:680156 original size:41 final size:41
Alignment explanation
Indices: 680111--680227 Score: 191
Period size: 41 Copynumber: 2.9 Consensus size: 41
680101 ATTTTCCATT
*
680111 TCGCGTTGCGATTTTTCATTTCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATTTTTCATTTCGCGTTGCGATAGTTAAAAA
*
680152 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTAAAAA
1 TCGCGTTGCGATTTTTCATTTCGCGTTGCGATAGTTAAAAA
*
680193 TTGCGTTGCGA-TTTTCTATTTCGCGTTGCGATAGT
1 TCGCGTTGCGATTTTTC-ATTTCGCGTTGCGATAGT
680228 CTACAGTTGT
Statistics
Matches: 71, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
40 4 0.06
41 67 0.94
ACGTcount: A:0.18, C:0.18, G:0.24, T:0.40
Consensus pattern (41 bp):
TCGCGTTGCGATTTTTCATTTCGCGTTGCGATAGTTAAAAA
Found at i:680165 original size:102 final size:102
Alignment explanation
Indices: 680025--680224 Score: 364
Period size: 102 Copynumber: 2.0 Consensus size: 102
680015 ATTCGTGTTC
*
680025 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAA
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTAAAA
680090 ATCGCATTGCGATTTTCCATTTCGCGTTGCGATTTTT
66 ATCGCATTGCGATTTTCCATTTCGCGTTGCGATTTTT
680127 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTAAAA
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTAAAA
* * *
680192 ATTGCGTTGCGATTTTCTATTTCGCGTTGCGAT
66 ATCGCATTGCGATTTTCCATTTCGCGTTGCGAT
680225 AGTCTACAGT
Statistics
Matches: 94, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
102 94 1.00
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.39
Consensus pattern (102 bp):
CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTAAAA
ATCGCATTGCGATTTTCCATTTCGCGTTGCGATTTTT
Found at i:680224 original size:61 final size:61
Alignment explanation
Indices: 680050--680204 Score: 186
Period size: 61 Copynumber: 2.5 Consensus size: 61
680040 TAGTTGAAAA
*** * * *
680050 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATCGCATTGCGATTTTCCATT
1 TCGCGTTGCGATTTAAAAATTCGCGTTGCGATAGTTCAAAATCGCGTTGCGATTTTCCATT
*** * *
680111 TCGCGTTGCGATTTTTCATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTAAAAATTCGCGTTGCGATAGTTCAAAATCGCGTTGCGATTTTCCATT
680172 TCGCGTTGCGATAGTTAAAAATT-GCGTTGCGAT
1 TCGCGTTGCGAT--TTAAAAATTCGCGTTGCGAT
680205 TTTCTATTTC
Statistics
Matches: 86, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
61 71 0.83
62 10 0.12
63 5 0.06
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.39
Consensus pattern (61 bp):
TCGCGTTGCGATTTAAAAATTCGCGTTGCGATAGTTCAAAATCGCGTTGCGATTTTCCATT
Found at i:680244 original size:22 final size:22
Alignment explanation
Indices: 680216--680287 Score: 78
Period size: 22 Copynumber: 3.4 Consensus size: 22
680206 TTCTATTTCG
680216 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
** * *
680238 CGTTGCGATTTTCCA-AATT-T
1 CGTTGCGATAGTCTACAGTTGT
680258 -GTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
*
680279 CGTTACGAT
1 CGTTGCGAT
680288 TTTCCAAATT
Statistics
Matches: 38, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
19 11 0.29
20 4 0.11
21 4 0.11
22 19 0.50
ACGTcount: A:0.19, C:0.18, G:0.24, T:0.39
Consensus pattern (22 bp):
CGTTGCGATAGTCTACAGTTGT
Found at i:680262 original size:41 final size:41
Alignment explanation
Indices: 680216--680309 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
680206 TTCTATTTCG
*
680216 CGTTGCGATAGTCTACAGTTGTCGTTGCGATTTTCCAAATT
1 CGTTGCGATAGTCTACAGTTGTCGTTACGATTTTCCAAATT
*
680257 TGTTGCGATAGTCTACAGTTGTCGTTACGATTTTCCAAATT
1 CGTTGCGATAGTCTACAGTTGTCGTTACGATTTTCCAAATT
680298 CGTTGCGATAGT
1 CGTTGCGATAGT
680310 TAAAAAAAGA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 50 1.00
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.39
Consensus pattern (41 bp):
CGTTGCGATAGTCTACAGTTGTCGTTACGATTTTCCAAATT
Found at i:680262 original size:82 final size:80
Alignment explanation
Indices: 680113--680268 Score: 201
Period size: 82 Copynumber: 1.9 Consensus size: 80
680103 TTTCCATTTC
680113 GCGTTGCGATTTTTCATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGT
1 GCGTTGCGATTTTTCATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTT--CGT
680178 TGCGATAGTTAAAAATT
64 TGCGATAGTTAAAAATT
* * *
680195 GCGTTGCGA-TTTTCTATTTCGCGTTGCGATAGTCT-ACAGTTGTCGTTGCGATTTTCCAAATTT
1 GCGTTGCGATTTTTC-ATTTCGCGTTGCGATAGT-TGAAAATCG-CGTTGCGATTTTCC--ATTT
680258 -GTTGCGATAGT
61 CGTTGCGATAGT
680269 CTACAGTTGT
Statistics
Matches: 66, Mismatches: 3, Indels: 10
0.84 0.04 0.13
Matches are distributed among these distances:
81 5 0.08
82 42 0.64
83 15 0.23
85 4 0.06
ACGTcount: A:0.19, C:0.17, G:0.24, T:0.40
Consensus pattern (80 bp):
GCGTTGCGATTTTTCATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGTTG
CGATAGTTAAAAATT
Found at i:680263 original size:19 final size:19
Alignment explanation
Indices: 680239--680306 Score: 55
Period size: 19 Copynumber: 3.4 Consensus size: 19
680229 TACAGTTGTC
680239 GTTGCGATTTTCCAAATTT
1 GTTGCGATTTTCCAAATTT
** * *
680258 GTTGCGATAGTCTACAGTTGT
1 GTTGCGATTTTCCA-AATT-T
* *
680279 CGTTACGATTTTCCAAATTC
1 -GTTGCGATTTTCCAAATTT
680299 GTTGCGAT
1 GTTGCGAT
680307 AGTTAAAAAA
Statistics
Matches: 35, Mismatches: 11, Indels: 6
0.67 0.21 0.12
Matches are distributed among these distances:
19 18 0.51
20 3 0.09
21 4 0.11
22 10 0.29
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.41
Consensus pattern (19 bp):
GTTGCGATTTTCCAAATTT
Found at i:680265 original size:102 final size:102
Alignment explanation
Indices: 680028--680246 Score: 323
Period size: 102 Copynumber: 2.1 Consensus size: 102
680018 CGTGTTCCAT
* *
680028 TTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATC
1 TTCGCGTTGCGATAGTTCAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTAAAAATC
* * *
680093 GCATTGCGATTTTCCATTTCGCGTTGCGATTTTTCAT
66 GCATTGCGATTTTCCATTTCGCGTTGCGATTCTACAG
* *
680130 TTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTAAAAATT
1 TTCGCGTTGCGATAGTTCAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTAAAAATC
* *
680195 GCGTTGCGATTTTCTATTTCGCGTTGCGATAGTCTACAG
66 GCATTGCGATTTTCCATTTCGCGTTGCGAT--TCTACAG
680234 TT-GTCGTTGCGAT
1 TTCG-CGTTGCGAT
680247 TTTCCAAATT
Statistics
Matches: 107, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
102 91 0.85
103 1 0.01
104 15 0.14
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.39
Consensus pattern (102 bp):
TTCGCGTTGCGATAGTTCAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTAAAAATC
GCATTGCGATTTTCCATTTCGCGTTGCGATTCTACAG
Found at i:681089 original size:41 final size:41
Alignment explanation
Indices: 681032--681165 Score: 250
Period size: 41 Copynumber: 3.3 Consensus size: 41
681022 CTTTTTTTTA
* *
681032 ACTATCGCAACGAATTTGGAAAATCGTAACGACAACTGTAG
1 ACTATCGCAACAAATTTGGAAAATCGCAACGACAACTGTAG
681073 ACTATCGCAACAAATTTGGAAAATCGCAACGACAACTGTAG
1 ACTATCGCAACAAATTTGGAAAATCGCAACGACAACTGTAG
681114 ACTATCGCAACAAATTTGGAAAATCGCAACGACAACTGTAG
1 ACTATCGCAACAAATTTGGAAAATCGCAACGACAACTGTAG
681155 ACTATCGCAAC
1 ACTATCGCAAC
681166 GCGATTTTCA
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 91 1.00
ACGTcount: A:0.40, C:0.22, G:0.17, T:0.20
Consensus pattern (41 bp):
ACTATCGCAACAAATTTGGAAAATCGCAACGACAACTGTAG
Found at i:681098 original size:19 final size:19
Alignment explanation
Indices: 681035--681143 Score: 74
Period size: 19 Copynumber: 5.4 Consensus size: 19
681025 TTTTTTAACT
*
681035 ATCGCAACGAATTTGGAAA
1 ATCGCAACAAATTTGGAAA
* * * **
681054 ATCGTAACGACAACTGTAGACT
1 ATCGCAAC-A-AA-TTTGGAAA
681076 ATCGCAACAAATTTGGAAA
1 ATCGCAACAAATTTGGAAA
* * **
681095 ATCGCAACGACAACTGTAGACT
1 ATCGCAAC-A-AA-TTTGGAAA
681117 ATCGCAACAAATTTGGAAA
1 ATCGCAACAAATTTGGAAA
681136 ATCGCAAC
1 ATCGCAAC
681144 GACAACTGTA
Statistics
Matches: 65, Mismatches: 19, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
19 31 0.48
20 5 0.08
21 6 0.09
22 23 0.35
ACGTcount: A:0.41, C:0.21, G:0.17, T:0.20
Consensus pattern (19 bp):
ATCGCAACAAATTTGGAAA
Found at i:681120 original size:22 final size:22
Alignment explanation
Indices: 681054--681166 Score: 103
Period size: 22 Copynumber: 5.4 Consensus size: 22
681044 AATTTGGAAA
*
681054 ATCGTAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
* * **
681076 ATCGCAAC-A-AA-TTTGGAAA
1 ATCGCAACGACAACTGTAGACT
681095 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
* * **
681117 ATCGCAAC-A-AA-TTTGGAAA
1 ATCGCAACGACAACTGTAGACT
681136 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
681158 ATCGCAACG
1 ATCGCAACG
681167 CGATTTTCAA
Statistics
Matches: 68, Mismatches: 17, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
19 24 0.35
20 6 0.09
21 6 0.09
22 32 0.47
ACGTcount: A:0.40, C:0.23, G:0.18, T:0.19
Consensus pattern (22 bp):
ATCGCAACGACAACTGTAGACT
Found at i:681181 original size:21 final size:21
Alignment explanation
Indices: 681155--681231 Score: 102
Period size: 21 Copynumber: 3.7 Consensus size: 21
681145 ACAACTGTAG
681155 ACTATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGATTTTCA
** **
681176 ACTATCGCAACGCGAAATGGA
1 ACTATCGCAACGCGATTTTCA
*
681197 A-AATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGATTTTCA
681217 ACTATCGCAACGCGA
1 ACTATCGCAACGCGA
681232 AATGCAACGT
Statistics
Matches: 45, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.21
Consensus pattern (21 bp):
ACTATCGCAACGCGATTTTCA
Found at i:681203 original size:41 final size:41
Alignment explanation
Indices: 681158--681235 Score: 156
Period size: 41 Copynumber: 1.9 Consensus size: 41
681148 ACTGTAGACT
681158 ATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAA
681199 ATCGCAACGCGATTTTCAACTATCGCAACGCGAAATG
1 ATCGCAACGCGATTTTCAACTATCGCAACGCGAAATG
681236 CAACGTGAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.21
Consensus pattern (41 bp):
ATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAA
Found at i:681203 original size:82 final size:81
Alignment explanation
Indices: 681035--681206 Score: 204
Period size: 82 Copynumber: 2.1 Consensus size: 81
681025 TTTTTTAACT
* * *
681035 ATCGCAACGAATTTGGAAAATCGTAACGACAACTGTAGACTATCGCAACAAATTTGGAAAATCGC
1 ATCGCAACAAATTTGGAAAATCGCAACGACAACTGTAGACTATCGCAACAAATTTGCAAAATCGC
* **
681100 AACGACAACTGTAGACT
66 AACGACAAATG-AGAAA
** * *
681117 ATCGCAACAAATTTGGAAAATCGCAACGACAACTGTAGACTATCGCAACGCGATTTTCAACTATC
1 ATCGCAACAAATTTGGAAAATCGCAACGACAACTGTAGACTATCGCAAC-AAATTTGCAA-AATC
681182 GCAACG-CGAAATG-GAAA
64 GCAACGAC-AAATGAGAAA
681199 ATCGCAAC
1 ATCGCAAC
681207 GCGATTTTCA
Statistics
Matches: 77, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
82 57 0.74
83 7 0.09
84 13 0.17
ACGTcount: A:0.40, C:0.23, G:0.18, T:0.20
Consensus pattern (81 bp):
ATCGCAACAAATTTGGAAAATCGCAACGACAACTGTAGACTATCGCAACAAATTTGCAAAATCGC
AACGACAAATGAGAAA
Found at i:682013 original size:37 final size:37
Alignment explanation
Indices: 681963--682071 Score: 193
Period size: 37 Copynumber: 2.9 Consensus size: 37
681953 CTTGTGGATT
*
681963 CTATTTTTAGGAGTTTGAATCATAGTAGAAA-TCTATC
1 CTATTTTTAGGAGTTTGAATCCTAGTA-AAACTCTATC
682000 CTATTTTTAGGAGTTTGAATCCTAGTAAAACTCTATC
1 CTATTTTTAGGAGTTTGAATCCTAGTAAAACTCTATC
682037 CTATTTTTAGGAGTTTGAATCCTAGTAAAACTCTA
1 CTATTTTTAGGAGTTTGAATCCTAGTAAAACTCTA
682072 ATGTTATGTT
Statistics
Matches: 70, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
36 3 0.04
37 67 0.96
ACGTcount: A:0.31, C:0.14, G:0.15, T:0.40
Consensus pattern (37 bp):
CTATTTTTAGGAGTTTGAATCCTAGTAAAACTCTATC
Found at i:682730 original size:32 final size:34
Alignment explanation
Indices: 682660--682738 Score: 117
Period size: 35 Copynumber: 2.4 Consensus size: 34
682650 AAGGTCTTGG
*
682660 GTTTCAAGAGAAACATTTTCAAAGGTTTTTTTTGT
1 GTTTCAAGAGAAACAATTTCAAAGG-TTTTTTTGT
*
682695 GTTTCAAGAGAAACAATTTCCAAGG-TTTTTT-T
1 GTTTCAAGAGAAACAATTTCAAAGGTTTTTTTGT
682727 GTTTCAAGAGAA
1 GTTTCAAGAGAA
682739 GCTATCTCAA
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
32 13 0.31
33 6 0.14
35 23 0.55
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.41
Consensus pattern (34 bp):
GTTTCAAGAGAAACAATTTCAAAGGTTTTTTTGT
Found at i:682880 original size:36 final size:36
Alignment explanation
Indices: 682793--683081 Score: 287
Period size: 36 Copynumber: 8.1 Consensus size: 36
682783 CAAAGATTGG
682793 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAC-T
*
682830 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACT
*
682866 TGTTTCTAGAGAAACTGTCTCAAGAGAGACAAAACT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACT
* * *
682902 TAGTTCTGAA-AGAAACTGTCTCAAGGGAGACAAAATT
1 T-GTT-TCAAGAGAAACTGTCTCAAGAGAGACAAAACT
* **
682939 TGTTTCAAG-GAAAACATAT-TC-A-A-AG----ATTT
1 TGTTTCAAGAG-AAAC-TGTCTCAAGAGAGACAAAACT
* * * *
682968 TATTTCAATG-GAAATTGTCTCAAGAGAAACAAAATT
1 TGTTTCAA-GAGAAACTGTCTCAAGAGAGACAAAACT
*
683004 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA-T
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACT
* *
683039 TCATTTCAAGAGAAACTGTCTCAGGAGAGACAAAACTT
1 T-GTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAC-T
683077 TGTTT
1 TGTTT
683082 TGAGTAAATC
Statistics
Matches: 211, Mismatches: 23, Indels: 36
0.78 0.09 0.13
Matches are distributed among these distances:
28 2 0.01
29 15 0.07
30 3 0.01
31 1 0.00
32 1 0.00
33 2 0.01
35 8 0.04
36 107 0.51
37 68 0.32
38 4 0.02
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.27
Consensus pattern (36 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACT
Found at i:682892 original size:73 final size:73
Alignment explanation
Indices: 682793--683081 Score: 298
Period size: 73 Copynumber: 4.1 Consensus size: 73
682783 CAAAGATTGG
*
682793 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACTGTCTCAAGAGAG
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGAGAAACTGTCTCAAGAGAG
682858 ACAAAACT
66 ACAAAACT
* * * *
682866 TGTTTCTAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCTGAA-AGAAACTGTCTCAAGGGA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTT-TCAAGAGAAACTGTCTCAAGAGA
*
682930 GACAAAATT
65 GACAAAACT
* * * *
682939 TGTTTCAAG-GAAAACATAT-TC-A-A-AG-----ATTTTATTTCAATG-GAAATTGTCTCAAGA
1 TGTTTCAAGAG-AAAC-TGTCTCAAGAGAGACAAAACTTTGTTTCAA-GAGAAACTGTCTCAAGA
* *
682993 GAAACAAAATT
63 GAGACAAAACT
* ** *
683004 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA-TTCATTTCAAGAGAAACTGTCTCAGGAGAG
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGAGAAACTGTCTCAAGAGAG
683068 ACAAAACTT
66 ACAAAAC-T
683077 TGTTT
1 TGTTT
683082 TGAGTAAATC
Statistics
Matches: 178, Mismatches: 21, Indels: 34
0.76 0.09 0.15
Matches are distributed among these distances:
64 5 0.03
65 43 0.24
66 2 0.01
67 1 0.01
68 2 0.01
70 2 0.01
71 2 0.01
72 32 0.18
73 84 0.47
74 5 0.03
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.27
Consensus pattern (73 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGAGAAACTGTCTCAAGAGAG
ACAAAACT
Found at i:683007 original size:138 final size:138
Alignment explanation
Indices: 682832--683081 Score: 373
Period size: 138 Copynumber: 1.8 Consensus size: 138
682822 CAAAACTTTG
* *
682832 TTTCAAGGGAAACTGTCTCAAGAGAGACAAAACTTGTTTCTAGAGAAACTGTCTCAAGAGAGACA
1 TTTCAAGGGAAACTGTCTCAAGAGAAACAAAACTTGTTTCAAGAGAAACTGTCTCAAGAGAGACA
*
682897 AAACTT-AGTTCTGAA-AGAAACTGTCTCAAGG-GAGACAAAA-TTTGTTTCAAGGAAAACATAT
66 AAA-TTCA-TT-TCAAGAGAAACTGTCTC-AGGAGAGACAAAACTTTGTTTCAAGGAAAACATAT
682958 TCAAAGATTTTA
127 TCAAAGATTTTA
* * * *
682970 TTTCAATGGAAATTGTCTCAAGAGAAACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACA
1 TTTCAAGGGAAACTGTCTCAAGAGAAACAAAACTTGTTTCAAGAGAAACTGTCTCAAGAGAGACA
683035 AAATTCATTTCAAGAGAAACTGTCTCAGGAGAGACAAAACTTTGTTT
66 AAATTCATTTCAAGAGAAACTGTCTCAGGAGAGACAAAACTTTGTTT
683082 TGAGTAAATC
Statistics
Matches: 101, Mismatches: 7, Indels: 8
0.87 0.06 0.07
Matches are distributed among these distances:
136 6 0.06
137 25 0.25
138 70 0.69
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.27
Consensus pattern (138 bp):
TTTCAAGGGAAACTGTCTCAAGAGAAACAAAACTTGTTTCAAGAGAAACTGTCTCAAGAGAGACA
AAATTCATTTCAAGAGAAACTGTCTCAGGAGAGACAAAACTTTGTTTCAAGGAAAACATATTCAA
AGATTTTA
Found at i:683100 original size:174 final size:176
Alignment explanation
Indices: 682742--683108 Score: 521
Period size: 174 Copynumber: 2.1 Consensus size: 176
682732 AAGAGAAGCT
* * *
682742 ATCTCAATGGAGACAAAATTTTGTTTCAAGGGAAACATATTCAAAGATTGGTGTTTCAAGAGAAA
1 ATCTCAAGGGAGACAAAATTTTGTTTCAAGGAAAACATATTCAAAGATTGGTATTTCAAGAGAAA
* *
682807 CTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACTTGTTTC
66 CTGTCTCAAGAGAAACAAAACTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACTTATTTC
* *
682872 TAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCTGAAAGAAACT
131 AAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCTG-AAGAAACA
* *
682919 GTCTCAAGGGAGACAAAA-TTTGTTTCAAGGAAAACATATTCAAAGATT-TTATTTCAATG-GAA
1 ATCTCAAGGGAGACAAAATTTTGTTTCAAGGAAAACATATTCAAAGATTGGTATTTCAA-GAGAA
*
682981 ATTGTCTCAAGAGAAACAAAA-TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA-TTCATT
65 ACTGTCTCAAGAGAAACAAAACTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACTT-ATT
* * *
683044 TCAAGAGAAACTGTCTCAGGAGAGACAAAACTTTGTTTTG-AGTAAATCA
129 TCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCTGAAG-AAA-CA
*
683093 ATCTCAAGAGAGACAA
1 ATCTCAAGGGAGACAA
683109 CCCTTTGTTT
Statistics
Matches: 171, Mismatches: 15, Indels: 11
0.87 0.08 0.06
Matches are distributed among these distances:
172 2 0.01
173 5 0.03
174 89 0.52
175 29 0.17
176 30 0.18
177 16 0.09
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.26
Consensus pattern (176 bp):
ATCTCAAGGGAGACAAAATTTTGTTTCAAGGAAAACATATTCAAAGATTGGTATTTCAAGAGAAA
CTGTCTCAAGAGAAACAAAACTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACTTATTTC
AAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCTGAAGAAACA
Found at i:683105 original size:37 final size:37
Alignment explanation
Indices: 682985--683136 Score: 130
Period size: 36 Copynumber: 4.2 Consensus size: 37
682975 ATGGAAATTG
* ** * **
682985 TCTCAAGAGAAACAAAA-TTTGTTTCAAGGGAAACTG
1 TCTCAAGAGAGACAAAACTTTGTTTTGAGAGAAACAA
** ** **
683021 TCTCAAGAGAGACAAAA-TTCATTTCAAGAGAAACTG
1 TCTCAAGAGAGACAAAACTTTGTTTTGAGAGAAACAA
* *
683057 TCTCAGGAGAGACAAAACTTTGTTTTGAGTA-AATCAA
1 TCTCAAGAGAGACAAAACTTTGTTTTGAG-AGAAACAA
**
683094 TCTCAAGAGAGACAACCCTTTGTTTTGAGAGAAACAA
1 TCTCAAGAGAGACAAAACTTTGTTTTGAGAGAAACAA
683131 TCTCAA
1 TCTCAA
683137 AGGCGATCAA
Statistics
Matches: 97, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
36 49 0.51
37 47 0.48
38 1 0.01
ACGTcount: A:0.40, C:0.16, G:0.18, T:0.26
Consensus pattern (37 bp):
TCTCAAGAGAGACAAAACTTTGTTTTGAGAGAAACAA
Found at i:683493 original size:110 final size:110
Alignment explanation
Indices: 683319--683831 Score: 701
Period size: 110 Copynumber: 4.7 Consensus size: 110
683309 TCCTTCGCCA
* * * ** * *
683319 TGAAGTTGAAATTGACTCT--A--AAACTGAAAAGTTATTTATGGACAACCAGCCACCCCTTCGC
1 TGAAGTTGAAATTGACTCTAAATGAAACTGAAAAGTTGTTTGTTGACAGTCAGTCGCCCCTTCGC
* * * * * * *
683380 TGTGAAGTTAAGCTTGTATTGTCTCGAGTCCAATATCCTTTGATG
66 TGTGAAGTTGAGCTTGTGTTGTCTAGAGTCTAATATCATTCGTTG
* * *
683425 TAAAGTTGAAATTGACTCTAAATGAAACTGAAAAGTTGTTTATTGGCAGTCAGTCGCCCCTTCGC
1 TGAAGTTGAAATTGACTCTAAATGAAACTGAAAAGTTGTTTGTTGACAGTCAGTCGCCCCTTCGC
* *
683490 TGTGAAGTTGAGCTTGTGTTGTCTCGAGTCTAATATCATTCGCTG
66 TGTGAAGTTGAGCTTGTGTTGTCTAGAGTCTAATATCATTCGTTG
* * ***
683535 TGAAGTTGAAATTGGCTCTGAATGAAACTGAAAAGTTGTTTGTTGACAGTCAGTCGCCCCTTAAA
1 TGAAGTTGAAATTGACTCTAAATGAAACTGAAAAGTTGTTTGTTGACAGTCAGTCGCCCCTTCGC
*
683600 TGTGAAGTTGAGCTTGTGTTGTCTAGAGTCTAATATCCTTCGTTG
66 TGTGAAGTTGAGCTTGTGTTGTCTAGAGTCTAATATCATTCGTTG
* * * *
683645 TGAAGTTGAAATTGACTCTGAATAAAACTAAAAAATTGTTTGTTGACAGTCAGTCGCCCCTTCGC
1 TGAAGTTGAAATTGACTCTAAATGAAACTGAAAAGTTGTTTGTTGACAGTCAGTCGCCCCTTCGC
683710 TGTGAAGTTGAGCTTGTGTTGTCTAGAGTCTAATATCATTCGTTG
66 TGTGAAGTTGAGCTTGTGTTGTCTAGAGTCTAATATCATTCGTTG
* * * *
683755 TGAAGTTGAAATTGACTCTAAATGAAACTGAAAAGTTGTTTGTTGAAAGTCAGTCACTCATTCGC
1 TGAAGTTGAAATTGACTCTAAATGAAACTGAAAAGTTGTTTGTTGACAGTCAGTCGCCCCTTCGC
683820 TGTGAAGTTGAG
66 TGTGAAGTTGAG
683832 ATTGACTCTA
Statistics
Matches: 362, Mismatches: 41, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
106 18 0.05
108 1 0.00
110 343 0.95
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (110 bp):
TGAAGTTGAAATTGACTCTAAATGAAACTGAAAAGTTGTTTGTTGACAGTCAGTCGCCCCTTCGC
TGTGAAGTTGAGCTTGTGTTGTCTAGAGTCTAATATCATTCGTTG
Found at i:684059 original size:32 final size:32
Alignment explanation
Indices: 684018--684105 Score: 115
Period size: 32 Copynumber: 2.8 Consensus size: 32
684008 TTCGCACTAG
*
684018 GATATTGAAT-TCCCAAAGATGCCCCAATATTC
1 GATATTGAATCT-CCAAAGATGCCCCAACATTC
* *
684050 GATATTGAATCTCAAAAGATGCCCCAACATTT
1 GATATTGAATCTCCAAAGATGCCCCAACATTC
* *
684082 GATGTTGAATCTTCAAAGATGCCC
1 GATATTGAATCTCCAAAGATGCCC
684106 TTTATTGCTT
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
32 48 0.98
33 1 0.02
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.28
Consensus pattern (32 bp):
GATATTGAATCTCCAAAGATGCCCCAACATTC
Found at i:685227 original size:14 final size:13
Alignment explanation
Indices: 685172--685228 Score: 53
Period size: 14 Copynumber: 4.2 Consensus size: 13
685162 TTTTCCTTGG
*
685172 TTTTTGTTTCTCT
1 TTTTTTTTTCTCT
685185 TTTTTATTTTCTCT
1 TTTTT-TTTTCTCT
*
685199 TTGCTTTTTTC-CT
1 TT-TTTTTTTCTCT
*
685212 TTTTTTTCTCTTCT
1 TTTTTTTTTC-TCT
685226 TTT
1 TTT
685229 GTTCTGATTG
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
12 6 0.17
13 9 0.25
14 19 0.53
15 2 0.06
ACGTcount: A:0.02, C:0.18, G:0.04, T:0.77
Consensus pattern (13 bp):
TTTTTTTTTCTCT
Found at i:688288 original size:19 final size:18
Alignment explanation
Indices: 688265--688309 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
688255 AGGTAAGAAA
* *
688265 TAAATAAATAAATAAAAT
1 TAAATAAAGAAAAAAAAT
*
688283 TAAAATGAAGAAAAAAAAT
1 T-AAATAAAGAAAAAAAAT
688302 TAAATAAA
1 TAAATAAA
688310 AGATAAGATA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.22
Consensus pattern (18 bp):
TAAATAAAGAAAAAAAAT
Found at i:688362 original size:11 final size:11
Alignment explanation
Indices: 688262--688389 Score: 52
Period size: 12 Copynumber: 11.2 Consensus size: 11
688252 AAAAGGTAAG
688262 AAATAAATAAA
1 AAATAAATAAA
688273 TAAATAAAATTAAA
1 -AAAT-AAA-TAAA
*
688287 ATGAAGAAA-AAA
1 A--AATAAATAAA
*
688299 AATTAAATAAA
1 AAATAAATAAA
*
688310 AGATAAGATAAA
1 AAATAA-ATAAA
*
688322 GAAA-ACAAAAATA
1 -AAATA-AATAA-A
*
688335 AAAT-AGTAAGTA
1 AAATAAATAA--A
688347 AAATAAATAAA
1 AAATAAATAAA
688358 AAAT--ATAAA
1 AAATAAATAAA
*
688367 AAA-ATATAAA
1 AAATAAATAAA
*
688377 AAATAAAGAAA
1 AAATAAATAAA
688388 AA
1 AA
688390 GAAGGAAAAA
Statistics
Matches: 89, Mismatches: 12, Indels: 31
0.67 0.09 0.23
Matches are distributed among these distances:
9 8 0.09
10 12 0.13
11 22 0.25
12 26 0.29
13 12 0.13
14 7 0.08
15 2 0.02
ACGTcount: A:0.75, C:0.01, G:0.06, T:0.18
Consensus pattern (11 bp):
AAATAAATAAA
Found at i:688368 original size:10 final size:10
Alignment explanation
Indices: 688355--688379 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
688345 TAAAATAAAT
688355 AAAAAATATA
1 AAAAAATATA
688365 AAAAAATATA
1 AAAAAATATA
688375 AAAAA
1 AAAAA
688380 TAAAGAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (10 bp):
AAAAAATATA
Found at i:688388 original size:9 final size:8
Alignment explanation
Indices: 688345--688388 Score: 52
Period size: 9 Copynumber: 5.0 Consensus size: 8
688335 AAATAGTAAG
688345 TAAAATAAA
1 TAAAA-AAA
688354 TAAAAAATA
1 TAAAAAA-A
688363 TAAAAAAA
1 TAAAAAAA
688371 TATAAAAAA
1 TA-AAAAAA
688380 TAAAGAAAA
1 TAAA-AAAA
688389 AGAAGGAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
8 7 0.22
9 25 0.78
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (8 bp):
TAAAAAAA
Found at i:688439 original size:17 final size:18
Alignment explanation
Indices: 688396--688442 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
688386 AAAAGAAGGA
688396 AAAAATATATAAATAAAAC
1 AAAAATA-ATAAATAAAAC
**
688415 AAATAATAATAAA-AAAGT
1 AAA-AATAATAAATAAAAC
688433 AAAAATAATA
1 AAAAATAATA
688443 TATATATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
17 7 0.28
18 6 0.24
19 8 0.32
20 4 0.16
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.21
Consensus pattern (18 bp):
AAAAATAATAAATAAAAC
Found at i:688446 original size:42 final size:40
Alignment explanation
Indices: 688442--688553 Score: 70
Period size: 42 Copynumber: 2.7 Consensus size: 40
688432 TAAAAATAAT
* * *
688442 ATATATATATATAATAAATAAA-AA-CATAAAAATAGTAAAT
1 ATATATATATA-AATAAAAAAATAATAATAAAAA-AGTAAAA
*
688482 ATATATATATAAATTAATAAAACAT-ATAATAAAAAA-TAACAT
1 ATATATATATAAA-TAA-AAAA-ATAATAATAAAAAAGTAA-AA
* * *
688524 ATATATATGTAATCTAAAAAAATAAAAATA
1 ATATATATATAA-ATAAAAAAATAATAATA
688554 TATACCAAAG
Statistics
Matches: 59, Mismatches: 5, Indels: 15
0.75 0.06 0.19
Matches are distributed among these distances:
39 2 0.03
40 16 0.27
41 15 0.25
42 19 0.32
43 7 0.12
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.30
Consensus pattern (40 bp):
ATATATATATAAATAAAAAAATAATAATAAAAAAGTAAAA
Found at i:688449 original size:44 final size:46
Alignment explanation
Indices: 688400--688517 Score: 129
Period size: 44 Copynumber: 2.6 Consensus size: 46
688390 GAAGGAAAAA
688400 ATATATAAATAAAACAAATAATAATAAAAA-AGTAAAAATAATATAT
1 ATATATAAATAAAACAAATAATAATAAAAATAGTAAAAAT-ATATAT
* * *
688446 ATATATATAAT-AAATAAA-AA-CATAAAAATAGTAAATATATATAT
1 ATATATA-AATAAAACAAATAATAATAAAAATAGTAAAAATATATAT
* * *
688490 ATAAATTAATAAAACATATAATAA-AAAA
1 ATATATAAATAAAACAAATAATAATAAAA
688518 TAACATATAT
Statistics
Matches: 59, Mismatches: 8, Indels: 11
0.76 0.10 0.14
Matches are distributed among these distances:
43 3 0.05
44 23 0.39
45 16 0.27
46 14 0.24
47 3 0.05
ACGTcount: A:0.68, C:0.03, G:0.02, T:0.28
Consensus pattern (46 bp):
ATATATAAATAAAACAAATAATAATAAAAATAGTAAAAATATATAT
Found at i:688472 original size:36 final size:35
Alignment explanation
Indices: 688417--688557 Score: 108
Period size: 38 Copynumber: 3.8 Consensus size: 35
688407 AATAAAACAA
688417 ATAAT-AATAAAAAAGTAAAAATAATATATATATAT
1 ATAATAAATAAAAAA-TAAAAATAATATATATATAT
*
688452 ATAATAAATAAAAACATAAAAATAGTAAATATATATAT
1 ATAATAAATAAAAA-ATAAAAATA--ATATATATATAT
* * *
688490 ATAAATTAATAAAACATATAATAAAAAATA-ACATATAT
1 AT-AATAAATAAAA-A-ATAA-AAATAATATATATATAT
* *
688528 ATATGTAATCTAAAAAAATAAAAAT-ATATA
1 ATA-ATAA-AT-AAAAAATAAAAATAATATA
688558 CCAAAGTAAA
Statistics
Matches: 85, Mismatches: 10, Indels: 20
0.74 0.09 0.17
Matches are distributed among these distances:
35 5 0.06
36 19 0.22
37 6 0.07
38 28 0.33
39 14 0.16
40 9 0.11
41 4 0.05
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.30
Consensus pattern (35 bp):
ATAATAAATAAAAAATAAAAATAATATATATATAT
Found at i:688526 original size:38 final size:40
Alignment explanation
Indices: 688434--688553 Score: 104
Period size: 40 Copynumber: 3.0 Consensus size: 40
688424 TAAAAAAGTA
*
688434 AAAATAATATATATATATATAATAAATAAAAACATAAAAAT
1 AAAA-AATACATATATATATAATAAATAAAAACATAAAAAT
** * * *
688475 AGTAAATATATATATATA-AATTAAT-AAAACAT-ATAAT
1 AAAAAATACATATATATATAATAAATAAAAACATAAAAAT
* * *
688512 AAAAAATAACATATATATAT-GTAATCTAAAAAAATAAAAAT
1 AAAAAAT-ACATATATATATAATAA-ATAAAAACATAAAAAT
688553 A
1 A
688554 TATACCAAAG
Statistics
Matches: 62, Mismatches: 12, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
37 9 0.15
38 19 0.31
39 7 0.11
40 20 0.32
41 7 0.11
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.30
Consensus pattern (40 bp):
AAAAAATACATATATATATAATAAATAAAAACATAAAAAT
Found at i:688526 original size:40 final size:39
Alignment explanation
Indices: 688433--688536 Score: 120
Period size: 39 Copynumber: 2.6 Consensus size: 39
688423 ATAAAAAAGT
688433 AAAAATAATATATATATATATAATAAATAAAAACATAAA
1 AAAAATAATATATATATATATAATAAATAAAAACATAAA
* * * *
688472 AATAGTAA-ATATATATATATAAATTAATAAAACATATAATA
1 AAAAATAATATATATATATAT-AATAAATAAAA-ACATAA-A
* *
688513 AAAAATAACATATATATATGTAAT
1 AAAAATAATATATATATATATAAT
688537 CTAAAAAAAT
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
38 12 0.22
39 16 0.30
40 5 0.09
41 10 0.19
42 11 0.20
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.32
Consensus pattern (39 bp):
AAAAATAATATATATATATATAATAAATAAAAACATAAA
Found at i:689139 original size:37 final size:37
Alignment explanation
Indices: 689085--689196 Score: 188
Period size: 37 Copynumber: 3.0 Consensus size: 37
689075 ATGATTGTAG
* *
689085 ATCCTATTTTTATGAGTTTGAATCATAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCATAGTAAAACTCT
*
689122 ATCCTATATTTAGGAGTTTGAATCATAGTAAAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCATAGTAAAACTCT
*
689159 ATCCTATTTTTAGGAGTTTGAATCCTAGTAAAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCATAGTAAAACTCT
689196 A
1 A
689197 ACGTTATTTT
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 70 1.00
ACGTcount: A:0.32, C:0.14, G:0.13, T:0.40
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCATAGTAAAACTCT
Found at i:694358 original size:12 final size:12
Alignment explanation
Indices: 694341--694365 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
694331 ATGATTGTTC
694341 TCCAACGTCATG
1 TCCAACGTCATG
694353 TCCAACGTCATG
1 TCCAACGTCATG
694365 T
1 T
694366 GTATTTACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.32, G:0.16, T:0.28
Consensus pattern (12 bp):
TCCAACGTCATG
Found at i:695198 original size:16 final size:16
Alignment explanation
Indices: 695177--695227 Score: 84
Period size: 16 Copynumber: 3.2 Consensus size: 16
695167 ACAAGCATCA
695177 CAAATTTTATCTTTAT
1 CAAATTTTATCTTTAT
695193 CAAATTTTATCTTTAT
1 CAAATTTTATCTTTAT
* *
695209 CAAATTTTAGCTTTGT
1 CAAATTTTATCTTTAT
695225 CAA
1 CAA
695228 TCCTCTTACT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.31, C:0.14, G:0.04, T:0.51
Consensus pattern (16 bp):
CAAATTTTATCTTTAT
Found at i:700810 original size:19 final size:18
Alignment explanation
Indices: 700782--700818 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
700772 CGTTGGTTGA
700782 CCTAGTGTATCGGTACAC
1 CCTAGTGTATCGGTACAC
700800 CCTAGGTGTATCGGTACAC
1 CCTA-GTGTATCGGTACAC
700819 TAATTATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (18 bp):
CCTAGTGTATCGGTACAC
Found at i:711761 original size:29 final size:30
Alignment explanation
Indices: 711708--711767 Score: 72
Period size: 29 Copynumber: 2.0 Consensus size: 30
711698 ACCTTTCGTT
*
711708 ATATATTTACCTGTCAGACACCCTTT-CAG
1 ATATATTTACCTGTCAGACAACCTTTGCAG
711737 ATATATTT-CCTGATCTA-ACAACCTTTGCAG
1 ATATATTTACCTG-TC-AGACAACCTTTGCAG
711767 A
1 A
711768 AAGGCGCAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
28 4 0.15
29 18 0.67
30 5 0.19
ACGTcount: A:0.30, C:0.25, G:0.10, T:0.35
Consensus pattern (30 bp):
ATATATTTACCTGTCAGACAACCTTTGCAG
Found at i:715319 original size:24 final size:24
Alignment explanation
Indices: 715292--715339 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
715282 AAGTCTACAC
715292 AATTATCCACTGAAGTACCTGAAT
1 AATTATCCACTGAAGTACCTGAAT
715316 AATTATCCACTGAAGTACCTGAAT
1 AATTATCCACTGAAGTACCTGAAT
715340 TTTTAGCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.21, G:0.12, T:0.29
Consensus pattern (24 bp):
AATTATCCACTGAAGTACCTGAAT
Found at i:718421 original size:29 final size:30
Alignment explanation
Indices: 718360--718421 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
718350 GAACCTTTCA
* * *
718360 AAATTTTTGAAAATTTTAATTTAAATCTCT
1 AAATTTTTGAAAATTTTAAGTTAAACCCCT
*
718390 AAATTTTTTAAAATTTTAAGTT-AACCCCT
1 AAATTTTTGAAAATTTTAAGTTAAACCCCT
718419 AAA
1 AAA
718422 CTCTATCACC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 8 0.29
30 20 0.71
ACGTcount: A:0.42, C:0.10, G:0.03, T:0.45
Consensus pattern (30 bp):
AAATTTTTGAAAATTTTAAGTTAAACCCCT
Found at i:718661 original size:15 final size:15
Alignment explanation
Indices: 718641--718670 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
718631 ATTAAATCAT
718641 TTATAAAATATTAAA
1 TTATAAAATATTAAA
*
718656 TTATAAAGTATTAAA
1 TTATAAAATATTAAA
718671 CATATAATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (15 bp):
TTATAAAATATTAAA
Found at i:722258 original size:17 final size:18
Alignment explanation
Indices: 722238--722280 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
722228 TATGTTTAAG
722238 TTTATTTTA-TGTTGTTT
1 TTTATTTTACTGTTGTTT
*
722255 TTTATTTTACTGTTTTTT
1 TTTATTTTACTGTTGTTT
722273 TCTTATTT
1 T-TTATTT
722281 GATATTTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 9 0.39
18 8 0.35
19 6 0.26
ACGTcount: A:0.12, C:0.05, G:0.07, T:0.77
Consensus pattern (18 bp):
TTTATTTTACTGTTGTTT
Found at i:727488 original size:25 final size:25
Alignment explanation
Indices: 727459--727515 Score: 105
Period size: 25 Copynumber: 2.3 Consensus size: 25
727449 GGTATAATCA
*
727459 AAATTGTGTAGCGAAGCAATCTGTC
1 AAATTGTGTAGCGAAACAATCTGTC
727484 AAATTGTGTAGCGAAACAATCTGTC
1 AAATTGTGTAGCGAAACAATCTGTC
727509 AAATTGT
1 AAATTGT
727516 TTGCTTCGCT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.35, C:0.14, G:0.21, T:0.30
Consensus pattern (25 bp):
AAATTGTGTAGCGAAACAATCTGTC
Found at i:730433 original size:31 final size:31
Alignment explanation
Indices: 730383--730457 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 31
730373 ATTTTTATGA
* * *
730383 TATATCATCATCTAATTTATTAATTGTATAAAT
1 TATA-CATCAT-TAATTTATGAAATATATAAAT
730416 TATACATCATTAATTTATGAAATATATAAAT
1 TATACATCATTAATTTATGAAATATATAAAT
*
730447 TAAACATCATT
1 TATACATCATT
730458 TAACGTGTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
31 28 0.74
32 6 0.16
33 4 0.11
ACGTcount: A:0.44, C:0.09, G:0.03, T:0.44
Consensus pattern (31 bp):
TATACATCATTAATTTATGAAATATATAAAT
Found at i:733092 original size:37 final size:36
Alignment explanation
Indices: 733051--733127 Score: 86
Period size: 37 Copynumber: 2.1 Consensus size: 36
733041 AATTAAAAAG
733051 AAAAA-GA-AAAGTATATAAAATCCTAAAATTTATTTAA
1 AAAAATGATAAAGTATA-AAAATCCT-AAATTT-TTTAA
* * *
733088 AAAAATTATAAAGTATAAAAATTCTAAATTTTTTAG
1 AAAAATGATAAAGTATAAAAATCCTAAATTTTTTAA
733124 AAAA
1 AAAA
733128 GGTATTTATA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
36 8 0.23
37 11 0.31
38 8 0.23
39 8 0.23
ACGTcount: A:0.58, C:0.04, G:0.05, T:0.32
Consensus pattern (36 bp):
AAAAATGATAAAGTATAAAAATCCTAAATTTTTTAA
Found at i:735421 original size:25 final size:25
Alignment explanation
Indices: 735393--735447 Score: 92
Period size: 25 Copynumber: 2.2 Consensus size: 25
735383 AACGACCCGG
*
735393 CCATCCGTTTTCGACACCTCCCGCA
1 CCATCCATTTTCGACACCTCCCGCA
*
735418 CCATCCATTTTCTACACCTCCCGCA
1 CCATCCATTTTCGACACCTCCCGCA
735443 CCATC
1 CCATC
735448 GTGTTCCTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.18, C:0.49, G:0.07, T:0.25
Consensus pattern (25 bp):
CCATCCATTTTCGACACCTCCCGCA
Found at i:735843 original size:17 final size:18
Alignment explanation
Indices: 735821--735861 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
735811 GTGTAAAACT
735821 GTTGACCATTGACCG-CC
1 GTTGACCATTGACCGACC
* *
735838 GTTGACCGTTGACTGACC
1 GTTGACCATTGACCGACC
735856 GTTGAC
1 GTTGAC
735862 TGTTGACTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 13 0.62
18 8 0.38
ACGTcount: A:0.17, C:0.29, G:0.27, T:0.27
Consensus pattern (18 bp):
GTTGACCATTGACCGACC
Found at i:735859 original size:18 final size:17
Alignment explanation
Indices: 735821--735869 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 17
735811 GTGTAAAACT
* *
735821 GTTGACCATTGACCGCC
1 GTTGACCGTTGACTGCC
735838 GTTGACCGTTGACTGACC
1 GTTGACCGTTGACTG-CC
*
735856 GTTGACTGTTGACT
1 GTTGACCGTTGACT
735870 TTGATCGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
17 13 0.46
18 15 0.54
ACGTcount: A:0.16, C:0.27, G:0.27, T:0.31
Consensus pattern (17 bp):
GTTGACCGTTGACTGCC
Found at i:738764 original size:30 final size:30
Alignment explanation
Indices: 738728--738789 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
738718 TAATCCTTAC
738728 AGTTTCCCCCAGGTCCCTTTGCTGTGTGCA
1 AGTTTCCCCCAGGTCCCTTTGCTGTGTGCA
738758 AGTTTCCCCCAGGTCCCTTTGCTGTGTGCA
1 AGTTTCCCCCAGGTCCCTTTGCTGTGTGCA
738788 AG
1 AG
738790 GGTAAGCCTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.11, C:0.32, G:0.24, T:0.32
Consensus pattern (30 bp):
AGTTTCCCCCAGGTCCCTTTGCTGTGTGCA
Found at i:738814 original size:74 final size:77
Alignment explanation
Indices: 738693--738922 Score: 259
Period size: 74 Copynumber: 2.9 Consensus size: 77
738683 ACCGTTACAG
* * *
738693 CAGGTTCCTTTGCTGTGTGCAAAGGTAATCCTTACAGTTTCCCCCAGGTCCCTTTGCTGTGTGCA
1 CAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCCCAGGTCCCTTTGCTGTGTGCA
738758 AG-TTT-C-CCC
66 AGCTTTACTCCC
* *
738767 CAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCCCAGGTCCCTTTGTTGTGTACA
1 CAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCCCAGGTCCCTTTGCTGTGTGC-
738832 AGGGTATGCTTTACAGTTTCCCC
65 A----A-GCTTTAC----T-CCC
* * *
738855 CAGGTCCCTTTTGTTTTGTGCAAGGGTAAGCCTTACAGTTTCCCCCAAGTCCCTTTGCTGTGTGC
1 CAGGTCCC-TTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCCCAGGTCCCTTTGCTGTGTGC
738920 AAG
65 AAG
738923 GGTAAGCCTT
Statistics
Matches: 131, Mismatches: 10, Indels: 21
0.81 0.06 0.13
Matches are distributed among these distances:
74 59 0.45
75 1 0.01
79 1 0.01
80 1 0.01
81 3 0.02
82 1 0.01
83 1 0.01
84 1 0.01
88 12 0.09
89 51 0.39
ACGTcount: A:0.16, C:0.28, G:0.23, T:0.33
Consensus pattern (77 bp):
CAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCCCAGGTCCCTTTGCTGTGTGCA
AGCTTTACTCCC
Found at i:738821 original size:44 final size:44
Alignment explanation
Indices: 738758--739064 Score: 399
Period size: 44 Copynumber: 7.0 Consensus size: 44
738748 GCTGTGTGCA
738758 AGTTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTAC
1 AGTTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTAC
* * * *
738802 AGTTTCCCCCAGGTCCCTTTGTTGTGTACAAGGGTATGCTTTAC
1 AGTTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTAC
* *
738846 AGTTTCCCCCAGGTCCCTTTTGTTTTGTGCAAGGGTAAGCCTTAC
1 AGTTTCCCCCAGGTCCC-TTTGCTGTGTGCAAGGGTAAGCCTTAC
*
738891 AGTTTCCCCCAAGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTAC
1 AGTTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTAC
** *
738935 AG-TTCCCCTCAGGTCTATTTGCTGTGTACAAGGGTAAGCCTTAC
1 AGTTTCCCC-CAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTAC
* *
738979 AGTTT-CCCTACGTTCCC-TTGCTGTGTGCAAGGGTAAGCCTTAC
1 AGTTTCCCCCA-GGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTAC
* * *
739022 AGTTT-CCCCAGG-CTCTTTTGCTATGTGCAAGGATAAGACCTTA
1 AGTTTCCCCCAGGTC-CCTTTGCTGTGTGCAAGGGTAAG-CCTTA
739065 TCGTTTTTGC
Statistics
Matches: 231, Mismatches: 25, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
41 1 0.00
42 2 0.01
43 59 0.26
44 128 0.55
45 41 0.18
ACGTcount: A:0.18, C:0.27, G:0.23, T:0.33
Consensus pattern (44 bp):
AGTTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTAC
Found at i:738908 original size:89 final size:89
Alignment explanation
Indices: 738758--739064 Score: 405
Period size: 89 Copynumber: 3.5 Consensus size: 89
738748 GCTGTGTGCA
*
738758 AGTTTCCCCCAGGTCCC-TTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCCCAGGTCCCTTT
1 AGTTTCCCCCAGGTCCCTTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCCCAAGTCCCTTT
* * * *
738822 GTTGTGTACAAGGGTATGCTTTAC
66 GCTGTGTGCAAGGGTAAGCCTTAC
* *
738846 AGTTTCCCCCAGGTCCCTTTTGTTTTGTGCAAGGGTAAGCCTTACAGTTTCCCCCAAGTCCCTTT
1 AGTTTCCCCCAGGTCCCTTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCCCAAGTCCCTTT
738911 GCTGTGTGCAAGGGTAAGCCTTAC
66 GCTGTGTGCAAGGGTAAGCCTTAC
* * *
738935 AG-TTCCCCTCAGGT--CTATTTGCTGTGTACAAGGGTAAGCCTTACAGTTT-CCCTACGTTCCC
1 AGTTTCCCC-CAGGTCCCT-TTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCCCAAG-TCCC
738996 -TTGCTGTGTGCAAGGGTAAGCCTTAC
63 TTTGCTGTGTGCAAGGGTAAGCCTTAC
* * *
739022 AGTTT-CCCCAGG-CTCTTTTGCTATGTGCAAGGATAAGACCTTA
1 AGTTTCCCCCAGGTCCCTTTTGCTGTGTGCAAGGGTAAG-CCTTA
739065 TCGTTTTTGC
Statistics
Matches: 196, Mismatches: 15, Indels: 17
0.86 0.07 0.07
Matches are distributed among these distances:
86 22 0.11
87 45 0.23
88 58 0.30
89 71 0.36
ACGTcount: A:0.18, C:0.27, G:0.23, T:0.33
Consensus pattern (89 bp):
AGTTTCCCCCAGGTCCCTTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCCCAAGTCCCTTT
GCTGTGTGCAAGGGTAAGCCTTAC
Found at i:738996 original size:133 final size:131
Alignment explanation
Indices: 738758--739064 Score: 406
Period size: 133 Copynumber: 2.3 Consensus size: 131
738748 GCTGTGTGCA
* *
738758 AGTTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCCCAGGTCCCTTTG
1 AGTTTCCCCCAAGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCCCAGGTCCATTTG
* * * * * *
738823 TTGTGTACAAGGGTATGCTTTACAGTTTCCCCCAGGTCCCTTTTGTTTTGTGCAAGGGTAAGCCT
66 CTGTGTACAAGGGTAAGCCTTACAGTTTCCCACAGGTCCC--TTGCTGTGTGCAAGGGTAAGCCT
738888 TAC
129 TAC
*
738891 AGTTTCCCCCAAGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAG-TTCCCCTCAGGTCTATTT
1 AGTTTCCCCCAAGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCC-CAGGTCCATTT
*
738955 GCTGTGTACAAGGGTAAGCCTTACAGTTTCCCTAC-GTTCCCTTGCTGTGTGCAAGGGTAAGCCT
65 GCTGTGTACAAGGGTAAGCCTTACAGTTTCCC-ACAGGTCCCTTGCTGTGTGCAAGGGTAAGCCT
739019 TAC
129 TAC
* * * *
739022 AGTTT-CCCC-AGGCTCTTTTGCTATGTGCAAGGATAAGACCTTA
1 AGTTTCCCCCAAGTC-CCTTTGCTGTGTGCAAGGGTAAG-CCTTA
739065 TCGTTTTTGC
Statistics
Matches: 156, Mismatches: 14, Indels: 10
0.87 0.08 0.06
Matches are distributed among these distances:
129 3 0.02
130 24 0.15
131 34 0.22
132 6 0.04
133 88 0.56
134 1 0.01
ACGTcount: A:0.18, C:0.27, G:0.23, T:0.33
Consensus pattern (131 bp):
AGTTTCCCCCAAGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCCCAGGTCCATTTG
CTGTGTACAAGGGTAAGCCTTACAGTTTCCCACAGGTCCCTTGCTGTGTGCAAGGGTAAGCCTTA
C
Found at i:739912 original size:13 final size:13
Alignment explanation
Indices: 739894--739921 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
739884 TTTTTAGATC
739894 TCCAATGCTGAGT
1 TCCAATGCTGAGT
739907 TCCAATGCTGAGT
1 TCCAATGCTGAGT
739920 TC
1 TC
739922 ATCACCATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.32
Consensus pattern (13 bp):
TCCAATGCTGAGT
Found at i:742454 original size:22 final size:22
Alignment explanation
Indices: 742429--742479 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
742419 TTTATTATTC
742429 GTTGAATTTTATATCAAACTAT
1 GTTGAATTTTATATCAAACTAT
*
742451 GTTGAATTTTGTATCAAACTAT
1 GTTGAATTTTATATCAAACTAT
*
742473 TTTGAAT
1 GTTGAAT
742480 GTGATAGTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.33, C:0.08, G:0.12, T:0.47
Consensus pattern (22 bp):
GTTGAATTTTATATCAAACTAT
Found at i:744749 original size:20 final size:21
Alignment explanation
Indices: 744719--744796 Score: 79
Period size: 20 Copynumber: 3.8 Consensus size: 21
744709 AAATGACCAA
*
744719 CAAAATCGCAACGCGAACTT-
1 CAAATTCGCAACGCGAACTTC
* * **
744739 CAATTTCGCAACAC-AGGTTC
1 CAAATTCGCAACGCGAACTTC
**
744759 CAAATTCGCAACGCGATTTTC
1 CAAATTCGCAACGCGAACTTC
744780 CAAATTCGCAACGCGAA
1 CAAATTCGCAACGCGAA
744797 TAGGTAAATC
Statistics
Matches: 46, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
19 3 0.07
20 23 0.50
21 20 0.43
ACGTcount: A:0.35, C:0.29, G:0.15, T:0.21
Consensus pattern (21 bp):
CAAATTCGCAACGCGAACTTC
Found at i:744780 original size:21 final size:21
Alignment explanation
Indices: 744756--744795 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
744746 GCAACACAGG
744756 TTCCAAATTCGCAACGCGATT
1 TTCCAAATTCGCAACGCGATT
744777 TTCCAAATTCGCAACGCGA
1 TTCCAAATTCGCAACGCGA
744796 ATAGGTAAAT
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:0.30, C:0.30, G:0.15, T:0.25
Consensus pattern (21 bp):
TTCCAAATTCGCAACGCGATT
Found at i:744832 original size:40 final size:41
Alignment explanation
Indices: 744780--744878 Score: 130
Period size: 40 Copynumber: 2.5 Consensus size: 41
744770 CGCGATTTTC
*
744780 CAAATTCGCAACGCGAATAGGTAAATCGCAACGCGAAAAT-
1 CAAATTCGCAACGCGAATAGGTAAATCGCAACGAGAAAATG
* * * *
744820 CAAATTCGCAACGCAAATAGGTAAATCGTAACGATAATATG
1 CAAATTCGCAACGCGAATAGGTAAATCGCAACGAGAAAATG
*
744861 TAAA-TCGCAACGCGAATA
1 CAAATTCGCAACGCGAATA
744879 TTATTTTCGA
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
40 48 0.94
41 3 0.06
ACGTcount: A:0.43, C:0.20, G:0.18, T:0.18
Consensus pattern (41 bp):
CAAATTCGCAACGCGAATAGGTAAATCGCAACGAGAAAATG
Found at i:744879 original size:20 final size:20
Alignment explanation
Indices: 744785--744879 Score: 102
Period size: 20 Copynumber: 4.8 Consensus size: 20
744775 TTTTCCAAAT
*
744785 TCGCAACGCGAATAGGTAAA
1 TCGCAACGCGAATATGTAAA
* *
744805 TCGCAACGCGAAAAT-CAAA
1 TCGCAACGCGAATATGTAAA
* *
744824 TTCGCAACGCAAATAGGTAAA
1 -TCGCAACGCGAATATGTAAA
* **
744845 TCGTAACGATAATATGTAAA
1 TCGCAACGCGAATATGTAAA
744865 TCGCAACGCGAATAT
1 TCGCAACGCGAATAT
744880 TATTTTCGAA
Statistics
Matches: 59, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
19 3 0.05
20 53 0.90
21 3 0.05
ACGTcount: A:0.42, C:0.20, G:0.19, T:0.19
Consensus pattern (20 bp):
TCGCAACGCGAATATGTAAA
Found at i:745024 original size:22 final size:22
Alignment explanation
Indices: 744999--745049 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
744989 TCACTCTCTA
* *
744999 CGGCGACATCCGTCCCCATCTC
1 CGGCGACATCCGTCCACATATC
*
745021 CGGCGAAATCCGTCCACATATC
1 CGGCGACATCCGTCCACATATC
745043 CGGCGAC
1 CGGCGAC
745050 CCCCTCTATC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.20, C:0.43, G:0.22, T:0.16
Consensus pattern (22 bp):
CGGCGACATCCGTCCACATATC
Found at i:745475 original size:20 final size:18
Alignment explanation
Indices: 745430--745478 Score: 62
Period size: 20 Copynumber: 2.6 Consensus size: 18
745420 GAAATTTGCA
*
745430 ATGCGATTTTCATTTCGC
1 ATGCGATTTTCATTTAGC
745448 ATTGCGATTTTCATTTTAGC
1 A-TGCGATTTTCA-TTTAGC
745468 GATGCGATTTT
1 -ATGCGATTTT
745479 AAGTTTCAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
18 1 0.04
19 11 0.41
20 14 0.52
21 1 0.04
ACGTcount: A:0.18, C:0.16, G:0.18, T:0.47
Consensus pattern (18 bp):
ATGCGATTTTCATTTAGC
Found at i:747606 original size:21 final size:21
Alignment explanation
Indices: 747580--747675 Score: 95
Period size: 21 Copynumber: 4.6 Consensus size: 21
747570 TTCACCTGTC
*
747580 ATCGTTCAAGAGGCCTCTCCT
1 ATCGTTCAAGAGGCCCCTCCT
* *
747601 ATCGTTAAAGAGGCCCCTCCC
1 ATCGTTCAAGAGGCCCCTCCT
* *
747622 ACCGTTCAAGAGGCCCCT-GT
1 ATCGTTCAAGAGGCCCCTCCT
* * *
747642 CATCGTTCAAGAGGTCCATCCC
1 -ATCGTTCAAGAGGCCCCTCCT
*
747664 ACCGTTCAAGAG
1 ATCGTTCAAGAG
747676 CTCGATTCAC
Statistics
Matches: 60, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
21 60 1.00
ACGTcount: A:0.23, C:0.34, G:0.21, T:0.22
Consensus pattern (21 bp):
ATCGTTCAAGAGGCCCCTCCT
Found at i:747629 original size:42 final size:42
Alignment explanation
Indices: 747582--747675 Score: 127
Period size: 42 Copynumber: 2.2 Consensus size: 42
747572 CACCTGTCAT
* *
747582 CGTTCAAGAGGCCTCTC-CTATCGTTAAAGAGGCCCCTCCCAC
1 CGTTCAAGAGGCCCCTCTC-ATCGTTAAAGAGGCCCATCCCAC
* * *
747624 CGTTCAAGAGGCCCCTGTCATCGTTCAAGAGGTCCATCCCAC
1 CGTTCAAGAGGCCCCTCTCATCGTTAAAGAGGCCCATCCCAC
747666 CGTTCAAGAG
1 CGTTCAAGAG
747676 CTCGATTCAC
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
42 45 0.98
43 1 0.02
ACGTcount: A:0.22, C:0.35, G:0.21, T:0.21
Consensus pattern (42 bp):
CGTTCAAGAGGCCCCTCTCATCGTTAAAGAGGCCCATCCCAC
Found at i:749064 original size:27 final size:27
Alignment explanation
Indices: 749026--749133 Score: 90
Period size: 27 Copynumber: 3.7 Consensus size: 27
749016 CTTTTTTTGC
749026 TTGTTTAATTGATTTGTAAAAGTTGAT
1 TTGTTTAATTGATTTGTAAAAGTTGAT
** * **
749053 TTGTTTAATTGATGAGGAAATAAGATTTTTTTT
1 TTGTTTAATTGAT-TTGTAA-AAG----TTGAT
749086 GCTTGTTTAATTGATTTGTAAAAGTTGAT
1 --TTGTTTAATTGATTTGTAAAAGTTGAT
*
749115 TTGTTTAATTGATGTGTAA
1 TTGTTTAATTGATTTGTAA
749134 CTAATTCTTA
Statistics
Matches: 62, Mismatches: 11, Indels: 16
0.70 0.12 0.18
Matches are distributed among these distances:
27 31 0.50
28 3 0.05
29 6 0.10
33 6 0.10
34 3 0.05
35 13 0.21
ACGTcount: A:0.29, C:0.01, G:0.19, T:0.51
Consensus pattern (27 bp):
TTGTTTAATTGATTTGTAAAAGTTGAT
Found at i:749086 original size:62 final size:64
Alignment explanation
Indices: 749017--749183 Score: 266
Period size: 62 Copynumber: 2.6 Consensus size: 64
749007 TGGGGTACAC
*
749017 TTTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAA-GAT-
1 TTTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAATCATA
* * * *
749079 TTTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTTTAATTGATGTGTAACTAATTCTTA
1 TTTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAA-TCATA
749144 TTTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGT
1 TTTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGT
749184 GTAACACCCC
Statistics
Matches: 97, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
62 56 0.58
64 1 0.01
65 40 0.41
ACGTcount: A:0.25, C:0.03, G:0.17, T:0.54
Consensus pattern (64 bp):
TTTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAATCATA
Found at i:749972 original size:18 final size:18
Alignment explanation
Indices: 749949--749995 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
749939 GACCGGTCAC
*
749949 AACCCGACCCGACCTGTT
1 AACCCGACCCGACCCGTT
749967 AACCCGACCCGACCCGTT
1 AACCCGACCCGACCCGTT
* *
749985 GACTCGACCCG
1 AACCCGACCCG
749996 TTGACCCGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.21, C:0.47, G:0.19, T:0.13
Consensus pattern (18 bp):
AACCCGACCCGACCCGTT
Found at i:749992 original size:13 final size:13
Alignment explanation
Indices: 749976--750000 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
749966 TAACCCGACC
749976 CGACCCGTTGACT
1 CGACCCGTTGACT
749989 CGACCCGTTGAC
1 CGACCCGTTGAC
750001 CCGTTGACCG
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:751342 original size:18 final size:18
Alignment explanation
Indices: 751316--751351 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
751306 TCGAAAGGAC
*
751316 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
751334 TGAATTAAATAATAAGAT
1 TGAAGTAAATAATAAGAT
751352 CGGATGGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:752533 original size:24 final size:24
Alignment explanation
Indices: 752503--752575 Score: 92
Period size: 24 Copynumber: 3.0 Consensus size: 24
752493 ATACATTACC
*
752503 TGAATTATGTTCTGATTTCTGATC
1 TGAATTATGTTCTGATTTCTGATA
* *
752527 TGGATTATGTTCTGATATCTGATA
1 TGAATTATGTTCTGATTTCTGATA
* * *
752551 TGAATTCTGTTTTGATTTCTAATA
1 TGAATTATGTTCTGATTTCTGATA
752575 T
1 T
752576 CTCTGTTTAC
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.23, C:0.10, G:0.16, T:0.51
Consensus pattern (24 bp):
TGAATTATGTTCTGATTTCTGATA
Found at i:754641 original size:18 final size:18
Alignment explanation
Indices: 754618--754676 Score: 100
Period size: 18 Copynumber: 3.3 Consensus size: 18
754608 ACCGGTCACA
754618 ACCCGACCCGTTGACCCG
1 ACCCGACCCGTTGACCCG
*
754636 ACCCGACCCGTTAACCCG
1 ACCCGACCCGTTGACCCG
*
754654 ACCCGACCCGTTGACTCG
1 ACCCGACCCGTTGACCCG
754672 ACCCG
1 ACCCG
754677 TTGAACCGTT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 38 1.00
ACGTcount: A:0.19, C:0.49, G:0.20, T:0.12
Consensus pattern (18 bp):
ACCCGACCCGTTGACCCG
Found at i:756024 original size:18 final size:18
Alignment explanation
Indices: 755998--756033 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
755988 TCGAAAGGAC
*
755998 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
756016 TGAATTAAATAATAAGAT
1 TGAAGTAAATAATAAGAT
756034 CGGATGGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:757221 original size:24 final size:24
Alignment explanation
Indices: 757191--757263 Score: 101
Period size: 24 Copynumber: 3.0 Consensus size: 24
757181 ATACATTACC
*
757191 TGAATTATGTTCTGATTTCTGATC
1 TGAATTATGTTCTGATTTCTGATA
* *
757215 TGGATTATGTTCTGATATCTGATA
1 TGAATTATGTTCTGATTTCTGATA
* *
757239 TGAATTCTGTTTTGATTTCTGATA
1 TGAATTATGTTCTGATTTCTGATA
757263 T
1 T
757264 CTCCGTTTAC
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.22, C:0.10, G:0.18, T:0.51
Consensus pattern (24 bp):
TGAATTATGTTCTGATTTCTGATA
Found at i:758305 original size:20 final size:20
Alignment explanation
Indices: 758280--758344 Score: 85
Period size: 20 Copynumber: 3.2 Consensus size: 20
758270 AGGTACACTT
758280 TCGCAACGCGAAAGTCAAAA
1 TCGCAACGCGAAAGTCAAAA
** *
758300 TCGCAACATGAAAGTTAAAA
1 TCGCAACGCGAAAGTCAAAA
* *
758320 TCGCAACGCAAAAGTCAAAT
1 TCGCAACGCGAAAGTCAAAA
758340 TCGCA
1 TCGCA
758345 TTGCGATTTT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.45, C:0.23, G:0.17, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGAAAGTCAAAA
Found at i:758402 original size:20 final size:20
Alignment explanation
Indices: 758379--758430 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
758369 GAAAGTCAAA
*
758379 TTCGCATTGCGATTTTAATT
1 TTCGCATTGCGATTTTAACT
*
758399 TTCGCATTGCGATTTTGACT
1 TTCGCATTGCGATTTTAACT
*
758419 TTCGCGTTGCGA
1 TTCGCATTGCGA
758431 AAGTGTACCT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.15, C:0.19, G:0.21, T:0.44
Consensus pattern (20 bp):
TTCGCATTGCGATTTTAACT
Found at i:760844 original size:3 final size:3
Alignment explanation
Indices: 760836--760865 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
760826 TCTCCGGGGA
760836 CTT CTT CTT CTT -TT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
760866 AGGTTATATG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:761040 original size:24 final size:24
Alignment explanation
Indices: 760989--761040 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
760979 ATCCGAGTAT
** *
760989 TGACCAAGATCAAAGTCTGGGTAT
1 TGACCAAGATCAAAGTCTGAATAC
* *
761013 TGACCAAGATCAAATTTTGAATAC
1 TGACCAAGATCAAAGTCTGAATAC
761037 TGAC
1 TGAC
761041 TAGTACTCAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.27
Consensus pattern (24 bp):
TGACCAAGATCAAAGTCTGAATAC
Found at i:761799 original size:16 final size:15
Alignment explanation
Indices: 761777--761815 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
761767 AAAATCATTG
761777 AAAAATTATATAGAAA
1 AAAAATTATATA-AAA
* *
761793 TAAAATTATGTAAAA
1 AAAAATTATATAAAA
761808 AAAAATTA
1 AAAAATTA
761816 GAGATGGGGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (15 bp):
AAAAATTATATAAAA
Found at i:761981 original size:20 final size:20
Alignment explanation
Indices: 761956--762046 Score: 80
Period size: 20 Copynumber: 4.5 Consensus size: 20
761946 CAAAACATTT
761956 GTGTTGCGAAATTAAAATTC
1 GTGTTGCGAAATTAAAATTC
761976 GTGTTGCG-AATTCGAAAA-TC
1 GTGTTGCGAAATT--AAAATTC
* *
761996 GAGTTGCGAAATCAAAATTC
1 GTGTTGCGAAATTAAAATTC
* * *
762016 CTGTTGCG-ATTTAGAAAATC
1 GTGTTGCGAAATTA-AAATTC
*
762036 TTGTTGCGAAA
1 GTGTTGCGAAA
762047 AGGAAACATG
Statistics
Matches: 56, Mismatches: 9, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
19 11 0.20
20 37 0.66
21 8 0.14
ACGTcount: A:0.33, C:0.13, G:0.22, T:0.32
Consensus pattern (20 bp):
GTGTTGCGAAATTAAAATTC
Found at i:762002 original size:40 final size:40
Alignment explanation
Indices: 761958--762046 Score: 124
Period size: 40 Copynumber: 2.2 Consensus size: 40
761948 AAACATTTGT
* * *
761958 GTTGCGAAATTAAAATTCGTGTTGCGAATTCGAAAATCGA
1 GTTGCGAAATCAAAATTCCTGTTGCGAATTAGAAAATCGA
* **
761998 GTTGCGAAATCAAAATTCCTGTTGCGATTTAGAAAATCTT
1 GTTGCGAAATCAAAATTCCTGTTGCGAATTAGAAAATCGA
762038 GTTGCGAAA
1 GTTGCGAAA
762047 AGGAAACATG
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.31
Consensus pattern (40 bp):
GTTGCGAAATCAAAATTCCTGTTGCGAATTAGAAAATCGA
Found at i:762143 original size:21 final size:20
Alignment explanation
Indices: 762073--762210 Score: 119
Period size: 20 Copynumber: 6.8 Consensus size: 20
762063 GAAAAATAAA
762073 TTCGCGTTGCG-ATTT-ACCT
1 TTCGCGTTGCGAATTTGA-CT
762092 ATTCGCGTTGCGAATTTGACT
1 -TTCGCGTTGCGAATTTGACT
762113 TTCGCGTTGCGAATTTGACT
1 TTCGCGTTGCGAATTTGACT
*
762133 TTCATCGTTGCG-ATTT-ACAT
1 TTC-GCGTTGCGAATTTGAC-T
*
762153 ATTCGCGTTGCGATTTTGGAAC-
1 -TTCGCGTTGCGAATTT-G-ACT
* *
762175 TT-GTGTTGCGAAATTGGAC-
1 TTCGCGTTGCG-AATTTGACT
762194 TTCGCGTTGCGAATTTG
1 TTCGCGTTGCGAATTTG
762211 TTGGTCATTT
Statistics
Matches: 99, Mismatches: 8, Indels: 23
0.76 0.06 0.18
Matches are distributed among these distances:
19 11 0.11
20 61 0.62
21 24 0.24
22 1 0.01
24 2 0.02
ACGTcount: A:0.17, C:0.19, G:0.25, T:0.40
Consensus pattern (20 bp):
TTCGCGTTGCGAATTTGACT
Found at i:762183 original size:61 final size:62
Alignment explanation
Indices: 762077--762195 Score: 163
Period size: 61 Copynumber: 1.9 Consensus size: 62
762067 AATAAATTCG
* *
762077 CGTTGCGATTTACCTATTCGCGTTGCGAATTTGACTTTCGCGTTGCG-AATTTGACTTTCAT
1 CGTTGCGATTTACATATTCGCGTTGCGAATTTGACTTTCGCGTTGCGAAATTGGACTTTCAT
* *
762138 CGTTGCGATTTACATATTCGCGTTGCGATTTTGGAAC-TT-GTGTTGCGAAATTGGACTT
1 CGTTGCGATTTACATATTCGCGTTGCGAATTT-G-ACTTTCGCGTTGCGAAATTGGACTT
762196 CGCGTTGCGA
Statistics
Matches: 51, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
61 37 0.73
62 12 0.24
63 2 0.04
ACGTcount: A:0.18, C:0.18, G:0.24, T:0.40
Consensus pattern (62 bp):
CGTTGCGATTTACATATTCGCGTTGCGAATTTGACTTTCGCGTTGCGAAATTGGACTTTCAT
Found at i:762682 original size:15 final size:15
Alignment explanation
Indices: 762662--762718 Score: 69
Period size: 15 Copynumber: 3.7 Consensus size: 15
762652 CCGGATGTTA
762662 CGGGTACCCGGTAAT
1 CGGGTACCCGGTAAT
* **
762677 CGGGTACCCAGATTTT
1 CGGGTACCC-GGTAAT
762693 GCGGGTACCCGGTAAT
1 -CGGGTACCCGGTAAT
762709 CGGGTACCCG
1 CGGGTACCCG
762719 ATACCCGGTT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
15 19 0.56
16 6 0.18
17 9 0.26
ACGTcount: A:0.18, C:0.28, G:0.33, T:0.21
Consensus pattern (15 bp):
CGGGTACCCGGTAAT
Found at i:765406 original size:29 final size:29
Alignment explanation
Indices: 765374--765432 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
765364 CCTAAATTAA
*
765374 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCATACATCAATTTAGT
765403 TTTGATGTCATTGCATACATCAATTTAGT
1 TTTGATGTCATTGCATACATCAATTTAGT
765432 T
1 T
765433 AGGTGAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.25, C:0.14, G:0.14, T:0.47
Consensus pattern (29 bp):
TTTGATGTCATTGCATACATCAATTTAGT
Found at i:770118 original size:29 final size:28
Alignment explanation
Indices: 770048--770134 Score: 156
Period size: 28 Copynumber: 3.1 Consensus size: 28
770038 CCTATATTAA
770048 TTTGATGTCATTGCTTACATCAATTTAG
1 TTTGATGTCATTGCTTACATCAATTTAG
*
770076 TTTGATGTCATTGCTTACATCAATTTTG
1 TTTGATGTCATTGCTTACATCAATTTAG
770104 TTTTGATGTCATTGCTTACATCAATTTAG
1 -TTTGATGTCATTGCTTACATCAATTTAG
770133 TT
1 TT
770135 AGGTGAAAAA
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
28 29 0.52
29 27 0.48
ACGTcount: A:0.23, C:0.14, G:0.14, T:0.49
Consensus pattern (28 bp):
TTTGATGTCATTGCTTACATCAATTTAG
Found at i:772627 original size:12 final size:12
Alignment explanation
Indices: 772610--772635 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
772600 GCATCTTCAC
772610 CATCGTTGAGCT
1 CATCGTTGAGCT
772622 CATCGTTGAGCT
1 CATCGTTGAGCT
772634 CA
1 CA
772636 CCAGCATGCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.19, C:0.27, G:0.23, T:0.31
Consensus pattern (12 bp):
CATCGTTGAGCT
Found at i:781687 original size:24 final size:24
Alignment explanation
Indices: 781655--781700 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
781645 TCTTCCAGAT
781655 GATGTATAAAACATCTATGTACAC
1 GATGTATAAAACATCTATGTACAC
781679 GATGTATAAAACATCTATGTAC
1 GATGTATAAAACATCTATGTAC
781701 CATATCATGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.30
Consensus pattern (24 bp):
GATGTATAAAACATCTATGTACAC
Found at i:784300 original size:2 final size:2
Alignment explanation
Indices: 784293--784341 Score: 57
Period size: 2 Copynumber: 25.0 Consensus size: 2
784283 GTTATAATAC
*
784293 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T CAT AT GT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT
*
784334 AC AT AT AT
1 AT AT AT AT
784342 CATACAAAGT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
1 2 0.05
2 37 0.93
3 1 0.03
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:784800 original size:2 final size:2
Alignment explanation
Indices: 784793--784820 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
784783 TCATAAAATT
784793 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
784821 CAAAATTGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:787929 original size:6 final size:6
Alignment explanation
Indices: 787918--787947 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
787908 AACAAAACCT
787918 GCCTCA GCCTCA GCCTCA GCCTCA GCCTCA
1 GCCTCA GCCTCA GCCTCA GCCTCA GCCTCA
787948 TGATGATGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.50, G:0.17, T:0.17
Consensus pattern (6 bp):
GCCTCA
Found at i:789187 original size:194 final size:194
Alignment explanation
Indices: 788670--792099 Score: 6450
Period size: 194 Copynumber: 17.8 Consensus size: 194
788660 AACCAATTTA
* * * * *
788670 ATATATATTA-AGTTAATGTTTGA-AAAAAATTTAAAAATTATTAAAACTGTACATCAAGTATAC
1 ATATATATAATAGTTAATGTCTGACAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATAC
* * *
788733 TCACGTAATGTAATGGAATGACTCTAGAACAAGTAACACGCCGATATGTATCAGTAATGATACGA
66 TCCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGA
* *
788798 CTTTAGAATGAGTAATAATCACCATAATCACTTTAAATTATTAAAAAGATATTTCTTTTGAAAC
131 CTTTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAAC
* * *
788862 GTATATATAAAAGTTAATGTTTGACAGAAAAAATTAAAATTTATTAATACTGTACATCAAGTATA
1 ATATATATAATAGTTAATGTCTGACA-AAAAAATTAAAATTTATTAATACTGTACATCAAGTATA
788927 CTCCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACG
65 CTCCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACG
788992 ACTTTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAAC
130 ACTTTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAAC
*
789057 ATATATATAATAGTTAATGTCTAACAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATAC
1 ATATATATAATAGTTAATGTCTGACAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATAC
789122 TCCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGA
66 TCCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGA
789187 CTTTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAAC
131 CTTTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAAC
789251 ATATATAT-ATAGTTAATGTCTGACAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATAC
1 ATATATATAATAGTTAATGTCTGACAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATAC
*
789315 TCCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATAGGA
66 TCCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGA
789380 CTTTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAAC
131 CTTTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAAC
789444 ATATATATAATAGTTAATGTCTGACAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATAC
1 ATATATATAATAGTTAATGTCTGACAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATAC
789509 TCCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGAT---A
66 TCCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGA
789571 CTTTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATT-AAAAGATATTTATTTTGAAAC
131 CTTTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAAC
789634 ATATATATAATAGTTAATGTCTGACAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATAC
1 ATATATATAATAGTTAATGTCTGACAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATAC
789699 TCCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGA
66 TCCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGA
789764 CTTTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAAC
131 CTTTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAAC
*
789828 ATATATATAATAGTTAATGTCTGACAAAAAAATTAAAATTTATTAATATTGTACATCAAGTATAC
1 ATATATATAATAGTTAATGTCTGACAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATAC
*
789893 TCCCATAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGA
66 TCCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGA
789958 CTTTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAAC
131 CTTTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAAC
790022 ATATATATAATAGTTAATGTCTGACAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATAC
1 ATATATATAATAGTTAATGTCTGACAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATAC
790087 TCCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGA
66 TCCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGA
790152 CTTTAGAATGAGTAATAATCACCATAATCTC-TTAAATTATTAAAAAGATATTTATTTTGAAAC
131 CTTTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAAC
790215 ATATATATAATAGTTAATGTCTGACAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATAC
1 ATATATATAATAGTTAATGTCTGACAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATAC
790280 TCCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGA
66 TCCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGA
790345 CTTTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATT-AAAA-ATATTTATTTTGAAAC
131 CTTTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAAC
790407 --ATATATAATAGTTAATGTCTGACAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATAC
1 ATATATATAATAGTTAATGTCTGACAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATAC
790470 TCCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGA
66 TCCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGA
790535 CTTTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAAC
131 CTTTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAAC
790599 ATATATAT--TAGTTAATGTCTGACAAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATA
1 ATATATATAATAGTTAATGTCTGAC-AAAAAAATTAAAATTTATTAATACTGTACATCAAGTATA
790662 CTCCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACG
65 CTCCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACG
790727 ACTTTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAAC
130 ACTTTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAAC
*
790792 ATATATATAATAGTTAATGTCTGACAAAAAAATTAAAATGTATTAATACTGTACATCAAGTATAC
1 ATATATATAATAGTTAATGTCTGACAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATAC
790857 TCCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGA
66 TCCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGA
*
790922 CTTTAGAATGAGTAATAATCACCATAATCTCCTTAAATTATTAAAAAGATATTTATTTTGAAAC
131 CTTTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAAC
790986 ATATATATAATAGTTAATGTCTGACAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATAC
1 ATATATATAATAGTTAATGTCTGACAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATAC
791051 TCCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGA
66 TCCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGA
791116 CTTTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAAC
131 CTTTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAAC
*
791180 ATATATATATTAGTTAATGTCTGACAAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATA
1 ATATATATAATAGTTAATGTCTGAC-AAAAAAATTAAAATTTATTAATACTGTACATCAAGTATA
791245 CTCCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACG
65 CTCCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACG
791310 ACTTTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAAC
130 ACTTTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAAC
*
791375 ATATATATAATAGTTAATGTCTGACAAAAAAATTAAAATGTATTAATACTGTACATCAAGTATAC
1 ATATATATAATAGTTAATGTCTGACAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATAC
791440 TCCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGA
66 TCCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGA
*
791505 CTTTAGAATGAGTAATAATCACCATAATCTCCTTAAATTATTAAAAAGATATTTATTTTGAAAC
131 CTTTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAAC
791569 --ATATATAATAGTTAATGTCTGACAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATAC
1 ATATATATAATAGTTAATGTCTGACAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATAC
791632 TCCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGA
66 TCCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGA
791697 CTTTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAAC
131 CTTTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAAC
791761 ATATATATAATAGTTAATGTCTGACAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATAC
1 ATATATATAATAGTTAATGTCTGACAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATAC
791826 TCCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACA-CCCGATATGTATCAGTAATGATACGA
66 TCCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGA
791890 CTTTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAAC
131 CTTTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAAC
*
791954 ATATATATAATAGTTAATGTCTGACAAAAAAAATTAAAATTTATTAATATTGTACATCAAGTATA
1 ATATATATAATAGTTAATGTCTGAC-AAAAAAATTAAAATTTATTAATACTGTACATCAAGTATA
* * *
792019 CTCCCGTAATGTAATGGAATGACTCTAGAACAAGTAACACACCGATATGTATAAGTAATGAT---
65 CTCCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACG
792081 ACTTTAGAATGAGTAATAA
130 ACTTTAGAATGAGTAATAA
792100 ACTCCTGTAT
Statistics
Matches: 3183, Mismatches: 34, Indels: 42
0.98 0.01 0.01
Matches are distributed among these distances:
190 317 0.10
191 47 0.01
192 264 0.08
193 736 0.23
194 1409 0.44
195 410 0.13
ACGTcount: A:0.43, C:0.13, G:0.12, T:0.32
Consensus pattern (194 bp):
ATATATATAATAGTTAATGTCTGACAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATAC
TCCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGA
CTTTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAAC
Found at i:789392 original size:387 final size:388
Alignment explanation
Indices: 788670--792099 Score: 6450
Period size: 387 Copynumber: 8.9 Consensus size: 388
788660 AACCAATTTA
* * * * *
788670 ATATATATTA-AGTTAATGTTTGA-AAAAAATTTAAAAATTATTAAAACTGTACATCAAGTATAC
1 ATATATATAATAGTTAATGTCTGACAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATAC
* * *
788733 TCACGTAATGTAATGGAATGACTCTAGAACAAGTAACACGCCGATATGTATCAGTAATGATACGA
66 TCCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGA
* * *
788798 CTTTAGAATGAGTAATAATCACCATAATCACTTTAAATTATTAAAAAGATATTTCTTTTGAAACG
131 CTTTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAACA
* *
788863 TATATATAAAAGTTAATGTTTGACAGAAAAAATTAAAATTTATTAATACTGTACATCAAGTATAC
196 TATATATAATAGTTAATGTCTGACA-AAAAAATTAAAATTTATTAATACTGTACATCAAGTATAC
788928 TCCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGA
260 TCCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGA
788993 CTTTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAAC
325 CTTTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAAC
*
789057 ATATATATAATAGTTAATGTCTAACAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATAC
1 ATATATATAATAGTTAATGTCTGACAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATAC
789122 TCCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGA
66 TCCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGA
789187 CTTTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAACA
131 CTTTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAACA
789252 TATATAT-ATAGTTAATGTCTGACAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATACT
196 TATATATAATAGTTAATGTCTGACAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATACT
*
789316 CCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATAGGAC
261 CCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGAC
789381 TTTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAAC
326 TTTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAAC
789444 ATATATATAATAGTTAATGTCTGACAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATAC
1 ATATATATAATAGTTAATGTCTGACAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATAC
789509 TCCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGAT---A
66 TCCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGA
789571 CTTTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATT-AAAAGATATTTATTTTGAAACA
131 CTTTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAACA
789635 TATATATAATAGTTAATGTCTGACAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATACT
196 TATATATAATAGTTAATGTCTGACAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATACT
789700 CCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGAC
261 CCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGAC
789765 TTTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAAC
326 TTTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAAC
*
789828 ATATATATAATAGTTAATGTCTGACAAAAAAATTAAAATTTATTAATATTGTACATCAAGTATAC
1 ATATATATAATAGTTAATGTCTGACAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATAC
*
789893 TCCCATAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGA
66 TCCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGA
789958 CTTTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAACA
131 CTTTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAACA
790023 TATATATAATAGTTAATGTCTGACAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATACT
196 TATATATAATAGTTAATGTCTGACAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATACT
790088 CCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGAC
261 CCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGAC
790153 TTTAGAATGAGTAATAATCACCATAATCTC-TTAAATTATTAAAAAGATATTTATTTTGAAAC
326 TTTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAAC
790215 ATATATATAATAGTTAATGTCTGACAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATAC
1 ATATATATAATAGTTAATGTCTGACAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATAC
790280 TCCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGA
66 TCCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGA
790345 CTTTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATT-AAAA-ATATTTATTTTGAAAC-
131 CTTTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAACA
790407 -ATATATAATAGTTAATGTCTGACAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATACT
196 TATATATAATAGTTAATGTCTGACAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATACT
790471 CCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGAC
261 CCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGAC
790536 TTTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAAC
326 TTTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAAC
790599 ATATATAT--TAGTTAATGTCTGACAAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATA
1 ATATATATAATAGTTAATGTCTGAC-AAAAAAATTAAAATTTATTAATACTGTACATCAAGTATA
790662 CTCCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACG
65 CTCCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACG
790727 ACTTTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAAC
130 ACTTTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAAC
*
790792 ATATATATAATAGTTAATGTCTGACAAAAAAATTAAAATGTATTAATACTGTACATCAAGTATAC
195 ATATATATAATAGTTAATGTCTGACAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATAC
790857 TCCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGA
260 TCCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGA
*
790922 CTTTAGAATGAGTAATAATCACCATAATCTCCTTAAATTATTAAAAAGATATTTATTTTGAAAC
325 CTTTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAAC
790986 ATATATATAATAGTTAATGTCTGACAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATAC
1 ATATATATAATAGTTAATGTCTGACAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATAC
791051 TCCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGA
66 TCCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGA
791116 CTTTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAACA
131 CTTTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAACA
*
791181 TATATATATTAGTTAATGTCTGACAAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATAC
196 TATATATAATAGTTAATGTCTGAC-AAAAAAATTAAAATTTATTAATACTGTACATCAAGTATAC
791246 TCCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGA
260 TCCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGA
791311 CTTTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAAC
325 CTTTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAAC
*
791375 ATATATATAATAGTTAATGTCTGACAAAAAAATTAAAATGTATTAATACTGTACATCAAGTATAC
1 ATATATATAATAGTTAATGTCTGACAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATAC
791440 TCCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGA
66 TCCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGA
*
791505 CTTTAGAATGAGTAATAATCACCATAATCTCCTTAAATTATTAAAAAGATATTTATTTTGAAAC-
131 CTTTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAACA
791569 -ATATATAATAGTTAATGTCTGACAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATACT
196 TATATATAATAGTTAATGTCTGACAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATACT
791633 CCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGAC
261 CCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGAC
791698 TTTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAAC
326 TTTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAAC
791761 ATATATATAATAGTTAATGTCTGACAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATAC
1 ATATATATAATAGTTAATGTCTGACAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATAC
791826 TCCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACA-CCCGATATGTATCAGTAATGATACGA
66 TCCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGA
791890 CTTTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAACA
131 CTTTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAACA
*
791955 TATATATAATAGTTAATGTCTGACAAAAAAAATTAAAATTTATTAATATTGTACATCAAGTATAC
196 TATATATAATAGTTAATGTCTGAC-AAAAAAATTAAAATTTATTAATACTGTACATCAAGTATAC
* * *
792020 TCCCGTAATGTAATGGAATGACTCTAGAACAAGTAACACACCGATATGTATAAGTAATGAT---A
260 TCCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGA
792082 CTTTAGAATGAGTAATAA
325 CTTTAGAATGAGTAATAA
792100 ACTCCTGTAT
Statistics
Matches: 2989, Mismatches: 35, Indels: 40
0.98 0.01 0.01
Matches are distributed among these distances:
382 15 0.01
383 335 0.11
384 395 0.13
385 140 0.05
386 275 0.09
387 789 0.26
388 498 0.17
389 542 0.18
ACGTcount: A:0.43, C:0.13, G:0.12, T:0.32
Consensus pattern (388 bp):
ATATATATAATAGTTAATGTCTGACAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATAC
TCCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGA
CTTTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAACA
TATATATAATAGTTAATGTCTGACAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATACT
CCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGAC
TTTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAAC
Found at i:790323 original size:771 final size:774
Alignment explanation
Indices: 788670--792099 Score: 6392
Period size: 771 Copynumber: 4.4 Consensus size: 774
788660 AACCAATTTA
* * * * *
788670 ATATATATTA-AGTTAATGTTTGA-AAAAAATTTAAAAATTATTAAAACTGTACATCAAGTATAC
1 ATATATATAATAGTTAATGTCTGACAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATAC
* * *
788733 TCACGTAATGTAATGGAATGACTCTAGAACAAGTAACACGCCGATATGTATCAGTAATGATACGA
66 TCCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATA--A
* * *
788798 CTTTAGAATGAGTAATAATCACCATAATCACTTTAAATTATTAAAAAGATATTTCTTTTGAAACG
129 CTTTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAACA
* *
788863 TATATATAAAAGTTAATGTTTGACAGAAAAAATTAAAATTTATTAATACTGTACATCAAGTATAC
194 TATATATAATAGTTAATGTCTGACA-AAAAAATTAAAATTTATTAATACTGTACATCAAGTATAC
788928 TCCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGA
258 TCCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGA
788993 CTTTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAACA
323 CTTTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAACA
*
789058 TATATATAATAGTTAATGTCTAACAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATACT
388 TATATATAATAGTTAATGTCTGACAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATACT
789123 CCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGAC
453 CCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGAC
789188 TTTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAACAT
518 TTTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAACAT
789253 ATATAT-ATAGTTAATGTCTGACAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATACTC
583 ATATATAATAGTTAATGTCTGACAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATACTC
*
789317 CCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATAGGACT
648 CCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGACT
789382 TTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAAC
713 TTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAAC
789444 ATATATATAATAGTTAATGTCTGACAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATAC
1 ATATATATAATAGTTAATGTCTGACAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATAC
789509 TCCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGAT-ACT
66 TCCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATAACT
789573 TTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATT-AAAAGATATTTATTTTGAAACATA
131 TTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAACATA
789637 TATATAATAGTTAATGTCTGACAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATACTCC
196 TATATAATAGTTAATGTCTGACAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATACTCC
789702 CGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGACTT
261 CGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGACTT
789767 TAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAACATAT
326 TAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAACATAT
*
789832 ATATAATAGTTAATGTCTGACAAAAAAATTAAAATTTATTAATATTGTACATCAAGTATACTCCC
391 ATATAATAGTTAATGTCTGACAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATACTCCC
*
789897 ATAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGACTTT
456 GTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGACTTT
789962 AGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAACATATA
521 AGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAACATATA
790027 TATAATAGTTAATGTCTGACAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATACTCCCG
586 TATAATAGTTAATGTCTGACAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATACTCCCG
790092 TAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGACTTTA
651 TAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGACTTTA
790157 GAATGAGTAATAATCACCATAATCTC-TTAAATTATTAAAAAGATATTTATTTTGAAAC
716 GAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAAC
790215 ATATATATAATAGTTAATGTCTGACAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATAC
1 ATATATATAATAGTTAATGTCTGACAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATAC
790280 TCCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGA
66 TCCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATA--A
790345 CTTTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATT-AAAA-ATATTTATTTTGAAAC-
129 CTTTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAACA
790407 -ATATATAATAGTTAATGTCTGACAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATACT
194 TATATATAATAGTTAATGTCTGACAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATACT
790471 CCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGAC
259 CCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGAC
790536 TTTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAACAT
324 TTTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAACAT
790601 ATATAT--TAGTTAATGTCTGACAAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATACT
389 ATATATAATAGTTAATGTCTGAC-AAAAAAATTAAAATTTATTAATACTGTACATCAAGTATACT
790664 CCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGAC
453 CCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGAC
790729 TTTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAACAT
518 TTTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAACAT
*
790794 ATATATAATAGTTAATGTCTGACAAAAAAATTAAAATGTATTAATACTGTACATCAAGTATACTC
583 ATATATAATAGTTAATGTCTGACAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATACTC
790859 CCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGACT
648 CCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGACT
*
790924 TTAGAATGAGTAATAATCACCATAATCTCCTTAAATTATTAAAAAGATATTTATTTTGAAAC
713 TTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAAC
790986 ATATATATAATAGTTAATGTCTGACAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATAC
1 ATATATATAATAGTTAATGTCTGACAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATAC
791051 TCCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGA
66 TCCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATA--A
791116 CTTTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAACA
129 CTTTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAACA
*
791181 TATATATATTAGTTAATGTCTGACAAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATAC
194 TATATATAATAGTTAATGTCTGAC-AAAAAAATTAAAATTTATTAATACTGTACATCAAGTATAC
791246 TCCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGA
258 TCCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGA
791311 CTTTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAACA
323 CTTTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAACA
*
791376 TATATATAATAGTTAATGTCTGACAAAAAAATTAAAATGTATTAATACTGTACATCAAGTATACT
388 TATATATAATAGTTAATGTCTGACAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATACT
791441 CCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGAC
453 CCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGAC
*
791506 TTTAGAATGAGTAATAATCACCATAATCTCCTTAAATTATTAAAAAGATATTTATTTTGAAAC--
518 TTTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAACAT
791569 ATATATAATAGTTAATGTCTGACAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATACTC
583 ATATATAATAGTTAATGTCTGACAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATACTC
791634 CCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGACT
648 CCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGACT
791699 TTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAAC
713 TTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAAC
791761 ATATATATAATAGTTAATGTCTGACAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATAC
1 ATATATATAATAGTTAATGTCTGACAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATAC
791826 TCCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACA-CCCGATATGTATCAGTAATGATACGA
66 TCCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATA--A
791890 CTTTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAACA
129 CTTTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAACA
*
791955 TATATATAATAGTTAATGTCTGACAAAAAAAATTAAAATTTATTAATATTGTACATCAAGTATAC
194 TATATATAATAGTTAATGTCTGAC-AAAAAAATTAAAATTTATTAATACTGTACATCAAGTATAC
* * *
792020 TCCCGTAATGTAATGGAATGACTCTAGAACAAGTAACACACCGATATGTATAAGTAATGAT---A
258 TCCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGA
792082 CTTTAGAATGAGTAATAA
323 CTTTAGAATGAGTAATAA
792100 ACTCCTGTAT
Statistics
Matches: 2611, Mismatches: 30, Indels: 33
0.98 0.01 0.01
Matches are distributed among these distances:
769 15 0.01
770 327 0.13
771 948 0.36
772 198 0.08
773 74 0.03
774 268 0.10
775 327 0.13
776 272 0.10
777 167 0.06
778 15 0.01
ACGTcount: A:0.43, C:0.13, G:0.12, T:0.32
Consensus pattern (774 bp):
ATATATATAATAGTTAATGTCTGACAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATAC
TCCCGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATAACT
TTAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAACATA
TATATAATAGTTAATGTCTGACAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATACTCC
CGTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGACTT
TAGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAACATAT
ATATAATAGTTAATGTCTGACAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATACTCCC
GTAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGACTTT
AGAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAACATATA
TATAATAGTTAATGTCTGACAAAAAAATTAAAATTTATTAATACTGTACATCAAGTATACTCCCG
TAAAGTAATGGAATGACTCTAGAACAAGTAACACCCCGATATGTATCAGTAATGATACGACTTTA
GAATGAGTAATAATCACCATAATCTCTTTAAATTATTAAAAAGATATTTATTTTGAAAC
Found at i:793694 original size:28 final size:28
Alignment explanation
Indices: 793656--793790 Score: 225
Period size: 28 Copynumber: 4.8 Consensus size: 28
793646 ATATTTTAAA
* *
793656 ATAATAATTATTTACTTTAATTTAATAT
1 ATAATAGTTGTTTACTTTAATTTAATAT
*
793684 ATAATAGTTATTTACTTTAATTTAATAT
1 ATAATAGTTGTTTACTTTAATTTAATAT
*
793712 ATAATAGTTGTTTATTTTAATTTAATAT
1 ATAATAGTTGTTTACTTTAATTTAATAT
793740 ATAATAGTTGTTTACTTTAATTTAATAT
1 ATAATAGTTGTTTACTTTAATTTAATAT
*
793768 ATAATAGTTGTTTATTTTAATTT
1 ATAATAGTTGTTTACTTTAATTT
793791 TAGGGACTTT
Statistics
Matches: 102, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 102 1.00
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (28 bp):
ATAATAGTTGTTTACTTTAATTTAATAT
Found at i:799385 original size:23 final size:23
Alignment explanation
Indices: 799334--799417 Score: 100
Period size: 23 Copynumber: 3.7 Consensus size: 23
799324 CCAGAACCCC
* *
799334 AGGGGGTATCGATTCCCC-T-AC
1 AGGGGGAATCGATTCCCCTTCAA
*
799355 AGGGGGAATCGGTTCCCCTTCAA
1 AGGGGGAATCGATTCCCCTTCAA
*
799378 AGGGGGAATCGGTTCCCCTTCAA
1 AGGGGGAATCGATTCCCCTTCAA
* *
799401 GGGGGGTATCGATTCCC
1 AGGGGGAATCGATTCCC
799418 TCTGCACTAA
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
21 16 0.29
22 1 0.02
23 38 0.69
ACGTcount: A:0.19, C:0.26, G:0.32, T:0.23
Consensus pattern (23 bp):
AGGGGGAATCGATTCCCCTTCAA
Found at i:809977 original size:23 final size:21
Alignment explanation
Indices: 809951--810000 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
809941 ACATTACAAT
*
809951 ATCATATTAATAAGAAAAAATA
1 ATCAAATTAA-AAGAAAAAATA
* *
809973 CATCAAATTTAAATAAAAAATA
1 -ATCAAATTAAAAGAAAAAATA
809995 ATCAAA
1 ATCAAA
810001 ATAATCCTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 6 0.25
22 10 0.42
23 8 0.33
ACGTcount: A:0.64, C:0.08, G:0.02, T:0.26
Consensus pattern (21 bp):
ATCAAATTAAAAGAAAAAATA
Found at i:813931 original size:13 final size:13
Alignment explanation
Indices: 813913--813939 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
813903 TTTTAATGAA
813913 CCATTGTCTTTTT
1 CCATTGTCTTTTT
813926 CCATTGTCTTTTT
1 CCATTGTCTTTTT
813939 C
1 C
813940 AGACATTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.07, C:0.26, G:0.07, T:0.59
Consensus pattern (13 bp):
CCATTGTCTTTTT
Found at i:814518 original size:20 final size:21
Alignment explanation
Indices: 814493--814585 Score: 100
Period size: 21 Copynumber: 4.5 Consensus size: 21
814483 TTTTCCCAAT
*
814493 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
814513 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
*
814534 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
814554 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
814575 TCGCAATGCGA
1 TCGCAATGCGA
814586 TACTTACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Done.