Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008338.1 Hibiscus syriacus cultivar Beakdansim tig00111059_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: 2210178
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 7 of 12
Found at i:929760 original size:14 final size:16
Alignment explanation
Indices: 929660--929760 Score: 52
Period size: 15 Copynumber: 6.2 Consensus size: 16
929650 ATATATAGTT
*
929660 TATATATAATATAGA-
1 TATATATAATATATAC
929675 TATATA-AACTATATAGTTC
1 TATATATAA-TATATA---C
*
929694 TATGTA-AAT-TATAC
1 TATATATAATATATAC
**
929708 TATATAGTATATATAGTTT
1 TATATA-TA-ATATA-TAC
*
929727 TATATATAATATATAG
1 TATATATAATATATAC
929743 TATATA-AATATA-AC
1 TATATATAATATATAC
929757 TATA
1 TATA
929761 GCATATATGT
Statistics
Matches: 68, Mismatches: 8, Indels: 21
0.70 0.08 0.22
Matches are distributed among these distances:
14 13 0.19
15 17 0.25
16 8 0.12
17 11 0.16
18 5 0.07
19 14 0.21
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.44
Consensus pattern (16 bp):
TATATATAATATATAC
Found at i:929760 original size:19 final size:20
Alignment explanation
Indices: 929738--929815 Score: 56
Period size: 21 Copynumber: 3.9 Consensus size: 20
929728 ATATATAATA
929738 TATAG-TATATAAATATAAC
1 TATAGATATATAAATATAAC
** *
929757 TATAGCATATATGTCTATGTAAC
1 TATAG-ATATA--TAAATATAAC
929780 TAT--AT-TATAAATATCAAC
1 TATAGATATATAAATAT-AAC
*
929798 TATAGATATATATATATA
1 TATAGATATATAAATATA
929816 GTCATATGTA
Statistics
Matches: 44, Mismatches: 7, Indels: 15
0.67 0.11 0.23
Matches are distributed among these distances:
17 4 0.09
18 6 0.14
19 7 0.16
20 5 0.11
21 12 0.27
23 10 0.23
ACGTcount: A:0.46, C:0.08, G:0.06, T:0.40
Consensus pattern (20 bp):
TATAGATATATAAATATAAC
Found at i:929760 original size:28 final size:28
Alignment explanation
Indices: 929650--929760 Score: 79
Period size: 28 Copynumber: 3.9 Consensus size: 28
929640 TATACATGGT
929650 ATATATAGTTTATATATAATATAGATATATAA
1 ATATATAG--TATATATAATATA-ATATAT-A
* *
929682 ACTATATAGT-TCTAT-GTA-AAT-TATA
1 A-TATATAGTATATATAATATAATATATA
* * * *
929707 CTATATAGTATATATAGTTTTATATATA
1 ATATATAGTATATATAATATAATATATA
929735 ATATATAGTATATA-AATATAACTATA
1 ATATATAGTATATATAATATAA-TATA
929761 GCATATATGT
Statistics
Matches: 63, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
24 8 0.13
25 5 0.08
26 5 0.08
27 8 0.13
28 22 0.35
29 2 0.03
30 4 0.06
31 1 0.02
32 1 0.02
33 7 0.11
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (28 bp):
ATATATAGTATATATAATATAATATATA
Found at i:929939 original size:67 final size:65
Alignment explanation
Indices: 929803--929948 Score: 174
Period size: 67 Copynumber: 2.2 Consensus size: 65
929793 TCAACTATAG
*
929803 ATATATAT-ATATAGTCATATGTAAACTATATAGTTTATATATATAGTCATAGGTAACTTTAGTG
1 ATATATATAATATAGTCATATGTAAACTATATAGTTTATATATATA-TCATAGGTAACTATAGTG
929867 T
65 T
* *
929868 ATATATATAACTATAGTTCTTATGT-AACTATATAGTTTATATATAGT-TCATATGTAAACTATA
1 ATATATATAA-TATAG-TCATATGTAAACTATATAGTTTATATATA-TATCATAGGT-AACTATA
929931 GT-T
62 GTGT
*
929934 CATATATATAGTATA
1 -ATATATATAATATA
929949 TGTAAACTAT
Statistics
Matches: 71, Mismatches: 4, Indels: 11
0.83 0.05 0.13
Matches are distributed among these distances:
65 8 0.11
66 13 0.18
67 42 0.59
68 8 0.11
ACGTcount: A:0.39, C:0.07, G:0.10, T:0.44
Consensus pattern (65 bp):
ATATATATAATATAGTCATATGTAAACTATATAGTTTATATATATATCATAGGTAACTATAGTGT
Found at i:929940 original size:29 final size:29
Alignment explanation
Indices: 929879--929959 Score: 87
Period size: 29 Copynumber: 2.8 Consensus size: 29
929869 TATATATAAC
* *
929879 TATAGTTCTTATGT-AACTATATAGTTTATA
1 TATAGTTCATATGTAAAC--TATAGTTCATA
929909 TATAGTTCATATGTAAACTATAGTTCATA
1 TATAGTTCATATGTAAACTATAGTTCATA
929938 TATA-TAGT-ATATGTAAACTATA
1 TATAGT--TCATATGTAAACTATA
929960 AATTATAGTT
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
28 1 0.02
29 28 0.61
30 14 0.30
31 3 0.07
ACGTcount: A:0.38, C:0.07, G:0.10, T:0.44
Consensus pattern (29 bp):
TATAGTTCATATGTAAACTATAGTTCATA
Found at i:929948 original size:18 final size:17
Alignment explanation
Indices: 929905--929948 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
929895 CTATATAGTT
*
929905 TATATATAGTTCATATG
1 TATATATAGTTCATATA
*
929922 TAAACTATAGTTCATATA
1 TATA-TATAGTTCATATA
929940 TATAGTATA
1 TATA-TATA
929949 TGTAAACTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 3 0.14
18 19 0.86
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.43
Consensus pattern (17 bp):
TATATATAGTTCATATA
Found at i:930053 original size:7 final size:7
Alignment explanation
Indices: 930041--930105 Score: 73
Period size: 7 Copynumber: 9.4 Consensus size: 7
930031 ATATAAATAC
930041 ACCCTAA
1 ACCCTAA
930048 ACCCTAA
1 ACCCTAA
930055 ACCCTAA
1 ACCCTAA
*
930062 TA-CTTAA
1 -ACCCTAA
930069 ACCCTAA
1 ACCCTAA
930076 ACCCTAA
1 ACCCTAA
930083 A-CCTAA
1 ACCCTAA
*
930089 TA-CTTAA
1 -ACCCTAA
930096 ACCCTAA
1 ACCCTAA
930103 ACC
1 ACC
930106 ATATATACTA
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
6 7 0.14
7 42 0.84
8 1 0.02
ACGTcount: A:0.43, C:0.37, G:0.00, T:0.20
Consensus pattern (7 bp):
ACCCTAA
Found at i:930095 original size:27 final size:28
Alignment explanation
Indices: 930041--930105 Score: 123
Period size: 27 Copynumber: 2.4 Consensus size: 28
930031 ATATAAATAC
930041 ACCCTAAACCCTAAACCCTAATACTTAA
1 ACCCTAAACCCTAAACCCTAATACTTAA
930069 ACCCTAAACCCTAAA-CCTAATACTTAA
1 ACCCTAAACCCTAAACCCTAATACTTAA
930096 ACCCTAAACC
1 ACCCTAAACC
930106 ATATATACTA
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 22 0.59
28 15 0.41
ACGTcount: A:0.43, C:0.37, G:0.00, T:0.20
Consensus pattern (28 bp):
ACCCTAAACCCTAAACCCTAATACTTAA
Found at i:930164 original size:25 final size:24
Alignment explanation
Indices: 930136--930225 Score: 69
Period size: 23 Copynumber: 3.7 Consensus size: 24
930126 CTATATAGTT
930136 TATATATAATTATATATTTATACA
1 TATATATAATTATATATTTATACA
* *
930160 -ATATATTTATT-TATAATTATACA
1 TATATA-TAATTATATATTTATACA
* * **
930183 TA-ATATAAATATAAATTGTATAGTT
1 TATATATAATTATATATT-TATA-CA
930208 TATATATAATTCATATAT
1 TATATATAATT-ATATAT
930226 ATTTATATAT
Statistics
Matches: 49, Mismatches: 10, Indels: 11
0.70 0.14 0.16
Matches are distributed among these distances:
22 3 0.06
23 23 0.47
24 9 0.18
25 2 0.04
26 7 0.14
27 5 0.10
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (24 bp):
TATATATAATTATATATTTATACA
Found at i:930194 original size:31 final size:32
Alignment explanation
Indices: 930128--930195 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 32
930118 TATAAAAACT
* *
930128 ATATAGTTTATATATAATTATATATTTATACA
1 ATATAGTTTATATATAATTATACATATATACA
*
930160 ATATA-TTTATTTATAATTATACATAATATA-A
1 ATATAGTTTATATATAATTATACAT-ATATACA
930191 ATATA
1 ATATA
930196 AATTGTATAG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
31 23 0.72
32 9 0.28
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.49
Consensus pattern (32 bp):
ATATAGTTTATATATAATTATACATATATACA
Found at i:930317 original size:20 final size:20
Alignment explanation
Indices: 930284--930332 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
930274 TAAACTATAC
*
930284 AGTAT-TATAGTTTATACAT
1 AGTATATATAATTTATACAT
*
930303 GGTATATATAATTTATACAT
1 AGTATATATAATTTATACAT
*
930323 AATATATATA
1 AGTATATATA
930333 TATAAACTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 4 0.16
20 21 0.84
ACGTcount: A:0.43, C:0.04, G:0.08, T:0.45
Consensus pattern (20 bp):
AGTATATATAATTTATACAT
Found at i:930343 original size:24 final size:24
Alignment explanation
Indices: 930305--930378 Score: 62
Period size: 22 Copynumber: 3.1 Consensus size: 24
930295 TTATACATGG
**
930305 TATATATAATTTATACATAATATA
1 TATATATAAACTATACATAATATA
* *
930329 TATATATAAACTAT--ATAGTTTA
1 TATATATAAACTATACATAATATA
* *
930351 TATATATAATACATATACTTTATATA
1 TATATATAA-AC-TATACATAATATA
930377 TA
1 TA
930379 AACCATATAG
Statistics
Matches: 38, Mismatches: 8, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
22 15 0.39
23 2 0.05
24 15 0.39
26 6 0.16
ACGTcount: A:0.47, C:0.05, G:0.01, T:0.46
Consensus pattern (24 bp):
TATATATAAACTATACATAATATA
Found at i:930352 original size:22 final size:21
Alignment explanation
Indices: 930327--930395 Score: 95
Period size: 22 Copynumber: 3.2 Consensus size: 21
930317 ATACATAATA
930327 TATATATATAAACTATATAGTT
1 TATATATATAAAC-ATATAGTT
*
930349 TATATATATAATACATATACTT
1 TATATATATAA-ACATATAGTT
*
930371 TATATATA-AACCATATAGTT
1 TATATATATAAACATATAGTT
930391 TATAT
1 TATAT
930396 TACATATATA
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
20 13 0.30
21 2 0.05
22 26 0.60
23 2 0.05
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.45
Consensus pattern (21 bp):
TATATATATAAACATATAGTT
Found at i:930354 original size:20 final size:20
Alignment explanation
Indices: 930329--930395 Score: 82
Period size: 20 Copynumber: 3.2 Consensus size: 20
930319 ACATAATATA
930329 TATATATAAACTATATAGTT
1 TATATATAAACTATATAGTT
*
930349 TATATATATAA-TACATATACTT
1 TATATATA-AACT--ATATAGTT
*
930371 TATATATAAACCATATAGTT
1 TATATATAAACTATATAGTT
930391 TATAT
1 TATAT
930396 TACATATATA
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
20 21 0.52
21 4 0.10
22 15 0.38
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.45
Consensus pattern (20 bp):
TATATATAAACTATATAGTT
Found at i:930912 original size:204 final size:204
Alignment explanation
Indices: 930458--931135 Score: 926
Period size: 204 Copynumber: 3.3 Consensus size: 204
930448 TGATCCATTT
*
930458 TGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTC-TATTTGTTCAATTTAGTCCTCCACA
1 TGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAA
930522 TTTT-TTTGCATATGAAATTGACCCATACTTATTACTTATTTCTATTTATTAATTGGCCCATAAC
66 TTTTATTTGCATATGAAATTGACCCATACTTATTACTTATTTCTATTT-TTAATTGGCCC-T-A-
* * * * *
930586 TTTTTAATGAGTATTTAGTACATTTTTGTATTAATTTCAACCTCAAAATTT-AAATTATTTCGAT
127 TGTGT-AT-A--ATTTAGTACTTTTTTGTATTAATTTCAACATCACAATTTAAAATTATTTCGAT
930650 TTGATCCCT--T---T-
188 TTGATCCCTCATCAATG
* * *
930661 TGTGTTGTTTAGTTTATTTAATTTTTTATTTGTAATTTTATATTTGTTCAATTTAGTCCTCCAAA
1 TGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAA
* *
930726 TTTTATTTGCATCTGAAATTGACCCATACTTATTACTTATTTCTATTTTTAAATTGGCCC-ATGG
66 TTTTATTTGCATATGAAATTGACCCATACTTATTACTTATTTCTATTTTT-AATTGGCCCTATGT
*
930790 GTATAATTTAGTACTTTTTTGTATTAAGTTCAACATCACAATTTAAAATTATTTCGATTTGATCC
130 GTATAATTTAGTACTTTTTTGTATTAATTTCAACATCACAATTTAAAATTATTTCGATTTGATCC
930855 CTCATCAATG
195 CTCATCAATG
*
930865 TGTGTTGTTTAATTAATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAA
1 TGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAA
* * *
930930 TTTTATTTGCATATGAAATTGATCCATACTTTTTACTTAATTCTATTTTTTAATTGGCCCATAAC
66 TTTTATTTGCATATGAAATTGACCCATACTTATTACTTATTTCTA-TTTTTAATTGG-CC----C
* *
930995 TTTTTAAATGTGTATAATTTAATACTTTTTTGTATTAATTTCAGCATCACAATTTAAAATTATTT
125 ----T--ATGTGTATAATTTAGTACTTTTTTGTATTAATTTCAACATCACAATTTAAAATTATTT
931060 CGATTTGATCCCTCATCAATG
184 CGATTTGATCCCTCATCAATG
*
931081 TGTGTTGTTTAATTTATTTAAATTTTTATTTGCAATTTCATATTTGTTCAATTTA
1 TGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTA
931136 ATTCTTAAAT
Statistics
Matches: 426, Mismatches: 26, Indels: 33
0.88 0.05 0.07
Matches are distributed among these distances:
197 35 0.08
198 22 0.05
199 1 0.00
200 3 0.01
201 2 0.00
202 1 0.00
203 37 0.09
204 138 0.32
205 58 0.14
209 1 0.00
216 128 0.30
ACGTcount: A:0.28, C:0.12, G:0.09, T:0.51
Consensus pattern (204 bp):
TGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAA
TTTTATTTGCATATGAAATTGACCCATACTTATTACTTATTTCTATTTTTAATTGGCCCTATGTG
TATAATTTAGTACTTTTTTGTATTAATTTCAACATCACAATTTAAAATTATTTCGATTTGATCCC
TCATCAATG
Found at i:937540 original size:15 final size:15
Alignment explanation
Indices: 937520--937549 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
937510 TAAACTCTCT
937520 TGGACATTAAGAGTA
1 TGGACATTAAGAGTA
937535 TGGACATTAAGAGTA
1 TGGACATTAAGAGTA
937550 GAGATTTACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.07, G:0.27, T:0.27
Consensus pattern (15 bp):
TGGACATTAAGAGTA
Found at i:944373 original size:16 final size:17
Alignment explanation
Indices: 944343--944376 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
944333 AATCATACTA
*
944343 TTTAATTTTTGTATCAT
1 TTTAATATTTGTATCAT
944360 TTTAATATTT-TATCAT
1 TTTAATATTTGTATCAT
944376 T
1 T
944377 AAAAATTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.26, C:0.06, G:0.03, T:0.65
Consensus pattern (17 bp):
TTTAATATTTGTATCAT
Found at i:944782 original size:15 final size:15
Alignment explanation
Indices: 944762--944792 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
944752 TTACAGTGAT
944762 TTTTAAAAATTAAAA
1 TTTTAAAAATTAAAA
944777 TTTTAAAAATTAAAA
1 TTTTAAAAATTAAAA
944792 T
1 T
944793 AAATCAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
TTTTAAAAATTAAAA
Found at i:949295 original size:67 final size:67
Alignment explanation
Indices: 949169--949318 Score: 214
Period size: 67 Copynumber: 2.3 Consensus size: 67
949159 TACCATTCAA
* *
949169 GGGGAACCGATA-CCCCTCAACGAAATGAATTTCCAGAATGCTAGAGGGGAATCGGTACCCCCA-
1 GGGGAACCGATACCCCCTCAACGAAATGAAATTCCAGAATGCTAGAGGGGAATCGATACCCCCAG
949232 GG
66 GG
* * * *
949234 GGGGAACCGATACCCCCTCATCGTATATGAAATTCCAGATTGCTTGAGGGGAATCGATACCCCCA
1 GGGGAACCGATACCCCCTCAACG-AAATGAAATTCCAGAATGCTAGAGGGGAATCGATACCCCCA
949299 GGG
65 GGG
*
949302 GGGGAACCGATTCCCCC
1 GGGGAACCGATACCCCC
949319 ATGAGAAAAA
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
65 12 0.16
66 9 0.12
67 36 0.48
68 18 0.24
ACGTcount: A:0.27, C:0.28, G:0.27, T:0.17
Consensus pattern (67 bp):
GGGGAACCGATACCCCCTCAACGAAATGAAATTCCAGAATGCTAGAGGGGAATCGATACCCCCAG
GG
Found at i:949693 original size:30 final size:30
Alignment explanation
Indices: 949659--949717 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
949649 GTTATATGAG
* *
949659 CTATGTGATAAAGGTATGTAAATGATATGT
1 CTATGTGATAAAGGTATGGAAATAATATGT
949689 CTATGTGATAAAGGTATGGAAATAATATG
1 CTATGTGATAAAGGTATGGAAATAATATG
949718 ACTACGCGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.39, C:0.03, G:0.24, T:0.34
Consensus pattern (30 bp):
CTATGTGATAAAGGTATGGAAATAATATGT
Found at i:949991 original size:23 final size:22
Alignment explanation
Indices: 949931--949998 Score: 127
Period size: 22 Copynumber: 3.0 Consensus size: 22
949921 TTATGGACAT
949931 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
949953 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
949975 AATTCTACGGGGCACTTCGGTGC
1 AATTCTAC-GGGCACTTCGGTGC
949998 A
1 A
949999 TTTATACGAG
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
22 30 0.67
23 15 0.33
ACGTcount: A:0.19, C:0.26, G:0.28, T:0.26
Consensus pattern (22 bp):
AATTCTACGGGCACTTCGGTGC
Found at i:956071 original size:21 final size:21
Alignment explanation
Indices: 956029--956071 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
956019 TTTCTGGGTT
* * *
956029 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCACTCA
*
956050 AGGGGAACCGATACCCCCTCA
1 AGGGGAACCGATACCCACTCA
956071 A
1 A
956072 CGAAATGAAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.14
Consensus pattern (21 bp):
AGGGGAACCGATACCCACTCA
Found at i:956132 original size:66 final size:67
Alignment explanation
Indices: 956029--956199 Score: 222
Period size: 66 Copynumber: 2.6 Consensus size: 67
956019 TTTCTGGGTT
* * *
956029 AGGGGAATCGGTACCCATTCA-AGGGGAACCGATACCCCCTCAACG-AAATGAATTTCCAGAATG
1 AGGGGAATCGGTACCC--CCAGGGGGGAACCGATACCCCCTCAACGTAAATGAAATTCCAGAATG
956092 CTAG
64 CTAG
* * *
956096 AGGGGAATCGGTACCCCCAGGGGGGAACCGATACCCCCTCATCGTATATGAAATTCCAGATTGCT
1 AGGGGAATCGGTACCCCCAGGGGGGAACCGATACCCCCTCAACGTAAATGAAATTCCAGAATGCT
*
956161 TG
66 AG
* *
956163 A-GGGAATCGATACCCCCAGGGGGGAACCGATTCCCCC
1 AGGGGAATCGGTACCCCCAGGGGGGAACCGATACCCCC
956200 ATGAGAAAAA
Statistics
Matches: 93, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
65 2 0.02
66 56 0.60
67 35 0.38
ACGTcount: A:0.28, C:0.28, G:0.26, T:0.18
Consensus pattern (67 bp):
AGGGGAATCGGTACCCCCAGGGGGGAACCGATACCCCCTCAACGTAAATGAAATTCCAGAATGCT
AG
Found at i:956574 original size:30 final size:30
Alignment explanation
Indices: 956540--956598 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
956530 GTTATATGAG
* *
956540 CTATGTGATAAAGGTATGTAAATGATATGT
1 CTATGTGATAAAGGTATGAAAATAATATGT
956570 CTATGTGATAAAGGTATGAAAATAATATG
1 CTATGTGATAAAGGTATGAAAATAATATG
956599 ACTACGCGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.41, C:0.03, G:0.22, T:0.34
Consensus pattern (30 bp):
CTATGTGATAAAGGTATGAAAATAATATGT
Found at i:956872 original size:23 final size:22
Alignment explanation
Indices: 956812--956879 Score: 127
Period size: 22 Copynumber: 3.0 Consensus size: 22
956802 TTATGGACAT
956812 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
956834 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
956856 AATTCTACGGGGCACTTCGGTGC
1 AATTCTAC-GGGCACTTCGGTGC
956879 A
1 A
956880 TTTATACGAG
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
22 30 0.67
23 15 0.33
ACGTcount: A:0.19, C:0.26, G:0.28, T:0.26
Consensus pattern (22 bp):
AATTCTACGGGCACTTCGGTGC
Found at i:958288 original size:26 final size:26
Alignment explanation
Indices: 958252--958311 Score: 95
Period size: 26 Copynumber: 2.3 Consensus size: 26
958242 TCTTGAAGAG
*
958252 TAAATGATATGAAC-ATGAATAAGTTT
1 TAAATGATATGAACAAT-AATAAATTT
958278 TAAATGATATGAACAATAATAAATTT
1 TAAATGATATGAACAATAATAAATTT
958304 TAAATGAT
1 TAAATGAT
958312 GGACATGGAT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
26 30 0.94
27 2 0.06
ACGTcount: A:0.50, C:0.03, G:0.12, T:0.35
Consensus pattern (26 bp):
TAAATGATATGAACAATAATAAATTT
Found at i:959499 original size:2 final size:2
Alignment explanation
Indices: 959492--959523 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
959482 CAAAAATTAA
959492 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
959524 AAGTTATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:959992 original size:18 final size:18
Alignment explanation
Indices: 959969--960006 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
959959 CATAGATGCA
959969 TTGAATATTAATCTAACT
1 TTGAATATTAATCTAACT
959987 TTGAATATTAATCTAACT
1 TTGAATATTAATCTAACT
960005 TT
1 TT
960007 TATTCCTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.37, C:0.11, G:0.05, T:0.47
Consensus pattern (18 bp):
TTGAATATTAATCTAACT
Found at i:964918 original size:15 final size:15
Alignment explanation
Indices: 964900--964932 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
964890 AAATTCTAAA
964900 TATTTA-AATAAAAAT
1 TATTTATAA-AAAAAT
964915 TATTTATAAAAAAAT
1 TATTTATAAAAAAAT
964930 TAT
1 TAT
964933 ATTTGTTGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 15 0.88
16 2 0.12
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
TATTTATAAAAAAAT
Found at i:969049 original size:13 final size:16
Alignment explanation
Indices: 969016--969049 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
969006 AAACATTGTA
969016 AAGAAAGGGAGAGGAG
1 AAGAAAGGGAGAGGAG
969032 AAGAAAGGGAGAGGAG
1 AAGAAAGGGAGAGGAG
969048 AA
1 AA
969050 TAAATCTTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (16 bp):
AAGAAAGGGAGAGGAG
Found at i:972093 original size:35 final size:34
Alignment explanation
Indices: 971992--972094 Score: 93
Period size: 35 Copynumber: 3.0 Consensus size: 34
971982 ATATTAGTAG
* *
971992 GATACTTATT-CTTTTGAATATATCAAATTAAAAA
1 GATAATTATTACTTTTGAATATTTCAAATT-AAAA
* * * * *
972026 GATATTTATTATTTATTTAA-CTTTGAATATTAAAA
1 GATAATTATTACTT-TTGAATATTTCAA-ATTAAAA
972061 GATAATTATATACTTTTGAATATTTCAAATTAAA
1 GATAATTAT-TACTTTTGAATATTTCAAATTAAA
972095 TAATATTTGT
Statistics
Matches: 53, Mismatches: 11, Indels: 9
0.73 0.15 0.12
Matches are distributed among these distances:
34 9 0.17
35 28 0.53
36 16 0.30
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.46
Consensus pattern (34 bp):
GATAATTATTACTTTTGAATATTTCAAATTAAAA
Found at i:972114 original size:63 final size:62
Alignment explanation
Indices: 972035--972156 Score: 165
Period size: 62 Copynumber: 2.0 Consensus size: 62
972025 AGATATTTAT
* * * *
972035 TATTTATTTAACTTTGAATA-TTAAAAGATAATTATATACTTTTGAATATTTCAAATTAAATAA
1 TATTTATTTAACTTTGAAAAGTAAAAAGAGAA-CATAT-CTTTTGAATATTTCAAATTAAATAA
* *
972098 TATTTGTTTAAGTTTGAAAAGTAAAAAGAGAACATATCTTTTGAATATTTCAAATTAAA
1 TATTTATTTAACTTTGAAAAGTAAAAAGAGAACATATCTTTTGAATATTTCAAATTAAA
972157 AAAAATAATA
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
62 22 0.42
63 21 0.40
64 9 0.17
ACGTcount: A:0.44, C:0.05, G:0.08, T:0.43
Consensus pattern (62 bp):
TATTTATTTAACTTTGAAAAGTAAAAAGAGAACATATCTTTTGAATATTTCAAATTAAATAA
Found at i:975383 original size:20 final size:22
Alignment explanation
Indices: 975360--975407 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
975350 CTTGATATTT
*
975360 TAATAA-TTATT-TTATAAAAA
1 TAATAATTTATTATTAGAAAAA
975380 TAATAATTTTATTATTAGAAAAA
1 TAATAA-TTTATTATTAGAAAAA
975403 TAATA
1 TAATA
975408 GTTTGTTTAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 6 0.25
22 5 0.21
23 13 0.54
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (22 bp):
TAATAATTTATTATTAGAAAAA
Found at i:995145 original size:47 final size:47
Alignment explanation
Indices: 995091--995185 Score: 190
Period size: 47 Copynumber: 2.0 Consensus size: 47
995081 CAATCCATAA
995091 CCATAGTCTGCTTATAACATAAGACTTAACTACCTAAACACATACTG
1 CCATAGTCTGCTTATAACATAAGACTTAACTACCTAAACACATACTG
995138 CCATAGTCTGCTTATAACATAAGACTTAACTACCTAAACACATACTG
1 CCATAGTCTGCTTATAACATAAGACTTAACTACCTAAACACATACTG
995185 C
1 C
995186 AGCACTAAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.38, C:0.26, G:0.08, T:0.27
Consensus pattern (47 bp):
CCATAGTCTGCTTATAACATAAGACTTAACTACCTAAACACATACTG
Found at i:995330 original size:33 final size:33
Alignment explanation
Indices: 995288--995386 Score: 135
Period size: 33 Copynumber: 3.0 Consensus size: 33
995278 GAAATGACTT
*
995288 ATATTATGATCAATATATTAAGGCATATGCTGC
1 ATATTATGATCAATATATTAAGGAATATGCTGC
* *
995321 ATATTATGATCGATAAATTAAGGAATATGCTGC
1 ATATTATGATCAATATATTAAGGAATATGCTGC
* * * *
995354 ATGTCATGTTCAATATATTAAGGAATACGCTGC
1 ATATTATGATCAATATATTAAGGAATATGCTGC
995387 TGTATTGATT
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.34
Consensus pattern (33 bp):
ATATTATGATCAATATATTAAGGAATATGCTGC
Found at i:1002930 original size:14 final size:14
Alignment explanation
Indices: 1002904--1002949 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
1002894 ATATATAGTA
1002904 ATTTAAT-TTTTAT
1 ATTTAATATTTTAT
*
1002917 TTTTAATATTTTAT
1 ATTTAATATTTTAT
*
1002931 ATTCAATATTTCTAT
1 ATTTAATATTT-TAT
1002946 ATTT
1 ATTT
1002950 GTATAGTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
13 6 0.22
14 15 0.56
15 6 0.22
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.65
Consensus pattern (14 bp):
ATTTAATATTTTAT
Found at i:1015029 original size:6 final size:6
Alignment explanation
Indices: 1015018--1015043 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
1015008 GCTTCTTGTC
1015018 CCTGCT CCTGCT CCTGCT CCTGCT CC
1 CCTGCT CCTGCT CCTGCT CCTGCT CC
1015044 ATGTCTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.54, G:0.15, T:0.31
Consensus pattern (6 bp):
CCTGCT
Found at i:1015370 original size:16 final size:17
Alignment explanation
Indices: 1015325--1015372 Score: 53
Period size: 16 Copynumber: 2.7 Consensus size: 17
1015315 TTTACGGAAT
1015325 ATATGATTATTAATGAGA
1 ATATGATTATT-ATGAGA
*
1015343 ATGTAAGATTATTA-GAGA
1 A--TATGATTATTATGAGA
1015361 ATATGATTATTA
1 ATATGATTATTA
1015373 AAAATGTTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
16 10 0.38
18 6 0.23
19 1 0.04
20 9 0.35
ACGTcount: A:0.44, C:0.00, G:0.17, T:0.40
Consensus pattern (17 bp):
ATATGATTATTATGAGA
Found at i:1016431 original size:20 final size:23
Alignment explanation
Indices: 1016408--1016471 Score: 71
Period size: 25 Copynumber: 2.8 Consensus size: 23
1016398 ATGAATAATG
1016408 TTATTTT-TTATTTAATAA-AT-
1 TTATTTTATTATTTAATAATATA
*
1016428 TTATTATTATTTTATTACATAATATA
1 TTATT-TTATTAT-TTA-ATAATATA
1016454 TTATTTTATTATTTAATA
1 TTATTTTATTATTTAATA
1016472 GTAAACTTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
20 5 0.14
21 2 0.06
22 3 0.08
23 6 0.17
24 7 0.19
25 8 0.22
26 5 0.14
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (23 bp):
TTATTTTATTATTTAATAATATA
Found at i:1016455 original size:23 final size:22
Alignment explanation
Indices: 1016408--1016471 Score: 67
Period size: 23 Copynumber: 2.7 Consensus size: 22
1016398 ATGAATAATG
*
1016408 TTATTTTTTATTTAATAAATTTA
1 TTATTTTTTA-TTAATAAATATA
1016431 TTATTATTTTATTACAT-AATATA
1 TTATT-TTTTATTA-ATAAATATA
1016454 TTATTTTATTATTTAATA
1 TTATTTT-TTA-TTAATA
1016472 GTAAACTTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
22 2 0.06
23 23 0.66
24 10 0.29
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (22 bp):
TTATTTTTTATTAATAAATATA
Found at i:1019457 original size:48 final size:49
Alignment explanation
Indices: 1019404--1019522 Score: 158
Period size: 48 Copynumber: 2.5 Consensus size: 49
1019394 CATAAATCAG
1019404 GTCAAGTATCATATCAGAAATT-A-GATCA-AGTAACATATCAGAATCCAA
1 GTCAAGTATCATATCAGAAATTCATG-TCAGA-TAACATATCAGAATCCAA
* * *
1019452 GTCAAGTATCAGATCAG-AATTCATGTCAGATATCATATCAGAATCCAT
1 GTCAAGTATCATATCAGAAATTCATGTCAGATAACATATCAGAATCCAA
1019500 GTCAAGTATCATATCAG-AATTCA
1 GTCAAGTATCATATCAGAAATTCA
1019523 AATCGAAAAT
Statistics
Matches: 64, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
47 4 0.06
48 58 0.91
49 2 0.03
ACGTcount: A:0.41, C:0.18, G:0.13, T:0.28
Consensus pattern (49 bp):
GTCAAGTATCATATCAGAAATTCATGTCAGATAACATATCAGAATCCAA
Found at i:1019519 original size:24 final size:24
Alignment explanation
Indices: 1019404--1019519 Score: 139
Period size: 24 Copynumber: 4.8 Consensus size: 24
1019394 CATAAATCAG
*
1019404 GTCAAGTATCATATCAGAAAT-TA-
1 GTCAAGTATCATATCAG-AATCCAT
* *
1019427 GATCAAGTAACATATCAGAATCCAA
1 G-TCAAGTATCATATCAGAATCCAT
* *
1019452 GTCAAGTATCAGATCAGAATTCAT
1 GTCAAGTATCATATCAGAATCCAT
1019476 GTC-AGATATCATATCAGAATCCAT
1 GTCAAG-TATCATATCAGAATCCAT
1019500 GTCAAGTATCATATCAGAAT
1 GTCAAGTATCATATCAGAAT
1019520 TCAAATCGAA
Statistics
Matches: 80, Mismatches: 8, Indels: 9
0.82 0.08 0.09
Matches are distributed among these distances:
23 6 0.08
24 71 0.89
25 3 0.04
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (24 bp):
GTCAAGTATCATATCAGAATCCAT
Found at i:1022042 original size:13 final size:13
Alignment explanation
Indices: 1022008--1022043 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
1021998 GTTAACGGGT
* *
1022008 CGGGTCGGATCAA
1 CGGGTCGGGTAAA
1022021 CGGGTCGGGTAAA
1 CGGGTCGGGTAAA
1022034 CGGGTCGGGT
1 CGGGTCGGGT
1022044 CGGGTCTAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.17, C:0.19, G:0.47, T:0.17
Consensus pattern (13 bp):
CGGGTCGGGTAAA
Found at i:1023431 original size:15 final size:15
Alignment explanation
Indices: 1023413--1023452 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
1023403 ATGATGATGT
1023413 TCAAGACGATGACGA
1 TCAAGACGATGACGA
*
1023428 TCAAGACAATGACGA
1 TCAAGACGATGACGA
*
1023443 TGAAGACGAT
1 TCAAGACGAT
1023453 TAGAGTGAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.25, T:0.15
Consensus pattern (15 bp):
TCAAGACGATGACGA
Found at i:1024998 original size:23 final size:23
Alignment explanation
Indices: 1024980--1025038 Score: 102
Period size: 22 Copynumber: 2.6 Consensus size: 23
1024970 CTCGTATAAA
1024980 TGCACCGAAGTGCCCCGTAGAAT
1 TGCACCGAAGTGCCCCGTAGAAT
1025003 TGCACCGAAGTG-CCCGTAGAAT
1 TGCACCGAAGTGCCCCGTAGAAT
*
1025025 TGCACCGTAGTGCC
1 TGCACCGAAGTGCC
1025039 ATATAATGAT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
22 21 0.62
23 13 0.38
ACGTcount: A:0.24, C:0.31, G:0.27, T:0.19
Consensus pattern (23 bp):
TGCACCGAAGTGCCCCGTAGAAT
Found at i:1025318 original size:30 final size:30
Alignment explanation
Indices: 1025249--1025325 Score: 109
Period size: 30 Copynumber: 2.5 Consensus size: 30
1025239 CCGTAGTTCA
* * * *
1025249 TATCACGTAATCATATTATTTCCATACCTT
1 TATCACATAGTCATATCATTTACATACCTT
1025279 TATCACATAGTCATATCATTTACATACCTT
1 TATCACATAGTCATATCATTTACATACCTT
1025309 TATCACATAGCTCATAT
1 TATCACATAG-TCATAT
1025326 AACTTTTCTG
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 36 0.86
31 6 0.14
ACGTcount: A:0.32, C:0.23, G:0.04, T:0.40
Consensus pattern (30 bp):
TATCACATAGTCATATCATTTACATACCTT
Found at i:1025409 original size:29 final size:29
Alignment explanation
Indices: 1025339--1025410 Score: 108
Period size: 29 Copynumber: 2.5 Consensus size: 29
1025329 TTTTCTGCAT
* * *
1025339 ATTCATGTCATGCAATACATATCATATGA
1 ATTCATGTCATGTAATACATATAATATAA
*
1025368 ATTCATGTCATGTAATACATTTAATATAA
1 ATTCATGTCATGTAATACATATAATATAA
1025397 ATTCATGTCATGTA
1 ATTCATGTCATGTA
1025411 TCATAATATG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.39
Consensus pattern (29 bp):
ATTCATGTCATGTAATACATATAATATAA
Found at i:1025885 original size:67 final size:67
Alignment explanation
Indices: 1025716--1025866 Score: 214
Period size: 67 Copynumber: 2.3 Consensus size: 67
1025706 TTTCTCTCAT
* * * *
1025716 GGGGGAATCGGTTCCCCCCCTGGGGGTATCGATTCCCATCAAGTAATCTGGAATTTCATATACGA
1 GGGGGTATCGGTT-CCCCCCTGGGGGTATCGATTCCCCTCAAGCAATCTGGAATATCATATACGA
1025781 TGA
65 TGA
* * * *
1025784 GGGGGTATCGGTTCCCCCCTGGGGGTATCGATTCCCCTCTAGCATTCTGGAA-ATCATATTCGTT
1 GGGGGTATCGGTTCCCCCCTGGGGGTATCGATTCCCCTCAAGCAATCTGGAATATCATATACGAT
1025848 GA
66 GA
1025850 GGGGGTATCGGTTCCCC
1 GGGGGTATCGGTTCCCC
1025867 TTGAATGGGT
Statistics
Matches: 75, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
66 28 0.37
67 35 0.47
68 12 0.16
ACGTcount: A:0.19, C:0.25, G:0.28, T:0.28
Consensus pattern (67 bp):
GGGGGTATCGGTTCCCCCCTGGGGGTATCGATTCCCCTCAAGCAATCTGGAATATCATATACGAT
GA
Found at i:1031971 original size:22 final size:23
Alignment explanation
Indices: 1031930--1031981 Score: 88
Period size: 22 Copynumber: 2.3 Consensus size: 23
1031920 CTCGTATAAA
1031930 TGCACCGAAGTGCCCCGTAGAAT
1 TGCACCGAAGTGCCCCGTAGAAT
*
1031953 TGCACTGAAGTG-CCCGTAGAAT
1 TGCACCGAAGTGCCCCGTAGAAT
1031975 TGCACCG
1 TGCACCG
1031982 TAGTCCCATA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 16 0.59
23 11 0.41
ACGTcount: A:0.25, C:0.29, G:0.27, T:0.19
Consensus pattern (23 bp):
TGCACCGAAGTGCCCCGTAGAAT
Found at i:1032234 original size:30 final size:30
Alignment explanation
Indices: 1032199--1032275 Score: 118
Period size: 30 Copynumber: 2.5 Consensus size: 30
1032189 CCGTAGTTCA
* * *
1032199 TATCACGTAGTCATATTATTTCCATACCTT
1 TATCACATAGTCATATCATTTACATACCTT
1032229 TATCACATAGTCATATCATTTACATACCTT
1 TATCACATAGTCATATCATTTACATACCTT
1032259 TATCACATAGCTCATAT
1 TATCACATAG-TCATAT
1032276 AACTTTTCTG
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
30 37 0.86
31 6 0.14
ACGTcount: A:0.31, C:0.23, G:0.05, T:0.40
Consensus pattern (30 bp):
TATCACATAGTCATATCATTTACATACCTT
Found at i:1032359 original size:29 final size:29
Alignment explanation
Indices: 1032289--1032360 Score: 108
Period size: 29 Copynumber: 2.5 Consensus size: 29
1032279 TTTTCTGCAT
* * *
1032289 ATTCATGTCATGCAATACATATCATATGA
1 ATTCATGTCATGTAATACATATAATATAA
*
1032318 ATTCATGTCATGTAATACATTTAATATAA
1 ATTCATGTCATGTAATACATATAATATAA
1032347 ATTCATGTCATGTA
1 ATTCATGTCATGTA
1032361 TCATAATATG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.39
Consensus pattern (29 bp):
ATTCATGTCATGTAATACATATAATATAA
Found at i:1032806 original size:67 final size:68
Alignment explanation
Indices: 1032664--1032815 Score: 225
Period size: 68 Copynumber: 2.2 Consensus size: 68
1032654 TTTTTCTCAT
* * *
1032664 GGGGGAATCGGTTCCCCCCCTGGGGGTATCGATTCCCATCAAGTAATCTGGAATTTCATATACGA
1 GGGGGTATCGGTTCCCCCCCTGGGGGTATCGATTCCCATCAAGCAATCTGGAATATCATATACGA
1032729 TGA
66 TGA
* * * * *
1032732 GGGGGTATCGGTTCCCCCCCTGGGGGTATCGATTCCCCTCTAGCATTCTGGAA-ATCATATTCGT
1 GGGGGTATCGGTTCCCCCCCTGGGGGTATCGATTCCCATCAAGCAATCTGGAATATCATATACGA
1032796 TGA
66 TGA
1032799 GGGGGTATCGGTTCCCC
1 GGGGGTATCGGTTCCCC
1032816 TTGAATGGGT
Statistics
Matches: 76, Mismatches: 8, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
67 28 0.37
68 48 0.63
ACGTcount: A:0.18, C:0.26, G:0.28, T:0.28
Consensus pattern (68 bp):
GGGGGTATCGGTTCCCCCCCTGGGGGTATCGATTCCCATCAAGCAATCTGGAATATCATATACGA
TGA
Found at i:1035320 original size:32 final size:33
Alignment explanation
Indices: 1035279--1035434 Score: 132
Period size: 31 Copynumber: 4.9 Consensus size: 33
1035269 AGTCGAGGGT
*
1035279 TTACCTATGTTC-TACGGAACATAT-GAGCATAA
1 TTACCTATGTTCTTACGGAACATATGGA-CAGAA
* *
1035311 TTACCTATG-TCTTTCGGGACATATGGACAGAA
1 TTACCTATGTTCTTACGGAACATATGGACAGAA
** *
1035343 TTACCTATGTT-TT-TTGAGACATATGGACAGTA
1 TTACCTATGTTCTTACGGA-ACATATGGACAGAA
* *
1035375 -TACCTATGTTC-TAAGGAACATATGGACAG-T
1 TTACCTATGTTCTTACGGAACATATGGACAGAA
* * *
1035405 TTACCTAGGTTC-TACGGGACCTATGGACAG
1 TTACCTATGTTCTTACGGAACATATGGACAG
1035435 TTGCCGAGGT
Statistics
Matches: 103, Mismatches: 14, Indels: 15
0.78 0.11 0.11
Matches are distributed among these distances:
31 51 0.50
32 49 0.48
33 3 0.03
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (33 bp):
TTACCTATGTTCTTACGGAACATATGGACAGAA
Found at i:1035547 original size:17 final size:18
Alignment explanation
Indices: 1035514--1035547 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
1035504 GTGGTGCACA
1035514 ACCTTAATGTACTCAAAT
1 ACCTTAATGTACTCAAAT
*
1035532 ACCTTAA-GTTCTCAAA
1 ACCTTAATGTACTCAAA
1035548 AATGTATATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.38, C:0.24, G:0.06, T:0.32
Consensus pattern (18 bp):
ACCTTAATGTACTCAAAT
Found at i:1039131 original size:31 final size:32
Alignment explanation
Indices: 1039009--1039148 Score: 135
Period size: 32 Copynumber: 4.4 Consensus size: 32
1038999 AGTCGAGGGT
*
1039009 TTACCTATGTTCTATGGAACATATGCACAGAA
1 TTACCTATGTTCTATGGAACATATGGACAGAA
* * *
1039041 TTACCTATG-TCTTTCGGGACACATGGACAGAA
1 TTACCTATGTTCTAT-GGAACATATGGACAGAA
* * * *
1039073 TTACCTATGTT-TTTTGAGACATGTGGACAGTA
1 TTACCTATGTTCTATGGA-ACATATGGACAGAA
* *
1039105 -TACCTATGTTCTAAGGAACATATGGACAG-T
1 TTACCTATGTTCTATGGAACATATGGACAGAA
*
1039135 TTACCTAGGTTCTA
1 TTACCTATGTTCTA
1039149 CGGGACCTAT
Statistics
Matches: 88, Mismatches: 15, Indels: 11
0.77 0.13 0.10
Matches are distributed among these distances:
31 38 0.43
32 49 0.56
33 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (32 bp):
TTACCTATGTTCTATGGAACATATGGACAGAA
Found at i:1041759 original size:60 final size:60
Alignment explanation
Indices: 1041646--1041773 Score: 150
Period size: 60 Copynumber: 2.1 Consensus size: 60
1041636 ATAAGCTAGT
* * ***
1041646 AGATGAATGTCTCCCCATGGAACTAGAAGACATAACCATATTGAGGTCGAAGAAACTGGC
1 AGATGAATATCTCCCCATGGAACTAGAAGACATAACCATATTGACGAAAAAGAAACTGGC
* * * **
1041706 AGATGATTATCTCCCCCTGGAACTAGAA-AGCATATCCATATTGACGAAAAAGAAGTTGGC
1 AGATGAATATCTCCCCATGGAACTAGAAGA-CATAACCATATTGACGAAAAAGAAACTGGC
1041766 AGATGAAT
1 AGATGAAT
1041774 GCATCCCTAT
Statistics
Matches: 56, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
59 1 0.02
60 55 0.98
ACGTcount: A:0.38, C:0.19, G:0.22, T:0.22
Consensus pattern (60 bp):
AGATGAATATCTCCCCATGGAACTAGAAGACATAACCATATTGACGAAAAAGAAACTGGC
Found at i:1046120 original size:16 final size:16
Alignment explanation
Indices: 1046099--1046131 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
1046089 AATAGAATCG
*
1046099 TTTTATTTAAATAACA
1 TTTTATTTAAAAAACA
1046115 TTTTATTTAAAAAACA
1 TTTTATTTAAAAAACA
1046131 T
1 T
1046132 GCTCAATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (16 bp):
TTTTATTTAAAAAACA
Found at i:1046336 original size:17 final size:18
Alignment explanation
Indices: 1046294--1046339 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
1046284 ATAAATGAAT
*
1046294 TTTAAGATTTTATATTCGA
1 TTTAA-ATTATATATTCGA
*
1046313 TTTAAATTATATATTTGA
1 TTTAAATTATATATTCGA
1046331 -TTAAATTAT
1 TTTAAATTAT
1046340 TCAAATATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 9 0.36
18 11 0.44
19 5 0.20
ACGTcount: A:0.37, C:0.02, G:0.07, T:0.54
Consensus pattern (18 bp):
TTTAAATTATATATTCGA
Found at i:1047413 original size:4 final size:4
Alignment explanation
Indices: 1047404--1047430 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
1047394 CATGTATACA
1047404 TATT TATT TATT TATT TATT TATT TAT
1 TATT TATT TATT TATT TATT TATT TAT
1047431 AAAGCAAGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TATT
Found at i:1053548 original size:3 final size:3
Alignment explanation
Indices: 1053542--1053634 Score: 186
Period size: 3 Copynumber: 31.0 Consensus size: 3
1053532 TTGTAACATG
1053542 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1053590 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1053635 ATAAAGATAA
Statistics
Matches: 90, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 90 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:1055383 original size:30 final size:30
Alignment explanation
Indices: 1055327--1055419 Score: 82
Period size: 30 Copynumber: 3.1 Consensus size: 30
1055317 CTGTTTCTTG
* * *
1055327 GTCCCTATATTATTTAACCCTT-GTGGCCAA
1 GTCCCTATACTATTT-AGCATTAGTGGCCAA
*
1055357 GTCGCTATACTATTTAGCATTAGTGGCCCAA
1 GTCCCTATACTATTTAGCATTAGTGG-CCAA
* * * *
1055388 -TCCCTATACTATTTGGCTTTGGTGGGCAA
1 GTCCCTATACTATTTAGCATTAGTGGCCAA
1055417 GTC
1 GTC
1055420 TCTTGGAACG
Statistics
Matches: 51, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
29 7 0.14
30 40 0.78
31 4 0.08
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.35
Consensus pattern (30 bp):
GTCCCTATACTATTTAGCATTAGTGGCCAA
Found at i:1057975 original size:47 final size:47
Alignment explanation
Indices: 1057931--1058021 Score: 182
Period size: 47 Copynumber: 1.9 Consensus size: 47
1057921 CGATCAGTGT
1057931 CCACTTCATGAAAAAAGTCAAAACAAGAATATGCCCTCTCTCAGTTG
1 CCACTTCATGAAAAAAGTCAAAACAAGAATATGCCCTCTCTCAGTTG
1057978 CCACTTCATGAAAAAAGTCAAAACAAGAATATGCCCTCTCTCAG
1 CCACTTCATGAAAAAAGTCAAAACAAGAATATGCCCTCTCTCAG
1058022 CTATAATGAG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.40, C:0.26, G:0.12, T:0.22
Consensus pattern (47 bp):
CCACTTCATGAAAAAAGTCAAAACAAGAATATGCCCTCTCTCAGTTG
Found at i:1058084 original size:15 final size:14
Alignment explanation
Indices: 1058064--1058114 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
1058054 GTGTTCTATT
*
1058064 TAAATATTATTTATA
1 TAAATA-TAATTATA
1058079 TAAATATAATTATA
1 TAAATATAATTATA
*
1058093 T-AATTTAATATATA
1 TAAATATAAT-TATA
*
1058107 TATATATA
1 TAAATATA
1058115 TATATATATT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
13 7 0.23
14 13 0.43
15 10 0.33
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
TAAATATAATTATA
Found at i:1058094 original size:2 final size:2
Alignment explanation
Indices: 1058075--1058123 Score: 52
Period size: 2 Copynumber: 26.5 Consensus size: 2
1058065 AAATATTATT
* *
1058075 TA TA TA AA TA TA -A T- TA TA TA -A TT TA -A TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1058113 TA TA TA TA TA T
1 TA TA TA TA TA T
1058124 TGTTATCGTT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
1 4 0.10
2 35 0.90
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:1078468 original size:44 final size:44
Alignment explanation
Indices: 1078357--1078520 Score: 147
Period size: 44 Copynumber: 3.8 Consensus size: 44
1078347 TATCTAATTT
* * ***
1078357 TTTTTAAATCTTATTTTTTACCTTTATAATT-AGAGTATCTAAT-
1 TTTTTAAATCTCACTTTTTACCTTTATAATTAAG-GCCCCTAATG
* * *
1078400 TTTTT-AATC-CAACTTTTTATCTTTATATTTGAGGCCCCTAATG
1 TTTTTAAATCTC-ACTTTTTACCTTTATAATTAAGGCCCCTAATG
* * ** *
1078443 TTTTTCAATCTCAGTTTTTACCTTTATAATTAAGGCTTCTAATT
1 TTTTTAAATCTCACTTTTTACCTTTATAATTAAGGCCCCTAATG
* *
1078487 TTTTTAAATCTCACTTTCTACTTTTATAATTAAG
1 TTTTTAAATCTCACTTTTTACCTTTATAATTAAG
1078521 ACATATTTTT
Statistics
Matches: 98, Mismatches: 18, Indels: 9
0.78 0.14 0.07
Matches are distributed among these distances:
42 26 0.27
43 12 0.12
44 59 0.60
45 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.06, T:0.52
Consensus pattern (44 bp):
TTTTTAAATCTCACTTTTTACCTTTATAATTAAGGCCCCTAATG
Found at i:1079276 original size:25 final size:26
Alignment explanation
Indices: 1079229--1079277 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
1079219 CCATTGAATA
*
1079229 AATTATTTAAATAAATTTTTATATTT
1 AATTATTTAAATAAATTTATATATTT
* *
1079255 AATTCTTT-AATATATTTATATAT
1 AATTATTTAAATAAATTTATATAT
1079278 ATATATATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 13 0.65
26 7 0.35
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (26 bp):
AATTATTTAAATAAATTTATATATTT
Found at i:1080658 original size:13 final size:14
Alignment explanation
Indices: 1080604--1080658 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 14
1080594 TTAAGTATTT
1080604 TTTTATTTATTTAA
1 TTTTATTTATTTAA
1080618 TATTTGATTTATTTAA
1 T-TTT-ATTTATTTAA
* *
1080634 TTTGA-TCATTTAA
1 TTTTATTTATTTAA
1080647 TTTTATTT-TTTA
1 TTTTATTTATTTA
1080659 TGTAGGGCAA
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
13 15 0.44
14 3 0.09
15 5 0.15
16 11 0.32
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (14 bp):
TTTTATTTATTTAA
Found at i:1081501 original size:34 final size:34
Alignment explanation
Indices: 1081402--1081503 Score: 116
Period size: 34 Copynumber: 3.0 Consensus size: 34
1081392 CTAATGTTAC
* *** * *
1081402 GAACGCTAAAAGAACATGTTTGTGAACATTATAC
1 GAACGCTAAATGAACATGTTCACGAACATTAAAT
*
1081436 GAACGCTAAATGAACATGTTCACGGACATTAAAT
1 GAACGCTAAATGAACATGTTCACGAACATTAAAT
*
1081470 GAACGCT-AATCGGACATGTTCACGAACATTAAAT
1 GAACGCTAAAT-GAACATGTTCACGAACATTAAAT
1081504 TAATGTTAAA
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
33 3 0.05
34 55 0.95
ACGTcount: A:0.40, C:0.18, G:0.18, T:0.25
Consensus pattern (34 bp):
GAACGCTAAATGAACATGTTCACGAACATTAAAT
Found at i:1081548 original size:24 final size:22
Alignment explanation
Indices: 1081521--1081582 Score: 61
Period size: 24 Copynumber: 2.6 Consensus size: 22
1081511 AAACGAACGC
**
1081521 TAAACAAACATGTTTGCAAACATT
1 TAAA-AAACATGTTCACAAACA-T
1081545 TAAAAGAACATGTTCACAAACAT
1 TAAAA-AACATGTTCACAAACAT
*
1081568 TAAATGAACATGTTC
1 TAAA-AAACATGTTC
1081583 GTGAACGTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
23 15 0.45
24 18 0.55
ACGTcount: A:0.47, C:0.16, G:0.10, T:0.27
Consensus pattern (22 bp):
TAAAAAACATGTTCACAAACAT
Found at i:1081576 original size:23 final size:24
Alignment explanation
Indices: 1081527--1081582 Score: 78
Period size: 23 Copynumber: 2.4 Consensus size: 24
1081517 ACGCTAAACA
**
1081527 AACATGTTTGCAAACATTTAAAAG
1 AACATGTTCACAAACATTTAAAAG
*
1081551 AACATGTTCACAAACA-TTAAATG
1 AACATGTTCACAAACATTTAAAAG
1081574 AACATGTTC
1 AACATGTTC
1081583 GTGAACGTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
23 15 0.52
24 14 0.48
ACGTcount: A:0.45, C:0.16, G:0.11, T:0.29
Consensus pattern (24 bp):
AACATGTTCACAAACATTTAAAAG
Found at i:1081690 original size:30 final size:30
Alignment explanation
Indices: 1081604--1081691 Score: 79
Period size: 30 Copynumber: 2.9 Consensus size: 30
1081594 ACGAACAATG
* * *
1081604 ACACCTTCAAAAATAAATAAACGAACAGGA
1 ACACCTACAAAAATAAACAAACGAACACGA
** ** * *
1081634 ACATAATATTAAAA-AATCAAAAGAACACGA
1 ACA-CCTACAAAAATAAACAAACGAACACGA
1081664 ACACCTACAAAAATAAACAAACGAACAC
1 ACACCTACAAAAATAAACAAACGAACAC
1081692 AAACTTAATC
Statistics
Matches: 41, Mismatches: 15, Indels: 4
0.68 0.25 0.07
Matches are distributed among these distances:
29 6 0.15
30 30 0.73
31 5 0.12
ACGTcount: A:0.60, C:0.20, G:0.07, T:0.12
Consensus pattern (30 bp):
ACACCTACAAAAATAAACAAACGAACACGA
Found at i:1083189 original size:21 final size:21
Alignment explanation
Indices: 1083143--1083196 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
1083133 GATTCTGACT
1083143 ATCGCATTGCGATTTTCCAAA
1 ATCGCATTGCGATTTTCCAAA
* *
1083164 ATCGCGTTGCGATTTTCCTAA
1 ATCGCATTGCGATTTTCCAAA
* *
1083185 TTCGCAATGCGA
1 ATCGCATTGCGA
1083197 ATATGTAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.33
Consensus pattern (21 bp):
ATCGCATTGCGATTTTCCAAA
Found at i:1083207 original size:41 final size:40
Alignment explanation
Indices: 1083162--1083297 Score: 164
Period size: 41 Copynumber: 3.4 Consensus size: 40
1083152 CGATTTTCCA
** * * *
1083162 AAATCGCGTTGCGATTTTCCTAATTCGCAATGCGAATATGT
1 AAATCGCAATGCGA-TTTCGTAAATCGCAATGCGAATACGT
* * * *
1083203 AAATCGCAACGCGAATTTGGAAAATCGCAATGCGATTACGT
1 AAATCGCAATGCG-ATTTCGTAAATCGCAATGCGAATACGT
*
1083244 AAATCGCAATGCGATTACGTAAATCGCAATGCGAATACGT
1 AAATCGCAATGCGATTTCGTAAATCGCAATGCGAATACGT
1083284 AAATCGCAATGCGA
1 AAATCGCAATGCGA
1083298 ATCTGACTAT
Statistics
Matches: 80, Mismatches: 14, Indels: 3
0.82 0.14 0.03
Matches are distributed among these distances:
40 37 0.46
41 42 0.52
42 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.25
Consensus pattern (40 bp):
AAATCGCAATGCGATTTCGTAAATCGCAATGCGAATACGT
Found at i:1083211 original size:20 final size:20
Alignment explanation
Indices: 1083186--1083299 Score: 156
Period size: 20 Copynumber: 5.7 Consensus size: 20
1083176 TTTTCCTAAT
*
1083186 TCGCAATGCGAATATGTAAA
1 TCGCAATGCGAATACGTAAA
* ** *
1083206 TCGCAACGCGAATTTGGAAAA
1 TCGCAATGCGAA-TACGTAAA
*
1083227 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
*
1083247 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
1083267 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
1083287 TCGCAATGCGAAT
1 TCGCAATGCGAAT
1083300 CTGACTATCG
Statistics
Matches: 83, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
20 68 0.82
21 15 0.18
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.23
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:1083229 original size:21 final size:20
Alignment explanation
Indices: 1083186--1083317 Score: 129
Period size: 20 Copynumber: 6.5 Consensus size: 20
1083176 TTTTCCTAAT
*
1083186 TCGCAATGCGAATATGTAAA
1 TCGCAATGCGAATATGAAAA
* *
1083206 TCGCAACGCGAATTTGGAAAA
1 TCGCAATGCGAATAT-GAAAA
* * *
1083227 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGAATATGAAAA
* * *
1083247 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGAATATGAAAA
* *
1083267 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATATGAAAA
* **
1083287 TCGCAATGCGAATCTGACTA
1 TCGCAATGCGAATATGAAAA
1083307 TCGCAATGCGA
1 TCGCAATGCGA
1083318 TTTACATAGC
Statistics
Matches: 97, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
20 82 0.85
21 15 0.15
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (20 bp):
TCGCAATGCGAATATGAAAA
Found at i:1083310 original size:40 final size:39
Alignment explanation
Indices: 1083186--1083317 Score: 151
Period size: 40 Copynumber: 3.3 Consensus size: 39
1083176 TTTTCCTAAT
* * **
1083186 TCGCAATGCGAATATGTAAATCGCAACGCGAATTTGGAAAA
1 TCGCAATGCGAATACGTAAATCGCAATGCGAA-TT-GACTA
*
1083227 TCGCAATGCGATTACGTAAATCGCAATGCG-ATT-ACGTAAA
1 TCGCAATGCGAATACGTAAATCGCAATGCGAATTGAC-T--A
1083267 TCGCAATGCGAATACGTAAATCGCAATGCGAATCTGACTA
1 TCGCAATGCGAATACGTAAATCGCAATGCGAAT-TGACTA
1083307 TCGCAATGCGA
1 TCGCAATGCGA
1083318 TTTACATAGC
Statistics
Matches: 79, Mismatches: 6, Indels: 13
0.81 0.06 0.13
Matches are distributed among these distances:
37 1 0.01
39 2 0.03
40 43 0.54
41 29 0.37
42 2 0.03
43 2 0.03
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (39 bp):
TCGCAATGCGAATACGTAAATCGCAATGCGAATTGACTA
Found at i:1083512 original size:22 final size:22
Alignment explanation
Indices: 1083487--1083561 Score: 78
Period size: 22 Copynumber: 3.4 Consensus size: 22
1083477 ACTCTCTAAG
* *
1083487 ACGACATCCGTCCCCATCTCCA
1 ACGAAATCAGTCCCCATCTCCA
* *
1083509 ACGAAATCAATCCCCATCTCCG
1 ACGAAATCAGTCCCCATCTCCA
* * *
1083531 ACGATATCAGTCTCCATCTCCG
1 ACGAAATCAGTCCCCATCTCCA
*
1083553 GCGAAATCA
1 ACGAAATCA
1083562 TTCACAGTCA
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 44 1.00
ACGTcount: A:0.28, C:0.40, G:0.12, T:0.20
Consensus pattern (22 bp):
ACGAAATCAGTCCCCATCTCCA
Found at i:1083938 original size:20 final size:20
Alignment explanation
Indices: 1083913--1083965 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
1083903 CGATTTTCAT
1083913 TTCGCGTTGCGATAGTCAAA
1 TTCGCGTTGCGATAGTCAAA
**
1083933 TTCGCGTTGCGATAGTCATT
1 TTCGCGTTGCGATAGTCAAA
*
1083953 TTCGTGTTGCGAT
1 TTCGCGTTGCGAT
1083966 TTAAAGTTTC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.17, C:0.19, G:0.26, T:0.38
Consensus pattern (20 bp):
TTCGCGTTGCGATAGTCAAA
Found at i:1085867 original size:20 final size:20
Alignment explanation
Indices: 1085842--1086016 Score: 153
Period size: 20 Copynumber: 9.4 Consensus size: 20
1085832 AATAGTTTAT
1085842 TATCGCAATGCGAAAATGAC
1 TATCGCAATGCGAAAATGAC
*
1085862 TATCGCAACGCGAAAATGAC
1 TATCGCAATGCGAAAATGAC
*
1085882 TATCGCAA--CG-AGA-GA-
1 TATCGCAATGCGAAAATGAC
*
1085897 -ATCGCAATGCG-AAATGAA
1 TATCGCAATGCGAAAATGAC
*
1085915 AATCGCAA--C-AACAA--A-
1 TATCGCAATGCGAA-AATGAC
* *
1085930 -ATCGCAACGCGAAAATAAC
1 TATCGCAATGCGAAAATGAC
*
1085949 TATCGTAATGCGAAAATGAC
1 TATCGCAATGCGAAAATGAC
1085969 TATCGCAATGCGAAAATGAC
1 TATCGCAATGCGAAAATGAC
** *
1085989 TATCGCAATGCGAATTTGAT
1 TATCGCAATGCGAAAATGAC
1086009 TATCGCAA
1 TATCGCAA
1086017 CGAAAGAATC
Statistics
Matches: 131, Mismatches: 10, Indels: 28
0.78 0.06 0.17
Matches are distributed among these distances:
14 14 0.11
16 10 0.08
17 8 0.06
18 5 0.04
19 7 0.05
20 87 0.66
ACGTcount: A:0.42, C:0.21, G:0.19, T:0.19
Consensus pattern (20 bp):
TATCGCAATGCGAAAATGAC
Found at i:1085920 original size:33 final size:33
Alignment explanation
Indices: 1085863--1085943 Score: 99
Period size: 33 Copynumber: 2.4 Consensus size: 33
1085853 GAAAATGACT
** * * *
1085863 ATCGCAACGCGAAAATGACTATCGCAACGAGAGA
1 ATCGCAACGCG-AAATGAAAATCGCAACAACAAA
*
1085897 ATCGCAATGCGAAATGAAAATCGCAACAACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACAACAAA
1085930 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
1085944 ATAACTATCG
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
33 30 0.75
34 10 0.25
ACGTcount: A:0.46, C:0.23, G:0.20, T:0.11
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACAACAAA
Found at i:1086086 original size:20 final size:20
Alignment explanation
Indices: 1086063--1086134 Score: 108
Period size: 20 Copynumber: 3.6 Consensus size: 20
1086053 GATTCTCTCG
* *
1086063 TTGCGATAGTTAAATTCTCA
1 TTGCGATAGTCAAATTCGCA
1086083 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCAAATTCGCA
**
1086103 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCAAATTCGCA
1086123 TTGCGATAGTCA
1 TTGCGATAGTCA
1086135 TTTTCGCGTT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.36
Consensus pattern (20 bp):
TTGCGATAGTCAAATTCGCA
Found at i:1086125 original size:40 final size:40
Alignment explanation
Indices: 1086063--1086169 Score: 126
Period size: 40 Copynumber: 2.7 Consensus size: 40
1086053 GATTCTCTCG
* ** *
1086063 TTGCGATAGTTAAATTCTCATTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCATTTTCGCATTGCGATAGTCAAATTCGCA
** *
1086103 TTGCGATAGTCATTTTCGCATTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCATTGCGATAGTCAAATTCGCA
*
1086143 TTAG-GATAGTCATTTTCGCGTTGCGAT
1 TT-GCGATAGTCATTTTCGCATTGCGAT
1086170 TTTAAGTTTT
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
40 57 0.98
41 1 0.02
ACGTcount: A:0.22, C:0.18, G:0.21, T:0.38
Consensus pattern (40 bp):
TTGCGATAGTCATTTTCGCATTGCGATAGTCAAATTCGCA
Found at i:1086135 original size:20 final size:20
Alignment explanation
Indices: 1086081--1086169 Score: 126
Period size: 20 Copynumber: 4.5 Consensus size: 20
1086071 GTTAAATTCT
**
1086081 CATTGCGATAGTCAAATTCG
1 CATTGCGATAGTCATTTTCG
1086101 CATTGCGATAGTCATTTTCG
1 CATTGCGATAGTCATTTTCG
1086121 CATTGCGATAGTCATTTTCG
1 CATTGCGATAGTCATTTTCG
*
1086141 CGTTAG-GATAGTCATTTTCG
1 CATT-GCGATAGTCATTTTCG
*
1086161 CGTTGCGAT
1 CATTGCGAT
1086170 TTTAAGTTTT
Statistics
Matches: 64, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
19 1 0.02
20 62 0.97
21 1 0.02
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.37
Consensus pattern (20 bp):
CATTGCGATAGTCATTTTCG
Found at i:1086744 original size:21 final size:20
Alignment explanation
Indices: 1086653--1086744 Score: 60
Period size: 21 Copynumber: 4.4 Consensus size: 20
1086643 GACTCACCTG
*
1086653 TCATCGTTCAAGAGGTCTCCCC
1 TCATCGTTCAAGAGG-C-CCTC
*
1086675 T-ATCGTTCAAGAGGCCCCTA
1 TCATCGTTCAAGAGG-CCCTC
** *
1086695 TCATCCCTCAAGAGTCCTCTC
1 TCATCGTTCAAGAGGCC-CTC
* * *
1086716 CCACCGTTCAAGAGGCCACTG
1 TCATCGTTCAAGAGGCC-CTC
1086737 TCATCGTT
1 TCATCGTT
1086745 GAAAAGGTCC
Statistics
Matches: 52, Mismatches: 16, Indels: 5
0.71 0.22 0.07
Matches are distributed among these distances:
20 5 0.10
21 46 0.88
22 1 0.02
ACGTcount: A:0.21, C:0.36, G:0.17, T:0.26
Consensus pattern (20 bp):
TCATCGTTCAAGAGGCCCTC
Found at i:1086759 original size:42 final size:42
Alignment explanation
Indices: 1086650--1086760 Score: 118
Period size: 42 Copynumber: 2.6 Consensus size: 42
1086640 CCCGACTCAC
* * *
1086650 CTGTCATCGTTCAAGAGGTCTCC-CCTATCGTTCAAGAGGCCC
1 CTGTCATCGTTCAAGAGGTC-CCTCCCACCGTTCAAGAGGCCA
* **
1086692 CTATCATCCCTCAAGA-GTCCTCTCCCACCGTTCAAGAGGCCA
1 CTGTCATCGTTCAAGAGGTCC-CTCCCACCGTTCAAGAGGCCA
* *
1086734 CTGTCATCGTTGAAAAGGTCCCTCCCA
1 CTGTCATCGTTCAAGAGGTCCCTCCCA
1086761 ATATTCTAGA
Statistics
Matches: 55, Mismatches: 11, Indels: 6
0.76 0.15 0.08
Matches are distributed among these distances:
40 1 0.02
41 4 0.07
42 46 0.84
43 4 0.07
ACGTcount: A:0.22, C:0.36, G:0.18, T:0.24
Consensus pattern (42 bp):
CTGTCATCGTTCAAGAGGTCCCTCCCACCGTTCAAGAGGCCA
Found at i:1088159 original size:14 final size:14
Alignment explanation
Indices: 1088140--1088175 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
1088130 ATTGTTTAAT
1088140 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
1088154 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
1088168 TGATTTGT
1 TGATTTGT
1088176 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:1088369 original size:34 final size:33
Alignment explanation
Indices: 1088293--1088376 Score: 114
Period size: 33 Copynumber: 2.5 Consensus size: 33
1088283 CGCAACGCGG
* * **
1088293 AAATGAATATCGCAACAAGAGAATCGCAATGTG
1 AAATGAAAATCGCAACGAGAGAATCGCAATGAA
1088326 AAATGAAAATCGCAACGAGAGAATCGCAATGCAA
1 AAATGAAAATCGCAACGAGAGAATCGCAATG-AA
*
1088360 AAATGAAAATCTCAACG
1 AAATGAAAATCGCAACG
1088377 CGAAACTAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
33 29 0.64
34 16 0.36
ACGTcount: A:0.49, C:0.17, G:0.19, T:0.15
Consensus pattern (33 bp):
AAATGAAAATCGCAACGAGAGAATCGCAATGAA
Found at i:1088448 original size:33 final size:33
Alignment explanation
Indices: 1088391--1088486 Score: 113
Period size: 33 Copynumber: 2.8 Consensus size: 33
1088381 ACTAAATTCG
1088391 CGTTGCGATTTTCATTTTCGCATTGCGATTCA-CT
1 CGTTGCGATTTTCA-TTTCGCATTGCGATT-ATCT
* *
1088425 CGTTGTGATTTTCATTTCGCATTGTGATTATCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTATCT
** *
1088458 CGTTGCGATAGTCATTTCCGCGTTGCGAT
1 CGTTGCGATTTTCATTT-CGCATTGCGAT
1088487 AGTCAATTCC
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
32 1 0.02
33 30 0.57
34 22 0.42
ACGTcount: A:0.15, C:0.21, G:0.21, T:0.44
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTATCT
Found at i:1088483 original size:20 final size:20
Alignment explanation
Indices: 1088458--1088546 Score: 144
Period size: 20 Copynumber: 4.5 Consensus size: 20
1088448 GTGATTATCT
1088458 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
1088478 CGTTGCGATAGTCAATTCCG
1 CGTTGCGATAGTCATTTCCG
1088498 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
1088518 TGTTGCGATAGTCATATT-CG
1 CGTTGCGATAGTCAT-TTCCG
1088538 CGTTGCGAT
1 CGTTGCGAT
1088547 TTCCGCATTG
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
20 62 0.97
21 2 0.03
ACGTcount: A:0.17, C:0.22, G:0.26, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:1091046 original size:24 final size:23
Alignment explanation
Indices: 1090983--1091034 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 23
1090973 AAAATCATCA
1090983 AAATTCGAGTATTGACCAAGATC
1 AAATTCGAGTATTGACCAAGATC
* *
1091006 AAAGTCTGGGTATTGACCAAGATC
1 AAATTC-GAGTATTGACCAAGATC
1091030 AAATT
1 AAATT
1091035 TCGAATACTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
23 5 0.20
24 20 0.80
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.27
Consensus pattern (23 bp):
AAATTCGAGTATTGACCAAGATC
Found at i:1091898 original size:20 final size:20
Alignment explanation
Indices: 1091873--1091947 Score: 114
Period size: 20 Copynumber: 3.8 Consensus size: 20
1091863 GAAATTCAGT
1091873 ATTGCGATAGTCAGAATCTC
1 ATTGCGATAGTCAGAATCTC
1091893 ATTGCGATAGTCAGAATCTC
1 ATTGCGATAGTCAGAATCTC
* * * *
1091913 GTTGTGATAGTCAGATTCGC
1 ATTGCGATAGTCAGAATCTC
1091933 ATTGCGATAGTCAGA
1 ATTGCGATAGTCAGA
1091948 TTCGCATTAC
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (20 bp):
ATTGCGATAGTCAGAATCTC
Found at i:1091948 original size:20 final size:20
Alignment explanation
Indices: 1091873--1091960 Score: 113
Period size: 20 Copynumber: 4.4 Consensus size: 20
1091863 GAAATTCAGT
*
1091873 ATTGCGATAGTCAGAATCTC
1 ATTGCGATAGTCAGAATCGC
*
1091893 ATTGCGATAGTCAGAATCTC
1 ATTGCGATAGTCAGAATCGC
* * *
1091913 GTTGTGATAGTCAGATTCGC
1 ATTGCGATAGTCAGAATCGC
*
1091933 ATTGCGATAGTCAGATTCGC
1 ATTGCGATAGTCAGAATCGC
*
1091953 ATTACGAT
1 ATTGCGAT
1091961 TTACGTATTC
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (20 bp):
ATTGCGATAGTCAGAATCGC
Found at i:1091970 original size:20 final size:20
Alignment explanation
Indices: 1091947--1092040 Score: 107
Period size: 20 Copynumber: 4.7 Consensus size: 20
1091937 CGATAGTCAG
*
1091947 ATTCGCATTACGATTTACGT
1 ATTCGCATTGCGATTTACGT
1091967 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
* * * **
1091987 AATCACATTGCGATTTTCCAA
1 ATTCGCATTGCGA-TTTACGT
*
1092008 ATTCGCGTTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
*
1092028 ATTCACATTGCGA
1 ATTCGCATTGCGA
1092041 ATTAGGAAAA
Statistics
Matches: 59, Mismatches: 14, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
20 45 0.76
21 14 0.24
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.37
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:1098780 original size:2 final size:2
Alignment explanation
Indices: 1098773--1098802 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1098763 CCAGCATTAT
1098773 TA 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 TA
1098803 ATTGCTGGGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1108287 original size:20 final size:21
Alignment explanation
Indices: 1108257--1108296 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
1108247 AACCGTTGGA
1108257 GCCTCATGGTATCGATACTAT
1 GCCTCATGGTATCGATACTAT
1108278 GCCT-ATGGTATCGATACTA
1 GCCTCATGGTATCGATACTA
1108297 CTATACAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.33
Consensus pattern (21 bp):
GCCTCATGGTATCGATACTAT
Found at i:1114615 original size:186 final size:183
Alignment explanation
Indices: 1114240--1114616 Score: 675
Period size: 186 Copynumber: 2.0 Consensus size: 183
1114230 GAAACATGTC
1114240 TTTTTACACTACGGAAGAACAAGTTTACGAGCTTTTCTCTAGAGCTGGTGAAATTAAGAAATAAT
1 TTTTTACACTACGGAAGAACAAGTTTACGAGCTTTTCTCTAGAGCTGGTGAAATTAAGAAATAAT
1114305 CATGGGCCTTGACAAGAACTCTAAAACACTTGTGGATTTGCTTCGTCTTGTAAACTCTCTTTTCC
66 CATGGGCCTTGACAAGAACTCTAAAACACTTGTGGATTTGCTTCGTCTTGTAAACTCTCTTTTCC
1114370 CCGTAAATTTTGGTAATATTCGTTTTACAGCTATTAATTGGTTGCTGCGTTTTTTT
131 CCGTAAATTTTGGTAATATTCGTTTTACAGCTATTAATTGGTTGCTGCG---TTTT
1114426 TTTTTACACTACGGAAGAACAAGTTTACGAGCTTTTCTCTAGAGCTGGTGAAATTAAGAAAATAA
1 TTTTTACACTACGGAAGAACAAGTTTACGAGCTTTTCTCTAGAGCTGGTGAAATTAAG-AAATAA
1114491 TCATGGGCCTTGACAAGAACTCTAAAACACCTTGTGGATTTTGCTTCGTCTTGT-AACTCTCTTT
65 TCATGGGCCTTGACAAGAACTCTAAAACA-CTTGTGGA-TTTGCTTCGTCTTGTAAACTCTC-TT
1114555 TTCCCCGTAAATTTTGGTAATATTCGTTTTACAGCTATTTAATTGGTTGCTGCGTTTT
127 TTCCCCGTAAATTTTGGTAATATTCGTTTTACAGCTA-TTAATTGGTTGCTGCGTTTT
1114613 TTTT
1 TTTT
1114617 GGGCTTTTTT
Statistics
Matches: 186, Mismatches: 0, Indels: 9
0.95 0.00 0.05
Matches are distributed among these distances:
186 58 0.31
187 43 0.23
188 15 0.08
189 54 0.29
190 16 0.09
ACGTcount: A:0.26, C:0.17, G:0.18, T:0.39
Consensus pattern (183 bp):
TTTTTACACTACGGAAGAACAAGTTTACGAGCTTTTCTCTAGAGCTGGTGAAATTAAGAAATAAT
CATGGGCCTTGACAAGAACTCTAAAACACTTGTGGATTTGCTTCGTCTTGTAAACTCTCTTTTCC
CCGTAAATTTTGGTAATATTCGTTTTACAGCTATTAATTGGTTGCTGCGTTTT
Found at i:1124858 original size:17 final size:18
Alignment explanation
Indices: 1124814--1124882 Score: 52
Period size: 17 Copynumber: 3.7 Consensus size: 18
1124804 TAATTTATAT
*
1124814 AAAAATACATAAATAAGTA
1 AAAAATACATAAACAA-TA
1124833 ATAATAATA-ATAAACAATA
1 A-AA-AATACATAAACAATA
**
1124852 AAAAATATTTAAAC-ATA
1 AAAAATACATAAACAATA
*
1124869 AAATATAACATAAA
1 AAAAAT-ACATAAA
1124883 ATAAACACTA
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
17 12 0.29
18 12 0.29
19 4 0.10
20 9 0.22
21 4 0.10
ACGTcount: A:0.68, C:0.06, G:0.01, T:0.25
Consensus pattern (18 bp):
AAAAATACATAAACAATA
Found at i:1125593 original size:12 final size:10
Alignment explanation
Indices: 1125561--1125591 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
1125551 TTTATCACAC
1125561 CAAATTCTCT
1 CAAATTCTCT
1125571 CAAATTCTCT
1 CAAATTCTCT
*
1125581 CAAATACTCT
1 CAAATTCTCT
1125591 C
1 C
1125592 TCTTTTTAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.35
Consensus pattern (10 bp):
CAAATTCTCT
Found at i:1125670 original size:17 final size:18
Alignment explanation
Indices: 1125633--1125671 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
1125623 ATATTATGTA
1125633 TTTAATTTATTTAAGTAT
1 TTTAATTTATTTAAGTAT
*
1125651 TTTACTTTATTTAA-TAT
1 TTTAATTTATTTAAGTAT
1125668 TTTA
1 TTTA
1125672 GTAATATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (18 bp):
TTTAATTTATTTAAGTAT
Found at i:1125928 original size:111 final size:110
Alignment explanation
Indices: 1125735--1125955 Score: 406
Period size: 111 Copynumber: 2.0 Consensus size: 110
1125725 AGGAAATCAT
*
1125735 ATATCTCTACACTTTGCTGATACGATAACATTTAACGTTTTAATTTAATTTAAATTATTAGTAAT
1 ATATCTCGACACTTTGCTGATACGATAACATTTAACGTTTTAATTTAATTTAAATTATTAGTAAT
*
1125800 AATTAGTTGATTTATTTAATGCATGATTATTAGATTAATAATTAA
66 AATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
*
1125845 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACGATAACA-TTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1125910 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
65 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
1125956 TTTTTGTAAT
Statistics
Matches: 107, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
110 28 0.26
111 79 0.74
ACGTcount: A:0.37, C:0.08, G:0.10, T:0.45
Consensus pattern (110 bp):
ATATCTCGACACTTTGCTGATACGATAACATTTAACGTTTTAATTTAATTTAAATTATTAGTAAT
AATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
Found at i:1134348 original size:59 final size:59
Alignment explanation
Indices: 1134256--1134407 Score: 180
Period size: 59 Copynumber: 2.5 Consensus size: 59
1134246 GTGTTTGAGA
* * *
1134256 CCCTTAAGTTTCTATTTTTACTATTTTAGTCCTTTAAATTTCTG-TTTTAGCCATTTTAGT
1 CCCTTAAGTTTCTATTTTGA-TATTTTAGTCCTTTAAATTTATGTTTTTA-CCATTTTAAT
* * * *
1134316 CCCTTAACTTTTTATTTTGATATTTTAGTCCTTTAACTTTATGTTTTTACTATTTTAAT
1 CCCTTAAGTTTCTATTTTGATATTTTAGTCCTTTAAATTTATGTTTTTACCATTTTAAT
* * *
1134375 CCGTTAAGTTTCTATTTTTGTTGTTTTAGTCCT
1 CCCTTAAGTTTCTA-TTTTGATATTTTAGTCCT
1134408 GTAATTTTTT
Statistics
Matches: 78, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
59 40 0.51
60 38 0.49
ACGTcount: A:0.19, C:0.15, G:0.09, T:0.57
Consensus pattern (59 bp):
CCCTTAAGTTTCTATTTTGATATTTTAGTCCTTTAAATTTATGTTTTTACCATTTTAAT
Found at i:1134393 original size:30 final size:30
Alignment explanation
Indices: 1134259--1134434 Score: 143
Period size: 30 Copynumber: 6.1 Consensus size: 30
1134249 TTTGAGACCC
*
1134259 TTAAGTTTCTATTTTTACTATTTTAGTCCT
1 TTAACTTTCTATTTTTACTATTTTAGTCCT
* * * *
1134289 TTAAATTTCT-GTTTTAGCCATTTTAGTCCC
1 TTAACTTTCTATTTTTA-CTATTTTAGTCCT
* *
1134319 TTAACTTTTTATTTTGA-TATTTTAGTCCT
1 TTAACTTTCTATTTTTACTATTTTAGTCCT
* * * *
1134348 TTAACTTTATGTTTTTACTATTTTAATCCG
1 TTAACTTTCTATTTTTACTATTTTAGTCCT
* ** *
1134378 TTAAGTTTCTATTTTTGTTGTTTTAGTCCT
1 TTAACTTTCTATTTTTACTATTTTAGTCCT
*
1134408 GTAA---T-T-TTTTTACTA-TTTAGTCCT
1 TTAACTTTCTATTTTTACTATTTTAGTCCT
1134432 TTA
1 TTA
1134435 TTTTAATGAA
Statistics
Matches: 115, Mismatches: 28, Indels: 12
0.74 0.18 0.08
Matches are distributed among these distances:
24 11 0.10
25 6 0.05
26 1 0.01
27 1 0.01
29 29 0.25
30 63 0.55
31 4 0.03
ACGTcount: A:0.20, C:0.13, G:0.09, T:0.59
Consensus pattern (30 bp):
TTAACTTTCTATTTTTACTATTTTAGTCCT
Found at i:1138239 original size:13 final size:13
Alignment explanation
Indices: 1138206--1138253 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
1138196 AAGAAAAAAT
* *
1138206 AGAAACAAAGCAA
1 AGAAAAAAAACAA
*
1138219 AGGAAAAAAATCAA
1 A-GAAAAAAAACAA
*
1138233 AGAAAAAAAAGAA
1 AGAAAAAAAACAA
1138246 AGAAAAAA
1 AGAAAAAA
1138254 GATAAGAAGC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
13 19 0.63
14 11 0.37
ACGTcount: A:0.77, C:0.06, G:0.15, T:0.02
Consensus pattern (13 bp):
AGAAAAAAAACAA
Found at i:1139630 original size:31 final size:29
Alignment explanation
Indices: 1139595--1139669 Score: 80
Period size: 31 Copynumber: 2.4 Consensus size: 29
1139585 CCTTGAGGCA
1139595 GTTTCTTTGGAAACACAAA-ATCTTTGAGTC
1 GTTTCTTT-GAAACA-AAACATCTTTGAGTC
*
1139625 TGTTTCTCTTAAAACAAAATCATCTTTGAGTC
1 -GTTTCT-TTGAAACAAAA-CATCTTTGAGTC
*
1139657 GTTTCATTGAAAC
1 GTTTCTTTGAAAC
1139670 GAATTTTGTC
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
30 9 0.24
31 16 0.42
32 13 0.34
ACGTcount: A:0.31, C:0.17, G:0.13, T:0.39
Consensus pattern (29 bp):
GTTTCTTTGAAACAAAACATCTTTGAGTC
Found at i:1139901 original size:83 final size:83
Alignment explanation
Indices: 1139758--1139945 Score: 241
Period size: 83 Copynumber: 2.3 Consensus size: 83
1139748 GATGGCTTGT
* * *
1139758 CGTCCTCATCGCGTAGGAACCGTGTCATCCCCCGACCAGACCTCTTCATCACGTAAGAGCCATAT
1 CGTCCTCATCACGTAGGAACCGTGTCATCCCCCGACCAGACATCCTCATCACGTAAGAGCCATAT
*
1139823 CACCCTTAGATAACCAAC
66 CACCCCTAGATAACCAAC
** * * * * *
1139841 CGTCCTCATCACGTAGGAACCGTGTCATCCCTTGACCATATATCCTCATCACGTAGGAGCCGTGT
1 CGTCCTCATCACGTAGGAACCGTGTCATCCCCCGACCAGACATCCTCATCACGTAAGAGCCATAT
* *
1139906 CACCCCTAGATAATCAGC
66 CACCCCTAGATAACCAAC
* *
1139924 CGTCCCCATAACGTAGGAACCG
1 CGTCCTCATCACGTAGGAACCG
1139946 AGTTATCACC
Statistics
Matches: 90, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
83 90 1.00
ACGTcount: A:0.26, C:0.36, G:0.18, T:0.21
Consensus pattern (83 bp):
CGTCCTCATCACGTAGGAACCGTGTCATCCCCCGACCAGACATCCTCATCACGTAAGAGCCATAT
CACCCCTAGATAACCAAC
Found at i:1145139 original size:37 final size:37
Alignment explanation
Indices: 1145086--1145167 Score: 155
Period size: 37 Copynumber: 2.2 Consensus size: 37
1145076 CGATTTAACT
1145086 TGACATTTTCATTCTGCTCAGCAATCTCCTTATGTCA
1 TGACATTTTCATTCTGCTCAGCAATCTCCTTATGTCA
*
1145123 TGGCATTTTCATTCTGCTCAGCAATCTCCTTATGTCA
1 TGACATTTTCATTCTGCTCAGCAATCTCCTTATGTCA
1145160 TGACATTT
1 TGACATTT
1145168 CCTTTCCTCT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 43 1.00
ACGTcount: A:0.21, C:0.26, G:0.12, T:0.41
Consensus pattern (37 bp):
TGACATTTTCATTCTGCTCAGCAATCTCCTTATGTCA
Found at i:1145716 original size:10 final size:10
Alignment explanation
Indices: 1145701--1145726 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
1145691 TTCTTTTTCA
1145701 TTTTTTCAAT
1 TTTTTTCAAT
1145711 TTTTTTCAAT
1 TTTTTTCAAT
1145721 TTTTTT
1 TTTTTT
1145727 ATTTTTTAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.15, C:0.08, G:0.00, T:0.77
Consensus pattern (10 bp):
TTTTTTCAAT
Found at i:1145730 original size:18 final size:17
Alignment explanation
Indices: 1145687--1145733 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 17
1145677 TATTCACAAC
1145687 TTTATTCTTTTTCATTTT
1 TTTATT-TTTTTCATTTT
*
1145705 TTCAATTTTTTTCAATTTT
1 TT-TATTTTTTTC-ATTTT
1145724 TTTATTTTTT
1 TTTATTTTTT
1145734 AGTGGGTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 15 0.60
19 10 0.40
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTATTTTTTTCATTTT
Found at i:1150941 original size:3 final size:3
Alignment explanation
Indices: 1150928--1150962 Score: 54
Period size: 3 Copynumber: 11.7 Consensus size: 3
1150918 CTACCAAAAA
1150928 TAT TA- TAT TAT TATT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TA
1150963 GTAATTTACT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 25 0.83
4 3 0.10
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:1152496 original size:30 final size:30
Alignment explanation
Indices: 1152444--1152653 Score: 192
Period size: 30 Copynumber: 7.1 Consensus size: 30
1152434 TTTGAGTCAC
* * *
1152444 TTAAGTTTATG-TTTTACTATTTTAGCCCT
1 TTAAGTTTCTGTTTTTGCTATTTTAGTCCT
*
1152473 TTAAGTTTCTGTTTTTGCTATTTTAGTCTT
1 TTAAGTTTCTGTTTTTGCTATTTTAGTCCT
* * * * * *
1152503 TTAAATTTTTGTTTTAGCCAGTTTAGTCCC
1 TTAAGTTTCTGTTTTTGCTATTTTAGTCCT
* * *
1152533 TTAACTTTCT-ATTTTGATATTTTAGTCCT
1 TTAAGTTTCTGTTTTTGCTATTTTAGTCCT
* * ** *
1152562 TTAACTTTATGTTTTTAATATTTTAATCCT
1 TTAAGTTTCTGTTTTTGCTATTTTAGTCCT
* * *
1152592 TTAAGTTTCTATTTTTGTTGTTTTAGTCCT
1 TTAAGTTTCTGTTTTTGCTATTTTAGTCCT
* *
1152622 ATAAATTTCTGTTTTTGCTA-TTTAGTCCT
1 TTAAGTTTCTGTTTTTGCTATTTTAGTCCT
1152651 TTA
1 TTA
1152654 TTTTAATGAG
Statistics
Matches: 143, Mismatches: 36, Indels: 4
0.78 0.20 0.02
Matches are distributed among these distances:
29 43 0.30
30 100 0.70
ACGTcount: A:0.20, C:0.12, G:0.10, T:0.58
Consensus pattern (30 bp):
TTAAGTTTCTGTTTTTGCTATTTTAGTCCT
Found at i:1152601 original size:59 final size:58
Alignment explanation
Indices: 1152444--1152653 Score: 206
Period size: 59 Copynumber: 3.6 Consensus size: 58
1152434 TTTGAGTCAC
* * * * *
1152444 TTAAGTTTATGTTTTACTATTTTAGCCCTTTAAGTTTCTGTTTTTGCTATTTTAGTCTT
1 TTAAATTTATGTTTTACTATTTTAGTCCTTTAAGTTTCT-ATTTTGATATTTTAGTCCT
* * * * *
1152503 TTAAATTTTTGTTTTAGCCAGTTTAGTCCCTTAACTTTCTATTTTGATATTTTAGTCCT
1 TTAAATTTATGTTTTA-CTATTTTAGTCCTTTAAGTTTCTATTTTGATATTTTAGTCCT
* * * * *
1152562 TTAACTTTATGTTTTTAATATTTTAATCCTTTAAGTTTCTATTTTTGTTGTTTTAGTCCT
1 TTAAATTTATG-TTTTACTATTTTAGTCCTTTAAGTTTCTA-TTTTGATATTTTAGTCCT
* * *
1152622 ATAAATTTCTGTTTTTGCTA-TTTAGTCCTTTA
1 TTAAATTTATG-TTTTACTATTTTAGTCCTTTA
1152654 TTTTAATGAG
Statistics
Matches: 122, Mismatches: 26, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
59 68 0.56
60 54 0.44
ACGTcount: A:0.20, C:0.12, G:0.10, T:0.58
Consensus pattern (58 bp):
TTAAATTTATGTTTTACTATTTTAGTCCTTTAAGTTTCTATTTTGATATTTTAGTCCT
Found at i:1152960 original size:5 final size:5
Alignment explanation
Indices: 1152929--1152972 Score: 52
Period size: 5 Copynumber: 8.2 Consensus size: 5
1152919 TGTTTACTGC
*
1152929 TTTTCA TTTTCA TTTTCA TTTTG TTTTA TTTTA TTTTA TTTTA T
1 TTTT-A TTTT-A TTTT-A TTTTA TTTTA TTTTA TTTTA TTTTA T
1152973 CTTTGCGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
5 20 0.56
6 16 0.44
ACGTcount: A:0.16, C:0.07, G:0.02, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:1161428 original size:21 final size:21
Alignment explanation
Indices: 1161402--1161453 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
1161392 AATCGGATTA
*
1161402 AGGGTTTAGGACTTAGGGTTT
1 AGGGTTTAAGACTTAGGGTTT
* *
1161423 AGGGTTTAATATTTAGGGTTT
1 AGGGTTTAAGACTTAGGGTTT
* *
1161444 AAGATTTAAG
1 AGGGTTTAAG
1161454 GTTCATTACA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.27, C:0.02, G:0.31, T:0.40
Consensus pattern (21 bp):
AGGGTTTAAGACTTAGGGTTT
Found at i:1161437 original size:14 final size:14
Alignment explanation
Indices: 1161420--1161456 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
1161410 GGACTTAGGG
*
1161420 TTTAGGGTTTAATA
1 TTTAGGGTTTAAGA
1161434 TTTAGGGTTTAAGA
1 TTTAGGGTTTAAGA
*
1161448 TTTAAGGTT
1 TTTAGGGTT
1161457 CATTACAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (14 bp):
TTTAGGGTTTAAGA
Found at i:1161756 original size:11 final size:11
Alignment explanation
Indices: 1161742--1161767 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
1161732 TGTTTGATTA
1161742 TTTTTTCTTAT
1 TTTTTTCTTAT
1161753 TTTTTTCTTAT
1 TTTTTTCTTAT
1161764 TTTT
1 TTTT
1161768 CTACGTTGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTTTCTTAT
Found at i:1162009 original size:14 final size:14
Alignment explanation
Indices: 1161990--1162019 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1161980 TATAATTATG
*
1161990 AATAATGTATTTTT
1 AATAATGTAATTTT
1162004 AATAATGTAATTTT
1 AATAATGTAATTTT
1162018 AA
1 AA
1162020 AAAATCTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (14 bp):
AATAATGTAATTTT
Found at i:1176654 original size:21 final size:20
Alignment explanation
Indices: 1176628--1176700 Score: 83
Period size: 21 Copynumber: 3.5 Consensus size: 20
1176618 CAACGCGATC
1176628 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTT-CAAAT
* **
1176649 TCGCATTGCGATTTACGTAT
1 TCGCATTGCGATTTTCAAAT
*
1176669 TCGCGTTGCGATTTTCATAAT
1 TCGCATTGCGATTTTCA-AAT
*
1176690 TCGCAATGCGA
1 TCGCATTGCGA
1176701 ATACGTAAAT
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
20 17 0.40
21 25 0.60
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.37
Consensus pattern (20 bp):
TCGCATTGCGATTTTCAAAT
Found at i:1176715 original size:20 final size:20
Alignment explanation
Indices: 1176690--1176783 Score: 125
Period size: 20 Copynumber: 4.7 Consensus size: 20
1176680 TTTTCATAAT
1176690 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* * *
1176710 TCGCAACGCGATTAAGTAAA
1 TCGCAATGCGAATACGTAAA
* *
1176730 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAA-TACGTAAA
1176751 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
1176771 TCGCAATGTGAAT
1 TCGCAATGCGAAT
1176784 TTGACTATCG
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
20 45 0.71
21 18 0.29
ACGTcount: A:0.39, C:0.18, G:0.21, T:0.21
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:1176721 original size:41 final size:41
Alignment explanation
Indices: 1176690--1176784 Score: 129
Period size: 41 Copynumber: 2.3 Consensus size: 41
1176680 TTTTCATAAT
*
1176690 TCGCAATGCGAA-TACGTAAATCGCAACGCGATTAAGTAAA
1 TCGCAATGCGAATTACGAAAATCGCAACGCGATTAAGTAAA
* * * *
1176730 TCGCAATGCGAATTAGGAAAATCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATTACGAAAATCGCAACGCGATTAAGTAAA
*
1176771 TCGCAATGTGAATT
1 TCGCAATGCGAATT
1176785 TGACTATCGC
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
40 12 0.25
41 36 0.75
ACGTcount: A:0.39, C:0.18, G:0.21, T:0.22
Consensus pattern (41 bp):
TCGCAATGCGAATTACGAAAATCGCAACGCGATTAAGTAAA
Found at i:1177042 original size:27 final size:27
Alignment explanation
Indices: 1177012--1177086 Score: 141
Period size: 27 Copynumber: 2.8 Consensus size: 27
1177002 CATCGCCGGC
*
1177012 GAAATCCCTCACAACCATTCACGGTCA
1 GAAATCCCTCACAATCATTCACGGTCA
1177039 GAAATCCCTCACAATCATTCACGGTCA
1 GAAATCCCTCACAATCATTCACGGTCA
1177066 GAAATCCCTCACAATCATTCA
1 GAAATCCCTCACAATCATTCA
1177087 GAAATGGAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.35, C:0.35, G:0.09, T:0.21
Consensus pattern (27 bp):
GAAATCCCTCACAATCATTCACGGTCA
Done.