Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 276 of 425
Found at i:85162323 original size:14 final size:15
Alignment explanation
Indices: 85162304--85162359 Score: 60
Period size: 18 Copynumber: 3.5 Consensus size: 15
85162294 AATCTTCAAT
85162304 GATATG-CAATCTTA
1 GATATGACAATCTTA
85162318 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
85162335 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
85162353 GATATGA
1 GATATGA
85162360 TATGCAATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
14 6 0.17
15 1 0.03
17 14 0.39
18 15 0.42
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:85162350 original size:18 final size:19
Alignment explanation
Indices: 85162302--85162367 Score: 111
Period size: 17 Copynumber: 3.6 Consensus size: 19
85162292 ATAATCTTCA
85162302 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
85162321 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
85162338 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
85162356 ATGATATGCAAT
1 ATGATATGCAAT
85162368 TTCAGAAGAT
Statistics
Matches: 44, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
17 16 0.36
18 16 0.36
19 12 0.27
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:85162689 original size:18 final size:17
Alignment explanation
Indices: 85162666--85162699 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
85162656 TTTCCTAGAT
*
85162666 TTTTTTTATATATTTTAA
1 TTTTTTAATA-ATTTTAA
85162684 TTTTTTAATAATTTTA
1 TTTTTTAATAATTTTA
85162700 GTATCATATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTTTAATAATTTTAA
Found at i:85164627 original size:28 final size:29
Alignment explanation
Indices: 85164599--85164724 Score: 127
Period size: 28 Copynumber: 4.4 Consensus size: 29
85164589 GCATGAGTAT
* *
85164599 AATGTGATTTGGGCCAGATGGGCCATATA
1 AATGTGAATTGGGCCAGATGGGCCATATG
*
85164628 AATGAG-ATTGGGCCTA-ATGGGCCATATG
1 AATGTGAATTGGGCC-AGATGGGCCATATG
* *
85164656 AATGTGAATTGGGCC-TATGGGCCGTATG
1 AATGTGAATTGGGCCAGATGGGCCATATG
* *
85164684 AACT-TGAATTGGGCCAGATGGGCCGTATA
1 AA-TGTGAATTGGGCCAGATGGGCCATATG
*
85164713 AATGAG-ATTGGG
1 AATGTGAATTGGG
85164725 ACTAGTGGGC
Statistics
Matches: 83, Mismatches: 8, Indels: 13
0.80 0.08 0.12
Matches are distributed among these distances:
28 54 0.65
29 29 0.35
ACGTcount: A:0.27, C:0.13, G:0.33, T:0.26
Consensus pattern (29 bp):
AATGTGAATTGGGCCAGATGGGCCATATG
Found at i:85164695 original size:57 final size:56
Alignment explanation
Indices: 85164599--85164736 Score: 138
Period size: 57 Copynumber: 2.4 Consensus size: 56
85164589 GCATGAGTAT
* * *
85164599 AATGTGATTTGGGCCAGATGGGCCATATAAATGAGATTGGGCCTA-ATGGGCCATATG
1 AATGTGAATTGGGCC-TATGGGCCATATAAATGAGATTGGGCC-AGATGGGCCATATA
* * *
85164656 AATGTGAATTGGGCCTATGGGCCGTATGAACTTGA-ATTGGGCCAGATGGGCCGTATA
1 AATGTGAATTGGGCCTATGGGCCATAT-AA-ATGAGATTGGGCCAGATGGGCCATATA
* *
85164713 AATGAG-ATTGGGACTAGTGGGCCA
1 AATGTGAATTGGGCCTA-TGGGCCA
85164737 CATGTATGTA
Statistics
Matches: 68, Mismatches: 9, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
56 20 0.29
57 45 0.66
58 3 0.04
ACGTcount: A:0.27, C:0.14, G:0.33, T:0.25
Consensus pattern (56 bp):
AATGTGAATTGGGCCTATGGGCCATATAAATGAGATTGGGCCAGATGGGCCATATA
Found at i:85174942 original size:49 final size:49
Alignment explanation
Indices: 85174882--85175205 Score: 515
Period size: 49 Copynumber: 6.5 Consensus size: 49
85174872 TACATATATG
*
85174882 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
*
85174931 TGTGATGAGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
*
85174980 TGTGATGAGGCCTAATGGCCGATGCGATGAATGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
85175029 TGTGATGAGG-CTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
*
85175077 TGTGATGAGGCCTAATGGCCGATGTGGTGAACGTGAACGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGA--T-GTG-A--TGAATGTGAAAGTGTATGTATA
* * *
85175132 TGTGATGAGGCCTAATGGCCAATGTGGTGAATGTGAAAGTGTCTGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
*
85175181 TGTGATGAGGCCTAATGGCCAATGT
1 TGTGATGAGGCCTAATGGCCGATGT
85175206 AAAATATATG
Statistics
Matches: 258, Mismatches: 10, Indels: 14
0.91 0.04 0.05
Matches are distributed among these distances:
48 47 0.18
49 160 0.62
51 1 0.00
52 6 0.02
53 2 0.01
55 42 0.16
ACGTcount: A:0.28, C:0.09, G:0.33, T:0.30
Consensus pattern (49 bp):
TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
Found at i:85175057 original size:146 final size:151
Alignment explanation
Indices: 85174882--85175205 Score: 523
Period size: 152 Copynumber: 2.2 Consensus size: 151
85174872 TACATATATG
*
85174882 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATATGTGATGAGGCCTAAT
1 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATATGTGATGAGGCCTAAT
* * *
85174947 GGCTGA-T-GTG-A-TGAATGTGAAAGTGTATGTATATGTGATGAGGCCTAATGGCCGATGCGAT
66 GGCCGAGTGGTGAACTGAACGTGAAAGTGTATGTATATGTGATGAGGCCTAATGGCCAATGCGAT
85175008 GAATGTGAAAGTGTATGTATA
131 GAATGTGAAAGTGTATGTATA
85175029 TGTGATGAGG-CTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATATGTGATGAGGCCTAAT
1 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATATGTGATGAGGCCTAAT
*
85175093 GGCCGATGTGGTGAACGTGAACGTGAAAGTGTATGTATATGTGATGAGGCCTAATGGCCAATGTG
66 GGCCGA-GTGGTGAAC-TGAACGTGAAAGTGTATGTATATGTGATGAGGCCTAATGGCCAATGCG
* *
85175158 GTGAATGTGAAAGTGTCTGTATA
129 ATGAATGTGAAAGTGTATGTATA
*
85175181 TGTGATGAGGCCTAATGGCCAATGT
1 TGTGATGAGGCCTAATGGCCGATGT
85175206 AAAATATATG
Statistics
Matches: 162, Mismatches: 8, Indels: 8
0.91 0.04 0.04
Matches are distributed among these distances:
146 59 0.36
147 9 0.06
148 1 0.01
149 3 0.02
150 1 0.01
152 76 0.47
153 13 0.08
ACGTcount: A:0.28, C:0.09, G:0.33, T:0.30
Consensus pattern (151 bp):
TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATATGTGATGAGGCCTAAT
GGCCGAGTGGTGAACTGAACGTGAAAGTGTATGTATATGTGATGAGGCCTAATGGCCAATGCGAT
GAATGTGAAAGTGTATGTATA
Found at i:85175246 original size:152 final size:152
Alignment explanation
Indices: 85174882--85175247 Score: 417
Period size: 152 Copynumber: 2.4 Consensus size: 152
85174872 TACATATATG
* * * * * * * *
85174882 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATATGTGATGAGGCCTAAT
1 TGTGATGAGG-CTAATGGCCAATGTGATAAATATGAAAGTGTATGCATATGTGATAAAGCCGAAT
* * *
85174947 GGCTGA--T-GTG-A--TGAATGTGAAAGTGTATGTATATGTGATGAGGCCTAATGGCCGATGCG
65 GGCCGATGTGGTGAACGTGAACGTGAAAGTGTATGTATATGTGATGAGGCCTAATGGCCAATGCG
85175006 ATGAATGTGAAAGTGTATGTATA
130 ATGAATGTGAAAGTGTATGTATA
* * * * * * *
85175029 TGTGATGAGGCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATATGTGATGAGGCCTAATG
1 TGTGATGAGGCTAATGGCCAATGTGATAAATATGAAAGTGTATGCATATGTGATAAAGCCGAATG
* *
85175094 GCCGATGTGGTGAACGTGAACGTGAAAGTGTATGTATATGTGATGAGGCCTAATGGCCAATGTGG
66 GCCGATGTGGTGAACGTGAACGTGAAAGTGTATGTATATGTGATGAGGCCTAATGGCCAATGCGA
*
85175159 TGAATGTGAAAGTGTCTGTATA
131 TGAATGTGAAAGTGTATGTATA
** *
85175181 TGTGATGAGGCCTAATGGCCAATGT-A-AAATAT-ATGTGTGATATGCATATGTGGTAAAGCCGA
1 TGTGATGAGG-CTAATGGCCAATGTGATAAATATGA-AAGTG-TATGCATATGTGATAAAGCCGA
85175243 ATGGC
63 ATGGC
85175248 TAATGTGAAT
Statistics
Matches: 193, Mismatches: 17, Indels: 13
0.87 0.08 0.06
Matches are distributed among these distances:
146 59 0.31
147 9 0.05
148 1 0.01
149 3 0.02
150 2 0.01
151 7 0.04
152 99 0.51
153 13 0.07
ACGTcount: A:0.29, C:0.09, G:0.32, T:0.30
Consensus pattern (152 bp):
TGTGATGAGGCTAATGGCCAATGTGATAAATATGAAAGTGTATGCATATGTGATAAAGCCGAATG
GCCGATGTGGTGAACGTGAACGTGAAAGTGTATGTATATGTGATGAGGCCTAATGGCCAATGCGA
TGAATGTGAAAGTGTATGTATA
Found at i:85175351 original size:37 final size:37
Alignment explanation
Indices: 85175308--85175385 Score: 156
Period size: 37 Copynumber: 2.1 Consensus size: 37
85175298 GTTCCGGGCG
85175308 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
1 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
85175345 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
1 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
85175382 AGAC
1 AGAC
85175386 TTCTTTTATA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.28, C:0.19, G:0.32, T:0.21
Consensus pattern (37 bp):
AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
Found at i:85177440 original size:29 final size:29
Alignment explanation
Indices: 85177408--85177539 Score: 201
Period size: 29 Copynumber: 4.6 Consensus size: 29
85177398 CGTTAACCGA
85177408 GCACTATGTGTGCGAGATCAGTAATCGAG
1 GCACTATGTGTGCGAGATCAGTAATCGAG
*
85177437 GCACTATGTGTGCGAGATCTGTAATCGAG
1 GCACTATGTGTGCGAGATCAGTAATCGAG
* * **
85177466 GCACTATGTGTACGAAATCAGTAATTAAG
1 GCACTATGTGTGCGAGATCAGTAATCGAG
*
85177495 GCACTATGTGTGCGAGATCAGTAATTGAG
1 GCACTATGTGTGCGAGATCAGTAATCGAG
*
85177524 GCACTGTGTGTGCGAG
1 GCACTATGTGTGCGAG
85177540 TTTTTCAACA
Statistics
Matches: 93, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 93 1.00
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.27
Consensus pattern (29 bp):
GCACTATGTGTGCGAGATCAGTAATCGAG
Found at i:85177447 original size:58 final size:58
Alignment explanation
Indices: 85177376--85177534 Score: 169
Period size: 58 Copynumber: 2.7 Consensus size: 58
85177366 CGAATGATTA
* * *
85177376 GAGGCACTGTGTGTGC-AAATTCCGTTAACCGA-GCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAAA-TCCG-TAACCGAGGCACTATGTGTACGAAATCAGTAATC
* * * *
85177434 GAGGCACTATGTGTGCGAGATCTGTAATCGAGGCACTATGTGTACGAAATCAGTAATT
1 GAGGCACTATGTGTGCGAAATCCGTAACCGAGGCACTATGTGTACGAAATCAGTAATC
* * * ** *
85177492 AAGGCACTATGTGTGCGAGATCAGTAATTGAGGCACTGTGTGT
1 GAGGCACTATGTGTGCGAAATCCGTAACCGAGGCACTATGTGT
85177535 GCGAGTTTTT
Statistics
Matches: 88, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
57 6 0.07
58 80 0.91
59 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.27
Consensus pattern (58 bp):
GAGGCACTATGTGTGCGAAATCCGTAACCGAGGCACTATGTGTACGAAATCAGTAATC
Found at i:85181233 original size:49 final size:49
Alignment explanation
Indices: 85181173--85181538 Score: 646
Period size: 49 Copynumber: 7.5 Consensus size: 49
85181163 TACATATATG
* *
85181173 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
85181222 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
85181271 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
85181320 TGTGATGAGGCCTAATGGCCGATGT-GTGAACGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
85181368 TGTGATGAGG-CTAATGGCCGATGTGGTGAACGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
85181416 TGTGATGAGGCCTAATGGCCGATGTGGTGAACGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
85181465 TGTGATGAGGCCTAATGGCTGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
85181514 TGTGATGAGGCCTAATGGCCAATGT
1 TGTGATGAGGCCTAATGGCCGATGT
85181539 AAAATATATG
Statistics
Matches: 308, Mismatches: 7, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
47 14 0.05
48 65 0.21
49 229 0.74
ACGTcount: A:0.27, C:0.09, G:0.34, T:0.30
Consensus pattern (49 bp):
TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
Found at i:85181513 original size:194 final size:195
Alignment explanation
Indices: 85181173--85181538 Score: 662
Period size: 194 Copynumber: 1.9 Consensus size: 195
85181163 TACATATATG
*
85181173 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATATGTGATGAGGCCTAAT
1 TGTGATAAGGCCTAATGGCCGATGTGATGAACGTGAAAGTGTATGTATATGTGATGAGGCCTAAT
*
85181238 GGCCGATGTGATGAATGTGAAAGTGTATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGAAT
66 GGCCGATGTGATGAACGTGAAAGTGTATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGAAT
*
85181303 GTGAAAGTGTATGTATATGTGATGAGGCCTAATGGCCGATGTGTGAACGTGAAAGTGTATGTATA
131 GTGAAAGTGTATGTATATGTGATGAGGCCTAATGGCCAATGTGTGAACGTGAAAGTGTATGTATA
* *
85181368 TGTGATGAGG-CTAATGGCCGATGTGGTGAACGTGAAAGTGTATGTATATGTGATGAGGCCTAAT
1 TGTGATAAGGCCTAATGGCCGATGTGATGAACGTGAAAGTGTATGTATATGTGATGAGGCCTAAT
* *
85181432 GGCCGATGTGGTGAACGTGAAAGTGTATGTATATGTGATGAGGCCTAATGGCTGATGTGGTGAAT
66 GGCCGATGTGATGAACGTGAAAGTGTATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGAAT
85181497 GTGAAAGTGTATGTATATGTGATGAGGCCTAATGGCCAATGT
131 GTGAAAGTGTATGTATATGTGATGAGGCCTAATGGCCAATGT
85181539 AAAATATATG
Statistics
Matches: 164, Mismatches: 7, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
194 155 0.95
195 9 0.05
ACGTcount: A:0.27, C:0.09, G:0.34, T:0.30
Consensus pattern (195 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAACGTGAAAGTGTATGTATATGTGATGAGGCCTAAT
GGCCGATGTGATGAACGTGAAAGTGTATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGAAT
GTGAAAGTGTATGTATATGTGATGAGGCCTAATGGCCAATGTGTGAACGTGAAAGTGTATGTATA
Found at i:85181694 original size:37 final size:36
Alignment explanation
Indices: 85181641--85181717 Score: 145
Period size: 37 Copynumber: 2.1 Consensus size: 36
85181631 GTTCCGGGCG
85181641 AGACCCATGACTACGTGTGGAGATTATGACCGGGTA
1 AGACCCATGACTACGTGTGGAGATTATGACCGGGTA
85181677 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
1 AGACCC-ATGACTACGTGTGGAGATTATGACCGGGTA
85181714 AGAC
1 AGAC
85181718 TTCTTTTATA
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
36 6 0.15
37 34 0.85
ACGTcount: A:0.29, C:0.19, G:0.31, T:0.21
Consensus pattern (36 bp):
AGACCCATGACTACGTGTGGAGATTATGACCGGGTA
Found at i:85184082 original size:60 final size:60
Alignment explanation
Indices: 85184009--85184145 Score: 152
Period size: 60 Copynumber: 2.3 Consensus size: 60
85183999 CAGTGTTAAC
* * * * *
85184009 TGGGCCTTAGCCCATATCAATATTAATCTGGGACATAGCCC-CTTATAGTGTC-AGAGTATAT
1 TGGGCC-TAGCCCATATCAATATCAATATGGGACATAGCCCTATTACA-AGTCGAGA-TATAT
* * *
85184070 TGGGCCTAGCCCATATCAGTATCAATATGGGCCGTAGCCCTATTACAAGTCGAGATATAT
1 TGGGCCTAGCCCATATCAATATCAATATGGGACATAGCCCTATTACAAGTCGAGATATAT
*
85184130 TGGGCCTTGCCCATAT
1 TGGGCCTAGCCCATAT
85184146 TAACATAGTT
Statistics
Matches: 65, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
60 52 0.80
61 13 0.20
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.29
Consensus pattern (60 bp):
TGGGCCTAGCCCATATCAATATCAATATGGGACATAGCCCTATTACAAGTCGAGATATAT
Found at i:85188097 original size:46 final size:47
Alignment explanation
Indices: 85187967--85188158 Score: 278
Period size: 47 Copynumber: 4.1 Consensus size: 47
85187957 TTAGGATTTT
** * *
85187967 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
85188014 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
85188061 ATGTGATGAATGT-AGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
85188107 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
85188154 ATGTG
1 ATGTG
85188159 GAATATGTAT
Statistics
Matches: 131, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
46 42 0.32
47 89 0.68
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:85188110 original size:24 final size:24
Alignment explanation
Indices: 85188040--85188111 Score: 62
Period size: 23 Copynumber: 3.1 Consensus size: 24
85188030 CATGCATATA
85188040 TGTGATAAGGCCGAATGGCCAA--
1 TGTGATAAGGCCGAATGGCCAATG
* ** *
85188062 TGTGATGAATGTAGCAT-G-CATATG
1 TGTGAT-AAGGCCGAATGGCCA-ATG
85188086 TGTGATAAGGCCGAATGGCCAATG
1 TGTGATAAGGCCGAATGGCCAATG
85188110 TG
1 TG
85188112 GTGAATATGA
Statistics
Matches: 36, Mismatches: 8, Indels: 10
0.67 0.15 0.19
Matches are distributed among these distances:
21 2 0.06
22 8 0.22
23 12 0.33
24 12 0.33
25 2 0.06
ACGTcount: A:0.29, C:0.14, G:0.32, T:0.25
Consensus pattern (24 bp):
TGTGATAAGGCCGAATGGCCAATG
Found at i:85188167 original size:93 final size:93
Alignment explanation
Indices: 85187996--85188268 Score: 279
Period size: 93 Copynumber: 2.9 Consensus size: 93
85187986 GTATATATGA
* * * *
85187996 GATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 GATAAGGCCGAATGGCCAATGTGATGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
85188061 ATGT-G-ATGAATGTAG-CATGCATATGTG
66 ATGTGGAAT--ATGTAGACATGCATATGTG
*
85188088 TGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCT
1 -GATAAGGCCGAATGGCCAATGTGATGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCT
*
85188153 AATGTGGAATATGTATGAGATATGCATATGTG
65 AATGTGGAATATG--T-AGACATGCATATGTG
* * * *
85188185 G-TAAAGCCGAATGGTCAATGTGAAATATATATATATGAGATATG--TATATGTGGTAAAGCCGA
1 GATAAGGCCGAATGGCCAATGTG----AT-GA-ATATGA-ACATGCATATATGTGGTAAAGCCGA
* *
85188247 ATGGCTAGTGTGAAATATGTAG
59 ATGGCTAATGTGGAATATGTAG
85188269 GTGATGTGCA
Statistics
Matches: 154, Mismatches: 13, Indels: 22
0.81 0.07 0.12
Matches are distributed among these distances:
93 67 0.44
94 1 0.01
95 22 0.14
96 3 0.02
97 13 0.08
98 1 0.01
99 1 0.01
100 36 0.23
101 6 0.04
102 4 0.03
ACGTcount: A:0.34, C:0.10, G:0.28, T:0.27
Consensus pattern (93 bp):
GATAAGGCCGAATGGCCAATGTGATGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
ATGTGGAATATGTAGACATGCATATGTG
Found at i:85188194 original size:48 final size:48
Alignment explanation
Indices: 85188130--85188281 Score: 189
Period size: 48 Copynumber: 3.1 Consensus size: 48
85188120 GAACATGCAT
*
85188130 ATATGTGGTAAAGCCGAATGGCTAATGTGGAATATGTATGAGATATGC
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGC
* *
85188178 ATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATATGAGATATGT
1 ATATGTGGTAAAGCCGAATGGCT-AATGTG--A-A-ATATGTATGAGATATGC
* * * *
85188230 ATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGTGATGTGC
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGC
85188278 ATAT
1 ATAT
85188282 ATTGTGGCCG
Statistics
Matches: 89, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
47 1 0.01
48 43 0.48
49 1 0.01
50 1 0.01
51 1 0.01
52 41 0.46
53 1 0.01
ACGTcount: A:0.34, C:0.07, G:0.28, T:0.31
Consensus pattern (48 bp):
ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGC
Found at i:85188244 original size:52 final size:52
Alignment explanation
Indices: 85188129--85188264 Score: 192
Period size: 52 Copynumber: 2.7 Consensus size: 52
85188119 TGAACATGCA
* *
85188129 TATATGTGGTAAAGCCGAATGGCTAATGTG---GA-ATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATATGAGATATG
*
85188177 CATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTGAAATATATATATATGAGATATG
*
85188229 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATAT
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATAT
85188265 GTAGGTGATG
Statistics
Matches: 77, Mismatches: 5, Indels: 8
0.86 0.06 0.09
Matches are distributed among these distances:
47 1 0.01
48 27 0.35
51 1 0.01
52 47 0.61
53 1 0.01
ACGTcount: A:0.35, C:0.07, G:0.26, T:0.31
Consensus pattern (52 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATATGAGATATG
Found at i:85188521 original size:37 final size:37
Alignment explanation
Indices: 85188413--85188521 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
85188403 GGAAATATAT
*
85188413 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
85188450 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
85188487 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
85188522 CGTCTGAGCT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:85190625 original size:19 final size:18
Alignment explanation
Indices: 85190588--85190631 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
85190578 ACACATGCAG
85190588 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
85190605 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
85190624 TACTAATT
1 TAATAATT
85190632 AAAATTTCGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:85192370 original size:29 final size:29
Alignment explanation
Indices: 85192335--85192408 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
85192325 GTTGTGAGAT
* *
85192335 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
85192364 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
85192393 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
85192409 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:85195843 original size:18 final size:19
Alignment explanation
Indices: 85195820--85195867 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
85195810 ATTCAAGATT
*
85195820 AAATTGAAACAAAATAG-A
1 AAATTGAAAAAAAATAGAA
*
85195838 AAATTGAAAAAAAAATTGAA
1 AAATTG-AAAAAAAATAGAA
85195858 AAATTGAAAA
1 AAATTGAAAA
85195868 GTAGGGTCAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 6 0.23
19 13 0.50
20 7 0.27
ACGTcount: A:0.69, C:0.02, G:0.10, T:0.19
Consensus pattern (19 bp):
AAATTGAAAAAAAATAGAA
Found at i:85195858 original size:19 final size:20
Alignment explanation
Indices: 85195820--85195867 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
85195810 ATTCAAGATT
*
85195820 AAATTG-AAACAAAATAG-A
1 AAATTGAAAAAAAAATAGAA
*
85195838 AAATTGAAAAAAAAATTGAA
1 AAATTGAAAAAAAAATAGAA
85195858 AAATTGAAAA
1 AAATTGAAAA
85195868 GTAGGGTCAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 6 0.23
19 9 0.35
20 11 0.42
ACGTcount: A:0.69, C:0.02, G:0.10, T:0.19
Consensus pattern (20 bp):
AAATTGAAAAAAAAATAGAA
Found at i:85197630 original size:23 final size:23
Alignment explanation
Indices: 85197599--85197679 Score: 126
Period size: 23 Copynumber: 3.5 Consensus size: 23
85197589 ATCGCAGTGT
*
85197599 AGCTACTAATAGTAACGCAGCAA
1 AGCTGCTAATAGTAACGCAGCAA
* *
85197622 AACTGCTAATAGTAAGGCAGCAA
1 AGCTGCTAATAGTAACGCAGCAA
*
85197645 AGTTGCTAATAGTAACGCAGCAA
1 AGCTGCTAATAGTAACGCAGCAA
85197668 AGCTGCTAATAG
1 AGCTGCTAATAG
85197680 CGGTAAACTT
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.41, C:0.19, G:0.21, T:0.20
Consensus pattern (23 bp):
AGCTGCTAATAGTAACGCAGCAA
Found at i:85201869 original size:25 final size:25
Alignment explanation
Indices: 85201841--85201891 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
85201831 AACCCAAATA
85201841 TGTAAGCTTAAATAAATTGAGTTAT
1 TGTAAGCTTAAATAAATTGAGTTAT
85201866 TGTAAGCTTAAATAAATTGAGTTAT
1 TGTAAGCTTAAATAAATTGAGTTAT
85201891 T
1 T
85201892 AACAACCAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.39, C:0.04, G:0.16, T:0.41
Consensus pattern (25 bp):
TGTAAGCTTAAATAAATTGAGTTAT
Found at i:85203895 original size:40 final size:38
Alignment explanation
Indices: 85203840--85203957 Score: 128
Period size: 40 Copynumber: 2.9 Consensus size: 38
85203830 AGGCGTTATA
*
85203840 GGTACCGAAGTACAAACAGGAGCACTCATGTGCATTCAGG
1 GGTACC-AAGTACAAACAGGGGCACT-ATGTGCATTCAGG
* *
85203880 GGTACCACAGTACAAATAGGGGCACGTATATGCATTCAGG
1 GGTACCA-AGTACAAACAGGGGCAC-TATGTGCATTCAGG
* * *
85203920 AGTACTGAAGTACAAACAGGGGCATGTATGTGCATTCA
1 GGTAC-CAAGTACAAACAGGGGCA-CTATGTGCATTCA
85203958 ATAACATTTT
Statistics
Matches: 66, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
39 1 0.02
40 63 0.95
41 2 0.03
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.20
Consensus pattern (38 bp):
GGTACCAAGTACAAACAGGGGCACTATGTGCATTCAGG
Found at i:85210734 original size:17 final size:17
Alignment explanation
Indices: 85210712--85210749 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
85210702 TTTCGAGTTT
85210712 AGAGACTAAATTGCATA
1 AGAGACTAAATTGCATA
85210729 AGAGACTAAATTGCATA
1 AGAGACTAAATTGCATA
85210746 AGAG
1 AGAG
85210750 GTAAAACATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.47, C:0.11, G:0.21, T:0.21
Consensus pattern (17 bp):
AGAGACTAAATTGCATA
Found at i:85211135 original size:26 final size:26
Alignment explanation
Indices: 85211097--85211282 Score: 90
Period size: 26 Copynumber: 7.2 Consensus size: 26
85211087 ATTTGAATAG
* * *
85211097 CAGGCCTTAAGTCTATGATTATTTAA
1 CAGGCCTTGAGCCGATGATTATTTAA
* * *
85211123 CAGGCCTTGAGTC-AGTGATTACTTAG
1 CAGGCCTTGAGCCGA-TGATTATTTAA
* * * *
85211149 TAGG-CTATGAGCCGGTAATTATTTAG
1 CAGGCCT-TGAGCCGATGATTATTTAA
* * *
85211175 TAGACCTTGAACCGATGATTATTTAA
1 CAGGCCTTGAGCCGATGATTATTTAA
* * * *
85211201 CAGGCCTTGAACGGGTGATTAGTTAA
1 CAGGCCTTGAGCCGATGATTATTTAA
* ** *
85211227 CAAG-CTATGAGTTGGTGATTATTTAA
1 CAGGCCT-TGAGCCGATGATTATTTAA
* * * * *
85211253 TAAGCCTTGAGTCGGTGATTATTTAG
1 CAGGCCTTGAGCCGATGATTATTTAA
85211279 CAGG
1 CAGG
85211283 TACTATGTAC
Statistics
Matches: 126, Mismatches: 28, Indels: 12
0.76 0.17 0.07
Matches are distributed among these distances:
25 5 0.04
26 117 0.93
27 4 0.03
ACGTcount: A:0.28, C:0.14, G:0.24, T:0.34
Consensus pattern (26 bp):
CAGGCCTTGAGCCGATGATTATTTAA
Found at i:85211248 original size:78 final size:78
Alignment explanation
Indices: 85211111--85211282 Score: 186
Period size: 78 Copynumber: 2.2 Consensus size: 78
85211101 CCTTAAGTCT
* ** * *
85211111 ATGATTATTTAACAGGCCTTGAGTCAGTGATTACTTAGTAGGCTATGAGCCGGTAATTATTTAGT
1 ATGATTATTTAACAGGCCTTGAGACAGTGATTACTTAACAAGCTATGAGCCGGTAATTATTTAAT
85211176 -AGACCTTGAACCG
66 AAG-CCTTGAACCG
* * ** *
85211189 ATGATTATTTAACAGGCCTTGA-ACGGGTGATTAGTTAACAAGCTATGAGTTGGTGATTATTTAA
1 ATGATTATTTAACAGGCCTTGAGAC-AGTGATTACTTAACAAGCTATGAGCCGGTAATTATTTAA
**
85211253 TAAGCCTTGAGTCG
65 TAAGCCTTGAACCG
* *
85211267 GTGATTATTTAGCAGG
1 ATGATTATTTAACAGG
85211283 TACTATGTAC
Statistics
Matches: 78, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
77 1 0.01
78 75 0.96
79 2 0.03
ACGTcount: A:0.28, C:0.13, G:0.24, T:0.34
Consensus pattern (78 bp):
ATGATTATTTAACAGGCCTTGAGACAGTGATTACTTAACAAGCTATGAGCCGGTAATTATTTAAT
AAGCCTTGAACCG
Found at i:85213202 original size:24 final size:24
Alignment explanation
Indices: 85213167--85213219 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
85213157 TTTAATAAAA
* *
85213167 AAAAAAGCAGTCTAAAATCAATAG
1 AAAAAAGCAGTCCAAAAGCAATAG
*
85213191 AAAAAAGTAGTCCAAAAGCAATAG
1 AAAAAAGCAGTCCAAAAGCAATAG
85213215 AAAAA
1 AAAAA
85213220 TATGAAATTC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.62, C:0.11, G:0.13, T:0.13
Consensus pattern (24 bp):
AAAAAAGCAGTCCAAAAGCAATAG
Found at i:85218908 original size:39 final size:39
Alignment explanation
Indices: 85218852--85218965 Score: 192
Period size: 39 Copynumber: 2.9 Consensus size: 39
85218842 ATTACCCGCA
85218852 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
* *
85218891 CTAGCACGAAGCCTGCGGGACTTTAGCCCTGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
* *
85218930 CCAGCACGAAGCCTGCGGGACTCTAACCCGGATACA
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACA
85218966 ATCTCAGCAC
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 69 1.00
ACGTcount: A:0.25, C:0.32, G:0.25, T:0.19
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
Found at i:85223126 original size:17 final size:17
Alignment explanation
Indices: 85223104--85223146 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
85223094 ATTTCATTTA
**
85223104 AAATGTCAATTTCCATC
1 AAATGTCAATTAACATC
*
85223121 AAATGTCCATTAACATC
1 AAATGTCAATTAACATC
85223138 AAAT-TCAAT
1 AAATGTCAAT
85223147 ACAATCATAG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.42, C:0.21, G:0.05, T:0.33
Consensus pattern (17 bp):
AAATGTCAATTAACATC
Found at i:85226176 original size:27 final size:27
Alignment explanation
Indices: 85226128--85226284 Score: 171
Period size: 27 Copynumber: 5.8 Consensus size: 27
85226118 GCGAGGCTGC
* *
85226128 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
85226155 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
85226181 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* * *
85226208 CAGATAATTGTGGCATAGCCACTAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
*
85226235 CAGATATATGTGGCAGAGCCACCATAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
85226262 CAGATAATTGTGGCATAGCCACC
1 CAGAT-ATTGTGGCAGAGCCACC
85226285 GGGACGCTTC
Statistics
Matches: 112, Mismatches: 10, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
26 10 0.09
27 97 0.87
28 5 0.04
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.20
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:85226218 original size:54 final size:54
Alignment explanation
Indices: 85226146--85226284 Score: 226
Period size: 54 Copynumber: 2.6 Consensus size: 54
85226136 GTGACGAAGT
*
85226146 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
* *
85226200 CACCAGATCAGATAATTGTGGCATAGCCACTAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
85226254 CACCATATCAGATAATTGTGGCATAGCCACC
1 CACCAGATCAGATAATTGTGGCATAGCCACC
85226285 GGGACGCTTC
Statistics
Matches: 79, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
53 5 0.06
54 74 0.94
ACGTcount: A:0.34, C:0.23, G:0.24, T:0.19
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:85228557 original size:28 final size:27
Alignment explanation
Indices: 85228494--85228563 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
85228484 ATAGTGAGTC
*
85228494 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
85228521 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
85228549 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
85228564 GTACAAATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 21 0.52
28 19 0.47
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:85230996 original size:26 final size:26
Alignment explanation
Indices: 85230965--85231072 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
85230955 TGAAATGCCC
*
85230965 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
85230991 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
85231017 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
85231043 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
85231069 ATCA
1 ATCA
85231073 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:85234251 original size:29 final size:31
Alignment explanation
Indices: 85234216--85234290 Score: 84
Period size: 31 Copynumber: 2.5 Consensus size: 31
85234206 TAATTGAATA
*
85234216 TGCAATTGTATA--TATAAACTTTAATT-TGG
1 TGCAATTGTATACTTA-AAACTCTAATTGTGG
*
85234245 TGCAATTATATACTTAAAACTCTAATTGTGG
1 TGCAATTGTATACTTAAAACTCTAATTGTGG
* *
85234276 TTCAAATGTATACTT
1 TGCAATTGTATACTT
85234291 GAAATTTTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
29 11 0.29
30 10 0.26
31 17 0.45
ACGTcount: A:0.35, C:0.11, G:0.12, T:0.43
Consensus pattern (31 bp):
TGCAATTGTATACTTAAAACTCTAATTGTGG
Found at i:85234302 original size:31 final size:30
Alignment explanation
Indices: 85234231--85234303 Score: 83
Period size: 31 Copynumber: 2.4 Consensus size: 30
85234221 TTGTATATAT
*
85234231 AAACTTTAATTTGGTGCAATTATATACTTA
1 AAACTTTAATTTGGTGCAAATATATACTTA
* * * *
85234261 AAACTCTAATTGTGGTTCAAATGTATACTTG
1 AAACTTTAATT-TGGTGCAAATATATACTTA
*
85234292 AAATTTTAATTT
1 AAACTTTAATTT
85234304 TGATTTAATC
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
30 11 0.31
31 24 0.69
ACGTcount: A:0.36, C:0.10, G:0.11, T:0.44
Consensus pattern (30 bp):
AAACTTTAATTTGGTGCAAATATATACTTA
Found at i:85234658 original size:25 final size:24
Alignment explanation
Indices: 85234597--85234658 Score: 61
Period size: 25 Copynumber: 2.5 Consensus size: 24
85234587 AAATTTCATA
*
85234597 AAAATATTAAAATTGATATATATTT
1 AAAATA-TAAAATTGATAAATATTT
* * *
85234622 AGATTATGAAAATTTATAAATATTAT
1 AAAATAT-AAAATTGATAAATATT-T
85234648 AAAATATAAAA
1 AAAATATAAAA
85234659 ATATAATAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
24 1 0.03
25 22 0.76
26 6 0.21
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (24 bp):
AAAATATAAAATTGATAAATATTT
Found at i:85234660 original size:18 final size:18
Alignment explanation
Indices: 85234624--85234668 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
85234614 ATATATTTAG
* *
85234624 ATTATGAAAATTTATAAAT
1 ATTAT-AAAATATAAAAAT
85234643 ATTATAAAATATAAAAAT
1 ATTATAAAATATAAAAAT
*
85234661 ATAATAAA
1 ATTATAAA
85234669 TTCTAATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 18 0.78
19 5 0.22
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (18 bp):
ATTATAAAATATAAAAAT
Found at i:85234770 original size:10 final size:9
Alignment explanation
Indices: 85234753--85234813 Score: 68
Period size: 9 Copynumber: 6.4 Consensus size: 9
85234743 TTAGAATTCT
85234753 TAAAAATTA
1 TAAAAATTA
85234762 TAAATAATTA
1 TAAA-AATTA
*
85234772 TAAAAAATA
1 TAAAAATTA
*
85234781 TTAAAATTGA
1 TAAAAATT-A
*
85234791 TATAAACTTA
1 TA-AAAATTA
85234801 TAAAAATTA
1 TAAAAATTA
85234810 TAAA
1 TAAA
85234814 CAAATCGTAA
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
9 24 0.56
10 14 0.33
11 5 0.12
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (9 bp):
TAAAAATTA
Found at i:85234777 original size:20 final size:19
Alignment explanation
Indices: 85234754--85234818 Score: 69
Period size: 20 Copynumber: 3.3 Consensus size: 19
85234744 TAGAATTCTT
85234754 AAAAATTATAAATAATTATA
1 AAAAATTATAAA-AATTATA
*
85234774 AAAAA-TATTAAAATTGATA
1 AAAAATTATAAAAATT-ATA
* *
85234793 TAAACTTATAAAAATTATA
1 AAAAATTATAAAAATTATA
85234812 AACAAAT
1 AA-AAAT
85234819 CGTAAAAACG
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
18 4 0.11
19 15 0.42
20 17 0.47
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.32
Consensus pattern (19 bp):
AAAAATTATAAAAATTATA
Found at i:85235113 original size:18 final size:19
Alignment explanation
Indices: 85235087--85235122 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
85235077 ATTAAATGAA
85235087 ATATAAAAAA-TTAAAAAT
1 ATATAAAAAATTTAAAAAT
*
85235105 ATATTAAAAATTTAAAAA
1 ATATAAAAAATTTAAAAA
85235123 AAAAATTGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (19 bp):
ATATAAAAAATTTAAAAAT
Found at i:85235288 original size:28 final size:29
Alignment explanation
Indices: 85235254--85235327 Score: 73
Period size: 28 Copynumber: 2.6 Consensus size: 29
85235244 TATTTTTATT
*
85235254 ATTTTTATAATTTTTATA-AGTTTATATCA
1 ATTTTTATAATTTTTATATACTTTATA-CA
* * *
85235283 A-TTTTAAAACTTTTA-ATACTTTTTACA
1 ATTTTTATAATTTTTATATACTTTATACA
*
85235310 ATTTTTATGATTTTTATA
1 ATTTTTATAATTTTTATA
85235328 GAATTTTAAT
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
27 4 0.11
28 29 0.83
29 2 0.06
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.58
Consensus pattern (29 bp):
ATTTTTATAATTTTTATATACTTTATACA
Found at i:85235438 original size:19 final size:19
Alignment explanation
Indices: 85235372--85235443 Score: 60
Period size: 19 Copynumber: 3.7 Consensus size: 19
85235362 TTTAATTATG
*
85235372 TTTTATTAATATTTATAGTTT
1 TTTTA-TAATATTTTTAG-TT
85235393 TTTTATAA-ATTATTATA-TT
1 TTTTATAATATT-TT-TAGTT
**
85235412 TTGGATAATATTTTTAGTT
1 TTTTATAATATTTTTAGTT
85235431 TTTTATAAT-TTTT
1 TTTTATAATATTTT
85235444 ATAAATTGAT
Statistics
Matches: 42, Mismatches: 5, Indels: 11
0.72 0.09 0.19
Matches are distributed among these distances:
18 6 0.14
19 22 0.52
20 7 0.17
21 7 0.17
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (19 bp):
TTTTATAATATTTTTAGTT
Found at i:85235450 original size:10 final size:9
Alignment explanation
Indices: 85235245--85235447 Score: 72
Period size: 9 Copynumber: 21.1 Consensus size: 9
85235235 TCAAGTTTTT
*
85235245 ATTTTTATT
1 ATTTTTATA
85235254 ATTTTTATA
1 ATTTTTATA
85235263 ATTTTTATA
1 ATTTTTATA
*
85235272 AGTTTATATCA
1 A-TTTTTAT-A
*
85235283 A-TTTTAAA
1 ATTTTTATA
*
85235291 ACTTTTAATA
1 A-TTTTTATA
* *
85235301 CTTTTTACA
1 ATTTTTATA
*
85235310 ATTTTTATG
1 ATTTTTATA
85235319 ATTTTTATAGA
1 ATTTTTAT--A
*
85235330 ATTTTAATA
1 ATTTTTATA
*
85235339 CGTTTTTATAA
1 -ATTTTTAT-A
**
85235350 AAGTTTA-A
1 ATTTTTATA
*
85235358 ATATTTTAATT
1 AT-TTTT-ATA
85235369 ATGTTTTATTA
1 AT-TTTTA-TA
*
85235380 ATATTTATA
1 ATTTTTATA
*
85235389 GTTTTTTTATAA
1 --ATTTTTAT-A
*
85235401 ATTATTAT-
1 ATTTTTATA
*
85235409 ATTTTGGATA
1 ATTTT-TATA
85235419 ATATTTT-TA
1 AT-TTTTATA
*
85235428 GTTTTTTATA
1 -ATTTTTATA
85235438 ATTTTTATA
1 ATTTTTATA
85235447 A
1 A
85235448 ATTGATATCA
Statistics
Matches: 140, Mismatches: 34, Indels: 40
0.65 0.16 0.19
Matches are distributed among these distances:
8 8 0.06
9 65 0.46
10 38 0.27
11 28 0.20
12 1 0.01
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.59
Consensus pattern (9 bp):
ATTTTTATA
Found at i:85235538 original size:17 final size:18
Alignment explanation
Indices: 85235516--85235550 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
85235506 TTTTTTCTGA
85235516 TTATTTATAAT-ATTTTT
1 TTATTTATAATCATTTTT
*
85235533 TTATTTTTAATCATTTTT
1 TTATTTATAATCATTTTT
85235551 ATTAAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (18 bp):
TTATTTATAATCATTTTT
Found at i:85239810 original size:43 final size:43
Alignment explanation
Indices: 85239762--85239877 Score: 137
Period size: 43 Copynumber: 2.6 Consensus size: 43
85239752 ATATCACATA
* *
85239762 ATAATATCCTATAATATCCTATTAGGAATTAAATTTCTAAGA-G
1 ATAATATCCTATAATATCCTATTAGGAATCAAATTGCTAA-ATG
85239805 ATAATATCCTATAATATCTCT-TTAGGAATCAAATTGCTAAATG
1 ATAATATCCTATAATATC-CTATTAGGAATCAAATTGCTAAATG
* *
85239848 ATAATATTTCATAATAATATCCTAATAGGA
1 ATAATA--TCCT-ATAATATCCTATTAGGA
85239878 TTATAGTAGG
Statistics
Matches: 63, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
42 1 0.02
43 42 0.67
44 2 0.03
45 5 0.08
46 13 0.21
ACGTcount: A:0.42, C:0.12, G:0.09, T:0.37
Consensus pattern (43 bp):
ATAATATCCTATAATATCCTATTAGGAATCAAATTGCTAAATG
Found at i:85243428 original size:20 final size:20
Alignment explanation
Indices: 85243388--85243430 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
85243378 TCTTTAGTAG
**
85243388 TTTGAATCAATTGTTTATTA
1 TTTGAATCAATTCATTATTA
*
85243408 TTTGAATCAATTCATTGTTA
1 TTTGAATCAATTCATTATTA
85243428 TTT
1 TTT
85243431 AAATAGATTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.28, C:0.07, G:0.09, T:0.56
Consensus pattern (20 bp):
TTTGAATCAATTCATTATTA
Found at i:85247295 original size:93 final size:93
Alignment explanation
Indices: 85247180--85247351 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
85247170 CGCCCATAAG
* * *
85247180 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGTATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
85247245 ACTAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
85247273 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
85247338 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
85247352 TCAACCATCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:85247348 original size:46 final size:46
Alignment explanation
Indices: 85247173--85247348 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
85247163 TGTAACCCGC
* * * *
85247173 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGTAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * *
85247219 CCATAAGTGAACTCGGACTCAACTCAACTAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
85247269 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
85247312 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
85247349 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 62 0.57
47 28 0.26
48 2 0.02
49 2 0.02
50 2 0.02
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:85262833 original size:19 final size:18
Alignment explanation
Indices: 85262811--85262909 Score: 58
Period size: 20 Copynumber: 5.2 Consensus size: 18
85262801 TTTAATTTTT
85262811 TTTTCAATTTTTTATAAA
1 TTTTCAATTTTTTATAAA
* *
85262829 CTTTT-AATGATTTTATTAA
1 -TTTTCAAT-TTTTTATAAA
*
85262848 TTATCAATTTTTT-TAATA
1 TTTTCAATTTTTTATAA-A
* *
85262866 TTTTAAATGATTTTTACAAA
1 TTTTCAAT--TTTTTATAAA
* *
85262886 TTTTTATAGTTTTTAATAAA
1 TTTTCA-A-TTTTTTATAAA
85262906 TTTT
1 TTTT
85262910 AATAATTTTT
Statistics
Matches: 61, Mismatches: 11, Indels: 15
0.70 0.13 0.17
Matches are distributed among these distances:
17 2 0.03
18 17 0.28
19 15 0.25
20 23 0.38
21 3 0.05
22 1 0.02
ACGTcount: A:0.33, C:0.04, G:0.03, T:0.60
Consensus pattern (18 bp):
TTTTCAATTTTTTATAAA
Found at i:85262898 original size:29 final size:28
Alignment explanation
Indices: 85262857--85262920 Score: 67
Period size: 29 Copynumber: 2.2 Consensus size: 28
85262847 ATTATCAATT
* *
85262857 TTTTTAATATTTTAAATGATTTTTACA-AA
1 TTTTT-ATATTTTAAATAAATTTTA-ATAA
*
85262886 TTTTTATAGTTTTTAATAAATTTTAATAA
1 TTTTTATA-TTTTAAATAAATTTTAATAA
85262915 TTTTTA
1 TTTTTA
85262921 CAACTTTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
28 4 0.13
29 26 0.87
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (28 bp):
TTTTTATATTTTAAATAAATTTTAATAA
Found at i:85262909 original size:67 final size:65
Alignment explanation
Indices: 85262787--85262916 Score: 145
Period size: 67 Copynumber: 2.0 Consensus size: 65
85262777 ATAATTTTCA
* ** * * * *
85262787 CAATTTTTTTACTTTTTAATTTTTTTTTCAATTTTTTATAAACTTTTAATGATTTTATTAATTAT
1 CAATTTTTTTAATTTTTAATGATTTTTACAAATTTTTATAAACTTTTAATAATTTTAATAATTAT
**
85262852 CAATTTTTTTAATATTTTAAATGATTTTTACAAATTTTTAT-AGTTTTTAATAAATTTTAATAAT
1 CAATTTTTTTAAT-TTTT-AATGATTTTTACAAATTTTTATAAACTTTTAAT-AATTTTAATAAT
85262916 T
63 T
85262917 TTTACAACTT
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
65 12 0.23
66 12 0.23
67 29 0.55
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (65 bp):
CAATTTTTTTAATTTTTAATGATTTTTACAAATTTTTATAAACTTTTAATAATTTTAATAATTAT
Found at i:85262928 original size:19 final size:19
Alignment explanation
Indices: 85262865--85262936 Score: 72
Period size: 19 Copynumber: 3.7 Consensus size: 19
85262855 TTTTTTTAAT
*
85262865 ATTTTAAATGATTTTTACAA
1 ATTTT-AATAATTTTTACAA
* * *
85262885 ATTTTTATAGTTTTTAATAA
1 ATTTTAATAATTTTT-ACAA
85262905 ATTTTAATAATTTTTACAA
1 ATTTTAATAATTTTTACAA
* *
85262924 CTTTTAATGATTT
1 ATTTTAATAATTT
85262937 GTCTAATCAA
Statistics
Matches: 42, Mismatches: 9, Indels: 3
0.78 0.17 0.06
Matches are distributed among these distances:
19 21 0.50
20 21 0.50
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.56
Consensus pattern (19 bp):
ATTTTAATAATTTTTACAA
Found at i:85263194 original size:2 final size:2
Alignment explanation
Indices: 85263187--85263211 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
85263177 ATAAAGCCTT
85263187 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
85263212 GATTTATTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:85263435 original size:2 final size:2
Alignment explanation
Indices: 85263428--85263462 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
85263418 TTCATAATTA
85263428 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
85263463 GAGCCTCAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:85272255 original size:40 final size:40
Alignment explanation
Indices: 85272200--85272317 Score: 209
Period size: 40 Copynumber: 3.0 Consensus size: 40
85272190 GAAAAAAAAA
*
85272200 TATAACCGGGTTAAGTCCCGAAGGCATTCGTACTGGTTAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTAT
*
85272240 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTAT
*
85272280 TATAACCGGGTTAAGTCCCGAAGGCATTTGTGCTGGTT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTT
85272318 GTTACATCCG
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 74 1.00
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (40 bp):
TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTAT
Found at i:85280115 original size:40 final size:40
Alignment explanation
Indices: 85280060--85280137 Score: 138
Period size: 40 Copynumber: 1.9 Consensus size: 40
85280050 GAAAAAAAAA
85280060 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
* *
85280100 TATAACCGGGTTAAGTCCCGAAGGCATTTGTGCTGGTT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTT
85280138 GTTACATCCG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.29
Consensus pattern (40 bp):
TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
Found at i:85287730 original size:42 final size:42
Alignment explanation
Indices: 85287666--85287825 Score: 140
Period size: 42 Copynumber: 3.8 Consensus size: 42
85287656 ACAATAAGAT
* **
85287666 GTCAATGCCATGTCCCAGATATGGTTTTACATGGGATCTCAC
1 GTCAATGCCATATCCCAGATATGGTTTTACATGAAATCTCAC
** * * *
85287708 GTCAATTTCATATCCCAAATATGGTCTTATATGAAATCTCAC
1 GTCAATGCCATATCCCAGATATGGTTTTACATGAAATCTCAC
* * * ** * *
85287750 TTCAATGCCATGTCCCAGACATGGTTTTACACAAAACCTCAT
1 GTCAATGCCATATCCCAGATATGGTTTTACATGAAATCTCAC
* ** * *
85287792 ATCAACACCATATCCCAAATATGGTCTTACATGA
1 GTCAATGCCATATCCCAGATATGGTTTTACATGA
85287826 TATCACATGC
Statistics
Matches: 89, Mismatches: 29, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
42 89 1.00
ACGTcount: A:0.31, C:0.25, G:0.13, T:0.31
Consensus pattern (42 bp):
GTCAATGCCATATCCCAGATATGGTTTTACATGAAATCTCAC
Found at i:85290868 original size:71 final size:71
Alignment explanation
Indices: 85290784--85290946 Score: 319
Period size: 71 Copynumber: 2.3 Consensus size: 71
85290774 CGATTTGTCT
85290784 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
85290849 CTTTCA
66 CTTTCA
85290855 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
85290920 CTTTCA
66 CTTTCA
85290926 C-TAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
85290947 GATACATCTC
Statistics
Matches: 92, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
70 20 0.22
71 72 0.78
ACGTcount: A:0.19, C:0.28, G:0.17, T:0.36
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:85290984 original size:70 final size:70
Alignment explanation
Indices: 85290784--85290980 Score: 249
Period size: 71 Copynumber: 2.8 Consensus size: 70
85290774 CGATTTGTCT
* * * *
85290784 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
85290849 CTTTCA
65 CTTTCA
* * * *
85290855 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
85290920 CTTTCA
65 CTTTCA
* *
85290926 C-TAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
85290981 TACAGGGTGT
Statistics
Matches: 119, Mismatches: 6, Indels: 6
0.91 0.05 0.05
Matches are distributed among these distances:
67 22 0.18
68 1 0.01
69 1 0.01
70 23 0.19
71 72 0.61
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:85309003 original size:40 final size:40
Alignment explanation
Indices: 85308945--85309085 Score: 178
Period size: 40 Copynumber: 3.5 Consensus size: 40
85308935 TATTCGGATG
85308945 ATATCCGGGCTAAATCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAATCCCGAAGGCATTTGTGCAAGTTACT
* ** * *
85308985 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAATCCCGAAGGCATTTGTGCAAGTTACT
* * *
85309025 ATATCTGGGCTAAGA-CCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAA-ATCCCGAAGGCATTTGTGCAAGTTACT
*
85309065 ATATCC-GGCTAAATCCTGAAG
1 ATATCCGGGCTAAATCCCGAAG
85309086 ATACTTGGGT
Statistics
Matches: 85, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
38 1 0.01
39 12 0.14
40 72 0.85
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAATCCCGAAGGCATTTGTGCAAGTTACT
Found at i:85314938 original size:70 final size:70
Alignment explanation
Indices: 85314862--85314996 Score: 234
Period size: 70 Copynumber: 1.9 Consensus size: 70
85314852 TAGTTTATTA
* * * *
85314862 CTAATTAATTTGCTGCTGTAATGCTGTAAATTATTGGCTGTCCAAATTAGGACAAATTTATGGTG
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTGTCCAAATTAGGACAAAATCATGGTG
85314927 CTTAG
66 CTTAG
85314932 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTGTCCAAATTAGGACAAAATCATGGTG
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTGTCCAAATTAGGACAAAATCATGGTG
85314997 TTATGTGCTA
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
70 61 1.00
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.36
Consensus pattern (70 bp):
CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTGTCCAAATTAGGACAAAATCATGGTG
CTTAG
Found at i:85315926 original size:42 final size:43
Alignment explanation
Indices: 85315773--85315943 Score: 186
Period size: 43 Copynumber: 4.0 Consensus size: 43
85315763 TTATCGAAAT
*
85315773 ATGATATACGGGCTTCAGGCCTAGCAGGCTATAATGCCGGTGAA
1 ATGATAT-CGGGCTTCAAGCCTAGCAGGCTATAATGCCGGTGAA
** * *
85315817 ATGATATCGGGCTTCGGGCCTAGTAGGCTATAATGCCGGTGAG
1 ATGATATCGGGCTTCAAGCCTAGCAGGCTATAATGCCGGTGAA
* * * * * * *
85315860 ATAATATCGAGCCTCGAGCTTAGCAAGCTATAAT-ACGGTGAA
1 ATGATATCGGGCTTCAAGCCTAGCAGGCTATAATGCCGGTGAA
*
85315902 ATGATATTGGGCTTCAAGCCTAGCAGG-TGA-AATGCCGGTGAA
1 ATGATATCGGGCTTCAAGCCTAGCAGGCT-ATAATGCCGGTGAA
85315944 TGAATTCAGA
Statistics
Matches: 105, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
41 4 0.04
42 34 0.32
43 60 0.57
44 7 0.07
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (43 bp):
ATGATATCGGGCTTCAAGCCTAGCAGGCTATAATGCCGGTGAA
Found at i:85323320 original size:12 final size:12
Alignment explanation
Indices: 85323303--85323327 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
85323293 TTTTCATACA
85323303 GCCTAGCACACG
1 GCCTAGCACACG
85323315 GCCTAGCACACG
1 GCCTAGCACACG
85323327 G
1 G
85323328 GTGTGTTGGG
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:0.40, G:0.28, T:0.08
Consensus pattern (12 bp):
GCCTAGCACACG
Found at i:85324824 original size:13 final size:13
Alignment explanation
Indices: 85324806--85324830 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
85324796 CTGAGCACAC
85324806 GCCCGTGTCCCTG
1 GCCCGTGTCCCTG
85324819 GCCCGTGTCCCT
1 GCCCGTGTCCCT
85324831 TACACGACCA
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:0.00, C:0.48, G:0.28, T:0.24
Consensus pattern (13 bp):
GCCCGTGTCCCTG
Found at i:85328631 original size:20 final size:21
Alignment explanation
Indices: 85328590--85328631 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
85328580 TTAGAATTAA
*
85328590 TTCCACACGGGCATGTTGCCC
1 TTCCACACGAGCATGTTGCCC
*
85328611 TTCCACACGAGCGTG-TGCCC
1 TTCCACACGAGCATGTTGCCC
85328631 T
1 T
85328632 GTTTCAAAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.14, C:0.38, G:0.24, T:0.24
Consensus pattern (21 bp):
TTCCACACGAGCATGTTGCCC
Found at i:85337994 original size:45 final size:48
Alignment explanation
Indices: 85337929--85338054 Score: 172
Period size: 50 Copynumber: 2.7 Consensus size: 48
85337919 AGATGCAAGC
85337929 CAGTGTAAGA-TATGTCTGGGACAT-GCATCGGCTAC-AAAATG-T-GT
1 CAGTGTAAGACTATGTCTGGGACATGGCATCGGC-ACGAAAATGTTAGT
* *
85337973 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGAATATGTTAAAGT
1 CAGTGTAAGACTATGTCTGGGACATGGCATCGGCACGAAAATGTT--AGT
85338023 CAGTGTAAGACTATGTCTGGGACATGGCATCG
1 CAGTGTAAGACTATGTCTGGGACATGGCATCG
85338055 ACTTGATGTG
Statistics
Matches: 72, Mismatches: 3, Indels: 8
0.87 0.04 0.10
Matches are distributed among these distances:
44 10 0.14
45 15 0.21
46 13 0.18
47 1 0.01
50 33 0.46
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (48 bp):
CAGTGTAAGACTATGTCTGGGACATGGCATCGGCACGAAAATGTTAGT
Found at i:85339081 original size:83 final size:83
Alignment explanation
Indices: 85338977--85339143 Score: 271
Period size: 83 Copynumber: 2.0 Consensus size: 83
85338967 AGAATTGCTA
*
85338977 ACGTTAGAAACAGAATGTCTAAGTTCTTGCACATAGGCTAAGACACAAGTGTGTCATAGCCGTGT
1 ACGTTAGAAACAGAATGTCTAAGTTCTTGCACATAGGCTAAGACACAAGCGTGTCATAGCCGTGT
85339042 GAGAGACACGGGCCATGG
66 GAGAGACACGGGCCATGG
* * * * *
85339060 ACGTTAGAAACAGAATGTCTAAGTTTTTGCACATGGGTTAAGACATAGGCGTGTCATAGCCGTGT
1 ACGTTAGAAACAGAATGTCTAAGTTCTTGCACATAGGCTAAGACACAAGCGTGTCATAGCCGTGT
*
85339125 GAGAGACATGGGCCATGG
66 GAGAGACACGGGCCATGG
85339143 A
1 A
85339144 TACGAGCGTG
Statistics
Matches: 77, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
83 77 1.00
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.23
Consensus pattern (83 bp):
ACGTTAGAAACAGAATGTCTAAGTTCTTGCACATAGGCTAAGACACAAGCGTGTCATAGCCGTGT
GAGAGACACGGGCCATGG
Found at i:85345618 original size:48 final size:46
Alignment explanation
Indices: 85345528--85345695 Score: 164
Period size: 46 Copynumber: 3.6 Consensus size: 46
85345518 ATTGTGTACT
* *
85345528 AGTGTAAGACATGTCTGGAACATGCATCAGCCACATT---ACGAGAGCC
1 AGTGTAAGACATGTCTGGAATATGCATC-G--GCATTGAAACGAGAGCC
*
85345574 AGTGTAAGACCATGTCTGGAATATGGCATCGGCATTGAAACGAGAGCT
1 AGTGTAAGA-CATGTCTGGAATAT-GCATCGGCATTGAAACGAGAGCC
* * * * *
85345622 AGTGTAAGACATGTCTGGGATATGCATTGGCCTTGAGATGCA-AGCC
1 AGTGTAAGACATGTCTGGAATATGCATCGGCATTGAAACG-AGAGCC
* *
85345668 AGTGTAAGACATGTCTGGGACATGCATC
1 AGTGTAAGACATGTCTGGAATATGCATC
85345696 AGCTACAAGA
Statistics
Matches: 105, Mismatches: 11, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
45 4 0.04
46 51 0.49
47 28 0.27
48 22 0.21
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGAATATGCATCGGCATTGAAACGAGAGCC
Found at i:85345681 original size:46 final size:46
Alignment explanation
Indices: 85345565--85345695 Score: 165
Period size: 46 Copynumber: 2.8 Consensus size: 46
85345555 CAGCCACATT
*
85345565 ACGAGAGCCAGTGTAAGACCATGTCTGGAATATGGCATCGGCATTGAA
1 ACGAGAGCCAGTGTAAGA-CATGTCTGGGATAT-GCATCGGCATTGAA
* * * *
85345613 ACGAGAGCTAGTGTAAGACATGTCTGGGATATGCATTGGCCTTGAG
1 ACGAGAGCCAGTGTAAGACATGTCTGGGATATGCATCGGCATTGAA
* *
85345659 ATGCA-AGCCAGTGTAAGACATGTCTGGGACATGCATC
1 ACG-AGAGCCAGTGTAAGACATGTCTGGGATATGCATC
85345696 AGCTACAAGA
Statistics
Matches: 73, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
46 42 0.58
47 14 0.19
48 17 0.23
ACGTcount: A:0.29, C:0.18, G:0.30, T:0.23
Consensus pattern (46 bp):
ACGAGAGCCAGTGTAAGACATGTCTGGGATATGCATCGGCATTGAA
Found at i:85345707 original size:46 final size:46
Alignment explanation
Indices: 85345528--85345741 Score: 150
Period size: 46 Copynumber: 4.6 Consensus size: 46
85345518 ATTGTGTACT
* * **
85345528 AGTGTAAGACATGTCTGGAACATGCATCAGCCACATTACGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCTACAAGACGAGAGCC
* * * ** *
85345574 AGTGTAAGACCATGTCTGGAATATGGCATCGGCATTGAA-ACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGC-TACAAGACGAGAGCC
* ** ** *
85345622 AGTGTAAGACATGTCTGGGATATGCATTGGCCT-TGAGATGCA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAG-CTACAAGACG-AGAGCC
* * *
85345668 AGTGTAAGACATGTCTGGGACATGCATCAGCTACAAGA--TGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCTACAAGACGAGAGCC
*
85345712 AGTATAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC
85345742 GACTTAACGT
Statistics
Matches: 136, Mismatches: 22, Indels: 20
0.76 0.12 0.11
Matches are distributed among these distances:
44 10 0.07
45 17 0.12
46 56 0.41
47 28 0.21
48 24 0.18
49 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCTACAAGACGAGAGCC
Found at i:85345777 original size:47 final size:48
Alignment explanation
Indices: 85345569--85345788 Score: 160
Period size: 47 Copynumber: 4.7 Consensus size: 48
85345559 CACATTACGA
* * *
85345569 GAGCCAGTGTAAGACCATGTCTGGAATATGGCATCGGCATTGAAACGA---
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGAC-TT--AACGATGT
* * * * * *
85345617 GAGCTAGTGTAAGA-CATGTCTGGGATAT-GCATTGGCCTTGA-GATGC
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCA-TCGACTTAACGATGT
* *
85345663 AAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATC-AGC-TACAAGATGT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGA-CTTA-ACGATGT
* *
85345709 --GTCAGTATAAGACCATGTCTGGGACATGGCATCGACTTAACG-TGT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTAACGATGT
* *
85345754 GAGCTAGTGTAAGACCATGTCTGGGGCATGGCATC
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATC
85345789 AGATTATACC
Statistics
Matches: 140, Mismatches: 19, Indels: 27
0.75 0.10 0.15
Matches are distributed among these distances:
43 2 0.01
44 12 0.09
45 20 0.14
46 45 0.32
47 48 0.34
48 13 0.09
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.24
Consensus pattern (48 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTAACGATGT
Found at i:85353015 original size:6 final size:6
Alignment explanation
Indices: 85353004--85353040 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
85352994 TTAATGCAAA
85353004 TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT T
1 TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT T
85353041 AAATTAATCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTATTT
Found at i:85361372 original size:15 final size:16
Alignment explanation
Indices: 85361345--85361381 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
85361335 ACCAAAATTC
85361345 TATTTTTATTTTATAT
1 TATTTTTATTTTATAT
*
85361361 TATTTTTA-TTTATTT
1 TATTTTTATTTTATAT
85361376 TATTTT
1 TATTTT
85361382 CTTTATCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (16 bp):
TATTTTTATTTTATAT
Found at i:85363118 original size:288 final size:288
Alignment explanation
Indices: 85362599--85363172 Score: 826
Period size: 288 Copynumber: 2.0 Consensus size: 288
85362589 TTACAGGGGA
* * * * * * *
85362599 AAAGGTCTTAGTAAAATCCACAATAAATTACTGACTATACCCTTTGATAATCAATCTGGCCTTGT
1 AAAGGTCTTAGTAAAATCAACAACAAATTACTAACTATACCCCTTGATAACCAAGCTAGCCTTGT
* * *
85362664 ACTTGTTGATAAAACCATCAAGTTTCATTTTGGTTCTAAACACCTATTTGACCCCAATGACTTTC
66 ACTTGTTGATAAAACCATCAAGATTCATTTTAGTTCTAAACACCTATTTGACCCCAATGAATTTC
* *
85362729 TTATGAATCTGTCTATCTACCAACTCCCAAGTCTTATTCTTGTTGATCAAACTAATATCTTCCTT
131 TTATGAATCTGTCTATCTAACAACTCCCAAGTCTCATTCTTGTTGATCAAACTAATATCTTCCTT
* * * *
85362794 CATACCATCTCTCTATTCAAGTTCTTGTGTTACCTCTTCAAAAGTAACTACTTCCAACATTGCCA
196 CACAACATCTCTCTATTCAAGTTCTTGTGCTACCTCTTCAAAAGTAACTACTTCCAACACTGCCA
* *
85362859 AATTACACATCTGGTAGACTTTAGTAGC
261 AATTACACATCTGATAGAATTTAGTAGC
* *
85362887 AAAGGTCTTAGTAAAATCAACACCAAATTGCTAACTATACCCCTTGATAACCAAGCTAGCCTTGT
1 AAAGGTCTTAGTAAAATCAACAACAAATTACTAACTATACCCCTTGATAACCAAGCTAGCCTTGT
* * * *
85362952 ACTTGTTGATAGAACCATCAGGATTCATTTTAGTTCTGAACACCTATTTGATCCCAATGAATTTC
66 ACTTGTTGATAAAACCATCAAGATTCATTTTAGTTCTAAACACCTATTTGACCCCAATGAATTTC
* *
85363017 TTATGAA-CTGGTCTATCTAACAACTCCCAAGTCTCATTCTTGTTGATCATACTAATCTCTTCCT
131 TTATGAATCT-GTCTATCTAACAACTCCCAAGTCTCATTCTTGTTGATCAAACTAATATCTTCCT
* * * ** *
85363081 TCACAACATCTCTTTATTCAAGTTCTTGTGCTACCTCTTTAAAGGTAACTGGTTCTAACACTGCC
195 TCACAACATCTCTCTATTCAAGTTCTTGTGCTACCTCTTCAAAAGTAACTACTTCCAACACTGCC
* *
85363146 AAATTACATATTTGATAGAATTTAGTA
260 AAATTACACATCTGATAGAATTTAGTA
85363173 ATTGGCCTGG
Statistics
Matches: 251, Mismatches: 34, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
287 2 0.01
288 249 0.99
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.36
Consensus pattern (288 bp):
AAAGGTCTTAGTAAAATCAACAACAAATTACTAACTATACCCCTTGATAACCAAGCTAGCCTTGT
ACTTGTTGATAAAACCATCAAGATTCATTTTAGTTCTAAACACCTATTTGACCCCAATGAATTTC
TTATGAATCTGTCTATCTAACAACTCCCAAGTCTCATTCTTGTTGATCAAACTAATATCTTCCTT
CACAACATCTCTCTATTCAAGTTCTTGTGCTACCTCTTCAAAAGTAACTACTTCCAACACTGCCA
AATTACACATCTGATAGAATTTAGTAGC
Found at i:85368345 original size:21 final size:22
Alignment explanation
Indices: 85368305--85368345 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
85368295 TTCCAAATAA
* *
85368305 AACATTATATCATTTCTAATTC
1 AACATTATATCAATTATAATTC
85368327 AACATT-TATCAATTATAAT
1 AACATTATATCAATTATAAT
85368346 CGGGCATGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (22 bp):
AACATTATATCAATTATAATTC
Found at i:85369585 original size:15 final size:16
Alignment explanation
Indices: 85369558--85369587 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
85369548 AGATATTCCA
85369558 ATTTAGTCCCATTTTT
1 ATTTAGTCCCATTTTT
85369574 ATTTAG-CCCATTTT
1 ATTTAGTCCCATTTT
85369588 GTTAATTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.20, C:0.20, G:0.07, T:0.53
Consensus pattern (16 bp):
ATTTAGTCCCATTTTT
Found at i:85372964 original size:30 final size:30
Alignment explanation
Indices: 85372928--85372988 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
85372918 TCCTTAACTC
*
85372928 AAACTTTTTCAAAATTACAATTTTGCCCCT
1 AAACTTTTACAAAATTACAATTTTGCCCCT
* * *
85372958 AAACTTTTACATATTTACACTTTTGCCCCT
1 AAACTTTTACAAAATTACAATTTTGCCCCT
85372988 A
1 A
85372989 GGCTCTGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.25, G:0.03, T:0.41
Consensus pattern (30 bp):
AAACTTTTACAAAATTACAATTTTGCCCCT
Found at i:85378042 original size:17 final size:18
Alignment explanation
Indices: 85378020--85378053 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
85378010 AAAAATTTCA
*
85378020 AAAAGT-GACAAACTCAC
1 AAAAGTAGAAAAACTCAC
85378037 AAAAGTAGAAAAACTCA
1 AAAAGTAGAAAAACTCA
85378054 GTCATTTATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.59, C:0.18, G:0.12, T:0.12
Consensus pattern (18 bp):
AAAAGTAGAAAAACTCAC
Found at i:85382793 original size:29 final size:29
Alignment explanation
Indices: 85382719--85382833 Score: 101
Period size: 29 Copynumber: 4.0 Consensus size: 29
85382709 TACATACATG
* *
85382719 CATATGGCCCACTGGGCCCAA-TC-TCATT
1 CATATAGCCCACTAGGCCCAATTCAT-ATT
* *
85382747 CATATGGTCCATCT-GGCCCAATTCATATT
1 CATATAGCCCA-CTAGGCCCAATTCATATT
* * *
85382776 CTTATAGCCTACTAGGCCCAATTCACATT
1 CATATAGCCCACTAGGCCCAATTCATATT
* * *
85382805 CATATGGCCCATTAGGCCCAAATCATATT
1 CATATAGCCCACTAGGCCCAATTCATATT
85382834 ATACTCATGC
Statistics
Matches: 71, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
28 19 0.27
29 51 0.72
30 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.14, T:0.30
Consensus pattern (29 bp):
CATATAGCCCACTAGGCCCAATTCATATT
Found at i:85384318 original size:16 final size:16
Alignment explanation
Indices: 85384297--85384329 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
85384287 AAAAATTCAA
*
85384297 GATTTCGGGATTTTTG
1 GATTTCAGGATTTTTG
85384313 GATTTCAGGATTTTTG
1 GATTTCAGGATTTTTG
85384329 G
1 G
85384330 GGCGTTACAT
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:0.15, C:0.06, G:0.30, T:0.48
Consensus pattern (16 bp):
GATTTCAGGATTTTTG
Found at i:85385929 original size:3 final size:3
Alignment explanation
Indices: 85385921--85385991 Score: 142
Period size: 3 Copynumber: 23.7 Consensus size: 3
85385911 ATGTAGAAAT
85385921 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
85385969 ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA AT
85385992 GATGATGATG
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 68 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:85385996 original size:3 final size:3
Alignment explanation
Indices: 85385990--85386056 Score: 134
Period size: 3 Copynumber: 22.3 Consensus size: 3
85385980 AATAATAATA
85385990 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
85386038 ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG A
85386057 AGGAAAATAT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 64 1.00
ACGTcount: A:0.34, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
ATG
Found at i:85386674 original size:22 final size:24
Alignment explanation
Indices: 85386649--85386696 Score: 66
Period size: 22 Copynumber: 2.1 Consensus size: 24
85386639 AATTTTATGC
85386649 TAAATTGATAA-AGAT-TAA-TATA
1 TAAATT-ATAATAGATATAATTATA
85386671 TAAATTATAATAGATATAATTATA
1 TAAATTATAATAGATATAATTATA
85386695 TA
1 TA
85386697 TTAAAGATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 4 0.17
22 10 0.43
23 3 0.13
24 6 0.26
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (24 bp):
TAAATTATAATAGATATAATTATA
Found at i:85399358 original size:36 final size:36
Alignment explanation
Indices: 85399311--85399382 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
85399301 GAGATAGTGA
*
85399311 ACATTAAATCTTCTTGATTCACTTCAGGTATCTGTG
1 ACATTAAATCTTCTTGATTCACTTCAGCTATCTGTG
*
85399347 ACATTAAATCTTCTTGATTCACTTCAGCTATTTGTG
1 ACATTAAATCTTCTTGATTCACTTCAGCTATCTGTG
85399383 TCTGAGCATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.25, C:0.19, G:0.12, T:0.43
Consensus pattern (36 bp):
ACATTAAATCTTCTTGATTCACTTCAGCTATCTGTG
Found at i:85400353 original size:20 final size:18
Alignment explanation
Indices: 85400301--85400354 Score: 58
Period size: 20 Copynumber: 2.9 Consensus size: 18
85400291 ATAGTGTAGA
85400301 TAATCATTAAATTAA-ATT
1 TAAT-ATTAAATTAATATT
85400319 TAATATTAAGA-TAATCACTT
1 TAATATTAA-ATTAAT-A-TT
85400339 TAATATTAAATTAATA
1 TAATATTAAATTAATA
85400355 AAAAAATTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
17 8 0.26
18 5 0.16
19 3 0.10
20 15 0.48
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.43
Consensus pattern (18 bp):
TAATATTAAATTAATATT
Found at i:85409698 original size:32 final size:32
Alignment explanation
Indices: 85409657--85409727 Score: 124
Period size: 32 Copynumber: 2.2 Consensus size: 32
85409647 AATAGGATGC
* *
85409657 AAATGTATATGAACTGTGGTAGATTAATAATT
1 AAATTTATATGAACTGTGATAGATTAATAATT
85409689 AAATTTATATGAACTGTGATAGATTAATAATT
1 AAATTTATATGAACTGTGATAGATTAATAATT
85409721 AAATTTA
1 AAATTTA
85409728 CCCATACAGA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.44, C:0.03, G:0.14, T:0.39
Consensus pattern (32 bp):
AAATTTATATGAACTGTGATAGATTAATAATT
Found at i:85419605 original size:25 final size:25
Alignment explanation
Indices: 85419577--85419627 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
85419567 TTGAGTACAT
85419577 TCGGCATTCGACGAATTGACGACAA
1 TCGGCATTCGACGAATTGACGACAA
85419602 TCGGCATTCGACGAATTGACGACAA
1 TCGGCATTCGACGAATTGACGACAA
85419627 T
1 T
85419628 GGAGGAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.31, C:0.24, G:0.24, T:0.22
Consensus pattern (25 bp):
TCGGCATTCGACGAATTGACGACAA
Found at i:85419818 original size:21 final size:21
Alignment explanation
Indices: 85419757--85419818 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 21
85419747 CAACTCTATT
* * *
85419757 GAGCTTCTGTTTAACCCTTAT
1 GAGCTTCCGTTCAACCCTTAC
* * * *
85419778 GGGTTTCCGTTCAGCTCTTAC
1 GAGCTTCCGTTCAACCCTTAC
85419799 GAGCTTCCGTTCAACCCTTA
1 GAGCTTCCGTTCAACCCTTA
85419819 TGGGTTTCTG
Statistics
Matches: 30, Mismatches: 11, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.16, C:0.29, G:0.18, T:0.37
Consensus pattern (21 bp):
GAGCTTCCGTTCAACCCTTAC
Found at i:85419853 original size:42 final size:42
Alignment explanation
Indices: 85419706--85419853 Score: 147
Period size: 42 Copynumber: 3.5 Consensus size: 42
85419696 CTTTCCATTT
* * * *
85419706 AGCTCTCACGAGCTTCTGTTTAACTCATATGAGTTT-TCGTTC
1 AGCTCTCACGAGCTTCTGTTCAACCCTTATGGGTTTCT-GTTC
* * * *
85419748 AACTCT-ATTGAGCTTCTGTTTAACCCTTATGGGTTTCCGTTC
1 AGCTCTCA-CGAGCTTCTGTTCAACCCTTATGGGTTTCTGTTC
* * *
85419790 AGCTCTTACGAGCTTCCGTTCAACCCTTATGGGTTTCTGTTT
1 AGCTCTCACGAGCTTCTGTTCAACCCTTATGGGTTTCTGTTC
* *
85419832 AGCTCTCATGAGCTTTTGTTCA
1 AGCTCTCACGAGCTTCTGTTCA
85419854 GCCTTCGGGC
Statistics
Matches: 87, Mismatches: 16, Indels: 6
0.80 0.15 0.06
Matches are distributed among these distances:
41 1 0.01
42 85 0.98
43 1 0.01
ACGTcount: A:0.17, C:0.24, G:0.18, T:0.41
Consensus pattern (42 bp):
AGCTCTCACGAGCTTCTGTTCAACCCTTATGGGTTTCTGTTC
Found at i:85433158 original size:28 final size:27
Alignment explanation
Indices: 85433095--85433164 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
85433085 ATAGTGAGTC
85433095 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
85433122 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
85433150 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
85433165 GTACAAGTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:85440578 original size:2 final size:2
Alignment explanation
Indices: 85440571--85440619 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
85440561 CCATTTTCTT
85440571 TA TA TA TA TA TA 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 TA TA TA TA TA TA
85440613 TA TA TA T
1 TA TA TA T
85440620 TAATATGACC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:85445818 original size:20 final size:20
Alignment explanation
Indices: 85445784--85445887 Score: 79
Period size: 20 Copynumber: 5.2 Consensus size: 20
85445774 TGTTATTTGT
85445784 TATATTTTA-ATATTTAAAA
1 TATATTTTATATATTTAAAA
* *
85445803 TATAGTTTATATATTTAAAT
1 TATATTTTATATATTTAAAA
* * *
85445823 TAAATTTTATAAATATTAATA
1 TATATTTTATATAT-TTAAAA
** *
85445844 T-TAATTGCAAATATTTAAAA
1 TAT-ATTTTATATATTTAAAA
85445864 GTTATATTTTATATA-TTAAAA
1 --TATATTTTATATATTTAAAA
85445885 TAT
1 TAT
85445888 TAAAAACAAA
Statistics
Matches: 63, Mismatches: 16, Indels: 12
0.69 0.18 0.13
Matches are distributed among these distances:
19 11 0.17
20 25 0.40
21 18 0.29
22 8 0.13
23 1 0.02
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.50
Consensus pattern (20 bp):
TATATTTTATATATTTAAAA
Found at i:85446770 original size:17 final size:17
Alignment explanation
Indices: 85446743--85446785 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
85446733 TATTAAGTCT
*
85446743 ATATAAGATATTAATTT-
1 ATATAAAATATT-ATTTA
*
85446760 TTATAAAATATTATTTA
1 ATATAAAATATTATTTA
85446777 ATATAAAAT
1 ATATAAAAT
85446786 GAACTTGGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (17 bp):
ATATAAAATATTATTTA
Found at i:85449328 original size:45 final size:47
Alignment explanation
Indices: 85449256--85449385 Score: 167
Period size: 45 Copynumber: 2.8 Consensus size: 47
85449246 TCTCAATTGA
* *
85449256 TAAGTACCTATACCATTGCCCGTAGCCAAATCAAGGTAACTTATCT-
1 TAAGTACCTATACCATAGCCCGTAGCCAAATCAAGGTAACTCATCTC
* *
85449302 TGGAGTACCTATA-CA-AGCCCGTAGCCAAATCAAGGTAACTCCTCTC
1 T-AAGTACCTATACCATAGCCCGTAGCCAAATCAAGGTAACTCATCTC
* * *
85449348 TAAATACCTATACCATGGCCTGTAGCCAAATCAAGGTA
1 TAAGTACCTATACCATAGCCCGTAGCCAAATCAAGGTA
85449386 TTATTCGCAC
Statistics
Matches: 72, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
45 36 0.50
46 6 0.08
47 30 0.42
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (47 bp):
TAAGTACCTATACCATAGCCCGTAGCCAAATCAAGGTAACTCATCTC
Found at i:85454549 original size:49 final size:49
Alignment explanation
Indices: 85454492--85454621 Score: 156
Period size: 49 Copynumber: 2.7 Consensus size: 49
85454482 TGACATGTGT
* *
85454492 CAGTGTAAGACCTGTCTGAGACATGACATTGACACT-GATAGATGAGAGC
1 CAGTGTAAGACCTGTCTGAGACATGACATCGAC-CTCGATAGATGAAAGC
* * *
85454541 CAGTGTAAGACCTGTCT-AGGACATGGCATCGACCTCGATATATGAAAGT
1 CAGTGTAAGACCTGTCTGA-GACATGACATCGACCTCGATAGATGAAAGC
* * *
85454590 CAGTATAAGACCTGTCTGGGACATGGCATCGA
1 CAGTGTAAGACCTGTCTGAGACATGACATCGA
85454622 ATTAGATGTG
Statistics
Matches: 71, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
48 3 0.04
49 68 0.96
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.23
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTGAGACATGACATCGACCTCGATAGATGAAAGC
Found at i:85454552 original size:93 final size:92
Alignment explanation
Indices: 85454400--85454571 Score: 238
Period size: 93 Copynumber: 1.9 Consensus size: 92
85454390 TTATGAGAGC
* * * * * * * *
85454400 CAGTGTAAGACCATGTTTGGGACATGGCATTGGCATTAAGATGTGTGCTAGTGTAAGACCTGTCT
1 CAGTGTAAGACCATGTCTGAGACATGACATTGACATGAAGATGAGAGCCAGTGTAAGACCTGTCT
*
85454465 GGGACATGGCATCGGCTTGACATGTGT
66 AGGACATGGCATCGGCTTGACATGTGT
85454492 CAGTGTAAGACC-TGTCTGAGACATGACATTGACACTGATAGATGAGAGCCAGTGTAAGACCTGT
1 CAGTGTAAGACCATGTCTGAGACATGACATTGACA-TGA-AGATGAGAGCCAGTGTAAGACCTGT
85454556 CTAGGACATGGCATCG
64 CTAGGACATGGCATCG
85454572 ACCTCGATAT
Statistics
Matches: 69, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
91 18 0.26
92 14 0.20
93 37 0.54
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (92 bp):
CAGTGTAAGACCATGTCTGAGACATGACATTGACATGAAGATGAGAGCCAGTGTAAGACCTGTCT
AGGACATGGCATCGGCTTGACATGTGT
Found at i:85459656 original size:30 final size:30
Alignment explanation
Indices: 85459622--85459678 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
85459612 GGGTCACACG
*
85459622 CCGTGTGAACAGGTCGTGTGCCTCACATGC
1 CCGTGTGAACAGGCCGTGTGCCTCACATGC
85459652 CCGTGTGAACAGGCCGTGTGCCTCACA
1 CCGTGTGAACAGGCCGTGTGCCTCACA
85459679 CGGCCACCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.18, C:0.32, G:0.30, T:0.21
Consensus pattern (30 bp):
CCGTGTGAACAGGCCGTGTGCCTCACATGC
Found at i:85464929 original size:38 final size:37
Alignment explanation
Indices: 85464887--85465014 Score: 177
Period size: 38 Copynumber: 3.4 Consensus size: 37
85464877 CATGGTCCTG
*
85464887 CTATGGTCTTTACACTTTATTAGAATGCCATAGTCCAA
1 CTATGGTC-TTACACTTTATTAGAATGCCATAGCCCAA
* *
85464925 CTATGGTCTTTACACTTTATCACAATGCCATAGCCCAA
1 CTATGGTC-TTACACTTTATTAGAATGCCATAGCCCAA
*
85464963 CTATGGTCTTACACTTTAATTACG-ATGCCATAGCCCAG
1 CTATGGTCTTACACTTT-ATTA-GAATGCCATAGCCCAA
85465001 CTATGGTCTTACAC
1 CTATGGTCTTACAC
85465015 GTACACACAT
Statistics
Matches: 82, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
37 9 0.11
38 73 0.89
ACGTcount: A:0.27, C:0.26, G:0.13, T:0.34
Consensus pattern (37 bp):
CTATGGTCTTACACTTTATTAGAATGCCATAGCCCAA
Found at i:85465047 original size:11 final size:11
Alignment explanation
Indices: 85465031--85465060 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
85465021 ACATGCATTG
85465031 CCATGGTCCAA
1 CCATGGTCCAA
85465042 CCATGGTCCAA
1 CCATGGTCCAA
85465053 CCATGGTC
1 CCATGGTC
85465061 TTACGTTTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.23, C:0.37, G:0.20, T:0.20
Consensus pattern (11 bp):
CCATGGTCCAA
Found at i:85469543 original size:28 final size:28
Alignment explanation
Indices: 85469474--85469574 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
85469464 GACAAGATTG
* * * *
85469474 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
85469504 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
85469532 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
85469561 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
85469575 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:85477466 original size:28 final size:28
Alignment explanation
Indices: 85477397--85477497 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
85477387 GACAAGATTG
* * * *
85477397 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
85477427 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
85477455 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
85477484 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
85477498 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:85485996 original size:80 final size:80
Alignment explanation
Indices: 85485912--85486060 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
85485902 TATGGTAACC
* * * *
85485912 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
85485976 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
85485992 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
85486057 CCGG
66 CCGG
85486061 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:85486002 original size:40 final size:38
Alignment explanation
Indices: 85485953--85486060 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
85485943 ATCACGATTT
*
85485953 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
85485993 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
85486033 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
85486061 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:85504367 original size:6 final size:6
Alignment explanation
Indices: 85504349--85504424 Score: 50
Period size: 6 Copynumber: 12.3 Consensus size: 6
85504339 AAGAAATATT
* *
85504349 ATCAGA A-CTAGA ATCAGA ATCAG- GTGACAGA ATCAGA ATCAGA ATCAGT
1 ATCAGA ATC-AGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA ATCAGA
* *
85504398 GTCAGGTA AT-AGA ATCAAA ATCAGA AT
1 ATCA-G-A ATCAGA ATCAGA ATCAGA AT
85504425 GTGAATGCAA
Statistics
Matches: 54, Mismatches: 8, Indels: 16
0.69 0.10 0.21
Matches are distributed among these distances:
5 5 0.09
6 41 0.76
7 6 0.11
8 2 0.04
ACGTcount: A:0.46, C:0.14, G:0.20, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:85504385 original size:31 final size:31
Alignment explanation
Indices: 85504349--85504424 Score: 91
Period size: 31 Copynumber: 2.5 Consensus size: 31
85504339 AAGAAATATT
*
85504349 ATCAGAA-CTAGAATCAGAATCAGGTGACAGA
1 ATCAGAATC-AGAATCAGAATCAGGTAACAGA
** *
85504380 ATCAGAATCAGAATCAGTGTCAGGTAATAGA
1 ATCAGAATCAGAATCAGAATCAGGTAACAGA
*
85504411 ATCAAAATCAGAAT
1 ATCAGAATCAGAAT
85504425 GTGAATGCAA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
31 38 0.97
32 1 0.03
ACGTcount: A:0.46, C:0.14, G:0.20, T:0.20
Consensus pattern (31 bp):
ATCAGAATCAGAATCAGAATCAGGTAACAGA
Found at i:85504590 original size:26 final size:25
Alignment explanation
Indices: 85504542--85504633 Score: 85
Period size: 27 Copynumber: 3.5 Consensus size: 25
85504532 AACATGGCTG
* *
85504542 CCAGAACAGATATTGTGATAGAGTCA
1 CCAGAACAGATATT-TGACAGAGCCA
*
85504568 CCAGATACAGATATTTGGCAGAGCCA
1 CCAGA-ACAGATATTTGACAGAGCCA
* * *
85504594 CCAGAACAAATATTTGTGGCATAGCCA
1 CCAGAACAGATA-TT-TGACAGAGCCA
85504621 CCAGAATCAGATA
1 CCAGAA-CAGATA
85504634 ATGTGGCAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
25 6 0.11
26 20 0.36
27 25 0.45
28 5 0.09
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.21
Consensus pattern (25 bp):
CCAGAACAGATATTTGACAGAGCCA
Found at i:85504638 original size:27 final size:27
Alignment explanation
Indices: 85504566--85504648 Score: 82
Period size: 27 Copynumber: 3.1 Consensus size: 27
85504556 GTGATAGAGT
* *
85504566 CACCAG-ATACAGAT-ATTTGGCAGAGC
1 CACCAGAAT-CAGATAATGTGGCAAAGC
* * *
85504592 CACCAGAA-CAAATATTTGTGGCATAGC
1 CACCAGAATCAGATA-ATGTGGCAAAGC
85504619 CACCAGAATCAGATAATGTGGCAAAGC
1 CACCAGAATCAGATAATGTGGCAAAGC
85504646 CAC
1 CAC
85504649 TTAACAGAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 7
0.77 0.12 0.12
Matches are distributed among these distances:
25 4 0.09
26 6 0.13
27 31 0.67
28 5 0.11
ACGTcount: A:0.37, C:0.24, G:0.20, T:0.18
Consensus pattern (27 bp):
CACCAGAATCAGATAATGTGGCAAAGC
Found at i:85505162 original size:18 final size:18
Alignment explanation
Indices: 85505139--85505173 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
85505129 AATCAAATCC
85505139 GTCAACCACGTAGTCCAA
1 GTCAACCACGTAGTCCAA
85505157 GTCAACCACGTAGTCCA
1 GTCAACCACGTAGTCCA
85505174 TAAGGGCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.34, G:0.17, T:0.17
Consensus pattern (18 bp):
GTCAACCACGTAGTCCAA
Found at i:85505243 original size:27 final size:27
Alignment explanation
Indices: 85505213--85505300 Score: 92
Period size: 27 Copynumber: 3.3 Consensus size: 27
85505203 GGGGCAAAAT
* *
85505213 GGTAATTTTACCCCATGAGGGTATCTC
1 GGTAATTCTACCCCATGAGGGTATTTC
85505240 GGTAATTCTACCCTACA-G-GGGTATTTC
1 GGTAATTCTACCC--CATGAGGGTATTTC
* *
85505267 GGTAATTCTACCCTAT-AGGGTTGTTTC
1 GGTAATTCTACCCCATGAGGG-TATTTC
85505294 GGTAATT
1 GGTAATT
85505301 TTGTAAATCG
Statistics
Matches: 52, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
25 1 0.02
26 3 0.06
27 45 0.87
28 1 0.02
29 2 0.04
ACGTcount: A:0.22, C:0.19, G:0.23, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCCATGAGGGTATTTC
Found at i:85505432 original size:27 final size:27
Alignment explanation
Indices: 85505365--85505623 Score: 217
Period size: 27 Copynumber: 9.6 Consensus size: 27
85505355 TACAAGTTAA
* *
85505365 AGGTATTTTAGTAATTTTACAAATCGG
1 AGGTATTTTGGTAATTTTGCAAATCGG
*
85505392 -GGTATTTTAGTAATTTTGCAAATCGG
1 AGGTATTTTGGTAATTTTGCAAATCGG
* *
85505418 AGGTATTTCGATAATTTTGCAAATCGG
1 AGGTATTTTGGTAATTTTGCAAATCGG
* ** *
85505445 GGGTATTTCAGTAATTTTACAAATCAGG
1 AGGTATTTTGGTAATTTTGCAAATC-GG
* **
85505473 -GGTATTTTGGTAATTTTACAAA-CCA
1 AGGTATTTTGGTAATTTTGCAAATCGG
* **
85505498 AGAGTATTTTGGTAATTTTACAAA-CCA
1 AG-GTATTTTGGTAATTTTGCAAATCGG
*** * *
85505525 AGGGTATTTCAATAATTTTGCTAATC-A
1 A-GGTATTTTGGTAATTTTGCAAATCGG
*
85505552 AGGGTATTTTGGTAATTTTGCTAATC-G
1 A-GGTATTTTGGTAATTTTGCAAATCGG
*
85505579 AGGGTATTTTGGTAATTTTGCTAATC-G
1 A-GGTATTTTGGTAATTTTGCAAATCGG
85505606 AGGGTATTTTGGTAATTT
1 A-GGTATTTTGGTAATTT
85505624 GGTAAGCTAA
Statistics
Matches: 205, Mismatches: 21, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
26 27 0.13
27 174 0.85
28 4 0.02
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (27 bp):
AGGTATTTTGGTAATTTTGCAAATCGG
Found at i:85505477 original size:54 final size:53
Alignment explanation
Indices: 85505331--85505623 Score: 257
Period size: 54 Copynumber: 5.5 Consensus size: 53
85505321 GGTAATTTAT
* * *** * *
85505331 AAATCAAGGGTACTTTGGTAATTTTACAAGTTAAAGGTATTT-TAGTAATTTTAC
1 AAATCAAGGGTATTTTGGTAATTTTACAA-ATCGGGGTATTTCGA-TAATTTTGC
* * *
85505385 AAATC-GGGGTATTTTAGTAATTTTGCAAATCGGAGGTATTTCGATAATTTTGC
1 AAATCAAGGGTATTTTGGTAATTTTACAAATCGG-GGTATTTCGATAATTTTGC
** ** * * *
85505438 AAATCGGGGGTATTTCAGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTAC
1 AAATCAAGGGTATTTTGGTAATTTTACAAATC-GGGGTATTTCGATAATTTTGC
* * * * *
85505492 AAACCAAGAGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAATAATTTTGC
1 AAATCAAGGGTATTTTGGTAATTTTACAAATC-GGGGTATTTCGATAATTTTGC
* * * * *
85505546 TAATCAAGGGTATTTTGGTAATTTTGCTAATCGAGGGTATTTTGGTAATTTTGC
1 AAATCAAGGGTATTTTGGTAATTTTACAAATCG-GGGTATTTCGATAATTTTGC
* *
85505600 TAATCGAGGGTATTTTGGTAATTT
1 AAATCAAGGGTATTTTGGTAATTT
85505624 GGTAAGCTAA
Statistics
Matches: 196, Mismatches: 38, Indels: 10
0.80 0.16 0.04
Matches are distributed among these distances:
52 1 0.01
53 39 0.20
54 154 0.79
55 2 0.01
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.40
Consensus pattern (53 bp):
AAATCAAGGGTATTTTGGTAATTTTACAAATCGGGGTATTTCGATAATTTTGC
Found at i:85505515 original size:81 final size:80
Alignment explanation
Indices: 85505366--85505623 Score: 302
Period size: 81 Copynumber: 3.2 Consensus size: 80
85505356 ACAAGTTAAA
* * * * *
85505366 GGTATTTTAGTAATTTTACAAATC-GGGGTATTTTAGTAATTTTGCAAATCGGAGGTATTTCGAT
1 GGTATTTCAGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTGCAAATCAGA-GTATTTTGGT
*
85505430 AATTTTGCAAATCGGG
65 AATTTTGCAAATCGAG
* *
85505446 GGTATTTCAGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACCAAGAGTATTTTGGT
1 GGTATTTCAGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTGCAAATC-AGAGTATTTTGGT
* * *
85505511 AATTTTACAAACCAAG
65 AATTTTGCAAATCGAG
* * * * * *
85505527 GGTATTTCAATAATTTTGCTAATCAAGGGTATTTTGGTAATTTTGCTAATCGAGGGTATTTTGGT
1 GGTATTTCAGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTGCAAATC-AGAGTATTTTGGT
*
85505592 AATTTTGCTAATCGAG
65 AATTTTGCAAATCGAG
**
85505608 GGTATTTTGGTAATTT
1 GGTATTTCAGTAATTT
85505624 GGTAAGCTAA
Statistics
Matches: 149, Mismatches: 27, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
80 23 0.15
81 124 0.83
82 2 0.01
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (80 bp):
GGTATTTCAGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTGCAAATCAGAGTATTTTGGTA
ATTTTGCAAATCGAG
Found at i:85507589 original size:6 final size:6
Alignment explanation
Indices: 85507571--85507646 Score: 50
Period size: 6 Copynumber: 12.3 Consensus size: 6
85507561 AAGAAATATT
* *
85507571 ATCAGA A-CTAGA ATCAGA ATCAG- GTGACAGA ATCAGA ATCAGA ATCAGT
1 ATCAGA ATC-AGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA ATCAGA
* *
85507620 GTCAGGTA AT-AGA ATCAAA ATCAGA AT
1 ATCA-G-A ATCAGA ATCAGA ATCAGA AT
85507647 GTGAATGCAA
Statistics
Matches: 54, Mismatches: 8, Indels: 16
0.69 0.10 0.21
Matches are distributed among these distances:
5 5 0.09
6 41 0.76
7 6 0.11
8 2 0.04
ACGTcount: A:0.46, C:0.14, G:0.20, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:85507607 original size:31 final size:31
Alignment explanation
Indices: 85507571--85507646 Score: 91
Period size: 31 Copynumber: 2.5 Consensus size: 31
85507561 AAGAAATATT
*
85507571 ATCAGAA-CTAGAATCAGAATCAGGTGACAGA
1 ATCAGAATC-AGAATCAGAATCAGGTAACAGA
** *
85507602 ATCAGAATCAGAATCAGTGTCAGGTAATAGA
1 ATCAGAATCAGAATCAGAATCAGGTAACAGA
*
85507633 ATCAAAATCAGAAT
1 ATCAGAATCAGAAT
85507647 GTGAATGCAA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
31 38 0.97
32 1 0.03
ACGTcount: A:0.46, C:0.14, G:0.20, T:0.20
Consensus pattern (31 bp):
ATCAGAATCAGAATCAGAATCAGGTAACAGA
Found at i:85507801 original size:27 final size:26
Alignment explanation
Indices: 85507764--85507871 Score: 99
Period size: 27 Copynumber: 4.0 Consensus size: 26
85507754 AGCATGGCTG
* *
85507764 CCAGAACAGATATTGTGATAGAGTCA
1 CCAGAACAGATATTGTGACAGAGCCA
* *
85507790 CCAGATACAGATATTTTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGACAGAGCCA
* * *
85507817 CCAGAACAAATATTTGTGGCATAGCCA
1 CCAGAACAGATA-TTGTGACAGAGCCA
* * *
85507844 CCAGAATCAGATAATGTGGCAAAGCCA
1 CCAGAA-CAGATATTGTGACAGAGCCA
85507871 C
1 C
85507872 TTAACAGAAT
Statistics
Matches: 69, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
26 11 0.16
27 53 0.77
28 5 0.07
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.20
Consensus pattern (26 bp):
CCAGAACAGATATTGTGACAGAGCCA
Done.