Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 67 of 259
Found at i:21618697 original size:78 final size:80
Alignment explanation
Indices: 21618557--21618776 Score: 236
Period size: 79 Copynumber: 2.8 Consensus size: 80
21618547 ATGATGTCCG
* * *
21618557 GGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGACAATATCCGGACTAAGAT-CCGAAGGCATTTG
1 GGCTAAGTCCCGAAGGCATTTGTGC-AAGAT-ACTATAACCGGGCTAAG-TCCCGAAGGCATTTG
* *
21618619 TGTGAGATACTAATTCCA
63 TGCGAGATACTAAATCCA
* *
21618637 GGCTAAG-CCTGAAGGCATTTGTGCAAGATACTAATTA-CGGGCTAAG-CCCGAAGGCATTTGTG
1 GGCTAAGTCCCGAAGGCATTTGTGCAAGATACT-ATAACCGGGCTAAGTCCCGAAGGCATTTGTG
* **
21618699 CGAGTTACTAAATCTG
65 CGAGATACTAAATCCA
* * * *
21618715 GGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTTG
1 GGCTAAGTCCCGAAGGCATTTGTGCAAGATACTATAACCGGGCTAAGTCCCGAAGGCATTTG
21618777 AACGAGGAGC
Statistics
Matches: 117, Mismatches: 16, Indels: 14
0.80 0.11 0.10
Matches are distributed among these distances:
78 35 0.30
79 51 0.44
80 31 0.26
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (80 bp):
GGCTAAGTCCCGAAGGCATTTGTGCAAGATACTATAACCGGGCTAAGTCCCGAAGGCATTTGTGC
GAGATACTAAATCCA
Found at i:21618798 original size:79 final size:79
Alignment explanation
Indices: 21618647--21618809 Score: 179
Period size: 79 Copynumber: 2.1 Consensus size: 79
21618637 GGCTAAGCCT
* ** *
21618647 GAAGGCATTTGTGCAAGATACTAATTACGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 GAAGGCATTTGTGCAAGATACTAATAACGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAAT
* *
21618712 CTGGGTTAAGTCCC
66 CTCGGTTAAATCCC
* * *
21618726 GAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTA
1 GAAGGCATTTGTGCAAGATACTAATAA-CGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTA
* *
21618789 TATC-CGGTTAAATTCC
63 AATCTCGGTTAAATCCC
21618805 GAAGG
1 GAAGG
21618810 TACGTGATTT
Statistics
Matches: 70, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
78 3 0.04
79 43 0.61
80 24 0.34
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.26
Consensus pattern (79 bp):
GAAGGCATTTGTGCAAGATACTAATAACGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAAT
CTCGGTTAAATCCC
Found at i:21623914 original size:25 final size:25
Alignment explanation
Indices: 21623880--21623930 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
21623870 TCCCTTGTAT
* *
21623880 TGGATAGAGCTTAAGGAAAATTAGA
1 TGGATAGAGCTCAAGGAAAATCAGA
21623905 TGGATAGAGCTCAAGGAAAATCAGA
1 TGGATAGAGCTCAAGGAAAATCAGA
21623930 T
1 T
21623931 TCACGATGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.43, C:0.08, G:0.27, T:0.22
Consensus pattern (25 bp):
TGGATAGAGCTCAAGGAAAATCAGA
Found at i:21626105 original size:39 final size:40
Alignment explanation
Indices: 21626004--21626195 Score: 178
Period size: 40 Copynumber: 4.8 Consensus size: 40
21625994 TTGAATGATG
* * * * *
21626004 TCCGGGCTAAGTCCCAAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTAC-GAGTTACTAAT
* *
21626043 ATCCGGACTAAGAT-CCGAAGGCATTTGTACGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTACGAGTTACTAAT
* *
21626084 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTAAT
* * *
21626123 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTAAT
* * *
21626162 AACCGGGCTATGTCCCGAAGGCATTTGAACGAGT
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGT
21626196 AGCTATATCC
Statistics
Matches: 126, Mismatches: 20, Indels: 12
0.80 0.13 0.08
Matches are distributed among these distances:
39 35 0.28
40 82 0.65
41 9 0.07
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTAAT
Found at i:21626142 original size:79 final size:81
Alignment explanation
Indices: 21626004--21626188 Score: 209
Period size: 79 Copynumber: 2.3 Consensus size: 81
21625994 TTGAATGATG
* * *
21626004 TCCGGGCTAAGTCCCAAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
21626068 TGTACGAGATACTA-A
66 TGTACGAGATACTATA
* * * **
21626083 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
* *
21626145 ATTGTGCGAGTTACTATA
64 ATTGTACGAGATACTATA
* *
21626163 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
21626189 AACGAGTAGC
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
78 1 0.01
79 55 0.62
80 33 0.37
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTACGAGATACTATA
Found at i:21626210 original size:79 final size:79
Alignment explanation
Indices: 21626057--21626221 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
21626047 GGACTAAGAT
* * **
21626057 CCGAAGGCATTTGTACGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTACGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
21626122 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
21626136 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTACGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
21626199 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
21626215 CCGAAGG
1 CCGAAGG
21626222 TACGTGATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 46 0.63
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTACGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:21629207 original size:28 final size:28
Alignment explanation
Indices: 21629175--21629277 Score: 143
Period size: 28 Copynumber: 3.7 Consensus size: 28
21629165 ATTGCATGAC
*
21629175 TATGAATGTGATTCGGCCTGACGGGCCA
1 TATGAATGTGATTCGGCCTGATGGGCCA
*
21629203 TATGAAAGTGATTCGGCCTGATGGGCCA
1 TATGAATGTGATTCGGCCTGATGGGCCA
* * *
21629231 CATGAATGTGATTGGGCCCGATGGGCCA
1 TATGAATGTGATTCGGCCTGATGGGCCA
* *
21629259 TATGAATGAGATTGGGCCT
1 TATGAATGTGATTCGGCCT
21629278 AAAGGGGCCA
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 66 1.00
ACGTcount: A:0.23, C:0.18, G:0.33, T:0.25
Consensus pattern (28 bp):
TATGAATGTGATTCGGCCTGATGGGCCA
Found at i:21633787 original size:28 final size:28
Alignment explanation
Indices: 21633741--21633795 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
21633731 TGTGCCTGAC
* * *
21633741 GGGCTATATGAAAGTGATTGGGCCTAAT
1 GGGCCATATGAAAGAGATTGGACCTAAT
*
21633769 GGGCCATATGAATGAGATTGGACCTAA
1 GGGCCATATGAAAGAGATTGGACCTAA
21633796 AGGGGTCAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.31, C:0.13, G:0.31, T:0.25
Consensus pattern (28 bp):
GGGCCATATGAAAGAGATTGGACCTAAT
Found at i:21636374 original size:48 final size:48
Alignment explanation
Indices: 21636290--21636382 Score: 127
Period size: 48 Copynumber: 1.9 Consensus size: 48
21636280 CACCATGGTT
* *
21636290 AATGAGATCCCGTGTAAGACCATGTCTAGGACATGGCATT-GGCATTGA
1 AATGAGATCCCGTATAAGACCATATCTAGGACATGGC-TTCGGCATTGA
*
21636338 AATGAGATCCCGTATAAGACCATATC-AGGGATATGGCTTCGGCAT
1 AATGAGATCCCGTATAAGACCATATCTA-GGACATGGCTTCGGCAT
21636383 CATTAACTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
47 3 0.08
48 37 0.93
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (48 bp):
AATGAGATCCCGTATAAGACCATATCTAGGACATGGCTTCGGCATTGA
Found at i:21639886 original size:12 final size:14
Alignment explanation
Indices: 21639852--21639887 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
21639842 ATATTTGACT
21639852 TGTTCTTAATTATA
1 TGTTCTTAATTATA
21639866 TGTTCTTAATTAT-
1 TGTTCTTAATTATA
21639879 TG-TCTTAAT
1 TGTTCTTAAT
21639888 ATTCCATGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 7 0.32
13 2 0.09
14 13 0.59
ACGTcount: A:0.25, C:0.08, G:0.08, T:0.58
Consensus pattern (14 bp):
TGTTCTTAATTATA
Found at i:21655753 original size:16 final size:16
Alignment explanation
Indices: 21655732--21655783 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
21655722 TTTGGTTCGC
21655732 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
21655748 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* * *
21655764 TGTAATGGAATAGATG
1 TGTATTGGATTAGAGG
21655780 TGTA
1 TGTA
21655784 ATAGCAAATC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.29, C:0.00, G:0.35, T:0.37
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:21655830 original size:45 final size:44
Alignment explanation
Indices: 21655764--21655858 Score: 118
Period size: 45 Copynumber: 2.1 Consensus size: 44
21655754 GGATTAGAGG
* * *
21655764 TGTAATGGAATAGATGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* * **
21655809 TGTAATGGAATATAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
21655853 TGTAAT
1 TGTAAT
21655859 AGAGGTGTAA
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
44 18 0.42
45 25 0.58
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.35
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:21656041 original size:18 final size:17
Alignment explanation
Indices: 21656020--21656054 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
21656010 TTATTATTTA
*
21656020 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
21656038 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
21656055 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:21656048 original size:28 final size:27
Alignment explanation
Indices: 21655978--21656050 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
21655968 TTTATTATCA
*
21655978 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
21656006 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
21656033 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
21656051 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:21656188 original size:18 final size:17
Alignment explanation
Indices: 21656167--21656201 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
21656157 TTATTATTAA
*
21656167 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
21656185 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
21656202 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:21656213 original size:147 final size:149
Alignment explanation
Indices: 21655939--21656213 Score: 500
Period size: 147 Copynumber: 1.9 Consensus size: 149
21655929 ATGATTATTG
*
21655939 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
*
21656004 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
66 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
21656069 AGAAATTTGTTTTGGTAAA
131 AGAAATTTGTTTTGGTAAA
* *
21656088 TTATT-TTATTTAAATTTTAATAAGATTA-TTAATATCAATAATAAATAATTTACTCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
21656151 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
21656214 ATATTCTTAT
Statistics
Matches: 122, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
147 94 0.77
148 23 0.19
149 5 0.04
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.47
Consensus pattern (149 bp):
TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
AGAAATTTGTTTTGGTAAA
Found at i:21656309 original size:18 final size:17
Alignment explanation
Indices: 21656269--21656321 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 17
21656259 AAATATAAAT
21656269 TAAAATA-ATAA-TT-A
1 TAAAATATATAATTTAA
*
21656283 TTAAATATAT--TTTAA
1 TAAAATATATAATTTAA
21656298 TTAAAATATATAATTTAA
1 -TAAAATATATAATTTAA
21656316 TAAAAT
1 TAAAAT
21656322 TCTAATAATC
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
14 8 0.26
15 3 0.10
16 9 0.29
17 6 0.19
18 5 0.16
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TAAAATATATAATTTAA
Found at i:21656379 original size:60 final size:59
Alignment explanation
Indices: 21656195--21656381 Score: 157
Period size: 60 Copynumber: 3.1 Consensus size: 59
21656185 ATATAATTTA
*
21656195 ATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT
1 ATAAAATTC-TAATAA-TAATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
* * ** * * * ** * * * *
21656256 GTAAAATAT-AAATTAA-AATAATAATTAT-TAAATATATTTTAATTAAAATATATAAT-TT
1 ATAAAAT-TCTAA-TAATAAT-ATTCTTATATGAATTTACTAAAATCATAATATATGATACT
21656314 AATAAAATTCTAATAATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
1 -ATAAAATTCTAATAAT-AATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
21656375 ATAAAAT
1 ATAAAAT
21656382 ATAATTTGAA
Statistics
Matches: 91, Mismatches: 26, Indels: 19
0.67 0.19 0.14
Matches are distributed among these distances:
58 5 0.05
59 37 0.41
60 38 0.42
61 10 0.11
62 1 0.01
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.41
Consensus pattern (59 bp):
ATAAAATTCTAATAATAATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
Found at i:21656380 original size:119 final size:120
Alignment explanation
Indices: 21656147--21656441 Score: 495
Period size: 119 Copynumber: 2.5 Consensus size: 120
21656137 TTACTCATAT
*
21656147 TTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTAAA-ATAATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
* * *
21656212 TAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAA
65 CAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAAA
21656268 TTAAAATAATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTC-TAATAATC
1 TTAAAATAATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATC
*
21656332 AATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAAT
66 AATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAAA
* *
21656387 TTGAAATAATTAA-TATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 TTAAAATAA-TAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
21656442 TAAAATAATT
Statistics
Matches: 166, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
119 108 0.65
120 53 0.32
121 5 0.03
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.43
Consensus pattern (120 bp):
TTAAAATAATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATC
AATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAAA
Found at i:21661222 original size:27 final size:26
Alignment explanation
Indices: 21661152--21661266 Score: 122
Period size: 27 Copynumber: 4.3 Consensus size: 26
21661142 AGCATGGCTG
* **
21661152 CCAGAACAGATATTGTGACAGAGTAA
1 CCAGAACAGATATTGTGGCAGAGCCA
*
21661178 CCAGATATAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGGCAGAGCCA
* *
21661205 CTAGAACAGATATATGTGGCATAGCCA
1 CCAGAACAGATAT-TGTGGCAGAGCCA
* *
21661232 CCAGAAACAAATATTTGTGGCATAGCCA
1 CCAG-AACAGATA-TTGTGGCAGAGCCA
21661260 CCAGAAC
1 CCAGAAC
21661267 GCTTCCTCCA
Statistics
Matches: 76, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
26 12 0.16
27 39 0.51
28 24 0.32
29 1 0.01
ACGTcount: A:0.38, C:0.20, G:0.22, T:0.20
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAGAGCCA
Found at i:21661245 original size:28 final size:27
Alignment explanation
Indices: 21661188--21661265 Score: 104
Period size: 28 Copynumber: 2.9 Consensus size: 27
21661178 CCAGATATAG
* * *
21661188 ATATTGTGGCAGAGCCACTAG-AACAG
1 ATATTGTGGCATAGCCACCAGAAACAA
21661214 ATATATGTGGCATAGCCACCAGAAACAA
1 ATAT-TGTGGCATAGCCACCAGAAACAA
21661242 ATATTTGTGGCATAGCCACCAGAA
1 ATA-TTGTGGCATAGCCACCAGAA
21661266 CGCTTCCTCC
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
26 4 0.09
27 15 0.33
28 26 0.57
29 1 0.02
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.21
Consensus pattern (27 bp):
ATATTGTGGCATAGCCACCAGAAACAA
Found at i:21671443 original size:27 final size:26
Alignment explanation
Indices: 21671386--21671498 Score: 91
Period size: 27 Copynumber: 4.2 Consensus size: 26
21671376 AGCATGGCTG
* * *
21671386 CCAGAATAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGGCAGAGCCA
* *
21671412 TCAGATACGGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGGCAGAGCCA
* *
21671439 CCAGAACAGATGTTTGTGGCAAAGCCA
1 CCAGAACAGAT-ATTGTGGCAGAGCCA
* * * *
21671466 CAAGAAATAGATATTTGTGGCATAGCTA
1 CCAG-AACAGATA-TTGTGGCAGAGCCA
21671494 CCAGA
1 CCAGA
21671499 CCGCTTCCTC
Statistics
Matches: 68, Mismatches: 15, Indels: 7
0.76 0.17 0.08
Matches are distributed among these distances:
26 9 0.13
27 38 0.56
28 21 0.31
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAGAGCCA
Found at i:21682085 original size:46 final size:46
Alignment explanation
Indices: 21682035--21682207 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
21682025 TGGTTGAGCA
21682035 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
21682081 TCCGAACTCGTTGAGTTGAGTCCGAGTT--CGTA-AGATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
21682126 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
21682174 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
21682208 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
44 3 0.03
45 1 0.01
46 59 0.55
47 28 0.26
48 1 0.01
49 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:21682191 original size:93 final size:93
Alignment explanation
Indices: 21682032--21682202 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
21682022 GGATGGTTGA
* * * *
21682032 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCATTGAGT
21682097 TGAGTCCGAGTTCGTAAGATGTAACTAG
66 TGAGTCCGAGTTCGTAAGATGTAACTAG
*
21682125 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCATTGAGT
21682190 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
21682203 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTAAGATGTAACTAG
Found at i:21682849 original size:41 final size:41
Alignment explanation
Indices: 21682792--21682874 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
21682782 AGTAGCCGTT
*
21682792 AATTTATTCGTAACAACATAAGCATGAGTTTAATAATTCTA
1 AATTTATTCATAACAACATAAGCATGAGTTTAATAATTCTA
21682833 AATTTATTCATAACAACATAAGCATGAGTTTAATAATTCTA
1 AATTTATTCATAACAACATAAGCATGAGTTTAATAATTCTA
21682874 A
1 A
21682875 GTTAAAGAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.43, C:0.12, G:0.08, T:0.36
Consensus pattern (41 bp):
AATTTATTCATAACAACATAAGCATGAGTTTAATAATTCTA
Found at i:21693683 original size:5 final size:5
Alignment explanation
Indices: 21693673--21693701 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
21693663 TTTCTTTGAG
21693673 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
21693702 CAGTAAAGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTA
Found at i:21698736 original size:47 final size:47
Alignment explanation
Indices: 21698644--21699011 Score: 553
Period size: 47 Copynumber: 7.7 Consensus size: 47
21698634 TCTGTACATG
* *
21698644 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCA
*
21698693 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGACA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCA
21698740 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCA
* *
21698789 ATGTGATGAATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCA
* *
21698836 ATGTGATGAATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCA
*
21698883 ATGTGATGAATGTGAACA-TGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCA
21698930 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCA
* * *
21698977 ATGTGATGGATGTGGAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
21699012 TCCCGAAGGG
Statistics
Matches: 300, Mismatches: 15, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
46 1 0.00
47 234 0.78
49 64 0.21
50 1 0.00
ACGTcount: A:0.34, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCA
Found at i:21701504 original size:38 final size:38
Alignment explanation
Indices: 21701440--21701514 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
21701430 AATCCGAGTT
*
21701440 TAAAGACCCGCTGACTATATGAAGAGATTATGTCCGGG
1 TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
* *
21701478 TAAAGACCCGATGGCTATGT-ACAGAGATTATGTCCGG
1 TAAAGACCCGATGACTATATGA-AGAGATTATGTCCGG
21701515 ATTAAAATTC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.24
Consensus pattern (38 bp):
TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
Found at i:21701669 original size:40 final size:40
Alignment explanation
Indices: 21701573--21701847 Score: 399
Period size: 40 Copynumber: 6.9 Consensus size: 40
21701563 TCGACGATGG
21701573 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATG-A
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
*
21701612 TCCGAGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
*
21701652 TCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
21701692 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
* * *
21701732 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
* ** * * * *
21701772 TCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
* * * *
21701812 TCTGGGCTAGGTCCCGAAGAGCAATCATGCTGGTGA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
21701848 CGTGTATTCG
Statistics
Matches: 214, Mismatches: 21, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
39 37 0.17
40 177 0.83
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
Found at i:21705397 original size:47 final size:47
Alignment explanation
Indices: 21705329--21705694 Score: 576
Period size: 47 Copynumber: 7.7 Consensus size: 47
21705319 TCTGTACATG
* *
21705329 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCA
21705376 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCA
21705423 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCA
* *
21705472 ATGTGATGAATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCA
* *
21705519 ATGTGATGAATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCA
*
21705566 ATGTGATGAATGTGAACA-TGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCA
21705613 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCA
* * *
21705660 ATGTGATGGATGTGGAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
21705695 TCCCGAAGGG
Statistics
Matches: 302, Mismatches: 13, Indels: 8
0.93 0.04 0.02
Matches are distributed among these distances:
46 1 0.00
47 255 0.84
49 45 0.15
50 1 0.00
ACGTcount: A:0.34, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCA
Found at i:21708676 original size:46 final size:46
Alignment explanation
Indices: 21708609--21708706 Score: 178
Period size: 46 Copynumber: 2.1 Consensus size: 46
21708599 TGAATATGTT
*
21708609 CATAAGTTAGCAAATTATCGAGTTGCCGTGAATTTATTCGTAACAA
1 CATAAGTAAGCAAATTATCGAGTTGCCGTGAATTTATTCGTAACAA
*
21708655 CATAAGTAAGCAAATTATCGAGTTTCCGTGAATTTATTCGTAACAA
1 CATAAGTAAGCAAATTATCGAGTTGCCGTGAATTTATTCGTAACAA
21708701 CATAAG
1 CATAAG
21708707 CATGAGATTA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 50 1.00
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.32
Consensus pattern (46 bp):
CATAAGTAAGCAAATTATCGAGTTGCCGTGAATTTATTCGTAACAA
Found at i:21715211 original size:6 final size:6
Alignment explanation
Indices: 21715200--21715374 Score: 175
Period size: 6 Copynumber: 28.8 Consensus size: 6
21715190 AACCAAAATG
*
21715200 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* *
21715248 AGTAA-C AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
21715297 AGAATC AGTAA-C AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC
1 AGAATC AG-AATC AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC
* *
21715345 AGAATT ACGTGA-C AGAATC AGAATC AGAAT
1 AGAATC A-G-AATC AGAATC AGAATC AGAAT
21715375 GTGAATGCAA
Statistics
Matches: 143, Mismatches: 10, Indels: 32
0.77 0.05 0.17
Matches are distributed among these distances:
5 11 0.08
6 118 0.83
7 11 0.08
8 3 0.02
ACGTcount: A:0.49, C:0.15, G:0.18, T:0.19
Consensus pattern (6 bp):
AGAATC
Found at i:21715215 original size:30 final size:30
Alignment explanation
Indices: 21715179--21715337 Score: 166
Period size: 30 Copynumber: 5.3 Consensus size: 30
21715169 AAGAAACATT
* *
21715179 ATCAGAATT-GGAACCAAAATGAGAATCAGA
1 ATCAGAATTAGGAA-CAGAATCAGAATCAGA
* *
21715209 ATCAGAATCAGTAACAGAATCAGAATCAGA
1 ATCAGAATTAGGAACAGAATCAGAATCAGA
*
21715239 ATCA-ATATTAGTAACAGAATCAGAATCAGA
1 ATCAGA-ATTAGGAACAGAATCAGAATCAGA
*
21715269 ATCAGAATTAGGTGACAGAATCAGAATCAGA
1 ATCAGAATTAGG-AACAGAATCAGAATCAGA
*
21715300 ATCAGTAA-CA-GAATCAGAATCAGAATCAGTA
1 ATCAG-AATTAGGAA-CAGAATCAGAATCAG-A
21715331 A-CAGAAT
1 ATCAGAAT
21715338 CAGAATCAGA
Statistics
Matches: 112, Mismatches: 9, Indels: 16
0.82 0.07 0.12
Matches are distributed among these distances:
29 4 0.04
30 77 0.69
31 29 0.26
32 2 0.02
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.19
Consensus pattern (30 bp):
ATCAGAATTAGGAACAGAATCAGAATCAGA
Found at i:21715303 original size:73 final size:73
Alignment explanation
Indices: 21715211--21715374 Score: 228
Period size: 73 Copynumber: 2.2 Consensus size: 73
21715201 GAATCAGAAT
* * *
21715211 CAGAATCAGTAA-CAGAATCAG-AATCAGAATCA-ATATTAGTAACAG-AATCAGAATCAGAATC
1 CAGAATCAG-AATCAGAATCAGTAA-CAGAATCAGA-ATCAGAATCAGTAA-CAGAATCAGAATC
*
21715272 AGAATTAGGTGA
62 AGAATTACGTGA
21715284 CAGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAA
1 CAGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAA
21715349 TTACGTGA
66 TTACGTGA
21715357 CAGAATCAGAATCAGAAT
1 CAGAATCAGAATCAGAAT
21715375 GTGAATGCAA
Statistics
Matches: 83, Mismatches: 4, Indels: 8
0.87 0.04 0.08
Matches are distributed among these distances:
72 2 0.02
73 76 0.92
74 5 0.06
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.19
Consensus pattern (73 bp):
CAGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAA
TTACGTGA
Found at i:21715529 original size:27 final size:26
Alignment explanation
Indices: 21715492--21715557 Score: 78
Period size: 27 Copynumber: 2.5 Consensus size: 26
21715482 AGCATGGCTG
*
21715492 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* * *
21715518 CCAGATACAGATATTGTGGCATAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
21715545 CCAGAATCAGATA
1 CCAGAA-CAGATA
21715558 ATGTGGCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
26 6 0.18
27 28 0.82
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.18
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:21715572 original size:27 final size:27
Alignment explanation
Indices: 21715516--21715573 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
21715506 GTGACAGAGT
* * *
21715516 CACCAGATACAGATATTGTGGCATAGC
1 CACCAGATACAGATAATGTGGCAAACC
21715543 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
21715570 CACC
1 CACC
21715574 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.19, T:0.17
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:21715778 original size:22 final size:22
Alignment explanation
Indices: 21715730--21715788 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
21715720 GTAAATACGT
*
21715730 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
21715752 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
21715774 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
21715789 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:21715941 original size:27 final size:26
Alignment explanation
Indices: 21715876--21715958 Score: 103
Period size: 27 Copynumber: 3.1 Consensus size: 26
21715866 TCGATCGGTC
* * *
21715876 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
21715902 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
* *
21715929 AACAGATATTTGTGGCATAGGCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
21715956 AAC
1 AAC
21715959 GCTTCCTCCG
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
26 8 0.16
27 42 0.84
ACGTcount: A:0.37, C:0.20, G:0.23, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:21716187 original size:27 final size:27
Alignment explanation
Indices: 21716157--21716352 Score: 248
Period size: 27 Copynumber: 7.3 Consensus size: 27
21716147 GGGGCAAAAT
* * *
21716157 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
21716184 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
21716211 AGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
21716238 GATAATTCTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
21716265 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
21716292 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
21716319 GGAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
21716346 AGTAATT
1 GGTAATT
21716353 TCACAATCAA
Statistics
Matches: 146, Mismatches: 23, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 146 1.00
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:21716387 original size:27 final size:27
Alignment explanation
Indices: 21716357--21716660 Score: 371
Period size: 27 Copynumber: 11.2 Consensus size: 27
21716347 GTAATTTCAC
* *
21716357 AATCAAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
21716384 AATCGAGAGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
** *
21716411 AA-CTGAGGGTAATCCAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
** * **
21716438 AATTAAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
21716465 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
21716492 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
21716519 AA-CTGAGGATAAAACGGTAATTCTGTAA
1 AATC-GAGGGTAAAACGGTAATTCTGT-A
*
21716547 AAACTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* *
21716575 AATCGAGGGTAAAACAGTAGTTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
21716602 AATTGAGGGTAAAACGGCAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
21716629 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
21716656 AATCG
1 AATCG
21716661 GGAGTACTTT
Statistics
Matches: 235, Mismatches: 35, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
26 2 0.01
27 202 0.86
28 8 0.03
29 23 0.10
ACGTcount: A:0.39, C:0.11, G:0.23, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:21718603 original size:79 final size:82
Alignment explanation
Indices: 21718492--21718676 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
21718482 GCTCCTCGTT
* *
21718492 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCACACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCACACAAATGCCTTC-GGATCTTAACCC
* *
21718555 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* * **
21718572 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCACACAAATGCCTTCGGATCTTAACCCG
* *
21718635 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
21718652 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
21718677 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCACACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:21718676 original size:40 final size:41
Alignment explanation
Indices: 21718492--21718676 Score: 204
Period size: 40 Copynumber: 4.6 Consensus size: 41
21718482 GCTCCTCGTT
* * *
21718492 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCA-CA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTAGCA
* * *
21718532 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTAGCA
* *
21718572 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTTAGCA
* * *
21718611 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAACTTAGCA
21718652 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
21718677 CATCATTCAA
Statistics
Matches: 123, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 77 0.63
41 12 0.10
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTAGCA
Found at i:21725832 original size:79 final size:80
Alignment explanation
Indices: 21725731--21725905 Score: 214
Period size: 79 Copynumber: 2.2 Consensus size: 80
21725721 CCACAACAAA
* * *
21725731 CGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATTTAGTA
1 CGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGGATATAGTA
*
21725794 AC-TCGCACAAATGCCTT
64 ACTTAGCACAAA-GCCTT
* ** * *
21725811 CGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGATATGGTCAC
1 CGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATATAGTAAC
21725875 TTAGCACAAAGCCTT
66 TTAGCACAAAGCCTT
21725890 CGGGACTTAGCCCGGA
1 CGGGACTTAGCCCGGA
21725906 CATCATTCAA
Statistics
Matches: 82, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
78 3 0.04
79 55 0.67
80 24 0.29
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.24
Consensus pattern (80 bp):
CGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATATAGTAAC
TTAGCACAAAGCCTT
Found at i:21725905 original size:40 final size:40
Alignment explanation
Indices: 21725731--21725905 Score: 214
Period size: 40 Copynumber: 4.4 Consensus size: 40
21725721 CCACAACAAA
* *
21725731 CGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTT
1 CGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTT
* *
21725771 CGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTT
1 CGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTT
*
21725811 CGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTT
1 CGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTT
* * * *
21725850 C-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTT
1 CGGGA-CTTAGCCCGGATATAGTAAC-TCGCACAAATGCCTT
21725890 CGGGACTTAGCCCGGA
1 CGGGACTTAGCCCGGA
21725906 CATCATTCAA
Statistics
Matches: 116, Mismatches: 13, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
38 2 0.02
39 32 0.28
40 70 0.60
41 12 0.10
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTT
Found at i:21730000 original size:40 final size:40
Alignment explanation
Indices: 21729956--21730071 Score: 205
Period size: 40 Copynumber: 2.9 Consensus size: 40
21729946 AGAATTGAGA
21729956 GTTACATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
1 GTTACATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
21729996 GTTACATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
1 GTTACATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
* * *
21730036 GTTATATCCGGGCTAAGTCCTGAAGGGCATTCGTGC
1 GTTACATCCGGGCTAAGTCCCGAAGAGCATTCGTGC
21730072 CAGTGATGTG
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 73 1.00
ACGTcount: A:0.20, C:0.24, G:0.30, T:0.26
Consensus pattern (40 bp):
GTTACATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
Found at i:21730315 original size:28 final size:28
Alignment explanation
Indices: 21730278--21730376 Score: 101
Period size: 28 Copynumber: 3.5 Consensus size: 28
21730268 ATGAATTGAG
* *
21730278 GCACTGTGTGTGTGAATTCTTTAACCGA
1 GCACTATGTGTGCGAATTCTTTAACCGA
** * ** *
21730306 GCACTATGTGTGCGAGA-TCGGTCAGTGG
1 GCACTATGTGTGCGA-ATTCTTTAACCGA
*
21730334 GCACTGTGTGTGCGAATTCTTTAACCGA
1 GCACTATGTGTGCGAATTCTTTAACCGA
21730362 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
21730377 GATCGGTCAG
Statistics
Matches: 53, Mismatches: 16, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
27 1 0.02
28 51 0.96
29 1 0.02
ACGTcount: A:0.20, C:0.19, G:0.30, T:0.30
Consensus pattern (28 bp):
GCACTATGTGTGCGAATTCTTTAACCGA
Found at i:21730341 original size:56 final size:56
Alignment explanation
Indices: 21730276--21730403 Score: 238
Period size: 56 Copynumber: 2.3 Consensus size: 56
21730266 GAATGAATTG
*
21730276 AGGCACTGTGTGTGTGAATTCTTTAACCGAGCACTATGTGTGCGAGATCGGTCAGT
1 AGGCACTGTGTGTGCGAATTCTTTAACCGAGCACTATGTGTGCGAGATCGGTCAGT
*
21730332 GGGCACTGTGTGTGCGAATTCTTTAACCGAGCACTATGTGTGCGAGATCGGTCAGT
1 AGGCACTGTGTGTGCGAATTCTTTAACCGAGCACTATGTGTGCGAGATCGGTCAGT
21730388 AGGCACTGTGTGTGCG
1 AGGCACTGTGTGTGCG
21730404 GATTTCGTTT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 69 1.00
ACGTcount: A:0.20, C:0.19, G:0.33, T:0.29
Consensus pattern (56 bp):
AGGCACTGTGTGTGCGAATTCTTTAACCGAGCACTATGTGTGCGAGATCGGTCAGT
Found at i:21730393 original size:28 final size:28
Alignment explanation
Indices: 21730306--21730403 Score: 94
Period size: 28 Copynumber: 3.5 Consensus size: 28
21730296 CTTTAACCGA
*
21730306 GCACTATGTGTGCGAGATCGGTCAGTGG
1 GCACTATGTGTGCGAGATCGGTCAGTAG
* ** *
21730334 GCACTGTGTGTGCGA-ATTCTTTAACCG-A-
1 GCACTATGTGTGCGAGA-TCGGT--CAGTAG
21730362 GCACTATGTGTGCGAGATCGGTCAGTAG
1 GCACTATGTGTGCGAGATCGGTCAGTAG
*
21730390 GCACTGTGTGTGCG
1 GCACTATGTGTGCG
21730404 GATTTCGTTT
Statistics
Matches: 54, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
26 2 0.04
27 2 0.04
28 47 0.87
29 1 0.02
30 2 0.04
ACGTcount: A:0.18, C:0.19, G:0.35, T:0.28
Consensus pattern (28 bp):
GCACTATGTGTGCGAGATCGGTCAGTAG
Found at i:21737892 original size:25 final size:25
Alignment explanation
Indices: 21737864--21737920 Score: 107
Period size: 25 Copynumber: 2.3 Consensus size: 25
21737854 TAAGCTTTCA
21737864 AAAGCTTAGTAAGCCATATACAAAT
1 AAAGCTTAGTAAGCCATATACAAAT
21737889 AAAGCTTAGTAAGCCATATACAAAT
1 AAAGCTTAGTAAGCCATATACAAAT
21737914 AAA-CTTA
1 AAAGCTTA
21737921 TTATATATCA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 4 0.12
25 28 0.88
ACGTcount: A:0.49, C:0.16, G:0.11, T:0.25
Consensus pattern (25 bp):
AAAGCTTAGTAAGCCATATACAAAT
Found at i:21738281 original size:43 final size:41
Alignment explanation
Indices: 21738223--21738331 Score: 114
Period size: 43 Copynumber: 2.6 Consensus size: 41
21738213 CAATGCCAAC
*
21738223 GTCCCAGACGTGGTCTTACATGTAATCAAATAT-CGATG-CCACT
1 GTCCCAGAAG-GGTCTTACATGTAAT--AATATGCGATGTCCA-T
* * *
21738266 GTCCTAGATAGGGTCTTACATGAAATAATATGCGATGTCGAT
1 GTCCCAGA-AGGGTCTTACATGTAATAATATGCGATGTCCAT
*
21738308 GTCCCAGAATGGTCTTACATGTAA
1 GTCCCAGAAGGGTCTTACATGTAA
21738332 ATCTCAAATT
Statistics
Matches: 56, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
41 19 0.34
42 13 0.23
43 23 0.41
44 1 0.02
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.29
Consensus pattern (41 bp):
GTCCCAGAAGGGTCTTACATGTAATAATATGCGATGTCCAT
Found at i:21742106 original size:28 final size:27
Alignment explanation
Indices: 21742073--21742164 Score: 103
Period size: 28 Copynumber: 3.3 Consensus size: 27
21742063 CCCTTTAGGG
* *
21742073 CCAATCTCATTCATATGGCCCATCGGGC
1 CCAATCAC-TTCATATGGCCCATCAGGC
*
21742101 CCAATCACTTTCATATGGCCTATCAGGC
1 CCAATCAC-TTCATATGGCCCATCAGGC
* * *
21742129 CCAATCACTTCCATATGGCTCGTTAGGC
1 CCAATCACTT-CATATGGCCCATCAGGC
21742157 CCAATCAC
1 CCAATCAC
21742165 ACTCATAGTC
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
27 2 0.04
28 53 0.96
ACGTcount: A:0.24, C:0.35, G:0.15, T:0.26
Consensus pattern (27 bp):
CCAATCACTTCATATGGCCCATCAGGC
Found at i:21742414 original size:16 final size:16
Alignment explanation
Indices: 21742389--21742419 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
21742379 AAACTTCTAG
21742389 CTTTTCGGCATTTCGA
1 CTTTTCGGCATTTCGA
*
21742405 CTTTTTGGCATTTCG
1 CTTTTCGGCATTTCG
21742420 GGATCTGCCG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.23, G:0.19, T:0.48
Consensus pattern (16 bp):
CTTTTCGGCATTTCGA
Found at i:21744843 original size:27 final size:27
Alignment explanation
Indices: 21744804--21744875 Score: 81
Period size: 27 Copynumber: 2.7 Consensus size: 27
21744794 CAGCGGACTT
* *
21744804 CCTCATGTTTAATGTCTCGGCGAACTA
1 CCTCATGTATAATGTCCCGGCGAACTA
* * *
21744831 CCTCGTGTATAATGTCCCGGTGGACTA
1 CCTCATGTATAATGTCCCGGCGAACTA
* *
21744858 CCTCATGTTTAGTGTCCC
1 CCTCATGTATAATGTCCC
21744876 ACGGACTCTA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.18, C:0.28, G:0.21, T:0.33
Consensus pattern (27 bp):
CCTCATGTATAATGTCCCGGCGAACTA
Found at i:21746679 original size:48 final size:48
Alignment explanation
Indices: 21746608--21746792 Score: 196
Period size: 48 Copynumber: 3.9 Consensus size: 48
21746598 GGAAGTCTCA
21746608 CACCCAAAGT-CCAAATATCATGGCCCAAAGCCAACTCAATGAATTTCG
1 CACCCAAAGTGCC-AATATCATGGCCCAAAGCCAACTCAATGAATTTCG
* *
21746656 CACCCGAAGTTCCAATATCATGGCCCGAAA-CCAACTCAATGAATCTT-G
1 CACCCAAAGTGCCAATATCATGGCCC-AAAGCCAACTCAATGAAT-TTCG
* * ** * *
21746704 CACTCGAAGTGCCAATATCATGGCCTGAAGCCAACTCAACGAATCTCG
1 CACCCAAAGTGCCAATATCATGGCCCAAAGCCAACTCAATGAATTTCG
* * * * * *
21746752 CATCTAAAGTGCCAATATCCTAGCCCGAAGCTAACTCAATG
1 CACCCAAAGTGCCAATATCATGGCCCAAAGCCAACTCAATG
21746793 TAATCCCTAA
Statistics
Matches: 116, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
47 3 0.03
48 106 0.91
49 7 0.06
ACGTcount: A:0.34, C:0.31, G:0.15, T:0.20
Consensus pattern (48 bp):
CACCCAAAGTGCCAATATCATGGCCCAAAGCCAACTCAATGAATTTCG
Found at i:21746788 original size:96 final size:97
Alignment explanation
Indices: 21746621--21746797 Score: 239
Period size: 96 Copynumber: 1.8 Consensus size: 97
21746611 CCAAAGTCCA
* * * * *
21746621 AATATCATGGCCCAAAGCCAACTCAATGAATTTCGCACCCGAAGTTCCAATATCATGGCCCGAAA
1 AATATCATGGCCCAAAGCCAACTCAACGAATCTCGCACCCAAAGTGCCAATATCATAGCCCGAAA
21746686 CCAACTCAATG-AATCTTGCACTCGAAGTGCC
66 CCAACTCAATGTAATCTTGCACTCGAAGTGCC
** * * * *
21746717 AATATCATGGCCTGAAGCCAACTCAACGAATCTCGCATCTAAAGTGCCAATATCCTAGCCCGAAG
1 AATATCATGGCCCAAAGCCAACTCAACGAATCTCGCACCCAAAGTGCCAATATCATAGCCCGAAA
*
21746782 CTAACTCAATGTAATC
66 CCAACTCAATGTAATC
21746798 CCTAATGACA
Statistics
Matches: 68, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
96 64 0.94
97 4 0.06
ACGTcount: A:0.34, C:0.29, G:0.15, T:0.21
Consensus pattern (97 bp):
AATATCATGGCCCAAAGCCAACTCAACGAATCTCGCACCCAAAGTGCCAATATCATAGCCCGAAA
CCAACTCAATGTAATCTTGCACTCGAAGTGCC
Found at i:21748661 original size:13 final size:13
Alignment explanation
Indices: 21748643--21748669 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
21748633 ACTTTCTTCC
21748643 TAGTTTTTGTCTT
1 TAGTTTTTGTCTT
21748656 TAGTTTTTGTCTT
1 TAGTTTTTGTCTT
21748669 T
1 T
21748670 TCTTAGGCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.07, C:0.07, G:0.15, T:0.70
Consensus pattern (13 bp):
TAGTTTTTGTCTT
Found at i:21751237 original size:16 final size:16
Alignment explanation
Indices: 21751216--21751252 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
21751206 TTATATTATG
21751216 AAAGAAAGAATAATTA
1 AAAGAAAGAATAATTA
*
21751232 AAAG-AAGGATAATTA
1 AAAGAAAGAATAATTA
21751247 AAAGAA
1 AAAGAA
21751253 GGAAAGAGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (16 bp):
AAAGAAAGAATAATTA
Found at i:21751245 original size:15 final size:15
Alignment explanation
Indices: 21751225--21751255 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
21751215 GAAAGAAAGA
21751225 ATAATTAAAAGAAGG
1 ATAATTAAAAGAAGG
21751240 ATAATTAAAAGAAGG
1 ATAATTAAAAGAAGG
21751255 A
1 A
21751256 AAGAGTGATA
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:0.61, C:0.00, G:0.19, T:0.19
Consensus pattern (15 bp):
ATAATTAAAAGAAGG
Found at i:21753504 original size:47 final size:47
Alignment explanation
Indices: 21753450--21753738 Score: 389
Period size: 47 Copynumber: 6.1 Consensus size: 47
21753440 TTAGGATTTT
** * * * *
21753450 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCTGAATGGCAA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
21753497 ATGTGATGAATGTGAACCTGTATATATATGCGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATG--CATATAT--GTGATAAGGCCGAATGGCCA
* *
21753548 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
21753595 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
21753642 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCAAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
21753689 ATGTGATGAATGTGAACATGTATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
21753736 ATG
1 ATG
21753739 CGAAATGTGT
Statistics
Matches: 220, Mismatches: 18, Indels: 8
0.89 0.07 0.03
Matches are distributed among these distances:
47 173 0.79
49 11 0.05
51 36 0.16
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:21753575 original size:23 final size:23
Alignment explanation
Indices: 21753548--21753622 Score: 57
Period size: 23 Copynumber: 3.2 Consensus size: 23
21753538 CGAATGGCCA
21753548 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
* * **
21753571 ATGTG-TGATAAG-G-CCGAATGGCCA
1 ATGTGATGA-ATGTGAAC--AT-GCGT
21753595 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
21753618 ATGTG
1 ATGTG
21753623 TGATAAGGCC
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
21 1 0.03
22 4 0.11
23 16 0.43
24 11 0.30
25 4 0.11
26 1 0.03
ACGTcount: A:0.29, C:0.11, G:0.32, T:0.28
Consensus pattern (23 bp):
ATGTGATGAATGTGAACATGCGT
Found at i:21753848 original size:46 final size:46
Alignment explanation
Indices: 21753712--21753848 Score: 193
Period size: 46 Copynumber: 3.0 Consensus size: 46
21753702 GAACATGTAT
* *
21753712 ATATGTGGTAAGGCCGAATGGCTAATGCGAAATGTGTATGAGATAG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* *
21753758 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* * * * *
21753804 ATATGTGATAAAGCCAAATGGCTAATGTGCAATATGTATGAGATG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATG
21753849 TGTATATATA
Statistics
Matches: 80, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 80 1.00
ACGTcount: A:0.35, C:0.09, G:0.30, T:0.26
Consensus pattern (46 bp):
ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
Found at i:21759321 original size:23 final size:22
Alignment explanation
Indices: 21759283--21759333 Score: 70
Period size: 23 Copynumber: 2.4 Consensus size: 22
21759273 AAGCCACCCC
*
21759283 TTTTA-TT-TTATTTTATTTAT
1 TTTTATTTGTTATATTATTTAT
21759303 TTATTATTTGTTATATTATTTAT
1 TT-TTATTTGTTATATTATTTAT
21759326 TTTTATTT
1 TTTTATTT
21759334 TACTAAATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
20 2 0.07
21 3 0.11
22 8 0.30
23 14 0.52
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (22 bp):
TTTTATTTGTTATATTATTTAT
Found at i:21759505 original size:23 final size:23
Alignment explanation
Indices: 21759465--21759523 Score: 57
Period size: 23 Copynumber: 2.6 Consensus size: 23
21759455 TTTATTATTA
* *
21759465 TATTATTATTATTAATTTCAT-TT
1 TATTTTTATTTTTAATTT-ATCTT
*
21759488 TATTTTTATTTTTTATTTATCTT
1 TATTTTTATTTTTAATTTATCTT
* *
21759511 TCTTTTTAATTTT
1 TATTTTTATTTTT
21759524 GTTTTAGATG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
22 2 0.07
23 28 0.93
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.73
Consensus pattern (23 bp):
TATTTTTATTTTTAATTTATCTT
Found at i:21762014 original size:45 final size:45
Alignment explanation
Indices: 21761956--21762047 Score: 166
Period size: 45 Copynumber: 2.0 Consensus size: 45
21761946 AGATTGAGTT
* *
21761956 AATGCGACAATAGATATTTTAATTAGAAAGAGGTTTCAATTAATA
1 AATGCGACAATAGAGATTTTAATTAGAAAAAGGTTTCAATTAATA
21762001 AATGCGACAATAGAGATTTTAATTAGAAAAAGGTTTCAATTAATA
1 AATGCGACAATAGAGATTTTAATTAGAAAAAGGTTTCAATTAATA
21762046 AA
1 AA
21762048 CCTAGAATCC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.47, C:0.07, G:0.15, T:0.32
Consensus pattern (45 bp):
AATGCGACAATAGAGATTTTAATTAGAAAAAGGTTTCAATTAATA
Found at i:21762534 original size:35 final size:35
Alignment explanation
Indices: 21762435--21762588 Score: 137
Period size: 35 Copynumber: 4.4 Consensus size: 35
21762425 GTGACCATCA
* * * *
21762435 TCTACAGACTTTACGGAGTGACATCATGTAAATGG
1 TCTACAGGCTCTACGGAGTGACACCATGTAAATAG
* ** **
21762470 TCTACAGGCTCTATGGAGCAACATTATGTAAATAG
1 TCTACAGGCTCTACGGAGTGACACCATGTAAATAG
* * *
21762505 TCTACAGGCTATACAGAGTGACACCATGTAAATAA
1 TCTACAGGCTCTACGGAGTGACACCATGTAAATAG
* * * * * *
21762540 TCTACAAGATTTATGGAGTGACACCATGAAAATGG
1 TCTACAGGCTCTACGGAGTGACACCATGTAAATAG
*
21762575 TCTATAGGCTCTAC
1 TCTACAGGCTCTAC
21762589 ACGATGACAC
Statistics
Matches: 91, Mismatches: 28, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
35 91 1.00
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.27
Consensus pattern (35 bp):
TCTACAGGCTCTACGGAGTGACACCATGTAAATAG
Found at i:21762578 original size:70 final size:70
Alignment explanation
Indices: 21762435--21762599 Score: 161
Period size: 70 Copynumber: 2.4 Consensus size: 70
21762425 GTGACCATCA
* * * * ** * * ** *
21762435 TCTACAGACTTTACGGAGTGACATCATGTAAATGGTCTACAGGCTCTATGGAGCAACATTATGTA
1 TCTACAGGCTATACAGAGTGACACCATGTAAATAATCTACAAGATCTATGGAGCAACACCATGAA
21762500 AATAG
66 AATAG
* **
21762505 TCTACAGGCTATACAGAGTGACACCATGTAAATAATCTACAAGATTTATGGAGTGACACCATGAA
1 TCTACAGGCTATACAGAGTGACACCATGTAAATAATCTACAAGATCTATGGAGCAACACCATGAA
*
21762570 AATGG
66 AATAG
* *
21762575 TCTATAGGCTCTACACGA-TGACACC
1 TCTACAGGCTATACA-GAGTGACACC
21762600 TCTAAAGAGG
Statistics
Matches: 77, Mismatches: 17, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
70 75 0.97
71 2 0.03
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (70 bp):
TCTACAGGCTATACAGAGTGACACCATGTAAATAATCTACAAGATCTATGGAGCAACACCATGAA
AATAG
Found at i:21777352 original size:39 final size:40
Alignment explanation
Indices: 21777244--21777468 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
21777234 TTGAATGATG
* * * *
21777244 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
21777284 TCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
21777324 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
21777363 TCCGGGTTAAGTCCCGAAGGCATTTGTGAGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
21777403 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
21777444 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
21777469 AACGAGGAGC
Statistics
Matches: 161, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
39 33 0.20
40 118 0.73
41 10 0.06
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:21777486 original size:80 final size:80
Alignment explanation
Indices: 21777244--21777501 Score: 226
Period size: 80 Copynumber: 3.2 Consensus size: 80
21777234 TTGAATGATG
* * * * * * * *
21777244 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGTAT
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGCTAAG-TCCCGAAGGCAT
** *
21777307 TTGTGCGAGAT-ACTAAT
64 TTGTAAGAG-TGACTAAA
* *
21777324 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
* *
21777388 GTGAGAGTTACTAAA
66 GTAAGAGTGACTAAA
* *
21777403 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATT
*
21777467 TG-AACGAG-GAGCTATA
65 TGTAA-GAGTGA-CTAAA
* *
21777483 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
21777502 TACGTGATTT
Statistics
Matches: 152, Mismatches: 19, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
78 2 0.01
79 73 0.48
80 75 0.49
81 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
GTAAGAGTGACTAAA
Found at i:21780799 original size:187 final size:187
Alignment explanation
Indices: 21780484--21780858 Score: 732
Period size: 187 Copynumber: 2.0 Consensus size: 187
21780474 GGTTGACCGC
21780484 GCATGATGCGGCTGTGAATTGCAAAAGCAAGACTATTGATTTGAGGTGCGCAAATAACGAAGTAA
1 GCATGATGCGGCTGTGAATTGCAAAAGCAAGACTATTGATTTGAGGTGCGCAAATAACGAAGTAA
*
21780549 TCCGAGTTGAGTCTACGGACTTGGAGGGGATGCCAGCTGTAATATCAGCAATGTTGGCCCAGAAA
66 TCCGAGTTGAGTCTACGGACTTGAAGGGGATGCCAGCTGTAATATCAGCAATGTTGGCCCAGAAA
21780614 TATGTAAGAAAAGGGTGCAAAGCATACCTTGCGTATGTACTTGATGACAAAGAATTA
131 TATGTAAGAAAAGGGTGCAAAGCATACCTTGCGTATGTACTTGATGACAAAGAATTA
21780671 GCATGATGCGGCTGTGAATTGCAAAAGCAAGACTATTGATTTGAGGTGCGCAAATAACGAAGTAA
1 GCATGATGCGGCTGTGAATTGCAAAAGCAAGACTATTGATTTGAGGTGCGCAAATAACGAAGTAA
21780736 TCCGAGTTGAGTCTACGGACTTGAAGGGGATGCCAGCTGTAATATCAGCAATGTTGGCCCAGAAA
66 TCCGAGTTGAGTCTACGGACTTGAAGGGGATGCCAGCTGTAATATCAGCAATGTTGGCCCAGAAA
*
21780801 TATGTAAGAAAAGGGTGCGAAGCATACCTTGCGTATGTACTTGATGACAAAGAATTA
131 TATGTAAGAAAAGGGTGCAAAGCATACCTTGCGTATGTACTTGATGACAAAGAATTA
21780858 G
1 G
21780859 AAAAGAAACC
Statistics
Matches: 186, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
187 186 1.00
ACGTcount: A:0.33, C:0.15, G:0.27, T:0.24
Consensus pattern (187 bp):
GCATGATGCGGCTGTGAATTGCAAAAGCAAGACTATTGATTTGAGGTGCGCAAATAACGAAGTAA
TCCGAGTTGAGTCTACGGACTTGAAGGGGATGCCAGCTGTAATATCAGCAATGTTGGCCCAGAAA
TATGTAAGAAAAGGGTGCAAAGCATACCTTGCGTATGTACTTGATGACAAAGAATTA
Found at i:21785481 original size:39 final size:40
Alignment explanation
Indices: 21785374--21785597 Score: 267
Period size: 40 Copynumber: 5.6 Consensus size: 40
21785364 TGAATGATGC
* * * * *
21785374 CCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAT
* * *
21785414 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAAT
* *
21785454 CCGGGCTAAG-CCCAAAGGCATTGGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* *
21785493 CCGGGTTAAGTCCCGAAGGCATTTGTGAGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
*
21785533 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AAT
*
21785573 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
21785598 AACGAGGAGC
Statistics
Matches: 159, Mismatches: 20, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
39 33 0.21
40 116 0.73
41 10 0.06
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:21785615 original size:80 final size:78
Alignment explanation
Indices: 21785374--21785630 Score: 229
Period size: 80 Copynumber: 3.2 Consensus size: 78
21785364 TGAATGATGC
* * * * *
21785374 CCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTAAG-TCCCGAAGGCATT
** *
21785437 TGTGCGAGATACTAATT
64 TGAACGAG-GACTAA-T
* * * *
21785454 CCGGGCTAAG-CCCAAAGGCATTGGTGCGAGTTACTA-AATCCGGGTTAAGTCCCGAAGGCATTT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTAAGTCCCGAAGGCATTT
* *
21785517 GTGA-GAGTTACTAAAT
65 G-AACGAG-GACT-AAT
*
21785533 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
21785598 AACGAGGAGCTATAT
66 AACGAGGA-CTA-AT
* *
21785613 CC-GGTTAAATTCCGAAGG
1 CCGGGTTAAGTCCCGAAGG
21785631 TACGTGATTT
Statistics
Matches: 146, Mismatches: 21, Indels: 21
0.78 0.11 0.11
Matches are distributed among these distances:
78 2 0.01
79 69 0.47
80 73 0.50
81 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (78 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
AACGAGGACTAAT
Found at i:21785619 original size:119 final size:118
Alignment explanation
Indices: 21785374--21785630 Score: 272
Period size: 119 Copynumber: 2.2 Consensus size: 118
21785364 TGAATGATGC
*
21785374 CCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTTG
1 CCGGGTTAAGTCCCGAAGGCTTTGTGC-AAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTG
* ** *
21785439 TGCGAGATACTAATTCCGGGCTAAGCCCAAAGGCATTGGTGCGAGTTACTAAAT
65 TGCGAGATACTAATACCGGGCTAAGCCCAAAGGCATTGGAACGAGTGACTAAAT
* * **
21785493 CCGGGTTAAGTCCCGAAGGCATTTGTG-AGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 CCGGGTTAAGTCCCGAAGGC-TTTGTGCA-AGTGACCAAATCCGGACTAAGAT-CCGAAGGCATT
* * * * *
21785556 TGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATAT
63 TGTGCGAGATACTAAT-ACCGGGCTAAG-CCCAAAGGCATTGGAACGAGTGA-CTAAAT
* *
21785613 CC-GGTTAAATTCCGAAGG
1 CCGGGTTAAGTCCCGAAGG
21785631 TACGTGATTT
Statistics
Matches: 116, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
118 4 0.03
119 83 0.72
120 29 0.25
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (118 bp):
CCGGGTTAAGTCCCGAAGGCTTTGTGCAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTGT
GCGAGATACTAATACCGGGCTAAGCCCAAAGGCATTGGAACGAGTGACTAAAT
Found at i:21795500 original size:18 final size:17
Alignment explanation
Indices: 21795468--21795501 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
21795458 AAATTGGACA
21795468 GTGTGAGCCACACGGGT
1 GTGTGAGCCACACGGGT
*
21795485 GTGTGGGCCTACACGGG
1 GTGTGAGCC-ACACGGG
21795502 CAGGCCATAT
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:0.15, C:0.24, G:0.44, T:0.18
Consensus pattern (17 bp):
GTGTGAGCCACACGGGT
Found at i:21796244 original size:5 final size:5
Alignment explanation
Indices: 21796227--21796265 Score: 53
Period size: 5 Copynumber: 7.6 Consensus size: 5
21796217 TGAGTATTGG
21796227 TTTTA TTTT- TTTTA TTTTA TTTTTA TTTTTA TTTTA TTT
1 TTTTA TTTTA TTTTA TTTTA -TTTTA -TTTTA TTTTA TTT
21796266 GGTTAAGTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 4 0.12
5 17 0.53
6 11 0.34
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (5 bp):
TTTTA
Found at i:21796251 original size:11 final size:10
Alignment explanation
Indices: 21796227--21796265 Score: 53
Period size: 11 Copynumber: 3.8 Consensus size: 10
21796217 TGAGTATTGG
21796227 TTTTA-TTTT
1 TTTTATTTTT
21796236 TTTTATTTTAT
1 TTTTATTTT-T
21796247 TTTTATTTTT
1 TTTTATTTTT
21796257 ATTTTATTT
1 -TTTTATTT
21796266 GGTTAAGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 5 0.19
10 4 0.15
11 18 0.67
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (10 bp):
TTTTATTTTT
Found at i:21803672 original size:825 final size:825
Alignment explanation
Indices: 21802083--21803736 Score: 3254
Period size: 825 Copynumber: 2.0 Consensus size: 825
21802073 TGCACACGAC
*
21802083 CATAACACTCCTGTGTCCTAGCTCTTGTCCAAAACCTTAAACATTTTGTTTCTGACGTCAGCAAT
1 CATAACACTCCTGTGTCCTAGCTCTTGTCCAAAACCTTAAACATTCTGTTTCTGACGTCAGCAAT
21802148 CCTTGAGGGCCACACAGCCAAGGCACACGCCCGTGTGTCAGGCCGTGCCCTTCACACGGTTGAGA
66 CCTTGAGGGCCACACAGCCAAGGCACACGCCCGTGTGTCAGGCCGTGCCCTTCACACGGTTGAGA
*
21802213 CACACGGCCGTGTCTCTGCCCGTGTGCTTACTATCATGCATACTGACTTGAAATTTTCACGTGCA
131 CACACGGCCGTATCTCTGCCCGTGTGCTTACTATCATGCATACTGACTTGAAATTTTCACGTGCA
21802278 GAGGATGCATGGCCAATTTACACGCCCATGTGGTGGACCGTGTGTCACACACGGTTTAGACACAC
196 GAGGATGCATGGCCAATTTACACGCCCATGTGGTGGACCGTGTGTCACACACGGTTTAGACACAC
21802343 GCCTGTGTGCCTACCCGTGTGGACAAAATAAGGCTATATACCAAACCTCTTTGCCACCCTTACAA
261 GCCTGTGTGCCTACCCGTGTGGACAAAATAAGGCTATATACCAAACCTCTTTGCCACCCTTACAA
21802408 ACACCTATTTAAATAAGATTAACCAAGTTCAATATTAACATAATGAGCATAACCAAAGCAACCAT
326 ACACCTATTTAAATAAGATTAACCAAGTTCAATATTAACATAATGAGCATAACCAAAGCAACCAT
21802473 AACCATCAGAAATTTGCATCATTTCATTGAATAATAATTAGCATTAGCCAACATCCATGGCCTAT
391 AACCATCAGAAATTTGCATCATTTCATTGAATAATAATTAGCATTAGCCAACATCCATGGCCTAT
*
21802538 ACAAAATGAGTATCACAAATCACATATGAGCCAACACATTATGGCTACTTGTCAAAATGCTAAAC
456 ACAAAATGAGTATCACAAATCACATATGAGCCAACACATTATGGCTACTTGTCAAAACGCTAAAC
21802603 AAAAGACTCGAGTCCCTATACATGCCAGTAAACAAAACAATTAAACTAGCTATACCAAGGTCTTG
521 AAAAGACTCGAGTCCCTATACATGCCAGTAAACAAAACAATTAAACTAGCTATACCAAGGTCTTG
21802668 AGTGATAATGTGATCGAAGCTTCTGATGTCACCGGATCCCCGATGCTAGGTTGGCGGCACTAAAA
586 AGTGATAATGTGATCGAAGCTTCTGATGTCACCGGATCCCCGATGCTAGGTTGGCGGCACTAAAA
21802733 GGAAAGAAAAGAAATGAGGGTAAGCATGAGAGCTTAGTAAGTACATACATGCAGATAAAAGTGTA
651 GGAAAGAAAAGAAATGAGGGTAAGCATGAGAGCTTAGTAAGTACATACATGCAGATAAAAGTGTA
21802798 ATTTAAAGAAAACCTATTTGTCAAACGATAAATTGACATGCGTAAAAGATGTAAACCACTTAGAC
716 ATTTAAAGAAAACCTATTTGTCAAACGATAAATTGACATGCGTAAAAGATGTAAACCACTTAGAC
21802863 TTCTTGATTTTGTTATTCCTTTCATTCACGTATGCTTAAAGACAA
781 TTCTTGATTTTGTTATTCCTTTCATTCACGTATGCTTAAAGACAA
21802908 CATAACACTCCTGTGTCCTAGCTCTTGTCCAAAACCTTAAACATTCTGTTTCTGACGTCAGCAAT
1 CATAACACTCCTGTGTCCTAGCTCTTGTCCAAAACCTTAAACATTCTGTTTCTGACGTCAGCAAT
21802973 CCTTGAGGGCCACACAGCCAAGGCACACGCCCGTGTGTCAGGCCGTGCCCTTCACACGGTTGAGA
66 CCTTGAGGGCCACACAGCCAAGGCACACGCCCGTGTGTCAGGCCGTGCCCTTCACACGGTTGAGA
21803038 CACACGGCCGTATCTCTGCCCGTGTGCTTACTATCATGCATACTGACTTGAAATTTTCACGTGCA
131 CACACGGCCGTATCTCTGCCCGTGTGCTTACTATCATGCATACTGACTTGAAATTTTCACGTGCA
21803103 GAGGATGCATGGCCAATTTACACGCCCATGTGGTGGACCGTGTGTCACACACGGTTTAGACACAC
196 GAGGATGCATGGCCAATTTACACGCCCATGTGGTGGACCGTGTGTCACACACGGTTTAGACACAC
* *
21803168 GCCTGTGTGCCTACTCGTGTGGACAAAATAAGGCTATATACCAAGCCTCTTTGCCACCCTTACAA
261 GCCTGTGTGCCTACCCGTGTGGACAAAATAAGGCTATATACCAAACCTCTTTGCCACCCTTACAA
21803233 ACACCTATTTAAATAAGATTAACCAAGTTCAATATTAACATAATGAGCATAACCAAAGCAACCAT
326 ACACCTATTTAAATAAGATTAACCAAGTTCAATATTAACATAATGAGCATAACCAAAGCAACCAT
21803298 AACCATCAGAAATTTGCATCATTTCATTGAATAATAATTAGCATTAGCCAACATCCATGGCCTAT
391 AACCATCAGAAATTTGCATCATTTCATTGAATAATAATTAGCATTAGCCAACATCCATGGCCTAT
21803363 ACAAAATGAGTATCACAAATCACATATGAGCCAACACATTATGGCTACTTGTCAAAACGCTAAAC
456 ACAAAATGAGTATCACAAATCACATATGAGCCAACACATTATGGCTACTTGTCAAAACGCTAAAC
21803428 AAAAGACTCGAGTCCCTATACATGCCAGTAAACAAAACAATTAAACTAGCTATACCAAGGTCTTG
521 AAAAGACTCGAGTCCCTATACATGCCAGTAAACAAAACAATTAAACTAGCTATACCAAGGTCTTG
21803493 AGTGATAATGTGATCGAAGCTTCTGATGTCACCGGATCCCCGATGCTAGGTTGGCGGCACTAAAA
586 AGTGATAATGTGATCGAAGCTTCTGATGTCACCGGATCCCCGATGCTAGGTTGGCGGCACTAAAA
21803558 GGAAAGAAAAGAAATGAGGGTAAGCATGAGAGCTTAGTAAGTACATACATGCAGATAAAAGTGTA
651 GGAAAGAAAAGAAATGAGGGTAAGCATGAGAGCTTAGTAAGTACATACATGCAGATAAAAGTGTA
21803623 ATTTAAAGAAAACCTATTTGTCAAACGATAAATTGACATGCGTAAAAGATGTAAACCACTTAGAC
716 ATTTAAAGAAAACCTATTTGTCAAACGATAAATTGACATGCGTAAAAGATGTAAACCACTTAGAC
*
21803688 TTCTTGATTTTGTTATTCCTTTCATTCATGTATGCTTAAAGACAA
781 TTCTTGATTTTGTTATTCCTTTCATTCACGTATGCTTAAAGACAA
21803733 CATA
1 CATA
21803737 TCACAGACTC
Statistics
Matches: 823, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
825 823 1.00
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (825 bp):
CATAACACTCCTGTGTCCTAGCTCTTGTCCAAAACCTTAAACATTCTGTTTCTGACGTCAGCAAT
CCTTGAGGGCCACACAGCCAAGGCACACGCCCGTGTGTCAGGCCGTGCCCTTCACACGGTTGAGA
CACACGGCCGTATCTCTGCCCGTGTGCTTACTATCATGCATACTGACTTGAAATTTTCACGTGCA
GAGGATGCATGGCCAATTTACACGCCCATGTGGTGGACCGTGTGTCACACACGGTTTAGACACAC
GCCTGTGTGCCTACCCGTGTGGACAAAATAAGGCTATATACCAAACCTCTTTGCCACCCTTACAA
ACACCTATTTAAATAAGATTAACCAAGTTCAATATTAACATAATGAGCATAACCAAAGCAACCAT
AACCATCAGAAATTTGCATCATTTCATTGAATAATAATTAGCATTAGCCAACATCCATGGCCTAT
ACAAAATGAGTATCACAAATCACATATGAGCCAACACATTATGGCTACTTGTCAAAACGCTAAAC
AAAAGACTCGAGTCCCTATACATGCCAGTAAACAAAACAATTAAACTAGCTATACCAAGGTCTTG
AGTGATAATGTGATCGAAGCTTCTGATGTCACCGGATCCCCGATGCTAGGTTGGCGGCACTAAAA
GGAAAGAAAAGAAATGAGGGTAAGCATGAGAGCTTAGTAAGTACATACATGCAGATAAAAGTGTA
ATTTAAAGAAAACCTATTTGTCAAACGATAAATTGACATGCGTAAAAGATGTAAACCACTTAGAC
TTCTTGATTTTGTTATTCCTTTCATTCACGTATGCTTAAAGACAA
Found at i:21806128 original size:108 final size:108
Alignment explanation
Indices: 21805939--21806151 Score: 381
Period size: 108 Copynumber: 2.0 Consensus size: 108
21805929 ATATAATTTT
* * *
21805939 CTCTAAGCTTGGTATAATACAAATGCGTTCGGCACTTACGCCTATACAACGCCTCATAAGGTGCC
1 CTCTAAGCTCGGTACAATACAAATGCGTTCGGCACTTACACCTATACAACGCCTCATAAGGTGCC
*
21806004 ATCTTTAAACTCGACTGAAAGCTGTTGTTGTAAGCAAACTACA
66 ATCTTTAAACTCGACTGAAAGCTGTTGTTATAAGCAAACTACA
*
21806047 CTCTAAGCTCGGTCCAATACAAATGCGTTCGGCACTTACACCTATACAACGCCTCATAAGGTGCC
1 CTCTAAGCTCGGTACAATACAAATGCGTTCGGCACTTACACCTATACAACGCCTCATAAGGTGCC
21806112 ATCTTTAAACTCGACTGAAAGCTGTTGTTATAAGCAAACT
66 ATCTTTAAACTCGACTGAAAGCTGTTGTTATAAGCAAACT
21806152 CCACCAGCGG
Statistics
Matches: 100, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
108 100 1.00
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (108 bp):
CTCTAAGCTCGGTACAATACAAATGCGTTCGGCACTTACACCTATACAACGCCTCATAAGGTGCC
ATCTTTAAACTCGACTGAAAGCTGTTGTTATAAGCAAACTACA
Found at i:21817073 original size:40 final size:40
Alignment explanation
Indices: 21816911--21817066 Score: 267
Period size: 40 Copynumber: 3.9 Consensus size: 40
21816901 TTGATTACCA
* *
21816911 TAGCCCGGACATAGTCACTAGCACAAATGCCTTCGGGACT
1 TAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGACT
* * *
21816951 TAGCCCGAATATAGTCACTAGCAAAAATGCCTTCGGGACT
1 TAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGACT
21816991 TAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGACT
1 TAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGACT
21817031 TAGCCCGGATATAATCACTAGCACAAATGCCTTCGG
1 TAGCCCGGATATAATCACTAGCACAAATGCCTTCGG
21817067 ATCTTAGTCC
Statistics
Matches: 110, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 110 1.00
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.22
Consensus pattern (40 bp):
TAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGACT
Found at i:21824980 original size:40 final size:40
Alignment explanation
Indices: 21824808--21824971 Score: 235
Period size: 40 Copynumber: 4.1 Consensus size: 40
21824798 AACCCAAGTA
* * *
21824808 CCTTCGGAATTTAG-CCGGATATAG-CAACTCA-CACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACT-AGCACAAATG
*
21824847 CCTTCGGGACTTAGCCCGGACATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
21824887 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
21824927 CCTTTGGGACTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
21824967 CCTTC
1 CCTTC
21824972 AGATCTTAGT
Statistics
Matches: 114, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
39 13 0.11
40 100 0.88
41 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:21834495 original size:20 final size:21
Alignment explanation
Indices: 21834472--21834516 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
21834462 AAAGTTTTTA
*
21834472 AAATTTGATATTTGGT-TGTG-
1 AAATTT-ATAATTGGTGTGTGT
21834492 AAATTTATAATTGGTGTGTGT
1 AAATTTATAATTGGTGTGTGT
21834513 AAAT
1 AAAT
21834517 GGGCTTATGG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 8 0.36
20 10 0.45
21 4 0.18
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (21 bp):
AAATTTATAATTGGTGTGTGT
Found at i:21836228 original size:21 final size:21
Alignment explanation
Indices: 21836204--21836243 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
21836194 ACTGATTTGT
*
21836204 ACATAATATGCCATGATATGA
1 ACATAATATGCAATGATATGA
* *
21836225 ACATGATATGTAATGATAT
1 ACATAATATGCAATGATAT
21836244 ATACATATAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.42, C:0.10, G:0.15, T:0.33
Consensus pattern (21 bp):
ACATAATATGCAATGATATGA
Found at i:21836317 original size:25 final size:25
Alignment explanation
Indices: 21836289--21836408 Score: 204
Period size: 25 Copynumber: 4.8 Consensus size: 25
21836279 GAAGAAGTGC
*
21836289 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
21836314 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
21836339 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
* * *
21836364 AAAAGGGCTTTGCCCCAATTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCG
21836389 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
21836409 ATTAAAAGAG
Statistics
Matches: 90, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 90 1.00
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:21836421 original size:24 final size:23
Alignment explanation
Indices: 21836289--21836435 Score: 123
Period size: 25 Copynumber: 6.0 Consensus size: 23
21836279 GAAGAAGTGC
* *
21836289 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAG-TTA-TG
*
21836314 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAG-TTA-TG
*
21836339 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAG-TTA-TG
* *
21836364 AAAAGGGCTTTGCCCCAATTTATCA
1 AAAAGGGCTTTGCCCC-AGTTAT-G
*
21836389 AAAAGGGCTTTGCCCCAGTTATT
1 AAAAGGGCTTTGCCCCAGTTATG
**
21836412 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAG-GGCTTTGCC-CCAGTTAT
21836436 ATGATAAAGT
Statistics
Matches: 110, Mismatches: 8, Indels: 8
0.87 0.06 0.06
Matches are distributed among these distances:
23 5 0.05
24 12 0.11
25 92 0.84
26 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.24
Consensus pattern (23 bp):
AAAAGGGCTTTGCCCCAGTTATG
Found at i:21836432 original size:75 final size:75
Alignment explanation
Indices: 21836289--21836433 Score: 186
Period size: 75 Copynumber: 1.9 Consensus size: 75
21836279 GAAGAAGTGC
* * **
21836289 AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTTTGCCC
1 AAAAGGGCTATGCCCCAATTTACCAAAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTAGGCCC
21836354 CAGTTTACCG
66 CAGTTTACCG
* * **
21836364 AAAAGGGCTTTGCCCCAATTTATCAAAAAGGGCTTTGCCCCAG-TTA-TTAAAAGAGGCTAGGCC
1 AAAAGGGCTATGCCCCAATTTACCAAAAAGGGCTTTGCCCCAGTTTACCGAAAAG-GGCTAGGCC
21836427 TCCAGTT
65 -CCAGTT
21836434 ATATGATAAA
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
73 5 0.08
74 10 0.17
75 45 0.75
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.24
Consensus pattern (75 bp):
AAAAGGGCTATGCCCCAATTTACCAAAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTAGGCCC
CAGTTTACCG
Found at i:21836664 original size:31 final size:31
Alignment explanation
Indices: 21836629--21836712 Score: 125
Period size: 31 Copynumber: 2.7 Consensus size: 31
21836619 CGTTTACAAT
21836629 AAAGGCTTCGGCCCAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
* * *
21836660 AAAGGCTTCGGCCTAGTGGTATGAATAATGT
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
*
21836691 AAAGGCTTCAGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
21836713 CTGAGATTGA
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
30 4 0.09
31 43 0.91
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATAATGA
Found at i:21850306 original size:39 final size:40
Alignment explanation
Indices: 21850261--21850428 Score: 106
Period size: 40 Copynumber: 4.2 Consensus size: 40
21850251 CGGGGTTTAG
* * *
21850261 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
21850300 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
21850340 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
21850380 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
21850421 CCGGATAT
1 CCGGATAT
21850429 CATTCGAGTA
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 18 0.17
40 61 0.56
41 27 0.25
42 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:21850411 original size:41 final size:40
Alignment explanation
Indices: 21850284--21850428 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
21850274 CTCGCACAAG
* * * * *
21850284 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
21850324 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
21850364 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
21850405 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
21850429 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.64
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:21857470 original size:20 final size:20
Alignment explanation
Indices: 21857423--21857527 Score: 137
Period size: 19 Copynumber: 5.5 Consensus size: 20
21857413 AGGCTTATGC
*
21857423 TAAGT-AATGGAATGAAAAG
1 TAAGTAAATGGAATGGAAAG
21857442 TAAGT-AATGGAATGGAAAG
1 TAAGTAAATGGAATGGAAAG
* *
21857461 TAAGTAAATGAAATGAAAAG
1 TAAGTAAATGGAATGGAAAG
*
21857481 TAAGTAAATGAAAT-GAAAG
1 TAAGTAAATGGAATGGAAAG
*
21857500 TAAGTAAATGGAATGGTAAG
1 TAAGTAAATGGAATGGAAAG
21857520 TAAG-AAAT
1 TAAGTAAAT
21857528 AGAGTGGTTA
Statistics
Matches: 78, Mismatches: 6, Indels: 4
0.89 0.07 0.05
Matches are distributed among these distances:
19 44 0.56
20 34 0.44
ACGTcount: A:0.53, C:0.00, G:0.25, T:0.22
Consensus pattern (20 bp):
TAAGTAAATGGAATGGAAAG
Found at i:21857478 original size:39 final size:39
Alignment explanation
Indices: 21857423--21857527 Score: 144
Period size: 39 Copynumber: 2.7 Consensus size: 39
21857413 AGGCTTATGC
*
21857423 TAAGT-AATGGAATGAAAAGTAAGT-AATGGAATGGAAAG
1 TAAGTAAATGGAATGAAAAGTAAGTAAATGAAAT-GAAAG
*
21857461 TAAGTAAATGAAATGAAAAGTAAGTAAATGAAATGAAAG
1 TAAGTAAATGGAATGAAAAGTAAGTAAATGAAATGAAAG
**
21857500 TAAGTAAATGGAATGGTAAGTAAG-AAAT
1 TAAGTAAATGGAATGAAAAGTAAGTAAAT
21857528 AGAGTGGTTA
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
38 9 0.15
39 44 0.73
40 7 0.12
ACGTcount: A:0.53, C:0.00, G:0.25, T:0.22
Consensus pattern (39 bp):
TAAGTAAATGGAATGAAAAGTAAGTAAATGAAATGAAAG
Found at i:21873474 original size:40 final size:39
Alignment explanation
Indices: 21873428--21873612 Score: 228
Period size: 40 Copynumber: 4.7 Consensus size: 39
21873418 GCCACTAGCT
*
21873428 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
* *
21873468 CGAATGCCTTCGGGACTTAGCCCGGTATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
*
21873507 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
** * ** * *
21873547 TGAATGCCTTCGGGACTTAGCCCGGAATTAGCCACTAGCT
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAACTCGCA
21873587 CAAATG-CTCTCGGGACTTAGCCCGGT
1 CAAATGCCT-TCGGGACTTAGCCCGGT
21873613 TATCATCCGA
Statistics
Matches: 125, Mismatches: 17, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
39 39 0.31
40 86 0.69
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
Found at i:21873526 original size:79 final size:80
Alignment explanation
Indices: 21873421--21873615 Score: 268
Period size: 79 Copynumber: 2.5 Consensus size: 80
21873411 GGATATAGCC
* *
21873421 ACTAGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCACGAATGCCTTCGGGACTT
1 ACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACGAATGCCTTCGGGACTT
* *
21873486 AGCCCGGTA-TAATA
66 AGCCCGGAATTAACA
* * * *
21873500 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCATGAATGCCTTCGGGACTT
1 ACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACGAATGCCTTCGGGACTT
* *
21873565 AGCCCGGAATTAGCC
66 AGCCCGGAATTAACA
*
21873580 ACTAGCTCAAATG-CTCTCGGGACTTAGCCCGGTTAT
1 ACTAGCACAAATGCCT-TCGGGACTTAGCCCGGTTAT
21873616 CATCCGAACA
Statistics
Matches: 101, Mismatches: 13, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
79 69 0.68
80 32 0.32
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (80 bp):
ACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACGAATGCCTTCGGGACTT
AGCCCGGAATTAACA
Found at i:21876614 original size:22 final size:22
Alignment explanation
Indices: 21876589--21876640 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
21876579 TTCAAAAGTT
*
21876589 TTAAAAATAAAATTTTAAAAAA
1 TTAAAAATAAAATTTAAAAAAA
* *
21876611 TTAAGATTAAAATTTAAAAAAA
1 TTAAAAATAAAATTTAAAAAAA
21876633 TTCAAAAA
1 TT-AAAAA
21876641 AGTTATAATG
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
22 21 0.88
23 3 0.12
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (22 bp):
TTAAAAATAAAATTTAAAAAAA
Found at i:21877647 original size:20 final size:20
Alignment explanation
Indices: 21877622--21877682 Score: 68
Period size: 23 Copynumber: 2.9 Consensus size: 20
21877612 ATCAAATAAT
21877622 AAATTAATTATTTTATTAAA
1 AAATTAATTATTTTATTAAA
* *
21877642 AAATTATTTAATTTTATAATTAA
1 AAATTAATT-ATTTTAT--TAAA
*
21877665 AAATTAATTATTATATTA
1 AAATTAATTATTTTATTA
21877683 TACATTAACA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
20 9 0.27
21 7 0.21
22 6 0.18
23 11 0.33
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
AAATTAATTATTTTATTAAA
Found at i:21880534 original size:20 final size:20
Alignment explanation
Indices: 21880505--21880612 Score: 164
Period size: 20 Copynumber: 5.5 Consensus size: 20
21880495 GAACCACTCT
**
21880505 ATTT-CTTACTTACCATTCC
1 ATTTACTTACTTTTCATTCC
*
21880524 ATTTACTTACTTTTCATTTC
1 ATTTACTTACTTTTCATTCC
*
21880544 ATTTACTTACTTTTCATTTC
1 ATTTACTTACTTTTCATTCC
*
21880564 ATTTACTTACTTTCCATTCC
1 ATTTACTTACTTTTCATTCC
21880584 ATTTACTTACTTTTCATTCC
1 ATTTACTTACTTTTCATTCC
21880604 ATTTACTTA
1 ATTTACTTA
21880613 GCATAAGCCT
Statistics
Matches: 82, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
19 4 0.05
20 78 0.95
ACGTcount: A:0.21, C:0.24, G:0.00, T:0.55
Consensus pattern (20 bp):
ATTTACTTACTTTTCATTCC
Found at i:21887740 original size:40 final size:40
Alignment explanation
Indices: 21887646--21887790 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
21887636 TACTCGAATG
*
21887646 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
21887687 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
21887727 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
21887767 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
21887791 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:21908293 original size:27 final size:27
Alignment explanation
Indices: 21908263--21908440 Score: 171
Period size: 27 Copynumber: 6.6 Consensus size: 27
21908253 ATATTGAGCC
* *
21908263 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
21908290 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
21908317 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** * **
21908345 CGCACACTTAGTGCCGCATGATCATTT
1 CGCACACTTAGTGCTACATAATCAACT
* **
21908372 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
21908399 CGCACACTTAGTGCAACATAGTCATA-T
1 CGCACACTTAGTGCTACATAATCA-ACT
21908426 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
21908441 GTACAGTTTA
Statistics
Matches: 126, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
27 103 0.82
28 23 0.18
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:21908402 original size:82 final size:81
Alignment explanation
Indices: 21908289--21908439 Score: 223
Period size: 82 Copynumber: 1.9 Consensus size: 81
21908279 TATAATCAAC
* *
21908289 TCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCACACTT
1 TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCACACTT
21908354 AGTGCCGCATGATCATT
65 AGTGCCGCATGATCATT
* ** *
21908371 TCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCATATCGCACACTT
1 TCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACACTT
21908435 AGTGC
65 AGTGC
21908440 TGTACAGTTT
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
81 17 0.27
82 45 0.73
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.28
Consensus pattern (81 bp):
TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACACTTA
GTGCCGCATGATCATT
Found at i:21912665 original size:40 final size:40
Alignment explanation
Indices: 21912510--21912672 Score: 177
Period size: 40 Copynumber: 4.1 Consensus size: 40
21912500 TGTACTTTTC
* * * * * *
21912510 TTTGTACTTCGGTACCCTTGATAGAACATACGT-ACCTTCG
1 TTTGTACTTCAGTACCCCTGATTGCACATACGTGCCCCT-G
** **
21912550 TTTGTACTTCAGTACCCCTGATTGCATGTACGTGCCTTTG
1 TTTGTACTTCAGTACCCCTGATTGCACATACGTGCCCCTG
* *
21912590 TTTGTACTTC-GATACCCCTCATTGCACATATGTGCCCCTG
1 TTTGTACTTCAG-TACCCCTGATTGCACATACGTGCCCCTG
*
21912630 TTTGTACTTCAGTATCCCTGATTGCACATACGTGCCCCTG
1 TTTGTACTTCAGTACCCCTGATTGCACATACGTGCCCCTG
21912670 TTT
1 TTT
21912673 ATACCCTGGT
Statistics
Matches: 103, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
39 1 0.01
40 98 0.95
41 4 0.04
ACGTcount: A:0.18, C:0.28, G:0.17, T:0.37
Consensus pattern (40 bp):
TTTGTACTTCAGTACCCCTGATTGCACATACGTGCCCCTG
Found at i:21912668 original size:20 final size:20
Alignment explanation
Indices: 21912604--21912669 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 20
21912594 TACTTCGATA
* *
21912604 CCCCTCATTGCACATATGTG
1 CCCCTGATTGCACATACGTG
* * * *
21912624 CCCCTGTTTGTAC-TTCAGTA
1 CCCCTGATTGCACATAC-GTG
*
21912644 TCCCTGATTGCACATACGTG
1 CCCCTGATTGCACATACGTG
21912664 CCCCTG
1 CCCCTG
21912670 TTTATACCCT
Statistics
Matches: 32, Mismatches: 12, Indels: 4
0.67 0.25 0.08
Matches are distributed among these distances:
19 1 0.03
20 29 0.91
21 2 0.06
ACGTcount: A:0.17, C:0.35, G:0.17, T:0.32
Consensus pattern (20 bp):
CCCCTGATTGCACATACGTG
Found at i:21931000 original size:40 final size:40
Alignment explanation
Indices: 21930940--21931123 Score: 219
Period size: 40 Copynumber: 4.6 Consensus size: 40
21930930 AATTATTGTA
* *
21930940 TGATCGCACATACCTGCCCCTGTTTGTACTTCGGTACCCC
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* *
21930980 TAATTGCACATACGTGCCCCTGTTTATACTTCGGTACCCC
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* * *
21931020 TGATTGCATATACGTGCCTCTGTTTGTACTAT-GATACCCC
1 TGATTGCACATACGTGCCCCTGTTTGTACT-TCGGTACCCC
* ** *
21931060 TGATTACACATACGTGCCCCTGTTTGTACTTCAATA-CTC
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* * *
21931099 TGAATGCACTTTCGTGCCCCTGTTT
1 TGATTGCACATACGTGCCCCTGTTT
21931124 ATACCTTAGT
Statistics
Matches: 124, Mismatches: 18, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
39 24 0.19
40 99 0.80
41 1 0.01
ACGTcount: A:0.18, C:0.30, G:0.16, T:0.35
Consensus pattern (40 bp):
TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
Found at i:21931081 original size:20 final size:20
Alignment explanation
Indices: 21930940--21931081 Score: 65
Period size: 20 Copynumber: 7.1 Consensus size: 20
21930930 AATTATTGTA
* *
21930940 TGATCGCACATACCTGCCCC
1 TGATTGCACATACGTGCCCC
* * * *
21930960 TGTTTGTAC-TTCGGTACCCC
1 TGATTGCACATAC-GTGCCCC
*
21930980 TAATTGCACATACGTGCCCC
1 TGATTGCACATACGTGCCCC
* ** * *
21931000 TGTTTATAC-TTCGGTACCCC
1 TGATTGCACATAC-GTGCCCC
* *
21931020 TGATTGCATATACGTGCCTC
1 TGATTGCACATACGTGCCCC
* * * *
21931040 TGTTTGTAC-TATGATACCCC
1 TGATTGCACATACG-TGCCCC
*
21931060 TGATTACACATACGTGCCCC
1 TGATTGCACATACGTGCCCC
21931080 TG
1 TG
21931082 TTTGTACTTC
Statistics
Matches: 81, Mismatches: 35, Indels: 12
0.63 0.27 0.09
Matches are distributed among these distances:
19 7 0.09
20 67 0.83
21 7 0.09
ACGTcount: A:0.19, C:0.32, G:0.17, T:0.32
Consensus pattern (20 bp):
TGATTGCACATACGTGCCCC
Found at i:21932915 original size:27 final size:27
Alignment explanation
Indices: 21932896--21933200 Score: 222
Period size: 27 Copynumber: 11.3 Consensus size: 27
21932886 CTCAATTTGT
*
21932896 AAAATTACCAAAGTACCCTCGATTTAC
1 AAAATTACCAAATTACCCTCGATTTAC
***
21932923 AAAATTACCGTTTTACCCTCGATTTAC
1 AAAATTACCAAATTACCCTCGATTTAC
* *** *
21932950 AGAATTACCGTTTTACCCTCGATTTAT
1 AAAATTACCAAATTACCCTCGATTTAC
** *
21932977 AAAATTACCATTTTACCCTCAATTTAC
1 AAAATTACCAAATTACCCTCGATTTAC
* **
21933004 AGAATTACCATTTTACCCTCGATTTAC
1 AAAATTACCAAATTACCCTCGATTTAC
***
21933031 AAAATTACCGTTTTACCCTCGATTTAC
1 AAAATTACCAAATTACCCTCGATTTAC
* * * *
21933058 AAAATTACTAAAATACCCTTGGTTTAC
1 AAAATTACCAAATTACCCTCGATTTAC
* * **
21933085 AAAATTACCAAAATACCC-CTAGTTTGT
1 AAAATTACCAAATTACCCTCGA-TTTAC
* * * **
21933112 AAAATTACCAAAATACTACT-GGTTTGT
1 AAAATTACCAAATTAC-CCTCGATTTAC
* * **
21933139 GAAATTACCGAAA-TACCCTCAATTTGT
1 AAAATTACC-AAATTACCCTCGATTTAC
*
21933166 AAAATTACCAAAATACACCT-GATTTAC
1 AAAATTACCAAATTAC-CCTCGATTTAC
21933193 AAAATTAC
1 AAAATTAC
21933201 AGAAATACCC
Statistics
Matches: 233, Mismatches: 38, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
26 5 0.02
27 221 0.95
28 7 0.03
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.33
Consensus pattern (27 bp):
AAAATTACCAAATTACCCTCGATTTAC
Found at i:21932956 original size:54 final size:54
Alignment explanation
Indices: 21932898--21933093 Score: 266
Period size: 54 Copynumber: 3.6 Consensus size: 54
21932888 CAATTTGTAA
*
21932898 AATTACCAAAGTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAG
1 AATTACCAAATTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAG
*** * * *
21932952 AATTACCGTTTTACCCTCGATTTATAAAATTACCATTTTACCCTCAATTTACAG
1 AATTACCAAATTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAG
** *
21933006 AATTACCATTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAA
1 AATTACCAAATTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAG
* * * *
21933060 AATTACTAAAATACCCTTGGTTTACAAAATTACC
1 AATTACCAAATTACCCTCGATTTACAAAATTACC
21933094 AAAATACCCC
Statistics
Matches: 124, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 124 1.00
ACGTcount: A:0.34, C:0.24, G:0.07, T:0.35
Consensus pattern (54 bp):
AATTACCAAATTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAG
Found at i:21933102 original size:54 final size:54
Alignment explanation
Indices: 21932864--21933211 Score: 218
Period size: 54 Copynumber: 6.4 Consensus size: 54
21932854 AATACTTTAG
* * ** ** * *
21932864 TTTACCAAATTACTAAAATGTCCTCAATTTGTAAAATTACCAAAGTACCCTCGA
1 TTTACAAAATTACCAAAATACCCTCAATTTACAAAATTACCAAAATACCCTTGA
**** * * **** *
21932918 TTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGA
1 TTTACAAAATTACCAAAATACCCTCAATTTACAAAATTACCAAAATACCCTTGA
* *** * *** *
21932972 TTTATAAAATTACCATTTTACCCTCAATTTACAGAATTACCATTTTACCCTCGA
1 TTTACAAAATTACCAAAATACCCTCAATTTACAAAATTACCAAAATACCCTTGA
**** * * *
21933026 TTTACAAAATTACCGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGG
1 TTTACAAAATTACCAAAATACCCTCAATTTACAAAATTACCAAAATACCCTTGA
* ** * *
21933080 TTTACAAAATTACCAAAATACCC-CTAGTTTGTAAAATTACCAAAATACTAC-TGG
1 TTTACAAAATTACCAAAATACCCTC-AATTTACAAAATTACCAAAATAC-CCTTGA
*** * **
21933134 TTTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACACC-TGA
1 TTTACAAAATTACCAAAATACCCTCAATTTACAAAATTACCAAAATAC-CCTTGA
21933188 TTTACAAAATTA-CAGAAATACCCT
1 TTTACAAAATTACCA-AAATACCCT
21933212 TGACTTTCTA
Statistics
Matches: 238, Mismatches: 52, Indels: 8
0.80 0.17 0.03
Matches are distributed among these distances:
53 2 0.01
54 234 0.98
55 2 0.01
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.33
Consensus pattern (54 bp):
TTTACAAAATTACCAAAATACCCTCAATTTACAAAATTACCAAAATACCCTTGA
Found at i:21933102 original size:81 final size:81
Alignment explanation
Indices: 21932896--21933094 Score: 290
Period size: 81 Copynumber: 2.5 Consensus size: 81
21932886 CTCAATTTGT
* * *
21932896 AAAATTACCAAAGTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACCGT
1 AAAATTACCAAAATACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTACAAAATTACCGT
*
21932961 TTTACCCTCGATTTAT
66 TTTACCCTCGATTTAC
*** * *
21932977 AAAATTACCATTTTACCCTCAATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACCGT
1 AAAATTACCAAAATACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTACAAAATTACCGT
21933042 TTTACCCTCGATTTAC
66 TTTACCCTCGATTTAC
* * *
21933058 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCA
1 AAAATTACCAAAATACCCTCGATTTACAAAATTACCA
21933095 AAATACCCCT
Statistics
Matches: 102, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
81 102 1.00
ACGTcount: A:0.35, C:0.24, G:0.07, T:0.35
Consensus pattern (81 bp):
AAAATTACCAAAATACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTACAAAATTACCGT
TTTACCCTCGATTTAC
Found at i:21933116 original size:81 final size:81
Alignment explanation
Indices: 21932896--21933200 Score: 247
Period size: 81 Copynumber: 3.8 Consensus size: 81
21932886 CTCAATTTGT
* * **** * *
21932896 AAAATTACCAAAGTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACCGT
1 AAAATTACCAAAATACCCTCAATTTACAAAATTACCAAAATACCCTAGATTTACAAAATTACCGT
*
21932961 TTTACCCTCGATTTAT
66 TTTACCCTCGATTTAC
*** * *** *
21932977 AAAATTACCATTTTACCCTCAATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACCGT
1 AAAATTACCAAAATACCCTCAATTTACAAAATTACCAAAATACCCTAGATTTACAAAATTACCGT
21933042 TTTACCCTCGATTTAC
66 TTTACCCTCGATTTAC
* *** ** *
21933058 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTAG-TTTGTAAAATTACCA
1 AAAATTACCAAAATACCCTCAATTTACAAAATTACCAAAATA-CCCTAGATTTACAAAATTACCG
*** * * **
21933122 AAATACTACT-GGTTTGT
65 TTTTAC-CCTCGATTTAC
* * **
21933139 GAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACACCT-GATTTACAAAATTAC
1 AAAATTACCAAAATACCCTCAATTTACAAAATTACCAAAATAC-CCTAGATTTACAAAATTAC
21933201 AGAAATACCC
Statistics
Matches: 180, Mismatches: 40, Indels: 8
0.79 0.18 0.04
Matches are distributed among these distances:
80 2 0.01
81 171 0.95
82 7 0.04
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.33
Consensus pattern (81 bp):
AAAATTACCAAAATACCCTCAATTTACAAAATTACCAAAATACCCTAGATTTACAAAATTACCGT
TTTACCCTCGATTTAC
Found at i:21933270 original size:27 final size:27
Alignment explanation
Indices: 21933017--21933273 Score: 160
Period size: 27 Copynumber: 9.4 Consensus size: 27
21933007 ATTACCATTT
* * ***
21933017 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTTGGTTTACAAAATTACCGAAA
* * **
21933044 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGGTTTACAAAATTACCGAAA
*
21933071 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACCGAAA
* * ** *
21933098 TACCCCTAGTTTGTAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACCGAAA
* ***
21933125 TACTAC-TGGTTTGTGAAATTACCGAAA
1 TAC-CCTTGGTTTACAAAATTACCGAAA
*** ** *
21933152 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACCGAAA
* *
21933179 TACACC-TGATTTACAAAATTACAGAAA
1 TAC-CCTTGGTTTACAAAATTACCGAAA
* **
21933206 TACCCTTGACTTT-CTAAAAATTATAGAAA
1 TACCCTTG-GTTTAC--AAAATTACCGAAA
* *
21933235 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGGTTTACAAAATTACCGAAA
21933262 TACCCTTGGTTT
1 TACCCTTGGTTT
21933274 GTAGATTTAC
Statistics
Matches: 187, Mismatches: 35, Indels: 16
0.79 0.15 0.07
Matches are distributed among these distances:
26 3 0.02
27 155 0.83
28 9 0.05
29 20 0.11
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (27 bp):
TACCCTTGGTTTACAAAATTACCGAAA
Found at i:21933418 original size:27 final size:27
Alignment explanation
Indices: 21933318--21933418 Score: 98
Period size: 27 Copynumber: 3.7 Consensus size: 27
21933308 GACTAAAATA
*
21933318 CCCCTA-ATAGGTAAAAAGACCGTAAAG
1 CCCCTATAT-GGTAAAATGACCGTAAAG
* * * *
21933345 CCCCTGTAAGGTAAACTAACCGTAAAG
1 CCCCTATATGGTAAAATGACCGTAAAG
* * *
21933372 CCCCTGTAGGGTAAAGTGACCGTAATA-
1 CCCCTATATGGTAAAATGACCGTAA-AG
21933399 CCCCTATATGGTAAAATGAC
1 CCCCTATATGGTAAAATGAC
21933419 GAATATGCCA
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
27 59 0.97
28 2 0.03
ACGTcount: A:0.37, C:0.24, G:0.20, T:0.20
Consensus pattern (27 bp):
CCCCTATATGGTAAAATGACCGTAAAG
Found at i:21934303 original size:52 final size:52
Alignment explanation
Indices: 21934221--21934369 Score: 257
Period size: 52 Copynumber: 2.9 Consensus size: 52
21934211 GAGGAAGTGC
* *
21934221 AAAAGGGCTTATGCCCTAGTTTACCGAAAAGGGCTTACGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTG
*
21934273 AAAAGGGCTTATGCCCCAGTTTACCAAAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTG
21934325 AAAAGGGCTT-TGCCCCAGTTTACCGAAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTT
21934370 ATTAAAGAGG
Statistics
Matches: 93, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
50 10 0.11
51 24 0.26
52 59 0.63
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (52 bp):
AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTG
Found at i:21934344 original size:25 final size:26
Alignment explanation
Indices: 21934221--21934369 Score: 221
Period size: 26 Copynumber: 5.8 Consensus size: 26
21934211 GAGGAAGTGC
*
21934221 AAAAGGGCTTATGCCCTAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
* **
21934247 AAAAGGGCTTACGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
21934273 AAAAGGGCTTATGCCCCAGTTTACCA
1 AAAAGGGCTTATGCCCCAGTTTACCG
**
21934299 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
21934325 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
21934350 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
21934370 ATTAAAGAGG
Statistics
Matches: 110, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
25 33 0.30
26 77 0.70
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:21934572 original size:42 final size:42
Alignment explanation
Indices: 21934513--21934604 Score: 123
Period size: 42 Copynumber: 2.2 Consensus size: 42
21934503 TAGTCTCCCC
* ** * *
21934513 AAATGGGCTTGCATACATTCATTGGTATT-TCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTAT-AGGTGATACTG
21934555 AAATGGGCTTGCATACATCCATTGACATTATAGGTGATACTG
1 AAATGGGCTTGCATACATCCATTGACATTATAGGTGATACTG
21934597 AAATGGGC
1 AAATGGGC
21934605 CTAAGGGCCA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
42 43 0.98
43 1 0.02
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.34
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTATAGGTGATACTG
Found at i:21934663 original size:31 final size:31
Alignment explanation
Indices: 21934628--21934702 Score: 132
Period size: 31 Copynumber: 2.4 Consensus size: 31
21934618 TGTTTACAGT
21934628 AAAGGCTTCGGCCCAATGATATGATTTATAA
1 AAAGGCTTCGGCCCAATGATATGATTTATAA
* *
21934659 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAATGATATGATTTATAA
21934690 AAAGGCTTCGGCC
1 AAAGGCTTCGGCC
21934703 TAGTAACCGT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAATGATATGATTTATAA
Found at i:21937091 original size:27 final size:27
Alignment explanation
Indices: 21937037--21937167 Score: 183
Period size: 27 Copynumber: 4.9 Consensus size: 27
21937027 ATTACCAAAG
* **
21937037 TACCCTCGATTTACAGAATCACCATTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
21937064 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
21937091 TACCCTCAATTTACAGAATTA-TCGTTT
1 TACCCTCGATTTACAGAATTACT-GTTT
*
21937118 TACCCTCAATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
21937145 TACCCTCGATTTACAAAATTACT
1 TACCCTCGATTTACAGAATTACT
21937168 AAAATACCCT
Statistics
Matches: 94, Mismatches: 8, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
26 1 0.01
27 92 0.98
28 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.08, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:21937175 original size:27 final size:27
Alignment explanation
Indices: 21936992--21937368 Score: 140
Period size: 27 Copynumber: 13.9 Consensus size: 27
21936982 AATACTTTAG
* ** *
21936992 TTTACCAAATTACTAAAATGTCCTCAA
1 TTTACAAAATTACTAAAATACCCTCGA
** * *
21937019 TTTGTAAAATTACCAAAGTACCCTCGA
1 TTTACAAAATTACTAAAATACCCTCGA
* * * ***
21937046 TTTACAGAATCACCATTTTACCCTCGA
1 TTTACAAAATTACTAAAATACCCTCGA
* * **** *
21937073 TTTATAGAATTACTGTTTTACCCTCAA
1 TTTACAAAATTACTAAAATACCCTCGA
* ** *
21937100 TTTACAGAATTATCGT--TTTACCCTCAA
1 TTTACAAAATTA-C-TAAAATACCCTCGA
* ****
21937127 TTTACAGAATTACTGTTTTACCCTCGA
1 TTTACAAAATTACTAAAATACCCTCGA
* *
21937154 TTTACAAAATTACTAAAATACCCTTGG
1 TTTACAAAATTACTAAAATACCCTCGA
* *
21937181 TTTACAAAATTACCAAAATACCC-CTA
1 TTTACAAAATTACTAAAATACCCTCGA
** * *
21937207 GTTTGTAAAATTACCAAAATACCACTAG-
1 -TTTACAAAATTACTAAAATACC-CTCGA
*** ** *
21937235 TTTGTGAAATTACCGAAATACCCTCAA
1 TTTACAAAATTACTAAAATACCCTCGA
** *
21937262 TTTGTAAAATTACCAAAATACACCT-GA
1 TTTACAAAATTACTAAAATAC-CCTCGA
*
21937289 TTTACAAAATTAC-AGAAATACCCTTGA
1 TTTACAAAATTACTA-AAATACCCTCGA
* * *
21937316 CTTT-CTAAAAATTA-TAGAAATACCATTGG
1 -TTTAC--AAAATTACTA-AAATACCCTCGA
*
21937345 TTTACAAAATTACTGAAATACCCT
1 TTTACAAAATTACTAAAATACCCT
21937369 TGGTTTGTAG
Statistics
Matches: 283, Mismatches: 50, Indels: 34
0.77 0.14 0.09
Matches are distributed among these distances:
25 1 0.00
26 7 0.02
27 242 0.86
28 12 0.04
29 21 0.07
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.33
Consensus pattern (27 bp):
TTTACAAAATTACTAAAATACCCTCGA
Found at i:21937203 original size:54 final size:54
Alignment explanation
Indices: 21937145--21937368 Score: 172
Period size: 54 Copynumber: 4.1 Consensus size: 54
21937135 ATTACTGTTT
* *
21937145 TACCCTCGA-TTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGACTTTGCAAAATTACCAAAATACCC-TGGTTTACAAAATTACCAAAA
* * * * *** *
21937199 TACCC-CTAGTTTGTAAAATTACCAAAATACCACTAGTTTGTGAAATTACCGAAA
1 TACCCTCGACTTTGCAAAATTACCAAAATACC-CTGGTTTACAAAATTACCAAAA
* * *
21937253 TACCCTC-AATTTGTAAAATTACCAAAATACACCTGATTTACAAAATTA-CAGAAA
1 TACCCTCGACTTTGCAAAATTACCAAAATAC-CCTGGTTTACAAAATTACCA-AAA
* * * **
21937307 TACCCTTGACTTT-CTAAAAATTA-TAGAAATACCATTGGTTTACAAAATTACTGAAA
1 TACCCTCGACTTTGC--AAAATTACCA-AAATACC-CTGGTTTACAAAATTACCAAAA
21937363 TACCCT
1 TACCCT
21937369 TGGTTTGTAG
Statistics
Matches: 135, Mismatches: 24, Indels: 20
0.75 0.13 0.11
Matches are distributed among these distances:
53 3 0.02
54 87 0.64
55 9 0.07
56 36 0.27
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.30
Consensus pattern (54 bp):
TACCCTCGACTTTGCAAAATTACCAAAATACCCTGGTTTACAAAATTACCAAAA
Found at i:21937203 original size:81 final size:81
Alignment explanation
Indices: 21936992--21937203 Score: 199
Period size: 81 Copynumber: 2.6 Consensus size: 81
21936982 AATACTTTAG
* ** ** * *
21936992 TTTACCAAATTACTAAAATGTCCTCAATTTGTAAAATTACCAAAGTACCCTCGATTTACAGAATC
1 TTTACAAAATTACTAAAATACCCTCAATTTACAAAATTACCAAAATACCCTCAATTTACAGAATC
21937057 ACCATTTTACCCTCGA
66 ACCATTTTACCCTCGA
* * **** * * **** *
21937073 TTTATAGAATTACTGTTTTACCCTCAATTTACAGAATTATCGTTTTACCCTCAATTTACAGAATT
1 TTTACAAAATTACTAAAATACCCTCAATTTACAAAATTACCAAAATACCCTCAATTTACAGAATC
**
21937138 ACTGTTTTACCCTCGA
66 ACCATTTTACCCTCGA
***
21937154 TTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCC
1 TTTACAAAATTACTAAAATACCCTCAATTTACAAAATTACCAAAATACCC
21937204 CTAGTTTGTA
Statistics
Matches: 95, Mismatches: 36, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
81 95 1.00
ACGTcount: A:0.35, C:0.23, G:0.07, T:0.35
Consensus pattern (81 bp):
TTTACAAAATTACTAAAATACCCTCAATTTACAAAATTACCAAAATACCCTCAATTTACAGAATC
ACCATTTTACCCTCGA
Found at i:21937371 original size:27 final size:27
Alignment explanation
Indices: 21937145--21937374 Score: 151
Period size: 27 Copynumber: 8.4 Consensus size: 27
21937135 ATTACTGTTT
* * **
21937145 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGGTTTACAAAATTACCGAAA
*
21937172 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACCGAAA
* * ** *
21937199 TACCCCTAGTTTGTAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACCGAAA
* ***
21937226 TACCAC-TAGTTTGTGAAATTACCGAAA
1 TACC-CTTGGTTTACAAAATTACCGAAA
*** ** *
21937253 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACCGAAA
* *
21937280 TACACC-TGATTTACAAAATTACAGAAA
1 TAC-CCTTGGTTTACAAAATTACCGAAA
* **
21937307 TACCCTTGACTTT-CTAAAAATTATAGAAA
1 TACCCTTG-GTTTAC--AAAATTACCGAAA
* *
21937336 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGGTTTACAAAATTACCGAAA
21937363 TACCCTTGGTTT
1 TACCCTTGGTTT
21937375 GTAGATTTAC
Statistics
Matches: 169, Mismatches: 26, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
26 3 0.02
27 137 0.81
28 9 0.05
29 20 0.12
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.31
Consensus pattern (27 bp):
TACCCTTGGTTTACAAAATTACCGAAA
Found at i:21937457 original size:27 final size:27
Alignment explanation
Indices: 21937427--21937488 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
21937417 TACCCCTAAT
21937427 AGGTAAAAAGACCGTAAAGCCCCTGTA
1 AGGTAAAAAGACCGTAAAGCCCCTGTA
** * *
21937454 AGGTAAAGTGATCGTAAGGCCCCTGTA
1 AGGTAAAAAGACCGTAAAGCCCCTGTA
*
21937481 TGGTAAAA
1 AGGTAAAA
21937489 TGACGAATAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.37, C:0.18, G:0.26, T:0.19
Consensus pattern (27 bp):
AGGTAAAAAGACCGTAAAGCCCCTGTA
Found at i:21937502 original size:27 final size:27
Alignment explanation
Indices: 21937427--21937495 Score: 70
Period size: 27 Copynumber: 2.6 Consensus size: 27
21937417 TACCCCTAAT
* *
21937427 AGGTAAAAAGACCGTAAA-GCCCCTGTA
1 AGGTAAAATGATCG-AAAGGCCCCTGTA
* *
21937454 AGGTAAAGTGATCGTAAGGCCCCTGTA
1 AGGTAAAATGATCGAAAGGCCCCTGTA
*
21937481 TGGTAAAATGA-CGAA
1 AGGTAAAATGATCGAA
21937496 TATGCCCTTA
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
26 5 0.15
27 29 0.85
ACGTcount: A:0.38, C:0.17, G:0.26, T:0.19
Consensus pattern (27 bp):
AGGTAAAATGATCGAAAGGCCCCTGTA
Found at i:21938320 original size:26 final size:26
Alignment explanation
Indices: 21938291--21938414 Score: 187
Period size: 26 Copynumber: 4.8 Consensus size: 26
21938281 GAGGAAGTGC
21938291 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
* **
21938317 AAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
21938343 AAAAGGGCTTATGCCCCAGTTTACCA
1 AAAAGGGCTTATGCCCCAGTTTACCG
**
21938369 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
21938395 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
21938415 ATTAAAGAGG
Statistics
Matches: 88, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
25 10 0.11
26 78 0.89
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Done.