Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 51 of 199
Found at i:14889712 original size:34 final size:33
Alignment explanation
Indices: 14889599--14889724 Score: 146
Period size: 33 Copynumber: 3.8 Consensus size: 33
14889589 TATAAATCAA
*
14889599 GGTTTAGAGTTTTAAAAAAATTAATTAAATTAG
1 GGTTTAGAGTTTTTAAAAAATTAATTAAATTAG
* * *
14889632 GTTTTAG-GGTTTTAAATAAATTAATTAAATTAA
1 GGTTTAGAGTTTTTAAA-AAATTAATTAAATTAG
* *
14889665 GGTTTAAAGTTTTTAAGAATATTAATTAAATTAG
1 GGTTTAGAGTTTTTAA-AAAATTAATTAAATTAG
** *
14889699 GGTTTAGTTTTTTTAAAAAAATAATT
1 GGTTTAGAGTTTTTAAAAAATTAATT
14889725 TTTGTGTTTA
Statistics
Matches: 76, Mismatches: 14, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
32 7 0.09
33 34 0.45
34 34 0.45
35 1 0.01
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.44
Consensus pattern (33 bp):
GGTTTAGAGTTTTTAAAAAATTAATTAAATTAG
Found at i:14889724 original size:67 final size:66
Alignment explanation
Indices: 14889584--14889724 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 66
14889574 TTAATAATTT
* *
14889584 TAAAAT-A-TAAATCAAGGTTTAGAGTTTTAAAAAAATTAATTAAATTAGGTTTTAGGGTTTTAA
1 TAAAATAATTAAATCAAGGTTTAAAGTTTTAAAAAAATTAATTAAATTAGGGTTTAGGGTTTTAA
14889647 A
66 A
* * * * **
14889648 TAAATTAATTAAATTAAGGTTTAAAGTTTTTAAGAATATTAATTAAATTAGGGTTTAGTTTTTTT
1 TAAAATAATTAAATCAAGGTTTAAAG-TTTTAAAAAAATTAATTAAATTAGGGTTTAG-GGTTTT
14889713 AAA
64 AAA
14889716 -AAAATAATT
1 TAAAATAATT
14889725 TTTGTGTTTA
Statistics
Matches: 64, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
64 5 0.08
65 1 0.02
66 15 0.23
67 36 0.56
68 7 0.11
ACGTcount: A:0.45, C:0.01, G:0.12, T:0.43
Consensus pattern (66 bp):
TAAAATAATTAAATCAAGGTTTAAAGTTTTAAAAAAATTAATTAAATTAGGGTTTAGGGTTTTAA
A
Found at i:14889948 original size:126 final size:126
Alignment explanation
Indices: 14889808--14890204 Score: 575
Period size: 126 Copynumber: 3.2 Consensus size: 126
14889798 GGATTTTGTT
* * * *
14889808 TTTTTCTACAGTAGTT-TTAAAAAAATTAATTTTGAGAAGACGGTTTTGAAAAGATAATGTCAAA
1 TTTTTCTACAGTAGTTCCTAAAAAAA-TAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAA
*
14889872 AACACTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGTTC
65 AACACTTCAAGCAAGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGTTC
14889934 TTTTTCTACAGTAGTTCCTAAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTAAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
** * *
14889999 ATGCTTCAAGCAAGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGAACGTTT
66 ACACTTCAAGCAAGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGTTC
* * *
14890060 TTTTTCTATAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTAAAAAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTAAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
* * * ** *
14890125 ATGA-TTCAAGCATA-ATGCACTGTCAGCAAAATTGCTAAAAAAAGCTTTCACGTGGACGCTC
66 A-CACTTCAAGCA-AGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGTTC
*
14890186 TTTTTCTACAGTACTTCCT
1 TTTTTCTACAGTAGTTCCT
14890205 GCTTAGCCTA
Statistics
Matches: 245, Mismatches: 23, Indels: 6
0.89 0.08 0.02
Matches are distributed among these distances:
126 236 0.96
127 9 0.04
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (126 bp):
TTTTTCTACAGTAGTTCCTAAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
ACACTTCAAGCAAGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGTTC
Found at i:14900222 original size:30 final size:30
Alignment explanation
Indices: 14900188--14900245 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
14900178 AACAACCTTC
14900188 TTGATAATTCCTCTTTGGATT-GTAACTCTT
1 TTGATAATTCCT-TTTGGATTGGTAACTCTT
* * *
14900218 TTGATGATTTCTTTTGTATTGGTAACTC
1 TTGATAATTCCTTTTGGATTGGTAACTC
14900246 CCCTCATAGC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 7 0.29
30 17 0.71
ACGTcount: A:0.19, C:0.14, G:0.16, T:0.52
Consensus pattern (30 bp):
TTGATAATTCCTTTTGGATTGGTAACTCTT
Found at i:14902772 original size:20 final size:20
Alignment explanation
Indices: 14902747--14902796 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
14902737 TGGCTTAAAA
14902747 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
14902767 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
14902784 GTGGTAGTGGATT
1 TTGGTAGTGGATT
14902797 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:14907411 original size:20 final size:20
Alignment explanation
Indices: 14907386--14907435 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
14907376 TGGCTTAAAA
14907386 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
14907406 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
14907423 GTGGTAGTGGATT
1 TTGGTAGTGGATT
14907436 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:14916186 original size:17 final size:17
Alignment explanation
Indices: 14916164--14916197 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
14916154 ATCCACTAAT
*
14916164 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
14916181 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
14916198 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:14920825 original size:17 final size:17
Alignment explanation
Indices: 14920803--14920836 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
14920793 ATCCACTAAT
*
14920803 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
14920820 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
14920837 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:14921979 original size:16 final size:15
Alignment explanation
Indices: 14921958--14921998 Score: 57
Period size: 14 Copynumber: 2.7 Consensus size: 15
14921948 ATCATAAAAA
14921958 TATAATTTTATTATTT
1 TATAATTTTA-TATTT
14921974 TATAA-TTTATATTT
1 TATAATTTTATATTT
14921988 TATAATATTTA
1 TATAAT-TTTA
14921999 AAAGATTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 10 0.43
15 4 0.17
16 9 0.39
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
TATAATTTTATATTT
Found at i:14923162 original size:16 final size:17
Alignment explanation
Indices: 14923136--14923212 Score: 70
Period size: 16 Copynumber: 4.4 Consensus size: 17
14923126 TGTATTTATG
14923136 TATATATTTT-ATTTTTT
1 TATA-ATTTTGATTTTTT
14923153 TATAATTTT-ATAATTTTT
1 TATAATTTTGAT--TTTTT
*
14923171 TAAAATTTTGATTTTTT
1 TATAATTTTGATTTTTT
*
14923188 TA-GATTTTGATTTTTGT
1 TATAATTTTGATTTTT-T
14923205 ATATAATT
1 -TATAATT
14923213 ATGGTTAAAT
Statistics
Matches: 51, Mismatches: 3, Indels: 10
0.80 0.05 0.16
Matches are distributed among these distances:
16 19 0.37
17 12 0.24
18 15 0.29
19 5 0.10
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (17 bp):
TATAATTTTGATTTTTT
Found at i:14924838 original size:23 final size:23
Alignment explanation
Indices: 14924808--14925098 Score: 289
Period size: 23 Copynumber: 12.4 Consensus size: 23
14924798 CAGTTTATAA
* *
14924808 AAGGGGTTCGCATATCGTTCACT
1 AAGGGGTTCGCATAACATTCACT
14924831 AAGGGGTTCGCATAACATTCACT
1 AAGGGGTTCGCATAACATTCACT
* * * *
14924854 AAGAGGTTCACACAACATTCATT
1 AAGGGGTTCGCATAACATTCACT
* * *
14924877 AAGAGGTTCAC-TCAACATTTACT
1 AAGGGGTTCGCAT-AACATTCACT
* * *
14924900 AAGGGGTTCGCACAAATATTCATT
1 AAGGGGTTCGCA-TAACATTCACT
* * *
14924924 AAGTGGTTCACATGAATATTCACT
1 AAGGGGTTCGCAT-AACATTCACT
*
14924948 GAGGGGTTCGCATAACATTCACT
1 AAGGGGTTCGCATAACATTCACT
*
14924971 AAGGGGTTCGCATAAATATTCACT
1 AAGGGGTTCGCAT-AACATTCACT
*
14924995 GAGGGGTTCGCATAACATTCACT
1 AAGGGGTTCGCATAACATTCACT
* * *
14925018 GAGGGGTTCGCATAAATATTCATT
1 AAGGGGTTCGCAT-AACATTCACT
14925042 AAGGGGTT-GCATAACATTCACT
1 AAGGGGTTCGCATAACATTCACT
* * *
14925064 AAGGGGGTTTGCAAAAATATTCACT
1 AA-GGGGTTCGC-ATAACATTCACT
14925089 AAGGGGTTCG
1 AAGGGGTTCG
14925099 GTTTATCCGA
Statistics
Matches: 224, Mismatches: 35, Indels: 17
0.81 0.13 0.06
Matches are distributed among these distances:
22 10 0.04
23 121 0.54
24 81 0.36
25 12 0.05
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (23 bp):
AAGGGGTTCGCATAACATTCACT
Found at i:14924965 original size:71 final size:69
Alignment explanation
Indices: 14924809--14925066 Score: 277
Period size: 71 Copynumber: 3.7 Consensus size: 69
14924799 AGTTTATAAA
* * * * *
14924809 AGGGGTTCGCATATCGTTCACTAAGGGGTTCGCATAACATTCACTAAGAGGTTCACACAACATTC
1 AGGGGTTCGCATAACATTCACTAAGGGGTTCGCAAAATATTCACTAAGAGGTTCACATAACATTC
* *
14924874 ATTA
66 ACTG
* * * * * *
14924878 AGAGGTTCAC-TCAACATTTACTAAGGGGTTCGCACAAATATTCATTAAGTGGTTCACATGAATA
1 AGGGGTTCGCAT-AACATTCACTAAGGGGTTCGCA-AAATATTCACTAAGAGGTTCACAT-AACA
14924942 TTCACTG
63 TTCACTG
* * *
14924949 AGGGGTTCGCATAACATTCACTAAGGGGTTCGCATAAATATTCACTGAGGGGTTCGCATAACATT
1 AGGGGTTCGCATAACATTCACTAAGGGGTTCGCA-AAATATTCACTAAGAGGTTCACATAACATT
14925014 CACTG
65 CACTG
* * * *
14925019 AGGGGTTCGCATAAATATTCATTAAGGGGTT-GCATAACATTCACTAAG
1 AGGGGTTCGCAT-AACATTCACTAAGGGGTTCGCAAAATATTCACTAAG
14925067 GGGGTTTGCA
Statistics
Matches: 157, Mismatches: 27, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
68 1 0.01
69 38 0.24
70 44 0.28
71 73 0.46
72 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (69 bp):
AGGGGTTCGCATAACATTCACTAAGGGGTTCGCAAAATATTCACTAAGAGGTTCACATAACATTC
ACTG
Found at i:14924968 original size:47 final size:47
Alignment explanation
Indices: 14924808--14925098 Score: 327
Period size: 47 Copynumber: 6.2 Consensus size: 47
14924798 CAGTTTATAA
* * *
14924808 AAGGGGTTCGCATATCGTTCACTAAGGGGTTCGCAT-AACATTCACT
1 AAGGGGTTCGCATAACATTCACTAAGGGGTTCGCATAAATATTCACT
* * * * * * * * *
14924854 AAGAGGTTCACACAACATTCATTAAGAGGTTCAC-TCAACATTTACT
1 AAGGGGTTCGCATAACATTCACTAAGGGGTTCGCATAAATATTCACT
* * * * * *
14924900 AAGGGGTTCGCACAAATATTCATTAAGTGGTTCACATGAATATTCACT
1 AAGGGGTTCGCA-TAACATTCACTAAGGGGTTCGCATAAATATTCACT
*
14924948 GAGGGGTTCGCATAACATTCACTAAGGGGTTCGCATAAATATTCACT
1 AAGGGGTTCGCATAACATTCACTAAGGGGTTCGCATAAATATTCACT
* * *
14924995 GAGGGGTTCGCATAACATTCACTGAGGGGTTCGCATAAATATTCATT
1 AAGGGGTTCGCATAACATTCACTAAGGGGTTCGCATAAATATTCACT
* *
14925042 AAGGGGTT-GCATAACATTCACTAAGGGGGTTTGCAAAAATATTCACT
1 AAGGGGTTCGCATAACATTCACTAA-GGGGTTCGCATAAATATTCACT
14925089 AAGGGGTTCG
1 AAGGGGTTCG
14925099 GTTTATCCGA
Statistics
Matches: 209, Mismatches: 31, Indels: 8
0.84 0.12 0.03
Matches are distributed among these distances:
45 1 0.00
46 60 0.29
47 127 0.61
48 21 0.10
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (47 bp):
AAGGGGTTCGCATAACATTCACTAAGGGGTTCGCATAAATATTCACT
Found at i:14925191 original size:42 final size:43
Alignment explanation
Indices: 14925119--14925278 Score: 144
Period size: 43 Copynumber: 3.7 Consensus size: 43
14925109 TGATACATTG
**
14925119 TGTGTATGCCAATATAGTTGCTTTGATTTATTTGATGACGCAC
1 TGTGTATGCCAATATAGTTGCTTTGATTTATCCGATGACGCAC
* * * *
14925162 TGTGTGTG-CAATATAGTTGCTTTGGTTTATCCGATGATGCAT
1 TGTGTATGCCAATATAGTTGCTTTGATTTATCCGATGACGCAC
* * * * * * *
14925204 TGTGTATGCCAATATAATT-ATTCCGATATATCTGGTGATGCAC
1 TGTGTATGCCAATATAGTTGCTT-TGATTTATCCGATGACGCAC
* * **
14925247 TGTATGTGCCAGCATAGTTGCTTTGATTTATC
1 TGTGTATGCCAATATAGTTGCTTTGATTTATC
14925279 AGAAGATGCA
Statistics
Matches: 91, Mismatches: 23, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
42 38 0.42
43 51 0.56
44 2 0.02
ACGTcount: A:0.23, C:0.14, G:0.22, T:0.41
Consensus pattern (43 bp):
TGTGTATGCCAATATAGTTGCTTTGATTTATCCGATGACGCAC
Found at i:14925306 original size:86 final size:86
Alignment explanation
Indices: 14925152--14925341 Score: 193
Period size: 86 Copynumber: 2.2 Consensus size: 86
14925142 TGATTTATTT
* * ** * * * *
14925152 GATGACGCACTGTGTGTG-CAATATAGTTGCTTTGGTTTATCCGATGATGCATTGTGTATGCCAA
1 GATGATGCACTGTATGTGCCAGCATAGTTGCTTTGATTTATCAGAAGATGCATTGTGTATGACAA
*
14925216 TATAATTATTCCGATATATCT
66 TATAATTATTCCGATATATCC
* * * * * *
14925237 GGTGATGCACTGTATGTGCCAGCATAGTTGCTTTGATTTATCAGAAGATGCATTTTTTGTGATAG
1 GATGATGCACTGTATGTGCCAGCATAGTTGCTTTGATTTATCAGAAGATGCATTGTGTATGACAA
* **
14925302 TATAATTGTTTTGATATATCC
66 TATAATTATTCCGATATATCC
* *
14925323 GATGATGCATTGTGTGTGC
1 GATGATGCACTGTATGTGC
14925342 TAGTATAATT
Statistics
Matches: 83, Mismatches: 21, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
85 15 0.18
86 68 0.82
ACGTcount: A:0.24, C:0.13, G:0.23, T:0.40
Consensus pattern (86 bp):
GATGATGCACTGTATGTGCCAGCATAGTTGCTTTGATTTATCAGAAGATGCATTGTGTATGACAA
TATAATTATTCCGATATATCC
Found at i:14925315 original size:43 final size:43
Alignment explanation
Indices: 14925268--14925355 Score: 122
Period size: 43 Copynumber: 2.0 Consensus size: 43
14925258 GCATAGTTGC
* * *
14925268 TTTGATTTATCAGAAGATGCATTTTTTGTGATAGTATAATTGT
1 TTTGATATATCAGAAGATGCATTGTGTGTGATAGTATAATTGT
* * *
14925311 TTTGATATATCCGATGATGCATTGTGTGTGCTAGTATAATTGT
1 TTTGATATATCAGAAGATGCATTGTGTGTGATAGTATAATTGT
14925354 TT
1 TT
14925356 CGGTTTTATC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.25, C:0.07, G:0.20, T:0.48
Consensus pattern (43 bp):
TTTGATATATCAGAAGATGCATTGTGTGTGATAGTATAATTGT
Found at i:14925386 original size:43 final size:43
Alignment explanation
Indices: 14925189--14925387 Score: 118
Period size: 43 Copynumber: 4.6 Consensus size: 43
14925179 TGCTTTGGTT
* * * * **
14925189 TATCCGATGATGCATTGTGTATGCCAATATAATTATTCCGATA
1 TATCCGATGATGCATTATGTATGCTAGTATAATTGTTTGGATA
* * * * * *
14925232 TATCTGGTGATGCACTGTATG--TGCCAGCATAGTTGCTTT-GATT
1 TATCCGATGATGCA-T-TATGTATGCTAGTATAATTG-TTTGGATA
* * * * * * *
14925275 TATCAGAAGATGCATTTTTTGTGATAGTATAATTGTTTTGATA
1 TATCCGATGATGCATTATGTATGCTAGTATAATTGTTTGGATA
* * * *
14925318 TATCCGATGATGCATTGTGTGTGCTAGTATAATTGTTTCGGTTT
1 TATCCGATGATGCATTATGTATGCTAGTATAATTGTTT-GGATA
*
14925362 TATCTGATGATGCATTATG-ATGCTAG
1 TATCCGATGATGCATTATGTATGCTAG
14925388 ATTGGGATAC
Statistics
Matches: 119, Mismatches: 30, Indels: 14
0.73 0.18 0.09
Matches are distributed among these distances:
41 2 0.02
42 4 0.03
43 88 0.74
44 22 0.18
45 3 0.03
ACGTcount: A:0.25, C:0.12, G:0.22, T:0.42
Consensus pattern (43 bp):
TATCCGATGATGCATTATGTATGCTAGTATAATTGTTTGGATA
Found at i:14933666 original size:25 final size:26
Alignment explanation
Indices: 14933578--14933667 Score: 64
Period size: 25 Copynumber: 3.7 Consensus size: 26
14933568 TACCCGATAT
* *
14933578 TGGCTC-ACATGAGCTTCCTA-AACA
1 TGGCTCGACATGAGCTTCCCATTACA
** *
14933602 TGGCTCTTC-TGAGCTTCCCATTATA
1 TGGCTCGACATGAGCTTCCCATTACA
** * *
14933627 CAGCCCGA-ATAAGCTTCCCATTACA
1 TGGCTCGACATGAGCTTCCCATTACA
14933652 TGGCTC-ACATGAGCTT
1 TGGCTCGACATGAGCTT
14933668 TTCGTTATAT
Statistics
Matches: 47, Mismatches: 15, Indels: 7
0.68 0.22 0.10
Matches are distributed among these distances:
24 17 0.36
25 30 0.64
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (26 bp):
TGGCTCGACATGAGCTTCCCATTACA
Found at i:14936054 original size:43 final size:43
Alignment explanation
Indices: 14936006--14936125 Score: 154
Period size: 43 Copynumber: 2.8 Consensus size: 43
14935996 TTTTCGAAAA
14936006 GTGTTTTCATGTAAGACCACGTCTGGGACATTGGCATCGA-CTT
1 GTGTTTTCATGTAAGACCACGTCTGGGACATTGGCATCGATC-T
* *
14936049 GTGTTTTCGTGTAAGACC-CTGTCTGGGACAGTGGCATCGATCT
1 GTGTTTTCATGTAAGACCAC-GTCTGGGACATTGGCATCGATCT
* * * *
14936092 GTGATTACATGTAAGACCACGTCTAGGACGTTGG
1 GTGTTTTCATGTAAGACCACGTCTGGGACATTGG
14936126 AATTGTACGA
Statistics
Matches: 66, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
42 1 0.02
43 63 0.95
44 2 0.03
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.31
Consensus pattern (43 bp):
GTGTTTTCATGTAAGACCACGTCTGGGACATTGGCATCGATCT
Found at i:14947207 original size:24 final size:25
Alignment explanation
Indices: 14947147--14947213 Score: 66
Period size: 24 Copynumber: 2.7 Consensus size: 25
14947137 CCCGATATTG
14947147 GCTC-TCATGAGCTTCCCGTTAAATA
1 GCTCTTCA-GAGCTTCCCGTTAAATA
* ** *
14947172 GTTCTTGTGAGCTTCCCGTT-AGTA
1 GCTCTTCAGAGCTTCCCGTTAAATA
*
14947196 GCTCTTCAGAGCATCCCG
1 GCTCTTCAGAGCTTCCCG
14947214 ATTGGTTGTG
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
24 17 0.52
25 15 0.45
26 1 0.03
ACGTcount: A:0.18, C:0.28, G:0.21, T:0.33
Consensus pattern (25 bp):
GCTCTTCAGAGCTTCCCGTTAAATA
Found at i:14947340 original size:25 final size:25
Alignment explanation
Indices: 14947312--14947363 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
14947302 CTCGCTTGAA
14947312 CTTCCCAATATATGGCTATTCGAAG
1 CTTCCCAATATATGGCTATTCGAAG
* * * *
14947337 CTTCCCGATTTATGGTTCTTCGAAG
1 CTTCCCAATATATGGCTATTCGAAG
14947362 CT
1 CT
14947364 ACCTGATATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.21, C:0.25, G:0.17, T:0.37
Consensus pattern (25 bp):
CTTCCCAATATATGGCTATTCGAAG
Found at i:14947458 original size:25 final size:25
Alignment explanation
Indices: 14947430--14947477 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
14947420 TACAGCCTGG
14947430 ATAAGCTTCCCGTTACATGGCTCAC
1 ATAAGCTTCCCGTTACATGGCTCAC
* * *
14947455 ATAAGTTTTCCGTTATATGGCTC
1 ATAAGCTTCCCGTTACATGGCTC
14947478 GAAAGAGCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (25 bp):
ATAAGCTTCCCGTTACATGGCTCAC
Found at i:14948100 original size:30 final size:30
Alignment explanation
Indices: 14948059--14948119 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
14948049 AATGACTTGT
*
14948059 GAAAGATATATTTTGATGTGATTATATATG
1 GAAAGACATATTTTGATGTGATTATATATG
14948089 GAAAGACATATTTTGATGTGATTATATATG
1 GAAAGACATATTTTGATGTGATTATATATG
14948119 G
1 G
14948120 TCTTAATGTG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.36, C:0.02, G:0.21, T:0.41
Consensus pattern (30 bp):
GAAAGACATATTTTGATGTGATTATATATG
Found at i:14950571 original size:19 final size:20
Alignment explanation
Indices: 14950539--14950576 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
14950529 GGGTACTTAG
14950539 AAAATTTTTCCAAAAAAATC
1 AAAATTTTTCCAAAAAAATC
14950559 AAAATTTTT-CAAAAAAAT
1 AAAATTTTTCCAAAAAAAT
14950577 AGGGACGTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.58, C:0.11, G:0.00, T:0.32
Consensus pattern (20 bp):
AAAATTTTTCCAAAAAAATC
Found at i:14952006 original size:21 final size:20
Alignment explanation
Indices: 14951982--14952032 Score: 66
Period size: 22 Copynumber: 2.5 Consensus size: 20
14951972 ATTCATAACA
*
14951982 TATTCAATTCTCATCACTTGC
1 TATTCAAATCTCAT-ACTTGC
*
14952003 TATTTCAAATCTCATATTTGC
1 TA-TTCAAATCTCATACTTGC
14952024 TATTCAAAT
1 TATTCAAAT
14952033 AGCTTTTCAC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 7 0.26
21 9 0.33
22 11 0.41
ACGTcount: A:0.29, C:0.22, G:0.04, T:0.45
Consensus pattern (20 bp):
TATTCAAATCTCATACTTGC
Found at i:14952273 original size:37 final size:40
Alignment explanation
Indices: 14952223--14952328 Score: 130
Period size: 41 Copynumber: 2.7 Consensus size: 40
14952213 TTTGAAGAAA
*
14952223 TAAATTGACACCCAGTGTCTCATCG-GCTAAACCG-A-AG
1 TAAATTGACACCCAGTGTCTCATCGAACTAAACCGAAGAG
* * * *
14952260 TAAATTGGCACCCAGTGCCTCATCGAATTAATCCGAAGTAG
1 TAAATTGACACCCAGTGTCTCATCGAACTAAACCGAAG-AG
14952301 TAAATTGACACCCAGTGTCTCATC-AACT
1 TAAATTGACACCCAGTGTCTCATCGAACT
14952329 TGAAGTCGAA
Statistics
Matches: 57, Mismatches: 8, Indels: 5
0.81 0.11 0.07
Matches are distributed among these distances:
37 23 0.40
38 6 0.11
39 1 0.02
40 3 0.05
41 24 0.42
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (40 bp):
TAAATTGACACCCAGTGTCTCATCGAACTAAACCGAAGAG
Found at i:14953224 original size:17 final size:18
Alignment explanation
Indices: 14953192--14953227 Score: 56
Period size: 17 Copynumber: 2.0 Consensus size: 18
14953182 GAAACCCTAA
14953192 CTTTTTCTCCTTTCTTTCT
1 CTTTTTCT-CTTTCTTTCT
14953211 CTTTTTCT-TTTCTTTCT
1 CTTTTTCTCTTTCTTTCT
14953228 TTCCTTCTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.53
19 8 0.47
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (18 bp):
CTTTTTCTCTTTCTTTCT
Found at i:14953242 original size:21 final size:21
Alignment explanation
Indices: 14953201--14953247 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
14953191 ACTTTTTCTC
*
14953201 CTTTCTTTCTCTTTTTCTTTT
1 CTTTCTTTCTCTTTCTCTTTT
*
14953222 CTTTCTTTC-CTTCTCTGTTTT
1 CTTTCTTTCTCTT-TCTCTTTT
*
14953243 GTTTC
1 CTTTC
14953248 AATTTGGTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 3 0.14
21 19 0.86
ACGTcount: A:0.00, C:0.26, G:0.04, T:0.70
Consensus pattern (21 bp):
CTTTCTTTCTCTTTCTCTTTT
Found at i:14961270 original size:22 final size:20
Alignment explanation
Indices: 14961225--14961262 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
14961215 TCAAATTTTG
14961225 TTTTTATTTAATTTATAATTA
1 TTTTTATTT-ATTTATAATTA
14961246 TTTTTATTT-TTTATAAT
1 TTTTTATTTATTTATAAT
14961263 ATAAATTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 8 0.47
21 9 0.53
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (20 bp):
TTTTTATTTATTTATAATTA
Found at i:14961744 original size:9 final size:10
Alignment explanation
Indices: 14961723--14961748 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
14961713 AGTTATTATA
14961723 TTTTAAAATT
1 TTTTAAAATT
14961733 TTTTAAAATT
1 TTTTAAAATT
14961743 TTTTAA
1 TTTTAA
14961749 TTCAATCATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (10 bp):
TTTTAAAATT
Found at i:14974669 original size:29 final size:30
Alignment explanation
Indices: 14974615--14974671 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
14974605 TTATAACTTT
14974615 ATTTTTAAAAATCTTGTTTATAATTTTATG
1 ATTTTTAAAAATCTTGTTTATAATTTTATG
*
14974645 ATTTTTAAATAAT-TTTTTTA-AATTTTA
1 ATTTTTAAA-AATCTTGTTTATAATTTTA
14974672 AAAGGGCTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 7 0.28
30 15 0.60
31 3 0.12
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.60
Consensus pattern (30 bp):
ATTTTTAAAAATCTTGTTTATAATTTTATG
Found at i:14998172 original size:20 final size:20
Alignment explanation
Indices: 14998147--14998186 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
14998137 AGTTAAACTA
14998147 CTGTTGCTGTCCAAAATTAT
1 CTGTTGCTGTCCAAAATTAT
14998167 CTGTTGCTGTCCAAAATTAT
1 CTGTTGCTGTCCAAAATTAT
14998187 TTTAATGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.20, G:0.15, T:0.40
Consensus pattern (20 bp):
CTGTTGCTGTCCAAAATTAT
Found at i:15008557 original size:23 final size:23
Alignment explanation
Indices: 15008509--15008562 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
15008499 AATTTTGAAT
* *
15008509 TTCGAGTTAATCGAATTGAGTTA
1 TTCGAGTTAATCGAATTAAGTAA
15008532 TTCGAGTTAACTCGAA-TAAGTAA
1 TTCGAGTTAA-TCGAATTAAGTAA
*
15008555 TTCAAGTT
1 TTCGAGTT
15008563 TTGAATTCGA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 22 0.81
24 5 0.19
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (23 bp):
TTCGAGTTAATCGAATTAAGTAA
Found at i:15008690 original size:18 final size:19
Alignment explanation
Indices: 15008669--15008710 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
15008659 TCTCAACCAA
15008669 AATTTAAAAAATT-AAAAT
1 AATTTAAAAAATTCAAAAT
**
15008687 AATTTTTAAAATTCAAAAT
1 AATTTAAAAAATTCAAAAT
15008706 -ATTTA
1 AATTTA
15008711 TAAGAAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (19 bp):
AATTTAAAAAATTCAAAAT
Found at i:15023168 original size:45 final size:45
Alignment explanation
Indices: 15023117--15023541 Score: 346
Period size: 45 Copynumber: 9.5 Consensus size: 45
15023107 TCATGTCAAG
* * * *
15023117 TCTTGTCTTCCTATATTGGGAGCGAAATGGATTGAAGATTGCAGA
1 TCTTGTCTTCCTGTATTGGCAGCGAAGTAGATTGAAGATTGCAGA
* * *
15023162 TCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGGAGATAGCAGA
1 TCTTGTCTTCCTGTATTGGCAGCGAAGTAGATTGAAGATTGCAGA
*** * * * *
15023207 TCTTGTC-TCCT-TGAGCAGCAGTGGAGTAGATCGAAGATAGCA-A
1 TCTTGTCTTCCTGT-ATTGGCAGCGAAGTAGATTGAAGATTGCAGA
* * *
15023250 GTCTTGTCTTCCTGTATTGGCAGCGAAGTAAACTGAATA-TGTCA-A
1 -TCTTGTCTTCCTGTATTGGCAGCGAAGTAGATTGAAGATTG-CAGA
* *
15023295 GTCTTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAAGATAAT-AAG-
1 -TCTTGTCTTCCTGTATTGGCAGCGAAGTAGATTGAAGAT--TGCAGA
* * * * *
15023341 TCTTTTCTTCCTGTATTGGAAGCAAAGTGGACTGAAGATTGCAGA
1 TCTTGTCTTCCTGTATTGGCAGCGAAGTAGATTGAAGATTGCAGA
* * **
15023386 TCTTGTCTTCCTGTATTGGCAGCAAAGTAGATCGAAGATACCAGA
1 TCTTGTCTTCCTGTATTGGCAGCGAAGTAGATTGAAGATTGCAGA
* *** * * * *
15023431 TCTTGTCTCCCTG-AGCAGCAGTGGAGTAGATCGAAGATAGCA-A
1 TCTTGTCTTCCTGTATTGGCAGCGAAGTAGATTGAAGATTGCAGA
* * * *
15023474 GTCTTGTCTTCCTGTATTGGCAGCAAAGTAGACTGAAGATAGTAGA
1 -TCTTGTCTTCCTGTATTGGCAGCGAAGTAGATTGAAGATTGCAGA
* *
15023520 TTTTGTCTTCCTGTACTGGCAG
1 TCTTGTCTTCCTGTATTGGCAG
15023542 TGAAACGGAT
Statistics
Matches: 308, Mismatches: 58, Indels: 28
0.78 0.15 0.07
Matches are distributed among these distances:
43 4 0.01
44 71 0.23
45 229 0.74
46 3 0.01
48 1 0.00
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (45 bp):
TCTTGTCTTCCTGTATTGGCAGCGAAGTAGATTGAAGATTGCAGA
Found at i:15023390 original size:90 final size:89
Alignment explanation
Indices: 15023117--15023541 Score: 334
Period size: 89 Copynumber: 4.7 Consensus size: 89
15023107 TCATGTCAAG
* * * * * *
15023117 TCTTGTCTTCCTATATTGGGAGCGAAATGGATTGAAGAT-TGCAGATCTTGTCTTCCTGTATTGG
1 TCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAT-AAG-TCTTGTCTTCCTGTATTGG
* *
15023181 CAGCGAAGTAGA-TCGGAGATAGCAGA
64 CAGCGAAGTAGACT-GAAGATTGCAGA
*** * * *
15023207 TCTTGTC-TCCT-TGAGCAGCAGTGGAGTAGATCGAAGATAGCAAGTCTTGTCTTCCTGTATTGG
1 TCTTGTCTTCCTGT-ATTGGCAGCGAAGTAGATCGAAGATA-TAAGTCTTGTCTTCCTGTATTGG
* *
15023270 CAGCGAAGTAAACTGAATA-TGTCA-A
64 CAGCGAAGTAGACTGAAGATTG-CAGA
*
15023295 GTCTTGTCTTCCTGTATTGGCAGCGAAGTAGA-CTGAAGATAATAAGTCTTTTCTTCCTGTATTG
1 -TCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC-GAAGAT-ATAAGTCTTGTCTTCCTGTATTG
* * *
15023359 GAAGCAAAGTGGACTGAAGATTGCAGA
63 GCAGCGAAGTAGACTGAAGATTGCAGA
* ** * ***
15023386 TCTTGTCTTCCTGTATTGGCAGCAAAGTAGATCGAAGATACCAGATCTTGTCTCCCTG-AGCAGC
1 TCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATATAAG-TCTTGTCTTCCTGTATTGGC
* * *
15023450 AGTGGAGTAGA-TCGAAGATAGCA-A
65 AGCGAAGTAGACT-GAAGATTGCAGA
* * *
15023474 GTCTTGTCTTCCTGTATTGGCAGCAAAGTAGA-CTGAAGATAGT-AGATTTTGTCTTCCTGTACT
1 -TCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC-GAAGATA-TAAG-TCTTGTCTTCCTGTATT
15023537 GGCAG
62 GGCAG
15023542 TGAAACGGAT
Statistics
Matches: 269, Mismatches: 47, Indels: 38
0.76 0.13 0.11
Matches are distributed among these distances:
88 6 0.02
89 136 0.51
90 121 0.45
91 6 0.02
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (89 bp):
TCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATATAAGTCTTGTCTTCCTGTATTGGCA
GCGAAGTAGACTGAAGATTGCAGA
Found at i:15023502 original size:134 final size:135
Alignment explanation
Indices: 15023231--15023541 Score: 355
Period size: 134 Copynumber: 2.3 Consensus size: 135
15023221 GCAGCAGTGG
* * **
15023231 AGTAGA-TCGAAGATAGCA-AGTCTTGTCTTCCTGTATTGGCAGCGAAGTAAACTGAATATGTCA
1 AGTAGACT-GAAGATAGCAGA-TCTTGTCTTCCTGTATTGGCAGCAAAGTAAACTGAAGATACCA
* *** * *
15023294 AGTCTTGTCTTCCTGTATTGGCAGCGAAGTAGACTGAAGATAATAAGTCTTTTCTTCCTGTATTG
64 AGTCTTGTCTCCCTGTAGCAGCAGCGAAGTAGACTGAAGATAACAAGTCTTGTCTTCCTGTATTG
15023359 GAAGCAA
129 GAAGCAA
* * *
15023366 AGTGGACTGAAGATTGCAGATCTTGTCTTCCTGTATTGGCAGCAAAGTAGA-TCGAAGATACC-A
1 AGTAGACTGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCAAAGTAAACT-GAAGATACCAA
* * *
15023429 GATCTTGTCTCCCTG-AGCAGCAGTGGAGTAGA-TCGAAGATAGCAAGTCTTGTCTTCCTGTATT
65 G-TCTTGTCTCCCTGTAGCAGCAGCGAAGTAGACT-GAAGATAACAAGTCTTGTCTTCCTGTATT
*
15023492 GGCAGCAA
128 GGAAGCAA
* * *
15023500 AGTAGACTGAAGATAGTAGATTTTGTCTTCCTGTACTGGCAG
1 AGTAGACTGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAG
15023542 TGAAACGGAT
Statistics
Matches: 149, Mismatches: 22, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
133 1 0.01
134 85 0.57
135 61 0.41
136 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (135 bp):
AGTAGACTGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCAAAGTAAACTGAAGATACCAAG
TCTTGTCTCCCTGTAGCAGCAGCGAAGTAGACTGAAGATAACAAGTCTTGTCTTCCTGTATTGGA
AGCAA
Found at i:15023528 original size:224 final size:224
Alignment explanation
Indices: 15023114--15023541 Score: 691
Period size: 224 Copynumber: 1.9 Consensus size: 224
15023104 TCATCATGTC
* *
15023114 AAGTCTTGTCTTCCTATATTGGGAGCGAAATGGATTGAAGATTGCAGATCTTGTCTTCCTGTATT
1 AAGTCTTGTCTTCCTATATTGGAAGCGAAATGGACTGAAGATTGCAGATCTTGTCTTCCTGTATT
* * * *
15023179 GGCAGCGAAGTAGATCGGAGATAGCAGATCTTGTCTCCTTGAGCAGCAGTGGAGTAGATCGAAGA
66 GGCAGCAAAGTAGATCGAAGATACCAGATCTTGTCTCCCTGAGCAGCAGTGGAGTAGATCGAAGA
* *
15023244 TAGCAAGTCTTGTCTTCCTGTATTGGCAGCGAAGTAAACTGAATATGTCAAGTCTTGTCTTCCTG
131 TAGCAAGTCTTGTCTTCCTGTATTGGCAGCAAAGTAAACTGAAGATGTCAAGTCTTGTCTTCCTG
*
15023309 TATTGGCAGCGAAGTAGACTGAAGATAAT
196 TACTGGCAGCGAAGTAGACTGAAGATAAT
* *
15023338 AAGTCTTTTCTTCCTGTATTGGAAGC-AAAGTGGACTGAAGATTGCAGATCTTGTCTTCCTGTAT
1 AAGTCTTGTCTTCCTATATTGGAAGCGAAA-TGGACTGAAGATTGCAGATCTTGTCTTCCTGTAT
15023402 TGGCAGCAAAGTAGATCGAAGATACCAGATCTTGTCTCCCTGAGCAGCAGTGGAGTAGATCGAAG
65 TGGCAGCAAAGTAGATCGAAGATACCAGATCTTGTCTCCCTGAGCAGCAGTGGAGTAGATCGAAG
* *
15023467 ATAGCAAGTCTTGTCTTCCTGTATTGGCAGCAAAGTAGACTGAAGATAGT--AGATTTTGTCTTC
130 ATAGCAAGTCTTGTCTTCCTGTATTGGCAGCAAAGTAAACTGAAGAT-GTCAAG-TCTTGTCTTC
15023530 CTGTACTGGCAG
193 CTGTACTGGCAG
15023542 TGAAACGGAT
Statistics
Matches: 188, Mismatches: 13, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
223 5 0.03
224 181 0.96
225 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (224 bp):
AAGTCTTGTCTTCCTATATTGGAAGCGAAATGGACTGAAGATTGCAGATCTTGTCTTCCTGTATT
GGCAGCAAAGTAGATCGAAGATACCAGATCTTGTCTCCCTGAGCAGCAGTGGAGTAGATCGAAGA
TAGCAAGTCTTGTCTTCCTGTATTGGCAGCAAAGTAAACTGAAGATGTCAAGTCTTGTCTTCCTG
TACTGGCAGCGAAGTAGACTGAAGATAAT
Found at i:15029060 original size:8 final size:8
Alignment explanation
Indices: 15029047--15029073 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
15029037 AGGGGACTAG
15029047 ATTATGAA
1 ATTATGAA
15029055 ATTATGAA
1 ATTATGAA
15029063 ATTATGAA
1 ATTATGAA
15029071 ATT
1 ATT
15029074 TGTAAAGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (8 bp):
ATTATGAA
Found at i:15032196 original size:20 final size:20
Alignment explanation
Indices: 15032173--15032214 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
15032163 ATAGTTTATA
* * *
15032173 TTTATTTTTTAAGATTTTTG
1 TTTAGTTTTTAAAATTATTG
15032193 TTTAGTTTTTAAAATTATTG
1 TTTAGTTTTTAAAATTATTG
15032213 TT
1 TT
15032215 AAGAAAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.24, C:0.00, G:0.10, T:0.67
Consensus pattern (20 bp):
TTTAGTTTTTAAAATTATTG
Found at i:15053626 original size:24 final size:24
Alignment explanation
Indices: 15053599--15053646 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
15053589 AATTTCAATG
*
15053599 TATATATTTTGTATTTTTTTCCTT
1 TATATATTTTGTATTTATTTCCTT
* * *
15053623 TATATTTTTTTTGTTTATTTCCTT
1 TATATATTTTGTATTTATTTCCTT
15053647 CATTTGTTTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.15, C:0.08, G:0.04, T:0.73
Consensus pattern (24 bp):
TATATATTTTGTATTTATTTCCTT
Found at i:15055107 original size:36 final size:36
Alignment explanation
Indices: 15055024--15055095 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
15055014 GTCACCCGAG
15055024 TAGGTACTTTATTCATTTTCTTTTACTTTGTACTAA
1 TAGGTACTTTATTCATTTTCTTTTACTTTGTACTAA
15055060 TAGGTACTTTATTCATTTTCTTTTACTTTGTACTAA
1 TAGGTACTTTATTCATTTTCTTTTACTTTGTACTAA
15055096 CTTGTTTTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.22, C:0.14, G:0.08, T:0.56
Consensus pattern (36 bp):
TAGGTACTTTATTCATTTTCTTTTACTTTGTACTAA
Found at i:15059404 original size:25 final size:22
Alignment explanation
Indices: 15059358--15059404 Score: 58
Period size: 25 Copynumber: 2.0 Consensus size: 22
15059348 TTGAAAGTTA
*
15059358 AAAATATTTTTATAAAATATTT
1 AAAATATTTTTATAAAAAATTT
15059380 AAAATATGTTTTAGATAAAAAATTT
1 AAAATAT-TTTT--ATAAAAAATTT
15059405 CAATTTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 7 0.33
23 4 0.19
25 10 0.48
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (22 bp):
AAAATATTTTTATAAAAAATTT
Found at i:15071301 original size:3 final size:3
Alignment explanation
Indices: 15071295--15071342 Score: 60
Period size: 3 Copynumber: 15.3 Consensus size: 3
15071285 AAAAAAAAAA
* *
15071295 AAG AAG AAG AAG AAG AAAG AAA AAG AAG AAA AAG AAG AAAG AAG AAG
1 AAG AAG AAG AAG AAG -AAG AAG AAG AAG AAG AAG AAG -AAG AAG AAG
15071342 A
1 A
15071343 GGTCTCACTT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
3 33 0.85
4 6 0.15
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:15071315 original size:16 final size:16
Alignment explanation
Indices: 15071294--15071342 Score: 73
Period size: 16 Copynumber: 3.1 Consensus size: 16
15071284 AAAAAAAAAA
15071294 AAAGAAGAAGAAGAAG
1 AAAGAAGAAGAAGAAG
*
15071310 AAAGAAAAAGAAGAA-
1 AAAGAAGAAGAAGAAG
15071325 AAAGAAGAAAGAAGAAG
1 AAAGAAG-AAGAAGAAG
15071342 A
1 A
15071343 GGTCTCACTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 6 0.21
16 22 0.76
17 1 0.03
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (16 bp):
AAAGAAGAAGAAGAAG
Found at i:15071320 original size:22 final size:22
Alignment explanation
Indices: 15071292--15071342 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
15071282 GCAAAAAAAA
*
15071292 AAAAAGAAGAAGAAGAAGAAAG
1 AAAAAGAAGAAAAAGAAGAAAG
15071314 AAAAAGAAGAAAAAGAAGAAAG
1 AAAAAGAAGAAAAAGAAGAAAG
*
15071336 AAGAAGA
1 AAAAAGA
15071343 GGTCTCACTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (22 bp):
AAAAAGAAGAAAAAGAAGAAAG
Found at i:15071342 original size:13 final size:13
Alignment explanation
Indices: 15071298--15071342 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
15071288 AAAAAAAAAG
15071298 AAGAAGAAGAAGA
1 AAGAAGAAGAAGA
*
15071311 AAGAAAAAGAAGA
1 AAGAAGAAGAAGA
15071324 AA-AAGAAGAA-A
1 AAGAAGAAGAAGA
15071335 GAAGAAGA
1 -AAGAAGA
15071343 GGTCTCACTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 1 0.04
12 9 0.32
13 18 0.64
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (13 bp):
AAGAAGAAGAAGA
Found at i:15074812 original size:36 final size:37
Alignment explanation
Indices: 15074758--15074831 Score: 105
Period size: 36 Copynumber: 2.0 Consensus size: 37
15074748 ATCCTGCAGA
*
15074758 CTAGATAAAACCACTAAAATGCGAGT-AAATGCAATG
1 CTAGATAAAACCACTAAAAAGCGAGTAAAATGCAATG
** *
15074794 CTAGATAAAAGTATTAAAAAGCGAGTAAAATGCAATG
1 CTAGATAAAACCACTAAAAAGCGAGTAAAATGCAATG
15074831 C
1 C
15074832 AGAAACTATA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
36 22 0.67
37 11 0.33
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.20
Consensus pattern (37 bp):
CTAGATAAAACCACTAAAAAGCGAGTAAAATGCAATG
Found at i:15080633 original size:32 final size:32
Alignment explanation
Indices: 15080567--15080634 Score: 86
Period size: 32 Copynumber: 2.1 Consensus size: 32
15080557 CAGAATTAGA
* *
15080567 AACTTATGTTCAGATTTCATATTACATAATAG
1 AACTTATGTTCAGATTTCATAGTACATAAAAG
15080599 AACTTATGTTTCAGATTTCA-AGTAGC-TAAAAG
1 AACTTATG-TTCAGATTTCATAGTA-CATAAAAG
15080631 AACT
1 AACT
15080635 AGGGGTGTGC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
32 20 0.62
33 12 0.38
ACGTcount: A:0.38, C:0.13, G:0.12, T:0.37
Consensus pattern (32 bp):
AACTTATGTTCAGATTTCATAGTACATAAAAG
Found at i:15080845 original size:9 final size:9
Alignment explanation
Indices: 15080831--15080914 Score: 125
Period size: 9 Copynumber: 9.4 Consensus size: 9
15080821 TGGTTAAAAA
15080831 TTAACCGAT
1 TTAACCGAT
*
15080840 TTAACCTAT
1 TTAACCGAT
15080849 TTAACCGA-
1 TTAACCGAT
*
15080857 TTAACCGAC
1 TTAACCGAT
15080866 TTAACCGAT
1 TTAACCGAT
15080875 TTAACCGAT
1 TTAACCGAT
15080884 TTAACCGAT
1 TTAACCGAT
* *
15080893 TTAACCAAC
1 TTAACCGAT
15080902 TTAACCGAT
1 TTAACCGAT
15080911 TTAA
1 TTAA
15080915 ATCACTATAT
Statistics
Matches: 67, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
8 8 0.12
9 59 0.88
ACGTcount: A:0.36, C:0.24, G:0.08, T:0.32
Consensus pattern (9 bp):
TTAACCGAT
Found at i:15080877 original size:35 final size:36
Alignment explanation
Indices: 15080831--15080914 Score: 143
Period size: 35 Copynumber: 2.4 Consensus size: 36
15080821 TGGTTAAAAA
* *
15080831 TTAACCGATTTAACCTATTTAACCGA-TTAACCGAC
1 TTAACCGATTTAACCGATTTAACCGATTTAACCAAC
15080866 TTAACCGATTTAACCGATTTAACCGATTTAACCAAC
1 TTAACCGATTTAACCGATTTAACCGATTTAACCAAC
15080902 TTAACCGATTTAA
1 TTAACCGATTTAA
15080915 ATCACTATAT
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
35 25 0.54
36 21 0.46
ACGTcount: A:0.36, C:0.24, G:0.08, T:0.32
Consensus pattern (36 bp):
TTAACCGATTTAACCGATTTAACCGATTTAACCAAC
Found at i:15081037 original size:37 final size:37
Alignment explanation
Indices: 15080914--15081023 Score: 166
Period size: 37 Copynumber: 3.0 Consensus size: 37
15080904 AACCGATTTA
* *
15080914 AATCACTATATAATTAAAAAAATTACATAAGTCTTTG
1 AATCACTAAATAATTAAAAACATTACATAAGTCTTTG
* * * *
15080951 AATCACTACATAACTAAAAACATTACATAAATTTTTG
1 AATCACTAAATAATTAAAAACATTACATAAGTCTTTG
15080988 AATCACTAAATAATTAAAAACATTACATAAGTCTTT
1 AATCACTAAATAATTAAAAACATTACATAAGTCTTT
15081024 AACACATAAA
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.49, C:0.14, G:0.04, T:0.34
Consensus pattern (37 bp):
AATCACTAAATAATTAAAAACATTACATAAGTCTTTG
Found at i:15081277 original size:7 final size:7
Alignment explanation
Indices: 15081265--15081323 Score: 73
Period size: 7 Copynumber: 8.3 Consensus size: 7
15081255 GTACAGAAGA
15081265 AAACATG
1 AAACATG
15081272 AAACATG
1 AAACATG
* **
15081279 CAGTATG
1 AAACATG
15081286 AAACATG
1 AAACATG
*
15081293 AAATCGTG
1 AAA-CATG
15081301 AAACATG
1 AAACATG
15081308 AAACATG
1 AAACATG
15081315 AAACATG
1 AAACATG
15081322 AA
1 AA
15081324 TTGTTCTTGG
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
7 37 0.86
8 6 0.14
ACGTcount: A:0.53, C:0.14, G:0.17, T:0.17
Consensus pattern (7 bp):
AAACATG
Found at i:15081344 original size:13 final size:13
Alignment explanation
Indices: 15081326--15081352 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
15081316 AACATGAATT
15081326 GTTCTTGGGCTTA
1 GTTCTTGGGCTTA
15081339 GTTCTTGGGCTTA
1 GTTCTTGGGCTTA
15081352 G
1 G
15081353 AGCCTGGAGG
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:0.15, G:0.33, T:0.44
Consensus pattern (13 bp):
GTTCTTGGGCTTA
Found at i:15087731 original size:29 final size:30
Alignment explanation
Indices: 15087688--15087744 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 30
15087678 GGTATGACCC
*
15087688 TATAAGATATTGTAACATTAGC-AATAATTT
1 TATAACATATTGTAACATTA-CAAATAATTT
*
15087718 TATAACAT-TTGTAATATTACAAATAAT
1 TATAACATATTGTAACATTACAAATAAT
15087745 GAGCGGACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 1 0.04
29 16 0.67
30 7 0.29
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.40
Consensus pattern (30 bp):
TATAACATATTGTAACATTACAAATAATTT
Found at i:15090401 original size:48 final size:48
Alignment explanation
Indices: 15090330--15090424 Score: 172
Period size: 48 Copynumber: 2.0 Consensus size: 48
15090320 TTCTTTGCTT
*
15090330 AAAAACGCCTAAGTCAGCCTAACTCGCAATGATAAAGGATTCAACAGC
1 AAAAACGCCTAAGTCAGCCTAACTCGCAATGATAAAGAATTCAACAGC
*
15090378 AAAAACGCCTAAGTCAGCCTAACTTGCAATGATAAAGAATTCAACAG
1 AAAAACGCCTAAGTCAGCCTAACTCGCAATGATAAAGAATTCAACAG
15090425 AATTCCTTCA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.43, C:0.23, G:0.16, T:0.18
Consensus pattern (48 bp):
AAAAACGCCTAAGTCAGCCTAACTCGCAATGATAAAGAATTCAACAGC
Found at i:15090669 original size:36 final size:36
Alignment explanation
Indices: 15090629--15090699 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
15090619 ATCAAAGGCT
*
15090629 ACAATTAAAAGTTGTATACAATTAGAACTCTAAGAC
1 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGAC
*
15090665 ACAATTAGAAGCTGTATACAATTAGAACTCTAAGA
1 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGA
15090700 TTACATAATC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.46, C:0.14, G:0.13, T:0.27
Consensus pattern (36 bp):
ACAATTAAAAGCTGTATACAATTAGAACTCTAAGAC
Found at i:15090670 original size:19 final size:19
Alignment explanation
Indices: 15090646--15090699 Score: 60
Period size: 17 Copynumber: 2.9 Consensus size: 19
15090636 AAAGTTGTAT
15090646 ACAATTAGAACTCTAAGAC
1 ACAATTAGAACTCTAAGAC
* *
15090665 ACAATTAGAA-GCT--GTAT
1 ACAATTAGAACTCTAAG-AC
15090682 ACAATTAGAACTCTAAGA
1 ACAATTAGAACTCTAAGA
15090700 TTACATAATC
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
16 1 0.04
17 11 0.39
18 4 0.14
19 11 0.39
20 1 0.04
ACGTcount: A:0.46, C:0.17, G:0.13, T:0.24
Consensus pattern (19 bp):
ACAATTAGAACTCTAAGAC
Found at i:15090687 original size:17 final size:17
Alignment explanation
Indices: 15090628--15090691 Score: 58
Period size: 17 Copynumber: 3.6 Consensus size: 17
15090618 CATCAAAGGC
* *
15090628 TACAATTAAAAGTTGTA
1 TACAATTAGAAGCTGTA
*
15090645 TACAATTAGAA-CTCTAAGA
1 TACAATTAGAAGCTGT---A
*
15090664 CACAATTAGAAGCTGTA
1 TACAATTAGAAGCTGTA
15090681 TACAATTAGAA
1 TACAATTAGAA
15090692 CTCTAAGATT
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
16 2 0.05
17 21 0.57
19 11 0.30
20 3 0.08
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.28
Consensus pattern (17 bp):
TACAATTAGAAGCTGTA
Found at i:15095770 original size:17 final size:17
Alignment explanation
Indices: 15095748--15095811 Score: 67
Period size: 17 Copynumber: 3.6 Consensus size: 17
15095738 CATCATAGGC
*
15095748 TACAATTAAAAGCTGTA
1 TACAATTAGAAGCTGTA
*
15095765 TACAATTAGAA-CTCTAAGA
1 TACAATTAGAAGCTGT---A
*
15095784 CACAATTAGAAGCTGTA
1 TACAATTAGAAGCTGTA
15095801 TACAATTAGAA
1 TACAATTAGAA
15095812 CTCTAAGATT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
16 3 0.08
17 21 0.55
19 11 0.29
20 3 0.08
ACGTcount: A:0.47, C:0.14, G:0.12, T:0.27
Consensus pattern (17 bp):
TACAATTAGAAGCTGTA
Found at i:15095790 original size:19 final size:19
Alignment explanation
Indices: 15095766--15095819 Score: 60
Period size: 17 Copynumber: 2.9 Consensus size: 19
15095756 AAAGCTGTAT
15095766 ACAATTAGAACTCTAAGAC
1 ACAATTAGAACTCTAAGAC
* *
15095785 ACAATTAGAA-GCT--GTAT
1 ACAATTAGAACTCTAAG-AC
15095802 ACAATTAGAACTCTAAGA
1 ACAATTAGAACTCTAAGA
15095820 TTACATAATC
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
16 1 0.04
17 11 0.39
18 4 0.14
19 11 0.39
20 1 0.04
ACGTcount: A:0.46, C:0.17, G:0.13, T:0.24
Consensus pattern (19 bp):
ACAATTAGAACTCTAAGAC
Found at i:15095797 original size:36 final size:36
Alignment explanation
Indices: 15095749--15095819 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
15095739 ATCATAGGCT
15095749 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGAC
1 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGAC
*
15095785 ACAATTAGAAGCTGTATACAATTAGAACTCTAAGA
1 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGA
15095820 TTACATAATC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.46, C:0.15, G:0.13, T:0.25
Consensus pattern (36 bp):
ACAATTAAAAGCTGTATACAATTAGAACTCTAAGAC
Found at i:15096591 original size:28 final size:28
Alignment explanation
Indices: 15096559--15096614 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
15096549 TTATAGCGGC
15096559 CCATAC-A-TTTCACAATTTCACACATTTA
1 CCATACAATTTTCAC-ATTTCACA-ATTTA
*
15096587 CCATACAATTTTCACATTTCTCAATTTA
1 CCATACAATTTTCACATTTCACAATTTA
15096615 ATCCCTAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 11 0.44
29 8 0.32
30 6 0.24
ACGTcount: A:0.34, C:0.27, G:0.00, T:0.39
Consensus pattern (28 bp):
CCATACAATTTTCACATTTCACAATTTA
Found at i:15105108 original size:26 final size:26
Alignment explanation
Indices: 15105056--15105108 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
15105046 TACAATTGGT
* *
15105056 TCTTTGTGAATGGTAAAATTACCTTA
1 TCTTTATGAATGGTAAAATTAACTTA
*
15105082 TCTTTATGAATGGTAAAATTAAGTTA
1 TCTTTATGAATGGTAAAATTAACTTA
15105108 T
1 T
15105109 GAAGTTGCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.34, C:0.08, G:0.15, T:0.43
Consensus pattern (26 bp):
TCTTTATGAATGGTAAAATTAACTTA
Found at i:15105516 original size:9 final size:9
Alignment explanation
Indices: 15105502--15105566 Score: 85
Period size: 9 Copynumber: 7.2 Consensus size: 9
15105492 TTTGGTTAAA
15105502 AATTACCCG
1 AATTACCCG
15105511 AATTACCCG
1 AATTACCCG
15105520 AATTACCCG
1 AATTACCCG
*
15105529 AATTACCTG
1 AATTACCCG
*
15105538 AATTAACCG
1 AATTACCCG
* *
15105547 AATTAACAG
1 AATTACCCG
*
15105556 AATTAACCG
1 AATTACCCG
15105565 AA
1 AA
15105567 AAATACCCGA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 51 1.00
ACGTcount: A:0.42, C:0.25, G:0.11, T:0.23
Consensus pattern (9 bp):
AATTACCCG
Found at i:15110357 original size:70 final size:70
Alignment explanation
Indices: 15110233--15110422 Score: 213
Period size: 70 Copynumber: 2.7 Consensus size: 70
15110223 ATTATGGGCT
* * * * *
15110233 CACATGCCCGTGTGGGCCCACACGCCTAGA-TTGGCCTTGCCCGTGTGGCCTACACGGCCTGGCC
1 CACACGCCCGTGT-GCCCCACACGCCCA-ACTTGGCCTAGCCCGTGTGGCCTACACCGCCTGGCC
*
15110297 AAAAAGA
64 AAAAACA
* * * *
15110304 CACACGCCCGTGTAG-CCCACATGCCCAACTTGGCCTAACCCGTGTGGCTTACACCGCCTGGCCC
1 CACACGCCCGTGT-GCCCCACACGCCCAACTTGGCCTAGCCCGTGTGGCCTACACCGCCTGGCCA
*
15110368 AAAACC
65 AAAACA
* * *
15110374 CACACGCCCTTGTGCCCCACACGCCCAACTTAGCCTAGCCCATGTGGCC
1 CACACGCCCGTGTGCCCCACACGCCCAACTTGGCCTAGCCCGTGTGGCC
15110423 CATACGGCCA
Statistics
Matches: 100, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
69 2 0.02
70 85 0.85
71 13 0.13
ACGTcount: A:0.20, C:0.41, G:0.23, T:0.16
Consensus pattern (70 bp):
CACACGCCCGTGTGCCCCACACGCCCAACTTGGCCTAGCCCGTGTGGCCTACACCGCCTGGCCAA
AAACA
Found at i:15119026 original size:13 final size:13
Alignment explanation
Indices: 15119008--15119032 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15118998 CACCCCAATC
15119008 ACAGATACAGAAT
1 ACAGATACAGAAT
15119021 ACAGATACAGAA
1 ACAGATACAGAA
15119033 AAAACAAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.16, G:0.16, T:0.12
Consensus pattern (13 bp):
ACAGATACAGAAT
Found at i:15120279 original size:15 final size:15
Alignment explanation
Indices: 15120259--15120314 Score: 67
Period size: 15 Copynumber: 3.7 Consensus size: 15
15120249 TCAGACAACC
15120259 GTGTCTGATAGTGAT
1 GTGTCTGATAGTGAT
*
15120274 GTGTCTGGTAGTGAT
1 GTGTCTGATAGTGAT
** *
15120289 GCATCTGAAAGTGAT
1 GTGTCTGATAGTGAT
*
15120304 GTGTCTAATAG
1 GTGTCTGATAG
15120315 GATAAGAGTT
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
15 32 1.00
ACGTcount: A:0.23, C:0.09, G:0.32, T:0.36
Consensus pattern (15 bp):
GTGTCTGATAGTGAT
Found at i:15125673 original size:21 final size:21
Alignment explanation
Indices: 15125647--15125714 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 21
15125637 CAAGTGGTTG
15125647 CCCCAACTTAGCAACAGGCTA
1 CCCCAACTTAGCAACAGGCTA
* * *
15125668 CCCCAAATCAGCAAGAGAG-TA
1 CCCCAACTTAGCAACAG-GCTA
*
15125689 CCCCAAC-T--CAACAGGCTG
1 CCCCAACTTAGCAACAGGCTA
15125707 CCCCAACT
1 CCCCAACT
15125715 CAGTTACAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
17 1 0.03
18 13 0.35
21 22 0.59
22 1 0.03
ACGTcount: A:0.34, C:0.40, G:0.15, T:0.12
Consensus pattern (21 bp):
CCCCAACTTAGCAACAGGCTA
Found at i:15134238 original size:5 final size:5
Alignment explanation
Indices: 15134230--15134255 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
15134220 GAATGGAATG
15134230 ATATT ATATT ATATT ATATT ATATT A
1 ATATT ATATT ATATT ATATT ATATT A
15134256 AAAAAACAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
ATATT
Found at i:15141120 original size:32 final size:32
Alignment explanation
Indices: 15141082--15141144 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
15141072 ATTAATCAGT
* *
15141082 ATGAGTTATCAAATTAAATTAATTAATTTATC
1 ATGAGTTATCAAATTAAAGTAATAAATTTATC
* *
15141114 ATGAGTTATTAAATTCAAGTAATAAATTTAT
1 ATGAGTTATCAAATTAAAGTAATAAATTTAT
15141145 AAGATTATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.44, C:0.05, G:0.08, T:0.43
Consensus pattern (32 bp):
ATGAGTTATCAAATTAAAGTAATAAATTTATC
Found at i:15142806 original size:27 final size:25
Alignment explanation
Indices: 15142756--15142807 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 25
15142746 ATTGCATATT
*
15142756 TAAAAATTAATTAAAATAAAAAATC
1 TAAAAATTAATAAAAATAAAAAATC
*
15142781 TAAATAATTGAATAAAAATAAGAAATC
1 TAAA-AATT-AATAAAAATAAAAAATC
15142808 ACCATTTCGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 4 0.17
26 4 0.17
27 15 0.65
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.27
Consensus pattern (25 bp):
TAAAAATTAATAAAAATAAAAAATC
Found at i:15152262 original size:40 final size:40
Alignment explanation
Indices: 15152208--15152309 Score: 116
Period size: 40 Copynumber: 2.5 Consensus size: 40
15152198 CGTTTGGAGC
* * *
15152208 AAAAACGCTGCTAAA-AATCGAGAAATAGCAGCGTTTTAGG
1 AAAAGCGCCGCTAAAGAAT-GAGAAATAGCAGCGTTTAAGG
* * * *
15152248 AAAAGCGCCGCTAAAGAGTGAGCATTAGCGGCGTTTAAGG
1 AAAAGCGCCGCTAAAGAATGAGAAATAGCAGCGTTTAAGG
*
15152288 AAAAGCGCCGCTAAAGAGTGAG
1 AAAAGCGCCGCTAAAGAATGAG
15152310 CGTTAGCGGC
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
40 52 0.96
41 2 0.04
ACGTcount: A:0.38, C:0.17, G:0.28, T:0.17
Consensus pattern (40 bp):
AAAAGCGCCGCTAAAGAATGAGAAATAGCAGCGTTTAAGG
Found at i:15152310 original size:40 final size:40
Alignment explanation
Indices: 15152233--15152324 Score: 157
Period size: 40 Copynumber: 2.3 Consensus size: 40
15152223 AATCGAGAAA
* *
15152233 TAGCAGCGTTTTAGGAAAAGCGCCGCTAAAGAGTGAGCAT
1 TAGCGGCGTTTAAGGAAAAGCGCCGCTAAAGAGTGAGCAT
*
15152273 TAGCGGCGTTTAAGGAAAAGCGCCGCTAAAGAGTGAGCGT
1 TAGCGGCGTTTAAGGAAAAGCGCCGCTAAAGAGTGAGCAT
15152313 TAGCGGCGTTTA
1 TAGCGGCGTTTA
15152325 TAAAAAACGC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.29, C:0.17, G:0.33, T:0.21
Consensus pattern (40 bp):
TAGCGGCGTTTAAGGAAAAGCGCCGCTAAAGAGTGAGCAT
Found at i:15152466 original size:40 final size:41
Alignment explanation
Indices: 15152383--15152479 Score: 124
Period size: 41 Copynumber: 2.4 Consensus size: 41
15152373 TTCGGGGGAA
*
15152383 TTAGTGGCGTTTTTTGTAAAGCGCCGCTAAGGCTAAGACTT
1 TTAGTGGCGTTTTTTGAAAAGCGCCGCTAAGGCTAAGACTT
* * * **
15152424 TTAGTGGCGTTTTTTGAAAATCGCCGCTAA-TCTAGGTGTT
1 TTAGTGGCGTTTTTTGAAAAGCGCCGCTAAGGCTAAGACTT
*
15152464 TTAGCGGCGTTTTTTG
1 TTAGTGGCGTTTTTTG
15152480 TTTATGCGCC
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
40 21 0.43
41 28 0.57
ACGTcount: A:0.19, C:0.15, G:0.27, T:0.39
Consensus pattern (41 bp):
TTAGTGGCGTTTTTTGAAAAGCGCCGCTAAGGCTAAGACTT
Found at i:15153194 original size:22 final size:21
Alignment explanation
Indices: 15153142--15153197 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 21
15153132 AGTTAGCTAG
15153142 GGGTTTAGGGGTTACAAGTTA
1 GGGTTTAGGGGTTACAAGTTA
* *
15153163 CGATTTAGGGGTTA-AAGATTTA
1 GGGTTTAGGGGTTACAAG--TTA
15153185 GGGTTTAGGGGTT
1 GGGTTTAGGGGTT
15153198 TAGGAGTCAG
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 3 0.10
21 12 0.41
22 14 0.48
ACGTcount: A:0.23, C:0.04, G:0.38, T:0.36
Consensus pattern (21 bp):
GGGTTTAGGGGTTACAAGTTA
Found at i:15156275 original size:21 final size:21
Alignment explanation
Indices: 15156249--15156319 Score: 106
Period size: 21 Copynumber: 3.4 Consensus size: 21
15156239 CTACAACTTA
*
15156249 AAGCAGAGGCGGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
*
15156270 AAGCAGCGGCTGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* *
15156291 AAGCGGAGGCTGCAGCGAGAG
1 AAGCAGAGGCTGCAGCGAGGG
15156312 AAGCAGAG
1 AAGCAGAG
15156320 CAGGCCAAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.30, C:0.20, G:0.48, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGGG
Found at i:15156678 original size:42 final size:42
Alignment explanation
Indices: 15156632--15156857 Score: 218
Period size: 42 Copynumber: 5.4 Consensus size: 42
15156622 GGAGTTTTTG
* * * * *
15156632 CATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCTCTAAAGAC
1 CATGGTCTTTAGCGGCGCTTTGATAAAAACGCCGCTAAAGAA
*
15156674 CATGTTCTTTAGCGGCGCTTTGATAAAAACGCCGCTAAAGAA
1 CATGGTCTTTAGCGGCGCTTTGATAAAAACGCCGCTAAAGAA
* * ** * ** *
15156716 CATGGTCTTTCGTGGCATTTTTACCAAAGCGCCGCTAAAGAA
1 CATGGTCTTTAGCGGCGCTTTGATAAAAACGCCGCTAAAGAA
* * * * *
15156758 CATGGTCTTTAGCGGCGTTTTTATCAAAGCGCCTCTAAAGAA
1 CATGGTCTTTAGCGGCGCTTTGATAAAAACGCCGCTAAAGAA
* ** ** *
15156800 CATGGTCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAA
1 CATGGTCTTTAGCGGCGCTTTGATAAAAACGCCGCTAAAGAA
*
15156842 TATGGTCTTTAGCGGC
1 CATGGTCTTTAGCGGC
15156858 ATTTTTTTAA
Statistics
Matches: 162, Mismatches: 22, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 162 1.00
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (42 bp):
CATGGTCTTTAGCGGCGCTTTGATAAAAACGCCGCTAAAGAA
Found at i:15156865 original size:42 final size:42
Alignment explanation
Indices: 15156661--15156863 Score: 253
Period size: 42 Copynumber: 4.8 Consensus size: 42
15156651 TAGAAAAAAA
* * * ** * * *
15156661 CGCCTCTAAAGACCATGTTCTTTAGCGGCGCTTTGATAAAAA
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCATTTTTATCAAAG
* * *
15156703 CGCCGCTAAAGAACATGGTCTTTCGTGGCATTTTTACCAAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCATTTTTATCAAAG
*
15156745 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTATCAAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCATTTTTATCAAAG
* * * *
15156787 CGCCTCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCATTTTTATCAAAG
*
15156829 CGCCGCTAAAGAATATGGTCTTTAGCGGCATTTTT
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCATTTTT
15156864 TTAAACGCTG
Statistics
Matches: 140, Mismatches: 21, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 140 1.00
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (42 bp):
CGCCGCTAAAGAACATGGTCTTTAGCGGCATTTTTATCAAAG
Found at i:15165466 original size:3 final size:3
Alignment explanation
Indices: 15165448--15165491 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
15165438 ATATAATGAG
* * * *
15165448 AAT AAC AAT GAT AAT AAT AAT AAT AAT AAT AAT AGT AAC AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
15165492 AATTGCTAAA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.64, C:0.05, G:0.05, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:15166237 original size:10 final size:9
Alignment explanation
Indices: 15166214--15166265 Score: 50
Period size: 9 Copynumber: 5.3 Consensus size: 9
15166204 AAGATTGTAT
*
15166214 AAAAACAAA
1 AAAAATAAA
15166223 AAAAATAAA
1 AAAAATAAA
15166232 ATAAAATAAA
1 A-AAAATAAA
15166242 AGGAAAATAAA
1 A--AAAATAAA
*
15166253 GAAAATACAA
1 AAAAATA-AA
15166263 AAA
1 AAA
15166266 CGCAAGAACA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
9 15 0.42
10 13 0.36
11 8 0.22
ACGTcount: A:0.81, C:0.04, G:0.06, T:0.10
Consensus pattern (9 bp):
AAAAATAAA
Found at i:15172037 original size:25 final size:25
Alignment explanation
Indices: 15172009--15172062 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
15171999 GGCTTCCCAA
* *
15172009 ATAATACACTACATAGGCTTT-TCAG
1 ATAATACACCACAAAGGCTTTAT-AG
*
15172034 ATAATTCACCACAAAGGCTTTATAG
1 ATAATACACCACAAAGGCTTTATAG
15172059 ATAA
1 ATAA
15172063 CTTGTCACAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 24 0.96
26 1 0.04
ACGTcount: A:0.41, C:0.19, G:0.11, T:0.30
Consensus pattern (25 bp):
ATAATACACCACAAAGGCTTTATAG
Found at i:15172071 original size:25 final size:25
Alignment explanation
Indices: 15172042--15172128 Score: 138
Period size: 25 Copynumber: 3.5 Consensus size: 25
15172032 AGATAATTCA
* *
15172042 CCACAAAGGCTTTATAGATAACTTG
1 CCACAAAGGCTTTACAAATAACTTG
*
15172067 TCACAAAGGCTTTACAAATAACTTG
1 CCACAAAGGCTTTACAAATAACTTG
*
15172092 CCACAAAGACTTTACAAATAACTTG
1 CCACAAAGGCTTTACAAATAACTTG
15172117 CCACAAAGGCTT
1 CCACAAAGGCTT
15172129 CGGTTTGGTT
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 56 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.25
Consensus pattern (25 bp):
CCACAAAGGCTTTACAAATAACTTG
Found at i:15172077 original size:50 final size:50
Alignment explanation
Indices: 15172023--15172128 Score: 133
Period size: 50 Copynumber: 2.1 Consensus size: 50
15172013 TACACTACAT
* * * * * *
15172023 AGGCTTTTCAGATAA-TTCACCACAAAGGCTTTATAGATAACTTGTCACAA
1 AGGCTTTACAAATAACTT-ACCACAAAGACTTTACAAATAACTTGCCACAA
*
15172073 AGGCTTTACAAATAACTTGCCACAAAGACTTTACAAATAACTTGCCACAA
1 AGGCTTTACAAATAACTTACCACAAAGACTTTACAAATAACTTGCCACAA
15172123 AGGCTT
1 AGGCTT
15172129 CGGTTTGGTT
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
50 46 0.96
51 2 0.04
ACGTcount: A:0.38, C:0.22, G:0.13, T:0.27
Consensus pattern (50 bp):
AGGCTTTACAAATAACTTACCACAAAGACTTTACAAATAACTTGCCACAA
Found at i:15174432 original size:33 final size:33
Alignment explanation
Indices: 15174390--15174455 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
15174380 AACTACTACA
*
15174390 ATTCAGTCCAGGTAAGTTCGTTCGGATTGTAAT
1 ATTCAGTCCAGGTAAGTTCGTTCAGATTGTAAT
* *
15174423 ATTCAGTCCAGGTAAGTTTGTTCAGCTTGTAAT
1 ATTCAGTCCAGGTAAGTTCGTTCAGATTGTAAT
15174456 TTAACATCTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.24, C:0.15, G:0.23, T:0.38
Consensus pattern (33 bp):
ATTCAGTCCAGGTAAGTTCGTTCAGATTGTAAT
Found at i:15175818 original size:20 final size:20
Alignment explanation
Indices: 15175781--15175819 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
15175771 TCCCCTATTT
*
15175781 TTGAACATTTTCATTTTATC
1 TTGAACATTTTCAATTTATC
15175801 TTGAA-ATTTTCTAATTTAT
1 TTGAACATTTTC-AATTTAT
15175820 TTCAAATTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.28, C:0.10, G:0.05, T:0.56
Consensus pattern (20 bp):
TTGAACATTTTCAATTTATC
Found at i:15177247 original size:49 final size:49
Alignment explanation
Indices: 15177155--15177250 Score: 131
Period size: 49 Copynumber: 2.0 Consensus size: 49
15177145 ATAGAAATCA
* *
15177155 AATAAATTCTATTGAACGGCAGGAATAGAATCATGAAACAGAATTGTGG
1 AATAAATCCTATTGAACGGCAGGAATAAAATCATGAAACAGAATTGTGG
* * *
15177204 AATAAATCCTGTTGAACGGCAGGAATAAAAATCCTG-AATAGAATTGT
1 AATAAATCCTATTGAACGGCAGGAAT-AAAATCATGAAACAGAATTGT
15177251 TAAATTAGTT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
49 34 0.83
50 7 0.17
ACGTcount: A:0.43, C:0.11, G:0.21, T:0.25
Consensus pattern (49 bp):
AATAAATCCTATTGAACGGCAGGAATAAAATCATGAAACAGAATTGTGG
Found at i:15182794 original size:90 final size:87
Alignment explanation
Indices: 15182646--15182867 Score: 259
Period size: 90 Copynumber: 2.5 Consensus size: 87
15182636 TAAAAAGTCT
* ** * *
15182646 TCAAACTTTTTAAAACAACACAATTAAGTCATTGCTTTTTTTTAACTCAATTGAGTACTTGAACT
1 TCAAACTTTTTAAAA-AAAACAATTAAGTCCCTGCTTCTTTTTCACTCAATTGAGTACTTGAACT
*
15182711 TTCAAAATGCATCAAAAAGGCCC
65 TTCAAAATGCACCAAAAAGGCCC
* **
15182734 TCAAACTTTTTCAAAGAAAAATAATTAAGTCCCTGCTTCCTTTTTCACTCAATT-AGGTACTTTT
1 TCAAACTTTTT-AAA-AAAAACAATTAAGTCCCTGCTT-CTTTTTCACTCAATTGA-GTACTTGA
* *
15182798 ACTTTCAAAATGCACCAAAACGGTCC
62 ACTTTCAAAATGCACCAAAAAGGCCC
*
15182824 TCAAACTTTTAAAAAAAAAGCAATTAAG-CCCTTGCTTCTTTTTC
1 TCAAACTTTTTAAAAAAAA-CAATTAAGTCCC-TGCTTCTTTTTC
15182868 TTCTTCTTTT
Statistics
Matches: 115, Mismatches: 13, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
88 26 0.23
89 36 0.31
90 53 0.46
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.35
Consensus pattern (87 bp):
TCAAACTTTTTAAAAAAAACAATTAAGTCCCTGCTTCTTTTTCACTCAATTGAGTACTTGAACTT
TCAAAATGCACCAAAAAGGCCC
Found at i:15183068 original size:9 final size:9
Alignment explanation
Indices: 15183048--15183174 Score: 67
Period size: 10 Copynumber: 12.9 Consensus size: 9
15183038 AAAAATCAAA
15183048 ATAAAAAGTT
1 ATAAAAA-TT
15183058 ATAAAAATT
1 ATAAAAATT
*
15183067 ATTAAAAGTT
1 A-TAAAAATT
15183077 AT-AAAATAT
1 ATAAAAAT-T
15183086 ATTAAAAATT
1 A-TAAAAATT
* *
15183096 AGAAAAAAATG
1 --ATAAAAATT
15183107 ATAAAAATCGT
1 ATAAAAAT--T
*
15183118 AAAAGAAATT
1 ATAA-AAATT
15183128 ATAAAAAATT
1 AT-AAAAATT
* *
15183138 GTAAAATTTT
1 ATAAAA-ATT
*
15183148 ATAAAAATC
1 ATAAAAATT
*
15183157 ATAAAAAAT
1 ATAAAAATT
15183166 ATATAAAAT
1 ATA-AAAAT
15183175 GCATCAAAAA
Statistics
Matches: 89, Mismatches: 16, Indels: 24
0.69 0.12 0.19
Matches are distributed among these distances:
8 4 0.04
9 28 0.31
10 36 0.40
11 16 0.18
12 5 0.06
ACGTcount: A:0.63, C:0.02, G:0.06, T:0.30
Consensus pattern (9 bp):
ATAAAAATT
Found at i:15183075 original size:19 final size:20
Alignment explanation
Indices: 15183051--15183102 Score: 72
Period size: 19 Copynumber: 2.7 Consensus size: 20
15183041 AATCAAAATA
15183051 AAAAGTTATAAAAAT-TATT
1 AAAAGTTATAAAAATATATT
15183070 AAAAGTTAT-AAAATATATT
1 AAAAGTTATAAAAATATATT
* *
15183089 AAAAATTAGAAAAA
1 AAAAGTTATAAAAA
15183103 AATGATAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 5 0.17
19 20 0.69
20 4 0.14
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (20 bp):
AAAAGTTATAAAAATATATT
Found at i:15183126 original size:21 final size:21
Alignment explanation
Indices: 15183098--15183143 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
15183088 TAAAAATTAG
15183098 AAAAAAATGAT-AAAAATCGT
1 AAAAAAATGATAAAAAATCGT
* *
15183118 AAAAGAAATTATAAAAAATTGT
1 AAAA-AAATGATAAAAAATCGT
15183140 AAAA
1 AAAA
15183144 TTTTATAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 4 0.18
21 6 0.27
22 12 0.55
ACGTcount: A:0.67, C:0.02, G:0.09, T:0.22
Consensus pattern (21 bp):
AAAAAAATGATAAAAAATCGT
Found at i:15183399 original size:19 final size:20
Alignment explanation
Indices: 15183363--15183418 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 20
15183353 GTACGATAAT
*
15183363 TTTTAGAATTT-TTGTACAAA
1 TTTTATAATTTCTT-TACAAA
**
15183383 TTTTAT-ATTTCTTTACATT
1 TTTTATAATTTCTTTACAAA
*
15183402 TTTTATAATTTGTTTAC
1 TTTTATAATTTCTTTAC
15183419 GACTTTATAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
19 14 0.47
20 16 0.53
ACGTcount: A:0.27, C:0.07, G:0.05, T:0.61
Consensus pattern (20 bp):
TTTTATAATTTCTTTACAAA
Found at i:15183434 original size:31 final size:30
Alignment explanation
Indices: 15183399--15183469 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 30
15183389 ATTTCTTTAC
15183399 ATTTTTTATAATTTGTTTACGACTTTATAAA
1 ATTTTTTATAATTTGTTTACGA-TTTATAAA
* * * *
15183430 ATTTTATA-AATTTTTTTACGATTTTTATA
1 ATTTTTTATAATTTGTTTACGATTTATAAA
*
15183459 ATTTTTAATAA
1 ATTTTTTATAA
15183470 AATTTAAATA
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
29 12 0.36
30 14 0.42
31 7 0.21
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.58
Consensus pattern (30 bp):
ATTTTTTATAATTTGTTTACGATTTATAAA
Found at i:15183448 original size:30 final size:28
Alignment explanation
Indices: 15183402--15183467 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 28
15183392 TCTTTACATT
15183402 TTTTATAATTTGTTTACGACTTTATAAAA
1 TTTTATAATTTGTTTACGA-TTTATAAAA
* * *
15183431 TTTTATAAATTTTTTTACGATTTTTATAA
1 TTTTAT-AATTTGTTTACGATTTATAAAA
15183460 TTTT-TAAT
1 TTTTATAAT
15183468 AAAATTTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 3 0.09
28 1 0.03
29 17 0.52
30 12 0.36
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.59
Consensus pattern (28 bp):
TTTTATAATTTGTTTACGATTTATAAAA
Found at i:15183470 original size:41 final size:41
Alignment explanation
Indices: 15183425--15183524 Score: 109
Period size: 41 Copynumber: 2.5 Consensus size: 41
15183415 TTACGACTTT
**
15183425 ATAAAATTTTATAAATTTTTTTACGATTTTTA-TAATTTTTA
1 ATAAAATTTTATAAATTTTTTTA-GATTTTTATTAAAATTTA
*
15183466 ATAAAA-TTTA-AATATTGTTTTTATATTTTTATTAAAATTTA
1 ATAAAATTTTATAA-ATT-TTTTTAGATTTTTATTAAAATTTA
*
15183507 AT-AATTTTTATAAATTTT
1 ATAAAATTTTATAAATTTT
15183525 ATTTTTTTAT
Statistics
Matches: 50, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
39 2 0.04
40 18 0.36
41 28 0.56
42 2 0.04
ACGTcount: A:0.39, C:0.01, G:0.02, T:0.58
Consensus pattern (41 bp):
ATAAAATTTTATAAATTTTTTTAGATTTTTATTAAAATTTA
Found at i:15184338 original size:3 final size:3
Alignment explanation
Indices: 15184330--15184354 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
15184320 CGATTTTCTC
15184330 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
15184355 GCAAGTTAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:15185266 original size:19 final size:19
Alignment explanation
Indices: 15185221--15185268 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 19
15185211 TTTTTTTTTG
15185221 GCTTTTCTCTTCTTTCGAGTT
1 GCTTTT-TC-TCTTTCGAGTT
*
15185242 -CTTTTTCTCTTTTGAGTT
1 GCTTTTTCTCTTTCGAGTT
15185260 GCTTTTTCT
1 GCTTTTTCT
15185269 TTGCGTTGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 10 0.40
19 10 0.40
20 5 0.20
ACGTcount: A:0.04, C:0.21, G:0.12, T:0.62
Consensus pattern (19 bp):
GCTTTTTCTCTTTCGAGTT
Found at i:15189113 original size:75 final size:73
Alignment explanation
Indices: 15189018--15189237 Score: 341
Period size: 75 Copynumber: 3.0 Consensus size: 73
15189008 AGTTTTACTA
* *
15189018 ACCTAATATTAAAACTATAAATAGTTAACTAATGATACACTTACCATTTATCAAATAAAAATGAT
1 ACCTAATATTAAAA-TATAAATAGTTAACTAATAATATACTTACCATTTATCAAATAAAAATGAT
15189083 ATACTTTCCC
65 ATACTTT-CC
* *
15189093 ACCTAATATTAAAATAATAAATAGTTAACTAATCATATACTTACCATTTATCAGATAAAAATGAT
1 ACCTAATATTAAAAT-ATAAATAGTTAACTAATAATATACTTACCATTTATCAAATAAAAATGAT
15189158 ATACTTTCC
65 ATACTTTCC
** *
15189167 ACCTAATATTATAACCATAAATAGTTAACTGATAATATACTTACCATTTATCAAATAAAAATGAT
1 ACCTAATATTA-AAATATAAATAGTTAACTAATAATATACTTACCATTTATCAAATAAAAATGAT
15189232 ATACTT
65 ATACTT
15189238 ACCAATTTTG
Statistics
Matches: 135, Mismatches: 8, Indels: 5
0.91 0.05 0.03
Matches are distributed among these distances:
74 66 0.49
75 69 0.51
ACGTcount: A:0.46, C:0.15, G:0.04, T:0.35
Consensus pattern (73 bp):
ACCTAATATTAAAATATAAATAGTTAACTAATAATATACTTACCATTTATCAAATAAAAATGATA
TACTTTCC
Found at i:15189208 original size:74 final size:75
Alignment explanation
Indices: 15189018--15189237 Score: 352
Period size: 74 Copynumber: 2.9 Consensus size: 75
15189008 AGTTTTACTA
* * *
15189018 ACCTAATATTAAAACTATAAATAGTTAACTAATGATACACTTACCATTTATCAAATAAAAATGAT
1 ACCTAATATTAAAACAATAAATAGTTAACTAATAATATACTTACCATTTATCAAATAAAAATGAT
15189083 ATACTTTCCC
66 ATACTTTCCC
* * *
15189093 ACCTAATATTAAAATAATAAATAGTTAACTAATCATATACTTACCATTTATCAGATAAAAATGAT
1 ACCTAATATTAAAACAATAAATAGTTAACTAATAATATACTTACCATTTATCAAATAAAAATGAT
15189158 ATACTTT-CC
66 ATACTTTCCC
* * *
15189167 ACCTAATATTATAACCATAAATAGTTAACTGATAATATACTTACCATTTATCAAATAAAAATGAT
1 ACCTAATATTAAAACAATAAATAGTTAACTAATAATATACTTACCATTTATCAAATAAAAATGAT
15189232 ATACTT
66 ATACTT
15189238 ACCAATTTTG
Statistics
Matches: 134, Mismatches: 11, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
74 67 0.50
75 67 0.50
ACGTcount: A:0.46, C:0.15, G:0.04, T:0.35
Consensus pattern (75 bp):
ACCTAATATTAAAACAATAAATAGTTAACTAATAATATACTTACCATTTATCAAATAAAAATGAT
ATACTTTCCC
Found at i:15190457 original size:31 final size:30
Alignment explanation
Indices: 15190402--15190460 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
15190392 GTAAATACTC
***
15190402 AAAATTTGAAGGGTTAAAGTGTAAATATGA
1 AAAATTTGAAGGACCAAAGTGTAAATATGA
15190432 AAAATTTGAAGGACCAATAGTGTAAATAT
1 AAAATTTGAAGGACCAA-AGTGTAAATAT
15190461 TTTAAGGGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 14 0.56
31 11 0.44
ACGTcount: A:0.47, C:0.03, G:0.20, T:0.29
Consensus pattern (30 bp):
AAAATTTGAAGGACCAAAGTGTAAATATGA
Found at i:15193031 original size:56 final size:49
Alignment explanation
Indices: 15192964--15193152 Score: 198
Period size: 49 Copynumber: 3.7 Consensus size: 49
15192954 GGGAATGAGA
* *
15192964 TCCCATGTAAGACCATGTATGAGACATGGCATTGACATCATTGAGATTATGAGAGG
1 TCCCATGTAAGACCATGTCTG-GACATGGCATTGACA-C--CGAG---ATGAGAGG
* * *
15193020 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGATG
1 TCCCATGTAAGACCATGTCT-GGACATGGCATTGACACCGAGATGAGAGG
* * **
15193070 TCCCATGTAAGACCATGTCTGGACATGGCGTTGGCACCGAGATGAGAAC
1 TCCCATGTAAGACCATGTCTGGACATGGCATTGACACCGAGATGAGAGG
* *
15193119 TCCCATGTAAGACCATATCTGGGATATGGCATTG
1 TCCCATGTAAGACCATGTCT-GGACATGGCATTG
15193153 GTAGTATAGA
Statistics
Matches: 121, Mismatches: 10, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
49 46 0.38
50 38 0.31
53 3 0.02
55 1 0.01
56 32 0.26
57 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.24
Consensus pattern (49 bp):
TCCCATGTAAGACCATGTCTGGACATGGCATTGACACCGAGATGAGAGG
Found at i:15193073 original size:50 final size:50
Alignment explanation
Indices: 15193012--15193153 Score: 223
Period size: 49 Copynumber: 2.9 Consensus size: 50
15193002 CATTGAGATT
*
15193012 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
1 ATGAGAAGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
*
15193062 ATGAGATGTCCCATGTAAGACCATGTCT-GGACATGGCGTTGGCACCGAG
1 ATGAGAAGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
* * * *
15193111 ATGAGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGG
1 ATGAGAAGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGG
15193154 TAGTATAGAA
Statistics
Matches: 85, Mismatches: 6, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
49 46 0.54
50 39 0.46
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (50 bp):
ATGAGAAGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
Found at i:15196018 original size:18 final size:19
Alignment explanation
Indices: 15195997--15196038 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
15195987 ATTTTAATTT
*
15195997 TTTTATATATTT-AAATGA
1 TTTTATATATTTGAAATAA
* *
15196015 TTTTTTATTTTTGAAATAA
1 TTTTATATATTTGAAATAA
15196034 TTTTA
1 TTTTA
15196039 GTTTTTTCAT
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (19 bp):
TTTTATATATTTGAAATAA
Found at i:15196031 original size:19 final size:20
Alignment explanation
Indices: 15195995--15196037 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
15195985 GAATTTTAAT
*
15195995 TTTTTTATATATTTAAATGA
1 TTTTTTATATATTTAAATAA
15196015 TTTTTTAT-T-TTTGAAATAA
1 TTTTTTATATATTT-AAATAA
15196034 TTTT
1 TTTT
15196038 AGTTTTTTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 3 0.14
19 10 0.48
20 8 0.38
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (20 bp):
TTTTTTATATATTTAAATAA
Found at i:15196043 original size:18 final size:17
Alignment explanation
Indices: 15196017--15196067 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
15196007 TTAAATGATT
15196017 TTTTA-TTTTTGAAATAA
1 TTTTAGTTTTT-AAATAA
**
15196034 TTTTAGTTTTTTCATAA
1 TTTTAGTTTTTAAATAA
15196051 TTTTAGATTTTTAAATA
1 TTTTAG-TTTTTAAATA
15196068 TATATTTTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
17 15 0.54
18 13 0.46
ACGTcount: A:0.31, C:0.02, G:0.06, T:0.61
Consensus pattern (17 bp):
TTTTAGTTTTTAAATAA
Found at i:15199364 original size:21 final size:21
Alignment explanation
Indices: 15199319--15199366 Score: 64
Period size: 19 Copynumber: 2.3 Consensus size: 21
15199309 TGAAATAATT
*
15199319 TTTATAATGTTTTATAAAAAA
1 TTTATAATGTTGTATAAAAAA
15199340 -TTATAAT-TTGTATAAAAAA
1 TTTATAATGTTGTATAAAAAA
15199359 CTTTATAA
1 -TTTATAA
15199367 AAAGTGCTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 11 0.46
20 7 0.29
21 6 0.25
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (21 bp):
TTTATAATGTTGTATAAAAAA
Found at i:15208183 original size:2 final size:2
Alignment explanation
Indices: 15208176--15208205 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
15208166 CATGAATTTT
*
15208176 TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15208206 GAATTTAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:15209642 original size:17 final size:17
Alignment explanation
Indices: 15209622--15209662 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
15209612 TGGGTTTAGA
15209622 AAATAATTTAATTAAAT
1 AAATAATTTAATTAAAT
* *
15209639 AAATAAATTGATTAAAT
1 AAATAATTTAATTAAAT
15209656 AAATAAT
1 AAATAAT
15209663 ATTTTCGAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (17 bp):
AAATAATTTAATTAAAT
Found at i:15212962 original size:26 final size:25
Alignment explanation
Indices: 15212932--15212985 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 25
15212922 AATACCTTTT
*
15212932 AATTAATTAATA-TAAATTATTTATAA
1 AATTAA-TAATACTAAAATATTT-TAA
15212958 AATTAATAATACTTAAAATATTTTAA
1 AATTAATAATAC-TAAAATATTTTAA
15212984 AA
1 AA
15212986 ACTTAAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
25 5 0.20
26 11 0.44
27 9 0.36
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (25 bp):
AATTAATAATACTAAAATATTTTAA
Found at i:15213046 original size:33 final size:33
Alignment explanation
Indices: 15212961--15213076 Score: 123
Period size: 33 Copynumber: 3.5 Consensus size: 33
15212951 TTTATAAAAT
* *
15212961 TAATAATACTTAAAATATTTTAAA-AACTTAA-A
1 TAATAATACATAAAATA-TTTAAATAATTTAATA
*
15212993 T-ATAGTA-ATAAATTATATTTAAATAATTTAATA
1 TAATAATACATAAA--ATATTTAAATAATTTAATA
* * *
15213026 TAATGATACATGAAATATTTAAATAATTTAATG
1 TAATAATACATAAAATATTTAAATAATTTAATA
15213059 TAATAATACATAAAATAT
1 TAATAATACATAAAATAT
15213077 AAATTAATCT
Statistics
Matches: 69, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
30 4 0.06
31 11 0.16
32 10 0.14
33 36 0.52
34 4 0.06
35 4 0.06
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.40
Consensus pattern (33 bp):
TAATAATACATAAAATATTTAAATAATTTAATA
Found at i:15223749 original size:32 final size:32
Alignment explanation
Indices: 15223708--15223772 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
15223698 TAATAAGGTA
15223708 AGATTTCTATCCTTAATTATAGGGATTCCAAC
1 AGATTTCTATCCTTAATTATAGGGATTCCAAC
15223740 AGATTTCTATCCTTAATTATAGGGATTCCAAC
1 AGATTTCTATCCTTAATTATAGGGATTCCAAC
15223772 A
1 A
15223773 CTCCCCTCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.37
Consensus pattern (32 bp):
AGATTTCTATCCTTAATTATAGGGATTCCAAC
Found at i:15235786 original size:6 final size:6
Alignment explanation
Indices: 15235772--15235816 Score: 81
Period size: 6 Copynumber: 7.5 Consensus size: 6
15235762 TAAGATTAGG
*
15235772 TTTGAT TTTGGT TTTGGT TTTGGT TTTGGT TTTGGT TTTGGT TTT
1 TTTGGT TTTGGT TTTGGT TTTGGT TTTGGT TTTGGT TTTGGT TTT
15235817 CTTTTTGGGG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.02, C:0.00, G:0.29, T:0.69
Consensus pattern (6 bp):
TTTGGT
Found at i:15235822 original size:18 final size:18
Alignment explanation
Indices: 15235772--15235824 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
15235762 TAAGATTAGG
* *
15235772 TTTGATTTTGGTTTTGGT
1 TTTGGTTTTCGTTTTGGT
*
15235790 TTTGGTTTTGGTTTTGGT
1 TTTGGTTTTCGTTTTGGT
*
15235808 TTTGGTTTTCTTTTTGG
1 TTTGGTTTTCGTTTTGG
15235825 GGGTTAGGGA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.02, C:0.02, G:0.28, T:0.68
Consensus pattern (18 bp):
TTTGGTTTTCGTTTTGGT
Found at i:15240764 original size:23 final size:22
Alignment explanation
Indices: 15240732--15240779 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
15240722 AATATTTATG
*
15240732 CAAATAATATATTTAGAATATTA
1 CAAATAATATATATA-AATATTA
* *
15240755 CAAATCATATATATATATATTA
1 CAAATAATATATATAAATATTA
15240777 CAA
1 CAA
15240780 GATTTTAGGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 9 0.41
23 13 0.59
ACGTcount: A:0.52, C:0.08, G:0.02, T:0.38
Consensus pattern (22 bp):
CAAATAATATATATAAATATTA
Found at i:15246772 original size:7 final size:7
Alignment explanation
Indices: 15246762--15246787 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
15246752 TTTAATTAGT
15246762 AATTTTA
1 AATTTTA
15246769 AATTTTA
1 AATTTTA
15246776 AATTTTA
1 AATTTTA
15246783 AATTT
1 AATTT
15246788 ATATATAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
AATTTTA
Found at i:15252081 original size:12 final size:11
Alignment explanation
Indices: 15252051--15252075 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
15252041 CCTATATGTA
15252051 TTTATTTCTTT
1 TTTATTTCTTT
15252062 TTTATTTCTTT
1 TTTATTTCTTT
15252073 TTT
1 TTT
15252076 GCTTTCAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTATTTCTTT
Found at i:15252875 original size:29 final size:30
Alignment explanation
Indices: 15252833--15252891 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
15252823 GGATTGGATC
* * *
15252833 AAATCAAAATTTCATGTATAAAATTGCACA
1 AAATCAAAAGTTCATATACAAAATTGCACA
*
15252863 AAATC-AAAGTTCATATACACAATTGCACA
1 AAATCAAAAGTTCATATACAAAATTGCACA
15252892 TTAAACCATA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 20 0.80
30 5 0.20
ACGTcount: A:0.49, C:0.17, G:0.07, T:0.27
Consensus pattern (30 bp):
AAATCAAAAGTTCATATACAAAATTGCACA
Found at i:15262706 original size:16 final size:18
Alignment explanation
Indices: 15262679--15262715 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
15262669 ACTTCAAGTA
15262679 ATTTTCTCCTTT-TTTTT
1 ATTTTCTCCTTTGTTTTT
15262696 ATTTT-TCCTTTGTTTTT
1 ATTTTCTCCTTTGTTTTT
15262713 ATT
1 ATT
15262716 GTTCAATTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.08, C:0.14, G:0.03, T:0.76
Consensus pattern (18 bp):
ATTTTCTCCTTTGTTTTT
Found at i:15266509 original size:22 final size:20
Alignment explanation
Indices: 15266461--15266509 Score: 55
Period size: 19 Copynumber: 2.4 Consensus size: 20
15266451 AAAATAAAAG
*
15266461 TTAAATAAAAACTATTATTT
1 TTAAATAAAAAATATTATTT
*
15266481 TT-TATAAAAAATATTATTGAT
1 TTAAATAAAAAATATTATT--T
15266502 TTAAATAA
1 TTAAATAA
15266510 TATATTTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 14 0.61
20 2 0.09
21 3 0.13
22 4 0.17
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (20 bp):
TTAAATAAAAAATATTATTT
Found at i:15267552 original size:14 final size:14
Alignment explanation
Indices: 15267520--15267546 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
15267510 AAATTAATTT
15267520 ATTTTTTAAAAATC
1 ATTTTTTAAAAATC
15267534 ATTTTTTAAAAAT
1 ATTTTTTAAAAAT
15267547 TGTTTTCAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (14 bp):
ATTTTTTAAAAATC
Done.