Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 318 of 427
Found at i:92522117 original size:29 final size:31
Alignment explanation
Indices: 92522074--92522135 Score: 76
Period size: 29 Copynumber: 2.1 Consensus size: 31
92522064 GTAAATAGTC
92522074 AATTTATACTTTAAT-CTCTTAAATTTGATAA
1 AATTTATACTTTAATACT-TTAAATTTGATAA
* *
92522105 AATTTA-A-TTTAATACTTTAACTTTTATAA
1 AATTTATACTTTAATACTTTAAATTTGATAA
92522134 AA
1 AA
92522136 ATATAAATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 19 0.68
30 3 0.11
31 6 0.21
ACGTcount: A:0.42, C:0.08, G:0.02, T:0.48
Consensus pattern (31 bp):
AATTTATACTTTAATACTTTAAATTTGATAA
Found at i:92527644 original size:13 final size:13
Alignment explanation
Indices: 92527626--92527653 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
92527616 GAAAAATTTC
92527626 GAGAAGAAAAGTT
1 GAGAAGAAAAGTT
92527639 GAGAAGAAAAGTT
1 GAGAAGAAAAGTT
92527652 GA
1 GA
92527654 AGATCCAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.32, T:0.14
Consensus pattern (13 bp):
GAGAAGAAAAGTT
Found at i:92527700 original size:43 final size:43
Alignment explanation
Indices: 92527639--92527720 Score: 164
Period size: 43 Copynumber: 1.9 Consensus size: 43
92527629 AAGAAAAGTT
92527639 GAGAAGAAAAGTTGAAGATCCAAAACAATAAACTTTGGATTTC
1 GAGAAGAAAAGTTGAAGATCCAAAACAATAAACTTTGGATTTC
92527682 GAGAAGAAAAGTTGAAGATCCAAAACAATAAACTTTGGA
1 GAGAAGAAAAGTTGAAGATCCAAAACAATAAACTTTGGA
92527721 GTTCAATACG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.49, C:0.11, G:0.20, T:0.21
Consensus pattern (43 bp):
GAGAAGAAAAGTTGAAGATCCAAAACAATAAACTTTGGATTTC
Found at i:92528150 original size:23 final size:22
Alignment explanation
Indices: 92528108--92528151 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
92528098 ATGAGCTCAA
*
92528108 TATTATATTTATTAAGTTTTAT
1 TATTATATTTATTAAATTTTAT
92528130 TATT-TATTTATTCCAAATTTTA
1 TATTATATTTATT--AAATTTTA
92528152 GATTTTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 8 0.42
22 4 0.21
23 7 0.37
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (22 bp):
TATTATATTTATTAAATTTTAT
Found at i:92530019 original size:16 final size:16
Alignment explanation
Indices: 92530000--92530030 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
92529990 CTTCTTCACT
92530000 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
92530016 TACTTACTTACTTAA
1 TACTCACTTACTTAA
92530031 TCAAATTTAT
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:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:92530036 original size:20 final size:20
Alignment explanation
Indices: 92529997--92530036 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
92529987 AAACTTCTTC
* *
92529997 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
92530017 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
92530037 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:92530432 original size:26 final size:26
Alignment explanation
Indices: 92530403--92530484 Score: 137
Period size: 26 Copynumber: 3.2 Consensus size: 26
92530393 TGGTACAAAT
*
92530403 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
92530429 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
92530455 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
92530481 TGAT
1 TGAT
92530485 GGACATTTCA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 52 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.37
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATGTTCCA
Found at i:92532147 original size:27 final size:27
Alignment explanation
Indices: 92532107--92532265 Score: 193
Period size: 27 Copynumber: 5.9 Consensus size: 27
92532097 AGGAAGCGTC
*
92532107 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
92532134 CTGGTGGCTCTGCCAC-ATATATCTG-T
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
92532160 CCTGGTGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCACAATTATCTGAT
*
92532188 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
92532215 CTAGTGGCTCTGCCACAA-TATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* *
92532242 CTGGTGACTCTGTCACAA-TATCTG
1 CTGGTGGCTCTGCCACAATTATCTG
92532266 GCAGCCTCGC
Statistics
Matches: 116, Mismatches: 9, Indels: 14
0.83 0.06 0.10
Matches are distributed among these distances:
26 11 0.09
27 101 0.87
28 4 0.03
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:92532186 original size:54 final size:54
Alignment explanation
Indices: 92532104--92532265 Score: 256
Period size: 54 Copynumber: 3.0 Consensus size: 54
92532094 TGGAGGAAGC
92532104 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
92532158 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* * * * *
92532212 GTTCTAGTGGCTCTGCCACAA-TATCTGTATCTGGTGACTCTGTCACA-ATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTGGCTCTGCCACATATATCT
92532265 G
1 G
92532266 GCAGCCTCGC
Statistics
Matches: 102, Mismatches: 5, Indels: 3
0.93 0.05 0.03
Matches are distributed among these distances:
53 13 0.13
54 89 0.87
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:92532246 original size:81 final size:80
Alignment explanation
Indices: 92532107--92532265 Score: 214
Period size: 81 Copynumber: 2.0 Consensus size: 80
92532097 AGGAAGCGTC
* *
92532107 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGGCTAT
1 CTGGTGGCTATGCCACAATTATCTGATCTAGTGGCTCTGCCACATATATCTGTCCTGGTGACTAT
92532172 GCCACAATTATCTGAT
66 GCCACAA-TATCTGAT
* * *
92532188 CTGGTGGCTCTGCCAC-ATATATCTGTTCTAGTGGCTCTGCCACA-ATATCTGTATCTGGTGACT
1 CTGGTGGCTATGCCACAAT-TATCTGATCTAGTGGCTCTGCCACATATATCTGT-CCTGGTGACT
* *
92532251 CTGTCACAATATCTG
64 ATGCCACAATATCTG
92532266 GCAGCCTCGC
Statistics
Matches: 69, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
80 16 0.23
81 53 0.77
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.34
Consensus pattern (80 bp):
CTGGTGGCTATGCCACAATTATCTGATCTAGTGGCTCTGCCACATATATCTGTCCTGGTGACTAT
GCCACAATATCTGAT
Found at i:92534679 original size:40 final size:40
Alignment explanation
Indices: 92534596--92534748 Score: 143
Period size: 40 Copynumber: 3.8 Consensus size: 40
92534586 TCGAATGATG
* *
92534596 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTGACCAAA
* **
92534636 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTCCCAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTGACCAAA
* **
92534676 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCT-ATTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGACCA-AA
* * *
92534717 -CCGGGCTATGTCCCGAAGGCTTTTGAGCGAGT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
92534749 CGCTATATCC
Statistics
Matches: 94, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
39 2 0.02
40 81 0.86
41 11 0.12
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACCAAA
Found at i:92536725 original size:55 final size:54
Alignment explanation
Indices: 92536590--92536796 Score: 226
Period size: 55 Copynumber: 3.8 Consensus size: 54
92536580 ATCCTTTTGA
* * *
92536590 AACTTACC-ATGCCATGTCTCGACATGGGT-TTACATGTTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGCCTTGACAT-GGTCTTACATGGTATCCTTGCCTTATAG
* * *
92536642 AACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTATAG
* * * * *
92536696 TAACTTATCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCATTAGA-
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
*
92536750 AACCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 AA-CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
92536797 AAACCCTAAT
Statistics
Matches: 129, Mismatches: 18, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
52 12 0.09
53 33 0.26
54 8 0.06
55 74 0.57
56 2 0.02
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.34
Consensus pattern (54 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:92536739 original size:108 final size:109
Alignment explanation
Indices: 92536590--92536789 Score: 300
Period size: 108 Copynumber: 1.8 Consensus size: 109
92536580 ATCCTTTTGA
* * *
92536590 AACTTACCATGCCATGTCTCGACATGGGTTTACATGTTATCCTTGCCTTATG-AA-CTCACCAA-
1 AACTTACAATGCCATGTCTCGACATGGGTTTACATGATATCCTTGCATTA-GAAACCTCACCAAT
92536652 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* *
92536697 AACTTATCAATGCCATGTCTTGACAT-GGTCTTACATGATATCCTTGCATTAGAAACCTTACCAA
1 AACTTA-CAATGCCATGTCTCGACATGGGT-TTACATGATATCCTTGCATTAGAAACCTCACCAA
92536761 TTGCCATGCCTTGGCATGGTCTTACATGG
64 TTGCCATGCCTTGGCATGGTCTTACATGG
92536790 TATCCTTAAA
Statistics
Matches: 83, Mismatches: 5, Indels: 7
0.87 0.05 0.07
Matches are distributed among these distances:
107 10 0.12
108 38 0.46
109 7 0.08
110 28 0.34
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.34
Consensus pattern (109 bp):
AACTTACAATGCCATGTCTCGACATGGGTTTACATGATATCCTTGCATTAGAAACCTCACCAATT
GCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:92541392 original size:228 final size:228
Alignment explanation
Indices: 92540983--92541467 Score: 855
Period size: 228 Copynumber: 2.1 Consensus size: 228
92540973 CCTTGTGGTT
* * *
92540983 CCAAAACG-TAAACAGTGAGTTACACAGCCTGGACACACTCCCGTGTCCTTACCCGTGTGCCTCA
1 CCAAAACGATGAACAGTGAGTTACACAGCCTGGACACACTCCCATGTCCTTACCCGTATGCCTCA
* * *
92541047 CATGGTCTGGGCACACGCCCATGTCCCTAGACATATGTTCCTAAGTCACAAATAGAGAGTTACAT
66 CATGGCCTGGGCACACGCCCATGTCCCTAGACATATGGTCCTAAGTCACAAACAGAGAGTTACAT
*
92541112 GGCCTAGACATATGCTTGTGTCCTTACCCGTGCAAACTTTGCACTAACAATGCCACACACGATCT
131 GGCCTAGACATATACTTGTGTCCTTACCCGTGCAAACTTTGCACTAACAATGCCACACACGATCT
**
92541177 GGGCACATGTCCGTTTGCCTTGTCCGTGTGGCC
196 GGGCACATACCCGTTTGCCTTGTCCGTGTGGCC
* *
92541210 CCAAAATGATGAGCAGTGAGTTACACAGCCTGGACACACTCCCATGTCCTTACCCGTATGCCTCA
1 CCAAAACGATGAACAGTGAGTTACACAGCCTGGACACACTCCCATGTCCTTACCCGTATGCCTCA
92541275 CATGGCCTGGGCACACGCCCATGTCCCTAGACATATGGTCCTAAGTCACAAACAGAGAGTTACAT
66 CATGGCCTGGGCACACGCCCATGTCCCTAGACATATGGTCCTAAGTCACAAACAGAGAGTTACAT
92541340 GGCCTAGACATATACTTGTGTCCTTACCCGTGCAAACTTTGCACTAACAATGCCACACACGATCT
131 GGCCTAGACATATACTTGTGTCCTTACCCGTGCAAACTTTGCACTAACAATGCCACACACGATCT
*
92541405 GGGCACATACCCGTTTGCCTTGTCCTTGTGGCC
196 GGGCACATACCCGTTTGCCTTGTCCGTGTGGCC
92541438 CCAAAACGATGAACAGTGAGTTACACAGCC
1 CCAAAACGATGAACAGTGAGTTACACAGCC
92541468 AGCCACAAGG
Statistics
Matches: 243, Mismatches: 14, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
227 7 0.03
228 236 0.97
ACGTcount: A:0.26, C:0.31, G:0.20, T:0.24
Consensus pattern (228 bp):
CCAAAACGATGAACAGTGAGTTACACAGCCTGGACACACTCCCATGTCCTTACCCGTATGCCTCA
CATGGCCTGGGCACACGCCCATGTCCCTAGACATATGGTCCTAAGTCACAAACAGAGAGTTACAT
GGCCTAGACATATACTTGTGTCCTTACCCGTGCAAACTTTGCACTAACAATGCCACACACGATCT
GGGCACATACCCGTTTGCCTTGTCCGTGTGGCC
Found at i:92543184 original size:15 final size:15
Alignment explanation
Indices: 92543166--92543200 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
92543156 ATAAAACCAT
92543166 AAAACATAAATTTAA
1 AAAACATAAATTTAA
* *
92543181 AAAACGTAAATTTCA
1 AAAACATAAATTTAA
92543196 AAAAC
1 AAAAC
92543201 TGTGGTCACC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.63, C:0.11, G:0.03, T:0.23
Consensus pattern (15 bp):
AAAACATAAATTTAA
Found at i:92544050 original size:12 final size:12
Alignment explanation
Indices: 92544033--92544062 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
92544023 CATGTGGTGG
92544033 CACACGGCCAAC
1 CACACGGCCAAC
*
92544045 CACACGGGCAAC
1 CACACGGCCAAC
92544057 CACACG
1 CACACG
92544063 CCTGTATGGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.33, C:0.47, G:0.20, T:0.00
Consensus pattern (12 bp):
CACACGGCCAAC
Found at i:92546490 original size:16 final size:15
Alignment explanation
Indices: 92546465--92546496 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
92546455 GATAGGTCTC
92546465 TGATGAGCTTCCAAT
1 TGATGAGCTTCCAAT
92546480 TGATCGAGCTTCCAAT
1 TGAT-GAGCTTCCAAT
92546496 T
1 T
92546497 ATCTAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (15 bp):
TGATGAGCTTCCAAT
Found at i:92551229 original size:40 final size:40
Alignment explanation
Indices: 92551163--92551329 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
92551153 AAATTGAATG
* * *
92551163 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
92551202 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
92551242 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
92551282 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
92551322 ATATCCGG
1 ATATCCGG
92551330 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:92559223 original size:40 final size:40
Alignment explanation
Indices: 92559157--92559323 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
92559147 AAATTGAATG
* * *
92559157 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
92559196 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
92559236 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
92559276 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
92559316 ATATCCGG
1 ATATCCGG
92559324 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:92561871 original size:27 final size:27
Alignment explanation
Indices: 92561841--92561972 Score: 108
Period size: 27 Copynumber: 4.9 Consensus size: 27
92561831 ACTACCCCTA
* ** *
92561841 ATTTGTGAAATTATTGAAATACCCTTG
1 ATTTGTAAAATTACCGAAATACCCTCG
* * * *
92561868 ATTTGTGAAATTATCAAAATATCCC-CA
1 ATTTGTAAAATTACCGAAATA-CCCTCG
* *
92561895 ACTTGTAAAATTACTGAAATACCCTCG
1 ATTTGTAAAATTACCGAAATACCCTCG
*
92561922 ATTTGTAAAATTACCGAAATACCCTTG
1 ATTTGTAAAATTACCGAAATACCCTCG
*
92561949 --TAGTATAAAGTTACCGAAATACCC
1 ATTTGTA-AAA-TTACCGAAATACCC
92561973 CTATAAGGTA
Statistics
Matches: 87, Mismatches: 14, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
25 4 0.05
26 6 0.07
27 74 0.85
28 3 0.03
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.33
Consensus pattern (27 bp):
ATTTGTAAAATTACCGAAATACCCTCG
Found at i:92561984 original size:27 final size:27
Alignment explanation
Indices: 92561898--92561986 Score: 83
Period size: 27 Copynumber: 3.3 Consensus size: 27
92561888 ATCCCCAACT
* * *
92561898 TGTAAAATTACTGAAATACCCTCGAT-T
1 TGTAAAATTACCGAAATACCC-CTATAG
* *
92561925 TGTAAAATTACCGAAATACCCTTGTAG
1 TGTAAAATTACCGAAATACCCCTATAG
* *
92561952 TATAAAGTTACCGAAATACCCCTATAAG
1 TGTAAAATTACCGAAATACCCCTAT-AG
92561980 -GTAAAAT
1 TGTAAAAT
92561987 GACTTTTGCC
Statistics
Matches: 49, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
26 1 0.02
27 46 0.94
28 2 0.04
ACGTcount: A:0.40, C:0.18, G:0.12, T:0.29
Consensus pattern (27 bp):
TGTAAAATTACCGAAATACCCCTATAG
Found at i:92563591 original size:29 final size:31
Alignment explanation
Indices: 92563539--92563606 Score: 90
Period size: 29 Copynumber: 2.3 Consensus size: 31
92563529 ATATTTTATA
*
92563539 ATTA-TTTAATTAGATAATTATTATT-TATTT
1 ATTATTTTAATAAGATAATTATTATTAT-TTT
92563569 ATTATTTTAATAAGAT-ATT-TTATTATTTT
1 ATTATTTTAATAAGATAATTATTATTATTTT
92563598 ATTATTTTA
1 ATTATTTTA
92563607 TTTAGTCTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
29 17 0.49
30 8 0.23
31 10 0.29
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (31 bp):
ATTATTTTAATAAGATAATTATTATTATTTT
Found at i:92563595 original size:8 final size:8
Alignment explanation
Indices: 92563584--92563608 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
92563574 TTTAATAAGA
92563584 TATTTTAT
1 TATTTTAT
92563592 TATTTTAT
1 TATTTTAT
92563600 TATTTTAT
1 TATTTTAT
92563608 T
1 T
92563609 TAGTCTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:92563608 original size:21 final size:20
Alignment explanation
Indices: 92563556--92563609 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
92563546 AATTAGATAA
92563556 TTATTATTTA-TTTATTATT
1 TTATTATTTATTTTATTATT
* **
92563575 TTAATAAGATATTTTATTATT
1 TT-ATTATTTATTTTATTATT
92563596 TTATTATTTTATTT
1 TTATTA-TTTATTT
92563610 AGTCTATATA
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
19 2 0.08
20 8 0.31
21 16 0.62
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.69
Consensus pattern (20 bp):
TTATTATTTATTTTATTATT
Found at i:92565841 original size:81 final size:81
Alignment explanation
Indices: 92565697--92565856 Score: 196
Period size: 81 Copynumber: 2.0 Consensus size: 81
92565687 GACCCAAGAC
* ** ** *
92565697 TTGTAAAATTACTGAAATACCTTCGGGTTGTAAAATTACCAAAATACCTTTAATTTGTGAAATTA
1 TTGTAAAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAATACCTCCAATTTGTAAAATTA
**
92565762 TTGAAATACCCTTGAT
66 CCGAAATACCCTTGAT
* ** *
92565778 TTGTGAAATTACTGAAATACCCTCGACTTGTAAAATTACTGAAATA-CTCCCGATTTGTAAAATT
1 TTGTAAAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAATACCT-CCAATTTGTAAAATT
92565842 ACCGAAATACCCTTG
65 ACCGAAATACCCTTG
92565857 TAGTGTAAAG
Statistics
Matches: 66, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
80 2 0.03
81 64 0.97
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.34
Consensus pattern (81 bp):
TTGTAAAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAATACCTCCAATTTGTAAAATTA
CCGAAATACCCTTGAT
Found at i:92565864 original size:54 final size:54
Alignment explanation
Indices: 92565695--92565881 Score: 175
Period size: 54 Copynumber: 3.5 Consensus size: 54
92565685 AAGACCCAAG
* ** *
92565695 ACTTGTAAAATTACTGAAATACCTTCGGGTTGTAAAATTACCAAAATA-CCTT-T
1 ACTTGTAAAATTACTGAAATACC-CCGATTTGTAAAATTACCGAAATACCCTTGT
* * * * * * *
92565748 AATTTGTGAAATTATTGAAATACCCTTGATTTGTGAAATTACTGAAATACCCTCG-
1 -ACTTGTAAAATTACTGAAATACCC-CGATTTGTAAAATTACCGAAATACCCTTGT
92565803 ACTTGTAAAATTACTGAAATACTCCCGATTTGTAAAATTACCGAAATACCCTTGT
1 ACTTGTAAAATTACTGAAATAC-CCCGATTTGTAAAATTACCGAAATACCCTTGT
* * **
92565858 A-GTGTAAAGTTACCAAAATACCCC
1 ACTTGTAAAATTACTGAAATACCCC
92565882 TGTTGGGTAA
Statistics
Matches: 106, Mismatches: 22, Indels: 11
0.76 0.16 0.08
Matches are distributed among these distances:
53 3 0.03
54 97 0.92
55 6 0.06
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.33
Consensus pattern (54 bp):
ACTTGTAAAATTACTGAAATACCCCGATTTGTAAAATTACCGAAATACCCTTGT
Found at i:92565865 original size:27 final size:27
Alignment explanation
Indices: 92565697--92565856 Score: 171
Period size: 27 Copynumber: 5.9 Consensus size: 27
92565687 GACCCAAGAC
**
92565697 TTGTAAAATTACTGAAATA-CCTTCGGG
1 TTGTAAAATTACTGAAATACCCTT-GAT
** * *
92565724 TTGTAAAATTACCAAAATACCTTTAAT
1 TTGTAAAATTACTGAAATACCCTTGAT
* *
92565751 TTGTGAAATTATTGAAATACCCTTGAT
1 TTGTAAAATTACTGAAATACCCTTGAT
* * *
92565778 TTGTGAAATTACTGAAATACCCTCGAC
1 TTGTAAAATTACTGAAATACCCTTGAT
*
92565805 TTGTAAAATTACTGAAATACTCC-CGAT
1 TTGTAAAATTACTGAAATAC-CCTTGAT
*
92565832 TTGTAAAATTACCGAAATACCCTTG
1 TTGTAAAATTACTGAAATACCCTTG
92565857 TAGTGTAAAG
Statistics
Matches: 111, Mismatches: 19, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
26 2 0.02
27 104 0.94
28 5 0.05
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.34
Consensus pattern (27 bp):
TTGTAAAATTACTGAAATACCCTTGAT
Found at i:92565891 original size:27 final size:27
Alignment explanation
Indices: 92565834--92565894 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
92565824 CTCCCGATTT
* * *
92565834 GTAAAATTACCGAAATACCCTTGTAGT
1 GTAAAATTACCAAAATACCCCTGTAGG
* *
92565861 GTAAAGTTACCAAAATACCCCTGTTGG
1 GTAAAATTACCAAAATACCCCTGTAGG
92565888 GTAAAAT
1 GTAAAAT
92565895 GACTATTTTG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (27 bp):
GTAAAATTACCAAAATACCCCTGTAGG
Found at i:92566297 original size:22 final size:22
Alignment explanation
Indices: 92566249--92566308 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
92566239 TTAATCTGAT
92566249 TATGGCTCTGTGCCAACCTAAA
1 TATGGCTCTGTGCCAACCTAAA
* * * * *
92566271 AATGGCTCTGTGCCATCTTGAC
1 TATGGCTCTGTGCCAACCTAAA
*
92566293 TATGGCTTTGTGCCAA
1 TATGGCTCTGTGCCAA
92566309 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
TATGGCTCTGTGCCAACCTAAA
Found at i:92569454 original size:42 final size:42
Alignment explanation
Indices: 92569323--92569517 Score: 126
Period size: 43 Copynumber: 4.6 Consensus size: 42
92569313 AGATTCTGTA
* * ** *
92569323 TAAGACCATACCTAGGATATGGCATCGGCATGCGA-ATTCGTG
1 TAAGACCATATCTGGGATATGGCATCGATATGAGACA-TCGTG
* * * * * * * * *
92569365 TAAGACCATGTTTGGGACATAGCTTCGAAAATGAGACTTTGTA
1 TAAGACCATATCTGGGATATGGCATCG-ATATGAGACATCGTG
*
92569408 TAAGACCATATGTGGGATATGGCATCGATATGAGACATCGTG
1 TAAGACCATATCTGGGATATGGCATCGATATGAGACATCGTG
** * * * *
92569450 TAAGACCATA-AGGGGACTATTGGCATCAATATGTGATC-CCATG
1 TAAGACCATATCTGGGA-TA-TGGCATCGATATGAGA-CATCGTG
*
92569493 TAAGACCATATCTAGGATATGGCAT
1 TAAGACCATATCTGGGATATGGCAT
92569518 TAGCATCTTA
Statistics
Matches: 116, Mismatches: 31, Indels: 12
0.73 0.19 0.08
Matches are distributed among these distances:
41 4 0.03
42 49 0.42
43 59 0.51
44 4 0.03
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.27
Consensus pattern (42 bp):
TAAGACCATATCTGGGATATGGCATCGATATGAGACATCGTG
Found at i:92575621 original size:21 final size:22
Alignment explanation
Indices: 92575588--92575628 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
92575578 TTCATTTATG
*
92575588 TTTCATTGGCACATA-ATCATA
1 TTTCATTGCCACATACATCATA
*
92575609 TTTCATTTCCACATACATCA
1 TTTCATTGCCACATACATCA
92575629 CAATACATTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.32, C:0.24, G:0.05, T:0.39
Consensus pattern (22 bp):
TTTCATTGCCACATACATCATA
Found at i:92576045 original size:26 final size:26
Alignment explanation
Indices: 92576016--92576075 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 26
92576006 GCCCTTTGAA
* * * *
92576016 TCATTCGATATTTCGCACACTAAGTT
1 TCATTCAATATCTCGCACACTAAATG
92576042 TCATTCTCAATATCTCGCACACTAAATG
1 TCA-T-TCAATATCTCGCACACTAAATG
92576070 TCATTC
1 TCATTC
92576076 TCAATATTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 5 0.18
27 2 0.07
28 21 0.75
ACGTcount: A:0.28, C:0.27, G:0.08, T:0.37
Consensus pattern (26 bp):
TCATTCAATATCTCGCACACTAAATG
Found at i:92576059 original size:28 final size:28
Alignment explanation
Indices: 92576023--92576101 Score: 113
Period size: 28 Copynumber: 2.8 Consensus size: 28
92576013 GAATCATTCG
*
92576023 ATATTTCGCACACTAAGTTTCATTCTCA
1 ATATTTCGCACACTAAGTGTCATTCTCA
* *
92576051 ATATCTCGCACACTAAATGTCATTCTCA
1 ATATTTCGCACACTAAGTGTCATTCTCA
* *
92576079 ATATTTCGTACACTGAGTGTCAT
1 ATATTTCGCACACTAAGTGTCAT
92576102 ATTTGATTGC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.29, C:0.24, G:0.10, T:0.37
Consensus pattern (28 bp):
ATATTTCGCACACTAAGTGTCATTCTCA
Found at i:92583573 original size:23 final size:25
Alignment explanation
Indices: 92583537--92583583 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 25
92583527 CATTATTTAT
*
92583537 ATAATAATTCATATTTAAT-ATGAA
1 ATAATAATACATATTTAATGATGAA
92583561 ATAA-AATACATATTTAATGATGA
1 ATAATAATACATATTTAATGATGA
92583584 TTAATTATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 13 0.62
24 8 0.38
ACGTcount: A:0.51, C:0.04, G:0.06, T:0.38
Consensus pattern (25 bp):
ATAATAATACATATTTAATGATGAA
Found at i:92586648 original size:25 final size:25
Alignment explanation
Indices: 92586618--92586670 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
92586608 TTATTTGGAG
92586618 ATGATATGTTTATATGAATATTGAA
1 ATGATATGTTTATATGAATATTGAA
92586643 ATGATATGTTTATATGAATATTGAA
1 ATGATATGTTTATATGAATATTGAA
92586668 ATG
1 ATG
92586671 TTAAGTGATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.40, C:0.00, G:0.17, T:0.43
Consensus pattern (25 bp):
ATGATATGTTTATATGAATATTGAA
Found at i:92589727 original size:46 final size:45
Alignment explanation
Indices: 92589577--92589834 Score: 173
Period size: 46 Copynumber: 5.6 Consensus size: 45
92589567 ATTTGTGTGT
* * * * *
92589577 GAGCTAGTGTAAGACATGTCTAGGACATGCATCGACCAC-ATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCG-CCTCGA-GACGA
* * ** *
92589623 GAGCCAGTGTAAGACCATGTCTGGGACCTGGTATCGGTATTGAGACGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATC-GCCTCGAGACGA
*
92589671 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGACGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATC-GCCTCGAGACG-A
* * * *
92589718 -AGCCAGTGTAAGACATGTCTGGGACATGCATTGGCTACAAGATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGCCT-CGAGACGA
** ** ** * *
92589763 TTGTTAGTGTAAGACCATGTCTGGGACATGGCATCGAATTGAGA-TA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGCCTCGAGACGA
92589809 TGAG-CAGTGTAAGACCATGTCTGGGA
1 -GAGCCAGTGTAAGA-CATGTCTGGGA
92589835 TATGGTATTG
Statistics
Matches: 168, Mismatches: 34, Indels: 20
0.76 0.15 0.09
Matches are distributed among these distances:
45 4 0.02
46 92 0.55
47 44 0.26
48 26 0.15
49 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (45 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGCCTCGAGACGA
Found at i:92590759 original size:30 final size:28
Alignment explanation
Indices: 92590728--92590834 Score: 104
Period size: 26 Copynumber: 4.0 Consensus size: 28
92590718 TATATACTAT
92590728 TTTATGTATATATCTTTAATACTATATTA
1 TTTATGTATATAT-TTTAATACTATATTA
* *
92590757 TTTATATATATATTTT--TAC-ATGTTA
1 TTTATGTATATATTTTAATACTATATTA
92590782 TCTTATGTATATATTTTAAT--TATATTA
1 T-TTATGTATATATTTTAATACTATATTA
* *
92590809 TGTATGTAT-T-TTTT-ACACTATATTA
1 TTTATGTATATATTTTAATACTATATTA
92590834 T
1 T
92590835 GTACATATTT
Statistics
Matches: 66, Mismatches: 6, Indels: 16
0.75 0.07 0.18
Matches are distributed among these distances:
23 1 0.02
24 4 0.06
25 15 0.23
26 24 0.36
27 6 0.09
28 4 0.06
29 12 0.18
ACGTcount: A:0.32, C:0.06, G:0.05, T:0.58
Consensus pattern (28 bp):
TTTATGTATATATTTTAATACTATATTA
Found at i:92590853 original size:20 final size:20
Alignment explanation
Indices: 92590828--92590886 Score: 57
Period size: 23 Copynumber: 2.9 Consensus size: 20
92590818 TTTTTACACT
92590828 ATATTATGTACATATTTTTA
1 ATATTATGTACATATTTTTA
** *
92590848 ATATTATCACGTATTTATTTTTT
1 ATATTAT---GTACATATTTTTA
92590871 ATA-TATGTACATATTT
1 ATATTATGTACATATTT
92590887 ATGTAGTATT
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
19 8 0.26
20 7 0.23
22 3 0.10
23 13 0.42
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.56
Consensus pattern (20 bp):
ATATTATGTACATATTTTTA
Found at i:92591027 original size:16 final size:15
Alignment explanation
Indices: 92591006--92591035 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
92590996 ATTATTATCC
92591006 TAATATTTTGATATTT
1 TAATATTTT-ATATTT
92591022 TAATATTTTATATT
1 TAATATTTTATATT
92591036 ATTCACATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.63
Consensus pattern (15 bp):
TAATATTTTATATTT
Found at i:92603073 original size:75 final size:72
Alignment explanation
Indices: 92602964--92603223 Score: 315
Period size: 75 Copynumber: 3.5 Consensus size: 72
92602954 ACGGTTCAAA
* * *
92602964 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGACTGACATGTTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTC-A-GGACACGCTGAGGTATTTTCAATT
*
92603029 TCTGCCTTTC
64 TCTG-ATTTC
* *
92603039 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
*
92603104 TATATTTC
66 T-GATTTC
* *
92603112 AAAATAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTT-GAT
1 -AAA-AATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT-ATTTTCAAT
** *
92603176 CCCTGTTTTC
63 TTCTGATTTC
* * *
92603186 AAAAATCAACTCATATTATGAGAGTTGAGTGGAGCCTC
1 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTC
92603224 GGATTACATG
Statistics
Matches: 164, Mismatches: 17, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
72 31 0.19
73 30 0.18
74 8 0.05
75 91 0.55
76 4 0.02
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.30
Consensus pattern (72 bp):
AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
TGATTTC
Found at i:92604661 original size:24 final size:23
Alignment explanation
Indices: 92604613--92604664 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
92604603 CTTTTTTTGT
*
92604613 TATTATTATATTTCTTAATATTA
1 TATTATTATATTTCTTAATAATA
*
92604636 TATTATATATATATTCTT-TTAATA
1 TATTAT-TATAT-TTCTTAATAATA
92604660 TATTA
1 TATTA
92604665 GGTATATTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 6 0.24
24 14 0.56
25 5 0.20
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.60
Consensus pattern (23 bp):
TATTATTATATTTCTTAATAATA
Found at i:92604718 original size:25 final size:26
Alignment explanation
Indices: 92604690--92604748 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
92604680 CTATATTACG
**
92604690 TATATATATT-ATACTATTTTATGTA
1 TATATATATTAATACTATAGTATGTA
* *
92604715 TATATCT-TTAATACTATAGTATTTA
1 TATATATATTAATACTATAGTATGTA
92604740 TATATATAT
1 TATATATAT
92604749 ATTACATGTT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
24 2 0.07
25 24 0.89
26 1 0.04
ACGTcount: A:0.37, C:0.05, G:0.03, T:0.54
Consensus pattern (26 bp):
TATATATATTAATACTATAGTATGTA
Found at i:92604787 original size:22 final size:22
Alignment explanation
Indices: 92604757--92604864 Score: 78
Period size: 22 Copynumber: 4.9 Consensus size: 22
92604747 ATATTACATG
*
92604757 TTATCTTATGTATATATTTTAA
1 TTATATTATGTATATATTTTAA
*
92604779 TTATATTATGTATGTATTTTTTACA
1 TTATATTATGTA--TATATTTTA-A
* *
92604804 CTATATTATGTACATATTTTTAA
1 TTATATTATGTATATA-TTTTAA
* * * *
92604827 TAATATCACGTATTTATTTT--
1 TTATATTATGTATATATTTTAA
*
92604847 TTATA-TATGTACATATTT
1 TTATATTATGTATATATTT
92604865 ATGTAGTATT
Statistics
Matches: 66, Mismatches: 16, Indels: 11
0.71 0.17 0.12
Matches are distributed among these distances:
19 9 0.14
20 4 0.06
22 15 0.23
23 13 0.20
24 13 0.20
25 12 0.18
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.56
Consensus pattern (22 bp):
TTATATTATGTATATATTTTAA
Found at i:92604813 original size:25 final size:24
Alignment explanation
Indices: 92604763--92604849 Score: 70
Period size: 24 Copynumber: 3.5 Consensus size: 24
92604753 CATGTTATCT
*
92604763 TATGTATATATTTTAATTATATTATG
1 TATGTAT-T-TTTTAACTATATTATG
92604789 TATGTATTTTTTACACTATATTATG
1 TATGTATTTTTTA-ACTATATTATG
** * *
92604814 TACATA-TTTTTAA-TAATATCACG
1 TATGTATTTTTTAACT-ATATTATG
*
92604837 TATTTATTTTTTA
1 TATGTATTTTTTA
92604850 TATATGTACA
Statistics
Matches: 51, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
22 1 0.02
23 11 0.22
24 17 0.33
25 15 0.29
26 7 0.14
ACGTcount: A:0.32, C:0.06, G:0.06, T:0.56
Consensus pattern (24 bp):
TATGTATTTTTTAACTATATTATG
Found at i:92604832 original size:23 final size:22
Alignment explanation
Indices: 92604762--92604854 Score: 80
Period size: 23 Copynumber: 4.0 Consensus size: 22
92604752 ACATGTTATC
92604762 TTATGTATATA-TTTTAATTATA
1 TTATGTATATATTTTTAA-TATA
*
92604784 TTATGTATGTATTTTTTACACTATA
1 TTATGTATATA-TTTTTA-A-TATA
*
92604809 TTATGTACATATTTTTAATAATA
1 TTATGTATATATTTTTAAT-ATA
* * * *
92604832 TCACGTATTTATTTTTTATATA
1 TTATGTATATATTTTTAATATA
92604854 T
1 T
92604855 GTACATATTT
Statistics
Matches: 58, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
22 15 0.26
23 18 0.31
24 11 0.19
25 14 0.24
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.57
Consensus pattern (22 bp):
TTATGTATATATTTTTAATATA
Found at i:92604880 original size:101 final size:99
Alignment explanation
Indices: 92604702--92604888 Score: 211
Period size: 101 Copynumber: 1.8 Consensus size: 99
92604692 TATATATTAT
* * *
92604702 ACTATTTTATGTATATATCTTTAATACTATAGTATTTATATATATATATTACATGTTATCTTATG
1 ACTATATTATGTACATATCTTTAATAATATAGTATTTATATATATATATTACA--TTATCTTATG
*
92604767 TATATATTTTAATTA-TATTATGTATGTATTTTTTAC
64 TATATATATTAA-TAGTATTATGTATGTATTTTTTAC
* * *
92604803 ACTATATTATGTACATATTTTTAATAATATCACGTATTTATTTTTTATATATGTACA-TAT-TTA
1 ACTATATTATGTACATATCTTTAATAATAT-A-GTATTTA-TATATATATAT-TACATTATCTTA
92604866 TGTAGTAT-TATTAATAGTATTAT
62 TGTA-TATATATTAATAGTATTAT
92604889 TTTTAAACAT
Statistics
Matches: 73, Mismatches: 7, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
100 2 0.03
101 44 0.60
102 7 0.10
103 7 0.10
104 9 0.12
105 4 0.05
ACGTcount: A:0.34, C:0.06, G:0.06, T:0.54
Consensus pattern (99 bp):
ACTATATTATGTACATATCTTTAATAATATAGTATTTATATATATATATTACATTATCTTATGTA
TATATATTAATAGTATTATGTATGTATTTTTTAC
Found at i:92605006 original size:16 final size:15
Alignment explanation
Indices: 92604982--92605016 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
92604972 TAATTATTAT
92604982 TATTCTAATATCTTTA
1 TATTCTAATAT-TTTA
*
92604998 TATTTTAATATTTTA
1 TATTCTAATATTTTA
92605013 TATT
1 TATT
92605017 ATTCACATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (15 bp):
TATTCTAATATTTTA
Found at i:92617372 original size:16 final size:17
Alignment explanation
Indices: 92617332--92617373 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
92617322 AAAAAGATGA
92617332 TAATTATTAATATATATT
1 TAATTA-TAATATATATT
*
92617350 TCCATTATAATATATA-T
1 T-AATTATAATATATATT
92617367 TAATTAT
1 TAATTAT
92617374 TATCAACTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
16 5 0.24
17 2 0.10
18 10 0.48
19 4 0.19
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (17 bp):
TAATTATAATATATATT
Found at i:92617524 original size:127 final size:122
Alignment explanation
Indices: 92617309--92617535 Score: 291
Period size: 127 Copynumber: 1.8 Consensus size: 122
92617299 TAGAATAAAT
92617309 GTTTTTAATTAAAAAAAAGATGATAATTATTAATATATATTTCCATTATAATATATATTAATTAT
1 GTTTTTAATTAAAAAAAAGATGATAATTATTAATATATATTTCCATTATAATATATATTAATTAT
*
92617374 TATCAACTTTATATAGAGTTAGGATTAGTGTTAATTTCATCATATTTTATTTGATAA
66 TATCAACTTTACATAGAGTTAGGATTAGTGTTAATTTCATCATATTTTATTTGATAA
* * *
92617431 GTTTTTAA-TAATAATAAGATGATAATCT-TTAATATATAATTATATCTATTATAATTTATATAT
1 GTTTTTAATTAAAAAAAAGATGATAAT-TATTAATATAT-A-T-T-TCCATTATAA--TATATAT
* *
92617494 TAATTTTTATCAA-TTTAGCATAG-GATTAGGATTAGTTTTAAT
59 TAATTATTATCAACTTTA-CATAGAG-TTAGGATTAGTGTTAAT
92617536 CATATCTCAT
Statistics
Matches: 90, Mismatches: 6, Indels: 13
0.83 0.06 0.12
Matches are distributed among these distances:
121 25 0.28
122 10 0.11
123 1 0.01
124 1 0.01
125 9 0.10
126 5 0.06
127 39 0.43
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (122 bp):
GTTTTTAATTAAAAAAAAGATGATAATTATTAATATATATTTCCATTATAATATATATTAATTAT
TATCAACTTTACATAGAGTTAGGATTAGTGTTAATTTCATCATATTTTATTTGATAA
Found at i:92621094 original size:22 final size:19
Alignment explanation
Indices: 92621069--92621116 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 19
92621059 TACTGTTTTG
92621069 ATTAAATTCTTGTCAAAAAATA
1 ATTAAATT-TT-T-AAAAAATA
*
92621091 ATT-AATTTTTATAAAATA
1 ATTAAATTTTTAAAAAATA
92621109 ATTAAATT
1 ATTAAATT
92621117 ATACTTAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 10 0.42
19 5 0.21
20 2 0.08
21 4 0.17
22 3 0.12
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (19 bp):
ATTAAATTTTTAAAAAATA
Found at i:92629289 original size:12 final size:12
Alignment explanation
Indices: 92629272--92629296 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
92629262 GAAATCTTCG
92629272 ATTTCTTTCCCC
1 ATTTCTTTCCCC
92629284 ATTTCTTTCCCC
1 ATTTCTTTCCCC
92629296 A
1 A
92629297 AAAAATGTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.12, C:0.40, G:0.00, T:0.48
Consensus pattern (12 bp):
ATTTCTTTCCCC
Found at i:92630302 original size:26 final size:26
Alignment explanation
Indices: 92630266--92630321 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
92630256 TAGTAAATGC
92630266 TATTTTGAAATTAT-TATTAAGTATTA
1 TATTTTGAAATT-TGTATTAAGTATTA
* **
92630292 TATTTTTAAATTTGTATTATTTATTA
1 TATTTTGAAATTTGTATTAAGTATTA
92630318 TATT
1 TATT
92630322 ATTATTATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 1 0.04
26 25 0.96
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (26 bp):
TATTTTGAAATTTGTATTAAGTATTA
Found at i:92634299 original size:40 final size:40
Alignment explanation
Indices: 92634225--92634370 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
92634215 CCGCACCAAG
* * * * * *
92634225 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
92634265 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * *
92634305 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
*
92634345 GCCTTCGGGTCTTAACCCGGATATAA
1 GCCTTCGGGTCTTAGCCCGGATATAA
92634371 TTTTCAGCAT
Statistics
Matches: 90, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 90 1.00
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:92634385 original size:40 final size:40
Alignment explanation
Indices: 92634257--92634408 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
92634247 ATCACGATTT
* * * * *
92634257 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
92634297 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
* * **
92634337 GCACAATTGCCTTCGGGTCTTAACCCGGATATA-ATTTTCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACT-A
* * *
92634377 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
92634409 CATTCAATTT
Statistics
Matches: 97, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
39 4 0.04
40 91 0.94
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
Found at i:92646042 original size:89 final size:93
Alignment explanation
Indices: 92645877--92646048 Score: 226
Period size: 89 Copynumber: 1.9 Consensus size: 93
92645867 ACACTGAAAC
* * * * *
92645877 AGATCCAAGATAACAAGATTTGGCTTCTCTATCTTCGACGGAGAGCAAATCGAAGACATAGCAGA
1 AGATCCAAGATAACAAGATCTGGCGTCTCCATATTCGACGGAGAGC-AA-CGAACACATAGCAGA
* *
92645942 TCTGACTTTCAGATGTTTTCACATTAAAGT
64 TCTAACCTTCAGATGTTTTCACATTAAAGT
*
92645972 AGATCCAAGATAAC-AGATCTGGCGTCTCCATATTCGATGGAGAGC-A-G-ACACATAGCAGATC
1 AGATCCAAGATAACAAGATCTGGCGTCTCCATATTCGACGGAGAGCAACGAACACATAGCAGATC
92646033 TAACCTTCAGATGTTT
66 TAACCTTCAGATGTTT
92646049 ATACTGAAGC
Statistics
Matches: 69, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
89 27 0.39
90 1 0.01
92 1 0.01
94 26 0.38
95 14 0.20
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (93 bp):
AGATCCAAGATAACAAGATCTGGCGTCTCCATATTCGACGGAGAGCAACGAACACATAGCAGATC
TAACCTTCAGATGTTTTCACATTAAAGT
Found at i:92646126 original size:87 final size:87
Alignment explanation
Indices: 92646021--92646254 Score: 344
Period size: 87 Copynumber: 2.7 Consensus size: 87
92646011 GAGAGCAGAC
* *
92646021 ACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGT
1 ACATAGCAGATCTGACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTCT
92646086 GTTTACAAGAAGCAAATCGAAG
66 GTTTACAAGAAGCAAATCGAAG
* * *
92646108 ACATAGCAGGTCTGACCTTCATATGATTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTCT
1 ACATAGCAGATCTGACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTCT
*
92646173 GTTTACAAGGAGCAAATCGAAG
66 GTTTACAAGAAGCAAATCGAAG
* * ** * *
92646195 ACATAGCAGATTTGACTTTCACG-TGTTTACGCTGAAGCAAATCTAAGATGATTTGGCATC
1 ACATAGCAGATCTGACCTTCA-GATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATC
92646255 TCTGTATTGT
Statistics
Matches: 131, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
87 131 1.00
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (87 bp):
ACATAGCAGATCTGACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTCT
GTTTACAAGAAGCAAATCGAAG
Found at i:92646276 original size:87 final size:83
Alignment explanation
Indices: 92646021--92646282 Score: 274
Period size: 87 Copynumber: 3.0 Consensus size: 83
92646011 GAGAGCAGAC
*
92646021 ACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATC-CTTG
1 ACATAGCAGATCTGACCTTCAG-TGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCTC-TG
*
92646085 TGTTTACAAGAAGCAAATCGAAG
64 T-TTT-CAGGAA-CAAATCGAAG
* * *
92646108 ACATAGCAGGTCTGACCTTCATATGATTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTCT
1 ACATAGCAGATCTGACCTTCA-GTGTTTATACTGAAGCAGATCCAAGATGATTTGGCAT-C-TCT
* *
92646173 GTTTACAAGGAGCAAATCGAAG
63 GTTTTC-AGGAACAAATCGAAG
* * ** * *
92646195 ACATAGCAGATTTGACTTTCACGTGTTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGT
1 ACATAGCAGATCTGACCTTCA-GTGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCTCTGT
*
92646260 ATTGTCAGGGAACAAATTGAAG
65 -TT-TCA-GGAACAAATCGAAG
92646282 A
1 A
92646283 AGCAGATTTG
Statistics
Matches: 147, Mismatches: 20, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
85 5 0.03
86 4 0.03
87 128 0.87
88 6 0.04
89 3 0.02
90 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.29
Consensus pattern (83 bp):
ACATAGCAGATCTGACCTTCAGTGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCTCTGTT
TTCAGGAACAAATCGAAG
Found at i:92647001 original size:12 final size:12
Alignment explanation
Indices: 92646984--92647008 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
92646974 GAAATCTTCG
92646984 ATTTCTTTCCCC
1 ATTTCTTTCCCC
92646996 ATTTCTTTCCCC
1 ATTTCTTTCCCC
92647008 A
1 A
92647009 AAAAATGTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.12, C:0.40, G:0.00, T:0.48
Consensus pattern (12 bp):
ATTTCTTTCCCC
Found at i:92648015 original size:26 final size:26
Alignment explanation
Indices: 92647979--92648034 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
92647969 TAGTAAATGC
92647979 TATTTTGAAA-TTATTATTAAGTATTA
1 TATTTTGAAATTTA-TATTAAGTATTA
* **
92648005 TATTTTTAAATTTATATTATTTATTA
1 TATTTTGAAATTTATATTAAGTATTA
92648031 TATT
1 TATT
92648035 ATTATTATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 23 0.88
27 3 0.12
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.61
Consensus pattern (26 bp):
TATTTTGAAATTTATATTAAGTATTA
Found at i:92648033 original size:12 final size:11
Alignment explanation
Indices: 92648016--92648045 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
92648006 ATTTTTAAAT
92648016 TTATATTATTTA
1 TTATATTA-TTA
92648028 TTATATTATTA
1 TTATATTATTA
92648039 TTATATT
1 TTATATT
92648046 GTGTATATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.56
12 8 0.44
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (11 bp):
TTATATTATTA
Found at i:92656994 original size:30 final size:30
Alignment explanation
Indices: 92656958--92657088 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
92656948 GACAAGATTG
* * * * *
92656958 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
92656988 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
92657016 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
92657046 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
92657075 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
92657089 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:92657049 original size:58 final size:58
Alignment explanation
Indices: 92656958--92657088 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
92656948 GACAAGATTG
* * * * * *
92656958 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
92657016 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
92657075 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
92657089 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:92661153 original size:24 final size:24
Alignment explanation
Indices: 92661121--92661183 Score: 117
Period size: 24 Copynumber: 2.6 Consensus size: 24
92661111 AATCTCAATT
92661121 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
92661145 GCACTATGTGTGCGATTTATTATG
1 GCACTATGTGTGCGATTTACTATG
92661169 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
92661184 ACATAATAAG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.21, C:0.16, G:0.27, T:0.37
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:92666538 original size:3 final size:3
Alignment explanation
Indices: 92666530--92666567 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
92666520 TAACCATAGC
92666530 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
92666568 CAATTTCAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:92669034 original size:2 final size:2
Alignment explanation
Indices: 92669027--92669065 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
92669017 ACTTAATTAA
**
92669027 AT AT AT AT AT AT AT AT AT AT GC AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
92669066 AAAGCGGAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (2 bp):
AT
Found at i:92681272 original size:26 final size:24
Alignment explanation
Indices: 92681212--92681271 Score: 102
Period size: 24 Copynumber: 2.5 Consensus size: 24
92681202 AATCTCAATT
*
92681212 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCAATTTACTATG
*
92681236 GCACTATGTGTGCAATTTATTATG
1 GCACTATGTGTGCAATTTACTATG
92681260 GCACTATGTGTG
1 GCACTATGTGTG
92681272 TGAACATAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.22, C:0.15, G:0.25, T:0.38
Consensus pattern (24 bp):
GCACTATGTGTGCAATTTACTATG
Found at i:92699419 original size:40 final size:40
Alignment explanation
Indices: 92699311--92699520 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
92699301 CGGGATTTAA
* * * * *
92699311 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
92699351 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
92699391 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
92699431 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
92699471 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
92699511 CCGGATATAT
1 CCGGATATAT
92699521 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:92707553 original size:40 final size:40
Alignment explanation
Indices: 92707445--92707654 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
92707435 CGGGATTTAA
* * * * *
92707445 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
92707485 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
92707525 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
92707565 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
92707605 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
92707645 CCGGATATAT
1 CCGGATATAT
92707655 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:92711117 original size:28 final size:28
Alignment explanation
Indices: 92711045--92711117 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
92711035 TATATATGTG
*
92711045 GCACTTAGTGTGTGAAATATTGATAATA
1 GCACTTAGTGTGTGAGATATTGATAATA
* *
92711073 GCACTTGGTGTGCGAGATATTGAGT-AT-
1 GCACTTAGTGTGTGAGATATTGA-TAATA
92711100 GACACTTAGTGTGTGAGA
1 G-CACTTAGTGTGTGAGA
92711118 CATCGAAGAT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
27 1 0.03
28 36 0.95
29 1 0.03
ACGTcount: A:0.29, C:0.10, G:0.29, T:0.33
Consensus pattern (28 bp):
GCACTTAGTGTGTGAGATATTGATAATA
Found at i:92712821 original size:31 final size:32
Alignment explanation
Indices: 92712760--92712830 Score: 117
Period size: 32 Copynumber: 2.2 Consensus size: 32
92712750 GAGCCATATA
*
92712760 GGCGTGTGTGACCACACGGCCTAACCCACACG
1 GGCGTGTGTGACCACACGACCTAACCCACACG
*
92712792 GGCGTGTGTGACCACATGACCT-ACCCACACG
1 GGCGTGTGTGACCACACGACCTAACCCACACG
92712823 GGCGTGTG
1 GGCGTGTG
92712831 ACCCTGTTTC
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
31 17 0.46
32 20 0.54
ACGTcount: A:0.20, C:0.34, G:0.31, T:0.15
Consensus pattern (32 bp):
GGCGTGTGTGACCACACGACCTAACCCACACG
Found at i:92713237 original size:48 final size:50
Alignment explanation
Indices: 92713115--92713292 Score: 162
Period size: 48 Copynumber: 3.7 Consensus size: 50
92713105 CGAAATCGAG
* * * *
92713115 GCTGACGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATTCGT
1 GCTGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCACATATACGT
* *
92713165 G-TCGATGCCATGTCTCAGACATGGTCTTACACTGGCAC-CTC-TATACGT
1 GCT-GATGCCATGTCCCAGACATGGTCTTACACTGGCACTCACATATACGT
* * *
92713213 GCTGATGCCATGTCCCAAACATGGTCTTGCACT-G-A--CACATCT-CGTT
1 GCTGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCACATATACG-T
*
92713259 G-TCGATG-CATGTCCCAGACCT-GTCTTACACTGGC
1 GCT-GATGCCATGTCCCAGACATGGTCTTACACTGGC
92713293 TCTTGTCTTA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
44 9 0.08
45 18 0.17
46 9 0.08
47 1 0.01
48 34 0.32
49 4 0.04
50 32 0.30
ACGTcount: A:0.21, C:0.31, G:0.20, T:0.28
Consensus pattern (50 bp):
GCTGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCACATATACGT
Found at i:92715319 original size:13 final size:13
Alignment explanation
Indices: 92715303--92715330 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
92715293 ATTCGAGTCT
92715303 ATAATTCATATTA
1 ATAATTCATATTA
92715316 ATAATTCATATTA
1 ATAATTCATATTA
92715329 AT
1 AT
92715331 TATGAATAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.46
Consensus pattern (13 bp):
ATAATTCATATTA
Found at i:92719797 original size:67 final size:67
Alignment explanation
Indices: 92719689--92719823 Score: 270
Period size: 67 Copynumber: 2.0 Consensus size: 67
92719679 TTCAATTTGT
92719689 ATATATAGGTGTTCCATGCAAGATCATGAACTCCAACCAAGGTCTTTTCTATATTTGGTGATGTA
1 ATATATAGGTGTTCCATGCAAGATCATGAACTCCAACCAAGGTCTTTTCTATATTTGGTGATGTA
92719754 GA
66 GA
92719756 ATATATAGGTGTTCCATGCAAGATCATGAACTCCAACCAAGGTCTTTTCTATATTTGGTGATGTA
1 ATATATAGGTGTTCCATGCAAGATCATGAACTCCAACCAAGGTCTTTTCTATATTTGGTGATGTA
92719821 GA
66 GA
92719823 A
1 A
92719824 ACTAACATCA
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 68 1.00
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.34
Consensus pattern (67 bp):
ATATATAGGTGTTCCATGCAAGATCATGAACTCCAACCAAGGTCTTTTCTATATTTGGTGATGTA
GA
Found at i:92720050 original size:49 final size:49
Alignment explanation
Indices: 92719996--92720090 Score: 145
Period size: 49 Copynumber: 1.9 Consensus size: 49
92719986 ATTTATTTAT
* * * * *
92719996 AGGTTGAAAAACCTTATTCTAATTAATGTCAAATAGATGAAGTATAGTG
1 AGGTTGAAAAACCTTATTCTAATCAATATAAAATAAAAGAAGTATAGTG
92720045 AGGTTGAAAAACCTTATTCTAATCAATATAAAATAAAAGAAGTATA
1 AGGTTGAAAAACCTTATTCTAATCAATATAAAATAAAAGAAGTATA
92720091 CTTCTATATG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
49 41 1.00
ACGTcount: A:0.46, C:0.08, G:0.15, T:0.31
Consensus pattern (49 bp):
AGGTTGAAAAACCTTATTCTAATCAATATAAAATAAAAGAAGTATAGTG
Found at i:92721160 original size:39 final size:39
Alignment explanation
Indices: 92721106--92721185 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
92721096 TCTTTGAGAA
92721106 TCTCCATCCCAAGTATCTTATTTGCTACTCTCAAATCCT
1 TCTCCATCCCAAGTATCTTATTTGCTACTCTCAAATCCT
92721145 TCTCCATCCCAAGTATCTTATTTGCTACTCTCAAATCCT
1 TCTCCATCCCAAGTATCTTATTTGCTACTCTCAAATCCT
92721184 TC
1 TC
92721186 ATCTCAAATT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.23, C:0.34, G:0.05, T:0.39
Consensus pattern (39 bp):
TCTCCATCCCAAGTATCTTATTTGCTACTCTCAAATCCT
Found at i:92725149 original size:60 final size:60
Alignment explanation
Indices: 92725080--92725212 Score: 164
Period size: 60 Copynumber: 2.2 Consensus size: 60
92725070 AACTGGGCTT
*
92725080 TAGCCCATATTAATATTAATCTGGGCCATAGCCC-CTTACAGTA-TC-AGAGTATATTGGGCC
1 TAGCCCATATTAATATTAATCTGGGCCATAGCCCTATTACA--ACTCGAGA-TATATTGGGCC
* * *
92725140 TAGCCCATATCAGTATTAATCTGGGCCGTAGCCCTATTACAACTCGAGATATATTGGGCC
1 TAGCCCATATTAATATTAATCTGGGCCATAGCCCTATTACAACTCGAGATATATTGGGCC
* *
92725200 TTGGCCATATTAA
1 TAGCCCATATTAA
92725213 CACAGTTGGG
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
59 1 0.02
60 53 0.85
61 8 0.13
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (60 bp):
TAGCCCATATTAATATTAATCTGGGCCATAGCCCTATTACAACTCGAGATATATTGGGCC
Found at i:92725558 original size:26 final size:27
Alignment explanation
Indices: 92725529--92725592 Score: 76
Period size: 26 Copynumber: 2.4 Consensus size: 27
92725519 TAAAATTAAC
* *
92725529 CCTAGGGGTATAACGGTCATTTT-GTA
1 CCTAGGGGTATAACGGTAATTTTCATA
* *
92725555 CCTAGGGGTAAAATGGTAATTTTCATA
1 CCTAGGGGTATAACGGTAATTTTCATA
*
92725582 CTTAGGGGTAT
1 CCTAGGGGTAT
92725593 TTTAGTAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
26 20 0.65
27 11 0.35
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.34
Consensus pattern (27 bp):
CCTAGGGGTATAACGGTAATTTTCATA
Found at i:92727517 original size:3 final size:3
Alignment explanation
Indices: 92727509--92727535 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
92727499 AAACATACTA
92727509 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
92727536 TAAAACATCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:92731319 original size:41 final size:41
Alignment explanation
Indices: 92731274--92731391 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
92731264 TGAAAGATAA
92731274 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
92731315 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
92731345 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
92731386 ATGTAG
1 ATGTAG
92731392 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:92731333 original size:71 final size:71
Alignment explanation
Indices: 92731249--92731405 Score: 314
Period size: 71 Copynumber: 2.2 Consensus size: 71
92731239 AGATGTATCC
92731249 GACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACAC
1 GACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACAC
92731314 CATGTA
66 CATGTA
92731320 GACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACAC
1 GACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACAC
92731385 CATGTA
66 CATGTA
92731391 GACAAGAGAGCTACG
1 GACAAGAGAGCTACG
92731406 AGACAAATCG
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 86 1.00
ACGTcount: A:0.36, C:0.17, G:0.29, T:0.18
Consensus pattern (71 bp):
GACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACAC
CATGTA
Found at i:92732015 original size:36 final size:36
Alignment explanation
Indices: 92731968--92732040 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
92731958 TTATTGATAC
92731968 TAGTTTTAAATGAAACAGACTTCAGGGTTGTTTGAA
1 TAGTTTTAAATGAAACAGACTTCAGGGTTGTTTGAA
92732004 TAGTTTTAAATGAAACAGACTTCAGGGTTGTTTGAA
1 TAGTTTTAAATGAAACAGACTTCAGGGTTGTTTGAA
92732040 T
1 T
92732041 TGTGTACTGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.33, C:0.08, G:0.22, T:0.37
Consensus pattern (36 bp):
TAGTTTTAAATGAAACAGACTTCAGGGTTGTTTGAA
Found at i:92733815 original size:41 final size:40
Alignment explanation
Indices: 92733707--92733821 Score: 112
Period size: 37 Copynumber: 3.0 Consensus size: 40
92733697 TTGGATAATT
* **
92733707 CGAAGTAATAGATTGACACCCAGTGTCTCATCGGCCTTTC
1 CGAAGTAATAGTTTGACACCCAGTGTCTCATCGAACTTTC
* * ** *
92733747 CGAAGTAA-A-TTAG-TACCCAGTACCTCATCGAATTTATC
1 CGAAGTAATAGTTTGACACCCAGTGTCTCATCGAACTT-TC
*
92733785 CGAAGCAATAGTTTGACACCCAGTGTCTCATC-AACTT
1 CGAAGTAATAGTTTGACACCCAGTGTCTCATCGAACTT
92733822 GAGTAATCCC
Statistics
Matches: 57, Mismatches: 14, Indels: 8
0.72 0.18 0.10
Matches are distributed among these distances:
37 16 0.28
38 11 0.19
39 2 0.04
40 15 0.26
41 13 0.23
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.28
Consensus pattern (40 bp):
CGAAGTAATAGTTTGACACCCAGTGTCTCATCGAACTTTC
Found at i:92745464 original size:38 final size:38
Alignment explanation
Indices: 92745422--92745508 Score: 174
Period size: 38 Copynumber: 2.3 Consensus size: 38
92745412 ATAGACATGC
92745422 ATGTTCGGCCACATGAATGAGTACATAAGTTGATGTGT
1 ATGTTCGGCCACATGAATGAGTACATAAGTTGATGTGT
92745460 ATGTTCGGCCACATGAATGAGTACATAAGTTGATGTGT
1 ATGTTCGGCCACATGAATGAGTACATAAGTTGATGTGT
92745498 ATGTTCGGCCA
1 ATGTTCGGCCA
92745509 TAGGTAAGCA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 49 1.00
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (38 bp):
ATGTTCGGCCACATGAATGAGTACATAAGTTGATGTGT
Found at i:92746198 original size:40 final size:41
Alignment explanation
Indices: 92746104--92746324 Score: 221
Period size: 40 Copynumber: 5.6 Consensus size: 41
92746094 TATTCGAATG
* * *
92746104 ATATCCGGGATAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTCGTGCTA-GTGACT
* * *
92746145 ATAACCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCCGAAGGCATTCGTGCTAG-TGACT
* *
92746185 ATATCCGGGCTAAGA-CCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTCGTGCTAGTGACT
*
92746225 ATATCCGGGCTAAG-TCCCGAAGGCA-TCTGTGCTAGTGACC
1 ATATCCGGGCTAAGATCCCGAAGGCATTC-GTGCTAGTGACT
* * *
92746265 ATATCCGGGCTAAGA-CCCGAAGGCCTT-GTGCAAGT-AGTT
1 ATATCCGGGCTAAGATCCCGAAGGCATTCGTGCTAGTGA-CT
92746304 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGATCCCGAAG
92746325 ATTACTTGAG
Statistics
Matches: 152, Mismatches: 18, Indels: 23
0.79 0.09 0.12
Matches are distributed among these distances:
37 1 0.01
38 14 0.09
39 15 0.10
40 92 0.61
41 29 0.19
42 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (41 bp):
ATATCCGGGCTAAGATCCCGAAGGCATTCGTGCTAGTGACT
Found at i:92755312 original size:16 final size:16
Alignment explanation
Indices: 92755291--92755328 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
92755281 AAAATACTAT
92755291 ATAAATAATTAT-TAAA
1 ATAAAT-ATTATATAAA
92755307 ATAAATATTATATAAA
1 ATAAATATTATATAAA
*
92755323 AAAAAT
1 ATAAAT
92755329 TTTGAATCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 5 0.25
16 15 0.75
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
ATAAATATTATATAAA
Found at i:92755520 original size:2 final size:2
Alignment explanation
Indices: 92755515--92755540 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
92755505 TTTTAAAAAC
92755515 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
92755541 GAATAGATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:92759415 original size:13 final size:14
Alignment explanation
Indices: 92759397--92759431 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
92759387 ATACTTAAGT
92759397 ATATAAT-ATAATA
1 ATATAATAATAATA
92759410 ATATAATAAT-ATA
1 ATATAATAATAATA
92759423 ATATAATAA
1 ATATAATAA
92759432 AACATAAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 19 0.90
14 2 0.10
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
ATATAATAATAATA
Found at i:92759431 original size:8 final size:8
Alignment explanation
Indices: 92759399--92759425 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
92759389 ACTTAAGTAT
92759399 ATAATATA
1 ATAATATA
92759407 ATAATATA
1 ATAATATA
92759415 ATAATATA
1 ATAATATA
92759423 ATA
1 ATA
92759426 TAATAAAACA
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:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (8 bp):
ATAATATA
Found at i:92763392 original size:46 final size:45
Alignment explanation
Indices: 92763290--92763418 Score: 177
Period size: 46 Copynumber: 2.8 Consensus size: 45
92763280 ACATTATGAG
*
92763290 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACAA
1 AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATCGAGACAA
* * * *
92763337 ATGCTAGTGTAAGACATGTCCGGGACATGCATCGGCCTCGAGACGTA
1 A-GCCAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGAC-AA
92763384 AGCCAGTGTAAGACATGTCTGGGACATGCATCGGC
1 AGCCAGTGTAAGACATGTCTGGGACATGCATCGGC
92763419 TAAGAGTTGT
Statistics
Matches: 73, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
46 46 0.63
47 16 0.22
48 11 0.15
ACGTcount: A:0.27, C:0.22, G:0.30, T:0.20
Consensus pattern (45 bp):
AGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGACAA
Found at i:92768920 original size:13 final size:13
Alignment explanation
Indices: 92768902--92768926 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
92768892 ATGTACTTAG
92768902 TCTTTTTTTTTTT
1 TCTTTTTTTTTTT
92768915 TCTTTTTTTTTT
1 TCTTTTTTTTTT
92768927 ATCTCAGTGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (13 bp):
TCTTTTTTTTTTT
Found at i:92770457 original size:48 final size:48
Alignment explanation
Indices: 92770374--92770491 Score: 202
Period size: 48 Copynumber: 2.5 Consensus size: 48
92770364 TGAATTTGGG
92770374 AAGCCGATGACCATAGTTGCTTCTCGAAAAGGGTTTTACCCAACCGAA
1 AAGCCGATGACCATAGTTGCTTCTCGAAAAGGGTTTTACCCAACCGAA
*
92770422 AAGCTGATGACCATAGTTGCTTCTCGGAAAA-GGTTTTACCCAACCGAA
1 AAGCCGATGACCATAGTTGCTTCTC-GAAAAGGGTTTTACCCAACCGAA
*
92770470 AAGCCGATGACTATAGTTGCTT
1 AAGCCGATGACCATAGTTGCTT
92770492 TTTAATGAAA
Statistics
Matches: 66, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
48 61 0.92
49 5 0.08
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (48 bp):
AAGCCGATGACCATAGTTGCTTCTCGAAAAGGGTTTTACCCAACCGAA
Found at i:92771998 original size:26 final size:26
Alignment explanation
Indices: 92771969--92772076 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
92771959 TGGTACAAAT
92771969 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
92771995 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
92772021 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
92772047 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
92772073 TGAT
1 TGAT
92772077 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:92774670 original size:3 final size:3
Alignment explanation
Indices: 92774662--92774710 Score: 71
Period size: 3 Copynumber: 16.3 Consensus size: 3
92774652 TCAGTGACTG
* * *
92774662 TTC TTC TTC TTT TTC TCC TTC TTC TTC TTC TTC TTG TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
92774710 T
1 T
92774711 CTGTTAAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.00, C:0.31, G:0.02, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:92774793 original size:21 final size:21
Alignment explanation
Indices: 92774767--92774807 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
92774757 CAACGTGGCA
92774767 AGTTAACTGGCCACATCAGCT
1 AGTTAACTGGCCACATCAGCT
*
92774788 AGTTAACTTGCCACATCAGC
1 AGTTAACTGGCCACATCAGC
92774808 GGTTCTGTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.24
Consensus pattern (21 bp):
AGTTAACTGGCCACATCAGCT
Found at i:92780885 original size:49 final size:49
Alignment explanation
Indices: 92780798--92780894 Score: 142
Period size: 49 Copynumber: 2.0 Consensus size: 49
92780788 TTATGCTATG
* *
92780798 CATTTCTAAACTTGGTCTTCCACTGTCTACTCTCTTATCACTATTTATA
1 CATTGCTAAACTTAGTCTTCCACTGTCTACTCTCTTATCACTATTTATA
* *
92780847 CATTGCTAAACTTAGTCTTCCACTTTCTA-TACTTTTATCACTATTTAT
1 CATTGCTAAACTTAGTCTTCCACTGTCTACT-CTCTTATCACTATTTAT
92780895 CCCTTCTAGA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
48 1 0.02
49 42 0.98
ACGTcount: A:0.24, C:0.25, G:0.05, T:0.46
Consensus pattern (49 bp):
CATTGCTAAACTTAGTCTTCCACTGTCTACTCTCTTATCACTATTTATA
Found at i:92782210 original size:43 final size:43
Alignment explanation
Indices: 92782158--92782243 Score: 120
Period size: 43 Copynumber: 2.0 Consensus size: 43
92782148 TCATATTTCA
*
92782158 TTTCTCATCTCACAATCA-TTCATCATATTTGTTATTTCAATAT
1 TTTCTCATCTCACAATCATTTC-TCATATTTGTCATTTCAATAT
* * *
92782201 TTTCTCATCTCATATTCATTTCTCATCTTTGTCATTTCAATAT
1 TTTCTCATCTCACAATCATTTCTCATATTTGTCATTTCAATAT
92782244 CAATCACATA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
43 35 0.92
44 3 0.08
ACGTcount: A:0.24, C:0.22, G:0.02, T:0.51
Consensus pattern (43 bp):
TTTCTCATCTCACAATCATTTCTCATATTTGTCATTTCAATAT
Found at i:92787960 original size:12 final size:12
Alignment explanation
Indices: 92787943--92787967 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
92787933 TCTCTAAAGC
92787943 ATTTCTTTTGAA
1 ATTTCTTTTGAA
92787955 ATTTCTTTTGAA
1 ATTTCTTTTGAA
92787967 A
1 A
92787968 GAATTCTCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.08, G:0.08, T:0.56
Consensus pattern (12 bp):
ATTTCTTTTGAA
Found at i:92811370 original size:30 final size:30
Alignment explanation
Indices: 92811334--92811434 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
92811324 GACAAGATTG
* * *
92811334 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
92811364 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
92811392 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
92811421 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
92811435 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:92811446 original size:29 final size:28
Alignment explanation
Indices: 92811363--92811438 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
92811353 AAAATTGTAC
* *
92811363 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
92811391 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
92811420 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
92811439 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:92819228 original size:30 final size:30
Alignment explanation
Indices: 92819192--92819292 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
92819182 GACAAGATTG
* * *
92819192 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
92819222 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
92819250 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
92819279 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
92819293 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:92819304 original size:29 final size:28
Alignment explanation
Indices: 92819221--92819296 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
92819211 AAAATTGTAC
* *
92819221 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
92819249 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
92819278 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
92819297 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:92827093 original size:30 final size:30
Alignment explanation
Indices: 92827057--92827157 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
92827047 GACAAGATTG
* * *
92827057 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
92827087 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
92827115 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
92827144 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
92827158 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:92827169 original size:29 final size:28
Alignment explanation
Indices: 92827086--92827161 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
92827076 AAAATTGTAC
* *
92827086 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
92827114 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
92827143 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
92827162 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:92835718 original size:2 final size:2
Alignment explanation
Indices: 92835711--92835742 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
92835701 AAAGCTTGTG
92835711 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
92835743 GTTTTGTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:92836355 original size:43 final size:43
Alignment explanation
Indices: 92836306--92836456 Score: 171
Period size: 43 Copynumber: 3.5 Consensus size: 43
92836296 GGTTACCTAG
*
92836306 ATGTGATTACATGTAAAACCATGTCTGGGACATTGGCAT-TAT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCTAT
* *
92836348 ATTGTGATTACGTGTAAGACCATGTCTAGGACATTGGCATCGT-T
1 A-TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATC-TAT
* *** * * *
92836392 ATATGATTTTGTGTAAGACCCTGTCTGGGACAGTGGCATCGAT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCTAT
*
92836435 ATGTGATAACATGTAAGACCAT
1 ATGTGATTACATGTAAGACCAT
92836457 ATCTAGGATA
Statistics
Matches: 89, Mismatches: 16, Indels: 7
0.79 0.14 0.06
Matches are distributed among these distances:
42 1 0.01
43 85 0.96
44 2 0.02
45 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.32
Consensus pattern (43 bp):
ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCTAT
Found at i:92841928 original size:21 final size:20
Alignment explanation
Indices: 92841900--92841938 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
92841890 CAAAACTTGT
92841900 ATAACTATCATCAAACATTC
1 ATAACTATCATCAAACATTC
*
92841920 ATAATCTATCATTAAACAT
1 ATAA-CTATCATCAAACAT
92841939 CAAAATACTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (20 bp):
ATAACTATCATCAAACATTC
Found at i:92842990 original size:20 final size:20
Alignment explanation
Indices: 92842965--92843005 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
92842955 TTTCATTCAT
92842965 ATCACACTTACCATATTTGA
1 ATCACACTTACCATATTTGA
92842985 ATCACACTTACCATATTTGA
1 ATCACACTTACCATATTTGA
92843005 A
1 A
92843006 CTAACTTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (20 bp):
ATCACACTTACCATATTTGA
Found at i:92843716 original size:43 final size:43
Alignment explanation
Indices: 92843631--92843716 Score: 102
Period size: 43 Copynumber: 2.0 Consensus size: 43
92843621 TCATATTTGA
* *
92843631 TTTCTCATCTCACAATCATTTCTCATATTTTCCATTTTAATAT
1 TTTCTCATCTCACAATCATTTCTCATATTTTCCACTTCAATAT
* * * *
92843674 TTTCTCATCTCATATTTATTTCTCATCTTTGT-CACTTCAATAT
1 TTTCTCATCTCACAATCATTTCTCATATTT-TCCACTTCAATAT
92843717 CAATCACATA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
43 35 0.97
44 1 0.03
ACGTcount: A:0.23, C:0.23, G:0.01, T:0.52
Consensus pattern (43 bp):
TTTCTCATCTCACAATCATTTCTCATATTTTCCACTTCAATAT
Found at i:92847017 original size:40 final size:40
Alignment explanation
Indices: 92846871--92847103 Score: 245
Period size: 40 Copynumber: 5.8 Consensus size: 40
92846861 TGGATGATAA
* * **
92846871 CCGGGCTAAGTCCCGAAGGCATTT-TGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTATTACAT
* * * * **
92846912 CCGGGCTAAGTCCCGAAGGCATTTTGAGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCA-TTTGTGCGAGTTATTACAT
*
92846953 TCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
* * *
92846993 CCGAGCTACGTCCCGAAGGCATTTGTGTGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
* * * *
92847033 CCGGGCTAAGTCCCGAAGGCAATGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
* *
92847073 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
92847104 AGCTATATCC
Statistics
Matches: 167, Mismatches: 23, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
39 8 0.05
40 102 0.61
41 52 0.31
42 3 0.02
43 2 0.01
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
Found at i:92852477 original size:39 final size:40
Alignment explanation
Indices: 92852345--92852560 Score: 264
Period size: 40 Copynumber: 5.5 Consensus size: 40
92852335 TGGATGATAA
**
92852345 CCGGGCTAAGTCCCGAAGGCATTT-TGCGCTAG-TACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTACAT
*
92852385 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
*
92852425 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTA-AT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
* *
92852464 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
* * *
92852504 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTACAT
* *
92852543 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
92852561 TACTTGGCTT
Statistics
Matches: 161, Mismatches: 11, Indels: 10
0.88 0.06 0.05
Matches are distributed among these distances:
38 15 0.09
39 54 0.34
40 88 0.55
41 4 0.02
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
Found at i:92852486 original size:79 final size:80
Alignment explanation
Indices: 92852345--92852560 Score: 273
Period size: 79 Copynumber: 2.7 Consensus size: 80
92852335 TGGATGATAA
*
92852345 CCGGGCTAAGTCCCGAAGGCATTT-TGCGCTAG-TACTAGTTCCGGGCTAAGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTAGATCCGGGCTAAGTCCCGAAGGCATT
* *
92852408 TGTGCGAGTTATTACAT
64 GGTGCGAGTTACTACAT
*
92852425 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTA-ATCCGGGCTAAGTCCCGAAGGCATTGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGATCCGGGCTAAGTCCCGAAGGCATTGG
*
92852489 TGCGAGTTACTATAT
66 TGCGAGTTACTACAT
* * * * *
92852504 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTAGATCCGGGCTAAGTCCCGAAGG
92852561 TACTTGGCTT
Statistics
Matches: 122, Mismatches: 10, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
77 2 0.02
78 24 0.20
79 64 0.52
80 28 0.23
81 4 0.03
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGATCCGGGCTAAGTCCCGAAGGCATTGG
TGCGAGTTACTACAT
Found at i:92860545 original size:40 final size:40
Alignment explanation
Indices: 92860460--92860641 Score: 222
Period size: 40 Copynumber: 4.5 Consensus size: 40
92860450 GACGATAACT
* ** *
92860460 GGGCTAAGTCCCGAAGGCATTT-TGCGCTAGTAACTAGTTCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTACATCC
* * *
92860501 GGGCTAAGTCCCGAAGGTATTTGTGCTAGTTATTACATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACATCC
* *
92860541 GGGCTACGTCCCGAAGGCATTTGTGCGAGTTATTACATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACATCC
* * *
92860581 GGGCTAAGTCCCGAAGGCAATGGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACATCC
*
92860621 GGGCTATGTCCCGAAGGCATT
1 GGGCTAAGTCCCGAAGGCATT
92860642 AAGCGAGTAG
Statistics
Matches: 123, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
40 99 0.80
41 21 0.17
42 3 0.02
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.27
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACATCC
Found at i:92860659 original size:39 final size:39
Alignment explanation
Indices: 92860460--92860675 Score: 204
Period size: 40 Copynumber: 5.4 Consensus size: 39
92860450 GACGATAACT
* * *
92860460 GGGCTAAGTCCCGAAGGCATTTTGCGCTAGTAACTAGT-TCT
1 GGGCTAAGTCCCGAAGGCATTGTGCG--AGTTACTA-TATCC
* * * *
92860501 GGGCTAAGTCCCGAAGGTATTTGTGCTAGTTATTACATCC
1 GGGCTAAGTCCCGAAGGCA-TTGTGCGAGTTACTATATCC
* * *
92860541 GGGCTACGTCCCGAAGGCATTTGTGCGAGTTATTACATCC
1 GGGCTAAGTCCCGAAGGCA-TTGTGCGAGTTACTATATCC
*
92860581 GGGCTAAGTCCCGAAGGCAATGGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGC-ATTGTGCGAGTTACTATATCC
* **
92860621 GGGCTATGTCCCGAAGGCATTAAGCGAG-TAGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTGTGCGAGTTA-CTATATCC
* *
92860660 -GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
92860676 TACTTGGCTT
Statistics
Matches: 150, Mismatches: 21, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
38 15 0.10
39 15 0.10
40 96 0.64
41 19 0.13
42 5 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
GGGCTAAGTCCCGAAGGCATTGTGCGAGTTACTATATCC
Found at i:92864175 original size:41 final size:41
Alignment explanation
Indices: 92864130--92864223 Score: 152
Period size: 41 Copynumber: 2.3 Consensus size: 41
92864120 TCATTGGGTT
** *
92864130 TGCTCACACAAGCTGACGGTCAAAATGTAGCTACATGGTGC
1 TGCTCACACAAGCTGACGGTCAAAACATAGCTACACGGTGC
92864171 TGCTCACACAAGCTGACGGTCAAAACATAGCTACACGGTGC
1 TGCTCACACAAGCTGACGGTCAAAACATAGCTACACGGTGC
*
92864212 TACTCACACAAG
1 TGCTCACACAAG
92864224 TTAAAGAGTA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 49 1.00
ACGTcount: A:0.32, C:0.28, G:0.21, T:0.19
Consensus pattern (41 bp):
TGCTCACACAAGCTGACGGTCAAAACATAGCTACACGGTGC
Found at i:92866200 original size:27 final size:27
Alignment explanation
Indices: 92866170--92866279 Score: 139
Period size: 27 Copynumber: 4.1 Consensus size: 27
92866160 AATCTCATAT
* *
92866170 CTGTAGGCTAGTATTACTGAAATACCC
1 CTGTAGGATAGAATTACTGAAATACCC
* * *
92866197 CTGTAGGGTAGAATTATTGAAATGCCC
1 CTGTAGGATAGAATTACTGAAATACCC
* *
92866224 TTGTAGGATAGAATTACTGAAATGCCC
1 CTGTAGGATAGAATTACTGAAATACCC
* *
92866251 TTGTAGGATAGAATTACTAAAATACCC
1 CTGTAGGATAGAATTACTGAAATACCC
92866278 CT
1 CT
92866280 AATTTGTAAA
Statistics
Matches: 73, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 73 1.00
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (27 bp):
CTGTAGGATAGAATTACTGAAATACCC
Found at i:92866292 original size:27 final size:27
Alignment explanation
Indices: 92866262--92866464 Score: 210
Period size: 27 Copynumber: 7.5 Consensus size: 27
92866252 TGTAGGATAG
*
92866262 AATTACTAAAATACCCCTAATTTGTAA
1 AATTACCAAAATACCCCTAATTTGTAA
* *
92866289 AATTACCAAAATACCCCTAGTCTGTAA
1 AATTACCAAAATACCCCTAATTTGTAA
* * *
92866316 GATTACCAAAATACCCCTAATTTTTGA
1 AATTACCAAAATACCCCTAATTTGTAA
** * *
92866343 AATTACTGAAATACCCTTGATTTGTAA
1 AATTACCAAAATACCCCTAATTTGTAA
* *
92866370 AATTACCAAAATACCCCTGATTTGGAA
1 AATTACCAAAATACCCCTAATTTGTAA
* * * * *
92866397 AATTATCGAAATACCCTTGATTTGGAA
1 AATTACCAAAATACCCCTAATTTGTAA
**
92866424 AATTA-CAGAAATACCCCTAATTTACAA
1 AATTACCA-AAATACCCCTAATTTGTAA
*
92866451 AATTACAAAAATAC
1 AATTACCAAAATAC
92866465 AAAAATACCC
Statistics
Matches: 146, Mismatches: 28, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
26 1 0.01
27 144 0.99
28 1 0.01
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAATTTGTAA
Found at i:92866293 original size:54 final size:53
Alignment explanation
Indices: 92866235--92866456 Score: 202
Period size: 54 Copynumber: 4.1 Consensus size: 53
92866225 TGTAGGATAG
* * *
92866235 AATTACTGAAATGCCCTTG-TAGGATAGAATTACTAAAATACCCCTAATTTGTAA
1 AATTACTGAAATACCCTTGATTGG-TA-AATTACCAAAATACCCCTAATTTGTAA
** * * *
92866289 AATTACCAAAATACCCCT-AGTCT-GTAAGATTACCAAAATACCCCTAATTTTTGA
1 AATTACTGAAATACCCTTGA-T-TGGTAA-ATTACCAAAATACCCCTAATTTGTAA
* * *
92866343 AATTACTGAAATACCCTTGATTTGTAAAATTACCAAAATACCCCTGATTTGGAA
1 AATTACTGAAATACCCTTGATTGGT-AAATTACCAAAATACCCCTAATTTGTAA
* **
92866397 AATTA-TCGAAATACCCTTGATTTGGAAAATTA-CAGAAATACCCCTAATTTACAA
1 AATTACT-GAAATACCCTTGA-TTGGTAAATTACCA-AAATACCCCTAATTTGTAA
92866451 AATTAC
1 AATTAC
92866457 AAAAATACAA
Statistics
Matches: 137, Mismatches: 20, Indels: 21
0.77 0.11 0.12
Matches are distributed among these distances:
53 5 0.04
54 124 0.91
55 8 0.06
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (53 bp):
AATTACTGAAATACCCTTGATTGGTAAATTACCAAAATACCCCTAATTTGTAA
Found at i:92866321 original size:81 final size:81
Alignment explanation
Indices: 92866235--92866464 Score: 193
Period size: 81 Copynumber: 2.8 Consensus size: 81
92866225 TGTAGGATAG
*
92866235 AATTACTGAAATGCCCTTGTAGGATAGAATTACTAAAATACCCCTAATTTGTAAAATTACCAAAA
1 AATTACTGAAATACCCTTGTAGGATAGAATTACTAAAATACCCCTAATTTGTAAAATTACCAAAA
*
92866300 TACCCCT-AGTCTGTAA
66 TACCCCTGA-TCTGGAA
* ** * * *** * * * *
92866316 GATTACCAAAATACCCCT-AATTTTTGAAATTACTGAAATACCCTTGATTTGTAAAATTACCAAA
1 AATTACTGAAATACCCTTGTAGGATAG-AATTACTAAAATACCCCTAATTTGTAAAATTACCAAA
*
92866380 ATACCCCTGATTTGGAA
65 ATACCCCTGATCTGGAA
* ** *
92866397 AATTA-TCGAAATACCCTTGATTTGGA-A-AATTAC-AGAAATACCCCTAATTTACAAAATTACA
1 AATTACT-GAAATACCCTTG--TAGGATAGAATTACTA-AAATACCCCTAATTTGTAAAATTACC
92866458 AAAATAC
62 AAAATAC
92866465 AAAAATACCC
Statistics
Matches: 111, Mismatches: 31, Indels: 14
0.71 0.20 0.09
Matches are distributed among these distances:
80 3 0.03
81 107 0.96
82 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.30
Consensus pattern (81 bp):
AATTACTGAAATACCCTTGTAGGATAGAATTACTAAAATACCCCTAATTTGTAAAATTACCAAAA
TACCCCTGATCTGGAA
Found at i:92866482 original size:36 final size:35
Alignment explanation
Indices: 92866422--92866500 Score: 106
Period size: 36 Copynumber: 2.2 Consensus size: 35
92866412 CTTGATTTGG
* *
92866422 AAAATTACAGAAATACCCCTAATTT-ACAAAATTAC
1 AAAAATACAAAAATACCCCTAATTTCA-AAAATTAC
*
92866457 AAAAATACAAAAATACCCTTAAATTTCAAAAATTAC
1 AAAAATACAAAAATACCCCT-AATTTCAAAAATTAC
92866493 AAAAATAC
1 AAAAATAC
92866501 CATTAGCTTG
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
35 17 0.44
36 21 0.54
37 1 0.03
ACGTcount: A:0.57, C:0.18, G:0.01, T:0.24
Consensus pattern (35 bp):
AAAAATACAAAAATACCCCTAATTTCAAAAATTAC
Found at i:92866514 original size:28 final size:28
Alignment explanation
Indices: 92866450--92866528 Score: 81
Period size: 27 Copynumber: 2.9 Consensus size: 28
92866440 CTAATTTACA
* *
92866450 AAATTACAAAAA-TACAAAAATACCCTT
1 AAATTGCAAAAATTACAAAAATACCATT
*
92866477 AAATTTCAAAAATTACAAAAATACCATT
1 AAATTGCAAAAATTACAAAAATACCATT
** **
92866505 AGCTTGC-AAAATTACCGAAATACC
1 AAATTGCAAAAATTACAAAAATACC
92866529 CTTGGTTTGT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
27 26 0.59
28 18 0.41
ACGTcount: A:0.53, C:0.19, G:0.04, T:0.24
Consensus pattern (28 bp):
AAATTGCAAAAATTACAAAAATACCATT
Done.