Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 357 of 373
Found at i:118383223 original size:24 final size:24
Alignment explanation
Indices: 118383187--118383256 Score: 88
Period size: 24 Copynumber: 2.9 Consensus size: 24
118383177 TATTGACATC
*
118383187 CAAATCAGCACACATAGTGCCATT
1 CAAATCCGCACACATAGTGCCATT
* *
118383211 -AAATTCCGTACACATAGTGCTATT
1 CAAA-TCCGCACACATAGTGCCATT
*
118383235 CAAATCCGCACACTTAGTGCCA
1 CAAATCCGCACACATAGTGCCA
118383257 ATGTTGACCC
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
23 3 0.08
24 32 0.84
25 3 0.08
ACGTcount: A:0.34, C:0.29, G:0.13, T:0.24
Consensus pattern (24 bp):
CAAATCCGCACACATAGTGCCATT
Found at i:118390904 original size:24 final size:24
Alignment explanation
Indices: 118390871--118390932 Score: 88
Period size: 24 Copynumber: 2.6 Consensus size: 24
118390861 TCCAAATCAA
* *
118390871 CACACATAGTGCCATTCAATTCCG
1 CACACATAGTGCCATTCAAATCCC
*
118390895 TACACATAGTGCCATTCAAATCCC
1 CACACATAGTGCCATTCAAATCCC
*
118390919 CACACTTAGTGCCA
1 CACACATAGTGCCA
118390933 ATGTTGACCC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.31, C:0.34, G:0.11, T:0.24
Consensus pattern (24 bp):
CACACATAGTGCCATTCAAATCCC
Found at i:118394969 original size:145 final size:145
Alignment explanation
Indices: 118394809--118395639 Score: 1133
Period size: 145 Copynumber: 5.8 Consensus size: 145
118394799 ATACGAAAAT
* *
118394809 AAAAATACGAATAAAGTGCTAAAATCAAGGTTATTTATTAAAAAAATATAAAAAATACTTAAATA
1 AAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAAAATATAAAAAACACTTAAATA
*
118394874 ATACATTTGAAATATTATGTACTAAAATAATATAAAGAAATAAAATACAAAAATAATATATTTTA
66 ATACATTTGAAACATTATGTACTAAAATAATATAAAGAAATAAAATACAAAAATAATATATTTTA
118394939 AAAAATAAGATACAA
131 AAAAATAAGATACAA
* * *
118394954 AAAAATACGAATAAAGTGCTAAAATTAGGGTTATTTATTGAAAAAATATAAAAAATACTTAAATA
1 AAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAAAATATAAAAAACACTTAAATA
* * *
118395019 ATACATTTGAAACATTATGTATTAAAATAATATGAAGAAATAAAATACGAAAATAATATATTTTA
66 ATACATTTGAAACATTATGTACTAAAATAATATAAAGAAATAAAATACAAAAATAATATATTTTA
118395084 AAAAATAAGATACGAA
131 AAAAATAAGATAC-AA
* ** *
118395100 AAAAATACGAAGAAAGTG-TCAAAATCAGGGTTATTTATTAAATTAATATAAAAAACACTTACAT
1 AAAAATACGAATAAAGTGCT-AAAATCAGGGTTATTTATTAAAAAAATATAAAAAACACTTAAAT
* * * * * *
118395164 AATACATTTGAAACATTTTTTGCTAAAATAATATAAAAAAATAATATAC--GAA-AATA-A---T
65 AATACATTTGAAACATTATGTACTAAAATAATATAAAGAAATAAAATACAAAAATAATATATTTT
*
118395222 -----ATACG----AA
130 AAAAAATAAGATACAA
* *
118395229 AAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTTAAAAAACATAAAAAACACTTAAATA
1 AAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAAAATATAAAAAACACTTAAATA
*
118395294 ATACATTTGAACCATTATGTACTAAAATAATATAAAGAAATAAAATACAAAAATAATATATTTTA
66 ATACATTTGAAACATTATGTACTAAAATAATATAAAGAAATAAAATACAAAAATAATATATTTTA
*
118395359 AAAAATAAGATACGA
131 AAAAATAAGATACAA
* * *
118395374 AAAAATACAAATAAAGTGCTAAAATCAGGGTTATTTATTGAAAAAATATAAAAAATACTTAAATA
1 AAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAAAATATAAAAAACACTTAAATA
* *
118395439 ATACATTTGAAACATTATGTACTATAATAATATGAAGAAATAAAATACAAAAATAATATATTTTA
66 ATACATTTGAAACATTATGTACTAAAATAATATAAAGAAATAAAATACAAAAATAATATATTTTA
*
118395504 AAAAATAAGATATGAA
131 AAAAATAAGATA-CAA
* ** *
118395520 AAAAATACGAAGAAAGTG-TCAAAATCAGGGTTATTTATTAAATTAATATAAAAAAACACTTACA
1 AAAAATACGAATAAAGTGCT-AAAATCAGGGTTATTTATTAAAAAAATAT-AAAAAACACTTAAA
* * * * *
118395584 TAATACATTTGAAACATTTTTTGCTAAAATAATATAAA-AAATAATATACGAAAATA
64 TAATACATTTGAAACATTATGTACTAAAATAATATAAAGAAATAAAATACAAAAATA
118395640 TTTTACTTAT
Statistics
Matches: 603, Mismatches: 61, Indels: 43
0.85 0.09 0.06
Matches are distributed among these distances:
129 101 0.17
130 1 0.00
131 2 0.00
132 4 0.01
133 1 0.00
134 4 0.01
136 1 0.00
139 1 0.00
141 4 0.01
142 1 0.00
143 4 0.01
144 2 0.00
145 274 0.45
146 158 0.26
147 45 0.07
ACGTcount: A:0.56, C:0.07, G:0.08, T:0.29
Consensus pattern (145 bp):
AAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAAAATATAAAAAACACTTAAATA
ATACATTTGAAACATTATGTACTAAAATAATATAAAGAAATAAAATACAAAAATAATATATTTTA
AAAAATAAGATACAA
Found at i:118395213 original size:116 final size:123
Alignment explanation
Indices: 118395120--118395351 Score: 297
Period size: 129 Copynumber: 1.8 Consensus size: 123
118395110 AGAAAGTGTC
* * * * *
118395120 AAAATCAGGGTTATTTA-TTAAATTAATATAAAAAACACTTACATAATACATTTGAAACATTTTT
1 AAAATCAGGGTTATTTATTTAAA-AAACATAAAAAACACTTAAATAATACATTTGAAACATTATG
* *
118395184 TGCTAAAATAATATAAAAAAATAATATACGAAAATAATATACGAAAAAAATACGAATAAAGTGCT
65 TACTAAAATAATATAAAAAAATAAAATACGAAAA-AA-ATACG-AAAAAATACG-AT--AGTGCT
*
118395249 AAAATCAGGGTTATTTATTTAAAAAACATAAAAAACACTTAAATAATACATTTGAACCATTATGT
1 AAAATCAGGGTTATTTATTTAAAAAACATAAAAAACACTTAAATAATACATTTGAAACATTATGT
*
118395314 ACTAAAATAATATAAAGAAATAAAATAC-AAAAATAATA
66 ACTAAAATAATATAAAAAAATAAAATACGAAAAA-AATA
118395352 TATTTTAAAA
Statistics
Matches: 92, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
127 4 0.04
128 5 0.05
129 78 0.85
130 5 0.05
ACGTcount: A:0.55, C:0.09, G:0.07, T:0.29
Consensus pattern (123 bp):
AAAATCAGGGTTATTTATTTAAAAAACATAAAAAACACTTAAATAATACATTTGAAACATTATGT
ACTAAAATAATATAAAAAAATAAAATACGAAAAAAATACGAAAAAATACGATAGTGCT
Found at i:118395238 original size:11 final size:13
Alignment explanation
Indices: 118395188--118395239 Score: 72
Period size: 13 Copynumber: 4.2 Consensus size: 13
118395178 ATTTTTTGCT
**
118395188 AAAATAATATAAA
1 AAAATAATATACG
118395201 AAAATAATATACG
1 AAAATAATATACG
118395214 AAAATAATATACG
1 AAAATAATATACG
118395227 AAAA-AA-ATACG
1 AAAATAATATACG
118395238 AA
1 AA
118395240 TAAAGTGCTA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
11 7 0.19
12 2 0.05
13 28 0.76
ACGTcount: A:0.69, C:0.06, G:0.06, T:0.19
Consensus pattern (13 bp):
AAAATAATATACG
Found at i:118395510 original size:275 final size:275
Alignment explanation
Indices: 118394939--118395498 Score: 876
Period size: 275 Copynumber: 2.0 Consensus size: 275
118394929 ATATATTTTA
* * *
118394939 AAAAATAAGATAC-AAAAAAATACGAATAAAGTGCTAAAATTAGGGTTATTTATTGAAAAAATAT
1 AAAAATAATATACGAAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTGAAAAAACAT
* * * *
118395003 AAAAAATACTTAAATAATACATTTGAAACATTATGTATTAAAATAATATGAAGAAATAAAATACG
66 AAAAAACACTTAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAGAAATAAAATACA
*
118395068 AAAATAATATATTTTAAAAAATAAGATACGAAAAAAATACGAAGAAAGTGTCAAAATCAGGGTTA
131 AAAATAATATATTTTAAAAAATAAGATACGAAAAAAATACAAAGAAAGTGTCAAAATCAGGGTTA
* * * * *
118395133 TTTATTAAATTAATATAAAAAACACTTACATAATACATTTGAAACATTTTTTGCTAAAATAATAT
196 TTTATTAAATAAATATAAAAAACACTTAAATAATACATTTGAAACATTATGTACTAAAATAATAT
*
118395198 AAAAAAATAATATAC
261 AAAAAAATAAAATAC
* *
118395213 GAAAATAATATACGAAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTTAAAAAACAT
1 AAAAATAATATACGAAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTGAAAAAACAT
*
118395278 AAAAAACACTTAAATAATACATTTGAACCATTATGTACTAAAATAATATAAAGAAATAAAATACA
66 AAAAAACACTTAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAGAAATAAAATACA
*
118395343 AAAATAATATATTTTAAAAAATAAGATACG-AAAAAATACAAATAAAGTG-CTAAAATCAGGGTT
131 AAAATAATATATTTTAAAAAATAAGATACGAAAAAAATACAAAGAAAGTGTC-AAAATCAGGGTT
* *
118395406 ATTTATTGAAA-AAATATAAAAAATACTTAAATAATACATTTGAAACATTATGTACTATAATAAT
195 ATTTATT-AAATAAATATAAAAAACACTTAAATAATACATTTGAAACATTATGTACTAAAATAAT
* *
118395470 ATGAAGAAATAAAATAC
259 ATAAAAAAATAAAATAC
118395487 AAAAATAATATA
1 AAAAATAATATA
118395499 TTTTAAAAAA
Statistics
Matches: 260, Mismatches: 23, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
273 1 0.00
274 118 0.45
275 141 0.54
ACGTcount: A:0.56, C:0.07, G:0.08, T:0.28
Consensus pattern (275 bp):
AAAAATAATATACGAAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTGAAAAAACAT
AAAAAACACTTAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAGAAATAAAATACA
AAAATAATATATTTTAAAAAATAAGATACGAAAAAAATACAAAGAAAGTGTCAAAATCAGGGTTA
TTTATTAAATAAATATAAAAAACACTTAAATAATACATTTGAAACATTATGTACTAAAATAATAT
AAAAAAATAAAATAC
Found at i:118395625 original size:420 final size:422
Alignment explanation
Indices: 118394791--118395639 Score: 1542
Period size: 420 Copynumber: 2.0 Consensus size: 422
118394781 TTAATTTAAT
*
118394791 AAAATAATATACGAAAATAAAAATACGAATAAAGTGCTAAAATCAAGGTTATTTATTAAAAAAAT
1 AAAATAATATACG-AAATAAAAATACGAATAAAGTGCTAAAATCAAGGTTATTTATTAAAAAAAC
* *
118394856 ATAAAAAATACTTAAATAATACATTTGAAATATTATGTACTAAAATAATATAAAGAAATAAAATA
65 ATAAAAAACACTTAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAGAAATAAAATA
* *
118394921 CAAAAATAATATATTTTAAAAAATAAGATACAAAAAAATACGAATAAAGTGCTAAAATTAGGGTT
130 CAAAAATAATATATTTTAAAAAATAAGATACAAAAAAATACAAATAAAGTGCTAAAATCAGGGTT
*
118394986 ATTTATTGAAAAAATATAAAAAATACTTAAATAATACATTTGAAACATTATGTATTAAAATAATA
195 ATTTATTGAAAAAATATAAAAAATACTTAAATAATACATTTGAAACATTATGTACTAAAATAATA
*
118395051 TGAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAAAAATACGAAGAAAG
260 TGAAGAAATAAAATACAAAAATAATATATTTTAAAAAATAAGATACGAAAAAAATACGAAGAAAG
118395116 TGTCAAAATCAGGGTTATTTATTAAATTAATATAAAAAACACTTACATAATACATTTGAAACATT
325 TGTCAAAATCAGGGTTATTTATTAAATTAATATAAAAAACACTTACATAATACATTTGAAACATT
118395181 TTTTGCTAAAATAATATAAAAAAATAATATACG
390 TTTTGCTAAAATAATATAAAAAAATAATATACG
* *
118395214 AAAATAATATACG-AA-AAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTTAAAAAACA
1 AAAATAATATACGAAATAAAAATACGAATAAAGTGCTAAAATCAAGGTTATTTATTAAAAAAACA
*
118395277 TAAAAAACACTTAAATAATACATTTGAACCATTATGTACTAAAATAATATAAAGAAATAAAATAC
66 TAAAAAACACTTAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAGAAATAAAATAC
*
118395342 AAAAATAATATATTTTAAAAAATAAGATACGAAAAAATACAAATAAAGTGCTAAAATCAGGGTTA
131 AAAAATAATATATTTTAAAAAATAAGATACAAAAAAATACAAATAAAGTGCTAAAATCAGGGTTA
*
118395407 TTTATTGAAAAAATATAAAAAATACTTAAATAATACATTTGAAACATTATGTACTATAATAATAT
196 TTTATTGAAAAAATATAAAAAATACTTAAATAATACATTTGAAACATTATGTACTAAAATAATAT
*
118395472 GAAGAAATAAAATACAAAAATAATATATTTTAAAAAATAAGATATGAAAAAAATACGAAGAAAGT
261 GAAGAAATAAAATACAAAAATAATATATTTTAAAAAATAAGATACGAAAAAAATACGAAGAAAGT
118395537 GTCAAAATCAGGGTTATTTATTAAATTAATATAAAAAAACACTTACATAATACATTTGAAACATT
326 GTCAAAATCAGGGTTATTTATTAAATTAATAT-AAAAAACACTTACATAATACATTTGAAACATT
118395602 TTTTGCTAAAATAATAT-AAAAAATAATATACG
390 TTTTGCTAAAATAATATAAAAAAATAATATACG
118395634 AAAATA
1 AAAATA
118395640 TTTTACTTAT
Statistics
Matches: 412, Mismatches: 13, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
420 348 0.84
421 51 0.12
423 13 0.03
ACGTcount: A:0.56, C:0.07, G:0.08, T:0.29
Consensus pattern (422 bp):
AAAATAATATACGAAATAAAAATACGAATAAAGTGCTAAAATCAAGGTTATTTATTAAAAAAACA
TAAAAAACACTTAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAGAAATAAAATAC
AAAAATAATATATTTTAAAAAATAAGATACAAAAAAATACAAATAAAGTGCTAAAATCAGGGTTA
TTTATTGAAAAAATATAAAAAATACTTAAATAATACATTTGAAACATTATGTACTAAAATAATAT
GAAGAAATAAAATACAAAAATAATATATTTTAAAAAATAAGATACGAAAAAAATACGAAGAAAGT
GTCAAAATCAGGGTTATTTATTAAATTAATATAAAAAACACTTACATAATACATTTGAAACATTT
TTTGCTAAAATAATATAAAAAAATAATATACG
Found at i:118395750 original size:27 final size:27
Alignment explanation
Indices: 118395718--118395787 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
118395708 GACCCACAGA
*
118395718 ACTGGTGCCGCCTCTGCCAGAGGCAAC
1 ACTGGTGCCGCCTCTGCCAAAGGCAAC
* *
118395745 ATTGGTGCCGCCTCTGTCAAAGGCAAC
1 ACTGGTGCCGCCTCTGCCAAAGGCAAC
118395772 ACTGGTGCCGCCTCTG
1 ACTGGTGCCGCCTCTG
118395788 GCACCAACAT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.17, C:0.34, G:0.29, T:0.20
Consensus pattern (27 bp):
ACTGGTGCCGCCTCTGCCAAAGGCAAC
Found at i:118400517 original size:12 final size:12
Alignment explanation
Indices: 118400500--118400524 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
118400490 CTGTGTGTTC
118400500 TTTATTTTATTT
1 TTTATTTTATTT
118400512 TTTATTTTATTT
1 TTTATTTTATTT
118400524 T
1 T
118400525 ATTTTCACAA
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:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTATTTTATTT
Found at i:118404962 original size:12 final size:12
Alignment explanation
Indices: 118404945--118404969 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
118404935 CTGTATGTTC
118404945 TTTATTTTATTT
1 TTTATTTTATTT
118404957 TTTATTTTATTT
1 TTTATTTTATTT
118404969 T
1 T
118404970 ATTTTCTCAA
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:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTATTTTATTT
Found at i:118407500 original size:166 final size:166
Alignment explanation
Indices: 118407194--118407506 Score: 364
Period size: 166 Copynumber: 1.9 Consensus size: 166
118407184 GAAACAAATT
* * * ** *
118407194 AAAAAAAATCAATTAATTCCTTCAAGTTAAAATTTTATTCCATTGAACCTTTATGGATAATAATT
1 AAAAAAAATCAATTAAATCCTTCAAATTAAAATTTTATTCAATTGAACCTTTATCCACAATAATT
* * * * ** * * *
118407259 TAATCAATTTGATCTTTTCATCAACATAAATTCTTATTGCTCGATTTAATCAGACTGTTTATTCA
66 TAATCAATTTAATCTTCTCATCAACAGAAATTCTTACTAATCAATTTAAACAGACTATTTATTCA
*
118407324 GACTAAATGATAAAAAAAATTCTATTGAATTTTGAA
131 GACAAAATGATAAAAAAAATTCTATTGAATTTTGAA
* *
118407360 AAAAAAAATCAATTAAATCTTTTCAAATT-AATTTTTATTCAATTGAACCTTTATCCACAATAAT
1 AAAAAAAATCAATTAAATC-CTTCAAATTAAAATTTTATTCAATTGAACCTTTATCCACAATAAT
* * *
118407424 TTAATTAATTTAATC-TCTCTATCAACAGAAATAT-TTACTAATCAATTTAAACGGTCTATTTAT
65 TTAATCAATTTAATCTTCTC-ATCAACAGAAAT-TCTTACTAATCAATTTAAACAGACTATTTAT
*
118407487 TTATG-CAAAATGATAAAAAA
128 TCA-GACAAAATGATAAAAAA
118407507 GAAATAAGTT
Statistics
Matches: 121, Mismatches: 22, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
165 3 0.02
166 109 0.90
167 9 0.07
ACGTcount: A:0.42, C:0.13, G:0.06, T:0.39
Consensus pattern (166 bp):
AAAAAAAATCAATTAAATCCTTCAAATTAAAATTTTATTCAATTGAACCTTTATCCACAATAATT
TAATCAATTTAATCTTCTCATCAACAGAAATTCTTACTAATCAATTTAAACAGACTATTTATTCA
GACAAAATGATAAAAAAAATTCTATTGAATTTTGAA
Found at i:118407797 original size:18 final size:18
Alignment explanation
Indices: 118407774--118407812 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
118407764 AACCCAAAAT
118407774 AAAAAATAAAAAAAAAGA
1 AAAAAATAAAAAAAAAGA
* *
118407792 AAAAAATGAAGAAAAAGA
1 AAAAAATAAAAAAAAAGA
118407810 AAA
1 AAA
118407813 CCTATGTGCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.85, C:0.00, G:0.10, T:0.05
Consensus pattern (18 bp):
AAAAAATAAAAAAAAAGA
Found at i:118408966 original size:19 final size:19
Alignment explanation
Indices: 118408942--118408979 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
118408932 TTGAGATTGC
*
118408942 CAACCTATTTGCTTGAAAT
1 CAACCTATTTGCCTGAAAT
118408961 CAACCTATTTGCCTGAAAT
1 CAACCTATTTGCCTGAAAT
118408980 TATTCATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.34
Consensus pattern (19 bp):
CAACCTATTTGCCTGAAAT
Found at i:118415268 original size:52 final size:48
Alignment explanation
Indices: 118415189--118415395 Score: 195
Period size: 47 Copynumber: 4.2 Consensus size: 48
118415179 CCATGACAGC
* * * * *
118415189 ATGTGAAATGTGATTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGG
1 ATGTGATATGTG-CTTCCGTATAAGACCATATCTGGGATATGGCATCGG
*
118415238 ACAAATGTGATATGTGCTTCCGTATAAGACCATATCCGGGATATGGCATCGG
1 ----ATGTGATATGTGCTTCCGTATAAGACCATATCTGGGATATGGCATCGG
* * *
118415290 -TGTGATATGTGCTACTGTATAAGACCATATCTGGGATATGGCATCAG
1 ATGTGATATGTGCTTCCGTATAAGACCATATCTGGGATATGGCATCGG
* * * ** * *
118415337 -TGTGATACGTG-ATCCGTGTAAGACCATGGCTGGGCTATGGCCTCGG
1 ATGTGATATGTGCTTCCGTATAAGACCATATCTGGGATATGGCATCGG
118415383 TATGTGATATGTG
1 -ATGTGATATGTG
118415396 ACTATGTGCA
Statistics
Matches: 131, Mismatches: 21, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
46 26 0.20
47 53 0.40
48 10 0.08
52 31 0.24
53 11 0.08
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.30
Consensus pattern (48 bp):
ATGTGATATGTGCTTCCGTATAAGACCATATCTGGGATATGGCATCGG
Found at i:118418991 original size:15 final size:15
Alignment explanation
Indices: 118418943--118418992 Score: 73
Period size: 15 Copynumber: 3.3 Consensus size: 15
118418933 GTATCTTGGG
*
118418943 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
118418958 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
118418973 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
118418988 TTTCT
1 TTTCT
118418993 CTATCTTGGA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 31 1.00
ACGTcount: A:0.10, C:0.18, G:0.14, T:0.58
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:118420949 original size:52 final size:48
Alignment explanation
Indices: 118420870--118421076 Score: 186
Period size: 47 Copynumber: 4.2 Consensus size: 48
118420860 CCATGACAGC
* * * * *
118420870 ATGTGAAATGTGATTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGG
1 ATGTGATATGTG-CTTCCGTATAAGACCATATCTGGGATATGGCATCGG
*
118420919 ACAAATGTGATATGTGCTTCCGTATAAGACCATATCCGGGATATGGCATCGG
1 ----ATGTGATATGTGCTTCCGTATAAGACCATATCTGGGATATGGCATCGG
* * *
118420971 -TGTGATATGTGCTACTGTATAAGACCATATCTGGGATATGGCATCAG
1 ATGTGATATGTGCTTCCGTATAAGACCATATCTGGGATATGGCATCGG
* * * ** * *
118421018 -TGTGATACGTG-ATCCGTGTAAGACCATGGCTGGGCTATGGCCTCGG
1 ATGTGATATGTGCTTCCGTATAAGACCATATCTGGGATATGGCATCGG
*
118421064 TATGTAATATGTG
1 -ATGTGATATGTG
118421077 ACTATGTGCA
Statistics
Matches: 130, Mismatches: 22, Indels: 9
0.81 0.14 0.06
Matches are distributed among these distances:
46 26 0.20
47 53 0.41
48 9 0.07
52 31 0.24
53 11 0.08
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (48 bp):
ATGTGATATGTGCTTCCGTATAAGACCATATCTGGGATATGGCATCGG
Found at i:118424646 original size:15 final size:15
Alignment explanation
Indices: 118424628--118424670 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
118424618 ATCTTGGGTT
118424628 TCTTTATCCTGGATC
1 TCTTTATCCTGGATC
* *
118424643 TCTTTATTCTGGATT
1 TCTTTATCCTGGATC
* *
118424658 TCTCTATCTTGGA
1 TCTTTATCCTGGA
118424671 ATTCCGGTCT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.14, C:0.21, G:0.14, T:0.51
Consensus pattern (15 bp):
TCTTTATCCTGGATC
Found at i:118426615 original size:52 final size:48
Alignment explanation
Indices: 118426536--118426742 Score: 195
Period size: 47 Copynumber: 4.2 Consensus size: 48
118426526 CCATGACAGC
* * * * *
118426536 ATGTGAAATGTGATTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGG
1 ATGTGATATGTG-CTTCCGTATAAGACCATATCTGGGATATGGCATCGG
*
118426585 ACAAATGTGATATGTGCTTCCGTATAAGACCATATCCGGGATATGGCATCGG
1 ----ATGTGATATGTGCTTCCGTATAAGACCATATCTGGGATATGGCATCGG
* * *
118426637 -TGTGATATGTGCTACTGTATAAGACCATATCTGGGATATGGCATCAG
1 ATGTGATATGTGCTTCCGTATAAGACCATATCTGGGATATGGCATCGG
* * * ** * *
118426684 -TGTGATACGTG-ATCCGTGTAAGACCATGGCTGGGCTATGGCCTCGG
1 ATGTGATATGTGCTTCCGTATAAGACCATATCTGGGATATGGCATCGG
118426730 TATGTGATATGTG
1 -ATGTGATATGTG
118426743 ACTATGTGCA
Statistics
Matches: 131, Mismatches: 21, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
46 26 0.20
47 53 0.40
48 10 0.08
52 31 0.24
53 11 0.08
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.30
Consensus pattern (48 bp):
ATGTGATATGTGCTTCCGTATAAGACCATATCTGGGATATGGCATCGG
Found at i:118431124 original size:6 final size:6
Alignment explanation
Indices: 118431113--118431153 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
118431103 TTTGCTCTTT
* *
118431113 ACCCTC ACCCTC ACCCCC ACCCCC ACCCCC ACCCCC ACCCC
1 ACCCCC ACCCCC ACCCCC ACCCCC ACCCCC ACCCCC ACCCC
118431154 ACTTATTTCA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.17, C:0.78, G:0.00, T:0.05
Consensus pattern (6 bp):
ACCCCC
Found at i:118436108 original size:21 final size:21
Alignment explanation
Indices: 118436059--118436109 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
118436049 TTTGAAGCAC
*
118436059 GAATATTTTTTTTAAAAAATGA
1 GAAT-TTTTTTTTAAAAAACGA
*
118436081 -AAGTTTTTTTTTAAAACACGA
1 GAA-TTTTTTTTTAAAAAACGA
118436102 GAATTTTT
1 GAATTTTT
118436110 AAACACGGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
21 22 0.88
22 3 0.12
ACGTcount: A:0.39, C:0.04, G:0.10, T:0.47
Consensus pattern (21 bp):
GAATTTTTTTTTAAAAAACGA
Found at i:118436110 original size:17 final size:17
Alignment explanation
Indices: 118436088--118436606 Score: 219
Period size: 17 Copynumber: 29.9 Consensus size: 17
118436078 TGAAAGTTTT
118436088 TTTTTAAAACACGAGAA
1 TTTTTAAAACACGAGAA
118436105 TTTTT-AAACACG-GAAA
1 TTTTTAAAACACGAG-AA
** *
118436121 TTTCAAAAACACGAAAA
1 TTTTTAAAACACGAGAA
* *
118436138 TTTTTAAAACACGATAT
1 TTTTTAAAACACGAGAA
*
118436155 TTTTTGAAACACGAGAA
1 TTTTTAAAACACGAGAA
* * *
118436172 TTTTTAAAACAAGACAT
1 TTTTTAAAACACGAGAA
* * ***
118436189 TTTTTGAAACACAATTT
1 TTTTTAAAACACGAGAA
*
118436206 TTTTCTTAAA-A--A-AA
1 TTTT-TAAAACACGAGAA
*
118436220 --TTTAAAATACGAGAA
1 TTTTTAAAACACGAGAA
*
118436235 TTTTTAAAACACGAAAA
1 TTTTTAAAACACGAGAA
*
118436252 TTTTTAAAACACGAAAA
1 TTTTTAAAACACGAGAA
*
118436269 TTTTTGAAACACG-GAAA
1 TTTTTAAAACACGAG-AA
***
118436286 TTTTTTAGAAA-ACGATTT
1 -TTTTTA-AAACACGAGAA
*
118436304 TTTTTAAAATCACCG-GAG
1 TTTTTAAAA-CA-CGAGAA
*
118436322 TTTTTGAAAACACGAAAA
1 TTTTT-AAAACACGAGAA
* *
118436340 TCTTTGAAACACCGA-AA
1 TTTTTAAAACA-CGAGAA
118436357 TTTTTGAAAACACGA-AGA
1 TTTTT-AAAACACGAGA-A
* *
118436375 TTTTTGAAACACGAAAA
1 TTTTTAAAACACGAGAA
* *
118436392 TTTTTGAAAATACGAAGAT
1 TTTTT-AAAACACG-AGAA
**
118436411 TTTTTTTAACACG-GAAA
1 TTTTTAAAACACGAG-AA
* *
118436428 TTTTTGAAACACG-GTCATTT
1 TTTTTAAAACACGAG--A--A
*
118436448 TTTTTGAAAACACGAAAA
1 TTTTT-AAAACACGAGAA
* **
118436466 TTTTTGAAAGACATGA-TT
1 TTTTT-AAA-ACACGAGAA
*
118436484 TTTTTGAAAATACG-GAAA
1 TTTTT-AAAACACGAG-AA
* *
118436502 TTTATAAAACACGAAAA
1 TTTTTAAAACACGAGAA
* *
118436519 TTTTTTCTGAAAACAAGAAAA
1 --TTTT-T-AAAACACGAGAA
* *
118436540 TTTTTGAAACACTAGAA
1 TTTTTAAAACACGAGAA
*
118436557 TTTTGAAAACACGA-AGA
1 TTTTTAAAACACGAGA-A
* *
118436574 TTTTTGAAACATGAGAA
1 TTTTTAAAACACGAGAA
118436591 TTTTTAAAAGCACGAG
1 TTTTTAAAA-CACGAG
118436607 GATTATTGAA
Statistics
Matches: 380, Mismatches: 80, Indels: 83
0.70 0.15 0.15
Matches are distributed among these distances:
11 4 0.01
12 3 0.01
14 1 0.00
15 4 0.01
16 17 0.04
17 217 0.57
18 81 0.21
19 28 0.07
20 7 0.02
21 18 0.05
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.33
Consensus pattern (17 bp):
TTTTTAAAACACGAGAA
Found at i:118436165 original size:34 final size:33
Alignment explanation
Indices: 118436088--118436605 Score: 262
Period size: 34 Copynumber: 14.9 Consensus size: 33
118436078 TGAAAGTTTT
* *
118436088 TTTTTAAAACACGAGAATTTTT-AAACACGGAAA
1 TTTTTGAAACACGAAAATTTTTAAAACAC-GAAA
*** *
118436121 TTTCAAAAACACGAAAATTTTTAAAACACGATAT
1 TTTTTGAAACACGAAAATTTTTAAAACACGA-AA
* * *
118436155 TTTTTGAAACACGAGAATTTTTAAAACAAGACAT
1 TTTTTGAAACACGAAAATTTTTAAAACACGA-AA
** *
118436189 TTTTTGAAACAC-AATTTTTTTCTTAAA-A--AAA
1 TTTTTGAAACACGAA-AATTTT-TAAAACACGAAA
* * *
118436220 --TTTAAAATACGAGAATTTTTAAAACACGAAAA
1 TTTTTGAAACACGAAAATTTTTAAAACACG-AAA
* *
118436252 TTTTTAAAACACGAAAATTTTTGAAACACGGAAA
1 TTTTTGAAACACGAAAATTTTTAAAACAC-GAAA
*** * *
118436286 TTTTTTAGAAA-ACGATTTTTTTTAAAATCACCGGAG
1 -TTTTT-GAAACACGAAAATTTTTAAAA-CA-CGAAA
* *
118436322 TTTTTGAAAACACGAAAATCTTTGAAACACCGAAA
1 TTTTTG-AAACACGAAAATTTTTAAAACA-CGAAA
* *
118436357 TTTTTGAAAACACGAAGATTTTTGAAACACGAAAA
1 TTTTTG-AAACACGAAAATTTTTAAAACACG-AAA
* * **
118436392 TTTTTGAAAATACGAAGATTTTTTTTAACACGGAAA
1 TTTTTG-AAACACGAA-AATTTTTAAAACAC-GAAA
***
118436428 TTTTTGAAACACGGTCATTTTTTTTGAAAACACGAAAA
1 TTTTTGAAACAC-G--AAAATTTTT-AAAACACG-AAA
* ** *
118436466 TTTTTGAAAGAC-ATGATTTTTTTGAAAATACGGAAA
1 TTTTTGAAACACGA--AAATTTTT-AAAACAC-GAAA
* * *
118436502 TTTATAAAACACGAAAATTTTTTCTGAAAACAAGAAAA
1 TTTTTGAAACACGAAAA--TTTT-T-AAAACACG-AAA
* * *
118436540 TTTTTGAAACACTAGAATTTTGAAAACACGAAGA
1 TTTTTGAAACACGAAAATTTTTAAAACACGAA-A
* *
118436574 TTTTTGAAACATGAGAATTTTTAAAAGCACGA
1 TTTTTGAAACACGAAAATTTTTAAAA-CACGA
118436606 GGATTATTGA
Statistics
Matches: 380, Mismatches: 69, Indels: 70
0.73 0.13 0.13
Matches are distributed among these distances:
28 4 0.01
29 13 0.03
30 1 0.00
31 1 0.00
32 4 0.01
33 24 0.06
34 114 0.30
35 92 0.24
36 68 0.18
37 16 0.04
38 43 0.11
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.33
Consensus pattern (33 bp):
TTTTTGAAACACGAAAATTTTTAAAACACGAAA
Found at i:118436308 original size:35 final size:35
Alignment explanation
Indices: 118436235--118436515 Score: 164
Period size: 35 Copynumber: 7.9 Consensus size: 35
118436225 AATACGAGAA
* * ***
118436235 TTTTTAAAACAC-GAAAATTTTTAAAACACGAAAA
1 TTTTTGAAACACGGAAATTTTTTAAAACACGATTT
118436269 TTTTTGAAACACGGAAATTTTTTAGAAA-ACGATTT
1 TTTTTGAAACACGGAAATTTTTTA-AAACACGATTT
* * * ***
118436304 TTTTTAAAATCACCGG-AGTTTTTGAAAACACGAAAA
1 TTTTTGAAA-CA-CGGAAATTTTTTAAAACACGATTT
* * * ***
118436340 TCTTTGAAACACCGAAATTTTTGAAAACACGAAGA
1 TTTTTGAAACACGGAAATTTTTTAAAACACGATTT
* * *
118436375 TTTTTGAAACACGAAAATTTTTGAAAATACGAAGATTT
1 TTTTTGAAACACGGAAATTTTT-TAAA-AC-ACGATTT
*
118436413 TTTTT--AACACGGAAA-TTTTTGAAACACGGTCATTT
1 TTTTTGAAACACGGAAATTTTTTAAAACAC-G--ATTT
* * *
118436448 TTTTTGAAAACACGAAAATTTTTGAAAGACATGA-TT
1 TTTTTG-AAACACGGAAATTTTTTAAA-ACACGATTT
* *
118436484 TTTTTGAAAATACGGAAA-TTTATAAAACACGA
1 TTTTTG-AAACACGGAAATTTTTTAAAACACGA
118436516 AAATTTTTTC
Statistics
Matches: 193, Mismatches: 37, Indels: 34
0.73 0.14 0.13
Matches are distributed among these distances:
32 1 0.01
33 3 0.02
34 20 0.10
35 83 0.43
36 53 0.27
37 6 0.03
38 17 0.09
39 7 0.04
40 3 0.02
ACGTcount: A:0.42, C:0.11, G:0.13, T:0.34
Consensus pattern (35 bp):
TTTTTGAAACACGGAAATTTTTTAAAACACGATTT
Found at i:118436499 original size:74 final size:73
Alignment explanation
Indices: 118436235--118436548 Score: 224
Period size: 74 Copynumber: 4.4 Consensus size: 73
118436225 AATACGAGAA
* * * * *
118436235 TTTTT-AAAACACGAAAATTTTTAAAACACGAA-AATTTTTGAAACACGGAAATTTTTTAGAAA-
1 TTTTTGAAAACACGAAAATTTTTGAAAGACGAAGATTTTTTTAAACACGGAAA-TTTATA-AAAC
118436297 ACG---ATTT
64 ACGAAAATTT
* * * * * * * *
118436304 TTTTT-AAAATCACCG-GAGTTTTTGAAAACACGAA-AATCTTTGAAACACCGAAATTTTTGAAA
1 TTTTTGAAAA-CA-CGAAAATTTTTG-AAAGACGAAGATTTTTTTAAACACGGAAATTTAT-AAA
*
118436366 ACACGAAGA---
62 ACACGAAAATTT
* * * *
118436375 TTTTTG-AAACACGAAAATTTTTGAAAATACGAAGATTTTTTTTAACACGGAAATTTTTGAAACA
1 TTTTTGAAAACACGAAAATTTTTG-AAAGACGAAGATTTTTTTAAACACGGAAATTTATAAAACA
***
118436439 CGGTCATTT
65 CGAAAATTT
* *
118436448 TTTTTGAAAACACGAAAATTTTTGAAAGAC-ATGATTTTTTTGAAAATACGGAAATTTATAAAAC
1 TTTTTGAAAACACGAAAATTTTTGAAAGACGAAGATTTTTTT--AAACACGGAAATTTATAAAAC
118436512 ACGAAAATTT
64 ACGAAAATTT
* *
118436522 TTTCTGAAAACAAGAAAATTTTTGAAA
1 TTTTTGAAAACACGAAAATTTTTGAAA
118436549 CACTAGAATT
Statistics
Matches: 200, Mismatches: 28, Indels: 29
0.78 0.11 0.11
Matches are distributed among these distances:
69 11 0.05
70 42 0.21
71 59 0.29
72 10 0.05
73 11 0.05
74 67 0.34
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.34
Consensus pattern (73 bp):
TTTTTGAAAACACGAAAATTTTTGAAAGACGAAGATTTTTTTAAACACGGAAATTTATAAAACAC
GAAAATTT
Found at i:118436562 original size:16 final size:16
Alignment explanation
Indices: 118436541--118436594 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 16
118436531 ACAAGAAAAT
118436541 TTTTGAAACACTAGAA
1 TTTTGAAACACTAGAA
* *
118436557 TTTTGAAAACACGAAGAT
1 TTTTG-AAACAC-TAGAA
118436575 TTTTGAAACA-TGAGAA
1 TTTTGAAACACT-AGAA
118436591 TTTT
1 TTTT
118436595 TAAAAGCACG
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
16 12 0.39
17 11 0.35
18 8 0.26
ACGTcount: A:0.41, C:0.09, G:0.15, T:0.35
Consensus pattern (16 bp):
TTTTGAAACACTAGAA
Found at i:118436792 original size:17 final size:16
Alignment explanation
Indices: 118436758--118436814 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 16
118436748 AAAATTATTT
118436758 AAAATAAAATAAAATA
1 AAAATAAAATAAAATA
* *
118436774 AAAATCAAATTAAATTA
1 AAAAT-AAAATAAAATA
118436791 AAAATATAAATATAAATA
1 AAAATA-AAATA-AAATA
*
118436809 TAAATA
1 AAAATA
118436815 TGCATAAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
16 6 0.18
17 18 0.55
18 9 0.27
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (16 bp):
AAAATAAAATAAAATA
Found at i:118436803 original size:6 final size:6
Alignment explanation
Indices: 118436757--118436815 Score: 54
Period size: 6 Copynumber: 10.2 Consensus size: 6
118436747 TAAAATTATT
* *
118436757 TAAA-A TAAA-A TAAA-A TAAAAA TCAAAT- TAAATTA AAAATA TAAATA
1 TAAATA TAAATA TAAATA TAAATA T-AAATA TAAA-TA TAAATA TAAATA
118436803 TAAATA TAAATA T
1 TAAATA TAAATA T
118436816 GCATAAAATG
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
5 17 0.36
6 24 0.51
7 6 0.13
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (6 bp):
TAAATA
Found at i:118436958 original size:10 final size:9
Alignment explanation
Indices: 118436943--118436999 Score: 50
Period size: 9 Copynumber: 6.7 Consensus size: 9
118436933 ATTGAACCTC
118436943 TTTTTTCTT
1 TTTTTTCTT
118436952 GTTTTTTC--
1 -TTTTTTCTT
118436960 TTTTTTC-T
1 TTTTTTCTT
*
118436968 TTTTCTC-T
1 TTTTTTCTT
*
118436976 CTTTTTCTT
1 TTTTTTCTT
*
118436985 TTTTCTCTT
1 TTTTTTCTT
118436994 TTTTTT
1 TTTTTT
118437000 TGCTGGGCTG
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
7 7 0.18
8 12 0.31
9 13 0.33
10 7 0.18
ACGTcount: A:0.00, C:0.16, G:0.02, T:0.82
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:118436963 original size:17 final size:16
Alignment explanation
Indices: 118436940--118436997 Score: 82
Period size: 17 Copynumber: 3.6 Consensus size: 16
118436930 CGAATTGAAC
118436940 CTCTTTTTTCTTGTTTT
1 CTCTTTTTTCTT-TTTT
*
118436957 TTCTTTTTTC-TTTTT
1 CTCTTTTTTCTTTTTT
118436972 CTCTCTTTTTCTTTTTT
1 CTCT-TTTTTCTTTTTT
118436989 CTCTTTTTT
1 CTCTTTTTT
118436998 TTTGCTGGGC
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
15 7 0.19
16 12 0.32
17 18 0.49
ACGTcount: A:0.00, C:0.19, G:0.02, T:0.79
Consensus pattern (16 bp):
CTCTTTTTTCTTTTTT
Found at i:118437144 original size:23 final size:24
Alignment explanation
Indices: 118437116--118437169 Score: 101
Period size: 23 Copynumber: 2.3 Consensus size: 24
118437106 CTGCATTTGG
118437116 GCTGCTTCTTTCTTCTTCTTTTTT
1 GCTGCTTCTTTCTTCTTCTTTTTT
118437140 -CTGCTTCTTTCTTCTTCTTTTTT
1 GCTGCTTCTTTCTTCTTCTTTTTT
118437163 GCTGCTT
1 GCTGCTT
118437170 TTTTTTGCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
23 23 0.79
24 6 0.21
ACGTcount: A:0.00, C:0.26, G:0.09, T:0.65
Consensus pattern (24 bp):
GCTGCTTCTTTCTTCTTCTTTTTT
Found at i:118437320 original size:24 final size:24
Alignment explanation
Indices: 118437300--118437359 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
118437290 CTTTTCTTTT
*
118437300 TCTTTT-TTCTTTCTTTCTTCTTCC
1 TCTTTTCTTC-TTCCTTCTTCTTCC
118437324 TCTTTTCTTCTTCCTTCTTCTTCC
1 TCTTTTCTTCTTCCTTCTTCTTCC
*
118437348 T-TCTTCTTCTTC
1 TCTTTTCTTCTTC
118437360 AAAGTCTAGC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
23 10 0.30
24 20 0.61
25 3 0.09
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (24 bp):
TCTTTTCTTCTTCCTTCTTCTTCC
Found at i:118437322 original size:3 final size:3
Alignment explanation
Indices: 118437288--118437359 Score: 62
Period size: 3 Copynumber: 24.0 Consensus size: 3
118437278 TTTTTATTAT
* *
118437288 TTC TT- TTC TTT TTC TT- TT- TTC TTTC TTTC TTC TTC CTC TT- TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC -TTC -TTC TTC TTC TTC TTC TTC
118437331 TTC TTCC TTC TTC TTCC TTC TTC TTC TTC
1 TTC TT-C TTC TTC TT-C TTC TTC TTC TTC
118437360 AAAGTCTAGC
Statistics
Matches: 59, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
2 8 0.14
3 38 0.64
4 13 0.22
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:118437327 original size:13 final size:13
Alignment explanation
Indices: 118437311--118437359 Score: 52
Period size: 13 Copynumber: 3.9 Consensus size: 13
118437301 CTTTTTTCTT
118437311 TCTTTCTTCTTCC
1 TCTTTCTTCTTCC
118437324 TCTTTTCTTCTT-C
1 TC-TTTCTTCTTCC
118437337 -C-TTCTTCTTCC
1 TCTTTCTTCTTCC
118437348 T-TCTTCTTCTTC
1 TCT-TTCTTCTTC
118437360 AAAGTCTAGC
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
10 8 0.26
11 1 0.03
12 1 0.03
13 12 0.39
14 9 0.29
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (13 bp):
TCTTTCTTCTTCC
Found at i:118437343 original size:10 final size:10
Alignment explanation
Indices: 118437328--118437356 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
118437318 TCTTCCTCTT
118437328 TTCTTCTTCC
1 TTCTTCTTCC
118437338 TTCTTCTTCC
1 TTCTTCTTCC
118437348 TTCTTCTTC
1 TTCTTCTTC
118437357 TTCAAAGTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (10 bp):
TTCTTCTTCC
Found at i:118437455 original size:18 final size:19
Alignment explanation
Indices: 118437419--118437462 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
118437409 TGATACTCTT
*
118437419 TCTTTTCTTCTCCTCTTTC
1 TCTTTTCCTCTCCTCTTTC
*
118437438 TCTTTTCCT-TCCTTTTTC
1 TCTTTTCCTCTCCTCTTTC
*
118437456 TTTTTTC
1 TCTTTTC
118437463 GAAACTTTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (19 bp):
TCTTTTCCTCTCCTCTTTC
Found at i:118437747 original size:30 final size:30
Alignment explanation
Indices: 118437690--118437799 Score: 118
Period size: 30 Copynumber: 3.7 Consensus size: 30
118437680 ACGTAATTTT
* *
118437690 AGAAAATTTA-GGATTAAAATAAAATTTAA
1 AGAAAGTTTAGGGGTTAAAATAAAATTTAA
* * *
118437719 TGAAAGTTTAGGGGTCT-AAGTGAAATTTAA
1 AGAAAGTTTAGGGGT-TAAAATAAAATTTAA
*
118437749 AGAAAGTTTAAGGGTTAAAATAAAATTT-A
1 AGAAAGTTTAGGGGTTAAAATAAAATTTAA
*
118437778 GGAAAAGTTTAGGGGTTAAAAT
1 AG-AAAGTTTAGGGGTTAAAAT
118437800 GCAATTTTTA
Statistics
Matches: 66, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
29 11 0.17
30 54 0.82
31 1 0.02
ACGTcount: A:0.47, C:0.01, G:0.21, T:0.31
Consensus pattern (30 bp):
AGAAAGTTTAGGGGTTAAAATAAAATTTAA
Found at i:118437806 original size:60 final size:59
Alignment explanation
Indices: 118437690--118437806 Score: 148
Period size: 60 Copynumber: 2.0 Consensus size: 59
118437680 ACGTAATTTT
* *
118437690 AGAAAATTTAGGATTAAAATAAAATTTAATGAAAGTTTAGGGGTCTAAGTGAAATTTAA
1 AGAAAATTTAGGATTAAAATAAAATTTAAGGAAAGTTTAGGGGTCTAAATGAAATTTAA
* * *
118437749 AGAAAGTTTAAGGGTTAAAATAAAATTT-AGGAAAAGTTTAGGGGT-TAAAATGCAATTT
1 AGAAAATTT-AGGATTAAAATAAAATTTAAGG-AAAGTTTAGGGGTCT-AAATGAAATTT
118437807 TTATTTTTTA
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
59 11 0.22
60 39 0.78
ACGTcount: A:0.46, C:0.02, G:0.21, T:0.32
Consensus pattern (59 bp):
AGAAAATTTAGGATTAAAATAAAATTTAAGGAAAGTTTAGGGGTCTAAATGAAATTTAA
Found at i:118438262 original size:54 final size:54
Alignment explanation
Indices: 118438076--118438770 Score: 1078
Period size: 54 Copynumber: 13.0 Consensus size: 54
118438066 CACGTGAGCC
* * * *
118438076 AAGGCTCAACTCACTTCTCGCAATATAAGTTGATTTTTG-AAAACAGAATTTACAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATT--AA
118438131 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAG--A--AA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAATAGAAATTAA
*
118438182 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAA
* *
118438236 AAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGAAAAACAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAA
118438290 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAATCAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAT-AGAAATTAA
118438344 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAG--A--AA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAA
*
118438394 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAA
* * *
118438448 AAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTAAAAAACAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAA
* *
118438502 AAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTGAAAAACAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAA
118438556 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAATCAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAT-AGAAATTAA
*
118438610 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAG--A--AA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAA
*
118438660 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAA
* *
118438714 AAGTCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATT-AA
118438769 AA
1 AA
118438771 TACCTCAACG
Statistics
Matches: 595, Mismatches: 26, Indels: 38
0.90 0.04 0.06
Matches are distributed among these distances:
50 109 0.18
51 34 0.06
52 5 0.01
53 8 0.01
54 383 0.64
55 44 0.07
56 6 0.01
57 6 0.01
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.29
Consensus pattern (54 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAA
Found at i:118438445 original size:212 final size:213
Alignment explanation
Indices: 118438076--118438770 Score: 1145
Period size: 212 Copynumber: 3.3 Consensus size: 213
118438066 CACGTGAGCC
* *
118438076 AAGGCTCAACTCACTTCTCGCAATATAAGTTGATTTTTG-AAAACAGAATTTACAAAAGGCTCAA
1 AAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTGAAAAACAGAAATTA-AAAAGGCTCAA
118438140 CTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAGAAAAAGGCTCAACTCACCTCTCGCAA
65 CTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAATAGAAAAAGGCTCAACTCACCTCTCGCAA
*
118438205 TATGAGTTGGTTTTTGAAAAATAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTAAT
129 TATGAGTTGGTTTTTGAAAAATAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
118438270 TTTTGAAAAACAGAAATTAA
194 TTTTGAAAAACAGAAATTAA
* *
118438290 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAATCAGAAATT-AAAAGGCTCAAC
1 AAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTGAAAAACAGAAATTAAAAAGGCTCAAC
118438354 TCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAAAAGGCTCAACTCACCTCTCGCAATA
66 TCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAAAAGGCTCAACTCACCTCTCGCAATA
*
118438419 TGAGTTGGTTTTTGAAAAATAGAAATTAAAAGGCTCAACTCACCTCTTGCAATATGAGTTGATTT
131 TGAGTTGGTTTTTGAAAAATAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
*
118438484 TTAAAAAACAGAAATTAA
196 TTGAAAAACAGAAATTAA
118438502 AAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTGAAAAACAGAAATT-AAAAGGCTCAAC
1 AAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTGAAAAACAGAAATTAAAAAGGCTCAAC
118438566 TCACCTCTCGCAATATGAGTTGATTTTTG-AAAATCAGAAATTAAAAGGCTCAACTCACCTCTCG
66 TCACCTCTCGCAATATGAGTTGATTTTTGAAAAAT-AG--A--AAAAGGCTCAACTCACCTCTCG
* *
118438630 CAATATGAGTTGATTTTTGAAAAACAG--A--AAAAGGCTCAACTCACCTCTCGCAATATGAGTT
126 CAATATGAGTTGGTTTTTGAAAAATAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTT
* *
118438691 GGTTTTTGAAAAATAGAAATTAA
191 GATTTTTGAAAAACAGAAATTAA
* * *
118438714 AAGTCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAA
1 AAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTGAAAAACAGAAATTAAAAA
118438771 TACCTCAACG
Statistics
Matches: 457, Mismatches: 17, Indels: 15
0.93 0.03 0.03
Matches are distributed among these distances:
211 5 0.01
212 317 0.69
213 39 0.09
214 39 0.09
215 10 0.02
216 47 0.10
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.29
Consensus pattern (213 bp):
AAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTGAAAAACAGAAATTAAAAAGGCTCAAC
TCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAAAAGGCTCAACTCACCTCTCGCAATA
TGAGTTGGTTTTTGAAAAATAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
TTGAAAAACAGAAATTAA
Found at i:118438552 original size:266 final size:266
Alignment explanation
Indices: 118438076--118438770 Score: 1182
Period size: 266 Copynumber: 2.6 Consensus size: 266
118438066 CACGTGAGCC
* * **
118438076 AAGGCTCAACTCACTTCTCGCAATATAAGTTGATTTTTGAAAACAGAATTTACAAAAGGCTCAAC
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG--AA-A-AATAGA-AAAAGGCTCAAC
*
118438141 TCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAG--A--AAAAGGCTCAACTCACCTCTCG
61 TCACCTCTCGCAATATGAGTTG-GTTTTTGAAAAATAGAAATTAAAAGGCTCAACTCACCTCTCG
* * *
118438202 CAATATGAGTTGGTTTTTGAAAAATAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTT
125 CAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATAAGTT
118438267 AATTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
190 AATTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
118438332 ATCAGAAATTAA
255 ATCAGAAATTAA
118438344 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAAAAGGCTCAACTCACC
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAAAAGGCTCAACTCACC
*
118438409 TCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATTAAAAGGCTCAACTCACCTCTTGCAATAT
66 TCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATTAAAAGGCTCAACTCACCTCTCGCAATAT
* *
118438474 GAGTTGATTTTTAAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTT
131 GAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATAAGTTAATTTT
118438539 TGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAATCAGA
196 TGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAATCAGA
118438604 AATTAA
261 AATTAA
*
118438610 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAAAAGGCTCAACTCACC
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAAAAGGCTCAACTCACC
*
118438675 TCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATTAAAAGTCTCAACTCACCTCTCGCAATAT
66 TCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATTAAAAGGCTCAACTCACCTCTCGCAATAT
118438740 GAGTTGATTTTTGAAAAACAGAAATTGAAAA
131 GAGTTGATTTTTGAAAAACAGAAATT-AAAA
118438771 TACCTCAACG
Statistics
Matches: 407, Mismatches: 15, Indels: 11
0.94 0.03 0.03
Matches are distributed among these distances:
262 14 0.03
263 34 0.08
264 5 0.01
265 1 0.00
266 312 0.77
267 4 0.01
268 37 0.09
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.29
Consensus pattern (266 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAAAAGGCTCAACTCACC
TCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATTAAAAGGCTCAACTCACCTCTCGCAATAT
GAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATAAGTTAATTTT
TGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAATCAGA
AATTAA
Found at i:118438948 original size:72 final size:72
Alignment explanation
Indices: 118438718--118439336 Score: 1015
Period size: 72 Copynumber: 8.5 Consensus size: 72
118438708 AATTAAAAGT
** * *
118438718 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAACGTG
1 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAGAAATTGAAATTACCTCAACGTG
118438783 TCTTGAGG
65 TCTTGAGG
*
118438791 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAACGTG
1 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAATTACCTCAACGTG
118438856 TCTTGAGG
65 TCTTGAGG
118438864 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGT
1 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGT
118438929 CTTGAGG
66 CTTGAGG
* * *
118438936 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAAAAATTGAAAATACCTCAATGTG
1 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAATTACCTCAACGTG
118439001 TCTTGAGG
65 TCTTGAGG
* *
118439009 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCATGT
1 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGT
*
118439074 CCTGAGG
66 CTTGAGG
*
118439081 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAAATTGAAATTACCTCAACGTGT
1 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGT
118439146 CTTGAGG
66 CTTGAGG
*
118439153 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAAATTGAAATTACCTCAACGTGT
1 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGT
118439218 CTTGAGG
66 CTTGAGG
* *
118439225 CTCAACTCATTTCTCACAATATGAGTTGAATTTTGAGAAGCAGAAATTGAAAATTACCTCAACGT
1 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGA-AAACAGAAATTG-AAATTACCTCAACGT
*
118439290 GCCTTGAGG
64 GTCTTGAGG
** *
118439299 CTCAACTCACCTCTCGCAATATAAGTTG-ATTTTGAAAA
1 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA
118439337 GCATAGATTG
Statistics
Matches: 516, Mismatches: 26, Indels: 9
0.94 0.05 0.02
Matches are distributed among these distances:
72 279 0.54
73 190 0.37
74 47 0.09
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (72 bp):
CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGT
CTTGAGG
Found at i:118438983 original size:145 final size:145
Alignment explanation
Indices: 118438718--118439336 Score: 1044
Period size: 145 Copynumber: 4.3 Consensus size: 145
118438708 AATTAAAAGT
** * *
118438718 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAACGTG
1 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAGAAATTGAAATTACCTCAACGTG
*
118438783 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACC
65 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAAAAATTGAAAATACC
118438848 TCAACGTGTCTTGAGG
130 TCAACGTGTCTTGAGG
118438864 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGT
1 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGT
118438929 CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAAAAATTGAAAATACCT
66 CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAAAAATTGAAAATACCT
*
118438994 CAATGTGTCTTGAGG
131 CAACGTGTCTTGAGG
* *
118439009 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCATGT
1 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGT
* *
118439074 CCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAAAAATTGAAATTACCT
66 CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAAAAATTGAAAATACCT
118439138 CAACGTGTCTTGAGG
131 CAACGTGTCTTGAGG
*
118439153 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAAATTGAAATTACCTCAACGTGT
1 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGT
* * *
118439218 CTTGAGGCTCAACTCATTTCTCACAATATGAGTTGAATTTTGAGAAGCAGAAATTGAAAATTACC
66 CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAAAAATTGAAAA-TACC
*
118439283 TCAACGTGCCTTGAGG
130 TCAACGTGTCTTGAGG
** *
118439299 CTCAACTCACCTCTCGCAATATAAGTTG-ATTTTGAAAA
1 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA
118439337 GCATAGATTG
Statistics
Matches: 448, Mismatches: 23, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
144 136 0.30
145 236 0.53
146 76 0.17
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (145 bp):
CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGT
CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAAAAATTGAAAATACCT
CAACGTGTCTTGAGG
Found at i:118439358 original size:17 final size:17
Alignment explanation
Indices: 118439333--118439367 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
118439323 GTTGATTTTG
* *
118439333 AAAAGCATAGATTGAAA
1 AAAAACATAAATTGAAA
118439350 AAAAACATAAATTGAAA
1 AAAAACATAAATTGAAA
118439367 A
1 A
118439368 TACCTCAGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.66, C:0.06, G:0.11, T:0.17
Consensus pattern (17 bp):
AAAAACATAAATTGAAA
Found at i:118439572 original size:123 final size:122
Alignment explanation
Indices: 118439351--118439669 Score: 512
Period size: 123 Copynumber: 2.6 Consensus size: 122
118439341 AGATTGAAAA
* * * * * *
118439351 AAAACATAAATTGAAAATACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTTGCAATATGAGT
1 AAAACATAAACTAAAAATACCTCGGC--GTG-CCCGAGGCTCAACTCACTTCTAGCAATATGAGT
*
118439416 TGATTTTTGAAAAAGAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
63 TGATTTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
* *
118439476 AAAACATAAACTAAAAATACCTCGGCGTGCCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
1 AAAACATAAACTAAAAATACCTCGGCGTGCCC-GAGGCTCAACTCACTTCTAGCAATATGAGTTG
118439541 ATTTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
65 ATTTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
118439599 AAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCAACTCACTTCTAGCAATATGAGTTG
1 AAAACATAAACTAAAAATACCTCGGCGTG-CCCGAGGCTCAACTCACTTCTAGCAATATGAGTTG
118439664 ATTTTT
65 ATTTTT
118439670 TTTAAAAAAT
Statistics
Matches: 182, Mismatches: 10, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
122 2 0.01
123 154 0.85
124 3 0.02
125 23 0.13
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.27
Consensus pattern (122 bp):
AAAACATAAACTAAAAATACCTCGGCGTGCCCGAGGCTCAACTCACTTCTAGCAATATGAGTTGA
TTTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
Found at i:118447928 original size:18 final size:17
Alignment explanation
Indices: 118447907--118448216 Score: 189
Period size: 17 Copynumber: 18.4 Consensus size: 17
118447897 ATGAAAGTTT
118447907 TTTTTTAAAACACGAGAA
1 TTTTTTAAAACACGA-AA
118447925 -TTTTT-AAACACGGAAA
1 TTTTTTAAAACAC-GAAA
**
118447941 -TTTCAAAAACACGAAA
1 TTTTTTAAAACACGAAA
* *
118447957 ATTTTTAAAACACGACA
1 TTTTTTAAAACACGAAA
*
118447974 TTTTTTGAAACACGAGAA
1 TTTTTTAAAACACGA-AA
* *
118447992 -TTTTTAAAACAAGACA
1 TTTTTTAAAACACGAAA
* *
118448008 TTTTTTGAAACAC-AAT
1 TTTTTTAAAACACGAAA
**
118448024 TTTTTTCTTAA-A--AAA
1 TTTTTT-AAAACACGAAA
*
118448039 ---TTTAAAATACGAGAA
1 TTTTTTAAAACACGA-AA
118448054 -TTTTTAAAACACGAAA
1 TTTTTTAAAACACGAAA
*
118448070 ATTTTTAAAACACGAAA
1 TTTTTTAAAACACGAAA
* *
118448087 ATTTTTGAAACACGGAAA
1 TTTTTTAAAACAC-GAAA
**
118448105 TTTTTTAGAAA-ACGATT
1 TTTTTTA-AAACACGAAA
* *
118448122 TTTTTTAAAATCACCGGAG
1 TTTTTTAAAA-CA-CGAAA
*
118448141 TTTTTGAAAACACGAAA
1 TTTTTTAAAACACGAAA
* * *
118448158 ATCTTTGAAACACCGAAA
1 TTTTTTAAAACA-CGAAA
*
118448176 TTTTTGAAAACACGAAGA
1 TTTTTTAAAACACGAA-A
*
118448194 -TTTTTGAAACACGAAAA
1 TTTTTTAAAACACG-AAA
118448211 TTTTTT
1 TTTTTT
118448217 GAAGCACGAG
Statistics
Matches: 228, Mismatches: 42, Indels: 44
0.73 0.13 0.14
Matches are distributed among these distances:
11 2 0.01
12 4 0.02
14 1 0.00
15 4 0.02
16 29 0.13
17 138 0.61
18 36 0.16
19 14 0.06
ACGTcount: A:0.44, C:0.12, G:0.10, T:0.34
Consensus pattern (17 bp):
TTTTTTAAAACACGAAA
Found at i:118447928 original size:21 final size:20
Alignment explanation
Indices: 118447876--118447929 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 20
118447866 AATTTTGAAG
*
118447876 CACGAAAATTTTTTTTAAAA
1 CACGAAATTTTTTTTTAAAA
* *
118447896 AATGAAAGTTTTTTTTTAAAA
1 CACGAAA-TTTTTTTTTAAAA
118447917 CACGAGAATTTTT
1 CACGA-AATTTTT
118447930 AAACACGGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
20 5 0.19
21 20 0.74
22 2 0.07
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.43
Consensus pattern (20 bp):
CACGAAATTTTTTTTTAAAA
Found at i:118448127 original size:35 final size:35
Alignment explanation
Indices: 118447907--118448225 Score: 209
Period size: 34 Copynumber: 9.4 Consensus size: 35
118447897 ATGAAAGTTT
*
118447907 TTTTTTAAAACACGAGAATTTTT-AAACACGGAAA
1 TTTTTTAAAACACGAAAATTTTTGAAACACGGAAA
** * *
118447941 -TTTCAAAAACACGAAAATTTTTAAAACAC-GACA
1 TTTTTTAAAACACGAAAATTTTTGAAACACGGAAA
* * * * *
118447974 TTTTTTGAAACACGAGAATTTTTAAAACA-AGACA
1 TTTTTTAAAACACGAAAATTTTTGAAACACGGAAA
* ** **
118448008 TTTTTTGAAACAC-AATTTTTTTCTTAA-A---AAA
1 TTTTTTAAAACACGAAAATTTTT-GAAACACGGAAA
* * *
118448039 ---TTTAAAATACGAGAATTTTTAAAACAC-GAAA
1 TTTTTTAAAACACGAAAATTTTTGAAACACGGAAA
*
118448070 ATTTTTAAAACACGAAAATTTTTGAAACACGGAAA
1 TTTTTTAAAACACGAAAATTTTTGAAACACGGAAA
*** * *
118448105 TTTTTTAGAAA-ACGATTTTTTTTAAAATCACCGG-AG
1 TTTTTTA-AAACACGAAAATTTTTGAAA-CA-CGGAAA
* * *
118448141 TTTTTGAAAACACGAAAATCTTTGAAACACCGAAA
1 TTTTTTAAAACACGAAAATTTTTGAAACACGGAAA
* * *
118448176 TTTTTGAAAACACGAAGATTTTTGAAACACGAAAA
1 TTTTTTAAAACACGAAAATTTTTGAAACACGGAAA
* *
118448211 TTTTTTGAAGCACGA
1 TTTTTTAAAACACGA
118448226 GGATTATTGA
Statistics
Matches: 223, Mismatches: 45, Indels: 33
0.74 0.15 0.11
Matches are distributed among these distances:
28 10 0.04
29 7 0.03
31 5 0.02
33 29 0.13
34 75 0.34
35 71 0.32
36 23 0.10
37 3 0.01
ACGTcount: A:0.44, C:0.13, G:0.11, T:0.33
Consensus pattern (35 bp):
TTTTTTAAAACACGAAAATTTTTGAAACACGGAAA
Found at i:118448236 original size:35 final size:35
Alignment explanation
Indices: 118448060--118448237 Score: 125
Period size: 35 Copynumber: 5.1 Consensus size: 35
118448050 AGAATTTTTA
* *
118448060 AAACA-CGAAAATTTTT-AAAACACGAAAATTTTTG
1 AAACACCG-AAATTTTTGAAAACACGAAGATTATTG
* * *** * *
118448094 AAACACGGAAATTTTTTAGAAA-ACGATTTTTTTTA
1 AAACACCGAAATTTTTGA-AAACACGAAGATTATTG
* * *
118448129 AAATCACCGGAGTTTTTGAAAACACGAAAATCT-TTG
1 AAA-CACCGAAATTTTTGAAAACACGAAGAT-TATTG
*
118448165 AAACACCGAAATTTTTGAAAACACGAAGATTTTTG
1 AAACACCGAAATTTTTGAAAACACGAAGATTATTG
* *
118448200 AAACA-CGAAAATTTTTTG-AAGCACGAGGATTATTG
1 AAACACCG-AAA-TTTTTGAAAACACGAAGATTATTG
118448235 AAA
1 AAA
118448238 TTACAATTTT
Statistics
Matches: 116, Mismatches: 19, Indels: 17
0.76 0.12 0.11
Matches are distributed among these distances:
34 16 0.14
35 69 0.59
36 30 0.26
37 1 0.01
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.30
Consensus pattern (35 bp):
AAACACCGAAATTTTTGAAAACACGAAGATTATTG
Found at i:118448412 original size:17 final size:16
Alignment explanation
Indices: 118448378--118448428 Score: 57
Period size: 17 Copynumber: 3.0 Consensus size: 16
118448368 AAAATTATTT
118448378 AAAATAAAATAAAATA
1 AAAATAAAATAAAATA
* *
118448394 AAAATCAAATTAAATTA
1 AAAAT-AAAATAAAATA
118448411 AAAATATAAATATAAATA
1 AAAATA-AAATA-AAATA
118448429 TGCATAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
16 6 0.21
17 18 0.64
18 4 0.14
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (16 bp):
AAAATAAAATAAAATA
Found at i:118448572 original size:10 final size:9
Alignment explanation
Indices: 118448557--118448613 Score: 51
Period size: 10 Copynumber: 5.7 Consensus size: 9
118448547 ATTGAACCTC
118448557 TTTTTTCTT
1 TTTTTTCTT
118448566 GTTTTTTCTTTT
1 -TTTTTTC--TT
118448578 TCTTTTTCTCT
1 T-TTTTTCT-T
*
118448589 CTTTTTCTT
1 TTTTTTCTT
118448598 TTTTTCTCTT
1 TTTTT-TCTT
118448608 TTTTTT
1 TTTTTT
118448614 TGCTGGGCTG
Statistics
Matches: 40, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
9 6 0.15
10 24 0.60
11 2 0.05
12 8 0.20
ACGTcount: A:0.00, C:0.16, G:0.02, T:0.82
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:118448579 original size:16 final size:15
Alignment explanation
Indices: 118448558--118448614 Score: 71
Period size: 16 Copynumber: 3.7 Consensus size: 15
118448548 TTGAACCTCT
118448558 TTTTTCTTGTTTTTTC
1 TTTTTCTT-TTTTTTC
*
118448574 TTTTTCTTTTTCTCTC
1 TTTTTCTTTTT-TTTC
118448590 TTTTTCTTTTTTTCTC
1 TTTTTCTTTTTTT-TC
118448606 TTTTT-TTTT
1 TTTTTCTTTT
118448615 GCTGGGCTGG
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
15 8 0.22
16 29 0.78
ACGTcount: A:0.00, C:0.16, G:0.02, T:0.82
Consensus pattern (15 bp):
TTTTTCTTTTTTTTC
Found at i:118448597 original size:32 final size:30
Alignment explanation
Indices: 118448554--118448614 Score: 88
Period size: 32 Copynumber: 2.0 Consensus size: 30
118448544 CGAATTGAAC
118448554 CTCTTTTTTCTTGTTTTT-TCTTTTTCTTTTT
1 CTCTTTTTTCTT-TTTTTCTCTTTTT-TTTTT
118448585 CTCTCTTTTTCTTTTTTTCTCTTTTTTTTT
1 CTCT-TTTTTCTTTTTTTCTCTTTTTTTTT
118448615 GCTGGGCTGG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
31 13 0.46
32 15 0.54
ACGTcount: A:0.00, C:0.18, G:0.02, T:0.80
Consensus pattern (30 bp):
CTCTTTTTTCTTTTTTTCTCTTTTTTTTTT
Found at i:118448760 original size:23 final size:24
Alignment explanation
Indices: 118448731--118448784 Score: 101
Period size: 23 Copynumber: 2.3 Consensus size: 24
118448721 CTGCATTTGG
118448731 GCTGCTTCTTTCTTCTTCTTTTTT
1 GCTGCTTCTTTCTTCTTCTTTTTT
118448755 -CTGCTTCTTTCTTCTTCTTTTTT
1 GCTGCTTCTTTCTTCTTCTTTTTT
118448778 GCTGCTT
1 GCTGCTT
118448785 TTTTTTGCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
23 23 0.79
24 6 0.21
ACGTcount: A:0.00, C:0.26, G:0.09, T:0.65
Consensus pattern (24 bp):
GCTGCTTCTTTCTTCTTCTTTTTT
Found at i:118448934 original size:24 final size:24
Alignment explanation
Indices: 118448914--118448973 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
118448904 CTTTTCTTTT
*
118448914 TCTTTT-TTCTTTCTTTCTTCTTCC
1 TCTTTTCTTC-TTCCTTCTTCTTCC
118448938 TCTTTTCTTCTTCCTTCTTCTTCC
1 TCTTTTCTTCTTCCTTCTTCTTCC
*
118448962 T-TCTTCTTCTTC
1 TCTTTTCTTCTTC
118448974 AAAGTCTAGC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
23 10 0.30
24 20 0.61
25 3 0.09
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (24 bp):
TCTTTTCTTCTTCCTTCTTCTTCC
Found at i:118448936 original size:3 final size:3
Alignment explanation
Indices: 118448902--118448973 Score: 62
Period size: 3 Copynumber: 24.0 Consensus size: 3
118448892 TTTTTATTAT
* *
118448902 TTC TT- TTC TTT TTC TT- TT- TTC TTTC TTTC TTC TTC CTC TT- TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC -TTC -TTC TTC TTC TTC TTC TTC
118448945 TTC TTCC TTC TTC TTCC TTC TTC TTC TTC
1 TTC TT-C TTC TTC TT-C TTC TTC TTC TTC
118448974 AAAGTCTAGC
Statistics
Matches: 59, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
2 8 0.14
3 38 0.64
4 13 0.22
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:118448941 original size:13 final size:13
Alignment explanation
Indices: 118448925--118448973 Score: 52
Period size: 13 Copynumber: 3.9 Consensus size: 13
118448915 CTTTTTTCTT
118448925 TCTTTCTTCTTCC
1 TCTTTCTTCTTCC
118448938 TCTTTTCTTCTT-C
1 TC-TTTCTTCTTCC
118448951 -C-TTCTTCTTCC
1 TCTTTCTTCTTCC
118448962 T-TCTTCTTCTTC
1 TCT-TTCTTCTTC
118448974 AAAGTCTAGC
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
10 8 0.26
11 1 0.03
12 1 0.03
13 12 0.39
14 9 0.29
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (13 bp):
TCTTTCTTCTTCC
Found at i:118448957 original size:10 final size:10
Alignment explanation
Indices: 118448942--118448970 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
118448932 TCTTCCTCTT
118448942 TTCTTCTTCC
1 TTCTTCTTCC
118448952 TTCTTCTTCC
1 TTCTTCTTCC
118448962 TTCTTCTTC
1 TTCTTCTTC
118448971 TTCAAAGTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (10 bp):
TTCTTCTTCC
Found at i:118449069 original size:18 final size:19
Alignment explanation
Indices: 118449033--118449073 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
118449023 CGATACTCTT
*
118449033 TCTTTTCTTCTCCTCTTTC
1 TCTTTTCCTCTCCTCTTTC
118449052 TCTTTTCCT-TCCT-TTT-
1 TCTTTTCCTCTCCTCTTTC
118449068 TCTTTT
1 TCTTTT
118449074 TTTCGAAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 6 0.29
17 3 0.14
18 4 0.19
19 8 0.38
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (19 bp):
TCTTTTCCTCTCCTCTTTC
Found at i:118449075 original size:18 final size:16
Alignment explanation
Indices: 118449028--118449075 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
118449018 GACGCCGATA
118449028 CTCTTTCTTTTCTTCTC
1 CTCTTTCTTTT-TTCTC
*
118449045 CTCTTTCTCTTTTCCTTC
1 CTCTTTCT-TTTTTC-TC
*
118449063 CTTTTTCTTTTTT
1 CTCTTTCTTTTTT
118449076 TCGAAACTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 14 0.54
18 12 0.46
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (16 bp):
CTCTTTCTTTTTTCTC
Found at i:118449362 original size:30 final size:29
Alignment explanation
Indices: 118449307--118449423 Score: 110
Period size: 30 Copynumber: 3.9 Consensus size: 29
118449297 CGTAATTTTT
* * *
118449307 AGAAAATTTAGGATTAAAATGAAATTTAA
1 AGAAAGTTTAGGGTCAAAATGAAATTTAA
* * *
118449336 TGAAAGTTTAGGAGTCTAAGTGAAATTTAA
1 AGAAAGTTTAGG-GTCAAAATGAAATTTAA
118449366 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAGTTT-AGGGTCAAAATGAAATTTAA
* * *
118449395 GGAAAAGTTTAGGGGTTAAAATGTAATTT
1 AG-AAAGTTTA-GGGTCAAAATGAAATTT
118449424 TTATTTTTAA
Statistics
Matches: 72, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
29 13 0.18
30 56 0.78
31 3 0.04
ACGTcount: A:0.45, C:0.02, G:0.21, T:0.32
Consensus pattern (29 bp):
AGAAAGTTTAGGGTCAAAATGAAATTTAA
Found at i:118449444 original size:14 final size:15
Alignment explanation
Indices: 118449419--118449453 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
118449409 GTTAAAATGT
118449419 AATTTTTATTTTTAA
1 AATTTTTATTTTTAA
*
118449434 AATTTTT-TTTTTGA
1 AATTTTTATTTTTAA
118449448 AATTTT
1 AATTTT
118449454 GAAAATTAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (15 bp):
AATTTTTATTTTTAA
Found at i:118451195 original size:4 final size:4
Alignment explanation
Indices: 118451186--118451212 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
118451176 GCCTAAGCTA
118451186 TTTC TTTC TTTC TTTC TTTC TTTC TTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTT
118451213 TTTGCAGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTC
Found at i:118452920 original size:20 final size:20
Alignment explanation
Indices: 118452895--118452932 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
118452885 TTGTATTAAT
118452895 TTATCAAAATAAAATAAATA
1 TTATCAAAATAAAATAAATA
*
118452915 TTATCAAAATAATATAAA
1 TTATCAAAATAAAATAAA
118452933 AAATTATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (20 bp):
TTATCAAAATAAAATAAATA
Found at i:118461572 original size:18 final size:18
Alignment explanation
Indices: 118461545--118461619 Score: 105
Period size: 18 Copynumber: 4.2 Consensus size: 18
118461535 TACGACCGTT
*
118461545 TACGGTACTATTCACGTA
1 TACGGCACTATTCACGTA
*
118461563 TACGGCACTATTTACGTA
1 TACGGCACTATTCACGTA
*
118461581 TACGGCACTATTTACGTA
1 TACGGCACTATTCACGTA
* *
118461599 TACGGTACTGTTCACGTA
1 TACGGCACTATTCACGTA
118461617 TAC
1 TAC
118461620 AGTAGTTGGG
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 52 1.00
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (18 bp):
TACGGCACTATTCACGTA
Found at i:118469322 original size:131 final size:131
Alignment explanation
Indices: 118469114--118469451 Score: 396
Period size: 131 Copynumber: 2.6 Consensus size: 131
118469104 CGAGAATCAC
* * * * * * * * *
118469114 AACCCAGCACGATAGGGCATGATTCC-CGAATTAACAAA-AGCCAAATATTGCCTTCGTTT-TAA
1 AACCCAACACGTTAGGGCACGATTCCGCGAATTACCAAACA-TCAAATCTCGTCTTCGTTTGGAA
* * *
118469176 GTAATTTTTAGAAGACATGAACGAAATCTT-GAAGGGATACTCGATTATTTTGAGCAAACGCGAA
65 G-AA-TTTTAAAAGACATGAACGAAAT-TTCGAAGCGATACTCAATTATTTTGAGCAAACGCGAA
118469240 ATTGT
127 ATTGT
* * * * * *
118469245 AACCTAACACGTTAGGGCACGATTCCGTGAATTACTAAATATCGAATGTCGTCTTCGTTTGGAAG
1 AACCCAACACGTTAGGGCACGATTCCGCGAATTACCAAACATCAAATCTCGTCTTCGTTTGGAAG
* *
118469310 AATTTTAAAAGACATGAATGAAATTTCGAAGCGATATTCAATTATTTTGAGCAAACGCGAAATTG
66 AATTTTAAAAGACATGAACGAAATTTCGAAGCGATACTCAATTATTTTGAGCAAACGCGAAATTG
118469375 T
131 T
* * *
118469376 AACCCAACACGTTAGGGCACGATTCCGCGAATTGCCAAACATCAAATCTTGTCTTCGTTTTGAAG
1 AACCCAACACGTTAGGGCACGATTCCGCGAATTACCAAACATCAAATCTCGTCTTCGTTTGGAAG
*
118469441 AATTTTTAAAG
66 AATTTTAAAAG
118469452 GAATACTTAT
Statistics
Matches: 175, Mismatches: 28, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
130 2 0.01
131 144 0.82
132 25 0.14
133 4 0.02
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.29
Consensus pattern (131 bp):
AACCCAACACGTTAGGGCACGATTCCGCGAATTACCAAACATCAAATCTCGTCTTCGTTTGGAAG
AATTTTAAAAGACATGAACGAAATTTCGAAGCGATACTCAATTATTTTGAGCAAACGCGAAATTG
T
Found at i:118473063 original size:13 final size:16
Alignment explanation
Indices: 118473030--118473075 Score: 53
Period size: 14 Copynumber: 3.1 Consensus size: 16
118473020 AAATGGACTC
118473030 TTTGGACTTATTTATT
1 TTTGGACTTATTTATT
118473046 TTTGGA-TT-TTTATT
1 TTTGGACTTATTTATT
* *
118473060 TTGGGTC-TATTTATT
1 TTTGGACTTATTTATT
118473075 T
1 T
118473076 ACAAATGAGC
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
14 11 0.42
15 9 0.35
16 6 0.23
ACGTcount: A:0.15, C:0.04, G:0.15, T:0.65
Consensus pattern (16 bp):
TTTGGACTTATTTATT
Found at i:118478672 original size:10 final size:10
Alignment explanation
Indices: 118478567--118478675 Score: 55
Period size: 10 Copynumber: 10.7 Consensus size: 10
118478557 ATATTAAATT
*
118478567 TTATATAAAC
1 TTATAAAAAC
*
118478577 TTATAAAAAGAA
1 TTAT-AAAA-AC
118478589 TTATAAAAAC
1 TTATAAAAAC
*
118478599 TTAT-GAAAC
1 TTATAAAAAC
*
118478608 TTATAAAAAAA
1 TTAT-AAAAAC
*
118478619 TTTTAAAAA-
1 TTATAAAAAC
*
118478628 -TATAAAAAT
1 TTATAAAAAC
118478637 TTA-ATAAAAC
1 TTATA-AAAAC
* **
118478647 ATATTTAAAATT
1 -T-TATAAAAAC
118478659 TTATAAAAAC
1 TTATAAAAAC
118478669 TTATAAA
1 TTATAAA
118478676 TAATATAAAG
Statistics
Matches: 74, Mismatches: 15, Indels: 20
0.68 0.14 0.18
Matches are distributed among these distances:
8 7 0.09
9 9 0.12
10 33 0.45
11 15 0.20
12 9 0.12
13 1 0.01
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.35
Consensus pattern (10 bp):
TTATAAAAAC
Found at i:118478934 original size:19 final size:18
Alignment explanation
Indices: 118478910--118478949 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
118478900 GATATTCTCC
118478910 TTTTTATTGATAAATTATT
1 TTTTTATTGATAAATT-TT
**
118478929 TTTTTATTTTTAAATTTT
1 TTTTTATTGATAAATTTT
118478947 TTT
1 TTT
118478950 ATCTCCAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (18 bp):
TTTTTATTGATAAATTTT
Found at i:118480135 original size:15 final size:16
Alignment explanation
Indices: 118480103--118480143 Score: 66
Period size: 15 Copynumber: 2.6 Consensus size: 16
118480093 GTTTTTTATT
118480103 TTTTGGATTTAGGGTTA
1 TTTT-GATTTAGGGTTA
118480120 TTTTGATTTA-GGTTA
1 TTTTGATTTAGGGTTA
118480135 TTTTGATTT
1 TTTTGATTT
118480144 TGATTTCGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 14 0.58
16 6 0.25
17 4 0.17
ACGTcount: A:0.17, C:0.00, G:0.22, T:0.61
Consensus pattern (16 bp):
TTTTGATTTAGGGTTA
Found at i:118480194 original size:5 final size:6
Alignment explanation
Indices: 118480134--118480300 Score: 101
Period size: 6 Copynumber: 28.7 Consensus size: 6
118480124 GATTTAGGTT
* * * * * **
118480134 ATTTTG ATTTTG ATTTCG ATTCTA ATTCTA ATTTTG ATTTTG ATTTCA
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG
* ** **
118480182 ATTTTG A-TTTG ATTTTG ATTTTG ATTTAG -GGTT- ATTTTG -GGTT-
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG
* ** * * **
118480225 ATTTCG ATTTCA ATTTTG ATTTTG ACTCTG ATTTTG ATTTCA ATTTTG
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG
** *
118480273 ATTTAA ATTTTG ATTTTG ATTTCG ATTT
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTT
118480301 AGGGTTATTT
Statistics
Matches: 119, Mismatches: 37, Indels: 10
0.72 0.22 0.06
Matches are distributed among these distances:
5 11 0.09
6 108 0.91
ACGTcount: A:0.21, C:0.06, G:0.14, T:0.59
Consensus pattern (6 bp):
ATTTTG
Found at i:118480194 original size:17 final size:17
Alignment explanation
Indices: 118480163--118480208 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 17
118480153 TTCTAATTCT
118480163 AATTTTGATTTTGATTTC
1 AATTTTGA-TTTGATTTC
*
118480181 AATTTTGATTTGATTTT
1 AATTTTGATTTGATTTC
*
118480198 GATTTTGATTT
1 AATTTTGATTT
118480209 AGGGTTATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 18 0.69
18 8 0.31
ACGTcount: A:0.22, C:0.02, G:0.13, T:0.63
Consensus pattern (17 bp):
AATTTTGATTTGATTTC
Found at i:118480511 original size:16 final size:16
Alignment explanation
Indices: 118480486--118480529 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
118480476 ACTGCTGTTT
*
118480486 ATTGTCTGTATCTGCC
1 ATTGTTTGTATCTGCC
*
118480502 ATTGTTTGTATCTGTC
1 ATTGTTTGTATCTGCC
*
118480518 ATTGTTTATATC
1 ATTGTTTGTATC
118480530 CTAGCTGCTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.52
Consensus pattern (16 bp):
ATTGTTTGTATCTGCC
Found at i:118488015 original size:25 final size:25
Alignment explanation
Indices: 118487983--118488050 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 25
118487973 TACGTGCTGT
118487983 TGACTATTTTTTAATATGCATGTAG
1 TGACTATTTTTTAATATGCATGTAG
*
118488008 TGAGTATTTTTTTAATAATATGCATGTAG
1 TGACTA--TTTTT--TAATATGCATGTAG
*
118488037 TGACTGTTTTTTAA
1 TGACTATTTTTTAA
118488051 GTGTGTGTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
25 8 0.22
27 10 0.28
29 18 0.50
ACGTcount: A:0.28, C:0.06, G:0.16, T:0.50
Consensus pattern (25 bp):
TGACTATTTTTTAATATGCATGTAG
Found at i:118488018 original size:26 final size:28
Alignment explanation
Indices: 118487989--118488048 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 28
118487979 CTGTTGACTA
*
118487989 TTTTT-TAATATGCATGTAGTGAGTATT
1 TTTTTATAATATGCATGTAGTGACTATT
*
118488016 TTTTTAATAATATGCATGTAGTGACTGTT
1 TTTTT-ATAATATGCATGTAGTGACTATT
118488045 TTTT
1 TTTT
118488049 AAGTGTGTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 5 0.17
29 24 0.83
ACGTcount: A:0.25, C:0.05, G:0.17, T:0.53
Consensus pattern (28 bp):
TTTTTATAATATGCATGTAGTGACTATT
Found at i:118488752 original size:21 final size:21
Alignment explanation
Indices: 118488726--118488777 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
118488716 CAAGTGGTTT
*
118488726 CCCCAACTCAGCAATAG-GCTA
1 CCCCAACTCAGCAAGAGAG-TA
*
118488747 CCCCAAATCAGCAAGAGAGTA
1 CCCCAACTCAGCAAGAGAGTA
118488768 CCCCAACTCA
1 CCCCAACTCA
118488778 ACAGGCTGCC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 26 0.96
22 1 0.04
ACGTcount: A:0.37, C:0.38, G:0.13, T:0.12
Consensus pattern (21 bp):
CCCCAACTCAGCAAGAGAGTA
Found at i:118489283 original size:23 final size:24
Alignment explanation
Indices: 118489246--118489293 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
118489236 TCTTCTAACA
*
118489246 TATGAGTATTAAGAAA-ACAAATG
1 TATGAGGATTAAGAAATACAAATG
*
118489269 TATGAGGATTGAGAAATACAAATG
1 TATGAGGATTAAGAAATACAAATG
118489293 T
1 T
118489294 TCTTTTTCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.48, C:0.04, G:0.21, T:0.27
Consensus pattern (24 bp):
TATGAGGATTAAGAAATACAAATG
Found at i:118490908 original size:32 final size:32
Alignment explanation
Indices: 118490872--118490933 Score: 124
Period size: 32 Copynumber: 1.9 Consensus size: 32
118490862 GAGCAAAACA
118490872 TGCCAACTATGAAATGGTGATGGATTTAGCCC
1 TGCCAACTATGAAATGGTGATGGATTTAGCCC
118490904 TGCCAACTATGAAATGGTGATGGATTTAGC
1 TGCCAACTATGAAATGGTGATGGATTTAGC
118490934 TCTATTACCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (32 bp):
TGCCAACTATGAAATGGTGATGGATTTAGCCC
Found at i:118498335 original size:22 final size:23
Alignment explanation
Indices: 118498293--118498335 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
118498283 GCTATTATTT
* *
118498293 TCATTGTTTTTGTTGTTGTTTTG
1 TCATTGTTTTTGGTGTCGTTTTG
118498316 TCATTG-TTTTGGTGTCGTTT
1 TCATTGTTTTTGGTGTCGTTT
118498336 CACTATTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.05, C:0.07, G:0.23, T:0.65
Consensus pattern (23 bp):
TCATTGTTTTTGGTGTCGTTTTG
Found at i:118502335 original size:15 final size:16
Alignment explanation
Indices: 118502315--118502363 Score: 57
Period size: 15 Copynumber: 3.2 Consensus size: 16
118502305 GGTAATAAGT
118502315 AAATAA-AATAAAATA
1 AAATAATAATAAAATA
**
118502330 AAATAATTTTAAAATA
1 AAATAATAATAAAATA
*
118502346 AAA-AATAAAAAAATA
1 AAATAATAATAAAATA
118502361 AAA
1 AAA
118502364 CATATTGGTA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
15 18 0.64
16 10 0.36
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (16 bp):
AAATAATAATAAAATA
Found at i:118507054 original size:12 final size:12
Alignment explanation
Indices: 118507037--118507062 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
118507027 AAAGGCGATC
118507037 CCAAGTCCAAGA
1 CCAAGTCCAAGA
118507049 CCAAGTCCAAGA
1 CCAAGTCCAAGA
118507061 CC
1 CC
118507063 GGCGGTTCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.38, G:0.15, T:0.08
Consensus pattern (12 bp):
CCAAGTCCAAGA
Found at i:118513726 original size:26 final size:27
Alignment explanation
Indices: 118513671--118513726 Score: 64
Period size: 26 Copynumber: 2.1 Consensus size: 27
118513661 TGGGAAATGG
*
118513671 TTTACGAAAATATTTTCTATTTTCATT
1 TTTACGAAAATATTTTCTATTTTCAGT
118513698 TTTA-GAAAATAGTTTTC-A-TTTCTAGT
1 TTTACGAAAATA-TTTTCTATTTTC-AGT
118513724 TTT
1 TTT
118513727 TAAAAATTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
25 4 0.15
26 13 0.50
27 9 0.35
ACGTcount: A:0.29, C:0.09, G:0.07, T:0.55
Consensus pattern (27 bp):
TTTACGAAAATATTTTCTATTTTCAGT
Found at i:118520840 original size:22 final size:24
Alignment explanation
Indices: 118520812--118520858 Score: 80
Period size: 22 Copynumber: 2.0 Consensus size: 24
118520802 AATTTGAATT
118520812 TTTTTGAATATTTT-AATA-TATA
1 TTTTTGAATATTTTGAATATTATA
118520834 TTTTTGAATATTTTGAATATTATA
1 TTTTTGAATATTTTGAATATTATA
118520858 T
1 T
118520859 AGAATTTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 14 0.61
23 4 0.17
24 5 0.22
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (24 bp):
TTTTTGAATATTTTGAATATTATA
Found at i:118525128 original size:24 final size:23
Alignment explanation
Indices: 118525101--118525170 Score: 86
Period size: 23 Copynumber: 3.0 Consensus size: 23
118525091 TTGTTAACAT
118525101 TGTTCGTGAACATGTTCAATTATA
1 TGTTCGTGAACATGTTCAATTA-A
* * *
118525125 TGTTCATGACCATGTTCATTTAA
1 TGTTCGTGAACATGTTCAATTAA
* *
118525148 TGTTCGTAAACATGTTCGATTAA
1 TGTTCGTGAACATGTTCAATTAA
118525171 GTTAAATGAA
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
23 19 0.50
24 19 0.50
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.41
Consensus pattern (23 bp):
TGTTCGTGAACATGTTCAATTAA
Found at i:118533224 original size:30 final size:30
Alignment explanation
Indices: 118533188--118533252 Score: 121
Period size: 30 Copynumber: 2.2 Consensus size: 30
118533178 ACTAGCAGGA
118533188 GATATATATATATATAAAAAAGGAGTCTTG
1 GATATATATATATATAAAAAAGGAGTCTTG
*
118533218 GATATATATATATATATAAAAGGAGTCTTG
1 GATATATATATATATAAAAAAGGAGTCTTG
118533248 GATAT
1 GATAT
118533253 GTGGATGAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.45, C:0.03, G:0.17, T:0.35
Consensus pattern (30 bp):
GATATATATATATATAAAAAAGGAGTCTTG
Found at i:118541714 original size:28 final size:28
Alignment explanation
Indices: 118541682--118541737 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
118541672 TCTCCTATCG
118541682 ACAAGAAGACATGATCTAAAAATTAATT
1 ACAAGAAGACATGATCTAAAAATTAATT
118541710 ACAAGAAGACATGATCTAAAAATTAATT
1 ACAAGAAGACATGATCTAAAAATTAATT
118541738 TTTCTTTTGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.54, C:0.11, G:0.11, T:0.25
Consensus pattern (28 bp):
ACAAGAAGACATGATCTAAAAATTAATT
Found at i:118547030 original size:22 final size:22
Alignment explanation
Indices: 118547002--118547043 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
118546992 AACATGAAGT
*
118547002 AAGAGAAGTAACCAGAGTTCTA
1 AAGAGAAGTAACCAAAGTTCTA
118547024 AAGAGAAGTAACCAAAGTTC
1 AAGAGAAGTAACCAAAGTTC
118547044 CAAAAATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.48, C:0.14, G:0.21, T:0.17
Consensus pattern (22 bp):
AAGAGAAGTAACCAAAGTTCTA
Found at i:118562069 original size:22 final size:22
Alignment explanation
Indices: 118562044--118562087 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
118562034 TAATCTTATA
118562044 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
118562066 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
118562088 TTTTTAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:118562125 original size:13 final size:14
Alignment explanation
Indices: 118562107--118562148 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
118562097 TTTCAACTTT
118562107 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
118562120 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
118562135 ATTTTAAATAATAT
1 ATTTT-AATAATAT
118562149 TATTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:118562133 original size:16 final size:16
Alignment explanation
Indices: 118562111--118562147 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
118562101 AACTTTATTT
118562111 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
118562128 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
118562143 TAATA
1 TAATA
118562148 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:118562197 original size:15 final size:15
Alignment explanation
Indices: 118562177--118562236 Score: 57
Period size: 15 Copynumber: 3.7 Consensus size: 15
118562167 AATATTCGAT
118562177 ATAAATATTTTAATA
1 ATAAATATTTTAATA
*
118562192 ATAAATATTTATTATA
1 ATAAATATTT-TAATA
*
118562208 ATTATAAGTATATTAATA
1 A-TA-AA-TATTTTAATA
*
118562226 ATAAATGTTTT
1 ATAAATATTTT
118562237 GTAGTATAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
15 14 0.39
16 7 0.19
17 4 0.11
18 7 0.19
19 4 0.11
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (15 bp):
ATAAATATTTTAATA
Found at i:118570086 original size:23 final size:22
Alignment explanation
Indices: 118570043--118570096 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
118570033 AAAATTTTAG
*
118570043 TAAATAAAAAATTATTAAATAT
1 TAAATAAAAAATAATTAAATAT
* *
118570065 TAAATTAAAAATAATATCAATAT
1 TAAATAAAAAATAAT-TAAATAT
*
118570088 TTAA-AAAAA
1 TAAATAAAAA
118570097 TAAAAAGATT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
22 17 0.65
23 9 0.35
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAATAAAAAATAATTAAATAT
Found at i:118570551 original size:15 final size:15
Alignment explanation
Indices: 118570531--118570562 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
118570521 TTGATAATCA
118570531 TAATATATCTAGAAT
1 TAATATATCTAGAAT
118570546 TAATATATCTAGAAT
1 TAATATATCTAGAAT
118570561 TA
1 TA
118570563 GATTAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.41
Consensus pattern (15 bp):
TAATATATCTAGAAT
Found at i:118571322 original size:21 final size:20
Alignment explanation
Indices: 118571292--118571330 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
118571282 TCGTAGAACC
*
118571292 TTTTAAATAATAACTAATTAA
1 TTTTAAATAA-AAATAATTAA
*
118571313 TTTTATATAAAAATAATT
1 TTTTAAATAAAAATAATT
118571331 TTATCAATTC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (20 bp):
TTTTAAATAAAAATAATTAA
Found at i:118572844 original size:15 final size:15
Alignment explanation
Indices: 118572824--118572852 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
118572814 ACCCTCTAGT
118572824 TTTTTCTTTTTTTTC
1 TTTTTCTTTTTTTTC
118572839 TTTTTCTTTTTTTT
1 TTTTTCTTTTTTTT
118572853 AGTTTCTAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (15 bp):
TTTTTCTTTTTTTTC
Found at i:118574312 original size:19 final size:19
Alignment explanation
Indices: 118574288--118574325 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
118574278 ACAATTTAAT
118574288 TATTTATCTAA-TAAATATA
1 TATTTA-CTAATTAAATATA
118574307 TATTTACTAATTAAATATA
1 TATTTACTAATTAAATATA
118574326 AATATTACAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (19 bp):
TATTTACTAATTAAATATA
Found at i:118584208 original size:3 final size:3
Alignment explanation
Indices: 118584202--118584229 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
118584192 CCAAAGGAGG
118584202 AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA A
118584230 AGGGATGGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:118584308 original size:6 final size:6
Alignment explanation
Indices: 118584297--118584322 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
118584287 ACTTAGTTCG
118584297 GATGAA GATGAA GATGAA GATGAA GA
1 GATGAA GATGAA GATGAA GATGAA GA
118584323 AGATACTGCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.35, T:0.15
Consensus pattern (6 bp):
GATGAA
Found at i:118586092 original size:16 final size:16
Alignment explanation
Indices: 118586071--118586108 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
118586061 ATAAATCAAT
118586071 ATTTGCTTCGATTTTA
1 ATTTGCTTCGATTTTA
118586087 ATTTGCTTCGATTTTA
1 ATTTGCTTCGATTTTA
*
118586103 GTTTGC
1 ATTTGC
118586109 AAAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.16, C:0.13, G:0.16, T:0.55
Consensus pattern (16 bp):
ATTTGCTTCGATTTTA
Found at i:118589182 original size:24 final size:26
Alignment explanation
Indices: 118589135--118589188 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
118589125 ACACAAAGAT
118589135 TTAAAATAAATCATATATGAAAAAAA
1 TTAAAATAAATCATATATGAAAAAAA
*
118589161 TTAAAATGAAT-A-ATATGTAAAAACAA
1 TTAAAATAAATCATATATG-AAAAA-AA
118589187 TT
1 TT
118589189 TTGAAAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
24 5 0.20
25 6 0.24
26 14 0.56
ACGTcount: A:0.61, C:0.04, G:0.06, T:0.30
Consensus pattern (26 bp):
TTAAAATAAATCATATATGAAAAAAA
Found at i:118589536 original size:26 final size:27
Alignment explanation
Indices: 118589507--118589557 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
118589497 AATGTATACG
118589507 ATAACTTAAA-AATAAACAATATGTAT
1 ATAACTTAAATAATAAACAATATGTAT
* *
118589533 ATAATTTAAATAATACACAATATGT
1 ATAACTTAAATAATAAACAATATGT
118589558 GGAAACACTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 9 0.41
27 13 0.59
ACGTcount: A:0.55, C:0.08, G:0.04, T:0.33
Consensus pattern (27 bp):
ATAACTTAAATAATAAACAATATGTAT
Found at i:118591323 original size:19 final size:17
Alignment explanation
Indices: 118591290--118591328 Score: 51
Period size: 19 Copynumber: 2.2 Consensus size: 17
118591280 AATATCAATA
*
118591290 AAAATATTTTTAATATT
1 AAAATATTTTTAATAAT
118591307 AAAATATTTAATTAATAAT
1 AAAATATTT--TTAATAAT
118591326 AAA
1 AAA
118591329 TTGAATAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 9 0.47
19 10 0.53
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AAAATATTTTTAATAAT
Found at i:118592613 original size:11 final size:12
Alignment explanation
Indices: 118592592--118592629 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
118592582 TTTTTTTAAA
118592592 TATATTTAATTT
1 TATATTTAATTT
*
118592604 TTTA-TTAATTAT
1 TATATTTAATT-T
118592616 TATATTTAATTT
1 TATATTTAATTT
118592628 TA
1 TA
118592630 GAAAATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
11 6 0.27
12 10 0.45
13 6 0.27
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (12 bp):
TATATTTAATTT
Found at i:118592622 original size:19 final size:19
Alignment explanation
Indices: 118592577--118592622 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
118592567 GATATATTTT
118592577 TTATATTTTTTTAAATATA
1 TTATATTTTTTTAAATATA
*
118592596 TT-TAATTTTTTATTAAT-TA
1 TTAT-ATTTTTT-TAAATATA
118592615 TTATATTT
1 TTATATTT
118592623 AATTTTAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
18 1 0.04
19 17 0.74
20 5 0.22
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
TTATATTTTTTTAAATATA
Found at i:118599900 original size:16 final size:16
Alignment explanation
Indices: 118599879--118599947 Score: 129
Period size: 16 Copynumber: 4.3 Consensus size: 16
118599869 TTGGTTCGCT
118599879 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
*
118599895 GTAATGGAATAGAGAC
1 GTAATGGAATAGAGGC
118599911 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
118599927 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
118599943 GTAAT
1 GTAAT
118599948 AGCAATTCAA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 51 1.00
ACGTcount: A:0.39, C:0.06, G:0.35, T:0.20
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:118600028 original size:39 final size:43
Alignment explanation
Indices: 118599927--118600035 Score: 138
Period size: 45 Copynumber: 2.6 Consensus size: 43
118599917 GAATAGAGGC
118599927 GTAATGGAATAGAGGCGTAATAGCAATTCAATTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGCAATTCAATTGTTTGGTT--AT
* *
118599972 GTAATGGAATAGAGGCGTAATAG-TATTC-TTGTGTTTGG-T-T
1 GTAATGGAATAGAGGCGTAATAGCAATTCAAT-TGTTTGGTTAT
118600012 G-AATGGAATAGAGGCGTAATAGCA
1 GTAATGGAATAGAGGCGTAATAGCA
118600036 GAAGGAAAAA
Statistics
Matches: 59, Mismatches: 3, Indels: 9
0.83 0.04 0.13
Matches are distributed among these distances:
39 21 0.36
40 2 0.03
43 2 0.03
44 11 0.19
45 23 0.39
ACGTcount: A:0.32, C:0.06, G:0.29, T:0.32
Consensus pattern (43 bp):
GTAATGGAATAGAGGCGTAATAGCAATTCAATTGTTTGGTTAT
Found at i:118600153 original size:21 final size:20
Alignment explanation
Indices: 118600129--118600215 Score: 53
Period size: 19 Copynumber: 4.5 Consensus size: 20
118600119 AATAAGATTA
118600129 TTAATATAAATAATAAATAAT
1 TTAATATAAATAA-AAATAAT
* *
118600150 TTAATAATAATTTAAAATAA-
1 TTAAT-ATAAATAAAAATAAT
* *
118600170 TT-AT-T-ATTAAATATAAT
1 TTAATATAAATAAAAATAAT
*
118600187 TTAATA-AAA-AATATATAAT
1 TTAATATAAATAA-AAATAAT
118600206 TTAATA-AAAT
1 TTAATATAAAT
118600216 TCTTAATATA
Statistics
Matches: 54, Mismatches: 5, Indels: 15
0.73 0.07 0.20
Matches are distributed among these distances:
16 9 0.17
17 3 0.06
18 4 0.07
19 19 0.35
20 2 0.04
21 11 0.20
22 6 0.11
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
TTAATATAAATAAAAATAAT
Found at i:118600158 original size:11 final size:11
Alignment explanation
Indices: 118600139--118600171 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
118600129 TTAATATAAA
118600139 TAATAAATAATT
1 TAAT-AATAATT
118600151 TAATAATAATT
1 TAATAATAATT
118600162 TAA-AATAATT
1 TAATAATAATT
118600172 ATTATTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 7 0.33
11 10 0.48
12 4 0.19
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
TAATAATAATT
Found at i:118600192 original size:24 final size:21
Alignment explanation
Indices: 118600116--118600227 Score: 77
Period size: 21 Copynumber: 5.0 Consensus size: 21
118600106 GTTATTAAAT
118600116 TTTAATAAGATTATTAATATAA
1 TTTAATAA-ATTATTAATATAA
* *
118600138 -ATAATAAATAATTTAATAATAA
1 TTTAATAAATTA-TTAAT-ATAA
118600160 TTTAAAATAATTATTATTAAATATAA
1 TTT--AATAA--ATTATT-AATATAA
* *
118600186 TTTAATAAA-AAAT-ATATAA
1 TTTAATAAATTATTAATATAA
*
118600205 TTTAATAAAATTCTTAATATAA
1 TTTAAT-AAATTATTAATATAA
118600227 T
1 T
118600228 CATTCTTATA
Statistics
Matches: 70, Mismatches: 9, Indels: 22
0.69 0.09 0.22
Matches are distributed among these distances:
19 12 0.17
20 6 0.09
21 14 0.20
22 12 0.17
23 1 0.01
24 5 0.07
25 5 0.07
26 9 0.13
27 6 0.09
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (21 bp):
TTTAATAAATTATTAATATAA
Found at i:118600205 original size:56 final size:57
Alignment explanation
Indices: 118600129--118600257 Score: 147
Period size: 56 Copynumber: 2.3 Consensus size: 57
118600119 AATAAGATTA
*
118600129 TTAATATAAATAATAAATAATTTAATAATAA-T-TTAAAATAATTATTATTAAATATAAT
1 TTAATA-AAATAATAAATAATTTAATAA-AATTCTTAAAATAATCATTATTAAAT-TAAT
* * * *
118600187 TTAATAAAA-AATATATAATTTAATAAAATTCTTAATATAATCATTCTTATATTAAT
1 TTAATAAAATAATAAATAATTTAATAAAATTCTTAAAATAATCATTATTAAATTAAT
* *
118600243 TTACTAAAATCATAA
1 TTAATAAAATAATAA
118600258 TATATAATAA
Statistics
Matches: 60, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
55 2 0.03
56 29 0.48
57 23 0.38
58 6 0.10
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (57 bp):
TTAATAAAATAATAAATAATTTAATAAAATTCTTAAAATAATCATTATTAAATTAAT
Found at i:118600669 original size:77 final size:77
Alignment explanation
Indices: 118600542--118600693 Score: 295
Period size: 77 Copynumber: 2.0 Consensus size: 77
118600532 TTTTTGTCCA
118600542 CTTTAATAATTGAACTTGACAATTAGATATATTTTAATCTTTGAACTTGAAATATATAAAATTTT
1 CTTTAATAATTGAACTTGACAATTAGATATATTTTAATCTTTGAACTTGAAATATATAAAATTTT
118600607 ATTGACATAACT
66 ATTGACATAACT
*
118600619 CTTTAATAATTGAACTTGACAATTAGATATATTTTAATCTTTGAACTTGAAATGTATAAAATTTT
1 CTTTAATAATTGAACTTGACAATTAGATATATTTTAATCTTTGAACTTGAAATATATAAAATTTT
118600684 ATTGACATAA
66 ATTGACATAA
118600694 AACTTTAAGA
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
77 74 1.00
ACGTcount: A:0.40, C:0.09, G:0.09, T:0.43
Consensus pattern (77 bp):
CTTTAATAATTGAACTTGACAATTAGATATATTTTAATCTTTGAACTTGAAATATATAAAATTTT
ATTGACATAACT
Found at i:118605464 original size:23 final size:22
Alignment explanation
Indices: 118605413--118605464 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
118605403 CCTCGTCTTT
*
118605413 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
118605435 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
118605458 TTCTTTT
1 TTCTTTT
118605465 TCAATTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:118611379 original size:3 final size:3
Alignment explanation
Indices: 118611373--118611434 Score: 88
Period size: 3 Copynumber: 20.3 Consensus size: 3
118611363 CATCATCATG
** *
118611373 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATTT ATT ACC AGT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT
118611419 ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT A
118611435 AATTTTTTTA
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
3 50 0.94
4 3 0.06
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:118617461 original size:37 final size:38
Alignment explanation
Indices: 118617397--118617469 Score: 103
Period size: 37 Copynumber: 1.9 Consensus size: 38
118617387 TTAATTCATA
* *
118617397 TAATAATTATATTAAAAATATTATTAAATTATATTTAG
1 TAATAATTATATTAAAAATATGATTAAAATATATTTAG
* *
118617435 TAATAATTATGTT-AAAATATGGTTAAAATATATTT
1 TAATAATTATATTAAAAATATGATTAAAATATATTT
118617470 TAAAATAGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 19 0.61
38 12 0.39
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.47
Consensus pattern (38 bp):
TAATAATTATATTAAAAATATGATTAAAATATATTTAG
Found at i:118617679 original size:16 final size:16
Alignment explanation
Indices: 118617658--118617711 Score: 81
Period size: 16 Copynumber: 3.4 Consensus size: 16
118617648 TGAGTTATTG
118617658 ATTACAACTTTATTCC
1 ATTACAACTTTATTCC
*
118617674 ATTACAACTTTATTCA
1 ATTACAACTTTATTCC
* *
118617690 ATTACAGCCTTATTCC
1 ATTACAACTTTATTCC
118617706 ATTACA
1 ATTACA
118617712 GTGAACCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.33, C:0.24, G:0.02, T:0.41
Consensus pattern (16 bp):
ATTACAACTTTATTCC
Found at i:118626968 original size:22 final size:23
Alignment explanation
Indices: 118626943--118626986 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
118626933 ATATTTGCAT
118626943 TTTCAAAATTTAT-AAAAAAAAC
1 TTTCAAAATTTATCAAAAAAAAC
* *
118626965 TTTCAAACTTTTTCAAAAAAAA
1 TTTCAAAATTTATCAAAAAAAA
118626987 AATTAAGCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.34
Consensus pattern (23 bp):
TTTCAAAATTTATCAAAAAAAAC
Found at i:118627167 original size:30 final size:27
Alignment explanation
Indices: 118627093--118627195 Score: 77
Period size: 27 Copynumber: 3.7 Consensus size: 27
118627083 CTCCTGCTTT
*
118627093 TATTAAAAA-TTAGAAAAAAAATTATAAAA
1 TATTAAAAATTTA-ATAAAAAA-T-TAAAA
* * *
118627122 AATT-AAAA-TCAATAAAACATATAAATA
1 TATTAAAAATTTAATAAAAAAT-TAAA-A
* *
118627149 TTATTTAAATTTTAATAAAAAATTAAAA
1 -TATTAAAAATTTAATAAAAAATTAAAA
118627177 TATTAAAAATTTAATAAAA
1 TATTAAAAATTTAATAAAA
118627196 TTTATAAAAT
Statistics
Matches: 60, Mismatches: 10, Indels: 10
0.75 0.12 0.12
Matches are distributed among these distances:
26 6 0.10
27 24 0.40
28 10 0.17
29 10 0.17
30 10 0.17
ACGTcount: A:0.64, C:0.02, G:0.01, T:0.33
Consensus pattern (27 bp):
TATTAAAAATTTAATAAAAAATTAAAA
Found at i:118627197 original size:10 final size:9
Alignment explanation
Indices: 118627172--118627291 Score: 50
Period size: 9 Copynumber: 12.4 Consensus size: 9
118627162 AATAAAAAAT
118627172 TAAAATATTA
1 TAAAAT-TTA
118627182 -AAAATTTAA
1 TAAAATTT-A
118627191 TAAAATTTA
1 TAAAATTTA
*
118627200 TAAAATAATA
1 TAAAAT-TTA
* *
118627210 GAAAAATCGTA
1 -TAAAAT-TTA
118627221 -AAAATATATA
1 TAAAAT-T-TA
*
118627231 TAAAAATTA
1 TAAAATTTA
118627240 TAAAATTTTA
1 TAAAA-TTTA
*
118627250 TAAAAATCGTAA
1 T-AAAAT--TTA
*
118627262 AAAAATTTA
1 TAAAATTTA
118627271 TAAAA--TA
1 TAAAATTTA
118627278 TAAAATTCTA
1 TAAAATT-TA
118627288 TAAA
1 TAAA
118627292 GTCATAGAAA
Statistics
Matches: 85, Mismatches: 12, Indels: 26
0.69 0.10 0.21
Matches are distributed among these distances:
7 7 0.08
8 2 0.02
9 31 0.36
10 23 0.27
11 20 0.24
12 2 0.02
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (9 bp):
TAAAATTTA
Found at i:118627215 original size:20 final size:21
Alignment explanation
Indices: 118627192--118627245 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 21
118627182 AAAATTTAAT
118627192 AAAATTTATAAAATA-ATAGA
1 AAAATTTATAAAATATATAGA
* *
118627212 AAAATCGTA-AAAATATATATA
1 AAAAT-TTATAAAATATATAGA
118627233 AAAA-TTATAAAAT
1 AAAATTTATAAAAT
118627246 TTTATAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
19 2 0.07
20 16 0.57
21 10 0.36
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.30
Consensus pattern (21 bp):
AAAATTTATAAAATATATAGA
Found at i:118627237 original size:21 final size:21
Alignment explanation
Indices: 118627201--118627275 Score: 77
Period size: 21 Copynumber: 3.7 Consensus size: 21
118627191 TAAAATTTAT
*
118627201 AAAATA-ATAGAAAAATCGTA
1 AAAATATATATAAAAATCGTA
118627221 AAAATATATATAAAAAT--TA
1 AAAATATATATAAAAATCGTA
*
118627240 TAAAAT-TTTATAAAAATCGTA
1 -AAAATATATATAAAAATCGTA
* *
118627261 AAAAAATTTATAAAA
1 AAAATATATATAAAA
118627276 TATAAAATTC
Statistics
Matches: 47, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
19 12 0.26
20 15 0.32
21 20 0.43
ACGTcount: A:0.64, C:0.03, G:0.04, T:0.29
Consensus pattern (21 bp):
AAAATATATATAAAAATCGTA
Found at i:118627242 original size:40 final size:40
Alignment explanation
Indices: 118627180--118627283 Score: 124
Period size: 40 Copynumber: 2.7 Consensus size: 40
118627170 ATTAAAATAT
* *
118627180 TAAAAATTTA-ATAAAATTTATAAAATAATAGAAAAATCG
1 TAAAAATATATATAAAAATTATAAAATAATAGAAAAATCG
** *
118627219 TAAAAATATATATAAAAATTATAAAATTTTATAAAAATCG
1 TAAAAATATATATAAAAATTATAAAATAATAGAAAAATCG
* *
118627259 TAAAAAAATTTAT-AAAA-TATAAAAT
1 TAAAAATATATATAAAAATTATAAAAT
118627284 TCTATAAAGT
Statistics
Matches: 57, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
38 8 0.14
39 13 0.23
40 36 0.63
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (40 bp):
TAAAAATATATATAAAAATTATAAAATAATAGAAAAATCG
Done.