Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr9
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: 38630433
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2298367 characters in sequence are not A, C, G, or T
File 19 of 97
Found at i:8638202 original size:47 final size:46
Alignment explanation
Indices: 8638129--8638409 Score: 240
Period size: 47 Copynumber: 6.0 Consensus size: 46
8638119 CTAAACATGA
*
8638129 CCATGGCGTGTCACCAACTCTGAACTCTAGCGTGTCACAGATTCCCT
1 CCATGGCGTCTCACCAACTCTGAACTCT-GCGTGTCACAGATTCCCT
* * * * * **
8638176 CCATGGCGTGTCACCAACTCTTAACTCTAGCATCTAACAGATTCAAT
1 CCATGGCGTCTCACCAACTCTGAACTCT-GCGTGTCACAGATTCCCT
* * *
8638223 CCATGGCATCTCACCAACCCTGAACGCTGACGTGTCACAGATTCCCT
1 CCATGGCGTCTCACCAACTCTGAACTCTG-CGTGTCACAGATTCCCT
* * * * * *
8638270 CAATGGCGTCTCACCAGCTCTCAACGCTGCCGTGTCACACATTCCCA
1 CCATGGCGTCTCACCAACTCTGAACTCTG-CGTGTCACAGATTCCCT
* * * * * *
8638317 CCATGGCGTGTTACTAACTCTTAATTCTG-GTGTCTCACAGATTTCCT
1 CCATGGCGTCTCACCAACTCTGAACTCTGCGTG--TCACAGATTCCCT
* * ** *
8638364 CCATGGCGTCTCACCAACTATGAGCGGTGCCGTGTCACACATTCCC
1 CCATGGCGTCTCACCAACTCTGAACTCTG-CGTGTCACAGATTCCC
8638410 AACATGACGT
Statistics
Matches: 183, Mismatches: 46, Indels: 10
0.77 0.19 0.04
Matches are distributed among these distances:
45 3 0.02
46 1 0.01
47 176 0.96
49 3 0.02
ACGTcount: A:0.22, C:0.34, G:0.17, T:0.26
Consensus pattern (46 bp):
CCATGGCGTCTCACCAACTCTGAACTCTGCGTGTCACAGATTCCCT
Found at i:8638321 original size:94 final size:94
Alignment explanation
Indices: 8638128--8638431 Score: 290
Period size: 94 Copynumber: 3.2 Consensus size: 94
8638118 TCTAAACATG
*
8638128 ACCATGGCGTGTCACCAACTCTGAACTCT-AGCGTGTCACAGATTCCCTCCATGGCGTGTCACCA
1 ACCATGGCGTGTCACCAACTCTGAACTCTGA-CGTGTCACAGATTCCCTCCATGGCGTCTCACCA
* * * * * * *
8638192 ACTCTTAACTCTAG-CATCTAACAGATT-CA
65 ACTCTCAACGCT-GCCGTGTCACACATTCCC
* * * * *
8638221 ATCCATGGCATCTCACCAACCCTGAACGCTGACGTGTCACAGATTCCCTCAATGGCGTCTCACCA
1 A-CCATGGCGTGTCACCAACTCTGAACTCTGACGTGTCACAGATTCCCTCCATGGCGTCTCACCA
*
8638286 GCTCTCAACGCTGCCGTGTCACACATTCCC
65 ACTCTCAACGCTGCCGTGTCACACATTCCC
* * * * ** * *
8638316 ACCATGGCGTGTTACTAACTCTTAATTCTGGTGTCTCACAGATTTCCTCCATGGCGTCTCACCAA
1 ACCATGGCGTGTCACCAACTCTGAACTCTGACGTGTCACAGATTCCCTCCATGGCGTCTCACCAA
* * * *
8638381 CTATGAGCGGTGCCGTGTCACACATTCCC
66 CTCTCAACGCTGCCGTGTCACACATTCCC
* * * *
8638410 AACATGACGTTTCACAAACTCT
1 ACCATGGCGTGTCACCAACTCT
8638432 AAACCCTGCC
Statistics
Matches: 170, Mismatches: 37, Indels: 7
0.79 0.17 0.03
Matches are distributed among these distances:
93 2 0.01
94 165 0.97
95 3 0.02
ACGTcount: A:0.24, C:0.34, G:0.17, T:0.26
Consensus pattern (94 bp):
ACCATGGCGTGTCACCAACTCTGAACTCTGACGTGTCACAGATTCCCTCCATGGCGTCTCACCAA
CTCTCAACGCTGCCGTGTCACACATTCCC
Found at i:8638398 original size:141 final size:141
Alignment explanation
Indices: 8638131--8638409 Score: 337
Period size: 141 Copynumber: 2.0 Consensus size: 141
8638121 AAACATGACC
* * * * *
8638131 ATGGCGTGTCACCAACTCTGAACTCTAGCGTGTCACAGATTCCCTCCATGGCGTGTCACCAACTC
1 ATGGCGTCTCACCAACTCTCAACGCTAGCGTGTCACACATTCCCACCATGGCGTGTCACCAACTC
*
8638196 TTAACTCTAGCATCTAACAGATTCAATCCATGGCATCTCACCAACCCTGAACGCTGACGTGTCAC
66 TTAACTCTAGCATCTAACAGATTCAATCCATGGCATCTCACCAACCATGAACGCTGACGTGTCAC
*
8638261 AGATTCCCTCA
131 ACATTCCCTCA
* * *
8638272 ATGGCGTCTCACCAGCTCTCAACGCT-GCCGTGTCACACATTCCCACCATGGCGTGTTACTAACT
1 ATGGCGTCTCACCAACTCTCAACGCTAG-CGTGTCACACATTCCCACCATGGCGTGTCACCAACT
* * ** * * * * * * *
8638336 CTTAATTCTGGTGTCTCACAGATTTC-CTCCATGGCGTCTCACCAACTATGAGCGGTGCCGTGTC
65 CTTAACTCTAGCATCTAACAGA-TTCAATCCATGGCATCTCACCAACCATGAACGCTGACGTGTC
8638400 ACACATTCCC
129 ACACATTCCC
8638410 AACATGACGT
Statistics
Matches: 115, Mismatches: 21, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
140 1 0.01
141 111 0.97
142 3 0.03
ACGTcount: A:0.23, C:0.34, G:0.18, T:0.26
Consensus pattern (141 bp):
ATGGCGTCTCACCAACTCTCAACGCTAGCGTGTCACACATTCCCACCATGGCGTGTCACCAACTC
TTAACTCTAGCATCTAACAGATTCAATCCATGGCATCTCACCAACCATGAACGCTGACGTGTCAC
ACATTCCCTCA
Found at i:8638441 original size:141 final size:141
Alignment explanation
Indices: 8638159--8638441 Score: 318
Period size: 141 Copynumber: 2.0 Consensus size: 141
8638149 TGAACTCTAG
* *
8638159 CGTGTCACAGATTCCCTCCATGGCGTGTCACCAACTCTTAACTCTAGCATCTAACAGATTCAATC
1 CGTGTCACACATTCCCACCATGGCGTGTCACCAACTCTTAACTCTAGCATCTAACAGATTCAATC
* * * * * *
8638224 CATGGCATCTCACCAACCCTGAACGCTGACGTGTCACAGATTCCCTCAATGGCGTCTCACCAGCT
66 CATGGCATCTCACCAACCATGAACGCTGACGTGTCACACATTCCCACAATGACGTCTCACAAACT
* *
8638289 CTCAACGCTGC
131 CTAAACCCTGC
* * * * ** * *
8638300 CGTGTCACACATTCCCACCATGGCGTGTTACTAACTCTTAATTCTGGTGTCTCACAGATTTC-CT
1 CGTGTCACACATTCCCACCATGGCGTGTCACCAACTCTTAACTCTAGCATCTAACAGA-TTCAAT
* * * * * *
8638364 CCATGGCGTCTCACCAACTATGAGCGGTGCCGTGTCACACATTCCCA-ACATGACGTTTCACAAA
65 CCATGGCATCTCACCAACCATGAACGCTGACGTGTCACACATTCCCACA-ATGACGTCTCACAAA
8638428 CTCTAAACCCTGC
129 CTCTAAACCCTGC
8638441 C
1 C
8638442 CTGCGACAGC
Statistics
Matches: 116, Mismatches: 24, Indels: 4
0.81 0.17 0.03
Matches are distributed among these distances:
140 1 0.01
141 112 0.97
142 3 0.03
ACGTcount: A:0.24, C:0.34, G:0.16, T:0.26
Consensus pattern (141 bp):
CGTGTCACACATTCCCACCATGGCGTGTCACCAACTCTTAACTCTAGCATCTAACAGATTCAATC
CATGGCATCTCACCAACCATGAACGCTGACGTGTCACACATTCCCACAATGACGTCTCACAAACT
CTAAACCCTGC
Found at i:8640458 original size:18 final size:18
Alignment explanation
Indices: 8640431--8640466 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
8640421 AGCCATGACT
* *
8640431 GCCATCTTCCTCCTCCTC
1 GCCATATTCCTCCACCTC
8640449 GCCATATTCCTCCACCTC
1 GCCATATTCCTCCACCTC
8640467 TTCACCACCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.11, C:0.53, G:0.06, T:0.31
Consensus pattern (18 bp):
GCCATATTCCTCCACCTC
Found at i:8643388 original size:21 final size:20
Alignment explanation
Indices: 8643347--8643389 Score: 50
Period size: 23 Copynumber: 2.0 Consensus size: 20
8643337 TAAATTTTTA
8643347 TTTTTTATTGTATTTAATTAAT
1 TTTTTTATTGTATTT--TTAAT
*
8643369 TTTTTATATTTTATTTTTAAT
1 TTTTT-TATTGTATTTTTAAT
8643390 CAAATATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 5 0.26
22 5 0.26
23 9 0.47
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (20 bp):
TTTTTTATTGTATTTTTAAT
Found at i:8644363 original size:44 final size:46
Alignment explanation
Indices: 8644308--8644422 Score: 135
Period size: 44 Copynumber: 2.5 Consensus size: 46
8644298 ATCAAAATAA
* * *
8644308 CTTTTACTATAATTAAATAATATTTT-CATCAAAATACAAATATA-
1 CTTTTATTATAATTAAATAATATTTTGCATCAAAAGACAAATAAAC
* * * * * *
8644352 TTTTTATTATAATTTAATAATATTTTGTATCATAAGATAATTAAAC
1 CTTTTATTATAATTAAATAATATTTTGCATCAAAAGACAAATAAAC
8644398 CTTTTATTATAATTAAATAATATTT
1 CTTTTATTATAATTAAATAATATTT
8644423 AATATTAAAA
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
44 23 0.40
45 12 0.21
46 23 0.40
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (46 bp):
CTTTTATTATAATTAAATAATATTTTGCATCAAAAGACAAATAAAC
Found at i:8644392 original size:23 final size:22
Alignment explanation
Indices: 8644323--8644392 Score: 54
Period size: 22 Copynumber: 3.1 Consensus size: 22
8644313 ACTATAATTA
*
8644323 AATAATATTTTCATCA-AA-AT
1 AATAATATTTTTATCATAAGAT
* * **
8644343 ACAAATATATTTTTATTATAATTT
1 A-ATA-ATATTTTTATCATAAGAT
8644367 AATAATATTTTGTATCATAAGAT
1 AATAATATTTT-TATCATAAGAT
8644390 AAT
1 AAT
8644393 TAAACCTTTT
Statistics
Matches: 37, Mismatches: 8, Indels: 7
0.71 0.15 0.13
Matches are distributed among these distances:
20 1 0.03
21 2 0.05
22 17 0.46
23 15 0.41
24 2 0.05
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.46
Consensus pattern (22 bp):
AATAATATTTTTATCATAAGAT
Found at i:8644461 original size:30 final size:32
Alignment explanation
Indices: 8644427--8644492 Score: 91
Period size: 33 Copynumber: 2.1 Consensus size: 32
8644417 ATATTTAATA
*
8644427 TTAAAAAATA-AAAT-ATATTCTTCATTATAT
1 TTAAAAAATACAAATAATATTCTTCATTACAT
*
8644457 TTAAAAAATACTAAATAATATTCTTTATTACAT
1 TTAAAAAATAC-AAATAATATTCTTCATTACAT
8644490 TTA
1 TTA
8644493 TTATATTCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
30 10 0.32
32 4 0.13
33 17 0.55
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (32 bp):
TTAAAAAATACAAATAATATTCTTCATTACAT
Found at i:8644524 original size:45 final size:45
Alignment explanation
Indices: 8644463--8644553 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
8644453 ATATTTAAAA
* *
8644463 AATACTAAATAATATTCTTTATTACATTTATTATA-TTCAAATAAT
1 AATACTAAATAATATTCATTATAACATTTATTATAGTT-AAATAAT
* * *
8644508 AATATTAAATACTATTCATTATAATATTTATTATAGTTAAATAAT
1 AATACTAAATAATATTCATTATAACATTTATTATAGTTAAATAAT
8644553 A
1 A
8644554 TTAATATATT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
45 38 0.95
46 2 0.05
ACGTcount: A:0.46, C:0.07, G:0.01, T:0.46
Consensus pattern (45 bp):
AATACTAAATAATATTCATTATAACATTTATTATAGTTAAATAAT
Found at i:8644553 original size:20 final size:19
Alignment explanation
Indices: 8644505--8644581 Score: 68
Period size: 18 Copynumber: 3.9 Consensus size: 19
8644495 ATATTCAAAT
*
8644505 AATAATATTAAATACTATTCA
1 AATAATATTTAATA-TATT-A
* *
8644526 TTATAATATTTATTATAGTTA
1 -AATAATATTTAATATA-TTA
8644547 AATAATA-TTAATATATTA
1 AATAATATTTAATATATTA
*
8644565 TATAATATTTAA-ATATT
1 AATAATATTTAATATATT
8644582 TTTATTTCCT
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
18 14 0.30
19 11 0.23
20 6 0.13
21 3 0.06
22 13 0.28
ACGTcount: A:0.48, C:0.03, G:0.01, T:0.48
Consensus pattern (19 bp):
AATAATATTTAATATATTA
Found at i:8646130 original size:160 final size:160
Alignment explanation
Indices: 8645866--8646182 Score: 474
Period size: 160 Copynumber: 2.0 Consensus size: 160
8645856 GCATCATTGG
* *
8645866 AAACTAAAACATCTCGTGATGATTTTGACCATGGTCAAGTTGATACAGCACATCAAGATGCTTGT
1 AAACTAAAACATCTCGTGATGATTTTAACCATAGTCAAGTTGATACAGCACATCAAGATGCTTGT
* * * * * *
8645931 CCACCTTGAATGAGAAATTGATTATATGATTGGTAATGGAAATATCCATTGTTCATTTTCTTGTC
66 CCACCCTAAAAGAGAAATTGATTATATGATTGATAATGGAAATATCCATTGTTCA-TTTATTATC
*
8645996 CT-AAAAAGGAATTGATCATTTGATTAGTGA
130 CTGAAAAAAGAATTGATCATTTGATTAGTGA
* ** *
8646026 AAACTAAAACATCTTGTGATGATTTTAACCATAGTCAAGTTGATGTAGCACATCAAGATGTTTGT
1 AAACTAAAACATCTCGTGATGATTTTAACCATAGTCAAGTTGATACAGCACATCAAGATGCTTGT
* *
8646091 CCACCCTAAAAGAGAAATTGATTATATGATTGATAATGGAAATATCCATTGTTGATTTATTATTC
66 CCACCCTAAAAGAGAAATTGATTATATGATTGATAATGGAAATATCCATTGTTCATTTATTATCC
*
8646156 TGAAAAAAGAATTGGTCATTTGATTAG
131 TGAAAAAAGAATTGATCATTTGATTAG
8646183 ATGTTGCTAC
Statistics
Matches: 140, Mismatches: 16, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
159 8 0.06
160 132 0.94
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (160 bp):
AAACTAAAACATCTCGTGATGATTTTAACCATAGTCAAGTTGATACAGCACATCAAGATGCTTGT
CCACCCTAAAAGAGAAATTGATTATATGATTGATAATGGAAATATCCATTGTTCATTTATTATCC
TGAAAAAAGAATTGATCATTTGATTAGTGA
Found at i:8651108 original size:23 final size:23
Alignment explanation
Indices: 8651077--8651121 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
8651067 AAAAATATTA
8651077 AAAAATAAATAAA-AATAATTTTT
1 AAAAATAAA-AAATAATAATTTTT
* *
8651100 AAAATTAAAAAATTATAATTTT
1 AAAAATAAAAAATAATAATTTT
8651122 AAGTAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (23 bp):
AAAAATAAAAAATAATAATTTTT
Found at i:8651147 original size:18 final size:21
Alignment explanation
Indices: 8651097--8651147 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 21
8651087 AAAAATAATT
* *
8651097 TTTAAAATTAAAAAATTATAA
1 TTTAAAGTAAAAAAATTATAA
*
8651118 TTTTAAGTAAAAAAATTA-AA
1 TTTAAAGTAAAAAAATTATAA
8651138 -TTAAAG-AAAA
1 TTTAAAGTAAAA
8651148 TATCCTTAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 4 0.15
19 5 0.19
20 2 0.08
21 15 0.58
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (21 bp):
TTTAAAGTAAAAAAATTATAA
Found at i:8663752 original size:16 final size:15
Alignment explanation
Indices: 8663717--8663746 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
8663707 GATTTTGATT
*
8663717 AATAGTTATTTTTTA
1 AATAATTATTTTTTA
8663732 AATAATTATTTTTTA
1 AATAATTATTTTTTA
8663747 GTATAACATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (15 bp):
AATAATTATTTTTTA
Found at i:8679036 original size:2 final size:2
Alignment explanation
Indices: 8679029--8679069 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
8679019 ATTTGTTTGA
8679029 AC AC AC AC -C AC AC AC AC AC AC -C AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
8679069 A
1 A
8679070 TTATATATAC
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 2 0.05
2 35 0.95
ACGTcount: A:0.49, C:0.51, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:8679047 original size:13 final size:13
Alignment explanation
Indices: 8679029--8679069 Score: 75
Period size: 13 Copynumber: 3.2 Consensus size: 13
8679019 ATTTGTTTGA
8679029 ACACACACCACAC
1 ACACACACCACAC
8679042 ACACACACCACAC
1 ACACACACCACAC
8679055 ACACACA-CACAC
1 ACACACACCACAC
8679067 ACA
1 ACA
8679070 TTATATATAC
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
12 8 0.29
13 20 0.71
ACGTcount: A:0.49, C:0.51, G:0.00, T:0.00
Consensus pattern (13 bp):
ACACACACCACAC
Found at i:8679153 original size:2 final size:2
Alignment explanation
Indices: 8679146--8679188 Score: 63
Period size: 2 Copynumber: 22.0 Consensus size: 2
8679136 TNGACCAAAG
8679146 CA CA CA CA TCA CA -A CA CA CA CA CA CA C- CA CA CA CA CA CA CA
1 CA CA CA CA -CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
8679187 CA
1 CA
8679189 ACATATATAT
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
1 2 0.05
2 34 0.89
3 2 0.05
ACGTcount: A:0.49, C:0.49, G:0.00, T:0.02
Consensus pattern (2 bp):
CA
Found at i:8679176 original size:13 final size:13
Alignment explanation
Indices: 8679146--8679185 Score: 62
Period size: 13 Copynumber: 3.0 Consensus size: 13
8679136 TNGACCAAAG
*
8679146 CACACACATCACAA
1 CACACACA-CACAC
8679160 CACACACACACAC
1 CACACACACACAC
8679173 CACACACACACAC
1 CACACACACACAC
8679186 ACAACATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
13 17 0.68
14 8 0.32
ACGTcount: A:0.47, C:0.50, G:0.00, T:0.03
Consensus pattern (13 bp):
CACACACACACAC
Found at i:8679179 original size:15 final size:15
Alignment explanation
Indices: 8679146--8679191 Score: 74
Period size: 15 Copynumber: 3.0 Consensus size: 15
8679136 TNGACCAAAG
8679146 CACACACATCACAACA
1 CACACACA-CACAACA
*
8679162 CACACACACACCACA
1 CACACACACACAACA
8679177 CACACACACACAACA
1 CACACACACACAACA
8679192 TATATATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
15 20 0.71
16 8 0.29
ACGTcount: A:0.50, C:0.48, G:0.00, T:0.02
Consensus pattern (15 bp):
CACACACACACAACA
Found at i:8679205 original size:123 final size:122
Alignment explanation
Indices: 8679032--8679259 Score: 422
Period size: 123 Copynumber: 1.9 Consensus size: 122
8679022 TGTTTGAACA
*
8679032 CACACCACACACACACACCACACACACACACACACACATTATATATACATAAAAAAAAGAAAAAA
1 CACAACACACACACACACCACACACACACACACACACATTATATATACATAAAAAAAAGAAAAAA
8679097 AGCATCATCTCATACATGAAAATTTTTTTTCCTCATATTTNGACCAAAGCACACACAT
66 AGCATCATCTCATACATGAAAATTTTTTTTCCTCATATTT-GACCAAAGCACACACAT
8679155 CACAACACACACACACACCACACACACACACACA-ACATATATATATACATAAAAAAAAGAAAAA
1 CACAACACACACACACACCACACACACACACACACACAT-TATATATACATAAAAAAAAGAAAAA
8679219 AAGCATCATCTCATACATGAAAATTTTTTTTCCTCATATTT
65 AAGCATCATCTCATACATGAAAATTTTTTTTCCTCATATTT
8679260 CAATTAAAAA
Statistics
Matches: 103, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
122 4 0.04
123 99 0.96
ACGTcount: A:0.47, C:0.27, G:0.04, T:0.21
Consensus pattern (122 bp):
CACAACACACACACACACCACACACACACACACACACATTATATATACATAAAAAAAAGAAAAAA
AGCATCATCTCATACATGAAAATTTTTTTTCCTCATATTTGACCAAAGCACACACAT
Found at i:8679667 original size:30 final size:30
Alignment explanation
Indices: 8679633--8679701 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
8679623 GATAGTAACA
* *
8679633 TGTTACTACCTAAAGCATTATTGGCTAAGG
1 TGTTACTACCTAAAGCATTACTGGCCAAGG
* ** * *
8679663 TGTTATTGTCTAAGGCATTACTGTCCAAGG
1 TGTTACTACCTAAAGCATTACTGGCCAAGG
8679693 TGTTACTAC
1 TGTTACTAC
8679702 TCAAAGTGAT
Statistics
Matches: 29, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.36
Consensus pattern (30 bp):
TGTTACTACCTAAAGCATTACTGGCCAAGG
Found at i:8683352 original size:19 final size:19
Alignment explanation
Indices: 8683328--8683365 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
8683318 CCATTTAACT
*
8683328 TATTGGAGTATGATTTGAG
1 TATTGGAGTATAATTTGAG
8683347 TATTGGAGTATAATTTGAG
1 TATTGGAGTATAATTTGAG
8683366 GGTTTGGCAG
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:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (19 bp):
TATTGGAGTATAATTTGAG
Found at i:8683572 original size:28 final size:29
Alignment explanation
Indices: 8683531--8683595 Score: 69
Period size: 30 Copynumber: 2.2 Consensus size: 29
8683521 GTCTATGAGC
* *
8683531 AATTTTTCAGTTTT-TGGGGTAAAAATGT
1 AATTTTTCACTTTTAGGGGGTAAAAATGT
* *
8683559 AATTTTTGACTTTTACGGGGGTAAAAGTGT
1 AATTTTTCACTTTTA-GGGGGTAAAAATGT
*
8683589 AAATTTT
1 AATTTTT
8683596 AAAAATTACT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
28 12 0.40
30 18 0.60
ACGTcount: A:0.29, C:0.05, G:0.22, T:0.45
Consensus pattern (29 bp):
AATTTTTCACTTTTAGGGGGTAAAAATGT
Found at i:8684748 original size:13 final size:13
Alignment explanation
Indices: 8684730--8684755 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8684720 AAGAGAAATT
8684730 ATGATTTTATAAA
1 ATGATTTTATAAA
8684743 ATGATTTTATAAA
1 ATGATTTTATAAA
8684756 TTTTTTTGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (13 bp):
ATGATTTTATAAA
Found at i:8691176 original size:21 final size:21
Alignment explanation
Indices: 8691150--8691193 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
8691140 ACTCGCGACG
*
8691150 TTGTCCCATTTCTCTAAAACC
1 TTGTCCCACTTCTCTAAAACC
*
8691171 TTGTCCCCCTTCTCTAAAACC
1 TTGTCCCACTTCTCTAAAACC
8691192 TT
1 TT
8691194 TGCCTGACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.20, C:0.36, G:0.05, T:0.39
Consensus pattern (21 bp):
TTGTCCCACTTCTCTAAAACC
Found at i:8692836 original size:2 final size:2
Alignment explanation
Indices: 8692829--8692872 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
8692819 NNNNNNNNNN
8692829 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8692871 AT
1 AT
8692873 CGATTATGAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8693404 original size:12 final size:12
Alignment explanation
Indices: 8693387--8693424 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
8693377 CTTGAATAAG
8693387 ATACGTGAGGAA
1 ATACGTGAGGAA
8693399 ATACGTG-GGAAA
1 ATACGTGAGG-AA
*
8693411 ATACGTGAAGAA
1 ATACGTGAGGAA
8693423 AT
1 AT
8693425 GAGAAATGTG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
11 2 0.09
12 20 0.87
13 1 0.04
ACGTcount: A:0.45, C:0.08, G:0.29, T:0.18
Consensus pattern (12 bp):
ATACGTGAGGAA
Found at i:8693597 original size:38 final size:38
Alignment explanation
Indices: 8693546--8693622 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
8693536 GTAAGAAAAA
8693546 AAAATTCCCTCACATGATGTATAATTTTCAATGCAAAC
1 AAAATTCCCTCACATGATGTATAATTTTCAATGCAAAC
* *
8693584 AAAATTCCCTCACATGATGTATAATTTTCAGTGCCAAC
1 AAAATTCCCTCACATGATGTATAATTTTCAATGCAAAC
8693622 A
1 A
8693623 CTTGGATACT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.38, C:0.22, G:0.09, T:0.31
Consensus pattern (38 bp):
AAAATTCCCTCACATGATGTATAATTTTCAATGCAAAC
Found at i:8693888 original size:30 final size:30
Alignment explanation
Indices: 8693852--8693908 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
8693842 GATCAAAATA
*
8693852 TTTCCAACGGAAAATTCA-GTTGGAAATATT
1 TTTCCAACGAAAAATT-ATGTTGGAAATATT
8693882 TTTCCAACGAAAAATTATGTTGGAAAT
1 TTTCCAACGAAAAATTATGTTGGAAAT
8693909 GTTAAATGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
29 1 0.04
30 24 0.96
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.33
Consensus pattern (30 bp):
TTTCCAACGAAAAATTATGTTGGAAATATT
Found at i:8693962 original size:31 final size:32
Alignment explanation
Indices: 8693919--8693981 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 32
8693909 GTTAAATGTT
*
8693919 TTTCTGTTGGAAATAAGATTTCCAAC-GAAAA
1 TTTCCGTTGGAAATAAGATTTCCAACGGAAAA
**
8693950 TTTCCGTTGGAAATAATTTTTCCAACGGAAAA
1 TTTCCGTTGGAAATAAGATTTCCAACGGAAAA
8693982 AATTCCTACT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
31 23 0.82
32 5 0.18
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (32 bp):
TTTCCGTTGGAAATAAGATTTCCAACGGAAAA
Found at i:8694813 original size:17 final size:18
Alignment explanation
Indices: 8694791--8694824 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
8694781 TAAAAATAAT
8694791 GAATCA-AAATTATTAAC
1 GAATCAGAAATTATTAAC
8694808 GAATCAGAAATTATTAA
1 GAATCAGAAATTATTAA
8694825 AGAAATATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.53, C:0.09, G:0.09, T:0.29
Consensus pattern (18 bp):
GAATCAGAAATTATTAAC
Found at i:8696849 original size:103 final size:101
Alignment explanation
Indices: 8696742--8696935 Score: 241
Period size: 103 Copynumber: 1.9 Consensus size: 101
8696732 CTAATGGTTG
* * ** *
8696742 AAATATGAGTAATGAATC-ATGGTCAAAGAATGAGC-ATAAAGCTTGTGACTAATAGAAAAAATA
1 AAATATGAGTAAT-AAGCTATAGTCAAAGAATGAGCGAT-AAGCTTGCAACCAATAG-AAAAATA
*
8696805 TAATTTCTAGCTAAAA-TATAAGCGATAAAGTTTGTGGCTA
63 TAATTGC-AGC-AAAAGTATAAGCGATAAAGTTTGTGGCTA
* * *
8696845 AAATATGAGTGATAAGCTATAGTCAAAGAATGAGCGATAAGCTTGCAACCAATAGTATAATATAA
1 AAATATGAGTAATAAGCTATAGTCAAAGAATGAGCGATAAGCTTGCAACCAATAGAAAAATATAA
8696910 TTGCAGCAAAAGTATAAGCGATAAAG
66 TTGCAGCAAAAGTATAAGCGATAAAG
8696936 CCAGCGGCTG
Statistics
Matches: 79, Mismatches: 9, Indels: 8
0.82 0.09 0.08
Matches are distributed among these distances:
100 4 0.05
101 17 0.22
102 14 0.18
103 42 0.53
104 2 0.03
ACGTcount: A:0.45, C:0.10, G:0.19, T:0.26
Consensus pattern (101 bp):
AAATATGAGTAATAAGCTATAGTCAAAGAATGAGCGATAAGCTTGCAACCAATAGAAAAATATAA
TTGCAGCAAAAGTATAAGCGATAAAGTTTGTGGCTA
Found at i:8697691 original size:21 final size:21
Alignment explanation
Indices: 8697662--8697702 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
8697652 CTCACTGTCT
8697662 CAAAAGTATTGATACATTTTA
1 CAAAAGTATTGATACATTTTA
*
8697683 CAAATGTATTGATACATTTT
1 CAAAAGTATTGATACATTTT
8697703 CAATAGAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.41
Consensus pattern (21 bp):
CAAAAGTATTGATACATTTTA
Found at i:8705747 original size:15 final size:15
Alignment explanation
Indices: 8705727--8705758 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
8705717 TAATGTTATA
8705727 ATTAAAATAAAAAAT
1 ATTAAAATAAAAAAT
*
8705742 ATTAAAATAAAATAT
1 ATTAAAATAAAAAAT
8705757 AT
1 AT
8705759 AATATAAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
ATTAAAATAAAAAAT
Found at i:8705760 original size:33 final size:33
Alignment explanation
Indices: 8705723--8705917 Score: 114
Period size: 33 Copynumber: 6.1 Consensus size: 33
8705713 TTTGTAATGT
8705723 TATAAT-TAA-AATAAAAAATATTAAAATAAAATA
1 TATAATATAAGAAT-AAAAA-ATTAAAATAAAATA
* *
8705756 TATAATATAAGAATTAGAAATTAAAAT-AAA-A
1 TATAATATAAGAATAAAAAATTAAAATAAAATA
*
8705787 TATAATATAAG------AAATTAAAAT---TTA
1 TATAATATAAGAATAAAAAATTAAAATAAAATA
* *
8705811 TATAATATAGGTAA-AAGAAATTAAAAT-AAATA
1 TATAATATAAG-AATAAAAAATTAAAATAAAATA
* *
8705843 TATAATATAAAAAATTATATTAAAAATGAAAATAAAATA
1 TATAATAT--AAGA--ATA--AAAAATTAAAATAAAATA
* * *
8705882 TATAATATTATAATAAAAAATAAAAATAAAATA
1 TATAATATAAGAATAAAAAATTAAAATAAAATA
8705915 TAT
1 TAT
8705918 GACATTAAAA
Statistics
Matches: 131, Mismatches: 12, Indels: 38
0.72 0.07 0.21
Matches are distributed among these distances:
24 11 0.08
25 10 0.08
30 10 0.08
31 12 0.09
32 13 0.10
33 35 0.27
34 7 0.05
35 7 0.05
36 1 0.01
37 2 0.02
38 10 0.08
39 13 0.10
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (33 bp):
TATAATATAAGAATAAAAAATTAAAATAAAATA
Found at i:8705778 original size:48 final size:53
Alignment explanation
Indices: 8705726--8705859 Score: 145
Period size: 55 Copynumber: 2.5 Consensus size: 53
8705716 GTAATGTTAT
* *
8705726 AATTAAAATAAA-A-AATATTA-AAA-TAAAA-TATATAATATAAG-AATTAGA
1 AATTAAAATAAATATAATATAAGAAATTAAAATTATATAATATAAGTAA-AAGA
*
8705774 AATTAAAATAAAATATAATATAAGAAATTAAAATTTATATAATATAGGTAAAAGA
1 AATTAAAAT-AAATATAATATAAGAAATTAAAA-TTATATAATATAAGTAAAAGA
*
8705829 AATTAAAATAAATATATAATATAAAAAATTA
1 AATTAAAAT-AA-ATATAATATAAGAAATTA
8705860 TATTAAAAAT
Statistics
Matches: 73, Mismatches: 4, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
48 9 0.12
49 3 0.04
50 1 0.01
51 6 0.08
52 3 0.04
53 5 0.07
55 27 0.37
56 19 0.26
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (53 bp):
AATTAAAATAAATATAATATAAGAAATTAAAATTATATAATATAAGTAAAAGA
Found at i:8705818 original size:24 final size:25
Alignment explanation
Indices: 8705726--8705859 Score: 98
Period size: 26 Copynumber: 5.2 Consensus size: 25
8705716 GTAATGTTAT
*
8705726 AATTAAAAT-AAA-A-AATATTA-A
1 AATTAAAATAAAATATAATATAAGA
* *
8705747 AA-TAAAATATATAATATAAGAATTAGA
1 AATTAAAATA-A-AATATAA-TATAAGA
8705774 AATTAAAATAAAATATAATATAAGA
1 AATTAAAATAAAATATAATATAAGA
* *
8705799 AATTAAAATTTATATAATATAGGTAAAAGA
1 AATTAAAA--TA-A-AATATA-ATATAAGA
*
8705829 AATTAAAATAAATATATAATATAAAA
1 AATTAAAATAAA-ATATAATATAAGA
8705855 AATTA
1 AATTA
8705860 TATTAAAAAT
Statistics
Matches: 91, Mismatches: 8, Indels: 23
0.75 0.07 0.19
Matches are distributed among these distances:
20 6 0.07
21 2 0.02
22 1 0.01
23 2 0.02
24 1 0.01
25 15 0.16
26 22 0.24
27 12 0.13
28 10 0.11
29 6 0.07
30 14 0.15
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (25 bp):
AATTAAAATAAAATATAATATAAGA
Found at i:8705830 original size:55 final size:56
Alignment explanation
Indices: 8705754--8705859 Score: 162
Period size: 55 Copynumber: 1.9 Consensus size: 56
8705744 TAAAATAAAA
* *
8705754 TATATAATATAAGAATTAGAAATTAAAATAAA-ATATAATATAAGAAATTAAAATT
1 TATATAATATAAGAATAAGAAATTAAAATAAATATATAATATAAAAAATTAAAATT
*
8705809 TATATAATATAGGTAA-AAGAAATTAAAATAAATATATAATATAAAAAATTA
1 TATATAATATAAG-AATAAGAAATTAAAATAAATATATAATATAAAAAATTA
8705860 TATTAAAAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
55 27 0.59
56 19 0.41
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (56 bp):
TATATAATATAAGAATAAGAAATTAAAATAAATATATAATATAAAAAATTAAAATT
Found at i:8706263 original size:13 final size:14
Alignment explanation
Indices: 8706235--8706267 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
8706225 TAATAATGTG
8706235 ATAAATTTACTTTT
1 ATAAATTTACTTTT
*
8706249 ATAAATTT-TTTTT
1 ATAAATTTACTTTT
8706262 ATAAAT
1 ATAAAT
8706268 AAACTGTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (14 bp):
ATAAATTTACTTTT
Found at i:8707513 original size:2 final size:2
Alignment explanation
Indices: 8707506--8707566 Score: 104
Period size: 2 Copynumber: 30.5 Consensus size: 2
8707496 TTGCACAATC
* *
8707506 TA TA TA TA AA TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8707548 TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
8707567 TGGGACTTAA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:8712247 original size:4 final size:4
Alignment explanation
Indices: 8712240--8712293 Score: 81
Period size: 4 Copynumber: 13.5 Consensus size: 4
8712230 TGTATTTGTA
* *
8712240 TGTG TGTG TGTG TGTG TGTG TGTG TGTG TGTG TGTG TGTA TGTC TGTG
1 TGTG TGTG TGTG TGTG TGTG TGTG TGTG TGTG TGTG TGTG TGTG TGTG
*
8712288 TCTG TG
1 TGTG TG
8712294 CACTGTGCAC
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
4 45 1.00
ACGTcount: A:0.02, C:0.04, G:0.44, T:0.50
Consensus pattern (4 bp):
TGTG
Found at i:8712249 original size:6 final size:6
Alignment explanation
Indices: 8712240--8712293 Score: 81
Period size: 6 Copynumber: 9.0 Consensus size: 6
8712230 TGTATTTGTA
* *
8712240 TGTGTG TGTGTG TGTGTG TGTGTG TGTGTG TGTGTG TGTATG TCTGTG
1 TGTGTG TGTGTG TGTGTG TGTGTG TGTGTG TGTGTG TGTGTG TGTGTG
*
8712288 TCTGTG
1 TGTGTG
8712294 CACTGTGCAC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 45 1.00
ACGTcount: A:0.02, C:0.04, G:0.44, T:0.50
Consensus pattern (6 bp):
TGTGTG
Found at i:8712255 original size:10 final size:10
Alignment explanation
Indices: 8712240--8712293 Score: 81
Period size: 10 Copynumber: 5.4 Consensus size: 10
8712230 TGTATTTGTA
8712240 TGTGTGTGTG
1 TGTGTGTGTG
8712250 TGTGTGTGTG
1 TGTGTGTGTG
8712260 TGTGTGTGTG
1 TGTGTGTGTG
*
8712270 TGTGTGTGTA
1 TGTGTGTGTG
* *
8712280 TGTCTGTGTC
1 TGTGTGTGTG
8712290 TGTG
1 TGTG
8712294 CACTGTGCAC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 40 1.00
ACGTcount: A:0.02, C:0.04, G:0.44, T:0.50
Consensus pattern (10 bp):
TGTGTGTGTG
Found at i:8730298 original size:22 final size:22
Alignment explanation
Indices: 8730270--8730322 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
8730260 ACCATAAGCT
* *
8730270 AGAATCTAGGAGGCTTTTGTTG
1 AGAATCTAGGAGGATGTTGTTG
8730292 AGAATCTAGGAGGATGTTGTTG
1 AGAATCTAGGAGGATGTTGTTG
*
8730314 AGGATCTAG
1 AGAATCTAG
8730323 AGTATTTGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.26, C:0.08, G:0.34, T:0.32
Consensus pattern (22 bp):
AGAATCTAGGAGGATGTTGTTG
Found at i:8736916 original size:2 final size:2
Alignment explanation
Indices: 8736911--8736943 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
8736901 ACACACACAC
8736911 AT AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8736944 TCTAACATGA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8743576 original size:15 final size:14
Alignment explanation
Indices: 8743556--8743606 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
8743546 CCTTAATTAT
8743556 TATTTATTTATTTTA
1 TATTTA-TTATTTTA
8743571 TATTTATTATTTTA
1 TATTTATTATTTTA
8743585 T-TTT-TTATCTTT-
1 TATTTATTAT-TTTA
8743597 TATTCTATTA
1 TATT-TATTA
8743607 AAATATTTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
12 5 0.16
13 8 0.25
14 10 0.31
15 9 0.28
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.73
Consensus pattern (14 bp):
TATTTATTATTTTA
Found at i:8743599 original size:19 final size:18
Alignment explanation
Indices: 8743553--8743605 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 18
8743543 TTTCCTTAAT
8743553 TATTATTTA-TTTATTTTA
1 TATT-TTTATTTTATTTTA
*
8743571 TATTTATTATTTTATTTTT
1 TATTT-TTATTTTATTTTA
*
8743590 TATCTTTTATTCTATT
1 TAT-TTTTATTTTATT
8743606 AAAATATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
17 1 0.03
18 7 0.23
19 20 0.67
20 2 0.07
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.74
Consensus pattern (18 bp):
TATTTTTATTTTATTTTA
Found at i:8744615 original size:3 final size:3
Alignment explanation
Indices: 8744601--8744670 Score: 52
Period size: 3 Copynumber: 22.7 Consensus size: 3
8744591 TATATCATTT
* * *
8744601 TTA TTG TTA TTA TTA TTAA TTA TTA TT- TTC TTAA TTA TCA TTA TTA
1 TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TT-A TTA TTA TTA TTA
* * *
8744647 TTA TTT TTG TTCA TTA TTT TTA TT
1 TTA TTA TTA TT-A TTA TTA TTA TT
8744671 TCTTTTTTGT
Statistics
Matches: 53, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
2 2 0.04
3 44 0.83
4 7 0.13
ACGTcount: A:0.26, C:0.04, G:0.03, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:8745342 original size:4 final size:4
Alignment explanation
Indices: 8745317--8745406 Score: 66
Period size: 4 Copynumber: 23.0 Consensus size: 4
8745307 TGCTCTTTTC
*
8745317 TCTT TC-T T-TT TCTT T-TT T-TT TCTT TCTT TCCTT CTCTC TCTT TCCTT
1 TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT T-CTT -TCTT TCTT T-CTT
* * *
8745364 TCTT TCTC TCTT TC-T T-TT TCTT TCTT TCCT TCTCT TATT TCTT
1 TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCT-T TCTT TCTT
8745407 CCTCCCTTTT
Statistics
Matches: 69, Mismatches: 8, Indels: 18
0.73 0.08 0.19
Matches are distributed among these distances:
3 14 0.20
4 42 0.61
5 12 0.17
6 1 0.01
ACGTcount: A:0.01, C:0.28, G:0.00, T:0.71
Consensus pattern (4 bp):
TCTT
Found at i:8745344 original size:14 final size:14
Alignment explanation
Indices: 8745317--8745391 Score: 66
Period size: 14 Copynumber: 5.4 Consensus size: 14
8745307 TGCTCTTTTC
8745317 TCTTTCTTTTTCTT
1 TCTTTCTTTTTCTT
*
8745331 T-TTTTTTCTTTCTT
1 TCTTTCTT-TTTCTT
* * *
8745345 TCCTTCTCTCTCTT
1 TCTTTCTTTTTCTT
*
8745359 TCCTTTC--TTTCTC
1 T-CTTTCTTTTTCTT
8745372 TCTTTCTTTTTCTT
1 TCTTTCTTTTTCTT
8745386 TCTTTC
1 TCTTTC
8745392 CTTCTCTTAT
Statistics
Matches: 47, Mismatches: 9, Indels: 10
0.71 0.14 0.15
Matches are distributed among these distances:
12 5 0.11
13 10 0.21
14 25 0.53
15 7 0.15
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (14 bp):
TCTTTCTTTTTCTT
Found at i:8745370 original size:19 final size:18
Alignment explanation
Indices: 8745337--8745380 Score: 65
Period size: 17 Copynumber: 2.5 Consensus size: 18
8745327 TCTTTTTTTT
8745337 TCTTTCTTTCCTTCTCTC
1 TCTTTCTTTCCTTCTCTC
8745355 TCTTTCCTTT-CTT-TCTC
1 TCTTT-CTTTCCTTCTCTC
8745372 TCTTTCTTT
1 TCTTTCTTT
8745381 TTCTTTCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 4 0.16
17 9 0.36
18 8 0.32
19 4 0.16
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (18 bp):
TCTTTCTTTCCTTCTCTC
Found at i:8745376 original size:45 final size:43
Alignment explanation
Indices: 8745309--8745398 Score: 137
Period size: 45 Copynumber: 2.0 Consensus size: 43
8745299 TGGCCAACTG
*
8745309 CTCTTTTCTCTTTCTTTTTCTTTTTTTTTCTTTCTTTCCTTCT
1 CTCTTTTCTCTTTCTTTTTCTTTCTTTTTCTTTCTTTCCTTCT
8745352 CTCTCTTTC-CTTTCTTTCTCTCTTTCTTTTTCTTTCTTTCCTTCT
1 CTCT-TTTCTCTTTCTTT-T-TCTTTCTTTTTCTTTCTTTCCTTCT
8745397 CT
1 CT
8745399 TATTTCTTCC
Statistics
Matches: 43, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
43 12 0.28
44 5 0.12
45 26 0.60
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (43 bp):
CTCTTTTCTCTTTCTTTTTCTTTCTTTTTCTTTCTTTCCTTCT
Found at i:8745404 original size:27 final size:27
Alignment explanation
Indices: 8745355--8745406 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
8745345 TCCTTCTCTC
* *
8745355 TCTTTCCTTTCTTTCTCTCTTTCTTTT
1 TCTTTCCTTTCCTTCTCTATTTCTTTT
8745382 TCTTT-CTTTCCTTCTCTTATTTCTT
1 TCTTTCCTTTCCTTCTC-TATTTCTT
8745407 CCTCCCTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 10 0.45
27 12 0.55
ACGTcount: A:0.02, C:0.29, G:0.00, T:0.69
Consensus pattern (27 bp):
TCTTTCCTTTCCTTCTCTATTTCTTTT
Found at i:8745538 original size:15 final size:15
Alignment explanation
Indices: 8745520--8745552 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
8745510 TTCTTTTTTC
8745520 TCTTTTTTTTTTCTT
1 TCTTTTTTTTTTCTT
8745535 TCTTTTTTTTTTCTT
1 TCTTTTTTTTTTCTT
8745550 TCT
1 TCT
8745553 CTCTTTCCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (15 bp):
TCTTTTTTTTTTCTT
Found at i:8745551 original size:4 final size:4
Alignment explanation
Indices: 8745509--8745582 Score: 55
Period size: 4 Copynumber: 18.8 Consensus size: 4
8745499 CGTTGATCGG
* * * *
8745509 TTTC TTT- TTTC TCTTT TTTT TTTC TTTC TTT- TTTT TTTC TTTC TCTC
1 TTTC TTTC TTTC T-TTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
* *
8745556 TTTCC TTTT TTTC -TTC CTTC TTTC TTT
1 TTT-C TTTC TTTC TTTC TTTC TTTC TTT
8745583 TCTCTTCTTC
Statistics
Matches: 57, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
3 9 0.16
4 41 0.72
5 7 0.12
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTC
Found at i:8745563 original size:24 final size:23
Alignment explanation
Indices: 8745531--8745582 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 23
8745521 CTTTTTTTTT
* *
8745531 TCTTTCTTTTTTTTTTCTTTCTC
1 TCTTTCTTTTTTTCTTCCTTCTC
*
8745554 TCTTTCCTTTTTTTCTTCCTTCTT
1 TCTTT-CTTTTTTTCTTCCTTCTC
8745578 TCTTT
1 TCTTT
8745583 TCTCTTCTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
23 5 0.20
24 20 0.80
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (23 bp):
TCTTTCTTTTTTTCTTCCTTCTC
Found at i:8745593 original size:24 final size:24
Alignment explanation
Indices: 8745566--8745693 Score: 61
Period size: 24 Copynumber: 5.2 Consensus size: 24
8745556 TTTCCTTTTT
8745566 TTCTTCCTTCTTTCTTTTCTCTTC
1 TTCTTCCTTCTTTCTTTTCTCTTC
*
8745590 TTCTCTGCTGTCGATGTTAC-TTTCTCTTC
1 TTCT-TCCT-TC--T-TT-CTTTTCTCTTC
* * *
8745619 TCCCTCTCTT-TTTCTTCTCTCTT-
1 TTCTTC-CTTCTTTCTTTTCTCTTC
* * *
8745642 TT-TTCTTTCTTTC-CTTCCCTTTC
1 TTCTTCCTTCTTTCTTTTCTC-TTC
*
8745665 TTCTT-CTATCTTTCTCTTCTCTTC
1 TTCTTCCT-TCTTTCTTTTCTCTTC
8745689 TTCTT
1 TTCTT
8745694 TGCCGCCAAC
Statistics
Matches: 77, Mismatches: 13, Indels: 28
0.65 0.11 0.24
Matches are distributed among these distances:
21 5 0.06
22 8 0.10
23 5 0.06
24 29 0.38
25 9 0.12
26 2 0.03
28 3 0.04
29 15 0.19
30 1 0.01
ACGTcount: A:0.02, C:0.33, G:0.03, T:0.62
Consensus pattern (24 bp):
TTCTTCCTTCTTTCTTTTCTCTTC
Found at i:8745595 original size:39 final size:35
Alignment explanation
Indices: 8745509--8745595 Score: 104
Period size: 36 Copynumber: 2.4 Consensus size: 35
8745499 CGTTGATCGG
* * *
8745509 TTTCTTTTTTCTCTTTTTTTTTTCTTTCTTTTTTT
1 TTTCTTTCTTCTCTTTTTTTTTTCTTCCTTTTTCT
8745544 TTTCTTTC-TCTCTTTCCTTTTTTTCTTCCTTCTTTCT
1 TTTCTTTCTTCTCTTT--TTTTTTTCTTCCTT-TTTCT
8745581 TTTCTCTTCTTCTCT
1 TTTCT-TTCTTCTCT
8745596 GCTGTCGATG
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
34 7 0.16
35 7 0.16
36 13 0.30
37 9 0.20
38 3 0.07
39 5 0.11
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (35 bp):
TTTCTTTCTTCTCTTTTTTTTTTCTTCCTTTTTCT
Found at i:8745651 original size:15 final size:13
Alignment explanation
Indices: 8745622--8745686 Score: 50
Period size: 12 Copynumber: 5.3 Consensus size: 13
8745612 TCTCTTCTCC
8745622 CTCTCTTTTTCTT
1 CTCTCTTTTTCTT
8745635 CTCTC-TTTT-TT
1 CTCTCTTTTTCTT
* *
8745646 CTTTC-TTTCCTT
1 CTCTCTTTTTCTT
8745658 C-C-CTTTCTTCTT
1 CTCTCTTT-TTCTT
* *
8745670 CTATCTTTCTCTT
1 CTCTCTTTTTCTT
8745683 CTCT
1 CTCT
8745687 TCTTCTTTGC
Statistics
Matches: 40, Mismatches: 7, Indels: 10
0.70 0.12 0.18
Matches are distributed among these distances:
10 1 0.03
11 11 0.28
12 12 0.30
13 12 0.30
14 4 0.10
ACGTcount: A:0.02, C:0.34, G:0.00, T:0.65
Consensus pattern (13 bp):
CTCTCTTTTTCTT
Found at i:8745668 original size:21 final size:20
Alignment explanation
Indices: 8745648--8745694 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
8745638 TCTTTTTTCT
8745648 TTCTTTCCTTCCCTTTCTTC
1 TTCTTTCCTTCCCTTTCTTC
* * *
8745668 TTCTATCTTTCTCTTCTCTTC
1 TTCTTTCCTTCCCTT-TCTTC
8745689 TTCTTT
1 TTCTTT
8745695 GCCGCCAACG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.02, C:0.34, G:0.00, T:0.64
Consensus pattern (20 bp):
TTCTTTCCTTCCCTTTCTTC
Found at i:8745730 original size:99 final size:99
Alignment explanation
Indices: 8745508--8745735 Score: 239
Period size: 99 Copynumber: 2.3 Consensus size: 99
8745498 CCGTTGATCG
* * * * * *
8745508 GTTTC-TT-TTTTCTCTTTTTTTTTTCTTTCTTTTTTTTTTCTTTCTCTCTTTCCTTTTTTTCTT
1 GTTTCTTTCTTTTCTCTTCTTTTTTTCTTTCTCTCTTTTTTCTTTCTCTCCTTCCCTTTCTTCTT
* * * * *
8745571 CCTTCTTTCTTTTCTCTTCTTCTCTGCTGTCGAT
66 CCTTCTTTCTCTTCTCTTCTTCTCTGCCGCCAAC
* * * * *
8745605 GTTACTTTCTCTTCTCCCTCTCTTTTTC-TTCTCTCTTTTTTCTTTCTTTCCTTCCCTTTCTTCT
1 GTTTCTTTCTTTTCT-CTTCTTTTTTTCTTTCTCTCTTTTTTCTTTCTCTCCTTCCCTTTCTTCT
*
8745669 T-CTATCTTTCTCTTCTCTTCTTCTTTGCCGCCAAC
65 TCCT-TCTTTCTCTTCTCTTCTTCTCTGCCGCCAAC
8745704 GTTTCTTTCTTTTCTCTATCTTTTTTTACTTT
1 GTTTCTTTCTTTTCTCT-TCTTTTTTT-CTTT
8745736 TCTATTTCTT
Statistics
Matches: 103, Mismatches: 21, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
97 4 0.04
98 5 0.05
99 82 0.80
100 10 0.10
101 2 0.02
ACGTcount: A:0.03, C:0.28, G:0.04, T:0.65
Consensus pattern (99 bp):
GTTTCTTTCTTTTCTCTTCTTTTTTTCTTTCTCTCTTTTTTCTTTCTCTCCTTCCCTTTCTTCTT
CCTTCTTTCTCTTCTCTTCTTCTCTGCCGCCAAC
Found at i:8749344 original size:45 final size:44
Alignment explanation
Indices: 8749290--8749374 Score: 127
Period size: 45 Copynumber: 1.9 Consensus size: 44
8749280 CTTTTAGGTC
8749290 CAAACTTTGAAATTATTTTTCTTGTT-TTCCTTTTTTCCTTTAGCT
1 CAAACTTTGAAATTATTTTTCTT-TTCTT-CTTTTTTCCTTTAGCT
* *
8749335 CAAATTTTGAAATTATTTTTCTTTTCTTTTTTTTTCCTTT
1 CAAACTTTGAAATTATTTTTCTTTTCTTCTTTTTTCCTTT
8749375 TTGCCTTAGC
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
44 13 0.35
45 24 0.65
ACGTcount: A:0.18, C:0.15, G:0.05, T:0.62
Consensus pattern (44 bp):
CAAACTTTGAAATTATTTTTCTTTTCTTCTTTTTTCCTTTAGCT
Found at i:8749596 original size:101 final size:100
Alignment explanation
Indices: 8749422--8749619 Score: 317
Period size: 101 Copynumber: 2.0 Consensus size: 100
8749412 TTTTCTTTTA
*
8749422 TTTTTTCTCTTTTTTTTTAACTCATCTTTTGATCTTAAAGATAGATTTAATTATTCAAGATTGAT
1 TTTTTTCTCTTTTTTTTTAACTCATCTTTTGATCCTAAAGATAGATTTAATTATTCAAGATTGAT
*
8749487 GACATTGAACTTGATATTATGCGAAATCCATGTTC
66 GACATTGAACTTGATAATATGCGAAATCCATGTTC
* * *
8749522 TTTTTTCT-TTTTTTTCCTTAACTCATCTTTTGATCCTAACGATGGATTTAATTGTTCAAGATTG
1 TTTTTTCTCTTTTTTT--TTAACTCATCTTTTGATCCTAAAGATAGATTTAATTATTCAAGATTG
*
8749586 ATGACATTGAACTTGATAATATGCGAGATCCATG
64 ATGACATTGAACTTGATAATATGCGAAATCCATG
8749620 CTTGCAAAGT
Statistics
Matches: 90, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
99 7 0.08
100 8 0.09
101 75 0.83
ACGTcount: A:0.27, C:0.14, G:0.13, T:0.46
Consensus pattern (100 bp):
TTTTTTCTCTTTTTTTTTAACTCATCTTTTGATCCTAAAGATAGATTTAATTATTCAAGATTGAT
GACATTGAACTTGATAATATGCGAAATCCATGTTC
Found at i:8750611 original size:2 final size:2
Alignment explanation
Indices: 8750604--8750628 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8750594 ATTTTTATTT
8750604 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
8750629 TTTAATAGCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8751012 original size:17 final size:16
Alignment explanation
Indices: 8750990--8751022 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
8750980 CTTAATCTTT
8750990 CTATTTATATTATTTAA
1 CTATTTATA-TATTTAA
8751007 CTATTTATATATTTAA
1 CTATTTATATATTTAA
8751023 TCATTATGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (16 bp):
CTATTTATATATTTAA
Found at i:8751086 original size:22 final size:21
Alignment explanation
Indices: 8751058--8751102 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
8751048 TATTTAACTA
*
8751058 TTTATATTTTATACATTATAGT
1 TTTATATTTAATACATTA-AGT
*
8751080 TTTATATTTAATACTTTAAGT
1 TTTATATTTAATACATTAAGT
8751101 TT
1 TT
8751103 AAATAGAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.60
Consensus pattern (21 bp):
TTTATATTTAATACATTAAGT
Found at i:8751931 original size:20 final size:20
Alignment explanation
Indices: 8751906--8751948 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
8751896 ATAACGTGTA
8751906 CATAACTACACGGAAGGCAT
1 CATAACTACACGGAAGGCAT
8751926 CATAACTACACGGAAGGCAT
1 CATAACTACACGGAAGGCAT
8751946 CAT
1 CAT
8751949 CCATATATGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.40, C:0.26, G:0.19, T:0.16
Consensus pattern (20 bp):
CATAACTACACGGAAGGCAT
Found at i:8762845 original size:102 final size:101
Alignment explanation
Indices: 8762722--8762924 Score: 388
Period size: 102 Copynumber: 2.0 Consensus size: 101
8762712 TTTCCACTTT
8762722 GTAACATCTATAATATATATAAAAGTAAGATGTTTCAATTTCTTTCAATTTTTTTCAATTAAGTC
1 GTAACATCTATAATATATATAAAAGTAAGATGTTTCAATTTCTTTCAATTTTTTTCAATTAAGTC
8762787 TTTAATTGAATGACAAGTGTCATTCAATTAGAACTC
66 TTTAATTGAATGACAAGTGTCATTCAATTAGAACTC
*
8762823 NGTAACATTTATAATATATATAAAAGTAAGATGTTTCAATTTCTTTCAATTTTTTTCAATTAAGT
1 -GTAACATCTATAATATATATAAAAGTAAGATGTTTCAATTTCTTTCAATTTTTTTCAATTAAGT
8762888 CTTTAATTGAATGACAAGTGTCATTCAATTAGAACTC
65 CTTTAATTGAATGACAAGTGTCATTCAATTAGAACTC
8762925 CCTTTTATTT
Statistics
Matches: 100, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
102 100 1.00
ACGTcount: A:0.36, C:0.11, G:0.10, T:0.42
Consensus pattern (101 bp):
GTAACATCTATAATATATATAAAAGTAAGATGTTTCAATTTCTTTCAATTTTTTTCAATTAAGTC
TTTAATTGAATGACAAGTGTCATTCAATTAGAACTC
Found at i:8763578 original size:338 final size:342
Alignment explanation
Indices: 8762958--8763588 Score: 836
Period size: 338 Copynumber: 1.9 Consensus size: 342
8762948 TTTTTTATTG
* *
8762958 AATTAATTTTTTTTAATACCTTATGCTAAAAAAAGTTGTTTTTGACATTTGAAGGGTTTTTTTTT
1 AATTAATTTTTTTTAACACCTTATGCTAAAAAAAGTTGTTTTTGACATTTGAAGGGTCTTTTTTT
* * *
8763023 GTTTTTTTTAACTTTTATTTATTTTAATAAAAAAAACTTAAAAACAATACTTTTTAACTTTTAAT
66 GTCTTTTTTAACTTTTATTTATTTTAATAAAAAAAACTTAAAAACAATAATTTCTAACTTTTAAT
* * *
8763088 ACTTAGAGAATAAATTTATTTAATATTTATCAATTACAATTTAATATTATTTTTATCTATATTCT
131 ACTTAAAGAATAAATTCATTTAATATTTATCAATTACAATTTAATACTATTTTTATCTATATTCT
* * * * * * *
8763153 CTTATTCTATATGAACCTGAATCTATAGTATATAGATACTTTTTTTGTATATAAATGTTTAAATT
196 CTTATTCTACATCAACCTAAATCTATAGTATATAGACACTTCTTTTGTAAATAAATATTTAAATT
*
8763218 TCAATAAATATCCATCCAATTCATT-ATATAAAAGTAGGATAATTGATTGGGTCAATTGATTGAC
261 TCAATAAACATCCATCCAATTCATTGA-ATAAAAGTAGGATAATTGATTGGGTCAATTGATTGAC
8763282 ATTTTTCATTCTTAATTA
325 ATTTTTCATTCTTAATTA
* *
8763300 AATTAATTTTTTTT-ACACCTTATG-TCAAAACTACA-TTGTTTTTTACATTTGAA-GG-CTTTT
1 AATTAATTTTTTTTAACACCTTATGCT-AAAA--AAAGTTGTTTTTGACATTTGAAGGGTCTTTT
* * *
8763360 TTT-TCTTTTTT-ACTTTTATTTATTTTAGTAAAAAATA-TTGAAAACAATAATTTCTAACTTTT
63 TTTGTCTTTTTTAACTTTTATTTATTTTAATAAAAAAAACTTAAAAACAATAATTTCTAACTTTT
* ** * *
8763422 AATACTTATAAG-ATAGATTCATTTAATATTTATCAATTGTAATTTAATACTATTTTTTGTTTAT
128 AATACTTA-AAGAATAAATTCATTTAATATTTATCAATTACAATTTAATACTA-TTTTTATCTAT
* * * *
8763486 ATTCTTTTATTCTGCATCAACCTAAATTTATAGTATATAGACA-TCTCTTTTGTAAATGAATATT
191 ATTCTCTTATTCTACATCAACCTAAATCTATAGTATATAGACACT-TCTTTTGTAAATAAATATT
8763550 TAAA-TTCTAATAAACATCCATCCAATTCATTGAATAAAA
255 TAAATTTC-AATAAACATCCATCCAATTCATTGAATAAAA
8763589 TAAAAAAATC
Statistics
Matches: 251, Mismatches: 30, Indels: 20
0.83 0.10 0.07
Matches are distributed among these distances:
337 69 0.27
338 118 0.47
339 8 0.03
340 8 0.03
341 15 0.06
342 31 0.12
343 2 0.01
ACGTcount: A:0.35, C:0.10, G:0.07, T:0.48
Consensus pattern (342 bp):
AATTAATTTTTTTTAACACCTTATGCTAAAAAAAGTTGTTTTTGACATTTGAAGGGTCTTTTTTT
GTCTTTTTTAACTTTTATTTATTTTAATAAAAAAAACTTAAAAACAATAATTTCTAACTTTTAAT
ACTTAAAGAATAAATTCATTTAATATTTATCAATTACAATTTAATACTATTTTTATCTATATTCT
CTTATTCTACATCAACCTAAATCTATAGTATATAGACACTTCTTTTGTAAATAAATATTTAAATT
TCAATAAACATCCATCCAATTCATTGAATAAAAGTAGGATAATTGATTGGGTCAATTGATTGACA
TTTTTCATTCTTAATTA
Found at i:8765061 original size:13 final size:13
Alignment explanation
Indices: 8765043--8765069 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
8765033 CCAGACAAAA
8765043 AGAGAGAAATTCC
1 AGAGAGAAATTCC
8765056 AGAGAGAAATTCC
1 AGAGAGAAATTCC
8765069 A
1 A
8765070 AAAAAGAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.15, G:0.22, T:0.15
Consensus pattern (13 bp):
AGAGAGAAATTCC
Found at i:8768205 original size:22 final size:22
Alignment explanation
Indices: 8768151--8768195 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
8768141 AACTTGAAGG
8768151 TGCATCTCTCTGTTTTGTTTTC
1 TGCATCTCTCTGTTTTGTTTTC
8768173 TGCATCTCTCTGTTTTGTTTTC
1 TGCATCTCTCTGTTTTGTTTTC
8768195 T
1 T
8768196 TTCTTTCTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.04, C:0.22, G:0.13, T:0.60
Consensus pattern (22 bp):
TGCATCTCTCTGTTTTGTTTTC
Found at i:8771516 original size:2 final size:2
Alignment explanation
Indices: 8771509--8771538 Score: 51
Period size: 2 Copynumber: 14.5 Consensus size: 2
8771499 AAAATAAGAG
8771509 TA TA TA TA TA TA TA TA TA TA TA TA CTA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA TA T
8771539 CAGGATAGCA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 25 0.93
3 2 0.07
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8785117 original size:2 final size:2
Alignment explanation
Indices: 8785110--8785136 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
8785100 NNNNNNNNNN
8785110 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
8785137 GAGATATTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8785332 original size:13 final size:15
Alignment explanation
Indices: 8785314--8785345 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
8785304 ACAAACTTTG
8785314 TAATA-TAT-ACATA
1 TAATATTATAACATA
8785327 TAATATTATAACATA
1 TAATATTATAACATA
8785342 TAAT
1 TAAT
8785346 TTGTGTCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 5 0.29
14 3 0.18
15 9 0.53
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (15 bp):
TAATATTATAACATA
Found at i:8788867 original size:24 final size:24
Alignment explanation
Indices: 8788840--8788885 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
8788830 GCATGCATAG
8788840 CATTTACTATATTGCATAAAATAA
1 CATTTACTATATTGCATAAAATAA
8788864 CATTTACTATATTGCATAAAAT
1 CATTTACTATATTGCATAAAAT
8788886 TAAATCTATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.43, C:0.13, G:0.04, T:0.39
Consensus pattern (24 bp):
CATTTACTATATTGCATAAAATAA
Found at i:8793656 original size:10 final size:10
Alignment explanation
Indices: 8793641--8793677 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
8793631 CCTCACCAAA
8793641 CATCAAATAT
1 CATCAAATAT
8793651 CATCAAAATAT
1 CATC-AAATAT
*
8793662 CATGAAATAT
1 CATCAAATAT
8793672 CATCAA
1 CATCAA
8793678 TTTCAACCTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 15 0.62
11 9 0.38
ACGTcount: A:0.51, C:0.19, G:0.03, T:0.27
Consensus pattern (10 bp):
CATCAAATAT
Found at i:8793901 original size:83 final size:82
Alignment explanation
Indices: 8793762--8793926 Score: 276
Period size: 83 Copynumber: 2.0 Consensus size: 82
8793752 GTTTTGTTTC
* * *
8793762 TAAATATGCTAAACTAACTAAAAATACTAATATAATTTAGAATCAAATCAATCCAACATCATTCT
1 TAAATATGCTAAACTAACTAAAAACACTAACATAACTTAGAATCAAATCAATCCAACATCATTCT
8793827 CTATCCATACCCATTTG
66 CTATCCATACCCATTTG
*
8793844 NTAAATATGCTAAACTAACTAAAAACACTAACATAACTTAGAATCAAATCAATCCAACTTCATTC
1 -TAAATATGCTAAACTAACTAAAAACACTAACATAACTTAGAATCAAATCAATCCAACATCATTC
*
8793909 TCTCTCCATACCCATTTG
65 TCTATCCATACCCATTTG
8793927 GTCAGCCATG
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
83 77 1.00
ACGTcount: A:0.42, C:0.23, G:0.04, T:0.30
Consensus pattern (82 bp):
TAAATATGCTAAACTAACTAAAAACACTAACATAACTTAGAATCAAATCAATCCAACATCATTCT
CTATCCATACCCATTTG
Found at i:8795222 original size:51 final size:54
Alignment explanation
Indices: 8795091--8795238 Score: 128
Period size: 52 Copynumber: 2.8 Consensus size: 54
8795081 AAACAATTTT
* * *
8795091 AATTAAGTCCTTAAAAACTTATAAGTCATTAATCAAATAA-T-GAGTACATTAATC
1 AATTAAGT-C-TAAAAGCTTATAAGTCATTAATCAATTAAGTCCAGTACATTAATC
** * * *
8795145 AA-TAACACTAAACGCATATATGGTC-TTAATCAATTAAGTCCA-TA-ATTAATC
1 AATTAAGTCTAAAAGCTTATA-AGTCATTAATCAATTAAGTCCAGTACATTAATC
* **
8795196 AATTAAGTCTAAAAGCTTATAAGTCTTTAATTGATTAAGTCCA
1 AATTAAGTCTAAAAGCTTATAAGTCATTAATCAATTAAGTCCA
8795239 ACCTAATCAT
Statistics
Matches: 74, Mismatches: 15, Indels: 12
0.73 0.15 0.12
Matches are distributed among these distances:
51 32 0.43
52 36 0.49
53 4 0.05
54 2 0.03
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (54 bp):
AATTAAGTCTAAAAGCTTATAAGTCATTAATCAATTAAGTCCAGTACATTAATC
Found at i:8800078 original size:30 final size:30
Alignment explanation
Indices: 8800044--8800103 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
8800034 TTGTATTGAG
8800044 TAAGTATTTTTCATGGCTCTTGATTTGGGC
1 TAAGTATTTTTCATGGCTCTTGATTTGGGC
8800074 TAAGTATTTTTCATGGCTCTTGATTTGGGC
1 TAAGTATTTTTCATGGCTCTTGATTTGGGC
8800104 CTATCTGCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.17, C:0.13, G:0.23, T:0.47
Consensus pattern (30 bp):
TAAGTATTTTTCATGGCTCTTGATTTGGGC
Found at i:8801182 original size:21 final size:23
Alignment explanation
Indices: 8801131--8801183 Score: 65
Period size: 21 Copynumber: 2.3 Consensus size: 23
8801121 AGAAAAATAT
8801131 AGGCGTGGAAAAAGAAGAGATAAA
1 AGGCGT-GAAAAAGAAGAGATAAA
* *
8801155 CGGCGTGACAAA-AAGAGA-AAA
1 AGGCGTGAAAAAGAAGAGATAAA
8801176 AGGCGTGA
1 AGGCGTGA
8801184 TAAGAGATCA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 10 0.38
22 6 0.23
23 5 0.19
24 5 0.19
ACGTcount: A:0.49, C:0.09, G:0.34, T:0.08
Consensus pattern (23 bp):
AGGCGTGAAAAAGAAGAGATAAA
Found at i:8803411 original size:36 final size:36
Alignment explanation
Indices: 8803371--8803489 Score: 148
Period size: 36 Copynumber: 3.3 Consensus size: 36
8803361 ACTTTCAAAA
* * *
8803371 AGAAGCATAAGTAGAAGTCCAGCGAGATCTTCTCGG
1 AGAAGCATAAGCAGAAGTCCTGTGAGATCTTCTCGG
* * * *
8803407 AGAAGCATTAGCAGAAGTCCTGTAAGGTCTCCTCGG
1 AGAAGCATAAGCAGAAGTCCTGTGAGATCTTCTCGG
* *
8803443 AGAAGCGTAAGCAGAAGCCCTGTGAGATCTTCTCGG
1 AGAAGCATAAGCAGAAGTCCTGTGAGATCTTCTCGG
*
8803479 AGAAGTATAAG
1 AGAAGCATAAG
8803490 TAGGAGTTCT
Statistics
Matches: 68, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 68 1.00
ACGTcount: A:0.32, C:0.19, G:0.29, T:0.20
Consensus pattern (36 bp):
AGAAGCATAAGCAGAAGTCCTGTGAGATCTTCTCGG
Found at i:8803511 original size:72 final size:72
Alignment explanation
Indices: 8803371--8803534 Score: 175
Period size: 72 Copynumber: 2.2 Consensus size: 72
8803361 ACTTTCAAAA
* * * * *
8803371 AGAAGCATAAGTAGAAGTCCAGCGAGATCTTCTCGGAGAAGCATTAGCAGAAGTCCTGTAAGGTC
1 AGAAGCATAAGCAGAAGCCCAGCGAGATCTTCTCGGAGAAGCATAAGCAGAAGTCCTGGAAGGGC
8803436 TCCTCGG
66 TCCTCGG
* * * * * * * *
8803443 AGAAGCGTAAGCAGAAGCCCTGTGAGATCTTCTCGGAGAAGTATAAGTAGGAGTTCTGGCAGGGC
1 AGAAGCATAAGCAGAAGCCCAGCGAGATCTTCTCGGAGAAGCATAAGCAGAAGTCCTGGAAGGGC
8803508 TCCTCCAAGG
66 TCCT-C--GG
*
8803518 AGAAGCATCAGCAGAAG
1 AGAAGCATAAGCAGAAG
8803535 TCCATTAAGG
Statistics
Matches: 74, Mismatches: 15, Indels: 3
0.80 0.16 0.03
Matches are distributed among these distances:
72 56 0.76
73 1 0.01
75 17 0.23
ACGTcount: A:0.31, C:0.20, G:0.30, T:0.19
Consensus pattern (72 bp):
AGAAGCATAAGCAGAAGCCCAGCGAGATCTTCTCGGAGAAGCATAAGCAGAAGTCCTGGAAGGGC
TCCTCGG
Found at i:8803608 original size:87 final size:87
Alignment explanation
Indices: 8803502--8803672 Score: 272
Period size: 87 Copynumber: 2.0 Consensus size: 87
8803492 GGAGTTCTGG
* * *
8803502 CAGGGCTCCTCCAAGGAGAAGCATCAGCAGAAGTCCATTAAGGGAACCAAGTA-AGAATTATCGT
1 CAGGGCTCCTCCAAAGAGAAGCATCAGCAGAAGTCCATTAAGAGAACCAAGTAGA-AATTATCAT
8803566 CGGAGTTATTCAAGGAGCCCTGC
65 CGGAGTTATTCAAGGAGCCCTGC
*
8803589 CAGGGCTCCTCCAAAGAGAAGCATCAGCAGAAGTCCATTAAGAGAACCGAGTAGAAATTATCATC
1 CAGGGCTCCTCCAAAGAGAAGCATCAGCAGAAGTCCATTAAGAGAACCAAGTAGAAATTATCATC
* *
8803654 GTAGTTATTCCAGGAGCCC
66 GGAGTTATTCAAGGAGCCC
8803673 CACCCCTGCA
Statistics
Matches: 77, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
87 76 0.99
88 1 0.01
ACGTcount: A:0.33, C:0.23, G:0.25, T:0.19
Consensus pattern (87 bp):
CAGGGCTCCTCCAAAGAGAAGCATCAGCAGAAGTCCATTAAGAGAACCAAGTAGAAATTATCATC
GGAGTTATTCAAGGAGCCCTGC
Found at i:8804509 original size:6 final size:6
Alignment explanation
Indices: 8804498--8804526 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
8804488 AGCAAAGCCG
8804498 GGTCAA GGTCAA GGTCAA GGTCAA GGTCA
1 GGTCAA GGTCAA GGTCAA GGTCAA GGTCA
8804527 TCTTCTGGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.31, C:0.17, G:0.34, T:0.17
Consensus pattern (6 bp):
GGTCAA
Found at i:8811031 original size:78 final size:77
Alignment explanation
Indices: 8810909--8811094 Score: 214
Period size: 78 Copynumber: 2.4 Consensus size: 77
8810899 CTTTTGGAGA
** *
8810909 GAAAATTTTTATTTATTACATATTTTTTTAATGGTCTCGGAGAGTAGTATATTTATGAGG-TTGT
1 GAAAATTTTTATTTATT--ATATTTTTTTAATGACCTCGAAGAGTAGTATATTTATGAGGCTT-T
*
8810973 AACTCTC-AATATTTT
63 AACTC-CAAAAATTTT
* * * *
8810988 TAAAATTTTTTATTTATTATATTTTTTTAATGACCTCGAAGAGTGGTATATTTATGTGGCTTTGA
1 GAAAA-TTTTTATTTATTATATTTTTTTAATGACCTCGAAGAGTAGTATATTTATGAGGCTTTAA
8811053 CTCCAAAAATTTT
65 CTCCAAAAATTTT
* *
8811066 GCAAATTTTTATTTGTTATATATTTTTTA
1 GAAAATTTTTATTTATTATAT-TTTTTTA
8811095 TAAATGATCT
Statistics
Matches: 92, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
77 16 0.17
78 58 0.63
79 6 0.07
80 12 0.13
ACGTcount: A:0.29, C:0.08, G:0.13, T:0.51
Consensus pattern (77 bp):
GAAAATTTTTATTTATTATATTTTTTTAATGACCTCGAAGAGTAGTATATTTATGAGGCTTTAAC
TCCAAAAATTTT
Found at i:8813365 original size:25 final size:23
Alignment explanation
Indices: 8813336--8813390 Score: 67
Period size: 25 Copynumber: 2.3 Consensus size: 23
8813326 AATGAATATT
8813336 AAATAATAAATTATATT-TTAATCA
1 AAATAATAAATTA-ATTATTAAT-A
*
8813360 ATAATAATTAATTAATTATTAATA
1 A-AATAATAAATTAATTATTAATA
8813384 AAATAAT
1 AAATAAT
8813391 TTCATTGGAC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 6 0.21
24 6 0.21
25 16 0.57
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (23 bp):
AAATAATAAATTAATTATTAATA
Found at i:8814503 original size:23 final size:22
Alignment explanation
Indices: 8814477--8814520 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
8814467 ACGAAGCAAA
*
8814477 GAAAGAAAGCAAAGAGAAAAGGG
1 GAAACAAA-CAAAGAGAAAAGGG
*
8814500 GAAACAAATAAAGAGAAAAGG
1 GAAACAAACAAAGAGAAAAGG
8814521 AAAGATTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.64, C:0.05, G:0.30, T:0.02
Consensus pattern (22 bp):
GAAACAAACAAAGAGAAAAGGG
Found at i:8817339 original size:1 final size:1
Alignment explanation
Indices: 8817335--8817362 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
8817325 GGGGGGGGGN
8817335 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
8817363 CTGGGGGGGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:8824883 original size:26 final size:26
Alignment explanation
Indices: 8824854--8824908 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
8824844 AAACTAAATG
*
8824854 AAACACAATTATCATCACATTGTGCA
1 AAACACAATTATCATCACAATGTGCA
8824880 AAACACAATTATCATCACAATGTGCA
1 AAACACAATTATCATCACAATGTGCA
8824906 AAA
1 AAA
8824909 TCTAGAACTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.47, C:0.22, G:0.07, T:0.24
Consensus pattern (26 bp):
AAACACAATTATCATCACAATGTGCA
Found at i:8826656 original size:18 final size:21
Alignment explanation
Indices: 8826618--8826656 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
8826608 TTTAACCTAA
8826618 TATTTAACAAAGTTCTTAAAT
1 TATTTAACAAAGTTCTTAAAT
8826639 TATTTAA-AAA-TT-TTAAAT
1 TATTTAACAAAGTTCTTAAAT
8826657 AAGTTTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
19 2 0.11
20 3 0.17
21 7 0.39
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (21 bp):
TATTTAACAAAGTTCTTAAAT
Found at i:8827649 original size:29 final size:30
Alignment explanation
Indices: 8827607--8827667 Score: 70
Period size: 30 Copynumber: 2.1 Consensus size: 30
8827597 GTCTATGAGC
* * *
8827607 AATTTTTCAGTTTT-TGGGGGTAAAAATGT
1 AATTTTTCACTTTTACGGGGATAAAAATGT
* *
8827636 AATTTTTGACTTTTACGGGGATAAAAGTGT
1 AATTTTTCACTTTTACGGGGATAAAAATGT
8827666 AA
1 AA
8827668 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
29 12 0.46
30 14 0.54
ACGTcount: A:0.31, C:0.05, G:0.23, T:0.41
Consensus pattern (30 bp):
AATTTTTCACTTTTACGGGGATAAAAATGT
Found at i:8830864 original size:65 final size:66
Alignment explanation
Indices: 8830748--8830887 Score: 167
Period size: 65 Copynumber: 2.1 Consensus size: 66
8830738 GGAATCCTTG
* * * * * * *
8830748 ATCCTTCATTGCAAATAATTTCCTCTATTTCCTTTTGTTTTCCAACTCCCAA-TTTTCTAGTGTA
1 ATCCTTCATTACAAATAATTTCCTCTATTTCCTTCTATTTTCCAACCCCCAATTTTTCAACTATA
8830812 A
66 A
* * *
8830813 ATCCTTCATTACAGATTATTTTCC-CTATTTCCTTCTATTTTTCAACCCCCAATTTTTCAACTAT
1 ATCCTTCATTACA-AATAATTTCCTCTATTTCCTTCTATTTTCCAACCCCCAATTTTTCAACTAT
8830877 AA
65 AA
8830879 ATCCTTCAT
1 ATCCTTCAT
8830888 CATTGAGCTT
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
65 36 0.57
66 27 0.43
ACGTcount: A:0.24, C:0.26, G:0.04, T:0.46
Consensus pattern (66 bp):
ATCCTTCATTACAAATAATTTCCTCTATTTCCTTCTATTTTCCAACCCCCAATTTTTCAACTATA
A
Found at i:8830944 original size:18 final size:19
Alignment explanation
Indices: 8830907--8830945 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
8830897 TGCTAAGTCA
8830907 TTTTTTTGTGTGTTTCTGG
1 TTTTTTTGTGTGTTTCTGG
* *
8830926 TTTTTTTTTGT-TTTTTGG
1 TTTTTTTGTGTGTTTCTGG
8830944 TT
1 TT
8830946 GATGAGTAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.00, C:0.03, G:0.21, T:0.77
Consensus pattern (19 bp):
TTTTTTTGTGTGTTTCTGG
Found at i:8869524 original size:16 final size:16
Alignment explanation
Indices: 8869503--8869577 Score: 50
Period size: 16 Copynumber: 4.8 Consensus size: 16
8869493 GTACTATGTT
8869503 ATAAAAATTAAATTGA
1 ATAAAAATTAAATTGA
8869519 ATAAAAATATAGAA-T--
1 ATAAAAAT-TA-AATTGA
* *
8869534 ATAGAAATTAAATTAA
1 ATAAAAATTAAATTGA
* * *
8869550 AT-AAAATTGAAGTGT
1 ATAAAAATTAAATTGA
*
8869565 TTAAAAATTAAAT
1 ATAAAAATTAAAT
8869578 AAAAATATTT
Statistics
Matches: 44, Mismatches: 9, Indels: 12
0.68 0.14 0.18
Matches are distributed among these distances:
13 2 0.05
14 3 0.07
15 16 0.36
16 18 0.41
17 3 0.07
18 2 0.05
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (16 bp):
ATAAAAATTAAATTGA
Found at i:8869600 original size:17 final size:17
Alignment explanation
Indices: 8869574--8869607 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
8869564 TTTAAAAATT
8869574 AAATAAAAATATTTAAA
1 AAATAAAAATATTTAAA
*
8869591 AAATATAAATATTTAAA
1 AAATAAAAATATTTAAA
8869608 TAGATGATAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
AAATAAAAATATTTAAA
Found at i:8871157 original size:14 final size:15
Alignment explanation
Indices: 8871138--8871166 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
8871128 AGTTGGCTTC
8871138 TTTTCT-TTTTTTTT
1 TTTTCTATTTTTTTT
8871152 TTTTCTATTTTTTTT
1 TTTTCTATTTTTTTT
8871167 CTTCCTCATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.03, C:0.07, G:0.00, T:0.90
Consensus pattern (15 bp):
TTTTCTATTTTTTTT
Found at i:8871780 original size:34 final size:34
Alignment explanation
Indices: 8871727--8871820 Score: 100
Period size: 34 Copynumber: 2.8 Consensus size: 34
8871717 AAATAATCCC
* * * *
8871727 TCATTCAAAGCTTTACAACTTTAAAAGCAACTCAT
1 TCATCCAAGGCTTCACAACTTTAAAACCAACTC-T
* *
8871762 T-ATCCGAGGCTTCACAACTTTATAACCAACTCT
1 TCATCCAAGGCTTCACAACTTTAAAACCAACTCT
* *
8871795 TCATCTAAGACTTCACAACTTTAAAA
1 TCATCCAAGGCTTCACAACTTTAAAA
8871821 ACAATTTGAA
Statistics
Matches: 48, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
33 2 0.04
34 45 0.94
35 1 0.02
ACGTcount: A:0.37, C:0.26, G:0.06, T:0.31
Consensus pattern (34 bp):
TCATCCAAGGCTTCACAACTTTAAAACCAACTCT
Found at i:8871793 original size:119 final size:119
Alignment explanation
Indices: 8871659--8871878 Score: 302
Period size: 119 Copynumber: 1.8 Consensus size: 119
8871649 AGACCACACC
* * * *
8871659 ACTTTAAAAACAACTCCTT-AT-TCGAGGCTACACAACTTTAAAAATAATTTGAAAAGATAAATA
1 ACTTTAAAAACAACT-CTTCATCT-AAGACTACACAACTTTAAAAACAATTTGAAAAGATAAACA
*
8871722 A-TCCCTCATTCAAAGCTTTACAACTTTAAAAGCAACTCATTATCCGAGGCTTCACA
64 ACT-CCTCATTCAAAGCTTTACAACTTTAAAAACAACTCATTATCCGAGGCTTCACA
* * *
8871778 ACTTTATAACCAACTCTTCATCTAAGACTTCACAACTTTAAAAACAATTTGAAAAGATAAACAAC
1 ACTTTAAAAACAACTCTTCATCTAAGACTACACAACTTTAAAAACAATTTGAAAAGATAAACAAC
* *
8871843 TCTTCATTCAAGGCTTTACAACTTTAAAAACAACTC
66 TCCTCATTCAAAGCTTTACAACTTTAAAAACAACTC
8871879 CTCATCAACT
Statistics
Matches: 88, Mismatches: 10, Indels: 6
0.85 0.10 0.06
Matches are distributed among these distances:
118 3 0.03
119 83 0.94
120 2 0.02
ACGTcount: A:0.42, C:0.22, G:0.07, T:0.29
Consensus pattern (119 bp):
ACTTTAAAAACAACTCTTCATCTAAGACTACACAACTTTAAAAACAATTTGAAAAGATAAACAAC
TCCTCATTCAAAGCTTTACAACTTTAAAAACAACTCATTATCCGAGGCTTCACA
Found at i:8871848 original size:51 final size:52
Alignment explanation
Indices: 8871783--8872021 Score: 216
Period size: 51 Copynumber: 4.8 Consensus size: 52
8871773 TCACAACTTT
* * *
8871783 ATAACCAACTCTTCATCT-AAGACTTCACAACTTTAAAAACAATTTGAAAAG
1 ATAAACAACTCTTCATCTCAAGGCTTTACAACTTTAAAAACAATTTGAAAAG
* *
8871834 ATAAACAACTCTTCAT-TCAAGGCTTTACAACTTTAAAAACAA-CT-----C
1 ATAAACAACTCTTCATCTCAAGGCTTTACAACTTTAAAAACAATTTGAAAAG
* * * * ** * *
8871879 CTCATCAACTCCTCATC-CAAGGCTCCACAACTTTTAAAATAATTTGAAAAG
1 ATAAACAACTCTTCATCTCAAGGCTTTACAACTTTAAAAACAATTTGAAAAG
* * *
8871930 ATAAATAACTCCTT-A-CTCGAGGCTTTACAATTTTAAAAA-AATTTGAAAAG
1 ATAAACAACT-CTTCATCTCAAGGCTTTACAACTTTAAAAACAATTTGAAAAG
* *
8871980 AAAAACAACTCCTCAT-TCAAGGCTTTACAACTTTAAAAACAA
1 ATAAACAACTCTTCATCTCAAGGCTTTACAACTTTAAAAACAA
8872022 CTTCTCGTAA
Statistics
Matches: 145, Mismatches: 30, Indels: 26
0.72 0.15 0.13
Matches are distributed among these distances:
45 33 0.23
46 1 0.01
49 2 0.01
50 44 0.30
51 63 0.43
52 2 0.01
ACGTcount: A:0.43, C:0.22, G:0.07, T:0.28
Consensus pattern (52 bp):
ATAAACAACTCTTCATCTCAAGGCTTTACAACTTTAAAAACAATTTGAAAAG
Found at i:8871923 original size:96 final size:96
Alignment explanation
Indices: 8871788--8871968 Score: 256
Period size: 96 Copynumber: 1.9 Consensus size: 96
8871778 ACTTTATAAC
* * * *
8871788 CAACTCTTCATCTAAGACTTCACAACTTTAAAAACAATTTGAAAAGATAAACAACT-CTTCATTC
1 CAACTCCTCATCCAAGACTCCACAACTTTAAAAACAATTTGAAAAGATAAACAACTCCTT-ACTC
8871852 AAGGCTTTACAACTTTAAAAACAACTCCTCAT
65 AAGGCTTTACAACTTTAAAAACAACTCCTCAT
* * * * *
8871884 CAACTCCTCATCCAAGGCTCCACAACTTTTAAAATAATTTGAAAAGATAAATAACTCCTTACTCG
1 CAACTCCTCATCCAAGACTCCACAACTTTAAAAACAATTTGAAAAGATAAACAACTCCTTACTCA
*
8871949 AGGCTTTACAATTTTAAAAA
66 AGGCTTTACAACTTTAAAAA
8871969 AATTTGAAAA
Statistics
Matches: 74, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
96 71 0.96
97 3 0.04
ACGTcount: A:0.41, C:0.23, G:0.07, T:0.29
Consensus pattern (96 bp):
CAACTCCTCATCCAAGACTCCACAACTTTAAAAACAATTTGAAAAGATAAACAACTCCTTACTCA
AGGCTTTACAACTTTAAAAACAACTCCTCAT
Found at i:8871973 original size:50 final size:50
Alignment explanation
Indices: 8871884--8872018 Score: 164
Period size: 50 Copynumber: 2.7 Consensus size: 50
8871874 AACTCCTCAT
** * *
8871884 CAACTCCTCA-TCCAAGGCTCCACAACTTTTAAAATAATTTGAAAAGATAAA
1 CAACTCCTCACT-CAAGGCTTTACAA-TTTTAAAAAAATTTGAAAAGAAAAA
* * *
8871935 TAACTCCTTACTCGAGGCTTTACAATTTTAAAAAAATTTGAAAAGAAAAA
1 CAACTCCTCACTCAAGGCTTTACAATTTTAAAAAAATTTGAAAAGAAAAA
* *
8871985 CAACTCCTCATTCAAGGCTTTACAACTTTAAAAA
1 CAACTCCTCACTCAAGGCTTTACAATTTTAAAAA
8872019 CAACTTCTCG
Statistics
Matches: 71, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
50 52 0.73
51 18 0.25
52 1 0.01
ACGTcount: A:0.43, C:0.21, G:0.08, T:0.28
Consensus pattern (50 bp):
CAACTCCTCACTCAAGGCTTTACAATTTTAAAAAAATTTGAAAAGAAAAA
Found at i:8872023 original size:34 final size:34
Alignment explanation
Indices: 8871980--8872084 Score: 131
Period size: 34 Copynumber: 3.1 Consensus size: 34
8871970 ATTTGAAAAG
* **
8871980 AAAAACAACTCCTCATTCAAGGCTTTACAACTTT
1 AAAAACAACTCCTCATTAAAGGCTCCACAACTTT
* *
8872014 AAAAACAACTTCTC-GTAAGAGGCTCCACAACTTT
1 AAAAACAACTCCTCATTAA-AGGCTCCACAACTTT
* *
8872048 AAAAACAACTCCTCATTTAAGACTCCACAACTTT
1 AAAAACAACTCCTCATTAAAGGCTCCACAACTTT
8872082 AAA
1 AAA
8872085 CATAATTTGA
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
33 2 0.03
34 56 0.93
35 2 0.03
ACGTcount: A:0.41, C:0.27, G:0.07, T:0.26
Consensus pattern (34 bp):
AAAAACAACTCCTCATTAAAGGCTCCACAACTTT
Found at i:8872045 original size:265 final size:266
Alignment explanation
Indices: 8871670--8872149 Score: 696
Period size: 265 Copynumber: 1.8 Consensus size: 266
8871660 CTTTAAAAAC
* * *
8871670 AACTCCTTATTCGAGGCTACACAACTTTAAAAATAATTTGAAAAGATAAATAATCCCTCATTCAA
1 AACTCCTTACTCGAGGCTACACAACTTTAAAAATAATTTGAAAAGAAAAACAATCCCTCATTCAA
* * ** * * * *
8871735 AGCTTTACAACTTTAAAAGCAACTCATTATCCGAGGCTTCACAACTTTATAACCAACTCTTCATC
66 AGCTTTACAACTTTAAAAACAACTCATCATAAGAGGCTCCACAACTTTAAAAACAACTCCTCATC
* * *
8871800 TAAGACTTCACAACTTTAAAAACAATTTGAAAAGATAAACAACTCTTCATTCAAGGCTTTACAAC
131 TAAGACTCCACAACTTTAAAAACAATTTGAAAAGATAAAAAACTCCTCATTCAAGGCTTTACAAC
8871865 TTTAAAAACAACTCCTCATCAACTCCTCATCCAAGGCTCCACAACTTTTAAAATAATTTGAAAAG
196 TTTAAAAACAACTCCTCATCAACTCCTCATCCAAGGCTCCACAACTTTTAAAATAATTTGAAAAG
8871930 ATAAAT
261 ATAAAT
** *
8871936 AACTCCTTACTCGAGGCTTTACAATTTTAAAAA-AATTTGAAAAGAAAAACAA-CTCCTCATTCA
1 AACTCCTTACTCGAGGCTACACAACTTTAAAAATAATTTGAAAAGAAAAACAATC-CCTCATTCA
* *
8871999 AGGCTTTACAACTTTAAAAACAACTTC-TCGTAAGAGGCTCCACAACTTTAAAAACAACTCCTCA
65 AAGCTTTACAACTTTAAAAACAAC-TCATCATAAGAGGCTCCACAACTTTAAAAACAACTCCTCA
* * * * * *
8872063 TTTAAGACTCCACAACTTTAAACATAATTTGAACAGATAAAAAACTCCTCATTCGAGGCTTTATA
129 TCTAAGACTCCACAACTTTAAAAACAATTTGAAAAGATAAAAAACTCCTCATTCAAGGCTTTACA
8872128 ACTTTAAAAACAACTCCTCATC
194 ACTTTAAAAACAACTCCTCATC
8872150 TGAGGCATCA
Statistics
Matches: 187, Mismatches: 25, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
264 1 0.01
265 155 0.83
266 31 0.17
ACGTcount: A:0.41, C:0.23, G:0.07, T:0.29
Consensus pattern (266 bp):
AACTCCTTACTCGAGGCTACACAACTTTAAAAATAATTTGAAAAGAAAAACAATCCCTCATTCAA
AGCTTTACAACTTTAAAAACAACTCATCATAAGAGGCTCCACAACTTTAAAAACAACTCCTCATC
TAAGACTCCACAACTTTAAAAACAATTTGAAAAGATAAAAAACTCCTCATTCAAGGCTTTACAAC
TTTAAAAACAACTCCTCATCAACTCCTCATCCAAGGCTCCACAACTTTTAAAATAATTTGAAAAG
ATAAAT
Found at i:8872109 original size:119 final size:118
Alignment explanation
Indices: 8871956--8872174 Score: 316
Period size: 119 Copynumber: 1.8 Consensus size: 118
8871946 TCGAGGCTTT
*
8871956 ACAATTTTAAAAAAATTTGAAAAGAAAAACAACTCCTCATTCAAGGCTTTACAACTTTAAAAACA
1 ACAACTTTAAAAAAATTTGAAAAGAAAAACAACTCCTCATTCAAGGCTTTACAACTTTAAAAACA
* *
8872021 ACTTCTCGTAAGAGGC-TCCACAACTTTAAAAACAACTCCTCATTTAAGACTCC
66 ACTCCTCATAAGAGGCAT-CACAACTTTAAAAACAACTCCTCATTTAAGACTCC
* * * *
8872074 ACAACTTTAAACATAATTTGAACAGATAAAA-AACTCCTCATTCGAGGCTTTATAACTTTAAAAA
1 ACAACTTTAAA-AAAATTTGAAAAGA-AAAACAACTCCTCATTCAAGGCTTTACAACTTTAAAAA
**
8872138 CAACTCCTCATCTGAGGCATCACAACTTTAAAAACAA
64 CAACTCCTCATAAGAGGCATCACAACTTTAAAAACAA
8872175 TTTGAAAAGA
Statistics
Matches: 89, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
118 10 0.11
119 74 0.83
120 5 0.06
ACGTcount: A:0.43, C:0.22, G:0.08, T:0.26
Consensus pattern (118 bp):
ACAACTTTAAAAAAATTTGAAAAGAAAAACAACTCCTCATTCAAGGCTTTACAACTTTAAAAACA
ACTCCTCATAAGAGGCATCACAACTTTAAAAACAACTCCTCATTTAAGACTCC
Found at i:8872144 original size:34 final size:34
Alignment explanation
Indices: 8872101--8872174 Score: 98
Period size: 34 Copynumber: 2.2 Consensus size: 34
8872091 TTGAACAGAT
* * *
8872101 AAAA-AACTCCTCAT-TCGAGGCTTTATAACTTTA
1 AAAACAACTCCTCATCT-GAGGCATCACAACTTTA
8872134 AAAACAACTCCTCATCTGAGGCATCACAACTTTA
1 AAAACAACTCCTCATCTGAGGCATCACAACTTTA
8872168 AAAACAA
1 AAAACAA
8872175 TTTGAAAAGA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
33 4 0.11
34 31 0.86
35 1 0.03
ACGTcount: A:0.42, C:0.24, G:0.08, T:0.26
Consensus pattern (34 bp):
AAAACAACTCCTCATCTGAGGCATCACAACTTTA
Found at i:8872211 original size:204 final size:203
Alignment explanation
Indices: 8871956--8872344 Score: 559
Period size: 204 Copynumber: 1.9 Consensus size: 203
8871946 TCGAGGCTTT
*
8871956 ACAATTTTAAAAAAATTTGAAAAGAAAAACAACTCCTCATTCAAGGCTTTACAACTTT-AAAAAC
1 ACAACTTTAAAAAAATTTGAAAAGAAAAACAACTCCTCATTCAAGGCTTTACAA-TTTCAAAAAC
* * *
8872020 AACTTCTCGTAAGAGGCTCCACAACTTTAAAAACAACTCCTCATTTAAGACTCCACAACTTTAAA
65 AACTCCTCATAAGAGGCTCCACAACTTTAAAAACAACTCCTCATTCAAGACTCCACAACTTTAAA
* * *
8872085 CA-TAATTTGAACAGATAAAAAACTCCTCATTCGAGGCTTTATAACTTTAAAAACAACTCCTCAT
130 -AGTAATTTGAAAAGATAAAAAACTCCTCATTCGAGACTTTACAACTTTAAAAACAACTCCTCAT
8872149 CTGAGGCATC
194 CTGAGGCATC
* *
8872159 ACAACTTTAAAAACAATTTGAAAAGATAAACAACTCCTCATTTGAA-GCTTTACAATTTCAAAAA
1 ACAACTTTAAAAA-AATTTGAAAAGAAAAACAACTCCTCA-TTCAAGGCTTTACAATTTCAAAAA
** * * * * **
8872223 CAACTCCTCATCCGAGGTTCCACAATTTTAAAAATAACTCCTCATTCGAGGTTCCACAACTTTAA
64 CAACTCCTCATAAGAGGCTCCACAACTTTAAAAACAACTCCTCATTCAAGACTCCACAACTTTAA
*
8872288 AAGTAATTTGAAAAGATAAACAACTCCTCATTCGAGACTTTACAACTTTAAAAACAA
129 AAGTAATTTGAAAAGATAAAAAACTCCTCATTCGAGACTTTACAACTTTAAAAACAA
8872345 TTTGAAAAGA
Statistics
Matches: 164, Mismatches: 18, Indels: 7
0.87 0.10 0.04
Matches are distributed among these distances:
203 16 0.10
204 144 0.88
205 4 0.02
ACGTcount: A:0.42, C:0.22, G:0.08, T:0.28
Consensus pattern (203 bp):
ACAACTTTAAAAAAATTTGAAAAGAAAAACAACTCCTCATTCAAGGCTTTACAATTTCAAAAACA
ACTCCTCATAAGAGGCTCCACAACTTTAAAAACAACTCCTCATTCAAGACTCCACAACTTTAAAA
GTAATTTGAAAAGATAAAAAACTCCTCATTCGAGACTTTACAACTTTAAAAACAACTCCTCATCT
GAGGCATC
Found at i:8872228 original size:119 final size:119
Alignment explanation
Indices: 8872101--8872344 Score: 320
Period size: 119 Copynumber: 2.1 Consensus size: 119
8872091 TTGAACAGAT
* * *
8872101 AAAA-AACTCCTCATTCGAGGCTT-TATAACTTTAAAAACAACTCCTCA-TCTGAGGCAT-CACA
1 AAAACAACTCCTCATCCGAGG-TTCCACAACTTTAAAAACAACTCCTCATTC-GAGG-ATCCACA
*
8872162 ACTTTAAAAACAATTTGAAAAGATAAACAACTCCTCATTTGA-AGCTTTACAA-TTTCA
63 ACTTTAAAAACAATTTGAAAAGATAAACAACTCCTCATTCGAGA-CTTTACAACTTT-A
* * *
8872219 AAAACAACTCCTCATCCGAGGTTCCACAATTTTAAAAATAACTCCTCATTCGAGGTTCCACAACT
1 AAAACAACTCCTCATCCGAGGTTCCACAACTTTAAAAACAACTCCTCATTCGAGGATCCACAACT
**
8872284 TTAAAAGTAATTTGAAAAGATAAACAACTCCTCATTCGAGACTTTACAACTTTA
66 TTAAAAACAATTTGAAAAGATAAACAACTCCTCATTCGAGACTTTACAACTTTA
8872338 AAAACAA
1 AAAACAA
8872345 TTTGAAAAGA
Statistics
Matches: 111, Mismatches: 9, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
118 7 0.06
119 98 0.88
120 6 0.05
ACGTcount: A:0.41, C:0.23, G:0.09, T:0.28
Consensus pattern (119 bp):
AAAACAACTCCTCATCCGAGGTTCCACAACTTTAAAAACAACTCCTCATTCGAGGATCCACAACT
TTAAAAACAATTTGAAAAGATAAACAACTCCTCATTCGAGACTTTACAACTTTA
Found at i:8872229 original size:34 final size:34
Alignment explanation
Indices: 8872186--8872289 Score: 113
Period size: 34 Copynumber: 3.1 Consensus size: 34
8872176 TTGAAAAGAT
* *
8872186 AAACAACTCCTCATTTGAAGCTT-TACAATTTCAA
1 AAACAACTCCTCATTCG-AGCTTCCACAATTTCAA
* * *
8872220 AAACAACTCCTCATCCGAGGTTCCACAATTTTAA
1 AAACAACTCCTCATTCGAGCTTCCACAATTTCAA
* *
8872254 AAATAACTCCTCATTCGAGGTTCCACAACTTT-AA
1 AAACAACTCCTCATTCGAGCTTCCACAA-TTTCAA
8872288 AA
1 AA
8872290 GTAATTTGAA
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
33 4 0.07
34 54 0.89
35 3 0.05
ACGTcount: A:0.38, C:0.26, G:0.08, T:0.29
Consensus pattern (34 bp):
AAACAACTCCTCATTCGAGCTTCCACAATTTCAA
Found at i:8872247 original size:85 final size:85
Alignment explanation
Indices: 8872040--8872256 Score: 278
Period size: 85 Copynumber: 2.6 Consensus size: 85
8872030 AAGAGGCTCC
* * * * *
8872040 ACAACTTTAAAAACAACTCCTCAT-TTAAGACTCCACAACTTTAAACATAATTTGAACAGATAAA
1 ACAACTTTAAAAACAACTCCTCATCTGAGGA-TCCACAACTTTAAAAACAATTTGAAAAGATAAA
*
8872104 AAACTCCTCATTCGAGGCTTT
65 AAACTCCTCATTCGAAGCTTT
*
8872125 ATAACTTTAAAAACAACTCCTCATCTGAGGCAT-CACAACTTTAAAAACAATTTGAAAAGATAAA
1 ACAACTTTAAAAACAACTCCTCATCTGAGG-ATCCACAACTTTAAAAACAATTTGAAAAGATAAA
* *
8872189 CAACTCCTCATTTGAAGCTTT
65 AAACTCCTCATTCGAAGCTTT
* * *
8872210 ACAA-TTTCAAAAACAACTCCTCATCCGAGGTTCCACAATTTTAAAAA
1 ACAACTTT-AAAAACAACTCCTCATCTGAGGATCCACAACTTTAAAAA
8872257 TAACTCCTCA
Statistics
Matches: 115, Mismatches: 13, Indels: 8
0.85 0.10 0.06
Matches are distributed among these distances:
84 4 0.03
85 106 0.92
86 4 0.03
87 1 0.01
ACGTcount: A:0.42, C:0.23, G:0.07, T:0.28
Consensus pattern (85 bp):
ACAACTTTAAAAACAACTCCTCATCTGAGGATCCACAACTTTAAAAACAATTTGAAAAGATAAAA
AACTCCTCATTCGAAGCTTT
Found at i:8872317 original size:51 final size:51
Alignment explanation
Indices: 8872258--8872358 Score: 150
Period size: 51 Copynumber: 2.0 Consensus size: 51
8872248 TTTTAAAAAT
* **
8872258 AACTCCTCATTCGAG-GTTCCACAACTTTAAAAGTAATTTGAAAAGATAAAC
1 AACTCCTCATTCGAGACTT-CACAACTTTAAAAACAATTTGAAAAGATAAAC
*
8872309 AACTCCTCATTCGAGACTTTACAACTTTAAAAACAATTTGAAAAGATAAA
1 AACTCCTCATTCGAGACTTCACAACTTTAAAAACAATTTGAAAAGATAAA
8872359 TATCATCCAA
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 43 0.96
52 2 0.04
ACGTcount: A:0.44, C:0.19, G:0.10, T:0.28
Consensus pattern (51 bp):
AACTCCTCATTCGAGACTTCACAACTTTAAAAACAATTTGAAAAGATAAAC
Found at i:8873349 original size:29 final size:29
Alignment explanation
Indices: 8873316--8873374 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
8873306 GTCGGGGATG
8873316 TACTTTCTTGCCATAATCTCTCATCATTC
1 TACTTTCTTGCCATAATCTCTCATCATTC
*
8873345 TACTTTCTTGCCATAATCTTTCATCATTC
1 TACTTTCTTGCCATAATCTCTCATCATTC
8873374 T
1 T
8873375 CGCCATCGCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.20, C:0.29, G:0.03, T:0.47
Consensus pattern (29 bp):
TACTTTCTTGCCATAATCTCTCATCATTC
Found at i:8877842 original size:5 final size:5
Alignment explanation
Indices: 8877823--8877925 Score: 64
Period size: 5 Copynumber: 18.6 Consensus size: 5
8877813 AGACACCATT
* * *
8877823 TTTTA TTTT- TATTA TTTTA TTTTA TTTTG TCTACTTC TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA T-T--TTA TTTTA TTTTA
*
8877870 TATTTCA TTTTA TTTTTA TTTTATA TTTTA TTTTATA TTGTTA TCTTA TTTTA
1 T-TTT-A TTTTA -TTTTA -TTT-TA TTTTA -TTT-TA TT-TTA TTTTA TTTTA
8877923 TTT
1 TTT
8877926 AGTCTAATAG
Statistics
Matches: 80, Mismatches: 7, Indels: 22
0.73 0.06 0.20
Matches are distributed among these distances:
4 3 0.04
5 39 0.49
6 27 0.34
7 8 0.10
8 3 0.04
ACGTcount: A:0.19, C:0.05, G:0.02, T:0.74
Consensus pattern (5 bp):
TTTTA
Found at i:8877881 original size:12 final size:12
Alignment explanation
Indices: 8877860--8877918 Score: 84
Period size: 12 Copynumber: 4.9 Consensus size: 12
8877850 TGTCTACTTC
8877860 TTTTATTTTATA
1 TTTTATTTTATA
*
8877872 TTTCATTTTAT-
1 TTTTATTTTATA
8877883 TTTTATTTTATA
1 TTTTATTTTATA
8877895 TTTTATTTTATA
1 TTTTATTTTATA
*
8877907 TTGTTATCTTAT
1 TT-TTATTTTAT
8877919 TTTATTTAGT
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
11 10 0.24
12 24 0.57
13 8 0.19
ACGTcount: A:0.22, C:0.03, G:0.02, T:0.73
Consensus pattern (12 bp):
TTTTATTTTATA
Found at i:8877886 original size:23 final size:23
Alignment explanation
Indices: 8877860--8877905 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
8877850 TGTCTACTTC
8877860 TTTTATTTTATATTTCATTTTAT
1 TTTTATTTTATATTTCATTTTAT
*
8877883 TTTTATTTTATATTTTATTTTAT
1 TTTTATTTTATATTTCATTTTAT
8877906 ATTGTTATCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (23 bp):
TTTTATTTTATATTTCATTTTAT
Found at i:8877918 original size:18 final size:17
Alignment explanation
Indices: 8877823--8877923 Score: 87
Period size: 18 Copynumber: 5.6 Consensus size: 17
8877813 AGACACCATT
8877823 TTTTATTTTTATTATTTTA
1 TTTTA-TTTTA-TATTTTA
* * * *
8877842 TTTTATTTTGTCTACTTC
1 TTTTATTTTATAT-TTTA
*
8877860 TTTTATTTTATATTTCA
1 TTTTATTTTATATTTTA
8877877 TTTTATTTT-TATTTTATA
1 TTTTATTTTATA-TTT-TA
8877895 TTTTATTTTATATTGTTA
1 TTTTATTTTATATT-TTA
*
8877913 TCTTATTTTAT
1 TTTTATTTTAT
8877924 TTAGTCTAAT
Statistics
Matches: 66, Mismatches: 11, Indels: 11
0.75 0.12 0.12
Matches are distributed among these distances:
16 2 0.03
17 15 0.23
18 41 0.62
19 8 0.12
ACGTcount: A:0.20, C:0.05, G:0.02, T:0.73
Consensus pattern (17 bp):
TTTTATTTTATATTTTA
Found at i:8879891 original size:20 final size:20
Alignment explanation
Indices: 8879854--8879891 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
8879844 TAATAAAGAA
*
8879854 AATAATGAATATAGTAATAT
1 AATAATGAATATAATAATAT
8879874 AATAAT-AATAATAATAAT
1 AATAATGAAT-ATAATAAT
8879892 TATAGGAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (20 bp):
AATAATGAATATAATAATAT
Found at i:8880829 original size:16 final size:17
Alignment explanation
Indices: 8880805--8880844 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
8880795 ATTTATATTT
*
8880805 TTTTGTAATTTTA-AGA
1 TTTTATAATTTTATAGA
*
8880821 TTTTATAATTTTATAGT
1 TTTTATAATTTTATAGA
8880838 TTTTATA
1 TTTTATA
8880845 TAAAAATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 12 0.57
17 9 0.43
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.62
Consensus pattern (17 bp):
TTTTATAATTTTATAGA
Found at i:8881622 original size:3 final size:3
Alignment explanation
Indices: 8881616--8881642 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
8881606 AGATGATGCT
8881616 GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA
8881643 AGGCCTGTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:8881981 original size:8 final size:8
Alignment explanation
Indices: 8881968--8881996 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
8881958 CAGCATTTAT
8881968 TTTTTTTG
1 TTTTTTTG
8881976 TTTTTTT-
1 TTTTTTTG
8881983 TTTTTTTG
1 TTTTTTTG
8881991 TTTTTT
1 TTTTTT
8881997 GTAGATTAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.00, C:0.00, G:0.07, T:0.93
Consensus pattern (8 bp):
TTTTTTTG
Done.