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: 48574783
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2023350 characters in sequence are not A, C, G, or T
File 133 of 135
Found at i:47701365 original size:54 final size:54
Alignment explanation
Indices: 47701240--47701355 Score: 171
Period size: 54 Copynumber: 2.1 Consensus size: 54
47701230 AGTCATGGGA
* * * *
47701240 AAAATGATCGAATTACCC-CCGAAGGGTAACATGACTGAATTACCCCCAAAGGGT
1 AAAATGACCGAATTACCCTCC-ATGGGTAAAATGACTGAAATACCCCCAAAGGGT
*
47701294 AAAATGACCGAATTACCCTCCATGGGTAAAATGACTGAAATACCCCCATAGGGT
1 AAAATGACCGAATTACCCTCCATGGGTAAAATGACTGAAATACCCCCAAAGGGT
47701348 AAAATGAC
1 AAAATGAC
47701356 TGTTATACCC
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 54 0.96
55 2 0.04
ACGTcount: A:0.39, C:0.23, G:0.19, T:0.19
Consensus pattern (54 bp):
AAAATGACCGAATTACCCTCCATGGGTAAAATGACTGAAATACCCCCAAAGGGT
Found at i:47701366 original size:26 final size:26
Alignment explanation
Indices: 47701233--47701366 Score: 126
Period size: 27 Copynumber: 5.0 Consensus size: 26
47701223 ATGTGCGAGT
* *
47701233 CATGGGAAAAATGA-TCGAATTACCCC
1 CATGGGTAAAATGACT-GAAATACCCC
* * *
47701259 CGAAGGGTAACATGACTGAATTACCCC
1 C-ATGGGTAAAATGACTGAAATACCCC
* * *
47701286 CAAAGGGTAAAATGACCGAATTACCCTC
1 C-ATGGGTAAAATGACTGAAATACCC-C
47701314 CATGGGTAAAATGACTGAAATACCCC
1 CATGGGTAAAATGACTGAAATACCCC
**
47701340 CATAGGGTAAAATGACTGTTATACCCC
1 CAT-GGGTAAAATGACTGAAATACCCC
47701367 TAAGAGTTGA
Statistics
Matches: 93, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
26 5 0.05
27 85 0.91
28 3 0.03
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.20
Consensus pattern (26 bp):
CATGGGTAAAATGACTGAAATACCCC
Found at i:47701366 original size:27 final size:27
Alignment explanation
Indices: 47701240--47701357 Score: 152
Period size: 27 Copynumber: 4.4 Consensus size: 27
47701230 AGTCATGGGA
47701240 AAAATGA-TCGAATTACCCCCGA-AGGGT
1 AAAATGACT-GAATTACCCCC-ATAGGGT
* *
47701267 AACATGACTGAATTACCCCCAAAGGGT
1 AAAATGACTGAATTACCCCCATAGGGT
*
47701294 AAAATGACCGAATTACCCTCCAT-GGGT
1 AAAATGACTGAATTACCC-CCATAGGGT
*
47701321 AAAATGACTGAAATACCCCCATAGGGT
1 AAAATGACTGAATTACCCCCATAGGGT
47701348 AAAATGACTG
1 AAAATGACTG
47701358 TTATACCCCT
Statistics
Matches: 81, Mismatches: 6, Indels: 8
0.85 0.06 0.08
Matches are distributed among these distances:
26 5 0.06
27 72 0.89
28 4 0.05
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.19
Consensus pattern (27 bp):
AAAATGACTGAATTACCCCCATAGGGT
Found at i:47707408 original size:27 final size:27
Alignment explanation
Indices: 47707361--47707517 Score: 197
Period size: 27 Copynumber: 5.8 Consensus size: 27
47707351 TGCGAATCAT
** * *
47707361 GGGTAAAATGATTGAAATACCTTTGAA
1 GGGTAAAATGACCGAATTACCCTTGAA
47707388 GGGTAAAATGACCGAATTACCCTTGAA
1 GGGTAAAATGACCGAATTACCCTTGAA
*
47707415 GGGTAAAATGACCGAATTACCCCTGAA
1 GGGTAAAATGACCGAATTACCCTTGAA
*** **
47707442 GGGTAAAATGGTTGAATTACCCCCGAA
1 GGGTAAAATGACCGAATTACCCTTGAA
* *
47707469 GGGTAAAATGACCGAATTGCCCTCGAA
1 GGGTAAAATGACCGAATTACCCTTGAA
*
47707496 GGGTAAAATGACCGAAATACCC
1 GGGTAAAATGACCGAATTACCC
47707518 CCATAGGATA
Statistics
Matches: 114, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 114 1.00
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.21
Consensus pattern (27 bp):
GGGTAAAATGACCGAATTACCCTTGAA
Found at i:47707425 original size:54 final size:53
Alignment explanation
Indices: 47707361--47707544 Score: 197
Period size: 54 Copynumber: 3.4 Consensus size: 53
47707351 TGCGAATCAT
** * *
47707361 GGGTAAAATGATTGAAATACCTTTGAAGGGTAAAATGACCGAATTACCCTTGAA
1 GGGTAAAATGACCGAAATACCCTTGAAGGGTAAAATGACCGAATTACCC-CGAA
* * ***
47707415 GGGTAAAATGACCGAATTACCCCTGAAGGGTAAAATGGTTGAATTACCCCCGAA
1 GGGTAAAATGACCGAAATACCCTTGAAGGGTAAAATGACCGAATTA-CCCCGAA
* * * * *
47707469 GGGTAAAATGACCGAATTGCCCTCGAAGGGTAAAATGACCGAAATACCCCCATA
1 GGGTAAAATGACCGAAATACCCTTGAAGGGTAAAATGACCGAATTACCCCGA-A
* *
47707523 GGATAAAATGACTGAAATACCC
1 GGGTAAAATGACCGAAATACCC
47707545 CCATAAGGTA
Statistics
Matches: 107, Mismatches: 21, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
53 5 0.05
54 99 0.93
55 3 0.03
ACGTcount: A:0.38, C:0.19, G:0.22, T:0.21
Consensus pattern (53 bp):
GGGTAAAATGACCGAAATACCCTTGAAGGGTAAAATGACCGAATTACCCCGAA
Found at i:47707497 original size:81 final size:81
Alignment explanation
Indices: 47707361--47707561 Score: 262
Period size: 81 Copynumber: 2.5 Consensus size: 81
47707351 TGCGAATCAT
*** *
47707361 GGGTAAAATGATTGAAATACCTTTGAAGGGTAAAATGACCGAATTACCCTTGAAGGGTAAAATGA
1 GGGTAAAATGATTGAAATACCCCCGAAGGGTAAAATGACCGAATTACCCTCGAAGGGTAAAATGA
* *
47707426 CCGAATTACCCCTGA-A
66 CCGAAATACCCC-CATA
* * *
47707442 GGGTAAAATGGTTGAATTACCCCCGAAGGGTAAAATGACCGAATTGCCCTCGAAGGGTAAAATGA
1 GGGTAAAATGATTGAAATACCCCCGAAGGGTAAAATGACCGAATTACCCTCGAAGGGTAAAATGA
47707507 CCGAAATACCCCCATA
66 CCGAAATACCCCCATA
* * *
47707523 GGATAAAATGACTGAAATACCCCC-ATAAGGTAAAATGAC
1 GGGTAAAATGATTGAAATACCCCCGA-AGGGTAAAATGAC
47707562 TATTATACCC
Statistics
Matches: 104, Mismatches: 14, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
80 2 0.02
81 102 0.98
ACGTcount: A:0.39, C:0.19, G:0.22, T:0.20
Consensus pattern (81 bp):
GGGTAAAATGATTGAAATACCCCCGAAGGGTAAAATGACCGAATTACCCTCGAAGGGTAAAATGA
CCGAAATACCCCCATA
Found at i:47707529 original size:27 final size:26
Alignment explanation
Indices: 47707386--47707561 Score: 181
Period size: 27 Copynumber: 6.5 Consensus size: 26
47707376 AATACCTTTG
**
47707386 AAGGGTAAAATGACCGAATTACCCTTG
1 AAGGGTAAAATGACCGAATTACCC-CC
*
47707413 AAGGGTAAAATGACCGAATTACCCCTG
1 AAGGGTAAAATGACCGAATTACCCC-C
***
47707440 AAGGGTAAAATGGTTGAATTACCCCC
1 AAGGGTAAAATGACCGAATTACCCCC
* *
47707466 GAAGGGTAAAATGACCGAATTGCCCTCG
1 -AAGGGTAAAATGACCGAATTACCC-CC
*
47707494 AAGGGTAAAATGACCGAAATACCCCC
1 AAGGGTAAAATGACCGAATTACCCCC
* * *
47707520 ATAGGATAAAATGACTGAAATACCCCC
1 A-AGGGTAAAATGACCGAATTACCCCC
*
47707547 ATAAGGTAAAATGAC
1 A-AGGGTAAAATGAC
47707562 TATTATACCC
Statistics
Matches: 128, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
26 2 0.02
27 125 0.98
28 1 0.01
ACGTcount: A:0.39, C:0.20, G:0.22, T:0.19
Consensus pattern (26 bp):
AAGGGTAAAATGACCGAATTACCCCC
Found at i:47707765 original size:26 final size:26
Alignment explanation
Indices: 47707736--47707811 Score: 107
Period size: 26 Copynumber: 2.9 Consensus size: 26
47707726 TTGCCACATA
* *
47707736 TACTGTTACTGGTAGCTTTGGTGCAT
1 TACTGTTACTGGCAGCTTTGCTGCAT
47707762 TACTGTTACTGGCAGCTTTGCTGCAT
1 TACTGTTACTGGCAGCTTTGCTGCAT
* * *
47707788 CACTATTACTGGCAGTTTTGCTGC
1 TACTGTTACTGGCAGCTTTGCTGC
47707812 GATATTGGTG
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 45 1.00
ACGTcount: A:0.16, C:0.21, G:0.24, T:0.39
Consensus pattern (26 bp):
TACTGTTACTGGCAGCTTTGCTGCAT
Found at i:47707964 original size:28 final size:28
Alignment explanation
Indices: 47707923--47707977 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
47707913 ATTGTATTAA
**
47707923 TTACTGTACTGGGCTAAGGCCCACACTG
1 TTACTGTAAGGGGCTAAGGCCCACACTG
47707951 TTACTGTAAGGGGCTAAGGCCCACACT
1 TTACTGTAAGGGGCTAAGGCCCACACT
47707978 ATACTAATAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.24, C:0.27, G:0.25, T:0.24
Consensus pattern (28 bp):
TTACTGTAAGGGGCTAAGGCCCACACTG
Found at i:47722056 original size:79 final size:79
Alignment explanation
Indices: 47721925--47722084 Score: 302
Period size: 79 Copynumber: 2.0 Consensus size: 79
47721915 ACGTTTAATT
* *
47721925 CCTTTTTAATTTTTCGTTTTGTTTATGACCTGAAGCTTCTGCACCCCAATCGAACCATACCTAGA
1 CCTTTTTAATTTTTCGGTTTGTTTATGACCGGAAGCTTCTGCACCCCAATCGAACCATACCTAGA
47721990 TCCGAAGCAACTAG
66 TCCGAAGCAACTAG
47722004 CCTTTTTAATTTTTCGGTTTGTTTATGACCGGAAGCTTCTGCACCCCAATCGAACCATACCTAGA
1 CCTTTTTAATTTTTCGGTTTGTTTATGACCGGAAGCTTCTGCACCCCAATCGAACCATACCTAGA
47722069 TCCGAAGCAACTAG
66 TCCGAAGCAACTAG
47722083 CC
1 CC
47722085 AGGCGTGCTC
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
79 79 1.00
ACGTcount: A:0.25, C:0.28, G:0.15, T:0.33
Consensus pattern (79 bp):
CCTTTTTAATTTTTCGGTTTGTTTATGACCGGAAGCTTCTGCACCCCAATCGAACCATACCTAGA
TCCGAAGCAACTAG
Found at i:47723436 original size:24 final size:24
Alignment explanation
Indices: 47723405--47723450 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
47723395 GAGATTTCCA
47723405 AAGAAGTTGATGAACCCATGGAGG
1 AAGAAGTTGATGAACCCATGGAGG
47723429 AAGAAGTTGATGAACCCATGGA
1 AAGAAGTTGATGAACCCATGGA
47723451 CAAACAAAAG
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:0.39, C:0.13, G:0.30, T:0.17
Consensus pattern (24 bp):
AAGAAGTTGATGAACCCATGGAGG
Found at i:47731306 original size:18 final size:17
Alignment explanation
Indices: 47731285--47731320 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
47731275 TTATTTTCAG
47731285 TTTAGTTTGTTTTTCGTT
1 TTTAGTTTGTTTTT-GTT
*
47731303 TTTATTTTGTTTTTGTT
1 TTTAGTTTGTTTTTGTT
47731320 T
1 T
47731321 AGTTTTCTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.06, C:0.03, G:0.14, T:0.78
Consensus pattern (17 bp):
TTTAGTTTGTTTTTGTT
Found at i:47734121 original size:13 final size:13
Alignment explanation
Indices: 47734105--47734131 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
47734095 GTTTTTGTGG
47734105 TTGTTTTTCTTCA
1 TTGTTTTTCTTCA
47734118 TTGTTTTTCTTCA
1 TTGTTTTTCTTCA
47734131 T
1 T
47734132 GGCCACGGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.07, C:0.15, G:0.07, T:0.70
Consensus pattern (13 bp):
TTGTTTTTCTTCA
Found at i:47741229 original size:135 final size:136
Alignment explanation
Indices: 47741083--47741353 Score: 535
Period size: 135 Copynumber: 2.0 Consensus size: 136
47741073 TATCGGGCAT
47741083 GAAAAGTATAAAAAAAAATTATCCTCATTTATATCATTAAAGGTAAGTTTCTTTTAGTTTTTTTC
1 GAAAAGTATAAAAAAAAATTATCCTCATTTATATCATTAAAGGTAAGTTTCTTTTAGTTTTTTTC
47741148 TTTTTTTGAAATTTATGACCAGTAAAGTAATTTTGATATTTAAAATTATTTAAAAATA-TTAAAA
66 TTTTTTTGAAATTTATGACCAGTAAAGTAATTTTGATATTTAAAATTATTTAAAAATATTTAAAA
47741212 TCTATA
131 TCTATA
47741218 GAAAAGTATAAAAAAAAATTATCCTCATTTATATCATTAAAGGTAAGTTTCTTTTAGTTTTTTTC
1 GAAAAGTATAAAAAAAAATTATCCTCATTTATATCATTAAAGGTAAGTTTCTTTTAGTTTTTTTC
47741283 TTTTTTTGAAATTTATGACCAGTAAAGTAATTTTGATATTTAAAATTATTTAAAAATATTTAAAA
66 TTTTTTTGAAATTTATGACCAGTAAAGTAATTTTGATATTTAAAATTATTTAAAAATATTTAAAA
47741348 TCTATA
131 TCTATA
47741354 TTTAATCTAT
Statistics
Matches: 135, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
135 123 0.91
136 12 0.09
ACGTcount: A:0.41, C:0.07, G:0.08, T:0.45
Consensus pattern (136 bp):
GAAAAGTATAAAAAAAAATTATCCTCATTTATATCATTAAAGGTAAGTTTCTTTTAGTTTTTTTC
TTTTTTTGAAATTTATGACCAGTAAAGTAATTTTGATATTTAAAATTATTTAAAAATATTTAAAA
TCTATA
Found at i:47741334 original size:10 final size:10
Alignment explanation
Indices: 47741319--47741348 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
47741309 GTAATTTTGA
47741319 TATTTAAAAT
1 TATTTAAAAT
*
47741329 TATTTAAAAA
1 TATTTAAAAT
47741339 TATTTAAAAT
1 TATTTAAAAT
47741349 CTATATTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (10 bp):
TATTTAAAAT
Found at i:47749139 original size:14 final size:15
Alignment explanation
Indices: 47749110--47749142 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
47749100 CGAGAAAACA
47749110 AAAATAAAACAAAAT
1 AAAATAAAACAAAAT
*
47749125 AAAAT-AAACAGAAT
1 AAAATAAAACAAAAT
47749139 AAAA
1 AAAA
47749143 ATAACATCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.79, C:0.06, G:0.03, T:0.12
Consensus pattern (15 bp):
AAAATAAAACAAAAT
Found at i:47749143 original size:15 final size:15
Alignment explanation
Indices: 47749104--47749146 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
47749094 GATTTTCGAG
*
47749104 AAAACAAAAATAAAAC
1 AAAATAAAAAT-AAAC
47749120 AAAAT-AAAATAAAC
1 AAAATAAAAATAAAC
*
47749134 AGAATAAAAATAA
1 AAAATAAAAATAA
47749147 CATCATATCC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 8 0.33
15 12 0.50
16 4 0.17
ACGTcount: A:0.79, C:0.07, G:0.02, T:0.12
Consensus pattern (15 bp):
AAAATAAAAATAAAC
Found at i:47757729 original size:510 final size:509
Alignment explanation
Indices: 47756839--47758174 Score: 2140
Period size: 510 Copynumber: 2.6 Consensus size: 509
47756829 GGCTGGGCAT
*
47756839 ACGCCAGATTTTTAGCTTTTGACGATCATCATTTTCTCGCATTTTTTGTTATACACTTAGTTCAT
1 ACGCCAGATTTTTAGCTTTTGACGATCGTCATTTTCTCG---TTTTTGTTATACACTTAGTTCA-
* *
47756904 TTTTTTATGTGAAAGCAATCTCGAGACCTCTGAAACTTAAGAAATAGCATTCCAAAGACTATTTT
62 TTTTTTATGTGAAAGCAATCTCGAGACCTCTGAAACCTAAGAAATAGCATTCCAAAGACTACTTT
* * * * *
47756969 CGCAATAAATTTACGAATTCAACACAAGTAAACTGAACAATGCACTCGAACTTACCGCCAACAAA
127 CGCAATCAATTTACGAATTCAACACAACTAAACTGAACAACGCACACGAACTTACCGCCAACGAA
*
47757034 CACAATCACACACGAATTAGATCGTTGGAGCGTAATCCTCTGCTTCACAACCTTTTCCTAAAAGC
192 CACAATCACACACGAATTAGATCGTTGGAGCGTAATCCTCTACTTCACAACCTTTTCCTAAAAGC
* *
47757099 AAAACCAACTAATTAATGGCTACAAATTAACATCACTAGCATCCCATAATTCTAAATGCTCCATA
257 AAAACCCACTAATTAATGGCTACAAATTAACATCACTAGCATCCCATAATTCTAAACGCTCCATA
47757164 GTCGATTGGAACGACACATGCAACCATAGGGAAACATTCTAAAATTTGGGCCTACATACCCGTGT
322 GTCGATTGGAACGACACATGCAACCATAGGGAAACATTCTAAAATTTGGGCCTACATACCCGTGT
* *
47757229 GGCCCACACGTCCAAAATGGCCTTGTCCCTGGGATCACATGGCCTAGCCTACGACCACACACACA
387 GGCCCACACGTCCAAAATGGCCTTGTCCCTGGGACCACATGGCCTAGCCCACGACCACACACACA
* * * *
47757294 CCCGTCACATGACACACGACCTACCACATGGCTGGGCACACGCCTGTGTGGTGTCAAC
452 CCCATCACATGACACACGACCTACCACACGGCTGGGCACACGCCCGTGTGGCGTCAAC
* *
47757352 ACGCCAAATTTTTAGCTTTTGATGATCGTCATTTTCTCGTTTTTGTTATACACTTAGTTCATTTT
1 ACGCCAGATTTTTAGCTTTTGACGATCGTCATTTTCTCGTTTTTGTTATACACTTAGTTCATTTT
* * * *
47757417 TTATGTGAAAGCAATCTCGATA-CTTTGAAACCTAAGTAATAGCATTCCAATGACTACTTTCGCA
66 TTATGTGAAAGCAATCTCGAGACCTCTGAAACCTAAGAAATAGCATTCCAAAGACTACTTTCGCA
* *
47757481 TTCAATTTACGAATTCAACACAACTAAACTGAACAACGCACAGGAACTTACCGCCAACGAACACA
131 ATCAATTTACGAATTCAACACAACTAAACTGAACAACGCACACGAACTTACCGCCAACGAACACA
47757546 ATCACACACGAATTAGATCGTTGGAGCGTAATCCTCTACTTCACAACCTTTTTCCTAAAAGCAAA
196 ATCACACACGAATTAGATCGTTGGAGCGTAATCCTCTACTTCACAACC-TTTTCCTAAAAGCAAA
*
47757611 ACCCACTAATCAAATGG-TAACAAATTAACATCACTAGCATCCCATAATTCTAAACGCTCCATAG
260 ACCCACTAAT-TAATGGCT-ACAAATTAACATCACTAGCATCCCATAATTCTAAACGCTCCATAG
* * * *
47757675 TCGATTGGAACTACACATGCGACCATAGGGAAACATTCTGAAATTTGGGCCTACATGCCCGTGTG
323 TCGATTGGAACGACACATGCAACCATAGGGAAACATTCTAAAATTTGGGCCTACATACCCGTGTG
* * *
47757740 GCCCACATGTCCAAAATGGCCTTGTCCCTGGGCCCACATGGCCTGGCCCACGACCACACACACAC
388 GCCCACACGTCCAAAATGGCCTTGTCCCTGGGACCACATGGCCTAGCCCACGACCACACACACAC
* *
47757805 CCATCACATGACACACGGCCTACCACACGGCTGGGCACACGCCCGTGTGGCGTCGAC
453 CCATCACATGACACACGACCTACCACACGGCTGGGCACACGCCCGTGTGGCGTCAAC
* * *
47757862 ACGCCAGATTTTTAGCTTTTGACGATCGCCA-TTTCTTGTGTTTTTGTTATACACTTAGTTCGTT
1 ACGCCAGATTTTTAGCTTTTGACGATCGTCATTTTC-T-CGTTTTTGTTATACACTTAGTTCATT
* * *
47757926 TTTTATGTGAAAGCAATCTCAAGACCTCTAAAACCTAAGAAATAGCATTCCAACGACTACTTTCG
64 TTTTATGTGAAAGCAATCTCGAGACCTCTGAAACCTAAGAAATAGCATTCCAAAGACTACTTTCG
* * * *
47757991 CAATCAATTTATGAATTTAACACAACTAAACCGAA-AACGCACACGAACTTATCGCCAACGAACA
129 CAATCAATTTACGAATTCAACACAACTAAACTGAACAACGCACACGAACTTACCGCCAACGAACA
47758055 CAATCACACACGAATTAGATCGTTGGAGCGTAATCCTCTACTTCACAACCTTTTCCTAAAAGCAA
194 CAATCACACACGAATTAGATCGTTGGAGCGTAATCCTCTACTTCACAACCTTTTCCTAAAAGCAA
* *
47758120 AACCCAATAATTAATGGCTATAAATTAACATCACTAGCATCCCATAATTCTAAAC
259 AACCCACTAATTAATGGCTACAAATTAACATCACTAGCATCCCATAATTCTAAAC
47758175 ACTAAAGATA
Statistics
Matches: 761, Mismatches: 55, Indels: 18
0.91 0.07 0.02
Matches are distributed among these distances:
508 142 0.19
509 95 0.12
510 298 0.39
511 123 0.16
512 67 0.09
513 36 0.05
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.26
Consensus pattern (509 bp):
ACGCCAGATTTTTAGCTTTTGACGATCGTCATTTTCTCGTTTTTGTTATACACTTAGTTCATTTT
TTATGTGAAAGCAATCTCGAGACCTCTGAAACCTAAGAAATAGCATTCCAAAGACTACTTTCGCA
ATCAATTTACGAATTCAACACAACTAAACTGAACAACGCACACGAACTTACCGCCAACGAACACA
ATCACACACGAATTAGATCGTTGGAGCGTAATCCTCTACTTCACAACCTTTTCCTAAAAGCAAAA
CCCACTAATTAATGGCTACAAATTAACATCACTAGCATCCCATAATTCTAAACGCTCCATAGTCG
ATTGGAACGACACATGCAACCATAGGGAAACATTCTAAAATTTGGGCCTACATACCCGTGTGGCC
CACACGTCCAAAATGGCCTTGTCCCTGGGACCACATGGCCTAGCCCACGACCACACACACACCCA
TCACATGACACACGACCTACCACACGGCTGGGCACACGCCCGTGTGGCGTCAAC
Found at i:47758345 original size:10 final size:10
Alignment explanation
Indices: 47758321--47758364 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
47758311 GATTTTGGGG
*
47758321 AAAACAAAAAC
1 AAAAC-AAAAT
47758332 AAAACAAAAT
1 AAAACAAAAT
*
47758342 AAAATAAAAT
1 AAAACAAAAT
47758352 -AAACAAAAT
1 AAAACAAAAT
47758361 AAAA
1 AAAA
47758365 ATAACATCAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
9 8 0.28
10 16 0.55
11 5 0.17
ACGTcount: A:0.82, C:0.09, G:0.00, T:0.09
Consensus pattern (10 bp):
AAAACAAAAT
Found at i:47762631 original size:15 final size:15
Alignment explanation
Indices: 47762608--47762644 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
47762598 TAAATTAACT
47762608 TTCCAAATAACCACA
1 TTCCAAATAACCACA
* *
47762623 TTCCTAATAACCATA
1 TTCCAAATAACCACA
47762638 TTCCAAA
1 TTCCAAA
47762645 GATTCATAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.43, C:0.30, G:0.00, T:0.27
Consensus pattern (15 bp):
TTCCAAATAACCACA
Found at i:47763290 original size:19 final size:20
Alignment explanation
Indices: 47763254--47763301 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
47763244 TAAAATAAGC
*
47763254 TTAAAAATCAAAACA-TTTA
1 TTAAAAATTAAAACATTTTA
47763273 TTAAAAATTATAAA-ATTTTA
1 TTAAAAATTA-AAACATTTTA
*
47763293 TAAAAAATT
1 TTAAAAATT
47763302 TCAAAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 10 0.40
20 15 0.60
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (20 bp):
TTAAAAATTAAAACATTTTA
Found at i:47764427 original size:18 final size:19
Alignment explanation
Indices: 47764390--47764428 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
47764380 TTATAATTGC
**
47764390 TTTTATGATATTTTTTATT
1 TTTTATGATATTTTAAATT
47764409 TTTTATGA-ATTTTAAATT
1 TTTTATGATATTTTAAATT
47764427 TT
1 TT
47764429 GTAATGGTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (19 bp):
TTTTATGATATTTTAAATT
Found at i:47764872 original size:20 final size:20
Alignment explanation
Indices: 47764849--47764888 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
47764839 CTATTCAAAC
*
47764849 AATATTACTTGAATAATTAT
1 AATATTACATGAATAATTAT
*
47764869 AATATTAGATGAATAATTAT
1 AATATTACATGAATAATTAT
47764889 GGGTCTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (20 bp):
AATATTACATGAATAATTAT
Found at i:47765482 original size:28 final size:28
Alignment explanation
Indices: 47765448--47765503 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
47765438 GTTAGGGACC
*
47765448 AAATTTTAAAAAATTAACAAATTTAGGG
1 AAATTTTAAAAAACTAACAAATTTAGGG
47765476 AAATTTTAAAAAACTAACAAATTTAGGG
1 AAATTTTAAAAAACTAACAAATTTAGGG
47765504 TTTAAATGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.54, C:0.05, G:0.11, T:0.30
Consensus pattern (28 bp):
AAATTTTAAAAAACTAACAAATTTAGGG
Found at i:47766206 original size:11 final size:11
Alignment explanation
Indices: 47766184--47766230 Score: 60
Period size: 11 Copynumber: 4.2 Consensus size: 11
47766174 CACTAACCCT
47766184 CTCTCAAATTTC
1 CTCTC-AATTTC
47766196 CTCTCAATTTC
1 CTCTCAATTTC
47766207 CTCTCAA-TTC
1 CTCTCAATTTC
*
47766217 GCTCTCAAATTC
1 -CTCTCAATTTC
47766229 CT
1 CT
47766231 TCCAAATTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
10 3 0.09
11 22 0.67
12 8 0.24
ACGTcount: A:0.21, C:0.36, G:0.02, T:0.40
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:47766243 original size:22 final size:22
Alignment explanation
Indices: 47766184--47766248 Score: 71
Period size: 22 Copynumber: 2.9 Consensus size: 22
47766174 CACTAACCCT
*
47766184 CTCTCAAATTTCCTCTCAATTTC
1 CTCTCAAATTT-CTCTCAAATTC
*
47766207 CTCTC-AATTCGCTCTCAAATTC
1 CTCTCAAATT-TCTCTCAAATTC
47766229 CT-TCCAAATTTCTCTCAAAT
1 CTCT-CAAATTTCTCTCAAAT
47766249 CGATTTTTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
21 1 0.03
22 26 0.72
23 9 0.25
ACGTcount: A:0.25, C:0.34, G:0.02, T:0.40
Consensus pattern (22 bp):
CTCTCAAATTTCTCTCAAATTC
Found at i:47766247 original size:11 final size:11
Alignment explanation
Indices: 47766183--47766248 Score: 57
Period size: 11 Copynumber: 5.9 Consensus size: 11
47766173 ACACTAACCC
47766183 TCTCTCAAATT
1 TCTCTCAAATT
47766194 TCCTCTC-AATT
1 T-CTCTCAAATT
47766205 TCCTCTC-AATT
1 T-CTCTCAAATT
*
47766216 CGCTCTCAAATT
1 -TCTCTCAAATT
*
47766228 CCT-TCCAAATT
1 TCTCT-CAAATT
47766239 TCTCTCAAAT
1 TCTCTCAAAT
47766249 CGATTTTTAA
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
10 1 0.02
11 36 0.77
12 10 0.21
ACGTcount: A:0.24, C:0.33, G:0.02, T:0.41
Consensus pattern (11 bp):
TCTCTCAAATT
Found at i:47768325 original size:18 final size:18
Alignment explanation
Indices: 47768298--47768337 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
47768288 CAGGTGCGTT
* *
47768298 TCCTAGCCCTTTTATGTA
1 TCCTAACCCTTATATGTA
*
47768316 TCCTAACCCTTATATGTT
1 TCCTAACCCTTATATGTA
47768334 TCCT
1 TCCT
47768338 TTTCCGAGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.17, C:0.30, G:0.07, T:0.45
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:47768605 original size:21 final size:21
Alignment explanation
Indices: 47768579--47768625 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
47768569 CAACTCCGAC
* *
47768579 AACCAGATGCCCTACCGGAAG
1 AACCAGAAGCCCCACCGGAAG
*
47768600 AACCAGAAGCCCCGCCGGAAG
1 AACCAGAAGCCCCACCGGAAG
47768621 AACCA
1 AACCA
47768626 CAACCGCCGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.36, C:0.36, G:0.23, T:0.04
Consensus pattern (21 bp):
AACCAGAAGCCCCACCGGAAG
Found at i:47768635 original size:21 final size:21
Alignment explanation
Indices: 47768593--47768641 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
47768583 AGATGCCCTA
*
47768593 CCGGAAGAACCAGAAGCCCCG
1 CCGGAAGAACCACAAGCCCCG
47768614 CCGGAAGAACCACAA-CCGCCG
1 CCGGAAGAACCACAAGCC-CCG
*
47768635 CCAGAAG
1 CCGGAAG
47768642 CTGGACAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 2 0.08
21 23 0.92
ACGTcount: A:0.35, C:0.39, G:0.27, T:0.00
Consensus pattern (21 bp):
CCGGAAGAACCACAAGCCCCG
Found at i:47768976 original size:43 final size:43
Alignment explanation
Indices: 47768899--47769825 Score: 1059
Period size: 43 Copynumber: 21.5 Consensus size: 43
47768889 CTAAAAATCG
47768899 AAACCCT-AACCCTTAAATTAAAAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAAATTAAAAACCCT-AACCCTTAACTTAA
* ** *
47768942 AAACCATAAACCCTTAACCTAAACACCCTAACCCTTAACTTAA
1 AAACCCTAAACCCTTAAATTAAAAACCCTAACCCTTAACTTAA
* *
47768985 AAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACCTAA
1 AAACCCTAAACCCTTAAATTAAAAACCCTAACCCTTAACTTAA
* *
47769028 AAACCCTAAACCCTTAACTTAAAAACCTTAACCCCTTAACTTAA
1 AAACCCTAAACCCTTAAATTAAAAACCCTAA-CCCTTAACTTAA
* ** *
47769072 AAACCCTAAACCTTTAAATTAAAAACCCTAAACCCTTTTCATAA
1 AAACCCTAAACCCTTAAATTAAAAACCCT-AACCCTTAACTTAA
* *
47769116 AAACCAT-AACCCTTAACTTAAAAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAAATTAAAAACCCT-AACCCTTAACTTAA
47769159 AAACCCTAAACCCTTAAATTAAAAACCCTAACCCTAACCCTTAACTTAA
1 AAACCCTAAACCCTTAAATT--AAA----AACCCTAACCCTTAACTTAA
* *
47769208 AAACCCT-AACCCTTAACTT-AAAACCCTAACCCCTTAATTTAA
1 AAACCCTAAACCCTTAAATTAAAAACCCTAA-CCCTTAACTTAA
* * * * *
47769250 AAATCGTAAACCCTTAAAATAAAAACCCTAAACACTCAACTTAA
1 AAACCCTAAACCCTTAAATTAAAAACCCT-AACCCTTAACTTAA
* * *
47769294 AAA-CCTTAACCCTTAACTT-AAAACCCTAACCCCTTAACTTCA
1 AAACCCTAAACCCTTAAATTAAAAACCCTAA-CCCTTAACTTAA
*
47769336 AAACCATAAACCCTTAAATT-AAAACCCTAACCCCTTAACTTAA
1 AAACCCTAAACCCTTAAATTAAAAACCCTAA-CCCTTAACTTAA
* *
47769379 AAACCCTAAACCTTTAAATTAAAAACCCTAAATCCTTAACTTAA
1 AAACCCTAAACCCTTAAATTAAAAACCCT-AACCCTTAACTTAA
*
47769423 AAACCCTAAACCCTTAACTTAAAAACCCTAACCTCTTAACTTAA
1 AAACCCTAAACCCTTAAATTAAAAACCCTAACC-CTTAACTTAA
* * *
47769467 AAACCCTAAACCTTTAAATTAAAAATCCTAACCCTCAACTTAA
1 AAACCCTAAACCCTTAAATTAAAAACCCTAACCCTTAACTTAA
* * *
47769510 AAACCCTAAACCCTCAATTTAAAAACCCTAACCCCTCAACTTAA
1 AAACCCTAAACCCTTAAATTAAAAACCCTAA-CCCTTAACTTAA
* *
47769554 AAACCCT-AACCCATAACTT-AAAACCCTAACCCCTTAACTTAA
1 AAACCCTAAACCCTTAAATTAAAAACCCTAA-CCCTTAACTTAA
*
47769596 AAACCTTAAACCCTTAAATTAAAAACCCTAACCCCTTAACTT--
1 AAACCCTAAACCCTTAAATTAAAAACCCTAA-CCCTTAACTTAA
*
47769638 -TA----AAACCCTTAAATTAAAAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAAATTAAAAACCCT-AACCCTTAACTTAA
* *
47769677 AAACCCT-AACCCTTAAATTTAAAACCTTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAAATTAAAAACCCT-AACCCTTAACTTAA
* * *
47769720 AAATCAT-AACCTTTAAATTAAAAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAAATTAAAAACCCT-AACCCTTAACTTAA
*** * * *
47769763 AAATAGT-AACCCTTAAA-TAAAAATCGTAACACTTAACTTAA
1 AAACCCTAAACCCTTAAATTAAAAACCCTAACCCTTAACTTAA
*
47769804 AAACCCT-AACCCTTAACTTAAA
1 AAACCCTAAACCCTTAAATTAAA
47769826 TATAATTTGA
Statistics
Matches: 769, Mismatches: 84, Indels: 63
0.84 0.09 0.07
Matches are distributed among these distances:
37 32 0.04
38 2 0.00
40 1 0.00
41 37 0.05
42 76 0.10
43 345 0.45
44 227 0.30
45 8 0.01
46 3 0.00
48 11 0.01
49 21 0.03
50 6 0.01
ACGTcount: A:0.45, C:0.30, G:0.00, T:0.24
Consensus pattern (43 bp):
AAACCCTAAACCCTTAAATTAAAAACCCTAACCCTTAACTTAA
Found at i:47768977 original size:65 final size:65
Alignment explanation
Indices: 47768899--47769825 Score: 1082
Period size: 65 Copynumber: 14.3 Consensus size: 65
47768889 CTAAAAATCG
* * *
47768899 AAACCCTAACCCTTAAATTAAAAACCCTAAACCCTTAACTTAAAAACCATAAACCCTTAACCTAA
1 AAACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAA
* *
47768964 ACACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCT-AACCCTTAACCTAA
1 AAACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAA
* * * *
47769028 AAACCCTAAACCCTTAACTTAAAAACCTTAACCCCTTAACTTAAAAACCCTAAACCTTTAAATTA
1 AAACCCT-AACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTA
47769093 A
65 A
** * *
47769094 AAACCCTAAACCCTTTTCATAAAAACCAT-AACCCTTAACTTAAAAACCCTAAACCCTTAACTTA
1 AAACCCT-AACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTA
47769158 A
65 A
*
47769159 AAACCCTAAACCCTTAAATTAAAAACCCTAACCCTAACCCTTAACTTAAAAACCCT-AACCCTTA
1 AAACCCT-AACCCTTAACTTAAAAACCCT-A----AACCCTTAACTTAAAAACCCTAAACCCTTA
47769223 ACTT-A
60 ACTTAA
* * * ** * *
47769228 AAACCCTAACCCCTTAATTTAAAAATCGTAAACCCTTAAAATAAAAACCCTAAACACTCAACTTA
1 AAACCCTAA-CCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTA
47769293 A
65 A
* * * * *
47769294 AAACCTTAACCCTTAACTT-AAAACCCTAACCCCTTAACTTCAAAACCATAAACCCTTAAATT-A
1 AAACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAA
* * *
47769357 AAACCCTAACCCCTTAACTTAAAAACCCTAAACCTTTAAATTAAAAACCCTAAATCCTTAACTTA
1 AAACCCTAA-CCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTA
47769422 A
65 A
* *
47769423 AAACCCTAAACCCTTAACTTAAAAACCCT-AACCTCTTAACTTAAAAACCCTAAACCTTTAAATT
1 AAACCCT-AACCCTTAACTTAAAAACCCTAAACC-CTTAACTTAAAAACCCTAAACCCTTAACTT
47769487 AA
64 AA
* * * * * *
47769489 AAATCCTAACCCTCAACTTAAAAACCCTAAACCCTCAATTTAAAAACCCTAACCCCTCAACTTAA
1 AAACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAA
* * * *
47769554 AAACCCTAACCCATAACTT-AAAACCCTAACCCCTTAACTTAAAAACCTTAAACCCTTAAATTAA
1 AAACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAA
* *
47769618 AAACCCTAACCCCTTAACTT---TA----AAACCCTTAAATTAAAAACCCTAAACCCTTAACTTA
1 AAACCCTAA-CCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTA
47769676 A
65 A
* * * * * * *
47769677 AAACCCTAACCCTTAAATTTAAAACCTTAAACCCTTAACTTAAAAATCAT-AACCTTTAAATTAA
1 AAACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAA
*** * * * *
47769741 AAACCCTAAACCCTTAACTTAAAAATAGT-AACCCTTAA-ATAAAAATCGT-AACACTTAACTTA
1 AAACCCT-AACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTA
47769803 A
65 A
47769804 AAACCCTAACCCTTAACTTAAA
1 AAACCCTAACCCTTAACTTAAA
47769826 TATAATTTGA
Statistics
Matches: 742, Mismatches: 94, Indels: 55
0.83 0.11 0.06
Matches are distributed among these distances:
58 9 0.01
59 42 0.06
61 1 0.00
62 15 0.02
63 37 0.05
64 157 0.21
65 310 0.42
66 109 0.15
67 2 0.00
68 3 0.00
69 24 0.03
70 12 0.02
71 21 0.03
ACGTcount: A:0.45, C:0.30, G:0.00, T:0.24
Consensus pattern (65 bp):
AAACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAA
Found at i:47769665 original size:22 final size:21
Alignment explanation
Indices: 47768899--47769825 Score: 994
Period size: 22 Copynumber: 43.0 Consensus size: 21
47768889 CTAAAAATCG
*
47768899 AAACCCTAACCCTTAAATTAA
1 AAACCCTAACCCTTAACTTAA
47768920 AAACCCTAAACCCTTAACTTAA
1 AAACCCT-AACCCTTAACTTAA
* *
47768942 AAACCATAAACCCTTAACCTAA
1 AAACCCT-AACCCTTAACTTAA
*
47768964 ACACCCTAACCCTTAACTTAA
1 AAACCCTAACCCTTAACTTAA
47768985 AAACCCTAAACCCTTAACTTAA
1 AAACCCT-AACCCTTAACTTAA
*
47769007 AAACCCTAACCCTTAACCTAA
1 AAACCCTAACCCTTAACTTAA
47769028 AAACCCTAAACCCTTAACTTAA
1 AAACCCT-AACCCTTAACTTAA
*
47769050 AAACCTTAACCCCTTAACTTAA
1 AAACCCTAA-CCCTTAACTTAA
* *
47769072 AAACCCTAAACCTTTAAATTAA
1 AAACCCT-AACCCTTAACTTAA
** *
47769094 AAACCCTAAACCCTTTTCATAA
1 AAACCCT-AACCCTTAACTTAA
*
47769116 AAACCATAACCCTTAACTTAA
1 AAACCCTAACCCTTAACTTAA
47769137 AAACCCTAAACCCTTAACTTAA
1 AAACCCT-AACCCTTAACTTAA
*
47769159 AAACCCTAAACCCTTAAATTAAAA
1 AAACCCT-AACCCTTAACTT--AA
47769183 ACCCTAACCCTAACCCTTAACTTAA
1 A----AACCCTAACCCTTAACTTAA
47769208 AAACCCTAACCCTTAACTT-A
1 AAACCCTAACCCTTAACTTAA
*
47769228 AAACCCTAACCCCTTAATTTAA
1 AAACCCTAA-CCCTTAACTTAA
* * **
47769250 AAATCGTAAACCCTTAAAATAA
1 AAACCCT-AACCCTTAACTTAA
* *
47769272 AAACCCTAAACACTCAACTTAA
1 AAACCCT-AACCCTTAACTTAA
*
47769294 AAACCTTAACCCTTAACTT-A
1 AAACCCTAACCCTTAACTTAA
*
47769314 AAACCCTAACCCCTTAACTTCA
1 AAACCCTAA-CCCTTAACTTAA
* *
47769336 AAACCATAAACCCTTAAATT-A
1 AAACCCT-AACCCTTAACTTAA
47769357 AAACCCTAACCCCTTAACTTAA
1 AAACCCTAA-CCCTTAACTTAA
* *
47769379 AAACCCTAAACCTTTAAATTAA
1 AAACCCT-AACCCTTAACTTAA
*
47769401 AAACCCTAAATCCTTAACTTAA
1 AAACCCT-AACCCTTAACTTAA
47769423 AAACCCTAAACCCTTAACTTAA
1 AAACCCT-AACCCTTAACTTAA
47769445 AAACCCTAACCTCTTAACTTAA
1 AAACCCTAACC-CTTAACTTAA
* *
47769467 AAACCCTAAACCTTTAAATTAA
1 AAACCCT-AACCCTTAACTTAA
* *
47769489 AAATCCTAACCCTCAACTTAA
1 AAACCCTAACCCTTAACTTAA
* *
47769510 AAACCCTAAACCCTCAATTTAA
1 AAACCCT-AACCCTTAACTTAA
*
47769532 AAACCCTAACCCCTCAACTTAA
1 AAACCCTAA-CCCTTAACTTAA
*
47769554 AAACCCTAACCCATAACTT-A
1 AAACCCTAACCCTTAACTTAA
47769574 AAACCCTAACCCCTTAACTTAA
1 AAACCCTAA-CCCTTAACTTAA
* *
47769596 AAACCTTAAACCCTTAAATTAA
1 AAACCCT-AACCCTTAACTTAA
47769618 AAACCCTAACCCCTTAACTT--
1 AAACCCTAA-CCCTTAACTTAA
* *
47769638 TAA----AACCCTTAAATTAA
1 AAACCCTAACCCTTAACTTAA
47769655 AAACCCTAAACCCTTAACTTAA
1 AAACCCT-AACCCTTAACTTAA
* *
47769677 AAACCCTAACCCTTAAATTTA
1 AAACCCTAACCCTTAACTTAA
*
47769698 AAACCTTAAACCCTTAACTTAA
1 AAACCCT-AACCCTTAACTTAA
* * * *
47769720 AAATCATAACCTTTAAATTAA
1 AAACCCTAACCCTTAACTTAA
47769741 AAACCCTAAACCCTTAACTTAA
1 AAACCCT-AACCCTTAACTTAA
*** *
47769763 AAATAGTAACCCTTAA-ATAA
1 AAACCCTAACCCTTAACTTAA
* * *
47769783 AAATCGTAACACTTAACTTAA
1 AAACCCTAACCCTTAACTTAA
47769804 AAACCCTAACCCTTAACTTAA
1 AAACCCTAACCCTTAACTTAA
47769825 A
1 A
47769826 TATAATTTGA
Statistics
Matches: 774, Mismatches: 93, Indels: 78
0.82 0.10 0.08
Matches are distributed among these distances:
15 9 0.01
16 2 0.00
17 2 0.00
20 50 0.06
21 236 0.30
22 438 0.57
23 14 0.02
24 3 0.00
25 3 0.00
27 11 0.01
28 6 0.01
ACGTcount: A:0.45, C:0.30, G:0.00, T:0.24
Consensus pattern (21 bp):
AAACCCTAACCCTTAACTTAA
Found at i:47769680 original size:15 final size:15
Alignment explanation
Indices: 47769628--47769661 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
47769618 AAACCCTAAC
* *
47769628 CCCTTAACTTTAAAA
1 CCCTTAAATTAAAAA
47769643 CCCTTAAATTAAAAA
1 CCCTTAAATTAAAAA
47769658 CCCT
1 CCCT
47769662 AAACCCTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.41, C:0.29, G:0.00, T:0.29
Consensus pattern (15 bp):
CCCTTAAATTAAAAA
Found at i:47773514 original size:125 final size:125
Alignment explanation
Indices: 47773179--47773795 Score: 857
Period size: 125 Copynumber: 4.9 Consensus size: 125
47773169 NNNNNNNNNN
*
47773179 TTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGACCTACTGTAGCAAAAG
1 TTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGACCTACTGTAGCAAAAG
*
47773244 CGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTAGAAGCGA--
66 CGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTTGAAGC-ATT
* * *
47773303 TTTTATACTATTTGCTCATAAACATCAAGTCGAAATTATTTTTCCAGGACCTACTGTAGCAAAAG
1 TTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGACCTACTGTAGCAAAAG
* * *
47773368 CGCGTCTACGAGGGCGCGATTTCAGAAATTCTTCTCA-AATAGCATCCTGCTTGAAGCATT
66 CGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAA-AGCATCCTGCTTGAAGCATT
* * * *
47773428 GTTTTATACTATTTGCTCAGAAATGT-AACTCAAAATTATTTTTTCAGGACCTACAGTAGCAAAA
1 -TTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGACCTACTGTAGCAAAA
* * *
47773492 GAGCGTCCACGTGGGC-CTGATTTCACAAATTCTTCTCATAAAGCATCATGCTTGAAGCGTT
65 GCGCGTCCACGTGGGCGC-GATTTCACAAATTCTTCTCATAAAGCATCCTGCTTGAAGCATT
* * * *
47773553 TTTTAAACTATTTGCTCAGAAACGTCAACTTGAAATTATTTCTTCCAGGACCAACTGTAGTAAAA
1 TTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTT-TTCCAGGACCTACTGTAGCAAAA
*
47773618 GCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTTGAAGCATT
65 GCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTTGAAGCATT
* * *
47773679 TTTTAAACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTCCATGACCTACTGTAGCAAAAG
1 TTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGACCTACTGTAGCAAAAG
* * * ** * * * * *
47773744 CGCGTACACATGGGTGCGCCTTCAAAAATCCTTCTGATAAATCATCCCGCTT
66 CGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTT
47773796 TAATTTTATC
Statistics
Matches: 435, Mismatches: 49, Indels: 17
0.87 0.10 0.03
Matches are distributed among these distances:
123 3 0.01
124 135 0.31
125 159 0.37
126 137 0.31
127 1 0.00
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (125 bp):
TTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGACCTACTGTAGCAAAAG
CGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTTGAAGCATT
Found at i:47773651 original size:126 final size:125
Alignment explanation
Indices: 47773179--47773748 Score: 853
Period size: 126 Copynumber: 4.6 Consensus size: 125
47773169 NNNNNNNNNN
*
47773179 TTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGACCTACTGTAGCAAAAG
1 TTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGACCTACTGTAGCAAAAG
* *
47773244 CGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTAGAAGCGA--
66 CGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTTGAAGC-ATT
* * *
47773303 TTTTATACTATTTGCTCATAAACATCAAGTCGAAATTATTTTTCCAGGACCTACTGTAGCAAAAG
1 TTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGACCTACTGTAGCAAAAG
* *
47773368 CGCGTCTACGAGGGCGCGATTTCAGAAATTCTTCTCA-AATAGCATCCTGCTTGAAGCATT
66 CGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAA-AGCATCCTGCTTGAAGCATT
* * * *
47773428 GTTTTATACTATTTGCTCAGAAATGT-AACTCAAAATTATTTTTTCAGGACCTACAGTAGCAAAA
1 -TTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGACCTACTGTAGCAAAA
* * * *
47773492 GAGCGTCCACGTGGGC-CTGATTTCACAAATTCTTCTCATAAAGCATCATGCTTGAAGCGTT
65 GCGCGTCCACGAGGGCGC-GATTTCACAAATTCTTCTCATAAAGCATCCTGCTTGAAGCATT
* * * *
47773553 TTTTAAACTATTTGCTCAGAAACGTCAACTTGAAATTATTTCTTCCAGGACCAACTGTAGTAAAA
1 TTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTT-TTCCAGGACCTACTGTAGCAAAA
47773618 GCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTTGAAGCATT
65 GCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTTGAAGCATT
* * *
47773679 TTTTAAACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTCCATGACCTACTGTAGCAAAAG
1 TTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGACCTACTGTAGCAAAAG
47773744 CGCGT
66 CGCGT
47773749 ACACATGGGT
Statistics
Matches: 399, Mismatches: 38, Indels: 17
0.88 0.08 0.04
Matches are distributed among these distances:
123 3 0.01
124 135 0.34
125 123 0.31
126 137 0.34
127 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.31
Consensus pattern (125 bp):
TTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGACCTACTGTAGCAAAAG
CGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTTGAAGCATT
Found at i:47775849 original size:29 final size:30
Alignment explanation
Indices: 47775817--47775874 Score: 91
Period size: 29 Copynumber: 1.9 Consensus size: 30
47775807 ACAAAAAATT
47775817 TATTTTAAAAATA-TAAAAAATAAAAAAAG
1 TATTTTAAAAATATTAAAAAATAAAAAAAG
*
47775846 TATTTTAAAAATATTTTAAAAATAAAAAA
1 TATTTTAAAAATA-TTAAAAAATAAAAAA
47775875 TATACATTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 13 0.50
31 13 0.50
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.33
Consensus pattern (30 bp):
TATTTTAAAAATATTAAAAAATAAAAAAAG
Found at i:47775860 original size:11 final size:11
Alignment explanation
Indices: 47775840--47775869 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
47775830 TAAAAAATAA
47775840 AAAAAGTATTTT
1 AAAAA-TATTTT
47775852 AAAAATATTTT
1 AAAAATATTTT
47775863 AAAAATA
1 AAAAATA
47775870 AAAAATATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:47777055 original size:59 final size:59
Alignment explanation
Indices: 47776942--47777057 Score: 169
Period size: 59 Copynumber: 2.0 Consensus size: 59
47776932 CAATTCCTGA
* * *
47776942 GGCTTTCCTTGGGTCCATTTGATTGAATGCTTCCCTTATTCCATTGTCTATAAACTTGG
1 GGCTTTCCTTGGGTCCATTTGATTGAATGCTTCCCTAATTCCATGGTCCATAAACTTGG
* * * *
47777001 GGCTTTCCTTGGGTCTATTTGATTGAATGTTTCCCTAATTTCATGGTCCGTAAACTT
1 GGCTTTCCTTGGGTCCATTTGATTGAATGCTTCCCTAATTCCATGGTCCATAAACTT
47777058 CTTTAACAGT
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
59 50 1.00
ACGTcount: A:0.17, C:0.21, G:0.19, T:0.43
Consensus pattern (59 bp):
GGCTTTCCTTGGGTCCATTTGATTGAATGCTTCCCTAATTCCATGGTCCATAAACTTGG
Found at i:47778058 original size:19 final size:19
Alignment explanation
Indices: 47778034--47778071 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
47778024 GCGTTCCCGT
47778034 ATGAAGAAATATAGGTAAA
1 ATGAAGAAATATAGGTAAA
*
47778053 ATGAAGAATTATAGGTAAA
1 ATGAAGAAATATAGGTAAA
47778072 CTCCTTGAAT
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:0.55, C:0.00, G:0.21, T:0.24
Consensus pattern (19 bp):
ATGAAGAAATATAGGTAAA
Found at i:47781804 original size:33 final size:33
Alignment explanation
Indices: 47781755--47781821 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
47781745 ATTGCCTATT
* *
47781755 ACCATGTGGAGACCCAAAACCATCATTTAAACC
1 ACCATGTGGAGACCCAAAACCACCATTGAAACC
* *
47781788 ACCATGTGTAGGCCCAAAACCACCATTGAAACC
1 ACCATGTGGAGACCCAAAACCACCATTGAAACC
47781821 A
1 A
47781822 TTATTAACCT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.39, C:0.31, G:0.13, T:0.16
Consensus pattern (33 bp):
ACCATGTGGAGACCCAAAACCACCATTGAAACC
Found at i:47783075 original size:19 final size:19
Alignment explanation
Indices: 47783051--47783088 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
47783041 GACTGATACC
47783051 ATGAAGAAATATAGGTAAA
1 ATGAAGAAATATAGGTAAA
*
47783070 ATGAAGAATTATAGGTAAA
1 ATGAAGAAATATAGGTAAA
47783089 CTCCTTGAAT
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:0.55, C:0.00, G:0.21, T:0.24
Consensus pattern (19 bp):
ATGAAGAAATATAGGTAAA
Found at i:47784587 original size:24 final size:25
Alignment explanation
Indices: 47784560--47784607 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
47784550 AGAGGAAAGT
47784560 TTAAAGAACATAAAA-GAAAAAAAA
1 TTAAAGAACATAAAACGAAAAAAAA
** *
47784584 TTAAATTACTTAAAACGAAAAAAA
1 TTAAAGAACATAAAACGAAAAAAA
47784608 TATGGGGATC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.69, C:0.06, G:0.06, T:0.19
Consensus pattern (25 bp):
TTAAAGAACATAAAACGAAAAAAAA
Found at i:47785113 original size:26 final size:28
Alignment explanation
Indices: 47785071--47785128 Score: 75
Period size: 26 Copynumber: 2.1 Consensus size: 28
47785061 ACTTTATATA
47785071 TTTTTAAAAAATAATGA-AGTTTA-ATT
1 TTTTTAAAAAATAATGATAGTTTAGATT
* * *
47785097 TTTTTAAAAATTTATGATATTTTAGATT
1 TTTTTAAAAAATAATGATAGTTTAGATT
47785125 TTTT
1 TTTT
47785129 ATAATTATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 15 0.56
27 5 0.19
28 7 0.26
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (28 bp):
TTTTTAAAAAATAATGATAGTTTAGATT
Found at i:47796499 original size:19 final size:18
Alignment explanation
Indices: 47796464--47796506 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
47796454 AAAAATTACT
* * *
47796464 TATAAAAAAATAAATATG
1 TATATAAAAACAAATATA
47796482 TATATAAAAACAACATATA
1 TATATAAAAACAA-ATATA
47796501 TATATA
1 TATATA
47796507 TTTAATTAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.30
Consensus pattern (18 bp):
TATATAAAAACAAATATA
Found at i:47798113 original size:44 final size:43
Alignment explanation
Indices: 47798047--47798728 Score: 304
Period size: 44 Copynumber: 15.7 Consensus size: 43
47798037 CTTGGGTCTA
* *
47798047 CTCCACTACAACTTCAGAGAGATAAGATTATCGTCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTAT-GTCTTTAATCTG
* ** * *
47798091 CTCCACTACAACTTCAGGGAGATAAGATT-TGCCATCTCCAGTTTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTATG---TCTTTAATCTG
* * *
47798136 C-CTCACTGCAACTTCA-GGAGGATAAGACT-TGTTTACTTAGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGATTATGTCT--TTAATCTG
* * * *** *
47798180 CTTCACTGCAACTTCAGGGAGATAAGACTA-G-ATGCGATATG
1 CTCCACTGCAACTTCAGGGAGATAAGATTATGTCTTTAATCTG
* * * *
47798221 CT-CTCTGCAACTTCAGAGAGATAAGATCCAAGGT-TTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGAT--TATGTCTTTAATCTG
* * *
47798264 CTCCACTGCAACTTCAAGGAAATAGGATTATCAGT-TTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTAT--GTCTTTAATCTG
* * **
47798308 CTCCACTGCAACTTCAGGGTGATAAGATT-TGCCATCTTCAGCCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTATG---TCTTTAATCTG
* * * *
47798353 C-CTCACTGCAACTTCA-GGAGGTTAAGACT-TGTTTACTTAGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGATTATGTCT--TTAATCTG
* * ***
47798397 CTCCACTGCAACTTCAGGGAGATAAGACTA-G-ATGCGATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTATGTCTTTAATCTG
* ** * * *
47798438 CT-CTCTGCAACTTCAAAGAGATAAGATCCAAGGT-TTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGAT--TATGTCTTTAATCTG
* * *
47798481 CTCCACTGTAACTTCAGGGAAATAGGATTATCAG-CTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTAT--GTCTTTAATCTG
* * * * *
47798525 CTCCACTGTAACTTCAGGGAGATAAAATT-TGCCAACTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTATG---TCTTTAATCTG
* * * *
47798570 C-CTCACTGCAACTTTA-GGAGGATAAGACT-TGTTTACTTAGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGATTATGTCT--TTAATCTG
*
47798614 CTCCACTGCAACTTCAGGGAGATAAGACTATATG-C---GATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGA-T-TATGTCTTTAATCTG
* * * * *
47798655 CT-CTCTGCAACTTCAGAGAGATAAGATCCAAGGT-TTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGAT--TATGTCTTTAATCTG
*
47798698 CTCCACTGCAACTTCAGGGAGATAGGATTAT
1 CTCCACTGCAACTTCAGGGAGATAAGATTAT
47798729 TGGCCACCGA
Statistics
Matches: 484, Mismatches: 99, Indels: 112
0.70 0.14 0.16
Matches are distributed among these distances:
39 1 0.00
40 67 0.14
41 19 0.04
42 11 0.02
43 27 0.06
44 257 0.53
45 99 0.20
46 1 0.00
47 2 0.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.29
Consensus pattern (43 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTATGTCTTTAATCTG
Found at i:47798422 original size:217 final size:217
Alignment explanation
Indices: 47798047--47798728 Score: 1125
Period size: 217 Copynumber: 3.1 Consensus size: 217
47798037 CTTGGGTCTA
* * * *
47798047 CTCCACTACAACTTC-AGAGAGATAAGATTATC-GTCTTTAATCTGCTCCACTACAACTTCAGGG
1 CTCCACTGCAACTTCAAG-GAAATAGGATTATCAGT-TTTAATCTGCTCCACTGCAACTTCAGGG
* *
47798110 AGATAAGATTTGCCATCTCCAGTTTGCCTCACTGCAACTTCAGGAGGATAAGACTTGTTTACTTA
64 AGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGTTTACTTA
* *
47798175 GTCTGCTTCACTGCAACTTCAGGGAGATAAGACTAGATGCGATATGCTCTCTGCAACTTCAGAGA
129 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGA
*
47798240 GATAAGATCCAAGGTTTTAATCTG
194 GATAAGATCCAAGGTTTTAATCCG
*
47798264 CTCCACTGCAACTTCAAGGAAATAGGATTATCAGTTTTAATCTGCTCCACTGCAACTTCAGGGTG
1 CTCCACTGCAACTTCAAGGAAATAGGATTATCAGTTTTAATCTGCTCCACTGCAACTTCAGGGAG
* *
47798329 ATAAGATTTGCCATCTTCAGCCTGCCTCACTGCAACTTCAGGAGGTTAAGACTTGTTTACTTAGT
66 ATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGTTTACTTAGT
*
47798394 CTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAAAGAGA
131 CTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGA
47798459 TAAGATCCAAGGTTTTAATCCG
196 TAAGATCCAAGGTTTTAATCCG
* * * *
47798481 CTCCACTGTAACTTCAGGGAAATAGGATTATCAGCTTTAATCTGCTCCACTGTAACTTCAGGGAG
1 CTCCACTGCAACTTCAAGGAAATAGGATTATCAGTTTTAATCTGCTCCACTGCAACTTCAGGGAG
* * *
47798546 ATAAAATTTGCCAACTTCAGTCTGCCTCACTGCAACTTTAGGAGGATAAGACTTGTTTACTTAGT
66 ATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGTTTACTTAGT
*
47798611 CTGCTCCACTGCAACTTCAGGGAGATAAGACTATATGCGATCTGCTCTCTGCAACTTCAGAGAGA
131 CTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGA
47798676 TAAGATCCAAGGTTTTAATCCG
196 TAAGATCCAAGGTTTTAATCCG
* *
47798698 CTCCACTGCAACTTCAGGGAGATAGGATTAT
1 CTCCACTGCAACTTCAAGGAAATAGGATTAT
47798729 TGGCCACCGA
Statistics
Matches: 436, Mismatches: 27, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
217 432 0.99
218 4 0.01
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.29
Consensus pattern (217 bp):
CTCCACTGCAACTTCAAGGAAATAGGATTATCAGTTTTAATCTGCTCCACTGCAACTTCAGGGAG
ATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGTTTACTTAGT
CTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGA
TAAGATCCAAGGTTTTAATCCG
Found at i:47810997 original size:23 final size:23
Alignment explanation
Indices: 47810961--47811008 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
47810951 AATTACTTAT
* *
47810961 AACAAAATAAATATGTATATAAA
1 AACAAAATAAATATATAAATAAA
* *
47810984 AACAACATATATATATAAATAAA
1 AACAAAATAAATATATAAATAAA
47811007 AA
1 AA
47811009 AATTAACTAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.67, C:0.06, G:0.02, T:0.25
Consensus pattern (23 bp):
AACAAAATAAATATATAAATAAA
Found at i:47811043 original size:24 final size:23
Alignment explanation
Indices: 47810998--47811043 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
47810988 ACATATATAT
* *
47810998 ATAAATAAAAAAATTAACTACAG
1 ATAAAAAAAAAAAATAACTACAG
*
47811021 ATAAAAAAATAAAAATAATTACA
1 ATAAAAAAA-AAAAATAACTACA
47811044 TTATGGAAGT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.70, C:0.07, G:0.02, T:0.22
Consensus pattern (23 bp):
ATAAAAAAAAAAAATAACTACAG
Found at i:47813791 original size:193 final size:193
Alignment explanation
Indices: 47813443--47813823 Score: 600
Period size: 193 Copynumber: 2.0 Consensus size: 193
47813433 TGGCATGCCA
* *
47813443 ACTATATCAGACCCTATCCAAACAACTAATAGGGAAATCAATGTTTCGATTACATTACATAACCA
1 ACTATATCAGACCCTATCCAAACAACTAATAGGGAAATCAATGTTTCGATTACATCACACAACCA
* * *
47813508 ACTTTCACATCATCATTACGAATTCACATCTATAAAACCAATACCACATTGTATAGTTCAAACCA
66 ACTTGCACATCACCATTACGAATTCACATCTATAAAACCAATACCACATTGCATAGTTCAAACCA
* * * *
47813573 TTTTCATACCACGTATTATGTATCAATTGAATCATGTTATTTTCTATTTTATTCAATTATCCC
131 TTTTCATACCACATATCAGGTATCAATTGAATCATGTTATTTTCTATTTGATTCAATTATCCC
* * * *
47813636 ACTATCTCTGACCCTATCCAAACAACTAATAGGGTAATCAATGTTTCGATTACATCATACAACCA
1 ACTATATCAGACCCTATCCAAACAACTAATAGGGAAATCAATGTTTCGATTACATCACACAACCA
* * ** *
47813701 AGTTGCATATCACCATTATTAGTTCACATCTATAAAACCAATACCACATTGCATAGTTCAAACCA
66 ACTTGCACATCACCATTACGAATTCACATCTATAAAACCAATACCACATTGCATAGTTCAAACCA
47813766 TTTTCATACCACATATCAGGTATCAATTGAATCATGTTATTTTCTATTTGATTCAATT
131 TTTTCATACCACATATCAGGTATCAATTGAATCATGTTATTTTCTATTTGATTCAATT
47813824 TAGTCCATTA
Statistics
Matches: 170, Mismatches: 18, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
193 170 1.00
ACGTcount: A:0.36, C:0.22, G:0.08, T:0.34
Consensus pattern (193 bp):
ACTATATCAGACCCTATCCAAACAACTAATAGGGAAATCAATGTTTCGATTACATCACACAACCA
ACTTGCACATCACCATTACGAATTCACATCTATAAAACCAATACCACATTGCATAGTTCAAACCA
TTTTCATACCACATATCAGGTATCAATTGAATCATGTTATTTTCTATTTGATTCAATTATCCC
Found at i:47815816 original size:2 final size:2
Alignment explanation
Indices: 47815809--47815859 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
47815799 TGTATGTATA
47815809 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
47815851 TG TG TG TG T
1 TG TG TG TG T
47815860 AATTGAATGC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:47816602 original size:21 final size:20
Alignment explanation
Indices: 47816570--47816608 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
47816560 ATCTATTTAG
47816570 GATATAGATGAA-TTCATAT
1 GATATAGATGAAGTTCATAT
47816589 GATATGAGAATGAAGTTCAT
1 GATAT-AG-ATGAAGTTCAT
47816609 GTGGTTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 5 0.29
20 2 0.12
21 5 0.29
22 5 0.29
ACGTcount: A:0.41, C:0.05, G:0.21, T:0.33
Consensus pattern (20 bp):
GATATAGATGAAGTTCATAT
Found at i:47825129 original size:31 final size:31
Alignment explanation
Indices: 47825091--47825157 Score: 98
Period size: 31 Copynumber: 2.2 Consensus size: 31
47825081 CAGTACGATG
*
47825091 AATAAATAGAAAGATTGTGGTAATACATACT
1 AATAAATAGAAAGATTGTGGAAATACATACT
* *
47825122 AATAAATAGCAAGATTGTGGAAATATATACT
1 AATAAATAGAAAGATTGTGGAAATACATACT
*
47825153 CATAA
1 AATAA
47825158 TAATAAGAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.49, C:0.07, G:0.15, T:0.28
Consensus pattern (31 bp):
AATAAATAGAAAGATTGTGGAAATACATACT
Found at i:47829971 original size:15 final size:15
Alignment explanation
Indices: 47829951--47829980 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
47829941 AAGCATCATA
47829951 TTAATTTTAATTAAT
1 TTAATTTTAATTAAT
*
47829966 TTAATTTTACTTAAT
1 TTAATTTTAATTAAT
47829981 CAAAATTAAT
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:0.03, G:0.00, T:0.60
Consensus pattern (15 bp):
TTAATTTTAATTAAT
Found at i:47831405 original size:2 final size:2
Alignment explanation
Indices: 47831398--47831431 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
47831388 ATGCAAATTC
*
47831398 AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
47831432 CTATTGCAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:47839193 original size:9 final size:9
Alignment explanation
Indices: 47839179--47839211 Score: 66
Period size: 9 Copynumber: 3.7 Consensus size: 9
47839169 TTTGCATCAT
47839179 TTTCTCTTA
1 TTTCTCTTA
47839188 TTTCTCTTA
1 TTTCTCTTA
47839197 TTTCTCTTA
1 TTTCTCTTA
47839206 TTTCTC
1 TTTCTC
47839212 GATAGCAAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.09, C:0.24, G:0.00, T:0.67
Consensus pattern (9 bp):
TTTCTCTTA
Found at i:47842801 original size:24 final size:23
Alignment explanation
Indices: 47842757--47842801 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
47842747 ACAGAAAAGA
* *
47842757 AGAAAAATAAAAGAAGGAAGAAC
1 AGAAAAAAAAAAGAACGAAGAAC
*
47842780 AGAAAAAAAACAAGAACTAAGA
1 AGAAAAAAAA-AAGAACGAAGA
47842802 TTTTCGAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 9 0.50
24 9 0.50
ACGTcount: A:0.71, C:0.07, G:0.18, T:0.04
Consensus pattern (23 bp):
AGAAAAAAAAAAGAACGAAGAAC
Found at i:47854441 original size:20 final size:20
Alignment explanation
Indices: 47854411--47854452 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
47854401 AAATTTTGAA
*
47854411 AATTTGTTGATTATG-AACT
1 AATTTGTTGATGATGAAACT
47854430 AATTTGGTTGATGATGAAACT
1 AATTT-GTTGATGATGAAACT
47854451 AA
1 AA
47854453 CCTTAATGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 5 0.25
20 9 0.45
21 6 0.30
ACGTcount: A:0.36, C:0.05, G:0.19, T:0.40
Consensus pattern (20 bp):
AATTTGTTGATGATGAAACT
Found at i:47856961 original size:10 final size:10
Alignment explanation
Indices: 47856932--47856966 Score: 52
Period size: 10 Copynumber: 3.3 Consensus size: 10
47856922 AATCTTTCTA
47856932 TTTTTTTATCT
1 TTTTTTTAT-T
47856943 TTATTTTTATT
1 TT-TTTTTATT
47856954 TTTTTTTATT
1 TTTTTTTATT
47856964 TTT
1 TTT
47856967 ATAAACGGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 11 0.48
11 5 0.22
12 7 0.30
ACGTcount: A:0.11, C:0.03, G:0.00, T:0.86
Consensus pattern (10 bp):
TTTTTTTATT
Found at i:47860907 original size:23 final size:23
Alignment explanation
Indices: 47860877--47860927 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
47860867 AGGGGATTGC
*
47860877 ATCAGTTATACCAAGATGCTCAT
1 ATCAGTTATACCAAAATGCTCAT
47860900 ATCAGTTATACCAAAATGCTCAT
1 ATCAGTTATACCAAAATGCTCAT
47860923 ATCAG
1 ATCAG
47860928 ACCATGTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.29
Consensus pattern (23 bp):
ATCAGTTATACCAAAATGCTCAT
Found at i:47861046 original size:12 final size:11
Alignment explanation
Indices: 47861020--47861090 Score: 56
Period size: 11 Copynumber: 6.4 Consensus size: 11
47861010 CGGTATAGTG
47861020 AAAAAAAC-AA
1 AAAAAAACAAA
47861030 AAAAAAACAAA
1 AAAAAAACAAA
*
47861041 ACAAAAAGCAAA
1 A-AAAAAACAAA
* *
47861053 ATAAAAATAAGA
1 AAAAAAACAA-A
*
47861065 AAATAAAA-AAT
1 AAA-AAAACAAA
*
47861076 GAAAAAACAAA
1 AAAAAAACAAA
47861087 AAAA
1 AAAA
47861091 CCTCTACTAG
Statistics
Matches: 47, Mismatches: 9, Indels: 9
0.72 0.14 0.14
Matches are distributed among these distances:
10 12 0.26
11 16 0.34
12 15 0.32
13 4 0.09
ACGTcount: A:0.83, C:0.07, G:0.04, T:0.06
Consensus pattern (11 bp):
AAAAAAACAAA
Found at i:47862636 original size:87 final size:86
Alignment explanation
Indices: 47862514--47862674 Score: 193
Period size: 87 Copynumber: 1.8 Consensus size: 86
47862504 GATTACAGAT
* * *
47862514 CTTATCTCCCTAAGCAGTAGTGGGGCAGATCGAAGA-TG-ACGAATCTTATCTTCCTAAG-GTAG
1 CTTATCTCCCTAAGCAGCAGTGGAGCAGATCGAAGATTGTA-G-ATCTTATCTCCCTAAGAGTAG
47862576 TAGGAAGCAGATTTAAGCCACCAGC
64 T-GG-AGCAGATTTAAGCCACCAGC
* * * *
47862601 CTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGT
1 CTTATCTCCCTAAGCAGCAGTGGAGCAGATCGAAGATTGTAGATCTTATCTCCCTAAG-AGTAGT
47862666 GGAGCAGAT
65 GGAGCAGAT
47862675 CAAAGACGGT
Statistics
Matches: 63, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
87 52 0.83
88 5 0.08
89 6 0.10
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.26
Consensus pattern (86 bp):
CTTATCTCCCTAAGCAGCAGTGGAGCAGATCGAAGATTGTAGATCTTATCTCCCTAAGAGTAGTG
GAGCAGATTTAAGCCACCAGC
Found at i:47862700 original size:131 final size:131
Alignment explanation
Indices: 47862455--47862806 Score: 562
Period size: 131 Copynumber: 2.7 Consensus size: 131
47862445 CAGTGGGATG
* * * * **
47862455 GATTGAAGCCA-CAGCCTTATCTCCCTGAGCAGCAATGGAGTAGGCTAAAGATTACAGATCTTAT
1 GATTTAAGCCACCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTAT
* * *
47862519 CTCCCTAAGCAGTAGTGGGGCAGATCGAAGATGACGAATCTTATCTTCCTAAGGTAGTAGGAAGC
66 CTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACGAATCTTATCTTCCTAAGGTAGTAGGAAGC
47862584 A
131 A
47862585 GATTTAAGCCACCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTAT
1 GATTTAAGCCACCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTAT
** *
47862650 CTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGTGAATTTTATCTTCCTAAGGTAGTAGGAAGC
66 CTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACGAATCTTATCTTCCTAAGGTAGTAGGAAGC
47862715 A
131 A
* *
47862716 GATTTAAGCCACCAGCCTTATCTCCCTAAGCAGCAGTGGAATAGGTTGAAGATTGTAGATCTTAT
1 GATTTAAGCCACCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTAT
*
47862781 CTCCCTAAGCAATAGTGGAGCAGATC
66 CTCCCTAAGCAGTAGTGGAGCAGATC
47862807 GCATTAAGTC
Statistics
Matches: 206, Mismatches: 15, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
130 10 0.05
131 196 0.95
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (131 bp):
GATTTAAGCCACCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTAT
CTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACGAATCTTATCTTCCTAAGGTAGTAGGAAGC
A
Found at i:47862872 original size:43 final size:43
Alignment explanation
Indices: 47862818--47863205 Score: 189
Period size: 42 Copynumber: 9.1 Consensus size: 43
47862808 CATTAAGTCT
* * *
47862818 TATCTCTCTAAGCAGTAGTAGAGCAGATAGAAGAAACCAATCC
1 TATCTCCCTAAGCAGTAGTAGAGCAGACAAAAGAAACCAATCC
*
47862861 TATCTCCCTAAGCAGTAGTGGAGCAGACAAAAGAAACCAATCC
1 TATCTCCCTAAGCAGTAGTAGAGCAGACAAAAGAAACCAATCC
** * * ** * *
47862904 TATCTCTATAA--AGTTACAGTGGAGCGGA-TTAA-AACCACAGATCT
1 TATCTCCCTAAGCAG-T--AGTAGAGCAGACAAAAGAAAC-CA-ATCC
* ** * * * *
47862948 TATCTCTCTAAAGTTGCAGTAGAGCAGATC----G-CATCAAGTCT
1 TATCTCCCT-AAGCAGTAGTAGAGCAGA-CAAAAGAAACCAA-TCC
* * ** *
47862989 TATCTCCCTAAGCAGTAGTGGATCAGACAAAA-CCA-CAGATCT
1 TATCTCCCTAAGCAGTAGTAGAGCAGACAAAAGAAACCA-ATCC
* * ** *
47863031 TATCTCCCTAAGCAGTAGTGGATCAGACAAAA-CCA-CAGATCT
1 TATCTCCCTAAGCAGTAGTAGAGCAGACAAAAGAAACCA-ATCC
* * ** *
47863073 TATCTCCCTAAGCAGTAGTGGATCAGACAAAA-CCA-CAGATCT
1 TATCTCCCTAAGCAGTAGTAGAGCAGACAAAAGAAACCA-ATCC
* * ** *
47863115 TATCTCCCTAAGCAGTAGTGGATCAGACAAAA-CCA-CAGATCT
1 TATCTCCCTAAGCAGTAGTAGAGCAGACAAAAGAAACCA-ATCC
*
47863157 TATCTCCCTAAGCAGTAGTGGAGCAGACAAAAGAAACCAATCC
1 TATCTCCCTAAGCAGTAGTAGAGCAGACAAAAGAAACCAATCC
47863200 TATCTC
1 TATCTC
47863206 TATAAAGTTA
Statistics
Matches: 296, Mismatches: 29, Indels: 40
0.81 0.08 0.11
Matches are distributed among these distances:
39 1 0.00
40 14 0.05
41 15 0.05
42 166 0.56
43 65 0.22
44 32 0.11
45 2 0.01
47 1 0.00
ACGTcount: A:0.36, C:0.24, G:0.18, T:0.22
Consensus pattern (43 bp):
TATCTCCCTAAGCAGTAGTAGAGCAGACAAAAGAAACCAATCC
Found at i:47863010 original size:84 final size:85
Alignment explanation
Indices: 47862934--47863188 Score: 349
Period size: 84 Copynumber: 3.0 Consensus size: 85
47862924 GGAGCGGATT
* ** ** *
47862934 AAAACCACAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATC-GCATCA-AG-TCTTATCTCC
1 AAAACCACAGATCTTATCTCCCTAAAGCAGCAGTAGAGCAGA-CAAAACCACAGATCTTATCTCC
47862996 CTAAGCAGTAGTGGATCAGAC
65 CTAAGCAGTAGTGGATCAGAC
* * *
47863017 AAAACCACAGATCTTATCTCCCT-AAGCAGTAGTGGATCAGACAAAACCACAGATCTTATCTCCC
1 AAAACCACAGATCTTATCTCCCTAAAGCAGCAGTAGAGCAGACAAAACCACAGATCTTATCTCCC
47863081 TAAGCAGTAGTGGATCAGAC
66 TAAGCAGTAGTGGATCAGAC
* * *
47863101 AAAACCACAGATCTTATCTCCCT-AAGCAGTAGTGGATCAGACAAAACCACAGATCTTATCTCCC
1 AAAACCACAGATCTTATCTCCCTAAAGCAGCAGTAGAGCAGACAAAACCACAGATCTTATCTCCC
*
47863165 TAAGCAGTAGTGGAGCAGAC
66 TAAGCAGTAGTGGATCAGAC
47863185 AAAA
1 AAAA
47863189 GAAACCAATC
Statistics
Matches: 159, Mismatches: 10, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
81 1 0.01
82 16 0.10
83 24 0.15
84 118 0.74
ACGTcount: A:0.36, C:0.25, G:0.17, T:0.22
Consensus pattern (85 bp):
AAAACCACAGATCTTATCTCCCTAAAGCAGCAGTAGAGCAGACAAAACCACAGATCTTATCTCCC
TAAGCAGTAGTGGATCAGAC
Found at i:47863045 original size:42 final size:42
Alignment explanation
Indices: 47862986--47863188 Score: 397
Period size: 42 Copynumber: 4.8 Consensus size: 42
47862976 TCGCATCAAG
47862986 TCTTATCTCCCTAAGCAGTAGTGGATCAGACAAAACCACAGA
1 TCTTATCTCCCTAAGCAGTAGTGGATCAGACAAAACCACAGA
47863028 TCTTATCTCCCTAAGCAGTAGTGGATCAGACAAAACCACAGA
1 TCTTATCTCCCTAAGCAGTAGTGGATCAGACAAAACCACAGA
47863070 TCTTATCTCCCTAAGCAGTAGTGGATCAGACAAAACCACAGA
1 TCTTATCTCCCTAAGCAGTAGTGGATCAGACAAAACCACAGA
47863112 TCTTATCTCCCTAAGCAGTAGTGGATCAGACAAAACCACAGA
1 TCTTATCTCCCTAAGCAGTAGTGGATCAGACAAAACCACAGA
*
47863154 TCTTATCTCCCTAAGCAGTAGTGGAGCAGACAAAA
1 TCTTATCTCCCTAAGCAGTAGTGGATCAGACAAAA
47863189 GAAACCAATC
Statistics
Matches: 160, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
42 160 1.00
ACGTcount: A:0.35, C:0.26, G:0.17, T:0.22
Consensus pattern (42 bp):
TCTTATCTCCCTAAGCAGTAGTGGATCAGACAAAACCACAGA
Found at i:47868256 original size:66 final size:66
Alignment explanation
Indices: 47868150--47868278 Score: 215
Period size: 66 Copynumber: 2.0 Consensus size: 66
47868140 TTGCACATGA
* *
47868150 TGCATTTGGGGATTTTCAGAATGCTTCAAAACCGAGCACAACT-GCATTTCCTTCTAGCGGTTTC
1 TGCATTTGGGGATTTTCAGAATGCTTCAAAACCAAGCACAA-TGGCATTTCCTTCTAGCAGTTTC
47868214 AG
65 AG
*
47868216 TGCATTTGGGGATTTTCAGAATGCTTCAAAACCAAGCACAATGGCGTTTCCTTCTAGCAGTTT
1 TGCATTTGGGGATTTTCAGAATGCTTCAAAACCAAGCACAATGGCATTTCCTTCTAGCAGTTT
47868279 TGGTTCAACT
Statistics
Matches: 59, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
65 1 0.02
66 58 0.98
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.33
Consensus pattern (66 bp):
TGCATTTGGGGATTTTCAGAATGCTTCAAAACCAAGCACAATGGCATTTCCTTCTAGCAGTTTCA
G
Found at i:47869888 original size:18 final size:19
Alignment explanation
Indices: 47869856--47869892 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
47869846 TTTGAAAATC
*
47869856 TTTAAAATTTATAAAATTT
1 TTTAAAATGTATAAAATTT
47869875 TTTAAAATGT-TAAAATTT
1 TTTAAAATGTATAAAATTT
47869893 ATATGTTGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (19 bp):
TTTAAAATGTATAAAATTT
Found at i:47870259 original size:11 final size:11
Alignment explanation
Indices: 47870242--47870276 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
47870232 TTATTCTTTT
47870242 TAATTTTTTAA
1 TAATTTTTTAA
*
47870253 T-ATTTTTTTA
1 TAATTTTTTAA
47870263 TAATTTTTTAA
1 TAATTTTTTAA
47870274 TAA
1 TAA
47870277 ATATTTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (11 bp):
TAATTTTTTAA
Found at i:47870268 original size:21 final size:20
Alignment explanation
Indices: 47870233--47870275 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 20
47870223 CTACTTTTCT
47870233 TATTCTTTTTAATTTTTTAA
1 TATTCTTTTTAATTTTTTAA
*
47870253 TATTTTTTTATAATTTTTTAA
1 TATTCTTTT-TAATTTTTTAA
47870274 TA
1 TA
47870276 AATATTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (20 bp):
TATTCTTTTTAATTTTTTAA
Found at i:47870283 original size:21 final size:21
Alignment explanation
Indices: 47870242--47870283 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
47870232 TTATTCTTTT
** *
47870242 TAATTTTTTAATATTTTTTTA
1 TAATTTTTTAATAAATATTTA
47870263 TAATTTTTTAATAAATATTTA
1 TAATTTTTTAATAAATATTTA
47870284 AAATATTCAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (21 bp):
TAATTTTTTAATAAATATTTA
Found at i:47874047 original size:43 final size:43
Alignment explanation
Indices: 47873986--47874069 Score: 141
Period size: 43 Copynumber: 2.0 Consensus size: 43
47873976 TCTCCTCCAT
* *
47873986 GATCAGTTCGTAAACATTTGATAACCGAATTTGATTTTTTCAC
1 GATCAGTTCGCAAACATTTGATAACCGAATTTGATTCTTTCAC
*
47874029 GATCAGTTTGCAAACATTTGATAACCGAATTTGATTCTTTC
1 GATCAGTTCGCAAACATTTGATAACCGAATTTGATTCTTTC
47874070 TCAACATGAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.39
Consensus pattern (43 bp):
GATCAGTTCGCAAACATTTGATAACCGAATTTGATTCTTTCAC
Found at i:47874833 original size:27 final size:27
Alignment explanation
Indices: 47874793--47874847 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
47874783 CATGTGATTG
*
47874793 TTGCATCTCGAATCAAGGAACCATGTA
1 TTGCATCTCAAATCAAGGAACCATGTA
47874820 TTGCATCTCAAATCAAGGAACCATGTA
1 TTGCATCTCAAATCAAGGAACCATGTA
47874847 T
1 T
47874848 CCTATTTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.27
Consensus pattern (27 bp):
TTGCATCTCAAATCAAGGAACCATGTA
Found at i:47878157 original size:66 final size:66
Alignment explanation
Indices: 47878051--47878185 Score: 191
Period size: 66 Copynumber: 2.0 Consensus size: 66
47878041 TATTCTAAAA
* * * *
47878051 TTGTAGCTGGAGTTCGTCATATTTTCTTGTTGCATCTGCTTCCCTCGTTGCTTCCTCCGCTTTAA
1 TTGTAGCTGGAGTTCATCATATTTTCTTGTAGCATCTGCTTCCCTCGATGCTGCCTCCGCTTTAA
47878116 G
66 G
* * *
47878117 TTGTAGCTGGAGTTCATCATATTTTCTT-TGAGCCTCTGCTTCTCTTGATGCTGCCTCCGCTTTA
1 TTGTAGCTGGAGTTCATCATATTTTCTTGT-AGCATCTGCTTCCCTCGATGCTGCCTCCGCTTTA
47878181 AG
65 AG
47878183 TTG
1 TTG
47878186 AGCAATTTGC
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
65 1 0.02
66 60 0.98
ACGTcount: A:0.12, C:0.24, G:0.20, T:0.44
Consensus pattern (66 bp):
TTGTAGCTGGAGTTCATCATATTTTCTTGTAGCATCTGCTTCCCTCGATGCTGCCTCCGCTTTAA
G
Found at i:47884759 original size:20 final size:21
Alignment explanation
Indices: 47884718--47884760 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
47884708 TAGTACAAAA
* *
47884718 TTTTTATATTTTAAACTTATT
1 TTTTTATATCTTAAACTCATT
47884739 TTTTTATATCTTAAA-TCATT
1 TTTTTATATCTTAAACTCATT
47884759 TT
1 TT
47884761 AAAAACTACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (21 bp):
TTTTTATATCTTAAACTCATT
Found at i:47885686 original size:19 final size:19
Alignment explanation
Indices: 47885643--47885692 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 19
47885633 GCAGATGGTC
*
47885643 GGGGAAAATCTAAGGGATTT
1 GGGGAAAAT-TTAGGGATTT
47885663 GGGGAAATATTTAGGGATTT
1 GGGGAAA-ATTTAGGGATTT
47885683 -GGGAAAATTT
1 GGGGAAAATTT
47885693 TTAGGAGAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 4 0.14
19 6 0.21
20 16 0.57
21 2 0.07
ACGTcount: A:0.34, C:0.02, G:0.34, T:0.30
Consensus pattern (19 bp):
GGGGAAAATTTAGGGATTT
Found at i:47885695 original size:20 final size:20
Alignment explanation
Indices: 47885655--47885697 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
47885645 GGAAAATCTA
*
47885655 AGGGATTTGGGGAAATATTT
1 AGGGATTTGGGAAAATATTT
*
47885675 AGGGATTTGGGAAAATTTTT
1 AGGGATTTGGGAAAATATTT
47885695 AGG
1 AGG
47885698 AGAAAAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.35, T:0.35
Consensus pattern (20 bp):
AGGGATTTGGGAAAATATTT
Found at i:47885841 original size:40 final size:40
Alignment explanation
Indices: 47885786--47885875 Score: 110
Period size: 41 Copynumber: 2.2 Consensus size: 40
47885776 AAAATGATAC
* *
47885786 TTTGCGGCACTTTTCTTAT-AACGCCGCTAATGCTTGACCT
1 TTTGCGGCACCTTTCTCATAAACGCCGCTAATGCTTGA-CT
* * *
47885826 TTTGCGGCGCCTTTCTCATAAACGCCGCTACTGCTTTACT
1 TTTGCGGCACCTTTCTCATAAACGCCGCTAATGCTTGACT
47885866 TATTGCGGCA
1 T-TTGCGGCA
47885876 TTTTTCCGTT
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
40 19 0.45
41 23 0.55
ACGTcount: A:0.17, C:0.29, G:0.19, T:0.36
Consensus pattern (40 bp):
TTTGCGGCACCTTTCTCATAAACGCCGCTAATGCTTGACT
Found at i:47886101 original size:12 final size:12
Alignment explanation
Indices: 47886080--47886120 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
47886070 CTTTAGAAGT
* *
47886080 GCCGCTAAAAGC
1 GCCGCGAAAAAC
47886092 GCCGCGAAAAAC
1 GCCGCGAAAAAC
47886104 GCCGCGAAAAAC
1 GCCGCGAAAAAC
47886116 GCCGC
1 GCCGC
47886121 TAATGACAGC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.34, C:0.37, G:0.27, T:0.02
Consensus pattern (12 bp):
GCCGCGAAAAAC
Found at i:47886393 original size:129 final size:128
Alignment explanation
Indices: 47886158--47886401 Score: 393
Period size: 129 Copynumber: 1.9 Consensus size: 128
47886148 CGTTTTTTAA
* *
47886158 AAACGCCGCTATAGACCATGACCTTTAGCGGCGCTTTTCCACAAACGCCGCTATAGATCAAGACC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCAACAAACGCCGCTATAGATCAAGACC
47886223 TATAGCGGCGCTTTTCCTACAAACGCCGCTATAGATCAAGACCTTTAGCGGCTCTTTTCCAAC
66 TATAGCGGCGCTTTTCCTACAAACGCCGCTATAGATCAAGACCTTTAGCGGCTCTTTTCCAAC
*
47886286 AAACGCCGCTAAAGACCATGATCTTTAGCGGCGCTTTTCTAACAAACGCCGCTATAGATCAAGAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTC-AACAAACGCCGCTATAGATCAAGAC
* * *
47886351 CTTTAGCGGCG-TTTTTCTCACAAACGCTGCTATAGA-CGAAGACCTTTAGCG
65 CTATAGCGGCGCTTTTCCT-ACAAACGCCGCTATAGATC-AAGACCTTTAGCG
47886402 ACGCTTTAAT
Statistics
Matches: 107, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
128 44 0.41
129 63 0.59
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (128 bp):
AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCAACAAACGCCGCTATAGATCAAGACC
TATAGCGGCGCTTTTCCTACAAACGCCGCTATAGATCAAGACCTTTAGCGGCTCTTTTCCAAC
Found at i:47886418 original size:43 final size:43
Alignment explanation
Indices: 47886139--47886408 Score: 352
Period size: 43 Copynumber: 6.3 Consensus size: 43
47886129 GCGTCGTTAA
* * *
47886139 CTTTAGCGGCG-TTTTTTAA-AAACGCCGCTATAGACCATGAC
1 CTTTAGCGGCGCTTTTCTAACAAACGCCGCTATAGATCAAGAC
*
47886180 CTTTAGCGGCGCTTTTC-CACAAACGCCGCTATAGATCAAGAC
1 CTTTAGCGGCGCTTTTCTAACAAACGCCGCTATAGATCAAGAC
*
47886222 CTATAGCGGCGCTTTTCCT-ACAAACGCCGCTATAGATCAAGAC
1 CTTTAGCGGCGCTTTT-CTAACAAACGCCGCTATAGATCAAGAC
* * * * * *
47886265 CTTTAGCGGCTCTTTTCCAACAAACGCCGCTAAAGACCATGAT
1 CTTTAGCGGCGCTTTTCTAACAAACGCCGCTATAGATCAAGAC
47886308 CTTTAGCGGCGCTTTTCTAACAAACGCCGCTATAGATCAAGAC
1 CTTTAGCGGCGCTTTTCTAACAAACGCCGCTATAGATCAAGAC
* * *
47886351 CTTTAGCGGCGTTTTTCTCACAAACGCTGCTATAGA-CGAAGAC
1 CTTTAGCGGCGCTTTTCTAACAAACGCCGCTATAGATC-AAGAC
*
47886394 CTTTAGCGACGCTTT
1 CTTTAGCGGCGCTTT
47886409 AATTACAAAC
Statistics
Matches: 200, Mismatches: 23, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
41 12 0.06
42 41 0.20
43 147 0.74
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTCTAACAAACGCCGCTATAGATCAAGAC
Found at i:47888141 original size:158 final size:158
Alignment explanation
Indices: 47887853--47888168 Score: 623
Period size: 158 Copynumber: 2.0 Consensus size: 158
47887843 AGAGCGGCAC
47887853 ACTTTTCAAGCTTGAGCAACCACAAGATTCCAGCAGTTAACCTACCAATTGAATCAACTTCGGAT
1 ACTTTTCAAGCTTGAGCAACCACAAGATTCCAGCAGTTAACCTACCAATTGAATCAACTTCGGAT
47887918 TTGCATAAGAAAGCAAGGTGTTGAAGTTCGTCCTTGGTTAAAACAGCCTCAATCTATAGAAGTGA
66 TTGCATAAGAAAGCAAGGTGTTGAAGTTCGTCCTTGGTTAAAACAGCCTCAATCTATAGAAGTGA
47887983 ATGAAACCTTTATTTAAGAGTGTGATTG
131 ATGAAACCTTTATTTAAGAGTGTGATTG
*
47888011 ACTTTTCAAGCTTGAGCAACCGCAAGATTCCAGCAGTTAACCTACCAATTGAATCAACTTCGGAT
1 ACTTTTCAAGCTTGAGCAACCACAAGATTCCAGCAGTTAACCTACCAATTGAATCAACTTCGGAT
47888076 TTGCATAAGAAAGCAAGGTGTTGAAGTTCGTCCTTGGTTAAAACAGCCTCAATCTATAGAAGTGA
66 TTGCATAAGAAAGCAAGGTGTTGAAGTTCGTCCTTGGTTAAAACAGCCTCAATCTATAGAAGTGA
47888141 ATGAAACCTTTATTTAAGAGTGTGATTG
131 ATGAAACCTTTATTTAAGAGTGTGATTG
47888169 GAGATTACTA
Statistics
Matches: 157, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
158 157 1.00
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.29
Consensus pattern (158 bp):
ACTTTTCAAGCTTGAGCAACCACAAGATTCCAGCAGTTAACCTACCAATTGAATCAACTTCGGAT
TTGCATAAGAAAGCAAGGTGTTGAAGTTCGTCCTTGGTTAAAACAGCCTCAATCTATAGAAGTGA
ATGAAACCTTTATTTAAGAGTGTGATTG
Found at i:47891031 original size:22 final size:21
Alignment explanation
Indices: 47891006--47891057 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
47890996 TCACTATCCT
**
47891006 TTAAACCCTAAGTCACAACCCC
1 TTAAACCCTAAACCACAA-CCC
* *
47891028 TTAAACCTTAAACCCCAACCC
1 TTAAACCCTAAACCACAACCC
47891049 TTAAACCCT
1 TTAAACCCT
47891058 TAAAACCTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 11 0.44
22 14 0.56
ACGTcount: A:0.37, C:0.40, G:0.02, T:0.21
Consensus pattern (21 bp):
TTAAACCCTAAACCACAACCC
Found at i:47891820 original size:41 final size:41
Alignment explanation
Indices: 47891531--47891811 Score: 323
Period size: 41 Copynumber: 6.9 Consensus size: 41
47891521 AATACATTTT
* * * * *
47891531 GCGGCGCTTTTCGAAAAATGCCGCAAAAGATCAGAGCATTA
1 GCGGCGCTTTCCCAAAAACGCCGCTAAAGACCAGAGCATTA
* * * *
47891572 GTGGCGTTTTCCCAAAAACGCCGCTAAAAACCAAAGCATTA
1 GCGGCGCTTTCCCAAAAACGCCGCTAAAGACCAGAGCATTA
* * *
47891613 GCGACGCTTTCCCAAAAGCGCCGCTATAGACCAGAGCATTA
1 GCGGCGCTTTCCCAAAAACGCCGCTAAAGACCAGAGCATTA
* * *
47891654 GCGGCGC-TTCATCAAAAACGCCGTTATAGACCAGAGCATTA
1 GCGGCGCTTTC-CCAAAAACGCCGCTAAAGACCAGAGCATTA
* *
47891695 GCGGCGC-TTCACCAAAAACGCCACTAAAGGCCAGAGCATTA
1 GCGGCGCTTTC-CCAAAAACGCCGCTAAAGACCAGAGCATTA
* * * *
47891736 GCGGCGCTTCCCCAAAAATGCCGCTAAAGGCCAGACCATTA
1 GCGGCGCTTTCCCAAAAACGCCGCTAAAGACCAGAGCATTA
* *
47891777 GCGACGCTTTCCCAAAAACGCCGCTAAAGGCCAGA
1 GCGGCGCTTTCCCAAAAACGCCGCTAAAGACCAGA
47891812 ATTTTAGCGG
Statistics
Matches: 206, Mismatches: 32, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
40 3 0.01
41 201 0.98
42 2 0.01
ACGTcount: A:0.32, C:0.30, G:0.22, T:0.16
Consensus pattern (41 bp):
GCGGCGCTTTCCCAAAAACGCCGCTAAAGACCAGAGCATTA
Found at i:47891950 original size:39 final size:40
Alignment explanation
Indices: 47891883--47891973 Score: 105
Period size: 39 Copynumber: 2.3 Consensus size: 40
47891873 TTGGGCTTGG
* * * * *
47891883 TTTTTTGCGGCGCTTTTCGAAAAACGCCGCTAATTC-TCA
1 TTTTTAGCGGCGCATTTCCAAAAACGCCGCTAATACTTAA
47891922 TTTTTAGCGGCG-ATTTCCAAAAAGCGCCGCTAATACTTAA
1 TTTTTAGCGGCGCATTTCCAAAAA-CGCCGCTAATACTTAA
*
47891962 TCTTTAGCGGCG
1 TTTTTAGCGGCG
47891974 TTTTTTATAC
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
38 9 0.20
39 22 0.50
40 13 0.30
ACGTcount: A:0.23, C:0.24, G:0.20, T:0.33
Consensus pattern (40 bp):
TTTTTAGCGGCGCATTTCCAAAAACGCCGCTAATACTTAA
Found at i:47891973 original size:40 final size:38
Alignment explanation
Indices: 47891897--47891973 Score: 100
Period size: 40 Copynumber: 2.0 Consensus size: 38
47891887 TTGCGGCGCT
* * * *
47891897 TTTCGAAAAACGCCGCTAATTCTCATTTTTAGCGGCGA
1 TTTCCAAAAACGCCGCTAATACTAATCTTTAGCGGCGA
47891935 TTTCCAAAAAGCGCCGCTAATACTTAATCTTTAGCGGCG
1 TTTCCAAAAA-CGCCGCTAATAC-TAATCTTTAGCGGCG
47891974 TTTTTTATAC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
38 9 0.27
39 11 0.33
40 13 0.39
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (38 bp):
TTTCCAAAAACGCCGCTAATACTAATCTTTAGCGGCGA
Found at i:47896357 original size:2 final size:2
Alignment explanation
Indices: 47896350--47896375 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
47896340 GATTTTAATT
47896350 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
47896376 GTAAAACAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:47896966 original size:6 final size:7
Alignment explanation
Indices: 47896948--47896974 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
47896938 AGTTTGGGTG
47896948 CTTTTTT
1 CTTTTTT
47896955 CTTTTTT
1 CTTTTTT
47896962 CTTTTTT
1 CTTTTTT
47896969 CTTTTT
1 CTTTTT
47896975 GCGGAAAGCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (7 bp):
CTTTTTT
Found at i:47898449 original size:22 final size:23
Alignment explanation
Indices: 47898421--47898465 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
47898411 ATGCAATCTT
47898421 AGATATGA-TATGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
*
47898443 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
47898466 GATTTAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.38, C:0.04, G:0.18, T:0.40
Consensus pattern (23 bp):
AGATATGATTATGTAATCTTAGA
Found at i:47898475 original size:22 final size:23
Alignment explanation
Indices: 47898431--47898475 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
47898421 AGATATGATA
*
47898431 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
47898454 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
47898476 GTAGATACCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:47898913 original size:3 final size:3
Alignment explanation
Indices: 47898905--47898947 Score: 61
Period size: 3 Copynumber: 14.3 Consensus size: 3
47898895 ATTAATTTTG
*
47898905 TTA TTA TTA TTT TTA TTA TTA -TA TTA TATA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA T
47898948 ACCTACATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 31 0.86
4 3 0.08
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:47898913 original size:15 final size:15
Alignment explanation
Indices: 47898889--47898946 Score: 55
Period size: 15 Copynumber: 3.7 Consensus size: 15
47898879 GTTTTTAGTC
47898889 TATT-TTATTAATTT
1 TATTATTATTAATTT
* *
47898903 TGTTATTATTATTTT
1 TATTATTATTAATTT
*
47898918 TATTATTATATTATATAT
1 TATTA-T-TATTA-ATTT
47898936 TATTATTATTA
1 TATTATTATTA
47898947 TACCTACATA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
14 3 0.09
15 13 0.37
16 6 0.17
17 6 0.17
18 7 0.20
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (15 bp):
TATTATTATTAATTT
Found at i:47905545 original size:88 final size:88
Alignment explanation
Indices: 47905046--47905534 Score: 656
Period size: 88 Copynumber: 5.6 Consensus size: 88
47905036 GTGAAGATAA
* * * ** * *
47905046 CAGATCTTGTCTTCCTGTACTGGTAGCGAAGCAGATCAAAGACACCAGTCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
* * *
47905111 GCAGCGGAGTAGGTTAAAAA-AG
66 ACAGCGGAGCAGGCTAAAAATAG
* * * * *
47905133 TAGATCTTGCCTTCCTGCATCGACAGCGAAGTAGATCGAAGTCACTAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
*
47905198 TCAGCGGAGCAGGCTAAAAATAG
66 ACAGCGGAGCAGGCTAAAAATAG
*
47905221 CAGATCTTGCCTTCCTGCACCGACAGCGAAGTAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
* *
47905286 GCAGCAGAGCAGGCTAAAAATAG
66 ACAGCGGAGCAGGCTAAAAATAG
* * * * *
47905309 CAGATCTTACATTCCTGCACCGACAACGAAGCAGATCAAAGTCACCAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
*
47905374 ACAGTGGAGCAGGCTAAAAATAG
66 ACAGCGGAGCAGGCTAAAAATAG
* *
47905397 CAGATCTTGCCTTCCTACACCGACAGCGAAGCAGATCGAAGACAACAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
* * *
47905462 ACAGTGGAGTAGGTTAAAAATAG
66 ACAGCGGAGCAGGCTAAAAATAG
* * * * *
47905485 TAGATATTGTCTTCCTGCACCGACAGCGAAGCAGATCGATGACCCCAGCC
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCC
47905535 CTATCTCCCT
Statistics
Matches: 355, Mismatches: 46, Indels: 1
0.88 0.11 0.00
Matches are distributed among these distances:
87 70 0.20
88 285 0.80
ACGTcount: A:0.28, C:0.27, G:0.24, T:0.21
Consensus pattern (88 bp):
CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
ACAGCGGAGCAGGCTAAAAATAG
Found at i:47905597 original size:44 final size:44
Alignment explanation
Indices: 47905534--47905953 Score: 496
Period size: 44 Copynumber: 9.7 Consensus size: 44
47905524 TGACCCCAGC
*
47905534 CCTATCTCCCTGTTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
47905578 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
* *
47905622 CATATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
* * * * **
47905666 CCTATCTCCCTAGTCAGCAGTAGAATAGGTTGAAGGTTAAGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
* * *
47905710 TCTATCTCCCTGGGCAGCAGTGGAATAGATT-AA-A----GAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
*
47905748 CCTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
* * * * **
47905792 CCTATCTCCCTAGTCAGCAGTAGAATAGGTTGAAGGTTAAGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
* * * * *
47905836 TCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTGT-AGGT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGA-AT
* * * *
47905880 CCTATCTCCCTGATCAGCAGTGGAATAGGTTGAAGATCGTGAAC
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
* *
47905924 CCTATCTCCCTGAG-CAACAGTGGAGTAGGT
1 CCTATCTCCCTG-GTCAGCAGTGGAATAGGT
47905954 GGAAAATAGC
Statistics
Matches: 321, Mismatches: 46, Indels: 18
0.83 0.12 0.05
Matches are distributed among these distances:
38 32 0.10
39 2 0.01
40 1 0.00
43 3 0.01
44 282 0.88
45 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.28
Consensus pattern (44 bp):
CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
Found at i:47905801 original size:170 final size:170
Alignment explanation
Indices: 47905574--47905907 Score: 472
Period size: 170 Copynumber: 2.0 Consensus size: 170
47905564 TAAAGATTGT
* *
47905574 GAATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAATCATATCTCCCTGGACAG
1 GAATCCTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAATCATATCTCCCTAGACAG
* ** * * *
47905639 CAGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTAGTCAGCAGTAGAATAGGTTGAAGGTT
66 CAGTAGAATAGGTTAAAGATTAAGAATCCTATCTCCCTAGGCAGCAGTAGAATAGATTGAAGATT
* *
47905704 -AAGAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTAAA
131 GAAG-ATCCTATCTCCCTGAGCAGCAGTGGAATAGATTAAA
* *
47905744 GAATCCTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTAGTCAG
1 GAATCCTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAATCATATCTCCCTAGACAG
* * * * *
47905809 CAGTAGAATAGGTTGAAGGTTAAGAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATT
66 CAGTAGAATAGGTTAAAGATTAAGAATCCTATCTCCCTAGGCAGCAGTAGAATAGATTGAAGATT
* * *
47905874 GTAGGTCCTATCTCCCTGATCAGCAGTGGAATAG
131 GAAGATCCTATCTCCCTGAGCAGCAGTGGAATAG
47905908 GTTGAAGATC
Statistics
Matches: 143, Mismatches: 20, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
170 141 0.99
171 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.28
Consensus pattern (170 bp):
GAATCCTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAATCATATCTCCCTAGACAG
CAGTAGAATAGGTTAAAGATTAAGAATCCTATCTCCCTAGGCAGCAGTAGAATAGATTGAAGATT
GAAGATCCTATCTCCCTGAGCAGCAGTGGAATAGATTAAA
Found at i:47905931 original size:214 final size:214
Alignment explanation
Indices: 47905534--47905947 Score: 591
Period size: 214 Copynumber: 1.9 Consensus size: 214
47905524 TGACCCCAGC
** *
47905534 CCTATCTCCCTGTTCAGCAGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTGGTCAGCAGT
1 CCTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTAGTCAGCAGT
* ** *
47905599 GGAATAGGTTAAAGATTGTGAATCATATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGA
66 AGAATAGGTTAAAGATTAAGAATCATATCTCCCTGGACAGCAGTGGAATAGATTAAAGATTGTGA
* * ** * *
47905664 ATCCTATCTCCCTAGTCAGCAGTAGAATAGGTTGAAGGTTAAGAATTCTATCTCCCTGGGCAGCA
131 ATCCTATCTCCCTAGTCAGCAGTAGAATAGGTTGAAGATCAAGAACCCTATCTCCCTGAGCAACA
47905729 GTGGAATAGATTAAAGAAT
196 GTGGAATAGATTAAAGAAT
47905748 CCTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTAGTCAGCAGT
1 CCTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTAGTCAGCAGT
* * * *
47905813 AGAATAGGTTGAAGGTTAAGAATTC-TATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTGT-
66 AGAATAGGTTAAAGATTAAGAA-TCATATCTCCCTGGACAGCAGTGGAATAGATTAAAGATTGTG
* * **
47905876 AGGTCCTATCTCCCT-GATCAGCAGTGGAATAGGTTGAAGATCGTGAACCCTATCTCCCTGAGCA
130 A-ATCCTATCTCCCTAG-TCAGCAGTAGAATAGGTTGAAGATCAAGAACCCTATCTCCCTGAGCA
47905940 ACAGTGGA
193 ACAGTGGA
47905948 GTAGGTGGAA
Statistics
Matches: 176, Mismatches: 21, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
213 2 0.01
214 172 0.98
215 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (214 bp):
CCTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTAGTCAGCAGT
AGAATAGGTTAAAGATTAAGAATCATATCTCCCTGGACAGCAGTGGAATAGATTAAAGATTGTGA
ATCCTATCTCCCTAGTCAGCAGTAGAATAGGTTGAAGATCAAGAACCCTATCTCCCTGAGCAACA
GTGGAATAGATTAAAGAAT
Found at i:47906346 original size:44 final size:44
Alignment explanation
Indices: 47906253--47906414 Score: 120
Period size: 44 Copynumber: 3.8 Consensus size: 44
47906243 ATGGCAAATT
* * * *
47906253 TTATCTCCCTAAAGTTGCAGTGGAGTAGATTAAAGCCGATAATC
1 TTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAACCGATAATC
* * * *
47906297 CTATCTCCCTGAAGTTGCAGTGAAGCGGATTAAAACC-TTGGATC
1 TTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAACCGAT-AATC
* * ** * *
47906341 TTATCTCTCTGAAGTTGCAGAG-AGCAGA--ACGCATC--TAGTC
1 TTATCTCCCTGAAGTTGCAGTGAAGCAGATTA-AAACCGATAATC
* *
47906381 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAA
1 TTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAA
47906415 TAAACAAATC
Statistics
Matches: 92, Mismatches: 21, Indels: 12
0.74 0.17 0.10
Matches are distributed among these distances:
40 22 0.24
41 8 0.09
42 2 0.02
43 7 0.08
44 53 0.58
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (44 bp):
TTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAACCGATAATC
Found at i:47906812 original size:19 final size:19
Alignment explanation
Indices: 47906788--47906841 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
47906778 AATCGTCGAG
47906788 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
47906807 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
47906826 GATATGTAATCTTAGA
1 GATATGCAATCTTAGA
47906842 AGATATGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:47906867 original size:22 final size:22
Alignment explanation
Indices: 47906801--47906864 Score: 80
Period size: 19 Copynumber: 3.0 Consensus size: 22
47906791 ATGCAATCTT
*
47906801 AGATATGATATGCAATCTT---
1 AGATATGATATGTAATCTTAGA
47906820 AGATATGATATGTAATCTTAGA
1 AGATATGATATGTAATCTTAGA
*
47906842 AGATATGATTTTGTAATCTTAGA
1 AGATATGA-TATGTAATCTTAGA
47906865 GATTTAATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
19 18 0.46
22 8 0.21
23 13 0.33
ACGTcount: A:0.38, C:0.06, G:0.17, T:0.39
Consensus pattern (22 bp):
AGATATGATATGTAATCTTAGA
Found at i:47906876 original size:23 final size:23
Alignment explanation
Indices: 47906830--47906875 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
47906820 AGATATGATA
*
47906830 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
47906853 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
47906875 T
1 T
47906876 TAGATACCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.33, C:0.04, G:0.15, T:0.48
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:47907067 original size:19 final size:21
Alignment explanation
Indices: 47907043--47907081 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
47907033 TGTTTTCTTT
*
47907043 TTTTTTTCTT-TTT-CGATTA
1 TTTTTTACTTATTTACGATTA
47907062 TTTTTTACTTATTTACGATT
1 TTTTTTACTTATTTACGATT
47907082 TTAAAAAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.15, C:0.10, G:0.05, T:0.69
Consensus pattern (21 bp):
TTTTTTACTTATTTACGATTA
Found at i:47907313 original size:3 final size:3
Alignment explanation
Indices: 47907305--47907344 Score: 64
Period size: 3 Copynumber: 13.3 Consensus size: 3
47907295 ATTAATTTTG
47907305 TTA TTA TTA TTA TTA TTA TTA -TA TTA TATA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA T
47907345 ACCTACATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 2 0.06
3 30 0.86
4 3 0.09
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:47907336 original size:15 final size:14
Alignment explanation
Indices: 47907305--47907345 Score: 59
Period size: 13 Copynumber: 3.0 Consensus size: 14
47907295 ATTAATTTTG
47907305 TTATTATTATTATTA
1 TTATTATTATTA-TA
47907320 TTATTA-TATTATA
1 TTATTATTATTATA
47907333 -TATTATTATTATA
1 TTATTATTATTATA
47907346 CCTACATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 5 0.20
13 9 0.36
14 5 0.20
15 6 0.24
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
TTATTATTATTATA
Found at i:47912569 original size:15 final size:16
Alignment explanation
Indices: 47912549--47912594 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
47912539 TTTTTTATTA
47912549 TTTTTAATTTA-ATAG
1 TTTTTAATTTATATAG
*
47912564 TTTTTAAATATATATAG
1 TTTTT-AATTTATATAG
*
47912581 TTTTAAATTTATAT
1 TTTTTAATTTATAT
47912595 GATCTAACAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
15 5 0.19
16 13 0.50
17 8 0.31
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (16 bp):
TTTTTAATTTATATAG
Found at i:47916573 original size:15 final size:14
Alignment explanation
Indices: 47916555--47916588 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
47916545 TTACTTTCGT
*
47916555 TTTTTATTTATTTTC
1 TTTTTATTT-TTTTA
47916570 TTTTTATTTTTTTA
1 TTTTTATTTTTTTA
47916584 TTTTT
1 TTTTT
47916589 TGTTTAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.12, C:0.03, G:0.00, T:0.85
Consensus pattern (14 bp):
TTTTTATTTTTTTA
Found at i:47917179 original size:3 final size:3
Alignment explanation
Indices: 47917166--47917248 Score: 64
Period size: 3 Copynumber: 27.0 Consensus size: 3
47917156 TTACTATTTA
*
47917166 ATT ATTT ATT ATT ATT A-T ATT A-T ATT ATT ACTT GTTT ATT ATT ATT
1 ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT A-TT -ATT ATT ATT ATT
* * *
47917212 ATCC ATT ATT ATT ATT ATT GA-T ATT GTA ATT ATT ATT
1 AT-T ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT
47917249 TTCGTGTACA
Statistics
Matches: 64, Mismatches: 8, Indels: 16
0.73 0.09 0.18
Matches are distributed among these distances:
2 5 0.08
3 49 0.77
4 10 0.16
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:47917191 original size:13 final size:13
Alignment explanation
Indices: 47917166--47917227 Score: 61
Period size: 13 Copynumber: 4.5 Consensus size: 13
47917156 TTACTATTTA
47917166 ATTATTTATTATT
1 ATTATTTATTATT
47917179 ATTATATTATATTATT
1 A-T-TATT-TATTATT
*
47917195 ACTTGTTTATTATT
1 A-TTATTTATTATT
**
47917209 ATTATCCATTATT
1 ATTATTTATTATT
47917222 ATTATT
1 ATTATT
47917228 ATTGATATTG
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
13 15 0.38
14 9 0.22
15 7 0.17
16 9 0.22
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.63
Consensus pattern (13 bp):
ATTATTTATTATT
Found at i:47918800 original size:31 final size:31
Alignment explanation
Indices: 47918739--47918800 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
47918729 TAAAATAATT
*
47918739 TTAAATTATTTAAAAATTTTCATTTAAGTCA
1 TTAAATTATTCAAAAATTTTCATTTAAGTCA
* * * *
47918770 TTAAATTATTCGAAAGTTTTTATTTTAGTCA
1 TTAAATTATTCAAAAATTTTCATTTAAGTCA
47918801 ATAGACTGGT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.37, C:0.06, G:0.06, T:0.50
Consensus pattern (31 bp):
TTAAATTATTCAAAAATTTTCATTTAAGTCA
Found at i:47924133 original size:11 final size:11
Alignment explanation
Indices: 47924103--47924166 Score: 65
Period size: 11 Copynumber: 5.7 Consensus size: 11
47924093 AAACTAATCC
47924103 TCTCTCAATTAT
1 TCTCTCAATT-T
*
47924115 TTTCTCAATTT
1 TCTCTCAATTT
*
47924126 TCTCTCAAATT
1 TCTCTCAATTT
*
47924137 GCTCTCAATTT
1 TCTCTCAATTT
* * *
47924148 CCTTTCAAATT
1 TCTCTCAATTT
47924159 TCTCTCAA
1 TCTCTCAA
47924167 ATCCATATTT
Statistics
Matches: 42, Mismatches: 10, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
11 33 0.79
12 9 0.21
ACGTcount: A:0.23, C:0.27, G:0.02, T:0.48
Consensus pattern (11 bp):
TCTCTCAATTT
Found at i:47924145 original size:22 final size:22
Alignment explanation
Indices: 47924117--47924166 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
47924107 TCAATTATTT
*
47924117 TCTCAATTTTCTCTCAAATTGC
1 TCTCAATTTCCTCTCAAATTGC
* *
47924139 TCTCAATTTCCTTTCAAATTTC
1 TCTCAATTTCCTCTCAAATTGC
47924161 TCTCAA
1 TCTCAA
47924167 ATCCATATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.24, C:0.28, G:0.02, T:0.46
Consensus pattern (22 bp):
TCTCAATTTCCTCTCAAATTGC
Found at i:47926572 original size:26 final size:25
Alignment explanation
Indices: 47926543--47926595 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 25
47926533 AACCCTAAAC
47926543 TAATTTATTAA-AAATTTATAAATTTA
1 TAATTTA-TAATAAATTTAT-AATTTA
47926569 TAATTTATAATTAAATTTATAATTTA
1 TAATTTATAA-TAAATTTATAATTTA
47926595 T
1 T
47926596 TTGACAAACC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
25 3 0.12
26 14 0.56
27 8 0.32
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (25 bp):
TAATTTATAATAAATTTATAATTTA
Found at i:47926575 original size:7 final size:7
Alignment explanation
Indices: 47926555--47926595 Score: 59
Period size: 7 Copynumber: 6.0 Consensus size: 7
47926545 ATTTATTAAA
47926555 AATTTAT
1 AATTTAT
47926562 AAATTTAT
1 -AATTTAT
47926570 AATTTAT
1 AATTTAT
47926577 AA-TTA-
1 AATTTAT
47926582 AATTTAT
1 AATTTAT
47926589 AATTTAT
1 AATTTAT
47926596 TTGACAAACC
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
5 2 0.06
6 6 0.19
7 16 0.52
8 7 0.23
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (7 bp):
AATTTAT
Found at i:47926677 original size:7 final size:7
Alignment explanation
Indices: 47926657--47926697 Score: 59
Period size: 7 Copynumber: 6.0 Consensus size: 7
47926647 ATTTATTAAA
47926657 AATTTAT
1 AATTTAT
47926664 AAATTTAT
1 -AATTTAT
47926672 AATTTAT
1 AATTTAT
47926679 AA-TTA-
1 AATTTAT
47926684 AATTTAT
1 AATTTAT
47926691 AATTTAT
1 AATTTAT
47926698 TTGACAAACC
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
5 2 0.06
6 6 0.19
7 16 0.52
8 7 0.23
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (7 bp):
AATTTAT
Found at i:47926678 original size:26 final size:25
Alignment explanation
Indices: 47926645--47926697 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 25
47926635 AACCCTAAAC
47926645 TAATTTATTAA-AAATTTATAAATTTA
1 TAATTTA-TAATAAATTTAT-AATTTA
47926671 TAATTTATAATTAAATTTATAATTTA
1 TAATTTATAA-TAAATTTATAATTTA
47926697 T
1 T
47926698 TTGACAAACC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
25 3 0.12
26 14 0.56
27 8 0.32
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (25 bp):
TAATTTATAATAAATTTATAATTTA
Found at i:47926702 original size:102 final size:102
Alignment explanation
Indices: 47926526--47926931 Score: 760
Period size: 102 Copynumber: 4.0 Consensus size: 102
47926516 TTAAGGTATT
47926526 ACTTAAAAACCCTAAACTAATTTATTAAAAATTTATAAATTTATAATTTATAATTAAATTTATAA
1 ACTTAAAAACCCTAAACTAATTTATTAAAAATTTATAAATTTATAATTTATAATTAAATTTATAA
47926591 TTTATTTGACAAACCTTAACAAAAACCCTAACCCTCA
66 TTTATTTGACAAACCTTAACAAAAACCCTAACCCTCA
47926628 ACTTAAAAACCCTAAACTAATTTATTAAAAATTTATAAATTTATAATTTATAATTAAATTTATAA
1 ACTTAAAAACCCTAAACTAATTTATTAAAAATTTATAAATTTATAATTTATAATTAAATTTATAA
47926693 TTTATTTGACAAACCTTAACAAAAACCCTAACCCTCA
66 TTTATTTGACAAACCTTAACAAAAACCCTAACCCTCA
47926730 ACTTAAAAACCCTAAACTAATTTATTAAAAATTTATAAATTTATAATTTATAATTAAATTTATAA
1 ACTTAAAAACCCTAAACTAATTTATTAAAAATTTATAAATTTATAATTTATAATTAAATTTATAA
47926795 TTTATTTGACAAACCTTAACAAAAACCCTAACCCTCA
66 TTTATTTGACAAACCTTAACAAAAACCCTAACCCTCA
* *
47926832 ACTTAAAAACCCTAAACTAATTTATTAAAAATTTATAAATTTATAAATTATAATTAAATTT-TGA
1 ACTTAAAAACCCTAAACTAATTTATTAAAAATTTATAAATTTATAATTTATAATTAAATTTATAA
* *
47926896 TATTAATTGACAAACCCTAACAAAAACCCTAACCCT
66 T-TTATTTGACAAACCTTAACAAAAACCCTAACCCT
47926932 AACCCTAACA
Statistics
Matches: 299, Mismatches: 4, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
101 3 0.01
102 296 0.99
ACGTcount: A:0.47, C:0.16, G:0.01, T:0.36
Consensus pattern (102 bp):
ACTTAAAAACCCTAAACTAATTTATTAAAAATTTATAAATTTATAATTTATAATTAAATTTATAA
TTTATTTGACAAACCTTAACAAAAACCCTAACCCTCA
Found at i:47926779 original size:7 final size:7
Alignment explanation
Indices: 47926759--47926799 Score: 59
Period size: 7 Copynumber: 6.0 Consensus size: 7
47926749 ATTTATTAAA
47926759 AATTTAT
1 AATTTAT
47926766 AAATTTAT
1 -AATTTAT
47926774 AATTTAT
1 AATTTAT
47926781 AA-TTA-
1 AATTTAT
47926786 AATTTAT
1 AATTTAT
47926793 AATTTAT
1 AATTTAT
47926800 TTGACAAACC
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
5 2 0.06
6 6 0.19
7 16 0.52
8 7 0.23
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (7 bp):
AATTTAT
Found at i:47926780 original size:26 final size:25
Alignment explanation
Indices: 47926747--47926799 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 25
47926737 AACCCTAAAC
47926747 TAATTTATTAA-AAATTTATAAATTTA
1 TAATTTA-TAATAAATTTAT-AATTTA
47926773 TAATTTATAATTAAATTTATAATTTA
1 TAATTTATAA-TAAATTTATAATTTA
47926799 T
1 T
47926800 TTGACAAACC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
25 3 0.12
26 14 0.56
27 8 0.32
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (25 bp):
TAATTTATAATAAATTTATAATTTA
Found at i:47926960 original size:22 final size:22
Alignment explanation
Indices: 47926932--47927005 Score: 116
Period size: 22 Copynumber: 3.4 Consensus size: 22
47926922 CCCTAACCCT
*
47926932 AACCCTAACACTTTAACTTAAA
1 AACCCTAACACCTTAACTTAAA
47926954 AACCCTAA-ACCCTTAACTTAAA
1 AACCCTAACA-CCTTAACTTAAA
47926976 AACCCTAAC-CCTTAACTTAAA
1 AACCCTAACACCTTAACTTAAA
47926997 AACCCTAAC
1 AACCCTAAC
47927006 TCTAACCCTA
Statistics
Matches: 49, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
21 22 0.45
22 27 0.55
ACGTcount: A:0.45, C:0.32, G:0.00, T:0.23
Consensus pattern (22 bp):
AACCCTAACACCTTAACTTAAA
Found at i:47926985 original size:21 final size:21
Alignment explanation
Indices: 47926932--47927005 Score: 121
Period size: 21 Copynumber: 3.4 Consensus size: 21
47926922 CCCTAACCCT
*
47926932 AACCCTAACACTTTAACTTAAA
1 AACCCTAAC-CCTTAACTTAAA
47926954 AACCCTAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAA
47926976 AACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
47926997 AACCCTAAC
1 AACCCTAAC
47927006 TCTAACCCTA
Statistics
Matches: 50, Mismatches: 1, Indels: 3
0.93 0.02 0.06
Matches are distributed among these distances:
21 24 0.48
22 23 0.46
23 3 0.06
ACGTcount: A:0.45, C:0.32, G:0.00, T:0.23
Consensus pattern (21 bp):
AACCCTAACCCTTAACTTAAA
Found at i:47927130 original size:58 final size:59
Alignment explanation
Indices: 47927036--47927161 Score: 202
Period size: 58 Copynumber: 2.2 Consensus size: 59
47927026 GATATAATTT
*
47927036 AATA-AATTTTACTAACACACTATAGCGTTTTTACAAAATGTTTCGATTGGTAC-AAAA
1 AATATAATTTTACTAACAAACTATAGCGTTTTTACAAAATGTTTCGATTGGTACAAAAA
* * *
47927093 AATATAATTTTACTAACAAAGTATTGCGTTTTTACAAAATGTTTTGATTGGTACAAAAA
1 AATATAATTTTACTAACAAACTATAGCGTTTTTACAAAATGTTTCGATTGGTACAAAAA
47927152 AATATAATTT
1 AATATAATTT
47927162 GTTTACAATG
Statistics
Matches: 63, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
57 4 0.06
58 45 0.71
59 14 0.22
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.38
Consensus pattern (59 bp):
AATATAATTTTACTAACAAACTATAGCGTTTTTACAAAATGTTTCGATTGGTACAAAAA
Done.