Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr5
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: 55438857
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1812582 characters in sequence are not A, C, G, or T
File 160 of 167
Found at i:52842168 original size:21 final size:21
Alignment explanation
Indices: 52842144--52842206 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 21
52842134 GAACGAATCA
52842144 AATCAGATGGTTCTATTTCTC
1 AATCAGATGGTTCTATTTCTC
52842165 AATC---T--TTCTGA--TCATC
1 AATCAGATGGTTCT-ATTTC-TC
52842181 AAATCAGATGGTTCTATTTCTC
1 A-ATCAGATGGTTCTATTTCTC
52842203 AATC
1 AATC
52842207 TTTCTGAGGG
Statistics
Matches: 32, Mismatches: 0, Indels: 20
0.62 0.00 0.38
Matches are distributed among these distances:
15 2 0.06
16 7 0.22
17 4 0.12
18 1 0.03
20 1 0.03
21 8 0.25
22 7 0.22
23 2 0.06
ACGTcount: A:0.27, C:0.21, G:0.11, T:0.41
Consensus pattern (21 bp):
AATCAGATGGTTCTATTTCTC
Found at i:52842182 original size:38 final size:38
Alignment explanation
Indices: 52842140--52842213 Score: 148
Period size: 38 Copynumber: 1.9 Consensus size: 38
52842130 TTGAGAACGA
52842140 ATCAAATCAGATGGTTCTATTTCTCAATCTTTCTGATC
1 ATCAAATCAGATGGTTCTATTTCTCAATCTTTCTGATC
52842178 ATCAAATCAGATGGTTCTATTTCTCAATCTTTCTGA
1 ATCAAATCAGATGGTTCTATTTCTCAATCTTTCTGA
52842214 GGGGGGGGGG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.42
Consensus pattern (38 bp):
ATCAAATCAGATGGTTCTATTTCTCAATCTTTCTGATC
Found at i:52842882 original size:15 final size:15
Alignment explanation
Indices: 52842859--52842888 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
52842849 GAAGGGAATA
52842859 AAATAAAAAAAAAAG
1 AAATAAAAAAAAAAG
*
52842874 AAATCAAAAAAAAAG
1 AAATAAAAAAAAAAG
52842889 GGGAAAAAAT
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:0.83, C:0.03, G:0.07, T:0.07
Consensus pattern (15 bp):
AAATAAAAAAAAAAG
Found at i:52875286 original size:45 final size:45
Alignment explanation
Indices: 52875200--52875329 Score: 165
Period size: 45 Copynumber: 2.9 Consensus size: 45
52875190 CCAAATTTAT
* * * *
52875200 TCACCGGCATT-TTGCCTGCTAGG-TTCGAGGCCCAAAAAATGTC
1 TCACCGGCATTATAGCCTGCTAGGCTTCAAGGCCCGAATAATGTC
* *
52875243 TCACTGGCATTATAGCCTGCTAGGCTTAAAGGCCCGAATAATGTC
1 TCACCGGCATTATAGCCTGCTAGGCTTCAAGGCCCGAATAATGTC
* * *
52875288 TCACCAGCATTATAGCTTGCTAGGCTCCAAGGCCCGAATAAT
1 TCACCGGCATTATAGCCTGCTAGGCTTCAAGGCCCGAATAAT
52875330 ACTGTACAAC
Statistics
Matches: 74, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
43 10 0.14
44 11 0.15
45 53 0.72
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTTCAAGGCCCGAATAATGTC
Found at i:52883193 original size:28 final size:27
Alignment explanation
Indices: 52883107--52883196 Score: 92
Period size: 27 Copynumber: 3.2 Consensus size: 27
52883097 GTGATAGAGT
* *
52883107 CACCAGATACGGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
** *
52883136 CACCAGAACAGAT-ATACGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
52883163 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
52883191 CACCAG
1 CACCAG
52883197 GATGCTTCCT
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
27 23 0.45
28 21 0.41
29 7 0.14
ACGTcount: A:0.31, C:0.24, G:0.26, T:0.19
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:52891021 original size:28 final size:27
Alignment explanation
Indices: 52890935--52891024 Score: 101
Period size: 27 Copynumber: 3.2 Consensus size: 27
52890925 GTGACAGAGT
*
52890935 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
** *
52890964 CACCAGAACAGAT-ATACGTGGCAGGTC
1 CACCAGAACAGATAATTTGTGGCATG-C
52890991 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
52891019 CACCAG
1 CACCAG
52891025 GTCGCTTCCT
Statistics
Matches: 51, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
26 1 0.02
27 21 0.41
28 21 0.41
29 8 0.16
ACGTcount: A:0.32, C:0.24, G:0.23, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:52912821 original size:43 final size:44
Alignment explanation
Indices: 52912772--52912943 Score: 181
Period size: 43 Copynumber: 4.0 Consensus size: 44
52912762 GGTTATCGAG
*
52912772 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
1 ATGTGATTACATGTAAGACCATATCTGGGACATTGGCATTGTAT
* * * * *
52912816 -TGTGATTACGTGTAAGGCCATGTCTGGAACATTGGCATCGT-T
1 ATGTGATTACATGTAAGACCATATCTGGGACATTGGCATTGTAT
* * * * * *
52912858 ATATGATTTCGTGTAAGACCCTATTTGGGACAGTGGCATTG-AT
1 ATGTGATTACATGTAAGACCATATCTGGGACATTGGCATTGTAT
* * *
52912901 ATGTGGTAACATGTAAGACCATATCTGGGATA-TGGCATTGTAT
1 ATGTGATTACATGTAAGACCATATCTGGGACATTGGCATTGTAT
52912944 GAGCCTTATG
Statistics
Matches: 104, Mismatches: 21, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
42 9 0.09
43 95 0.91
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.34
Consensus pattern (44 bp):
ATGTGATTACATGTAAGACCATATCTGGGACATTGGCATTGTAT
Found at i:52914470 original size:109 final size:109
Alignment explanation
Indices: 52914274--52914504 Score: 381
Period size: 109 Copynumber: 2.1 Consensus size: 109
52914264 ATAGCCAAGG
* * * *
52914274 CACAGGGGCGTGTCTCTAGCCGTGTGGTACAAGTCAGAATGTATGCCTTGTTTTTACACGGTCTA
1 CACACGGGCGTGTCTCCAGCCGTGTGGTACAAGTCAGAATGTATGCCCTGTTTTCACACGGTCTA
* *
52914339 CAACATGGGCGTGTCTGGTGACCATGTGAGGCACACGACCTGTT
66 CAACACGGGCATGTCTGGTGACCATGTGAGGCACACGACCTGTT
* *
52914383 CACACGGGCGTGTCTCCAGCCGTGTGGTACAAGTTAGAATGTATGCCCTGTTTTCACACGGTCTG
1 CACACGGGCGTGTCTCCAGCCGTGTGGTACAAGTCAGAATGTATGCCCTGTTTTCACACGGTCTA
*
52914448 CAACACGGGCATGTCTGGTGACCATGTGAGGCACACGGCCTGTT
66 CAACACGGGCATGTCTGGTGACCATGTGAGGCACACGACCTGTT
52914492 CACACGGGCGTGT
1 CACACGGGCGTGT
52914505 GATCCCTAGA
Statistics
Matches: 113, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
109 113 1.00
ACGTcount: A:0.19, C:0.25, G:0.30, T:0.26
Consensus pattern (109 bp):
CACACGGGCGTGTCTCCAGCCGTGTGGTACAAGTCAGAATGTATGCCCTGTTTTCACACGGTCTA
CAACACGGGCATGTCTGGTGACCATGTGAGGCACACGACCTGTT
Found at i:52927834 original size:39 final size:39
Alignment explanation
Indices: 52927765--52927982 Score: 294
Period size: 39 Copynumber: 5.5 Consensus size: 39
52927755 ACAAAGCATG
* * * *
52927765 CGGGGCTTTAAGCCCGAATATAATACCAGCAC-AAAGCCTA
1 CGGGGC-TT-AGCCCGGATATAACACCAGCACGAATGCCTT
* *
52927805 CGGGACTTTAGCTCGGATATAACACCAGCACGAATGCCTT
1 CGGGGC-TTAGCCCGGATATAACACCAGCACGAATGCCTT
*
52927845 CGGGGCTTAGCCCGGATATAACACCAGCACGAATGCATT
1 CGGGGCTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
52927884 CGGGGCTTAGCCCGGATATAACACGAGCACGAATGCCTT
1 CGGGGCTTAGCCCGGATATAACACCAGCACGAATGCCTT
* *
52927923 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCATT
1 CGGGGCTTAGCCCGGATATAACACCAGCACGAATGCCTT
* *
52927962 CTGGACTTAGCCCGGATATAA
1 CGGGGCTTAGCCCGGATATAA
52927983 TTCTCCATTT
Statistics
Matches: 162, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 143 0.88
40 19 0.12
ACGTcount: A:0.29, C:0.28, G:0.24, T:0.19
Consensus pattern (39 bp):
CGGGGCTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:52927981 original size:117 final size:119
Alignment explanation
Indices: 52927760--52927982 Score: 326
Period size: 117 Copynumber: 1.9 Consensus size: 119
52927750 CCACCACAAA
* *
52927760 GCATGCGGGGCTTTAAGCCCGAATATAATACCAGCACAAAGCCTACGGGACTTTAGCTCGGATAT
1 GCATGCGGGGCTTTAAGCCCGAATATAACACCAGCACAAAGCCTACGGGACTTTAGCCCGGATAT
* *
52927825 AACACCAGCACGAATGCCTTCGGGGCTTAGCCCGGATATAACACCAGCACGAAT
66 AACACCAGCACGAATGCATTCGGGACTTAGCCCGGATATAACACCAGCACGAAT
* * * * *
52927879 GCATTCGGGGC-TT-AGCCCGGATATAACACGAGCACGAATGCCTTCGGGAC-TTAGCCCGGATA
1 GCATGCGGGGCTTTAAGCCCGAATATAACACCAGCAC-AAAGCCTACGGGACTTTAGCCCGGATA
*
52927941 TAACACCAGCACGAATGCATTCTGGACTTAGCCCGGATATAA
65 TAACACCAGCACGAATGCATTCGGGACTTAGCCCGGATATAA
52927983 TTCTCCATTT
Statistics
Matches: 93, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
117 69 0.74
118 14 0.15
119 10 0.11
ACGTcount: A:0.29, C:0.27, G:0.24, T:0.19
Consensus pattern (119 bp):
GCATGCGGGGCTTTAAGCCCGAATATAACACCAGCACAAAGCCTACGGGACTTTAGCCCGGATAT
AACACCAGCACGAATGCATTCGGGACTTAGCCCGGATATAACACCAGCACGAAT
Found at i:52931220 original size:55 final size:55
Alignment explanation
Indices: 52931161--52931266 Score: 142
Period size: 55 Copynumber: 1.9 Consensus size: 55
52931151 AGAGTGCGAC
*
52931161 ACGCCCGTACCT-TGAAACCGTGGGCGAACCTATAAAATTAGCACAGGCGTGCGGT
1 ACGCCCGTACCTAT-AAACCGTGGGCGAACCTATAAAATTAACACAGGCGTGCGGT
* * * * *
52931216 ACGCCCGTGCCTATCACCCGTGGGCGAACCTGTCAAATTAACACAGGCGTG
1 ACGCCCGTACCTATAAACCGTGGGCGAACCTATAAAATTAACACAGGCGTG
52931267 GACCTATGTA
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
55 43 0.98
56 1 0.02
ACGTcount: A:0.25, C:0.30, G:0.26, T:0.18
Consensus pattern (55 bp):
ACGCCCGTACCTATAAACCGTGGGCGAACCTATAAAATTAACACAGGCGTGCGGT
Found at i:52934234 original size:79 final size:81
Alignment explanation
Indices: 52934092--52934274 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
52934082 TACTCGTTCA
* *
52934092 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
** *
52934156 TTTAGTAAC-TCGCACC
66 CATAGTAACTTAGCA-C
**
52934172 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* *
52934234 ACATGGTCACTTAGCAC
65 ACATAGTAACTTAGCAC
*
52934251 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
52934275 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 58 0.65
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.23
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
CATAGTAACTTAGCAC
Found at i:52934274 original size:40 final size:40
Alignment explanation
Indices: 52934090--52934277 Score: 222
Period size: 40 Copynumber: 4.7 Consensus size: 40
52934080 GCTACTCGTT
* **
52934090 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGACATAGTAACTCGCA
* **
52934130 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGACATAGTAACTCGCA
*
52934170 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGACA-TAGTAACTCGCA
* * * *
52934209 CAAATGCCTTC-GGATCTTAGTCCGGACATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGACATAGTAAC-TCGCA
52934250 CAAA-GCCTTCGGGACTTAGCCCGGACAT
1 CAAATGCCTTCGGGACTTAGCCCGGACAT
52934278 CATTCGAATA
Statistics
Matches: 129, Mismatches: 13, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
38 2 0.02
39 32 0.25
40 83 0.64
41 12 0.09
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGACATAGTAACTCGCA
Found at i:52938530 original size:133 final size:133
Alignment explanation
Indices: 52938292--52938558 Score: 507
Period size: 133 Copynumber: 2.0 Consensus size: 133
52938282 TTAGATTTGG
*
52938292 TGAATTCGATGCTCCTAATCCTTTAATTTCATGTTTTATACTTAGGAGATCATAGGAGAGTGAAA
1 TGAATTCGATGCTCCTAATCCTTTAATTTCATGTTTTATACTTAGGAGAGCATAGGAGAGTGAAA
52938357 AGAGCGAGAAACGAGCCGAAAACGGAGAAAATGGACCCACATGGGAAATCAACACGGCCTGGACT
66 AGAGCGAGAAACGAGCCGAAAACGGAGAAAATGGACCCACATGGGAAATCAACACGGCCTGGACT
52938422 TCC
131 TCC
*
52938425 TGAATTCGATGCTCCTAATCCTTTAATTTCATGTTTTATACTTAGGAGAGCATATGAGAGTGAAA
1 TGAATTCGATGCTCCTAATCCTTTAATTTCATGTTTTATACTTAGGAGAGCATAGGAGAGTGAAA
*
52938490 AGAGCGAGAAACGGGCCGAAAACGGAGAAAATGGACCCACATGGGAAATCAACACGGCCTGGACT
66 AGAGCGAGAAACGAGCCGAAAACGGAGAAAATGGACCCACATGGGAAATCAACACGGCCTGGACT
52938555 TCC
131 TCC
52938558 T
1 T
52938559 CACACGGGCG
Statistics
Matches: 131, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
133 131 1.00
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.23
Consensus pattern (133 bp):
TGAATTCGATGCTCCTAATCCTTTAATTTCATGTTTTATACTTAGGAGAGCATAGGAGAGTGAAA
AGAGCGAGAAACGAGCCGAAAACGGAGAAAATGGACCCACATGGGAAATCAACACGGCCTGGACT
TCC
Found at i:52939884 original size:24 final size:24
Alignment explanation
Indices: 52939849--52939915 Score: 82
Period size: 23 Copynumber: 2.8 Consensus size: 24
52939839 CCAATATATC
52939849 AGCTCGTAAGAGCTTACTGTTTTT
1 AGCTCGTAAGAGCTTACTGTTTTT
* **
52939873 AGCTCGTCAGAGCTTAC-CATTTT
1 AGCTCGTAAGAGCTTACTGTTTTT
* *
52939896 AGCTCATTAGAGCTTACTGT
1 AGCTCGTAAGAGCTTACTGT
52939916 CCATCAGCTC
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
23 19 0.54
24 16 0.46
ACGTcount: A:0.22, C:0.21, G:0.19, T:0.37
Consensus pattern (24 bp):
AGCTCGTAAGAGCTTACTGTTTTT
Found at i:52940160 original size:38 final size:39
Alignment explanation
Indices: 52940077--52940161 Score: 91
Period size: 39 Copynumber: 2.2 Consensus size: 39
52940067 TGTGAAAAAG
* * *
52940077 CTGTGTTATACGGATGAATTACTATTATATGGATGAAGTA
1 CTGT-TTAAACGGATGAATTACTATTATACGAATGAAGTA
* * * *
52940117 TTGTTTAAACGGATGAGTTACTGTTAT-CGAATGAATTA
1 CTGTTTAAACGGATGAATTACTATTATACGAATGAAGTA
52940155 CTGTTTA
1 CTGTTTA
52940162 TTTGATTGAG
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
38 14 0.38
39 20 0.54
40 3 0.08
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (39 bp):
CTGTTTAAACGGATGAATTACTATTATACGAATGAAGTA
Found at i:52942258 original size:40 final size:40
Alignment explanation
Indices: 52942167--52942429 Score: 298
Period size: 40 Copynumber: 6.6 Consensus size: 40
52942157 TCCTCGTTCA
* * * * *
52942167 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
52942206 AATGCCTTCGGGACGTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
52942246 AATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
52942286 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCATG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
52942326 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
52942366 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
52942406 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
52942430 CAGCATTCAA
Statistics
Matches: 195, Mismatches: 25, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
39 36 0.18
40 151 0.77
41 8 0.04
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:52942438 original size:41 final size:41
Alignment explanation
Indices: 52942361--52942438 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
52942351 TTAGTATCTC
* * *
52942361 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
52942402 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
52942439 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:52952493 original size:38 final size:38
Alignment explanation
Indices: 52952451--52952530 Score: 142
Period size: 38 Copynumber: 2.1 Consensus size: 38
52952441 TAAAAATCTA
52952451 GCAGGCTTCGTCCTGGTAATATATCCGGGTTAAATCCC
1 GCAGGCTTCGTCCTGGTAATATATCCGGGTTAAATCCC
* *
52952489 GCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCC
1 GCAGGCTTCGTCCTGGTAATATATCCGGGTTAAATCCC
52952527 GCAG
1 GCAG
52952531 TCCTAGTGTT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.20, C:0.25, G:0.26, T:0.29
Consensus pattern (38 bp):
GCAGGCTTCGTCCTGGTAATATATCCGGGTTAAATCCC
Found at i:52952544 original size:38 final size:38
Alignment explanation
Indices: 52952463--52952555 Score: 132
Period size: 38 Copynumber: 2.4 Consensus size: 38
52952453 AGGCTTCGTC
* * *
52952463 CTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCGTG
1 CTGGTATTATATCCGGGTTAAATCCCGCAGGCCTAGTG
*
52952501 CTGGTATTATATCCGGGTTAAATCCCGCAGTCCTAGTG
1 CTGGTATTATATCCGGGTTAAATCCCGCAGGCCTAGTG
* *
52952539 TTGGTATTATATTCGGG
1 CTGGTATTATATCCGGG
52952556 CCTTTGTGCC
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 49 1.00
ACGTcount: A:0.20, C:0.20, G:0.26, T:0.33
Consensus pattern (38 bp):
CTGGTATTATATCCGGGTTAAATCCCGCAGGCCTAGTG
Found at i:52952645 original size:45 final size:46
Alignment explanation
Indices: 52952549--52952662 Score: 139
Period size: 46 Copynumber: 2.6 Consensus size: 46
52952539 TTGGTATTAT
* * * *
52952549 ATTCGGGCCTTT-GTGCCTAGCAGGCTATTATACCGGTGAGACATT
1 ATTCGGGCCTTTCGAGCCTAGCAGGCTATAATACCAGTGAGACATG
*
52952594 ATTCGGGCCTTTCGAGCCTAGCAGGCTATAATCCCAGTGA-A-ATG
1 ATTCGGGCCTTTCGAGCCTAGCAGGCTATAATACCAGTGAGACATG
52952638 ATATCGGGCC--TCGAGCCTAGCAGGC
1 AT-TCGGGCCTTTCGAGCCTAGCAGGC
52952663 GAAATGCCGG
Statistics
Matches: 62, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
43 15 0.24
44 4 0.06
45 20 0.32
46 23 0.37
ACGTcount: A:0.22, C:0.25, G:0.27, T:0.25
Consensus pattern (46 bp):
ATTCGGGCCTTTCGAGCCTAGCAGGCTATAATACCAGTGAGACATG
Found at i:52954887 original size:49 final size:48
Alignment explanation
Indices: 52954764--52954903 Score: 181
Period size: 48 Copynumber: 2.9 Consensus size: 48
52954754 CACATATTGG
* * *
52954764 TGTCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAA
1 TGTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCAA
* * * *
52954812 CGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCGGA
1 TGTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATC-AA
* * *
52954861 TGTCGATGCCATGTCCTAGACATGGTCTTACACGGGATCTCAT
1 TGTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT
52954904 TAACCATGGT
Statistics
Matches: 79, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
48 40 0.51
49 39 0.49
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.26
Consensus pattern (48 bp):
TGTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCAA
Found at i:52968657 original size:43 final size:43
Alignment explanation
Indices: 52968545--52968695 Score: 119
Period size: 43 Copynumber: 3.5 Consensus size: 43
52968535 ACAATGCAAC
** * * * **
52968545 GTCCCAGATGTGGTCTTACATGT-AATCAAATATCGTTGTCTCT
1 GTCCCAGACATGGTCTTACACGTAAATCAAATAT-GATGCCAAT
* * * *
52968588 GTCCTAGATAGGGTCTTATACG-AAATCAAATATGATGCCAAT
1 GTCCCAGACATGGTCTTACACGTAAATCAAATATGATGCCAAT
* * *
52968630 GTCCCAGACATGGTCTTACACGTAAATCATAAGT-CGATGCTAAC
1 GTCCCAGACATGGTCTTACACGTAAATCA-AA-TATGATGCCAAT
*
52968674 GTCCCAGACGTGGTCTTACACG
1 GTCCCAGACATGGTCTTACACG
52968696 ATAACACATA
Statistics
Matches: 87, Mismatches: 17, Indels: 7
0.78 0.15 0.06
Matches are distributed among these distances:
42 23 0.26
43 33 0.38
44 30 0.34
45 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACACGTAAATCAAATATGATGCCAAT
Found at i:52976282 original size:25 final size:25
Alignment explanation
Indices: 52976254--52976301 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
52976244 TTATAATATG
* *
52976254 AAAATGACTATTTTGCCCCTAGGTA
1 AAAATGACTATTATACCCCTAGGTA
52976279 AAAATGACTATTATACCCCTAGG
1 AAAATGACTATTATACCCCTAGG
52976302 GTTTACTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (25 bp):
AAAATGACTATTATACCCCTAGGTA
Found at i:52976361 original size:20 final size:19
Alignment explanation
Indices: 52976336--52976407 Score: 92
Period size: 20 Copynumber: 3.7 Consensus size: 19
52976326 GGATATGATA
52976336 CACATGATTGATATGATATG
1 CACATGATTG-TATGATATG
*
52976356 CACATGACATGTATGATATG
1 CACATGA-TTGTATGATATG
*
52976376 CACATGATATGTATGAAATG
1 CACATGAT-TGTATGATATG
52976396 CACATGA-TGTAT
1 CACATGATTGTAT
52976408 TCATAAATGC
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
18 5 0.11
20 40 0.85
21 2 0.04
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.32
Consensus pattern (19 bp):
CACATGATTGTATGATATG
Found at i:52976513 original size:25 final size:26
Alignment explanation
Indices: 52976452--52976522 Score: 110
Period size: 26 Copynumber: 2.8 Consensus size: 26
52976442 GAAGGAAGTG
52976452 CAAAAGGGCTTATGCCCCAGTTTATT
1 CAAAAGGGCTTATGCCCCAGTTTATT
* *
52976478 GAAAAGGGCTTATGCCCCATTTTA-T
1 CAAAAGGGCTTATGCCCCAGTTTATT
52976503 CAAAAGGGCTT-TGCCCCAGT
1 CAAAAGGGCTTATGCCCCAGT
52976523 AATTAAAAGA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
24 8 0.20
25 11 0.27
26 22 0.54
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (26 bp):
CAAAAGGGCTTATGCCCCAGTTTATT
Found at i:52982174 original size:43 final size:42
Alignment explanation
Indices: 52982110--52982232 Score: 131
Period size: 43 Copynumber: 2.9 Consensus size: 42
52982100 CAGAAAGCTC
* * *
52982110 ATACGATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAG
1 ATACGATGCCAATGTCCCAGACGTGGTCTTACAAGTAATCAA
** * **
52982152 ATATCGATGCCTCTTTCCCAGACAG-GGTCTTACAAAAAATCAA
1 ATA-CGATGCCAATGTCCCAGAC-GTGGTCTTACAAGTAATCAA
* *
52982195 ATACGATGCCAATGTCCCAGACATGGTCTTACACGTAA
1 ATACGATGCCAATGTCCCAGACGTGGTCTTACAAGTAA
52982233 ATTATAAGTC
Statistics
Matches: 63, Mismatches: 15, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
42 30 0.48
43 32 0.51
44 1 0.02
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (42 bp):
ATACGATGCCAATGTCCCAGACGTGGTCTTACAAGTAATCAA
Found at i:52993069 original size:710 final size:711
Alignment explanation
Indices: 52991704--52993128 Score: 2773
Period size: 710 Copynumber: 2.0 Consensus size: 711
52991694 TAAAAGCCAA
*
52991704 TTTTTGCTCATCCTCTTCTCCCATGGCTGAATATCCCTAAGGAAGACATAGTCAGGGTTTGTTCA
1 TTTTTGCTCATCCTCTTCTCCCATGGCTGAATATCCCTAAGAAAGACATAGTCAGGGTTTGTTCA
* *
52991769 TCTTCCAAGGTCGATTGTATGTCCGTTCTTGCCCCTTTTTTAATACTCTTTACATTTTTGAAGTC
66 TCTTCCAAGCTCGATTGTATGTCCGTTCTTGCCCCTTTTTTAATACTCTTTACATTTTTAAAGTC
*
52991834 GTTGTAACCCGATCTATCTATTTCTACCACTGATTTAAGAAATAATCAAAGTCTAAAATTTTACC
131 GTTGTAACCCGATCTATCTATTTCTACCACTAATTTAAGAAATAATCAAAGTCTAAAATTTTACC
52991899 CATGATAGATATTTGTGTATTTTGATGCCTAATGATAGCAAATGTATGTTAGATGGAAGATAAAC
196 CATGATAGATATTTGTGTATTTTGATGCCTAATGATAGCAAATGTATGTTAGATGGAAGATAAAC
52991964 AACTTTTGCTAGGTGATTTTTGAATGAAATGTCAAAAAGGACCTATTTGTAAAAGTTAAAAAAAT
261 AACTTTTGCTAGGTGATTTTTGAATGAAATGTCAAAAAGGACCTATTTGTAAAAGTTAAAAAAAT
52992029 GAGTAGTGAAAGTGTGATTAAATGAAAATGTATGCTGGTATAAGTATGAAAATAGTTCAGCTAGG
326 GAGTAGTGAAAGTGTGATTAAATGAAAATGTATGCTGGTATAAGTATGAAAATAGTTCAGCTAGG
52992094 CTTGGGTTTTGAAGAAATTGAATACATTTCATTTTACGAGCTTAGGGACTAAATCGTAAAAATGT
391 CTTGGGTTTTGAAGAAATTGAATACATTTCATTTTACGAGCTTAGGGACTAAATCGTAAAAATGT
52992159 GAAACATTAAGGGCAAAAATGTAATTTTTGCCATAATATGATTTTTGGACTGAATTGAACAATGT
456 GAAACATTAAGGGCAAAAATGTAATTTTTGCCATAATATGATTTTTGGACTGAATTGAACAATGT
52992224 GAATATTAAATGAGTTAAATTTTTCATTATAGATCAAGAACAATGAGGTTAGAACCTAGATCGGG
521 GAATATTAAATGAGTTAAATTTTTCATTATAGATCAAGAACAATGAGGTTAGAACCTAGATCGGG
52992289 GGAAAAATAAAGTGTTTGACGATTAGGTCCAATTCTACTATTTTTGTATCAAGGTAAGTTCGTAT
586 GGAAAAATAAAGTGTTTGACGATTAGGTCCAATTCTACTATTTTTGTATCAAGGTAAGTTCGTAT
52992354 GTAAATAATGCATTGTTATATTTATGTTAAATGCATTAATATTGTATGAATTGTGATTGAC
651 GTAAATAATGCATTGTTATATTTATGTTAAATGCATTAATATTGTATGAATTGTGATTGAC
52992415 TTTTT-CTCATCCTCTTCTCCCATGGCTGAATATCCCTAAGAAAGACATAGTCAGGGTTTGTTCA
1 TTTTTGCTCATCCTCTTCTCCCATGGCTGAATATCCCTAAGAAAGACATAGTCAGGGTTTGTTCA
*
52992479 TCTTCCAAGCTCGATTGTATGTTCGTTCTTGCCCCTTTTTTAATACTCTTTACATTTTTAAAGTC
66 TCTTCCAAGCTCGATTGTATGTCCGTTCTTGCCCCTTTTTTAATACTCTTTACATTTTTAAAGTC
*
52992544 GTTGTAACCCGATCTATCTATTTCTACCACTAATTTAAGAAATAATCAAAGTCTAAATTTTTACC
131 GTTGTAACCCGATCTATCTATTTCTACCACTAATTTAAGAAATAATCAAAGTCTAAAATTTTACC
52992609 CATGATAGATATTTGTGTATTTTGATGCCTAATGATAGCAAATGTATGTTAGATGGAAGATAAAC
196 CATGATAGATATTTGTGTATTTTGATGCCTAATGATAGCAAATGTATGTTAGATGGAAGATAAAC
52992674 AACTTTTGCTAGGTGATTTTTGAATGAAATGTCAAAAAGGACCTATTTGTAAAAGTTAAAAAAAT
261 AACTTTTGCTAGGTGATTTTTGAATGAAATGTCAAAAAGGACCTATTTGTAAAAGTTAAAAAAAT
52992739 GAGTAGTGAAAGTGTGATTAAATGAAAAATGTATGCTGGTATAAGTATGAAAATAGTTCAGCTAG
326 GAGTAGTGAAAGTGTGATTAAATG-AAAATGTATGCTGGTATAAGTATGAAAATAGTTCAGCTAG
52992804 GCTTGGGTTTTGAAGAAATTGAATACATTTCATTTTACGAGCTTAGGGACTAAATCGTAAAAATG
390 GCTTGGGTTTTGAAGAAATTGAATACATTTCATTTTACGAGCTTAGGGACTAAATCGTAAAAATG
52992869 TGAAACATTAAGGGCAAAAATGTAATTTTTGCCATAATATGATTTTTGGACTGAATTGAACAATG
455 TGAAACATTAAGGGCAAAAATGTAATTTTTGCCATAATATGATTTTTGGACTGAATTGAACAATG
52992934 TGAATATTAAATGAGTTAAATTTTTCATTATAGATCAAGAACAATGAGGTTAGAACCTAGATCGG
520 TGAATATTAAATGAGTTAAATTTTTCATTATAGATCAAGAACAATGAGGTTAGAACCTAGATCGG
52992999 GGGAAAAATAAAGTGTTTGACGATTAGGTCCAATTCTACTATTTTTGTATCAAGGTAAGTT-GTA
585 GGGAAAAATAAAGTGTTTGACGATTAGGTCCAATTCTACTATTTTTGTATCAAGGTAAGTTCGTA
52993063 TGTAAATAATGCATTGTTATATTTATGTTAAATGCATTAATATTGTATGAATTGTGATTGAC
650 TGTAAATAATGCATTGTTATATTTATGTTAAATGCATTAATATTGTATGAATTGTGATTGAC
52993125 TTTT
1 TTTT
52993129 GGGATGTATT
Statistics
Matches: 707, Mismatches: 6, Indels: 3
0.99 0.01 0.00
Matches are distributed among these distances:
710 406 0.57
711 301 0.43
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (711 bp):
TTTTTGCTCATCCTCTTCTCCCATGGCTGAATATCCCTAAGAAAGACATAGTCAGGGTTTGTTCA
TCTTCCAAGCTCGATTGTATGTCCGTTCTTGCCCCTTTTTTAATACTCTTTACATTTTTAAAGTC
GTTGTAACCCGATCTATCTATTTCTACCACTAATTTAAGAAATAATCAAAGTCTAAAATTTTACC
CATGATAGATATTTGTGTATTTTGATGCCTAATGATAGCAAATGTATGTTAGATGGAAGATAAAC
AACTTTTGCTAGGTGATTTTTGAATGAAATGTCAAAAAGGACCTATTTGTAAAAGTTAAAAAAAT
GAGTAGTGAAAGTGTGATTAAATGAAAATGTATGCTGGTATAAGTATGAAAATAGTTCAGCTAGG
CTTGGGTTTTGAAGAAATTGAATACATTTCATTTTACGAGCTTAGGGACTAAATCGTAAAAATGT
GAAACATTAAGGGCAAAAATGTAATTTTTGCCATAATATGATTTTTGGACTGAATTGAACAATGT
GAATATTAAATGAGTTAAATTTTTCATTATAGATCAAGAACAATGAGGTTAGAACCTAGATCGGG
GGAAAAATAAAGTGTTTGACGATTAGGTCCAATTCTACTATTTTTGTATCAAGGTAAGTTCGTAT
GTAAATAATGCATTGTTATATTTATGTTAAATGCATTAATATTGTATGAATTGTGATTGAC
Found at i:52993664 original size:11 final size:11
Alignment explanation
Indices: 52993648--52993672 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
52993638 AATCTTCATC
52993648 ATGTTAATTGT
1 ATGTTAATTGT
52993659 ATGTTAATTGT
1 ATGTTAATTGT
52993670 ATG
1 ATG
52993673 GTTATGATGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.20, T:0.52
Consensus pattern (11 bp):
ATGTTAATTGT
Found at i:52996564 original size:49 final size:48
Alignment explanation
Indices: 52996486--52996636 Score: 144
Period size: 49 Copynumber: 3.1 Consensus size: 48
52996476 AGATCACCTA
* * *
52996486 CTCCTAGATGTTTGGGGAGGCTTACGAAAGGTAATAAATTTGGCCTTG
1 CTCCTAGATGTATGGGGAAGCTTATGAAAGGTAATAAATTTGGCCTTG
* *
52996534 CTTCTAGATGTATGAGGGAAGCTTATGAAAGGTAA-AAATAGTT-ACCTTG
1 CTCCTAGATGTATG-GGGAAGCTTATGAAAGGTAATAAAT--TTGGCCTTG
* * * * **
52996583 CTCCCAAATGCATGGGGGACGACTTATGAATTGTAATAAATTTGGCCTTG
1 CTCCTAGATGTAT-GGGGAAG-CTTATGAAAGGTAATAAATTTGGCCTTG
52996633 CTCC
1 CTCC
52996637 CAACCGTATT
Statistics
Matches: 83, Mismatches: 13, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
48 16 0.19
49 39 0.47
50 24 0.29
51 4 0.05
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.30
Consensus pattern (48 bp):
CTCCTAGATGTATGGGGAAGCTTATGAAAGGTAATAAATTTGGCCTTG
Found at i:52998795 original size:13 final size:13
Alignment explanation
Indices: 52998777--52998801 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
52998767 GAATTAGTAT
52998777 GTATGAAAATTTC
1 GTATGAAAATTTC
52998790 GTATGAAAATTT
1 GTATGAAAATTT
52998802 GATCATTTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.04, G:0.16, T:0.40
Consensus pattern (13 bp):
GTATGAAAATTTC
Found at i:52999374 original size:27 final size:28
Alignment explanation
Indices: 52999344--52999398 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 28
52999334 TTGATGAATT
* * *
52999344 TGAGTAATTTGGG-CTAAATTGTGAAAA
1 TGAGAAATTGGGGACTAAAATGTGAAAA
52999371 TGAGAAATTGGGGTACTAAAATGTGAAA
1 TGAGAAATTGGGG-ACTAAAATGTGAAA
52999399 TAAATGAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 11 0.48
29 12 0.52
ACGTcount: A:0.40, C:0.04, G:0.27, T:0.29
Consensus pattern (28 bp):
TGAGAAATTGGGGACTAAAATGTGAAAA
Found at i:53011222 original size:47 final size:47
Alignment explanation
Indices: 53011171--53011408 Score: 395
Period size: 47 Copynumber: 5.1 Consensus size: 47
53011161 GATTTTATGA
53011171 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
* * *
53011218 GATGAATGTAAACATGCATATATGTGCTAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
* *
53011265 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGACCAATGT
1 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
53011312 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
* ** *
53011359 GATGATTGTGAACATGCATATGTGTGATAAGGTAGAATGGCTAATGT
1 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
53011406 GAT
1 GAT
53011409 AAACGTGGAA
Statistics
Matches: 179, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 179 1.00
ACGTcount: A:0.33, C:0.12, G:0.28, T:0.27
Consensus pattern (47 bp):
GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
Found at i:53011441 original size:94 final size:94
Alignment explanation
Indices: 53011171--53011454 Score: 401
Period size: 94 Copynumber: 3.0 Consensus size: 94
53011161 GATTTTATGA
*
53011171 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTAAACATGCA
1 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCA
53011236 TATATGTGCTAAGGCCGAATGGCCAATGT
66 TATATGTGCTAAGGCCGAATGGCCAATGT
* *
53011265 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGACCAATGTGATGAATGTGAACATGCA
1 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCA
* *
53011330 TATGTGTGATAAGGCCGAATGGCCAATGT
66 TATATGTGCTAAGGCCGAATGGCCAATGT
* ** * * * * *
53011359 GATGATTGTGAACATGCATATGTGTGATAAGGTAGAATGGCTAATGTGATAAACGTGGAA-GTGT
1 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGT-GAACATGC
* *
53011423 ATATATGTGGCGAA-GCCGAATGGCTAATGT
65 ATATATGT-GCTAAGGCCGAATGGCCAATGT
53011453 GA
1 GA
53011455 GATATGTATG
Statistics
Matches: 169, Mismatches: 19, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
94 163 0.96
95 6 0.04
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (94 bp):
GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCA
TATATGTGCTAAGGCCGAATGGCCAATGT
Found at i:53011441 original size:141 final size:141
Alignment explanation
Indices: 53011171--53011454 Score: 401
Period size: 141 Copynumber: 2.0 Consensus size: 141
53011161 GATTTTATGA
53011171 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTAAACATGCA
1 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTAAACATGCA
* * * * *
53011236 TATATGTGCTAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGA
66 TATATGTGATAAGGCAGAATGGCCAATGTGATAAACGTGAACATGCATATATGTGAGAAGGCCGA
53011301 ATGACCAATGT
131 ATGACCAATGT
* *
53011312 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGATTGTGAACATGCA
1 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTAAACATGCA
* * * * * *
53011377 TATGTGTGATAAGGTAGAATGGCTAATGTGATAAACGTGGAA-GTGTATATATGTGGCGAA-GCC
66 TATATGTGATAAGGCAGAATGGCCAATGTGATAAACGT-GAACATGCATATATGT-GAGAAGGCC
* *
53011440 GAATGGCTAATGT
129 GAATGACCAATGT
53011453 GA
1 GA
53011455 GATATGTATG
Statistics
Matches: 126, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
141 120 0.95
142 6 0.05
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (141 bp):
GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTAAACATGCA
TATATGTGATAAGGCAGAATGGCCAATGTGATAAACGTGAACATGCATATATGTGAGAAGGCCGA
ATGACCAATGT
Found at i:53019424 original size:44 final size:44
Alignment explanation
Indices: 53019356--53019447 Score: 166
Period size: 44 Copynumber: 2.1 Consensus size: 44
53019346 ACAACAATAA
* *
53019356 ATGACCTATCTATGAAGAACAAAGGTTACAAATCGAGGAGCTAG
1 ATGACCTATCTATGAAGAAAAAAGGTTACAAATCGAGCAGCTAG
53019400 ATGACCTATCTATGAAGAAAAAAGGTTACAAATCGAGCAGCTAG
1 ATGACCTATCTATGAAGAAAAAAGGTTACAAATCGAGCAGCTAG
53019444 ATGA
1 ATGA
53019448 ATGGCAGACA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.42, C:0.15, G:0.22, T:0.21
Consensus pattern (44 bp):
ATGACCTATCTATGAAGAAAAAAGGTTACAAATCGAGCAGCTAG
Found at i:53029439 original size:42 final size:42
Alignment explanation
Indices: 53029360--53029441 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
53029350 GGTGTAGGGG
* **
53029360 ACACACGGCCATATCACACGCCCATGTGGCGGTCCGTGTGTC
1 ACACACGGCCATAACACACGCCCATGTGGCGACCCGTGTGTC
* *
53029402 ACACACGGCC-TAGACACACGCCCGTGTGGCTACCCGTGTG
1 ACACACGGCCATA-ACACACGCCCATGTGGCGACCCGTGTG
53029442 AACCTTGTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
41 2 0.06
42 32 0.94
ACGTcount: A:0.20, C:0.37, G:0.27, T:0.17
Consensus pattern (42 bp):
ACACACGGCCATAACACACGCCCATGTGGCGACCCGTGTGTC
Found at i:53036908 original size:27 final size:27
Alignment explanation
Indices: 53036863--53037088 Score: 229
Period size: 27 Copynumber: 8.4 Consensus size: 27
53036853 AGACTAAAGC
* *
53036863 CCCTTATGTGATAAGATGACTATTTTG
1 CCCTTATGTGGTAAAATGACTATTTTG
* *
53036890 CCTTTATATGGTAAAATGACTATTTTG
1 CCCTTATGTGGTAAAATGACTATTTTG
* *
53036917 CCCTCATGTGGTAAAATGACTGTTTTG
1 CCCTTATGTGGTAAAATGACTATTTTG
53036944 CCCTTATGTGGTAAAATGACTATTTTG
1 CCCTTATGTGGTAAAATGACTATTTTG
* * * * * *
53036971 CCCTTACGTGGCAAAATAAGTGTTTTT
1 CCCTTATGTGGTAAAATGACTATTTTG
* * * * ** *
53036998 CTCTCATGTGGTAAGATGAATGCTTTA
1 CCCTTATGTGGTAAAATGACTATTTTG
* *
53037025 CCCTTATGTGATAAAATTACTATTTTG
1 CCCTTATGTGGTAAAATGACTATTTTG
* *
53037052 CCCTTATGTGGTAAAATAACTGTTTTGG
1 CCCTTATGTGGTAAAATGACTATTTT-G
53037080 CCC-TATGTG
1 CCCTTATGTG
53037089 ATATATGTTT
Statistics
Matches: 161, Mismatches: 37, Indels: 2
0.81 0.19 0.01
Matches are distributed among these distances:
27 157 0.98
28 4 0.02
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.40
Consensus pattern (27 bp):
CCCTTATGTGGTAAAATGACTATTTTG
Found at i:53036963 original size:81 final size:81
Alignment explanation
Indices: 53036863--53037088 Score: 292
Period size: 81 Copynumber: 2.8 Consensus size: 81
53036853 AGACTAAAGC
* * * * *
53036863 CCCTTATGTGATAAGATGACTATTTTGCCTTTATATGGTAAAATGACTATTTTGCCCTCATGTGG
1 CCCTTATGTGATAAAATGACTATTTTGCCCTTATGTGGTAAAATAACTGTTTTGCCCTCATGTGG
* * *
53036928 TAAAATGACTGTTTTG
66 TAAAATGAATGCTTTA
* * * * * *
53036944 CCCTTATGTGGTAAAATGACTATTTTGCCCTTACGTGGCAAAATAAGTGTTTTTCTCTCATGTGG
1 CCCTTATGTGATAAAATGACTATTTTGCCCTTATGTGGTAAAATAACTGTTTTGCCCTCATGTGG
*
53037009 TAAGATGAATGCTTTA
66 TAAAATGAATGCTTTA
*
53037025 CCCTTATGTGATAAAATTACTATTTTGCCCTTATGTGGTAAAATAACTGTTTTGGCCCT-ATGTG
1 CCCTTATGTGATAAAATGACTATTTTGCCCTTATGTGGTAAAATAACTGTTTT-GCCCTCATGTG
53037089 ATATATGTTT
Statistics
Matches: 122, Mismatches: 22, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
81 119 0.98
82 3 0.02
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.40
Consensus pattern (81 bp):
CCCTTATGTGATAAAATGACTATTTTGCCCTTATGTGGTAAAATAACTGTTTTGCCCTCATGTGG
TAAAATGAATGCTTTA
Found at i:53039815 original size:42 final size:42
Alignment explanation
Indices: 53039717--53039829 Score: 104
Period size: 42 Copynumber: 2.7 Consensus size: 42
53039707 AAAGCCTGAA
* * * * *
53039717 GGTTGAACAGAAGCTC-ATGAGAACTAAACAGAAACCCATAAG
1 GGTTAAACAAAAGCTCAAT-AGAGCTGAACAAAAACCCATAAG
* *** *
53039759 GGTTGAATGGAAGCTC-TTAAGAGCTGAACAAAAACCCATAAG
1 GGTTAAACAAAAGCTCAAT-AGAGCTGAACAAAAACCCATAAG
53039801 GGTTAAACAAAAGCTCAATAGAGCTGAAC
1 GGTTAAACAAAAGCTCAATAGAGCTGAAC
53039830 GTGTAACATC
Statistics
Matches: 58, Mismatches: 12, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
42 57 0.98
43 1 0.02
ACGTcount: A:0.43, C:0.18, G:0.22, T:0.17
Consensus pattern (42 bp):
GGTTAAACAAAAGCTCAATAGAGCTGAACAAAAACCCATAAG
Found at i:53057296 original size:43 final size:45
Alignment explanation
Indices: 53057247--53057349 Score: 133
Period size: 45 Copynumber: 2.4 Consensus size: 45
53057237 GGTATTTCGC
* * *
53057247 CTGCTAGGCTCG-AGGCCCGA-TA-TCATTTCACCGGCATTATAGT
1 CTGCTAGGCTCGAAAGCCCGATTAGT-ATCTCACCGACATTATAGT
53057290 CTGCTAGGCTCGAAAGCCCGATTAGTATCTCACCGACATTATAGT
1 CTGCTAGGCTCGAAAGCCCGATTAGTATCTCACCGACATTATAGT
*
53057335 CTGCTAAGCTC-AAAG
1 CTGCTAGGCTCGAAAG
53057350 GCTCGAATAA
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
43 12 0.23
44 11 0.21
45 29 0.55
46 1 0.02
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (45 bp):
CTGCTAGGCTCGAAAGCCCGATTAGTATCTCACCGACATTATAGT
Found at i:53057753 original size:43 final size:43
Alignment explanation
Indices: 53057688--53057885 Score: 324
Period size: 43 Copynumber: 4.6 Consensus size: 43
53057678 CCGGCATTAC
* *
53057688 GCCTGCTAGGCACGAAGGCCCGAATACACATCATCAGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* * * *
53057731 GCCTGTTAGGCACGAAGACCCGAATACACACCACCGGCATGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
53057774 GCCTGCTAGGCACGAAGGCCGGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
53057817 GCCTCCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
53057860 GCCTGCTAGGCACGAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
53057886 TAATACCAGC
Statistics
Matches: 141, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 141 1.00
ACGTcount: A:0.31, C:0.33, G:0.25, T:0.11
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:53057827 original size:86 final size:86
Alignment explanation
Indices: 53057676--53057897 Score: 331
Period size: 86 Copynumber: 2.6 Consensus size: 86
53057666 CATATCATTT
* * * **
53057676 CACCGGCATTACGCCTGCTAGGCACGAAGGCCCGAATACACATCATCAGCACGAAGCCTGTTAGG
1 CACCGGCATGAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACGAAGCCTCCTAGG
53057741 CACGAAGACCCGAATACACAC
66 CACGAAGACCCGAATACACAC
* *
53057762 CACCGGCATGAAGCCTGCTAGGCACGAAGGCCGGAATACACATCACCGGCACGAAGCCTCCTAGG
1 CACCGGCATGAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACGAAGCCTCCTAGG
* *
53057827 CACGAAGGCCCGAATACACAT
66 CACGAAGACCCGAATACACAC
* *
53057848 CACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATATA-AT-ACCAGCAC
1 CACCGGCATGAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCAC
53057898 TAGGCCTGCG
Statistics
Matches: 123, Mismatches: 13, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
84 7 0.06
85 2 0.02
86 114 0.93
ACGTcount: A:0.31, C:0.34, G:0.24, T:0.11
Consensus pattern (86 bp):
CACCGGCATGAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACGAAGCCTCCTAGG
CACGAAGACCCGAATACACAC
Found at i:53057931 original size:38 final size:39
Alignment explanation
Indices: 53057878--53057998 Score: 138
Period size: 39 Copynumber: 3.1 Consensus size: 39
53057868 GGCACGAAGG
* * * * *
53057878 CCCGAATATAATACCAGCACTAGGCCTGC-GAG-ATTTAT
1 CCCGGATATATTACCAGCACAAAGCCTGCAG-GTATTTAA
*
53057916 CCCGGATATATTACCAGCACAAAGCCTGCAGGTCTTTAA
1 CCCGGATATATTACCAGCACAAAGCCTGCAGGTATTTAA
* *
53057955 CCCGGATATATTACCAGCACGAAGCCTGCAGGTCTTTAA
1 CCCGGATATATTACCAGCACAAAGCCTGCAGGTATTTAA
53057994 GCCCG
1 -CCCG
53057999 AATTCACATC
Statistics
Matches: 73, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
38 26 0.36
39 43 0.59
40 4 0.05
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (39 bp):
CCCGGATATATTACCAGCACAAAGCCTGCAGGTATTTAA
Found at i:53057969 original size:39 final size:39
Alignment explanation
Indices: 53057911--53057998 Score: 149
Period size: 39 Copynumber: 2.2 Consensus size: 39
53057901 GCCTGCGAGA
*
53057911 TTTATCCCGGATATATTACCAGCACAAAGCCTGCAGGTC
1 TTTAACCCGGATATATTACCAGCACAAAGCCTGCAGGTC
*
53057950 TTTAACCCGGATATATTACCAGCACGAAGCCTGCAGGTC
1 TTTAACCCGGATATATTACCAGCACAAAGCCTGCAGGTC
53057989 TTTAAGCCCG
1 TTTAA-CCCG
53057999 AATTCACATC
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
39 42 0.91
40 4 0.09
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.25
Consensus pattern (39 bp):
TTTAACCCGGATATATTACCAGCACAAAGCCTGCAGGTC
Found at i:53087869 original size:79 final size:81
Alignment explanation
Indices: 53087733--53087917 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
53087723 TTGAATGATG
*
53087733 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
53087797 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
53087812 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
53087874 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
53087892 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
53087918 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:53087931 original size:40 final size:40
Alignment explanation
Indices: 53087734--53087917 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
53087724 TGAATGATGT
* * * *
53087734 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
53087774 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
53087814 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
53087852 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
53087893 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
53087918 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:53087939 original size:79 final size:79
Alignment explanation
Indices: 53087786--53087950 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
53087776 GGACTAAGAT
* **
53087786 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
53087851 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
53087865 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
53087928 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
53087944 CCGAAGG
1 CCGAAGG
53087951 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:53091984 original size:41 final size:41
Alignment explanation
Indices: 53091927--53092111 Score: 225
Period size: 41 Copynumber: 4.6 Consensus size: 41
53091917 CGAGCTTGGG
* *
53091927 TTCGAAGGGCTTTTGAGCCAGTGCTAATAACTGAACTTAAT
1 TTCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGT
53091968 TTCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGT
1 TTCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGT
* * *
53092009 TTCGAAGGGCTTTTGAGCCAGTG-TCATAACCGGACTTGGT
1 TTCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGT
* * * * *
53092049 TCCGAAGGGCCTTCGAGCCAGTGGCCTAAT--CCGAGCTTGGT
1 TTCGAAGGGCTTTTGAGCCAGT-G-CTAATAACCGAACTTAGT
*
53092090 CTCGAAGGGC-TTTGAGCCAGTG
1 TTCGAAGGGCTTTTGAGCCAGTG
53092112 TTAAGAATCG
Statistics
Matches: 127, Mismatches: 14, Indels: 8
0.85 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 43 0.34
41 80 0.63
43 3 0.02
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.28
Consensus pattern (41 bp):
TTCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGT
Found at i:53092095 original size:81 final size:78
Alignment explanation
Indices: 53091913--53092112 Score: 231
Period size: 81 Copynumber: 2.5 Consensus size: 78
53091903 TCGGGGTGTA
* *
53091913 AATCCGAGCTTGGGTTCGAAGGGCTTTTGAGCCAGTGCTAATAACTGAACTTAATTTCGAAGGGC
1 AATCCGAGCTT-GGTTCGAAGGGCTTTTGAGCCAGTG-TAATAACCGAACTTAATTCCGAAGGGC
* *
53091978 TTTTGAGCCAGTGCT
64 CTTCGAGCCAGTGCT
* * * * **
53091993 AATAACCGAACTTAGTTTCGAAGGGCTTTTGAGCCAGTGTCATAACCGGACTTGGTTCCGAAGGG
1 AAT--CCGAGCTT-GGTTCGAAGGGCTTTTGAGCCAGTGTAATAACCGAACTTAATTCCGAAGGG
53092058 CCTTCGAGCCAGTGGCCT
63 CCTTCGAGCCAGT-G-CT
53092076 AATCCGAGCTTGGTCTCGAAGGGC-TTTGAGCCAGTGT
1 AATCCGAGCTTGGT-TCGAAGGGCTTTTGAGCCAGTGT
53092113 TAAGAATCGT
Statistics
Matches: 102, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
80 18 0.18
81 47 0.46
82 32 0.31
83 5 0.05
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (78 bp):
AATCCGAGCTTGGTTCGAAGGGCTTTTGAGCCAGTGTAATAACCGAACTTAATTCCGAAGGGCCT
TCGAGCCAGTGCT
Found at i:53092138 original size:81 final size:78
Alignment explanation
Indices: 53091913--53092138 Score: 226
Period size: 81 Copynumber: 2.8 Consensus size: 78
53091903 TCGGGGTGTA
* *
53091913 AATCCGAGCTTGGGTTCGAAGGGCTTTTGAGCCAGTGCTAATAAC-TGAACTTAATTTCGAAGGG
1 AATCCGAGCTT-GGTTCGAAGGGCTTTTGAGCCAGTG-TAATAACGTG-ACTTGATTCCGAAGGG
* *
53091977 CTTTTGAGCCAGTGCT
63 CCTTCGAGCCAGTGCT
* * * *
53091993 AATAACCGAACTTAGTTTCGAAGGGCTTTTGAGCCAGTGTCATAACCG-GACTTGGTTCCGAAGG
1 AAT--CCGAGCTT-GGTTCGAAGGGCTTTTGAGCCAGTGTAATAA-CGTGACTTGATTCCGAAGG
53092057 GCCTTCGAGCCAGTGGCCT
62 GCCTTCGAGCCAGT-G-CT
* *
53092076 AATCCGAGCTTGGTCTCGAAGGGC-TTTGAGCCAGTGTTAAGAATCGTG-CTTGATTCCAAAGGG
1 AATCCGAGCTTGGT-TCGAAGGGCTTTTGAGCCAGTG-TAATAA-CGTGACTTGATTCCGAAGGG
53092139 TGGTTGTGCT
Statistics
Matches: 121, Mismatches: 16, Indels: 17
0.79 0.10 0.11
Matches are distributed among these distances:
80 17 0.14
81 64 0.53
82 35 0.29
83 5 0.04
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.27
Consensus pattern (78 bp):
AATCCGAGCTTGGTTCGAAGGGCTTTTGAGCCAGTGTAATAACGTGACTTGATTCCGAAGGGCCT
TCGAGCCAGTGCT
Found at i:53094006 original size:48 final size:48
Alignment explanation
Indices: 53093948--53094041 Score: 134
Period size: 48 Copynumber: 2.0 Consensus size: 48
53093938 ATGTCTCATA
* *
53093948 TCGATGCCAATGCCATATCCCAAATATGGTCTTACATGGGATCACATG
1 TCGATACCAATGCCATATCCCAAACATGGTCTTACATGGGATCACATG
* * **
53093996 TCGATACCAATGCCATGTCCCAGACATGGTCTTGTATGGGATCACA
1 TCGATACCAATGCCATATCCCAAACATGGTCTTACATGGGATCACA
53094042 CATAACCCTA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 40 1.00
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.27
Consensus pattern (48 bp):
TCGATACCAATGCCATATCCCAAACATGGTCTTACATGGGATCACATG
Found at i:53106679 original size:15 final size:14
Alignment explanation
Indices: 53106659--53106721 Score: 54
Period size: 15 Copynumber: 4.3 Consensus size: 14
53106649 GAGAAACCTA
53106659 AAATAAAGAAATCC
1 AAATAAAGAAATCC
*
53106673 AACATAAATAAATCCC
1 AA-ATAAAGAAAT-CC
* *
53106689 AAATAGAGAAGTCC
1 AAATAAAGAAATCC
* *
53106703 AATATAAGGAAATCG
1 AA-ATAAAGAAATCC
53106718 AAAT
1 AAAT
53106722 TACAATACCG
Statistics
Matches: 38, Mismatches: 8, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
14 8 0.21
15 26 0.68
16 4 0.11
ACGTcount: A:0.57, C:0.14, G:0.11, T:0.17
Consensus pattern (14 bp):
AAATAAAGAAATCC
Found at i:53106716 original size:30 final size:30
Alignment explanation
Indices: 53106659--53106716 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
53106649 GAGAAACCTA
*
53106659 AAATAAAGAAATCCAACATAAATAAATCCC
1 AAATAAAGAAATCCAACATAAAGAAATCCC
* * * *
53106689 AAATAGAGAAGTCCAATATAAGGAAATC
1 AAATAAAGAAATCCAACATAAAGAAATC
53106717 GAAATTACAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.57, C:0.16, G:0.10, T:0.17
Consensus pattern (30 bp):
AAATAAAGAAATCCAACATAAAGAAATCCC
Found at i:53122615 original size:28 final size:28
Alignment explanation
Indices: 53122575--53122631 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
53122565 AAAGGAGGGA
53122575 GTAAGCTTTACTCTTAGTAAATCCATAT
1 GTAAGCTTTACTCTTAGTAAATCCATAT
53122603 GTAAGCTTTACTCTTAGTAAATCCATAT
1 GTAAGCTTTACTCTTAGTAAATCCATAT
53122631 G
1 G
53122632 AAAATAATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.39
Consensus pattern (28 bp):
GTAAGCTTTACTCTTAGTAAATCCATAT
Found at i:53128165 original size:13 final size:13
Alignment explanation
Indices: 53128147--53128171 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
53128137 CCGTGTCCCT
53128147 CACACGGCCGTGA
1 CACACGGCCGTGA
53128160 CACACGGCCGTG
1 CACACGGCCGTG
53128172 TCTCTGCCCG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.40, G:0.32, T:0.08
Consensus pattern (13 bp):
CACACGGCCGTGA
Found at i:53128411 original size:13 final size:13
Alignment explanation
Indices: 53128393--53128419 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
53128383 CATCCTACAT
53128393 AGCATAATTGAGC
1 AGCATAATTGAGC
53128406 AGCATAATTGAGC
1 AGCATAATTGAGC
53128419 A
1 A
53128420 CTTACACATT
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:0.41, C:0.15, G:0.22, T:0.22
Consensus pattern (13 bp):
AGCATAATTGAGC
Found at i:53136087 original size:13 final size:13
Alignment explanation
Indices: 53136069--53136095 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
53136059 CATCCTACAT
53136069 AGCATAATTGAGC
1 AGCATAATTGAGC
53136082 AGCATAATTGAGC
1 AGCATAATTGAGC
53136095 A
1 A
53136096 CTTACACATT
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:0.41, C:0.15, G:0.22, T:0.22
Consensus pattern (13 bp):
AGCATAATTGAGC
Found at i:53137757 original size:25 final size:25
Alignment explanation
Indices: 53137723--53137772 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
53137713 AAAAACCACT
53137723 TAGTAAAAGATGTTTATCATACATC
1 TAGTAAAAGATGTTTATCATACATC
53137748 TAGTAAAAGATGTTTATCATACATC
1 TAGTAAAAGATGTTTATCATACATC
53137773 AAACTTTCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.36
Consensus pattern (25 bp):
TAGTAAAAGATGTTTATCATACATC
Found at i:53138405 original size:20 final size:21
Alignment explanation
Indices: 53138361--53138405 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
53138351 AGCAACTTAA
*
53138361 AAAAAACTTTAAATTGTCTCT
1 AAAATACTTTAAATTGTCTCT
*
53138382 -AAATACTTTTAATTGTC-CT
1 AAAATACTTTAAATTGTCTCT
53138401 AAAAT
1 AAAAT
53138406 TGTATTATTG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
19 2 0.10
20 19 0.90
ACGTcount: A:0.42, C:0.13, G:0.04, T:0.40
Consensus pattern (21 bp):
AAAATACTTTAAATTGTCTCT
Found at i:53139812 original size:3 final size:3
Alignment explanation
Indices: 53139806--53139834 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
53139796 TTGGTTGTTG
53139806 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
53139835 TAGAACAGGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:53142526 original size:23 final size:24
Alignment explanation
Indices: 53142494--53142628 Score: 98
Period size: 23 Copynumber: 5.7 Consensus size: 24
53142484 CGTTGCATGA
53142494 CTCTTTGTGAGCTTCCTGATA-GG
1 CTCTTTGTGAGCTTCCTGATATGG
* *
53142517 CTCTTCGTGAGCTTCCCGATATGG
1 CTCTTTGTGAGCTTCCTGATATGG
* * *
53142541 TTCTTTGTGAACTTCCTAATTATGG
1 CTCTTTGTGAGCTTCCTGA-TATGG
* * *
53142566 CTC-TTATGAGCTTCCCGTTATATAG
1 CTCTTTGTGAGCTT-CC-TGATATGG
* * * *
53142591 CTC-TTATAAGTTTCCTGATA-GA
1 CTCTTTGTGAGCTTCCTGATATGG
*
53142613 CTCTTTATGAGCTTCC
1 CTCTTTGTGAGCTTCC
53142629 CGCTACAAGG
Statistics
Matches: 88, Mismatches: 19, Indels: 10
0.75 0.16 0.09
Matches are distributed among these distances:
22 3 0.03
23 33 0.38
24 26 0.30
25 24 0.27
26 2 0.02
ACGTcount: A:0.18, C:0.23, G:0.19, T:0.41
Consensus pattern (24 bp):
CTCTTTGTGAGCTTCCTGATATGG
Found at i:53160874 original size:21 final size:20
Alignment explanation
Indices: 53160848--53160889 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
53160838 GGACTAAATC
*
53160848 AAAAACCCTAAACATTTTTCA
1 AAAAACACTAAA-ATTTTTCA
*
53160869 AAAAACATTAAAATTTTTCA
1 AAAAACACTAAAATTTTTCA
53160889 A
1 A
53160890 TACTACAGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.52, C:0.17, G:0.00, T:0.31
Consensus pattern (20 bp):
AAAAACACTAAAATTTTTCA
Found at i:53161009 original size:12 final size:12
Alignment explanation
Indices: 53160992--53161021 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
53160982 CCTCACAAGC
53160992 CCGTGTGCCAGG
1 CCGTGTGCCAGG
*
53161004 CCGTGTGCTAGG
1 CCGTGTGCCAGG
53161016 CCGTGT
1 CCGTGT
53161022 AATAGCCTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.30, G:0.40, T:0.23
Consensus pattern (12 bp):
CCGTGTGCCAGG
Found at i:53164079 original size:42 final size:42
Alignment explanation
Indices: 53164020--53164106 Score: 174
Period size: 42 Copynumber: 2.1 Consensus size: 42
53164010 TACGTTTAAG
53164020 ATCCACATATGATTTCTGCTAATCTTAAGCTACCTTCAAACT
1 ATCCACATATGATTTCTGCTAATCTTAAGCTACCTTCAAACT
53164062 ATCCACATATGATTTCTGCTAATCTTAAGCTACCTTCAAACT
1 ATCCACATATGATTTCTGCTAATCTTAAGCTACCTTCAAACT
53164104 ATC
1 ATC
53164107 TCGGATCACT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (42 bp):
ATCCACATATGATTTCTGCTAATCTTAAGCTACCTTCAAACT
Found at i:53165810 original size:20 final size:20
Alignment explanation
Indices: 53165785--53165829 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
53165775 AGGGACTAAA
* *
53165785 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
*
53165805 ATGAAAAATTCTAAAATTTT
1 ATGAAAAATTCTAAAATTTG
53165825 ATGAA
1 ATGAA
53165830 TACATGTGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.49, C:0.02, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:53167864 original size:40 final size:39
Alignment explanation
Indices: 53167820--53167952 Score: 124
Period size: 40 Copynumber: 3.3 Consensus size: 39
53167810 AATAGAGTAA
53167820 TAGCGGCGTTTTTAAAAAAGCGCCGCTATAGATCGACCAT
1 TAGCGGCGTTTTT-AAAAAGCGCCGCTATAGATCGACCAT
* * * * * *
53167860 TAGCGGTGCTTTTTTAAATGCGCCGCTAAAGATCTAACAT
1 TAGCGGCG-TTTTTAAAAAGCGCCGCTATAGATCGACCAT
* * * *
53167900 TAGCAGCGTTTTTCAAGAAGCGTCGCTATATATCGACC-T
1 TAGCGGCGTTTTT-AAAAAGCGCCGCTATAGATCGACCAT
*
53167939 ATAGCGGCATTTTT
1 -TAGCGGCGTTTTT
53167953 TTACGTAAGC
Statistics
Matches: 72, Mismatches: 18, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
39 6 0.08
40 61 0.85
41 5 0.07
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (39 bp):
TAGCGGCGTTTTTAAAAAGCGCCGCTATAGATCGACCAT
Found at i:53168069 original size:40 final size:40
Alignment explanation
Indices: 53168025--53168119 Score: 136
Period size: 40 Copynumber: 2.4 Consensus size: 40
53168015 CGTTTTCTAG
** *
53168025 AAAACGCCGCTAAAAATCGTCTTACAGCGGCACTTTTTAA
1 AAAACGCCGCTAAAAATCAACTTACAGCGGCACTTTTAAA
* * *
53168065 AAAACACCGCTAAAAATCAACTTATAGCGGCGCTTTTAAA
1 AAAACGCCGCTAAAAATCAACTTACAGCGGCACTTTTAAA
53168105 AAAACGCCGCTAAAA
1 AAAACGCCGCTAAAA
53168120 GATTAAATAG
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.41, C:0.24, G:0.14, T:0.21
Consensus pattern (40 bp):
AAAACGCCGCTAAAAATCAACTTACAGCGGCACTTTTAAA
Found at i:53168378 original size:21 final size:21
Alignment explanation
Indices: 53168354--53168399 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
53168344 TCTCTAGTCA
* **
53168354 TAAACCTTAAATTGTAAACCT
1 TAAACCCTAAATATTAAACCT
53168375 TAAACCCTAAATATTAAACCT
1 TAAACCCTAAATATTAAACCT
53168396 TAAA
1 TAAA
53168400 TTCTAAACCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.48, C:0.20, G:0.02, T:0.30
Consensus pattern (21 bp):
TAAACCCTAAATATTAAACCT
Found at i:53168646 original size:12 final size:12
Alignment explanation
Indices: 53168626--53168662 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
53168616 AATAAATTTC
*
53168626 ATATGGATATAT
1 ATATTGATATAT
53168638 ATATTGATATAT
1 ATATTGATATAT
53168650 ATA-TG-TATAT
1 ATATTGATATAT
53168660 ATA
1 ATA
53168663 GATATTAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 8 0.33
11 2 0.08
12 14 0.58
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (12 bp):
ATATTGATATAT
Found at i:53171918 original size:3 final size:3
Alignment explanation
Indices: 53171910--53171949 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
53171900 ATTAATAGGA
53171910 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
53171950 GAAAGAAAGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:53172356 original size:187 final size:188
Alignment explanation
Indices: 53172057--53172395 Score: 458
Period size: 187 Copynumber: 1.8 Consensus size: 188
53172047 TTTTGAAGCT
*
53172057 TTGTTATTAGTGGCGCTTTCATAAAAATGCCACAAAACATCTATTAAGAGAATGTAAAACGGCAT
1 TTGTTATTAGTGGCGCTTTCATAAAAATGCCACAAAACATCTATAAAGAGAATGTAAAACGGCAT
* *
53172122 CGTCTACATCCTTGTTATTAGTGGCGCTTCTATAAACGCCGCAAAAGGTGAGAATTACCGGCGTT
66 CGTCTACATCCTTGTTATTAGTGGCGCTTCTATAAACGCCACAAAAGGTGAGAAATACCGGCGTT
*
53172187 TGCTCTACAAATGCCACAAAAATCTATTAACAGATTGCAAAACGACGTCGTTATTACC
131 TGCTCTACAAACGCCACAAAAATCTATTAACAGATTGCAAAACGACGTCGTTATTACC
* *
53172245 TTGTTATTAGTGGCGCTTTTTATAAAAATGCCACAAAACAT-T-TAAAGAG-ATTTCAAAACGTG
1 TTGTTATTAGTGGCGC-TTTCATAAAAATGCCACAAAACATCTATAAAGAGAATGT-AAAACG-G
* * * **
53172307 -GTCGTTTTATAGT-CTT-TTATTAGTGGCGCCTT-TATAAACGCCACAAAAGGTTTGAAATACC
63 CATCG-TCTACA-TCCTTGTTATTAGTGGCG-CTTCTATAAACGCCACAAAAGGTGAGAAATACC
* *
53172368 GGCGTTTTCTCTAGAAACGCCACAAAAA
125 GGCGTTTGCTCTACAAACGCCACAAAAA
53172396 ACCCCAATTT
Statistics
Matches: 132, Mismatches: 13, Indels: 13
0.84 0.08 0.08
Matches are distributed among these distances:
186 3 0.02
187 77 0.58
188 28 0.21
189 24 0.18
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.30
Consensus pattern (188 bp):
TTGTTATTAGTGGCGCTTTCATAAAAATGCCACAAAACATCTATAAAGAGAATGTAAAACGGCAT
CGTCTACATCCTTGTTATTAGTGGCGCTTCTATAAACGCCACAAAAGGTGAGAAATACCGGCGTT
TGCTCTACAAACGCCACAAAAATCTATTAACAGATTGCAAAACGACGTCGTTATTACC
Found at i:53175209 original size:23 final size:23
Alignment explanation
Indices: 53175179--53175228 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
53175169 AACATTAATC
53175179 AAATGTATGAATTGCAGCCCTTT
1 AAATGTATGAATTGCAGCCCTTT
53175202 AAATGTATGAATTGCAGCCCTTT
1 AAATGTATGAATTGCAGCCCTTT
53175225 AAAT
1 AAAT
53175229 AAACTTGAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (23 bp):
AAATGTATGAATTGCAGCCCTTT
Found at i:53176066 original size:9 final size:9
Alignment explanation
Indices: 53176043--53176170 Score: 130
Period size: 9 Copynumber: 13.6 Consensus size: 9
53176033 ATTGATCATT
*
53176043 ACTTAAATA
1 ACTTACATA
*
53176052 AATTACATA
1 ACTTACATA
53176061 ACTTACATA
1 ACTTACATA
*
53176070 ACTTATATA
1 ACTTACATA
53176079 ACTTACATA
1 ACTTACATA
*
53176088 ATTTACATAACA
1 ACTTACAT---A
53176100 ACTTACATA
1 ACTTACATA
*
53176109 ACTCACATA
1 ACTTACATA
53176118 ACTTACATA
1 ACTTACATA
*
53176127 ATTTACATA
1 ACTTACATA
*
53176136 ACTCACATA
1 ACTTACATA
*
53176145 ACGTACATAACA
1 ACTTACAT---A
53176157 ACTTACATA
1 ACTTACATA
53176166 ACTTA
1 ACTTA
53176171 ACTAATACAT
Statistics
Matches: 98, Mismatches: 15, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
9 82 0.84
12 16 0.16
ACGTcount: A:0.47, C:0.20, G:0.01, T:0.32
Consensus pattern (9 bp):
ACTTACATA
Found at i:53176119 original size:39 final size:39
Alignment explanation
Indices: 53176060--53176137 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
53176050 TAAATTACAT
* *
53176060 AACTTACATAACTTATATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
53176099 AACTTACATAACTCACATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
53176138 TCACATAACG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (39 bp):
AACTTACATAACTCACATAACTTACATAATTTACATAAC
Found at i:53176133 original size:48 final size:48
Alignment explanation
Indices: 53176054--53176146 Score: 141
Period size: 48 Copynumber: 1.9 Consensus size: 48
53176044 CTTAAATAAA
* * * *
53176054 TTACATAACTTACATAACTTATATAACTTACATAATTTACATAACAAC
1 TTACATAACTCACATAACTTACATAACTTACATAACTCACATAACAAC
*
53176102 TTACATAACTCACATAACTTACATAATTTACATAACTCACATAAC
1 TTACATAACTCACATAACTTACATAACTTACATAACTCACATAAC
53176147 GTACATAACA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 40 1.00
ACGTcount: A:0.45, C:0.22, G:0.00, T:0.33
Consensus pattern (48 bp):
TTACATAACTCACATAACTTACATAACTTACATAACTCACATAACAAC
Found at i:53176137 original size:57 final size:57
Alignment explanation
Indices: 53176056--53176168 Score: 181
Period size: 57 Copynumber: 2.0 Consensus size: 57
53176046 TAAATAAATT
* * **
53176056 ACATAACTTACATAACTTATATAACTTACATAATTTACATAACAACTTACATAACTC
1 ACATAACTTACATAACTTACATAACTCACATAACGTACATAACAACTTACATAACTC
*
53176113 ACATAACTTACATAATTTACATAACTCACATAACGTACATAACAACTTACATAACT
1 ACATAACTTACATAACTTACATAACTCACATAACGTACATAACAACTTACATAACT
53176169 TAACTAATAC
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
57 51 1.00
ACGTcount: A:0.46, C:0.22, G:0.01, T:0.31
Consensus pattern (57 bp):
ACATAACTTACATAACTTACATAACTCACATAACGTACATAACAACTTACATAACTC
Found at i:53178020 original size:12 final size:12
Alignment explanation
Indices: 53178003--53178028 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
53177993 ACGATCCAGG
53178003 GATGAATCTGAT
1 GATGAATCTGAT
53178015 GATGAATCTGAT
1 GATGAATCTGAT
53178027 GA
1 GA
53178029 GGAGGATGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.08, G:0.27, T:0.31
Consensus pattern (12 bp):
GATGAATCTGAT
Found at i:53182117 original size:43 final size:42
Alignment explanation
Indices: 53182057--53182176 Score: 127
Period size: 43 Copynumber: 2.8 Consensus size: 42
53182047 CGTTTGTTTG
* *
53182057 AAAAAAAGGCCGCTAAAGATCATGACTTTTAGCGATGCTTTTT
1 AAAAAAACGCCACTAAAGATCATGACTTTTAGCGATG-TTTTT
* * * * *
53182100 ATAAAAATGCCACTAAAGACCAAGACTTTTAGCGGTGTTTTT
1 AAAAAAACGCCACTAAAGATCATGACTTTTAGCGATGTTTTT
53182142 AAAAAAAGCGCCACTAAA-AGTCATGA-TCTTTAGCG
1 AAAAAAA-CGCCACTAAAGA-TCATGACT-TTTAGCG
53182177 GCATTTTTTT
Statistics
Matches: 64, Mismatches: 10, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
42 13 0.20
43 51 0.80
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (42 bp):
AAAAAAACGCCACTAAAGATCATGACTTTTAGCGATGTTTTT
Found at i:53182518 original size:42 final size:42
Alignment explanation
Indices: 53182471--53182550 Score: 99
Period size: 42 Copynumber: 1.9 Consensus size: 42
53182461 AGAATTAAGC
* *
53182471 ACACGGAC-AGAGACACGGGCGTGTGTCTCAGCCGTGTGTGCT
1 ACACGGACTAGA-ACACGGACATGTGTCTCAGCCGTGTGTGCT
* **
53182513 ACACGGCCTAGAACACGGACATGTGTCTTGGCCGTGTG
1 ACACGGACTAGAACACGGACATGTGTCTCAGCCGTGTG
53182551 AAACATGCAC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
42 29 0.91
43 3 0.09
ACGTcount: A:0.20, C:0.26, G:0.34, T:0.20
Consensus pattern (42 bp):
ACACGGACTAGAACACGGACATGTGTCTCAGCCGTGTGTGCT
Found at i:53186048 original size:917 final size:918
Alignment explanation
Indices: 53184274--53186111 Score: 3651
Period size: 917 Copynumber: 2.0 Consensus size: 918
53184264 ACTATCACAA
53184274 TTTATATATGGTATGTATAGCCAGACTCTCACACACGCAATGTTAGTACGAGAATTGACTAAACC
1 TTTATATATGGTATGTATAGCCAGACTCTCACACACGCAATGTTAGTACGAGAATTGACTAAACC
*
53184339 ATAGCTCTGATACCACTGAATGTAACACCCCTTACCTGTATTCAATGCCGAAATAGGATACAAGG
66 ATAGCTCTGATACCACTGAATGTAACACCCCTTACCTGTATTCAATGCCAAAATAGGATACAAGG
53184404 CATTATCGGACTTACATCACAAGCAAATATACAAATCGAGACCTAAATTTTCATCCAAATCAAAA
131 CATTATCGGACTTACATCACAAGCAAATATACAAATCGAGACCTAAATTTTCATCCAAATCAAAA
53184469 CCATTTGTATTCAATCATAAAGTCCCCAATGCGAGCCTACGAGGCCCAAAACATGTTTTGAAAGT
196 CCATTTGTATTCAATCATAAAGTCCCCAATGCGAGCCTACGAGGCCCAAAACATGTTTTGAAAGT
53184534 GGTTTGAGACTAAACTTACAACTCAAGAAACTTTTTTTTACAAAACATAGAAAATTTTTGCTATG
261 GGTTTGAGACTAAACTTACAACTCAAGAAACTTTTTTTTACAAAACATAGAAAATTTTTGCTATG
53184599 AACAGGGGTCACATGCCCGTATGGTTTGGGACACGCCCGTGTGGTCACACACGTCTATGTCCCTA
326 AACAGGGGTCACATGCCCGTATGGTTTGGGACACGCCCGTGTGGTCACACACGTCTATGTCCCTA
53184664 ACCCGTGTAACTCTCTGTTTTGTAATGCATGAACAAATTAAGATCACATGGCCAAGTCACATGCC
391 ACCCGTGTAACTCTCTGTTTTGTAATGCATGAACAAATTAAGATCACATGGCCAAGTCACATGCC
*
53184729 CTTGTGCTAGGTCGTGTGGTTAATTTAATTTTTATAAAATAGGTGTAGACTTCACACGGTCAGGA
456 CTTGTGCTAGGTCGTGTGGTTAATTTAACTTTTATAAAATAGGTGTAGACTTCACACGGTCAGGA
53184794 CACATGCCCGTTCCTGAGGCTGTGTCCCTCACATGGCTGAGACAGATGCCCCTGTCTCTACGCAT
521 CACATGCCCGTTCCTGAGGCTGTGTCCCTCACATGGCTGAGACAGATGCCCCTGTCTCTACGCAT
53184859 GTGCTCAACTCTAAGCATTATATTTCTCAAAATTAATGTGCAGGGGACACACGGCCGAAACACAT
586 GTGCTCAACTCTAAGCATTATATTTCTCAAAATTAATGTGCAGGGGACACACGGCCGAAACACAT
53184924 GCCTATGGGGAAAGCAGTGTGTCTGTGACACCCCTAAAGTGACCTTAGTCGGAAAGCGGTTTCGG
651 GCCTATGGGGAAAGCAGTGTGTCTGTGACACCCCTAAAGTGACCTTAGTCGGAAAGCGGTTTCGG
53184989 GACCGCTAAACCGAGTCACCAAATTATTTGAATATGATATTTATTGTCTAAAATAAATGTGTGAA
716 GACCGCTAAACCGAGTCACCAAATTATTTGAATATGATATTTATTGTCTAAAATAAATGTGTGAA
53185054 AATTTTAAGCTTCGATTTAGTAAATTTCATGTGAATTTAGTCAATAGGACTTATGTGTGACATTT
781 AATTTTAAGCTTCGATTTAGTAAATTTCATGTGAATTTAGTCAATAGGACTTATGTGTGACATTT
53185119 TTGAAATGTGATAGATCAAAACATAAGGACCTATTAGTGCATGTTGAAAAA-GGGGGGACTTGCA
846 TTGAAATGTGATAGATCAAAACATAAGGACCTATTAGTGCATGTTGAAAAAGGGGGGGACTTGCA
53185183 TGTCAATT
911 TGTCAATT
53185191 TTTATATATGGTATGTATAGCCAGACTCTCACACACGCAATGTTAGTACGAGAATTGACTAAACC
1 TTTATATATGGTATGTATAGCCAGACTCTCACACACGCAATGTTAGTACGAGAATTGACTAAACC
53185256 ATAGCTCTGATACCACTGAATGTAACACCCCTTACCTGTATTCAATGCCAAAATAGGATACAAGG
66 ATAGCTCTGATACCACTGAATGTAACACCCCTTACCTGTATTCAATGCCAAAATAGGATACAAGG
53185321 CATTATCGGACTTACATCACAAGCAAATATACAAATCGAGACCTAAATTTTCATCCAAATCAAAA
131 CATTATCGGACTTACATCACAAGCAAATATACAAATCGAGACCTAAATTTTCATCCAAATCAAAA
53185386 CCATTTGTATTCAATCATAAAGTCCCCAATGCGAGCCTACGAGGCCCAAAACATGTTTTGAAAGT
196 CCATTTGTATTCAATCATAAAGTCCCCAATGCGAGCCTACGAGGCCCAAAACATGTTTTGAAAGT
53185451 GGTTTGAGACTAAACTTACAACTCAAGAAACTTTTTTTTACAAAACATAGAAAATTTTTGCTATG
261 GGTTTGAGACTAAACTTACAACTCAAGAAACTTTTTTTTACAAAACATAGAAAATTTTTGCTATG
53185516 AACAGGGGTCACATGCCCGTATGGTTTGGGACACGCCCGTGTGGTCACACACGTCTATGTCCCTA
326 AACAGGGGTCACATGCCCGTATGGTTTGGGACACGCCCGTGTGGTCACACACGTCTATGTCCCTA
53185581 ACCCGTGTAACTCTCTGTTTTGTAATGCATGAACAAATTAAGATCACATGGCCAAGTCACATGCC
391 ACCCGTGTAACTCTCTGTTTTGTAATGCATGAACAAATTAAGATCACATGGCCAAGTCACATGCC
53185646 CTTGTGCTAGGTCGTGTGGTTAATTTAACTTTTATAAAATAGGTGTAGACTTCACACGGTCAGGA
456 CTTGTGCTAGGTCGTGTGGTTAATTTAACTTTTATAAAATAGGTGTAGACTTCACACGGTCAGGA
53185711 CACATGCCCGTTCCTGAGGCTGTGTCCCTCACATGGCTGAGACAGATGCCCCTGTCTCTACGCAT
521 CACATGCCCGTTCCTGAGGCTGTGTCCCTCACATGGCTGAGACAGATGCCCCTGTCTCTACGCAT
53185776 GTGCTCAACTCTAAGCATTATATTTCTCAAAATTAATGTGCAGGGGACACACGGCCGAAACACAT
586 GTGCTCAACTCTAAGCATTATATTTCTCAAAATTAATGTGCAGGGGACACACGGCCGAAACACAT
53185841 GCCTATGGGGAAAGCAGTGTGTCTGTGACACCCCTAAAGTGACCTTAGTCGGAAAGCGGTTTCGG
651 GCCTATGGGGAAAGCAGTGTGTCTGTGACACCCCTAAAGTGACCTTAGTCGGAAAGCGGTTTCGG
53185906 GACCGCTAAACCGAGTCACCAAATTATTTGAATATGATATTTATTGTCTAAAATAAATGTGTGAA
716 GACCGCTAAACCGAGTCACCAAATTATTTGAATATGATATTTATTGTCTAAAATAAATGTGTGAA
53185971 AATTTTAAGCTTCGATTTAGTAAATTTCATGTGAATTTAGTCAATAGGACTTATGTGTGACATTT
781 AATTTTAAGCTTCGATTTAGTAAATTTCATGTGAATTTAGTCAATAGGACTTATGTGTGACATTT
53186036 TTGAAATGTGATAGATCAAAACATAAGGACCTATTAGTGCATGTTGAAAAAGGGGGGGACTTGCA
846 TTGAAATGTGATAGATCAAAACATAAGGACCTATTAGTGCATGTTGAAAAAGGGGGGGACTTGCA
53186101 TGTCAATT
911 TGTCAATT
53186109 TTT
1 TTT
53186112 CCCCCCATCT
Statistics
Matches: 918, Mismatches: 2, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
917 894 0.97
918 24 0.03
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.29
Consensus pattern (918 bp):
TTTATATATGGTATGTATAGCCAGACTCTCACACACGCAATGTTAGTACGAGAATTGACTAAACC
ATAGCTCTGATACCACTGAATGTAACACCCCTTACCTGTATTCAATGCCAAAATAGGATACAAGG
CATTATCGGACTTACATCACAAGCAAATATACAAATCGAGACCTAAATTTTCATCCAAATCAAAA
CCATTTGTATTCAATCATAAAGTCCCCAATGCGAGCCTACGAGGCCCAAAACATGTTTTGAAAGT
GGTTTGAGACTAAACTTACAACTCAAGAAACTTTTTTTTACAAAACATAGAAAATTTTTGCTATG
AACAGGGGTCACATGCCCGTATGGTTTGGGACACGCCCGTGTGGTCACACACGTCTATGTCCCTA
ACCCGTGTAACTCTCTGTTTTGTAATGCATGAACAAATTAAGATCACATGGCCAAGTCACATGCC
CTTGTGCTAGGTCGTGTGGTTAATTTAACTTTTATAAAATAGGTGTAGACTTCACACGGTCAGGA
CACATGCCCGTTCCTGAGGCTGTGTCCCTCACATGGCTGAGACAGATGCCCCTGTCTCTACGCAT
GTGCTCAACTCTAAGCATTATATTTCTCAAAATTAATGTGCAGGGGACACACGGCCGAAACACAT
GCCTATGGGGAAAGCAGTGTGTCTGTGACACCCCTAAAGTGACCTTAGTCGGAAAGCGGTTTCGG
GACCGCTAAACCGAGTCACCAAATTATTTGAATATGATATTTATTGTCTAAAATAAATGTGTGAA
AATTTTAAGCTTCGATTTAGTAAATTTCATGTGAATTTAGTCAATAGGACTTATGTGTGACATTT
TTGAAATGTGATAGATCAAAACATAAGGACCTATTAGTGCATGTTGAAAAAGGGGGGGACTTGCA
TGTCAATT
Found at i:53188295 original size:47 final size:47
Alignment explanation
Indices: 53188243--53188650 Score: 627
Period size: 47 Copynumber: 8.6 Consensus size: 47
53188233 GATAATTGTG
* * *
53188243 ATGTGAATGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
53188290 ATGTGAAAGTGTATATATAGGTGATAAGGCCTAATGCCCGATGTGATTA
1 ATGTGAAAGTGTATATAT--GTGATAAGGCCTAATGGCCGATGTGATGA
53188339 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
53188386 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
53188435 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
53188484 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTAATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
53188531 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
53188578 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
53188625 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
53188651 TCCCGAAGGG
Statistics
Matches: 336, Mismatches: 21, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
47 196 0.58
49 140 0.42
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:53188368 original size:96 final size:94
Alignment explanation
Indices: 53188243--53188650 Score: 627
Period size: 96 Copynumber: 4.3 Consensus size: 94
53188233 GATAATTGTG
* * *
53188243 ATGTGAATGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* * *
53188308 AGGTGATAAGGCCTAATGCCCGATGTGATTA
66 --GTGATAAGGCCGAATGGCCGATGTGATGA
53188339 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATAT
*
53188404 ATGTGATAAGGCCTAATGGCCGATGTGATGA
64 ATGTGATAAGGCCGAATGGCCGATGTGATGA
53188435 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
53188500 ATGTGATAAGGCCGAATGGCCGATGTAATGA
64 ATGTGATAAGGCCGAATGGCCGATGTGATGA
53188531 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* * * * * *
53188596 GTGACAGGGCCGAGTGGCCAACGTGATGG
66 GTGATAAGGCCGAATGGCCGATGTGATGA
*
53188625 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
53188651 TCCCGAAGGG
Statistics
Matches: 293, Mismatches: 15, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
94 101 0.34
96 138 0.47
98 54 0.18
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (94 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGATAAGGCCGAATGGCCGATGTGATGA
Found at i:53196510 original size:21 final size:21
Alignment explanation
Indices: 53196473--53196513 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
53196463 CTTGTTCGAC
*
53196473 AATGATTCGACAGTGATTTGT
1 AATGATTCCACAGTGATTTGT
53196494 AATGATTCCACTA-TGATTTG
1 AATGATTCCAC-AGTGATTTG
53196514 GTATTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.29, C:0.12, G:0.20, T:0.39
Consensus pattern (21 bp):
AATGATTCCACAGTGATTTGT
Found at i:53196737 original size:47 final size:48
Alignment explanation
Indices: 53196625--53196755 Score: 201
Period size: 47 Copynumber: 2.8 Consensus size: 48
53196615 GTGCGAGTTA
* * * * *
53196625 TACCTTGATTCGGCTACGGGCCATGGTATAGGTATTTTGGAGAGGAGT
1 TACCTTGATTTGGCTACAGGCCATGGTATAGGTACTCTGGAGAGAAGT
*
53196673 TACCTTGATTTGGCTACAGGCCATGGTATAGGTACTCTGG-GATAAGT
1 TACCTTGATTTGGCTACAGGCCATGGTATAGGTACTCTGGAGAGAAGT
53196720 TACCTTGATTTGGCTACAGGCCATGGTATAGGTACT
1 TACCTTGATTTGGCTACAGGCCATGGTATAGGTACT
53196756 TATCGATTGA
Statistics
Matches: 77, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
47 41 0.53
48 36 0.47
ACGTcount: A:0.22, C:0.17, G:0.29, T:0.32
Consensus pattern (48 bp):
TACCTTGATTTGGCTACAGGCCATGGTATAGGTACTCTGGAGAGAAGT
Found at i:53205563 original size:305 final size:305
Alignment explanation
Indices: 53205012--53205621 Score: 1166
Period size: 305 Copynumber: 2.0 Consensus size: 305
53205002 AACTACATGG
53205012 GTAATAATCTTCGACCTCAAAACAATCCATATAGTAACACTTACAATGCAGGTTGGAGGAACCAC
1 GTAATAATCTTCGACCTCAAAACAATCCATATAGTAACACTTACAATGCAGGTTGGAGGAACCAC
53205077 CCCAACTTCTCGTGGAGCAGTCAAGGAAATCAAAAACCACAACCACCCTACCAACAGGAAAAGAA
66 CCCAACTTCTCGTGGAGCAGTCAAGGAAATCAAAAACCACAACCACCCTACCAACAGGAAAAGAA
* *
53205142 GCCGAACCTTGAAGAGATGCTCTCGAAGTTTATTTCGGTGTCAAAAACTCGATTCCAGAACATCG
131 GCCGAACCTTGAAGAGATGCTCTCGAACTTTATTTCGGTGTCAAAAACTCGATTCCAGAACACCG
* *
53205207 AGACAGCACTTAAAAATCAACAAGCGTCAATCAAAGGGCTCGAAACCCAGATAGGCCAGCTTTCC
196 AGACAGCACTTAAAAATCAACAAGAGTCAATCAAAGGGCTCGAAACCCAGATAGGCCAACTTTCC
53205272 AAACTAATCTTCGAACGACCACAAGATAGTTTGCCAAGTAATACC
261 AAACTAATCTTCGAACGACCACAAGATAGTTTGCCAAGTAATACC
53205317 GTAATAATCTTCGACCTCAAAACAATCCATATAGTAACACTTACAATGCAGGTTGGAGGAACCAC
1 GTAATAATCTTCGACCTCAAAACAATCCATATAGTAACACTTACAATGCAGGTTGGAGGAACCAC
53205382 CCCAACTTCTCGTGGAGCAGTCAAGGAAATCAAAAACCACAACCACCCTACCAACAGGAAAAGAA
66 CCCAACTTCTCGTGGAGCAGTCAAGGAAATCAAAAACCACAACCACCCTACCAACAGGAAAAGAA
*
53205447 GCCGAACCTTGAAGAGATGCTCTCGAACTTTATTTCGGTGTCAGAAACTCGATTCCAGAACACCG
131 GCCGAACCTTGAAGAGATGCTCTCGAACTTTATTTCGGTGTCAAAAACTCGATTCCAGAACACCG
53205512 AGACAGCACTTAAAAATCAACAAGAGTCAATCAAAGGGCTCGAAACCCAGATAGGCCAACTTTCC
196 AGACAGCACTTAAAAATCAACAAGAGTCAATCAAAGGGCTCGAAACCCAGATAGGCCAACTTTCC
*
53205577 AAACTAATCTTCGAATGACCACAAGATAGTTTGCCAAGTAATACC
261 AAACTAATCTTCGAACGACCACAAGATAGTTTGCCAAGTAATACC
53205622 AAACCTAACC
Statistics
Matches: 299, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
305 299 1.00
ACGTcount: A:0.38, C:0.26, G:0.17, T:0.19
Consensus pattern (305 bp):
GTAATAATCTTCGACCTCAAAACAATCCATATAGTAACACTTACAATGCAGGTTGGAGGAACCAC
CCCAACTTCTCGTGGAGCAGTCAAGGAAATCAAAAACCACAACCACCCTACCAACAGGAAAAGAA
GCCGAACCTTGAAGAGATGCTCTCGAACTTTATTTCGGTGTCAAAAACTCGATTCCAGAACACCG
AGACAGCACTTAAAAATCAACAAGAGTCAATCAAAGGGCTCGAAACCCAGATAGGCCAACTTTCC
AAACTAATCTTCGAACGACCACAAGATAGTTTGCCAAGTAATACC
Found at i:53206124 original size:169 final size:170
Alignment explanation
Indices: 53205845--53206186 Score: 623
Period size: 169 Copynumber: 2.0 Consensus size: 170
53205835 AAATCCCTTA
* *
53205845 AACTCTTAAAAAAATTACAAATTAACTTACCGTTTATTGAAGCTCTATCGCAGATACCAAACGCA
1 AACTCTTAAAAAAATTACAAATTAACTTACCGTTTATTAAAGCTCTATCGCAAATACCAAACGCA
53205910 ATGAAATTCTTAAAAGAGCTTTTAGCAAATAAGCGGAAGTTGGACGAGGCATCGCATGTGGAGCT
66 ATGAAATTCTTAAAAGAGCTTTTAGCAAATAAGCGGAAGTTGGACGAGGCATCGCATGTGGAGCT
53205975 AAACGCAGTTTGCTCAGCCATTCTCCAAAATAAACTAC-C
131 AAACGCAGTTTGCTCAGCCATTCTCCAAAATAAACTACTC
*
53206014 AACTCTTAAAAAAATTACAAATTAACTTACCGTTTATTAAAGCTCTATGGCAAATACCAAACGCA
1 AACTCTTAAAAAAATTACAAATTAACTTACCGTTTATTAAAGCTCTATCGCAAATACCAAACGCA
*
53206079 ATGAAATTCTTAAAAGAGCTTTTAGCAAATAAGCGGAAGTTGGACGAGGCGTCGCATGTGGAGCT
66 ATGAAATTCTTAAAAGAGCTTTTAGCAAATAAGCGGAAGTTGGACGAGGCATCGCATGTGGAGCT
**
53206144 AAACGCAGTTTGCTTGGCCATTCTCCAAAATAAACTACTC
131 AAACGCAGTTTGCTCAGCCATTCTCCAAAATAAACTACTC
53206184 AAC
1 AAC
53206187 AAACTAAAAG
Statistics
Matches: 166, Mismatches: 6, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
169 162 0.98
170 4 0.02
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (170 bp):
AACTCTTAAAAAAATTACAAATTAACTTACCGTTTATTAAAGCTCTATCGCAAATACCAAACGCA
ATGAAATTCTTAAAAGAGCTTTTAGCAAATAAGCGGAAGTTGGACGAGGCATCGCATGTGGAGCT
AAACGCAGTTTGCTCAGCCATTCTCCAAAATAAACTACTC
Found at i:53206585 original size:114 final size:114
Alignment explanation
Indices: 53206385--53206612 Score: 429
Period size: 114 Copynumber: 2.0 Consensus size: 114
53206375 TAGAGGTATT
53206385 ATTGAAGATGTGCTAGTAAAAATCGATAAATTTATATTTCCCGTTGACTTCATTGTTTTAGACAT
1 ATTGAAGATGTGCTAGTAAAAATCGATAAATTTATATTTCCCGTTGACTTCATTGTTTTAGACAT
*
53206450 AGATGAGGATAGCAACACTCCTTTAATTATAGGAAGACCCTTTTTAGCA
66 AGAAGAGGATAGCAACACTCCTTTAATTATAGGAAGACCCTTTTTAGCA
*
53206499 ATTGAAGATGTGCTAGTAAAAATCGATAAATTTATATTTTCCGTTGACTTCATTGTTTTAGACAT
1 ATTGAAGATGTGCTAGTAAAAATCGATAAATTTATATTTCCCGTTGACTTCATTGTTTTAGACAT
*
53206564 AGAAGAGTATAGCAACACTCCTTTAATTATAGGAAGACCCTTTTTAGCA
66 AGAAGAGGATAGCAACACTCCTTTAATTATAGGAAGACCCTTTTTAGCA
53206613 GTTGCTAAAA
Statistics
Matches: 111, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
114 111 1.00
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (114 bp):
ATTGAAGATGTGCTAGTAAAAATCGATAAATTTATATTTCCCGTTGACTTCATTGTTTTAGACAT
AGAAGAGGATAGCAACACTCCTTTAATTATAGGAAGACCCTTTTTAGCA
Found at i:53231461 original size:28 final size:28
Alignment explanation
Indices: 53231398--53231606 Score: 359
Period size: 28 Copynumber: 7.5 Consensus size: 28
53231388 ATATTAAGTC
* * *
53231398 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAGTCAAACT
*
53231425 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAAACT
53231453 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAACT
53231481 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAACT
53231509 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAACT
53231537 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAACT
*
53231565 CGCACACTTAGTGCTACATAGTC-AATT
1 CGCACACTTAGTGCTACATAGTCAAACT
53231592 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
53231607 GCACAATTTA
Statistics
Matches: 177, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
27 39 0.22
28 138 0.78
ACGTcount: A:0.32, C:0.29, G:0.14, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAGTCAAACT
Found at i:53238260 original size:31 final size:31
Alignment explanation
Indices: 53238225--53238284 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
53238215 ATAAAATTCA
*
53238225 TCGAAAGGTAAAAGCATCAGATCAGCAGGCG
1 TCGAAAGGTAAAAGCATCAGAACAGCAGGCG
53238256 TCGAAAGGTAAAAGCATCAGAACAGCAGG
1 TCGAAAGGTAAAAGCATCAGAACAGCAGG
53238285 AAAACAGATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.42, C:0.18, G:0.28, T:0.12
Consensus pattern (31 bp):
TCGAAAGGTAAAAGCATCAGAACAGCAGGCG
Found at i:53270364 original size:25 final size:25
Alignment explanation
Indices: 53270330--53270379 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
53270320 AAAAACCACT
53270330 TAGTAAAAGATGTTTATCATACATC
1 TAGTAAAAGATGTTTATCATACATC
53270355 TAGTAAAAGATGTTTATCATACATC
1 TAGTAAAAGATGTTTATCATACATC
53270380 AAACTTTCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.36
Consensus pattern (25 bp):
TAGTAAAAGATGTTTATCATACATC
Found at i:53274916 original size:24 final size:24
Alignment explanation
Indices: 53274860--53274996 Score: 102
Period size: 23 Copynumber: 5.8 Consensus size: 24
53274850 CGTTGCATGA
*
53274860 CTCTTTGTGAGCTTCCTGATA-GG
1 CTCTTTGTGAGCTTCCCGATATGG
*
53274883 CTCTTCGTGAGCTTCCCGATATGG
1 CTCTTTGTGAGCTTCCCGATATGG
* * *
53274907 TTCTTTGTGAACTTCCCAATTATGG
1 CTCTTTGTGAGCTTCCCGA-TATGG
* * *
53274932 CTC-TTATGAGCTTCCTGTTATATAG
1 CTCTTTGTGAGCTTCCCG--ATATGG
* * * *
53274957 CTC-TTATAAGTTTCCCGATA-GA
1 CTCTTTGTGAGCTTCCCGATATGG
*
53274979 CTCTTTATGAGCTTCCCG
1 CTCTTTGTGAGCTTCCCG
53274997 CTACAAGGTT
Statistics
Matches: 90, Mismatches: 19, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
22 3 0.03
23 34 0.38
24 27 0.30
25 25 0.28
26 1 0.01
ACGTcount: A:0.18, C:0.24, G:0.19, T:0.39
Consensus pattern (24 bp):
CTCTTTGTGAGCTTCCCGATATGG
Found at i:53289758 original size:48 final size:48
Alignment explanation
Indices: 53289693--53290567 Score: 1251
Period size: 48 Copynumber: 18.2 Consensus size: 48
53289683 GCTGAAATTG
53289693 ATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
53289741 ATATATGAGATATGTATATGTGGTAAAGTCGAATGGCTAGGA-GT-AAAT
1 ATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTA--ATGTGAAAT
* *
53289789 ATGTATGAGATATGGATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
53289837 ATATATGAGATATGTATATGTGGTAAAGTCGAATGGCTAGGA-GT-AAAT
1 ATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTA--ATGTGAAAT
* *
53289885 ATGTATGAGATATGGATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
53289933 ATATATGAGATATGTATATGTGGTAAAGTCGAATGGCTAGGA-GT-AAAT
1 ATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTA--ATGTGAAAT
* *
53289981 ATGTATGAGATATGGATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
53290029 ATATATGAGATATGTATATGTGGTAAAGTCGAATGGCTAGGA-GT-AAAT
1 ATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTA--ATGTGAAAT
* *
53290077 ATGTATGAGATATGGATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
53290125 ATATATGAGATATGTATATGTGGTAAAGTCGAATGGCTAGGA-GT-AAAT
1 ATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTA--ATGTGAAAT
* *
53290173 ATGTATGAGATATGGATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
53290221 ATATATGAGATATGTATATGTGGTAAAGTCGAATGGCTAGGA-GT-AAAT
1 ATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTA--ATGTGAAAT
* *
53290269 ATGTATGAGATATGGATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
53290317 ATATATGAGATATGTATATGTGGTAAAGTCGAATGGCTAGGA-GT-AAAT
1 ATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTA--ATGTGAAAT
* *
53290365 ATGTATGAGATATGGATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
53290413 ATATATGAGATATGTATATGTGGTAAAGTCGAATGGCTAGGA-GT-AAAT
1 ATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTA--ATGTGAAAT
* *
53290461 ATGTATGAGATATGGATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
53290509 ATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
1 ATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
* *
53290557 ATGTAGGAGAT
1 ATATATGAGAT
53290568 GTGTGTATAT
Statistics
Matches: 744, Mismatches: 51, Indels: 64
0.87 0.06 0.07
Matches are distributed among these distances:
46 8 0.01
47 16 0.02
48 696 0.94
49 16 0.02
50 8 0.01
ACGTcount: A:0.36, C:0.05, G:0.28, T:0.30
Consensus pattern (48 bp):
ATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
Found at i:53289810 original size:96 final size:96
Alignment explanation
Indices: 53289696--53290567 Score: 1692
Period size: 96 Copynumber: 9.1 Consensus size: 96
53289686 GAAATTGATA
*
53289696 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATG
1 TATGAGATATGGATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATG
53289761 TGGTAAAGTCGAATGGCTAGGAGTAAATATG
66 TGGTAAAGTCGAATGGCTAGGAGTAAATATG
53289792 TATGAGATATGGATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATG
1 TATGAGATATGGATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATG
53289857 TGGTAAAGTCGAATGGCTAGGAGTAAATATG
66 TGGTAAAGTCGAATGGCTAGGAGTAAATATG
53289888 TATGAGATATGGATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATG
1 TATGAGATATGGATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATG
53289953 TGGTAAAGTCGAATGGCTAGGAGTAAATATG
66 TGGTAAAGTCGAATGGCTAGGAGTAAATATG
53289984 TATGAGATATGGATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATG
1 TATGAGATATGGATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATG
53290049 TGGTAAAGTCGAATGGCTAGGAGTAAATATG
66 TGGTAAAGTCGAATGGCTAGGAGTAAATATG
53290080 TATGAGATATGGATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATG
1 TATGAGATATGGATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATG
53290145 TGGTAAAGTCGAATGGCTAGGAGTAAATATG
66 TGGTAAAGTCGAATGGCTAGGAGTAAATATG
53290176 TATGAGATATGGATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATG
1 TATGAGATATGGATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATG
53290241 TGGTAAAGTCGAATGGCTAGGAGTAAATATG
66 TGGTAAAGTCGAATGGCTAGGAGTAAATATG
53290272 TATGAGATATGGATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATG
1 TATGAGATATGGATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATG
53290337 TGGTAAAGTCGAATGGCTAGGAGTAAATATG
66 TGGTAAAGTCGAATGGCTAGGAGTAAATATG
53290368 TATGAGATATGGATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATG
1 TATGAGATATGGATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATG
53290433 TGGTAAAGTCGAATGGCTAGGAGTAAATATG
66 TGGTAAAGTCGAATGGCTAGGAGTAAATATG
53290464 TATGAGATATGGATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATG
1 TATGAGATATGGATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATG
* *
53290529 TGGTAAAGCCGAATGGCTA-GTGTGAAATATG
66 TGGTAAAGTCGAATGGCTAGGAGT-AAATATG
*
53290560 TAGGAGAT
1 TATGAGAT
53290568 GTGTGTATAT
Statistics
Matches: 771, Mismatches: 4, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
95 3 0.00
96 768 1.00
ACGTcount: A:0.36, C:0.05, G:0.28, T:0.30
Consensus pattern (96 bp):
TATGAGATATGGATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATG
TGGTAAAGTCGAATGGCTAGGAGTAAATATG
Found at i:53300300 original size:20 final size:20
Alignment explanation
Indices: 53300275--53300312 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
53300265 GGGACTAAAA
*
53300275 TGAAAAATTGTAAAATTTGC
1 TGAAAAATTCTAAAATTTGC
53300295 TGAAAAATTCTAAAATTT
1 TGAAAAATTCTAAAATTT
53300313 TATGAATACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.05, G:0.11, T:0.37
Consensus pattern (20 bp):
TGAAAAATTCTAAAATTTGC
Found at i:53300318 original size:20 final size:20
Alignment explanation
Indices: 53300274--53300318 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
53300264 AGGGACTAAA
*
53300274 ATGAAAAATTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
* *
53300294 CTGAAAAATTCTAAAATTTT
1 ATGAAAAATTCTAAAATTTG
53300314 ATGAA
1 ATGAA
53300319 TACATGTGCT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.49, C:0.04, G:0.11, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:53302367 original size:40 final size:40
Alignment explanation
Indices: 53302323--53302455 Score: 106
Period size: 40 Copynumber: 3.3 Consensus size: 40
53302313 AATAGATTAA
*
53302323 TAGCGACGTTTTTAAAAAAGCGCCGCTATAGATCGACCTT
1 TAGCGACGTTTTTCAAAAAGCGCCGCTATAGATCGACCTT
** * * * * * * *
53302363 TAGCGGTGCTTTTCTAAATGCGCCGCTAAAGATCTAACAT
1 TAGCGACGTTTTTCAAAAAGCGCCGCTATAGATCGACCTT
* * * * *
53302403 TAGC-AGCATTTTTCAAGAAGCGTCGCTATATATCGACCTA
1 TAGCGA-CGTTTTTCAAAAAGCGCCGCTATAGATCGACCTT
*
53302443 TAGCGGCGTTTTT
1 TAGCGACGTTTTT
53302456 TTACGTAAGC
Statistics
Matches: 65, Mismatches: 26, Indels: 4
0.68 0.27 0.04
Matches are distributed among these distances:
40 65 1.00
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (40 bp):
TAGCGACGTTTTTCAAAAAGCGCCGCTATAGATCGACCTT
Found at i:53302581 original size:40 final size:39
Alignment explanation
Indices: 53302514--53302622 Score: 152
Period size: 40 Copynumber: 2.8 Consensus size: 39
53302504 TCAATTGCAT
53302514 TAGCGGCG-TTTTCTAAAAAATG-CCTAAAAATC-ATCTTA
1 TAGCGGCGCTTTT-TAAAAAATGCCCTAAAAATCGA-CTTA
*
53302552 TAGCGGCGCTTTTTAAAAAACGCCTCTAAAAATCGACTTA
1 TAGCGGCGCTTTTTAAAAAATGCC-CTAAAAATCGACTTA
53302592 TAGCGGCGCTTTTTAAAAAATGCCGCTAAAA
1 TAGCGGCGCTTTTTAAAAAATGCC-CTAAAA
53302623 GATTAAATAG
Statistics
Matches: 64, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
38 16 0.25
39 5 0.08
40 42 0.66
41 1 0.02
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (39 bp):
TAGCGGCGCTTTTTAAAAAATGCCCTAAAAATCGACTTA
Found at i:53303149 original size:12 final size:12
Alignment explanation
Indices: 53303129--53303165 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
53303119 AATAAATTTC
*
53303129 ATATGGATATAT
1 ATATTGATATAT
53303141 ATATTGATATAT
1 ATATTGATATAT
53303153 ATA-TG-TATAT
1 ATATTGATATAT
53303163 ATA
1 ATA
53303166 GATATTAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 8 0.33
11 2 0.08
12 14 0.58
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (12 bp):
ATATTGATATAT
Found at i:53304765 original size:51 final size:50
Alignment explanation
Indices: 53304631--53304765 Score: 153
Period size: 50 Copynumber: 2.7 Consensus size: 50
53304621 GAAGCTATCT
* *
53304631 GGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCATCT
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCACACCATCG
** * * * ***
53304681 AATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCG
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCACA-CCATCG
* *
53304732 GGTACGCATAGTAGTCTGCACTTACTACTACACA
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACA
53304766 TGCGACCTCA
Statistics
Matches: 68, Mismatches: 16, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
50 38 0.56
51 30 0.44
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (50 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCACACCATCG
Found at i:53306429 original size:3 final size:3
Alignment explanation
Indices: 53306421--53306455 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
53306411 ATTAATAGGA
53306421 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
53306456 AAGAAAGAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:53306864 original size:187 final size:188
Alignment explanation
Indices: 53306565--53306903 Score: 458
Period size: 187 Copynumber: 1.8 Consensus size: 188
53306555 TTTTGAAGCT
*
53306565 TTGTTATTAGTGGCGCTTTCATAAAAATGCCACAAAACATCTATTAAGAGAATGTAAAACGGCAT
1 TTGTTATTAGTGGCGCTTTCATAAAAATGCCACAAAACATCTATAAAGAGAATGTAAAACGGCAT
* *
53306630 CGTCTACATCCTTGTTATTAGTGGCGCTTCTATAAACGCCGCAAAAGGTGAGAATTACCGGCGTT
66 CGTCTACATCCTTGTTATTAGTGGCGCTTCTATAAACGCCACAAAAGGTGAGAAATACCGGCGTT
*
53306695 TGCTCTACAAATGCCACAAAAATCTATTAACAGATTGCAAAACGACGTCGTTATTACC
131 TGCTCTACAAACGCCACAAAAATCTATTAACAGATTGCAAAACGACGTCGTTATTACC
* *
53306753 TTGTTATTAGTGGCGCTTTTTATAAAAATGCCACAAAACAT-T-TAAAGAG-ATTTCAAAACGTG
1 TTGTTATTAGTGGCGC-TTTCATAAAAATGCCACAAAACATCTATAAAGAGAATGT-AAAACG-G
* * * **
53306815 -GTCGTTTTATAGT-CTT-TTATTAGTGGCGCCTT-TATAAACGCCACAAAAGGTTTGAAATACC
63 CATCG-TCTACA-TCCTTGTTATTAGTGGCG-CTTCTATAAACGCCACAAAAGGTGAGAAATACC
* *
53306876 GGCGTTTTCTCTAGAAACGCCACAAAAA
125 GGCGTTTGCTCTACAAACGCCACAAAAA
53306904 ACCCCAATTT
Statistics
Matches: 132, Mismatches: 13, Indels: 13
0.84 0.08 0.08
Matches are distributed among these distances:
186 3 0.02
187 77 0.58
188 28 0.21
189 24 0.18
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.30
Consensus pattern (188 bp):
TTGTTATTAGTGGCGCTTTCATAAAAATGCCACAAAACATCTATAAAGAGAATGTAAAACGGCAT
CGTCTACATCCTTGTTATTAGTGGCGCTTCTATAAACGCCACAAAAGGTGAGAAATACCGGCGTT
TGCTCTACAAACGCCACAAAAATCTATTAACAGATTGCAAAACGACGTCGTTATTACC
Found at i:53309415 original size:63 final size:63
Alignment explanation
Indices: 53309326--53310127 Score: 1604
Period size: 63 Copynumber: 12.7 Consensus size: 63
53309316 GGATTAAAAA
53309326 TCTTAATGCAGCAGCAGCTAGTCCTTATACTATTTAGAAGCATTTTAACGTTGTTAAAATGCT
1 TCTTAATGCAGCAGCAGCTAGTCCTTATACTATTTAGAAGCATTTTAACGTTGTTAAAATGCT
53309389 TCTTAATGCAGCAGCAGCTAGTCCTTATACTATTTAGAAGCATTTTAACGTTGTTAAAATGCT
1 TCTTAATGCAGCAGCAGCTAGTCCTTATACTATTTAGAAGCATTTTAACGTTGTTAAAATGCT
53309452 TCTTAATGCAGCAGCAGCTAGTCCTTATACTATTTAGAAGCATTTTAACGTTGTTAAAATGCT
1 TCTTAATGCAGCAGCAGCTAGTCCTTATACTATTTAGAAGCATTTTAACGTTGTTAAAATGCT
53309515 TCTTAATGCAGCAGCAGCTAGTCCTTATACTATTTAGAAGCATTTTAACGTTGTTAAAATGCT
1 TCTTAATGCAGCAGCAGCTAGTCCTTATACTATTTAGAAGCATTTTAACGTTGTTAAAATGCT
53309578 TCTTAATGCAGCAGCAGCTAGTCCTTATACTATTTAGAAGCATTTTAACGTTGTTAAAATGCT
1 TCTTAATGCAGCAGCAGCTAGTCCTTATACTATTTAGAAGCATTTTAACGTTGTTAAAATGCT
53309641 TCTTAATGCAGCAGCAGCTAGTCCTTATACTATTTAGAAGCATTTTAACGTTGTTAAAATGCT
1 TCTTAATGCAGCAGCAGCTAGTCCTTATACTATTTAGAAGCATTTTAACGTTGTTAAAATGCT
53309704 TCTTAATGCAGCAGCAGCTAGTCCTTATACTATTTAGAAGCATTTTAACGTTGTTAAAATGCT
1 TCTTAATGCAGCAGCAGCTAGTCCTTATACTATTTAGAAGCATTTTAACGTTGTTAAAATGCT
53309767 TCTTAATGCAGCAGCAGCTAGTCCTTATACTATTTAGAAGCATTTTAACGTTGTTAAAATGCT
1 TCTTAATGCAGCAGCAGCTAGTCCTTATACTATTTAGAAGCATTTTAACGTTGTTAAAATGCT
53309830 TCTTAATGCAGCAGCAGCTAGTCCTTATACTATTTAGAAGCATTTTAACGTTGTTAAAATGCT
1 TCTTAATGCAGCAGCAGCTAGTCCTTATACTATTTAGAAGCATTTTAACGTTGTTAAAATGCT
53309893 TCTTAATGCAGCAGCAGCTAGTCCTTATACTATTTAGAAGCATTTTAACGTTGTTAAAATGCT
1 TCTTAATGCAGCAGCAGCTAGTCCTTATACTATTTAGAAGCATTTTAACGTTGTTAAAATGCT
53309956 TCTTAATGCAGCAGCAGCTAGTCCTTATACTATTTAGAAGCATTTTAACGTTGTTAAAATGCT
1 TCTTAATGCAGCAGCAGCTAGTCCTTATACTATTTAGAAGCATTTTAACGTTGTTAAAATGCT
53310019 TCTTAATGCAGCAGCAGCTAGTCCTTATACTATTTAGAAGCATTTTAACGTTGTTAAAATGCT
1 TCTTAATGCAGCAGCAGCTAGTCCTTATACTATTTAGAAGCATTTTAACGTTGTTAAAATGCT
53310082 TCTTAATGCAGCAGCAGCTAGTCCTTATACTATTTAGAAGCATTTT
1 TCTTAATGCAGCAGCAGCTAGTCCTTATACTATTTAGAAGCATTTT
53310128 TTCTGCTAGG
Statistics
Matches: 739, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 739 1.00
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.37
Consensus pattern (63 bp):
TCTTAATGCAGCAGCAGCTAGTCCTTATACTATTTAGAAGCATTTTAACGTTGTTAAAATGCT
Found at i:53311338 original size:43 final size:43
Alignment explanation
Indices: 53311290--53311392 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
53311280 TTGTTTTTCA
53311290 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
53311333 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
53311376 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
53311393 TTGAAATACA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.22, C:0.16, G:0.36, T:0.26
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:53311409 original size:29 final size:29
Alignment explanation
Indices: 53311374--53311447 Score: 114
Period size: 29 Copynumber: 2.6 Consensus size: 29
53311364 GTTGTGAGAT
*
53311374 TGGCACTAAGTGTGCGGGCTTGAAA-TACA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
53311403 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
53311432 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
53311448 TGGTTGATTA
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
28 5 0.12
29 37 0.88
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:53311658 original size:40 final size:40
Alignment explanation
Indices: 53311614--53311953 Score: 664
Period size: 40 Copynumber: 8.5 Consensus size: 40
53311604 CATGTTTTAA
53311614 CTCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGT
1 CTCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGT
53311654 CTCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGT
1 CTCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGT
53311694 CTCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGT
1 CTCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGT
53311734 CTCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGT
1 CTCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGT
53311774 CTCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGT
1 CTCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGT
53311814 CTCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGT
1 CTCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGT
53311854 CTCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGT
1 CTCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGT
53311894 CTCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGT
1 CTCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGT
53311934 -TCCGAAGAGCATTCGTGCTA
1 CT-CGAAGAGCATTCGTGCTA
53311954 AACCTCGAAG
Statistics
Matches: 299, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
39 1 0.00
40 298 1.00
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (40 bp):
CTCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGT
Found at i:53320777 original size:18 final size:18
Alignment explanation
Indices: 53320754--53320795 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
53320744 AATGAATTGT
53320754 ATTAAATTGCTTGATGTG
1 ATTAAATTGCTTGATGTG
53320772 ATTAAATTGCTTGATGTG
1 ATTAAATTGCTTGATGTG
53320790 ATTAAA
1 ATTAAA
53320796 AATGCATATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.33, C:0.05, G:0.19, T:0.43
Consensus pattern (18 bp):
ATTAAATTGCTTGATGTG
Found at i:53321987 original size:47 final size:47
Alignment explanation
Indices: 53321934--53322344 Score: 750
Period size: 47 Copynumber: 8.7 Consensus size: 47
53321924 TTAGGATTCT
53321934 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
53321981 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
53322028 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
53322075 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
53322122 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
53322169 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
53322216 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
53322263 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
53322310 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
53322345 TCCCGAAGGG
Statistics
Matches: 354, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 354 1.00
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:53322519 original size:37 final size:37
Alignment explanation
Indices: 53322463--53322541 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
53322453 CCGAGCTCTA
* * *
53322463 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
53322500 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
53322537 AAGAC
1 AAGAC
53322542 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:53327538 original size:43 final size:42
Alignment explanation
Indices: 53327432--53327540 Score: 112
Period size: 42 Copynumber: 2.6 Consensus size: 42
53327422 GACTTATGAT
* * * *
53327432 TTACGTGTAAGACCAAGTTTGAGACATTGGCATCATATTTCA
1 TTACGTGTAAGACCACGTCTGGGACAGTGGCATCATATTTCA
** * *
53327474 TTTTGTGTAAGACC-CTATCTGGGACAGTGGCATCGATATTTGA
1 TTACGTGTAAGACCAC-GTCTGGGACAGTGGCATC-ATATTTCA
*
53327517 TTACATGTAAGACCACGTCTGGGA
1 TTACGTGTAAGACCACGTCTGGGA
53327541 TGTTGGCATT
Statistics
Matches: 52, Mismatches: 12, Indels: 5
0.75 0.17 0.07
Matches are distributed among these distances:
42 26 0.50
43 25 0.48
44 1 0.02
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (42 bp):
TTACGTGTAAGACCACGTCTGGGACAGTGGCATCATATTTCA
Found at i:53353517 original size:15 final size:16
Alignment explanation
Indices: 53353479--53353520 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
53353469 TTTTGCTCTC
*
53353479 CATTTTGGTTGTTGTTA
1 CATTTTTGTT-TTGTTA
53353496 C-TTTTTGTTTT-TTA
1 CATTTTTGTTTTGTTA
53353510 CATTTTTGTTT
1 CATTTTTGTTT
53353521 GAGGCCGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 4 0.17
15 11 0.48
16 7 0.30
17 1 0.04
ACGTcount: A:0.10, C:0.07, G:0.14, T:0.69
Consensus pattern (16 bp):
CATTTTTGTTTTGTTA
Found at i:53356620 original size:18 final size:18
Alignment explanation
Indices: 53356597--53356633 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
53356587 TTGTCTTAAT
53356597 ACAGCCAGAGTCTGGGAA
1 ACAGCCAGAGTCTGGGAA
* *
53356615 ACAGCCAGATTCTGTGAA
1 ACAGCCAGAGTCTGGGAA
53356633 A
1 A
53356634 GAGTTCAATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.35, C:0.22, G:0.27, T:0.16
Consensus pattern (18 bp):
ACAGCCAGAGTCTGGGAA
Found at i:53363059 original size:57 final size:58
Alignment explanation
Indices: 53362928--53363073 Score: 174
Period size: 57 Copynumber: 2.5 Consensus size: 58
53362918 GTTGTTAACG
* **
53362928 GGATTTAGCCTGGATTGGTAATCCTGATATAATTCCTTTCGAGCATATGTTACAATTA
1 GGATTTAGCCTGGATTGGTAATCCTGATATAATTCCTTTCGAGCATATATTACAAAAA
*
53362986 GGATTTAGCCTGGATTGGTAATCCTGAT-TGAGA-T-C-TTCTGAGCATATATTGCAAAAA
1 GGATTTAGCCTGGATTGGTAATCCTGATAT-A-ATTCCTTTC-GAGCATATATTACAAAAA
* * *
53363043 GGATTTAGCCTAGATTGGTAACCCTGTTATA
1 GGATTTAGCCTGGATTGGTAATCCTGATATA
53363074 TGTTATAAGG
Statistics
Matches: 77, Mismatches: 7, Indels: 9
0.83 0.08 0.10
Matches are distributed among these distances:
56 3 0.04
57 42 0.55
58 31 0.40
59 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (58 bp):
GGATTTAGCCTGGATTGGTAATCCTGATATAATTCCTTTCGAGCATATATTACAAAAA
Found at i:53371287 original size:39 final size:39
Alignment explanation
Indices: 53371233--53371313 Score: 144
Period size: 39 Copynumber: 2.1 Consensus size: 39
53371223 ATAATTTGTG
*
53371233 ATAGTGTGATGACTCCAGATCATTTTAAATGTGTTTTTC
1 ATAGTGTGATGACTCCAGATCATTTTAAATATGTTTTTC
*
53371272 ATAGTGTGATGACTCCTGATCATTTTAAATATGTTTTTC
1 ATAGTGTGATGACTCCAGATCATTTTAAATATGTTTTTC
53371311 ATA
1 ATA
53371314 TAGTAATGTC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.27, C:0.12, G:0.16, T:0.44
Consensus pattern (39 bp):
ATAGTGTGATGACTCCAGATCATTTTAAATATGTTTTTC
Found at i:53376821 original size:25 final size:25
Alignment explanation
Indices: 53376792--53376839 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
53376782 TTATAATATG
* * *
53376792 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
53376817 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
53376840 GTTTCTATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:53376906 original size:20 final size:20
Alignment explanation
Indices: 53376883--53376941 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
53376873 TAAACATGGT
53376883 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
*
53376903 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAC
53376923 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
53376942 GGTATTCATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:53376923 original size:11 final size:11
Alignment explanation
Indices: 53376887--53376941 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
53376877 CATGGTATGT
53376887 ATGATATGCAC
1 ATGATATGCAC
* *
53376898 ATGACATG--T
1 ATGATATGCAC
53376907 ATGATATGCAC
1 ATGATATGCAC
*
53376918 ATGATATG--T
1 ATGATATGCAC
53376927 ATGATATGCAC
1 ATGATATGCAC
53376938 ATGA
1 ATGA
53376942 GGTATTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:53377023 original size:24 final size:24
Alignment explanation
Indices: 53376992--53377135 Score: 182
Period size: 24 Copynumber: 6.0 Consensus size: 24
53376982 GAGGAAGCGC
53376992 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
53377016 AAATGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
53377040 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
*
53377064 AAAAGGGTTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* * * * *
53377088 CAAAGGGTTTTTGTCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
*
53377112 AAAAGAGGCTT-GGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
53377136 ATGATAAAGC
Statistics
Matches: 105, Mismatches: 13, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
24 93 0.89
25 12 0.11
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.31
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:53383528 original size:150 final size:150
Alignment explanation
Indices: 53383253--53383551 Score: 544
Period size: 150 Copynumber: 2.0 Consensus size: 150
53383243 CCTCGAAAGA
53383253 TTGAGGCAATTTTGAAATGGAAGCCACCGAAGTCGGTAATAAAGATCCGAAGTTTTCTAGGGTTG
1 TTGAGGCAATTTTGAAATGGAAGCCACCGAAGTCGGTAATAAAGATCCGAAGTTTTCTAGGGTTG
* *
53383318 GCAGGTTAATATCGGAGATTCGTGGAAGGATTTTCTGTGTTGGTAGCACCATTAATGAAACATAT
66 GCAGGTTAATATCGGAGATTCGTGGAAGAATTTTCTGTGTTGGTAGCACCATTAACGAAACATAT
53383383 AAGGAAGGGAGCACCTTTTG
131 AAGGAAGGGAGCACCTTTTG
* *
53383403 TTGAGGCAATTTTGAAATGGAAGCCACCGAAGTCGGTAATAGAGATCCGAAGTTTTCTGGGGTTG
1 TTGAGGCAATTTTGAAATGGAAGCCACCGAAGTCGGTAATAAAGATCCGAAGTTTTCTAGGGTTG
* *
53383468 GCAGGTTATTATCGGAGATTCGTGGAAGAATTTTCTGTGTTGGTAGCACCGTTAACGAAACATAT
66 GCAGGTTAATATCGGAGATTCGTGGAAGAATTTTCTGTGTTGGTAGCACCATTAACGAAACATAT
53383533 AAGGAAGGGAGCACCTTTT
131 AAGGAAGGGAGCACCTTTT
53383552 ATTTGGACAA
Statistics
Matches: 143, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
150 143 1.00
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (150 bp):
TTGAGGCAATTTTGAAATGGAAGCCACCGAAGTCGGTAATAAAGATCCGAAGTTTTCTAGGGTTG
GCAGGTTAATATCGGAGATTCGTGGAAGAATTTTCTGTGTTGGTAGCACCATTAACGAAACATAT
AAGGAAGGGAGCACCTTTTG
Found at i:53396896 original size:25 final size:25
Alignment explanation
Indices: 53396867--53396914 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
53396857 TTATAATATG
* * *
53396867 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
53396892 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
53396915 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Done.