Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 72 of 186
Found at i:23210883 original size:27 final size:28
Alignment explanation
Indices: 23210845--23210899 Score: 103
Period size: 27 Copynumber: 2.0 Consensus size: 28
23210835 TCCTTTTGTA
23210845 AATTATGGATGTTAATT-TTAGTACTTT
1 AATTATGGATGTTAATTCTTAGTACTTT
23210872 AATTATGGATGTTAATTCTTAGTACTTT
1 AATTATGGATGTTAATTCTTAGTACTTT
23210900 TGATCTTAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 17 0.63
28 10 0.37
ACGTcount: A:0.29, C:0.05, G:0.15, T:0.51
Consensus pattern (28 bp):
AATTATGGATGTTAATTCTTAGTACTTT
Found at i:23211477 original size:40 final size:40
Alignment explanation
Indices: 23211432--23211532 Score: 114
Period size: 40 Copynumber: 2.5 Consensus size: 40
23211422 TTAACAATTG
*
23211432 CCAAAATTTCTATGACTTTACCAA-ATAATCCAATGATTTA
1 CCAAAATTTCTATGACTTTACCAAGAT-ATCCAACGATTTA
* ** *
23211472 CCAAAATATCTAAAACTTTACCAAGATATCTAACGATTTA
1 CCAAAATTTCTATGACTTTACCAAGATATCCAACGATTTA
* *
23211512 CCAGAATTTCTAATGAATTTA
1 CCAAAATTTCT-ATGACTTTA
23211533 TCAATATTTA
Statistics
Matches: 49, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
40 41 0.84
41 8 0.16
ACGTcount: A:0.42, C:0.19, G:0.06, T:0.34
Consensus pattern (40 bp):
CCAAAATTTCTATGACTTTACCAAGATATCCAACGATTTA
Found at i:23211511 original size:20 final size:18
Alignment explanation
Indices: 23211448--23211693 Score: 93
Period size: 20 Copynumber: 12.4 Consensus size: 18
23211438 TTTCTATGAC
*
23211448 TTTACCAAATAATCCAATGA
1 TTTACCAAAT-ATCTAA-GA
*
23211468 TTTACCAAAATATCTAAAA
1 TTTACC-AAATATCTAAGA
23211487 CTTTACCAAGATATCTAACGA
1 -TTTACCAA-ATATCTAA-GA
*
23211508 TTTACCAGAATTTCTAATGAA
1 TTTACCA-AATATCTAA-G-A
* * * *
23211529 TTTATCAATATTTATAAGC
1 TTTACCAA-ATATCTAAGA
23211548 TTATACCAAA-AGTCTTATAGA
1 TT-TACCAAATA-TC-TA-AGA
* **
23211569 -TTACCACAATTTCTATTA
1 TTTACCA-AATATCTAAGA
*
23211587 CTTTACCAAAAATCTAAAGGA
1 -TTTACCAAATATCT-AA-GA
23211608 -TTACCAAATTATCTAAGA
1 TTTACCAAA-TATCTAAGA
*
23211626 TTTTACCAATATTTCTAAGGA
1 -TTTACCAA-ATATCTAA-GA
* *
23211647 TTTACCAAATTATATAAAA
1 TTTACCAAA-TATCTAAGA
* *
23211666 CTTTACCTGAATTTCTAACGA
1 -TTTACC-AAATATCTAA-GA
23211687 TTTACCA
1 TTTACCA
23211694 TTACTTTTAA
Statistics
Matches: 171, Mismatches: 29, Indels: 53
0.68 0.11 0.21
Matches are distributed among these distances:
18 3 0.02
19 31 0.18
20 108 0.63
21 29 0.17
ACGTcount: A:0.41, C:0.17, G:0.06, T:0.36
Consensus pattern (18 bp):
TTTACCAAATATCTAAGA
Found at i:23211654 original size:40 final size:40
Alignment explanation
Indices: 23211586--23211693 Score: 114
Period size: 40 Copynumber: 2.7 Consensus size: 40
23211576 AATTTCTATT
** * *
23211586 ACTTTACC-AAAAATCTAAAGGA-TTACCAAATTATCTAAG
1 ACTTTACCTAAATTTCT-AAGGATTTACCAAATTATATAAA
*
23211625 ATTTTACC-AATATTTCTAAGGATTTACCAAATTATATAAA
1 ACTTTACCTAA-ATTTCTAAGGATTTACCAAATTATATAAA
* *
23211665 ACTTTACCTGAATTTCTAACGATTTACCA
1 ACTTTACCTAAATTTCTAAGGATTTACCA
23211694 TTACTTTTAA
Statistics
Matches: 58, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
39 14 0.24
40 43 0.74
41 1 0.02
ACGTcount: A:0.41, C:0.18, G:0.06, T:0.35
Consensus pattern (40 bp):
ACTTTACCTAAATTTCTAAGGATTTACCAAATTATATAAA
Found at i:23211905 original size:20 final size:20
Alignment explanation
Indices: 23211843--23211995 Score: 79
Period size: 20 Copynumber: 7.7 Consensus size: 20
23211833 GTCTTACCAA
*
23211843 TTACCAAAATTT-TTATAACT
1 TTACCAAAATTTCTTA-GACT
* *
23211863 TTATCAAAATAT-TTA-ACGAT
1 TTACCAAAATTTCTTAGAC--T
23211883 TTACCAAAATTTCTTAGACT
1 TTACCAAAATTTCTTAGACT
* *
23211903 TTACTC-AAATATCTAAG-CT
1 TTAC-CAAAATTTCTTAGACT
*
23211922 TTACCAAATTTTCTTAGGA-T
1 TTACCAAAATTTCTTA-GACT
* *
23211942 TTACCAAAATATCTAATGA-T
1 TTACCAAAATTTCTTA-GACT
* * *
23211962 TTA-CAAGAATTTCTAACAAT
1 TTACCAA-AATTTCTTAGACT
*
23211982 TTACCAATATTTCT
1 TTACCAAAATTTCT
23211996 AGGCATATAT
Statistics
Matches: 106, Mismatches: 16, Indels: 22
0.74 0.11 0.15
Matches are distributed among these distances:
18 3 0.03
19 17 0.16
20 77 0.73
21 7 0.07
22 2 0.02
ACGTcount: A:0.39, C:0.16, G:0.05, T:0.41
Consensus pattern (20 bp):
TTACCAAAATTTCTTAGACT
Found at i:23211935 original size:39 final size:41
Alignment explanation
Indices: 23211843--23211965 Score: 134
Period size: 39 Copynumber: 3.1 Consensus size: 41
23211833 GTCTTACCAA
*
23211843 TTACCAAAATTTT-TATA-ACTTTA-TCAAAATATTTAACGAT
1 TTACC-AAATTTTCT-TAGACTTTACTCAAAATATCTAACGAT
* *
23211883 TTACCAAAATTTCTTAGACTTTACTC-AAATATCTAA-GCT
1 TTACCAAATTTTCTTAGACTTTACTCAAAATATCTAACGAT
*
23211922 TTACCAAATTTTCTTAGGA-TTTAC-CAAAATATCTAATGAT
1 TTACCAAATTTTCTTA-GACTTTACTCAAAATATCTAACGAT
23211962 TTAC
1 TTAC
23211966 AAGAATTTCT
Statistics
Matches: 72, Mismatches: 5, Indels: 12
0.81 0.06 0.13
Matches are distributed among these distances:
38 1 0.01
39 40 0.56
40 29 0.40
41 2 0.03
ACGTcount: A:0.38, C:0.16, G:0.05, T:0.41
Consensus pattern (41 bp):
TTACCAAATTTTCTTAGACTTTACTCAAAATATCTAACGAT
Found at i:23212013 original size:20 final size:20
Alignment explanation
Indices: 23211969--23212037 Score: 70
Period size: 20 Copynumber: 3.5 Consensus size: 20
23211959 GATTTACAAG
*
23211969 AATTTCTAA-CAATTTACC-A
1 AATTTCTAAGC-ATATACCGA
* *
23211988 ATATTTCTAGGCATATATCGA
1 A-ATTTCTAAGCATATACCGA
*
23212009 AATTTCTAAGCCTATACCGA
1 AATTTCTAAGCATATACCGA
23212029 AATTTCTAA
1 AATTTCTAA
23212038 AATTTCTCTG
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
19 1 0.02
20 37 0.90
21 3 0.07
ACGTcount: A:0.38, C:0.19, G:0.07, T:0.36
Consensus pattern (20 bp):
AATTTCTAAGCATATACCGA
Found at i:23212167 original size:29 final size:29
Alignment explanation
Indices: 23212123--23212193 Score: 124
Period size: 29 Copynumber: 2.4 Consensus size: 29
23212113 AACACTTTAC
*
23212123 CAAAATATCTAGGAGTTTACTAATATTTT
1 CAAAATATCTAAGAGTTTACTAATATTTT
23212152 CAAAATATCTAAGAGTTTACTAATATTTT
1 CAAAATATCTAAGAGTTTACTAATATTTT
*
23212181 CAAAATTTCTAAG
1 CAAAATATCTAAG
23212194 CACATACCAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.41, C:0.11, G:0.08, T:0.39
Consensus pattern (29 bp):
CAAAATATCTAAGAGTTTACTAATATTTT
Found at i:23212671 original size:20 final size:20
Alignment explanation
Indices: 23212640--23212728 Score: 81
Period size: 20 Copynumber: 4.5 Consensus size: 20
23212630 TACCATGTCT
*
23212640 TAACAA-TTATCAAAATATC
1 TAACAATTTATCAAAATTTC
**
23212659 TAACAATTTATCACTATTTC
1 TAACAATTTATCAAAATTTC
** * * *
23212679 TAGTACTTTATCAATATTTT
1 TAACAATTTATCAAAATTTC
*
23212699 TAACAATTTATCAAAATTTG
1 TAACAATTTATCAAAATTTC
*
23212719 TAATAATTTA
1 TAACAATTTA
23212729 CTGTTATTTA
Statistics
Matches: 55, Mismatches: 14, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
19 6 0.11
20 49 0.89
ACGTcount: A:0.42, C:0.12, G:0.02, T:0.44
Consensus pattern (20 bp):
TAACAATTTATCAAAATTTC
Found at i:23214845 original size:15 final size:16
Alignment explanation
Indices: 23214813--23214850 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
23214803 AAAAAGGTTT
23214813 TTTTATATTTTTAATAA
1 TTTTA-ATTTTTAATAA
*
23214830 TTTTAATTTTT-TTAA
1 TTTTAATTTTTAATAA
23214845 TTTTAA
1 TTTTAA
23214851 AAATAATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 9 0.45
16 6 0.30
17 5 0.25
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTTAATTTTTAATAA
Found at i:23215120 original size:25 final size:25
Alignment explanation
Indices: 23215090--23215200 Score: 84
Period size: 26 Copynumber: 4.2 Consensus size: 25
23215080 TGTATTATAA
*
23215090 ATTT-AATATTTATTAAAGATATTTT
1 ATTTAAATATTTAATAAA-ATATTTT
23215115 ATTTAAATATTTAATAAAATATTTT
1 ATTTAAATATTTAATAAAATATTTT
* *
23215140 ATTTTGAAACAAATT--TAAAATATTTGT
1 A-TTT-AAA-TATTTAATAAAATATTT-T
23215167 ATTTAATAATATTTAAAATAAAATATTTGT
1 ATTT-A-AATATTT--AATAAAATATTT-T
23215197 ATTT
1 ATTT
23215201 TATTAAATTT
Statistics
Matches: 70, Mismatches: 6, Indels: 15
0.77 0.07 0.16
Matches are distributed among these distances:
25 12 0.17
26 32 0.46
27 7 0.10
28 3 0.04
30 16 0.23
ACGTcount: A:0.45, C:0.01, G:0.04, T:0.50
Consensus pattern (25 bp):
ATTTAAATATTTAATAAAATATTTT
Found at i:23215125 original size:26 final size:24
Alignment explanation
Indices: 23215090--23215143 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 24
23215080 TGTATTATAA
*
23215090 ATTTAATATTTATTAAAGATATTTT
1 ATTTAATATTTAATAAA-ATATTTT
23215115 ATTTAAATATTTAATAAAATATTTT
1 ATTT-AATATTTAATAAAATATTTT
23215140 ATTT
1 ATTT
23215144 TGAAACAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 15 0.56
26 12 0.44
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (24 bp):
ATTTAATATTTAATAAAATATTTT
Found at i:23215140 original size:13 final size:12
Alignment explanation
Indices: 23215094--23215138 Score: 54
Period size: 12 Copynumber: 3.6 Consensus size: 12
23215084 TTATAAATTT
23215094 AATATTTATTAA
1 AATATTTATTAA
*
23215106 AGATATTTTATTTA
1 A-ATA-TTTATTAA
*
23215120 AATATTTAATAA
1 AATATTTATTAA
23215132 AATATTT
1 AATATTT
23215139 TATTTTGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
12 14 0.50
13 6 0.21
14 8 0.29
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (12 bp):
AATATTTATTAA
Found at i:23216267 original size:336 final size:335
Alignment explanation
Indices: 23215654--23216324 Score: 1063
Period size: 336 Copynumber: 2.0 Consensus size: 335
23215644 AAATTGGTCT
*
23215654 CAATTACAAAGCTTCGATTTGCCAAAATGACAAAGTTAACATGGGGAGTTGCAGTTTGCTTACTG
1 CAATTACAAAGCTTCGATTTGCCAAAATGACAAAGCTAACATGGGGAGTTGCAGTTTGCTTACTG
* * * * *
23215719 AGTAGACCACAGAAATGAGCTCGATATCAAGACTCAACATCCAAGCGTTTGGGTCTCTTTTAAAA
66 AGTAGACCAAAAAAATGAGCTCGATATCAAAACTCAACATCCAAGCGTTTGGATCTCTTTCAAAA
* **
23215784 TCAAAGTAACCAATACAGATTGAATAGACCCAAAGAGGCAATAGAATAAAACCAGGGTTATCTCT
131 TCAAAGTAACCAATACAGATTGAATAGACCCAAAGAGGCAATAGAAGAAAACCAACGTTATCTCT
* *
23215849 GATGGATACCCTTTCAGAACTGCAACCTTCAAATTTAGTAGGGAAAGTATCAATTTGAAGTACCC
196 GATGGATACCCTTTCAGAACTCCAACCTTCAAATTTAGCAGGGAAAGTATCAATTTGAAGTACCC
23215914 AAAGCATGGTGGATTATGAAATAGCATATTAAATTACCTGACCAACGATTTTTGCTGAAAGTGAC
261 AAAGCATGGTGGATTATGAAATAGCATATTAAATTACCTGACCAACGATTTTTGCTGAAAGTGAC
*
23215979 AAAGAGGCAG
326 AAACAGGCAG
*
23215989 NCAATTACAAAGCTTTGATTTGCCAAAATGACAAAGCTAACATGGGGAGTTGCAGTTTGCTTACT
1 -CAATTACAAAGCTTCGATTTGCCAAAATGACAAAGCTAACATGGGGAGTTGCAGTTTGCTTACT
* * *
23216054 GGGTAGACCAAAAAAATGAGCTTGCTATCAAAACTCAACATCCAAGCGTTTGGATCTCTTTCAAA
65 GAGTAGACCAAAAAAATGAGCTCGATATCAAAACTCAACATCCAAGCGTTTGGATCTCTTTCAAA
* * * * * *
23216119 ATCAAAGTAACTAATGCAGATTGAATGGGCCCAAAGAGGCAATAGAAGGAAACTAACGTTATCTC
130 ATCAAAGTAACCAATACAGATTGAATAGACCCAAAGAGGCAATAGAAGAAAACCAACGTTATCTC
* * * * *
23216184 TGATGGATACTCTTTTAGAACTCCAGCCTTTAAATTTAGCAGGGAAAGTATCAATTTGAAGTAGC
195 TGATGGATACCCTTTCAGAACTCCAACCTTCAAATTTAGCAGGGAAAGTATCAATTTGAAGTACC
* * *
23216249 CAAAGCATTGTGGATTATGAAATAGCATATTAAATTACCTGACTAACGATTTTTGCTGAAATTGA
260 CAAAGCATGGTGGATTATGAAATAGCATATTAAATTACCTGACCAACGATTTTTGCTGAAAGTGA
23216314 CAAACAGGCAG
325 CAAACAGGCAG
23216325 TAGCGATATA
Statistics
Matches: 305, Mismatches: 30, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
336 305 1.00
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.26
Consensus pattern (335 bp):
CAATTACAAAGCTTCGATTTGCCAAAATGACAAAGCTAACATGGGGAGTTGCAGTTTGCTTACTG
AGTAGACCAAAAAAATGAGCTCGATATCAAAACTCAACATCCAAGCGTTTGGATCTCTTTCAAAA
TCAAAGTAACCAATACAGATTGAATAGACCCAAAGAGGCAATAGAAGAAAACCAACGTTATCTCT
GATGGATACCCTTTCAGAACTCCAACCTTCAAATTTAGCAGGGAAAGTATCAATTTGAAGTACCC
AAAGCATGGTGGATTATGAAATAGCATATTAAATTACCTGACCAACGATTTTTGCTGAAAGTGAC
AAACAGGCAG
Found at i:23219572 original size:153 final size:153
Alignment explanation
Indices: 23219292--23219597 Score: 558
Period size: 153 Copynumber: 2.0 Consensus size: 153
23219282 ATATTATTGG
23219292 TACATGGAAATTATTGTACTAACTTGAATGTTGAGTTTGTGCATATTAGGGTAATAATGCATTGA
1 TACATGGAAATTATTGTACTAACTTGAATGTTGAGTTTGTGCATATTAGGGTAATAATGCATTGA
* *
23219357 ATGGATATATGAATGTTTATTATATTGTATTGAAAATATTAGGTAAGTATAATTCTTGTTACACG
66 ATGGATATAGGAATGTTTATTATATTGTATTGAAAATATTAGGTAAGTATAATTCTTATTACACG
23219422 AGCTTACTAAGCACAAAGTGCTT
131 AGCTTACTAAGCACAAAGTGCTT
*
23219445 TACATGGAAATTATTGTACTAACTTGAATGTTGAGTTTGTGCATGTTAGGGTAATAATGCATTGA
1 TACATGGAAATTATTGTACTAACTTGAATGTTGAGTTTGTGCATATTAGGGTAATAATGCATTGA
*
23219510 ATGGATATAGGAATGTTTATTATATTGTATTGAAAATATTAGGTAAGTATAATTCTTATTACATG
66 ATGGATATAGGAATGTTTATTATATTGTATTGAAAATATTAGGTAAGTATAATTCTTATTACACG
* *
23219575 AGCTTACTAGGCACAAGGTGCTT
131 AGCTTACTAAGCACAAAGTGCTT
23219598 ACGCTGTTTC
Statistics
Matches: 147, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
153 147 1.00
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (153 bp):
TACATGGAAATTATTGTACTAACTTGAATGTTGAGTTTGTGCATATTAGGGTAATAATGCATTGA
ATGGATATAGGAATGTTTATTATATTGTATTGAAAATATTAGGTAAGTATAATTCTTATTACACG
AGCTTACTAAGCACAAAGTGCTT
Found at i:23220306 original size:31 final size:31
Alignment explanation
Indices: 23220271--23220337 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
23220261 CTTTTTGCAT
* *
23220271 TAAAATCCAACCAAATACAACAAATATAGTA
1 TAAAATCCAACCAAAAACAACAAATATAGCA
* * * *
23220302 TAAAATGCAGCCAAAAACATCAAATTTAGCA
1 TAAAATCCAACCAAAAACAACAAATATAGCA
23220333 TAAAA
1 TAAAA
23220338 AATACAACAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.57, C:0.18, G:0.06, T:0.19
Consensus pattern (31 bp):
TAAAATCCAACCAAAAACAACAAATATAGCA
Found at i:23220598 original size:21 final size:21
Alignment explanation
Indices: 23220585--23220660 Score: 109
Period size: 21 Copynumber: 3.6 Consensus size: 21
23220575 TCTGCTGCCA
23220585 TCGCTGCTGCCTCTGCCTCCC
1 TCGCTGCTGCCTCTGCCTCCC
*
23220606 TCACT-CGTGCCTCTGCCTCCC
1 TCGCTGC-TGCCTCTGCCTCCC
*
23220627 TCGCTGCTGCCGCTGCCTCCC
1 TCGCTGCTGCCTCTGCCTCCC
*
23220648 TCTCTGCTGCCTC
1 TCGCTGCTGCCTC
23220661 CGCTCTAAGT
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
20 1 0.02
21 46 0.96
22 1 0.02
ACGTcount: A:0.01, C:0.51, G:0.18, T:0.29
Consensus pattern (21 bp):
TCGCTGCTGCCTCTGCCTCCC
Found at i:23221099 original size:13 final size:14
Alignment explanation
Indices: 23221074--23221102 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
23221064 TGATGAATTG
23221074 AATTAAACAATTAT
1 AATTAAACAATTAT
23221088 AATTAAAC-ATTAT
1 AATTAAACAATTAT
23221101 AA
1 AA
23221103 ATATATTGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACAATTAT
Found at i:23223280 original size:39 final size:39
Alignment explanation
Indices: 23223159--23223263 Score: 183
Period size: 39 Copynumber: 2.7 Consensus size: 39
23223149 GAGATTGGAA
23223159 ATATCCGGACATGAGATCCGCAGGCTATATGCTAGAAAT
1 ATATCCGGACATGAGATCCGCAGGCTATATGCTAGAAAT
23223198 ATATCCGGACATGAGATCCGCAGGCTATATGCTAGAAAT
1 ATATCCGGACATGAGATCCGCAGGCTATATGCTAGAAAT
* * *
23223237 ATATCTGGACTTGAGGTCCGCAGGCTA
1 ATATCCGGACATGAGATCCGCAGGCTA
23223264 CGTGCTGGGA
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 63 1.00
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.24
Consensus pattern (39 bp):
ATATCCGGACATGAGATCCGCAGGCTATATGCTAGAAAT
Found at i:23223511 original size:2 final size:2
Alignment explanation
Indices: 23223506--23223535 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
23223496 TATATATATA
*
23223506 TG TG TG TG TG TA TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
23223536 CGAATGAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.03, C:0.00, G:0.47, T:0.50
Consensus pattern (2 bp):
TG
Found at i:23229382 original size:9 final size:9
Alignment explanation
Indices: 23229368--23229626 Score: 186
Period size: 9 Copynumber: 28.7 Consensus size: 9
23229358 TATTTAAGTA
23229368 TTATGTAAG
1 TTATGTAAG
23229377 TTATGTAAG
1 TTATGTAAG
*
23229386 TTATGATATG
1 TTATG-TAAG
* * *
23229396 ATATAT-AT
1 TTATGTAAG
23229404 TTATGTAAG
1 TTATGTAAG
* *
23229413 TTATAT-AT
1 TTATGTAAG
*
23229421 TTATCTAAG
1 TTATGTAAG
*
23229430 TTATATAAG
1 TTATGTAAG
23229439 TTATGTAAG
1 TTATGTAAG
*
23229448 TTATGTAAA
1 TTATGTAAG
*
23229457 TTATGT-AT
1 TTATGTAAG
*
23229465 TTATCTAAG
1 TTATGTAAG
*
23229474 TTATATAAG
1 TTATGTAAG
*
23229483 TTANGTTATCAAAG
1 TTA---TGT--AAG
* *
23229497 TTATATCAG
1 TTATGTAAG
*
23229506 TTATATAAG
1 TTATGTAAG
23229515 TTATGTAAG
1 TTATGTAAG
*
23229524 TTATATAAG
1 TTATGTAAG
* *
23229533 TTATAT-AT
1 TTATGTAAG
*
23229541 TTATCTAAG
1 TTATGTAAG
*
23229550 TTATATAAG
1 TTATGTAAG
23229559 TTATGTAAG
1 TTATGTAAG
23229568 TTATGTAAG
1 TTATGTAAG
* *
23229577 TTATAT-AT
1 TTATGTAAG
*
23229585 TTATCTAAG
1 TTATGTAAG
*
23229594 TTATATAAG
1 TTATGTAAG
23229603 TTATGTAAG
1 TTATGTAAG
*
23229612 TTTTGTAAG
1 TTATGTAAG
*
23229621 TAATGT
1 TTATGT
23229627 TAAACATTTA
Statistics
Matches: 202, Mismatches: 37, Indels: 22
0.77 0.14 0.08
Matches are distributed among these distances:
8 28 0.14
9 156 0.77
10 6 0.03
11 3 0.01
12 3 0.01
14 6 0.03
ACGTcount: A:0.36, C:0.02, G:0.14, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:23229452 original size:44 final size:43
Alignment explanation
Indices: 23229375--23229613 Score: 208
Period size: 44 Copynumber: 5.3 Consensus size: 43
23229365 GTATTATGTA
* * * * *
23229375 AGTTATGTAAGTTATGATATGATATATATTTATGTAAGTTATAT
1 AGTTATCTAAGTTAT-ATAAGTTATATAGTTATCTAAGTTATAT
* * * * *
23229419 ATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAATTATGT
1 AGTTATCTAAGTTATATAAGTTATAT-AGTTATCTAAGTTATAT
* * *
23229463 ATTTATCTAAGTTATATAAGTTANGTTATCAAAGTTATATCAGTTATAT
1 AGTTATCTAAGTTATATAAGTTA---TAT---AGTTATCTAAGTTATAT
* *
23229512 AAGTTATGTAAGTTATATAAGTTATATATTTATCTAAGTTATAT
1 -AGTTATCTAAGTTATATAAGTTATATAGTTATCTAAGTTATAT
* * *
23229556 AAGTTATGTAAGTTATGTAAGTTATATATTTATCTAAGTTATAT
1 -AGTTATCTAAGTTATATAAGTTATATAGTTATCTAAGTTATAT
*
23229600 AAGTTATGTAAGTT
1 -AGTTATCTAAGTT
23229614 TTGTAAGTAA
Statistics
Matches: 169, Mismatches: 19, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
43 8 0.05
44 121 0.72
47 5 0.03
49 14 0.08
50 21 0.12
ACGTcount: A:0.37, C:0.03, G:0.13, T:0.47
Consensus pattern (43 bp):
AGTTATCTAAGTTATATAAGTTATATAGTTATCTAAGTTATAT
Found at i:23229497 original size:23 final size:22
Alignment explanation
Indices: 23229465--23229508 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
23229455 AATTATGTAT
*
23229465 TTATCTAAGTTATATAAGTTANG
1 TTATCAAAGTTATATAAGTTA-G
*
23229488 TTATCAAAGTTATATCAGTTA
1 TTATCAAAGTTATATAAGTTA
23229509 TATAAGTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.36, C:0.07, G:0.11, T:0.43
Consensus pattern (22 bp):
TTATCAAAGTTATATAAGTTAG
Found at i:23229756 original size:15 final size:15
Alignment explanation
Indices: 23229736--23229820 Score: 95
Period size: 14 Copynumber: 5.9 Consensus size: 15
23229726 GTAAGTTGCG
23229736 AATTAAATAATATTT
1 AATTAAATAATATTT
23229751 AATTAAATAATATTT
1 AATTAAATAATATTT
* *
23229766 -ATAAAATTAT-TTT
1 AATTAAATAATATTT
*
23229779 AATTAAATAATATTG
1 AATTAAATAATATTT
** *
23229794 AAAAAAATTAT-TTT
1 AATTAAATAATATTT
23229808 AATTAAATAATAT
1 AATTAAATAATAT
23229821 AATGTCGTTC
Statistics
Matches: 55, Mismatches: 12, Indels: 6
0.75 0.16 0.08
Matches are distributed among these distances:
13 3 0.05
14 26 0.47
15 26 0.47
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (15 bp):
AATTAAATAATATTT
Found at i:23229779 original size:28 final size:29
Alignment explanation
Indices: 23229748--23229820 Score: 121
Period size: 29 Copynumber: 2.6 Consensus size: 29
23229738 TTAAATAATA
* *
23229748 TTTAATTAAATAATATT-TATAAAATTAT
1 TTTAATTAAATAATATTGAAAAAAATTAT
23229776 TTTAATTAAATAATATTGAAAAAAATTAT
1 TTTAATTAAATAATATTGAAAAAAATTAT
23229805 TTTAATTAAATAATAT
1 TTTAATTAAATAATAT
23229821 AATGTCGTTC
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
28 17 0.40
29 25 0.60
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (29 bp):
TTTAATTAAATAATATTGAAAAAAATTAT
Found at i:23230025 original size:24 final size:24
Alignment explanation
Indices: 23229993--23230039 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
23229983 TTAACTTAAA
*
23229993 TGATAAAACGGACGATAATATTTG
1 TGATAAAACGGACGAGAATATTTG
23230017 TGATAAAACGGACGAGAATATTT
1 TGATAAAACGGACGAGAATATTT
23230040 TAATAATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.43, C:0.09, G:0.21, T:0.28
Consensus pattern (24 bp):
TGATAAAACGGACGAGAATATTTG
Found at i:23230294 original size:64 final size:64
Alignment explanation
Indices: 23230087--23230284 Score: 342
Period size: 64 Copynumber: 3.1 Consensus size: 64
23230077 ATATTTTATT
* * *
23230087 AAATATTTGTATATTAGATGGGATATATAATATTAATAAATAAATTTATTAAAAATTGTGATAG
1 AAATATTTGTATATTAGATGGGACATATTATATTAATAAATAAATTTATTAAAAATCGTGATAG
* *
23230151 AAATATTTGTATATTAGATGTGACATATTATATTAATGAATAAATTTATTAAAAATCGTGATAG
1 AAATATTTGTATATTAGATGGGACATATTATATTAATAAATAAATTTATTAAAAATCGTGATAG
*
23230215 AAATATTTGTATATTAGATGGGACATATTATATCAATAAATAAATTTATTAAAAATCGTGATAG
1 AAATATTTGTATATTAGATGGGACATATTATATTAATAAATAAATTTATTAAAAATCGTGATAG
23230279 AAATAT
1 AAATAT
23230285 AGAAATATTA
Statistics
Matches: 126, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 126 1.00
ACGTcount: A:0.46, C:0.03, G:0.12, T:0.39
Consensus pattern (64 bp):
AAATATTTGTATATTAGATGGGACATATTATATTAATAAATAAATTTATTAAAAATCGTGATAG
Found at i:23231084 original size:40 final size:40
Alignment explanation
Indices: 23231040--23231136 Score: 176
Period size: 40 Copynumber: 2.4 Consensus size: 40
23231030 AAACAGATTA
*
23231040 AAAAAGCAAAAAGCAAAAAGCAATTGTTACTTATAAACGC
1 AAAAAGCAAAAAGCAAAAAGCAACTGTTACTTATAAACGC
*
23231080 AAAAAGAAAAAAGCAAAAAGCAACTGTTACTTATAAACGC
1 AAAAAGCAAAAAGCAAAAAGCAACTGTTACTTATAAACGC
23231120 AAAAAGCAAAAAGCAAA
1 AAAAAGCAAAAAGCAAA
23231137 TCTATAAACC
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 54 1.00
ACGTcount: A:0.60, C:0.14, G:0.12, T:0.13
Consensus pattern (40 bp):
AAAAAGCAAAAAGCAAAAAGCAACTGTTACTTATAAACGC
Found at i:23231487 original size:21 final size:21
Alignment explanation
Indices: 23231446--23231488 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
23231436 GAAATAAGTC
* *
23231446 AAATATTTATAAACTCTTAAA
1 AAATAATTAAAAACTCTTAAA
23231467 AAATAATTAAAAA-TCTCTAAA
1 AAATAATTAAAAACTCT-TAAA
23231488 A
1 A
23231489 TAAAGATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.58, C:0.09, G:0.00, T:0.33
Consensus pattern (21 bp):
AAATAATTAAAAACTCTTAAA
Found at i:23232293 original size:259 final size:259
Alignment explanation
Indices: 23231834--23232350 Score: 989
Period size: 259 Copynumber: 2.0 Consensus size: 259
23231824 CCAATGGAGC
23231834 AAACACTGTAAAATTCTAATCCTCAAATACAAATACAGGCATCAAACCAAAAGTTATATATTCTA
1 AAACACTGTAAAATTCTAATCCTCAAATACAAATACAGGCATCAAACCAAAAGTTATATATTCTA
*
23231899 ATATTCTATTTTAAACGATACCAAATTCAGATAGATATTTGATTGAAAGTTATCAGATAAAGCAA
66 ATATTCCATTTTAAACGATACCAAATTCAGATAGATATTTGATTGAAAGTTATCAGATAAAGCAA
23231964 AGCTCAAACAACTATCAGAAAGATAAACAAGTCTAATGAAAATAACCCAGAACCTGCCCACCTAC
131 AGCTCAAACAACTATCAGAAAGATAAACAAGTCTAATGAAAATAACCCAGAACCTGCCCACCTAC
23232029 ATTCCTTCGAATGGCTTCTTCATGATCCAAAACACCATCCAGAGTTGAAATCACAACATAACCT
196 ATTCCTTCGAATGGCTTCTTCATGATCCAAAACACCATCCAGAGTTGAAATCACAACATAACCT
* *
23232093 AAACACTGTAAAATTCTAATCCTCAAATACAAATATAGGTATCAAACCAAAAGTTATATATTCTA
1 AAACACTGTAAAATTCTAATCCTCAAATACAAATACAGGCATCAAACCAAAAGTTATATATTCTA
*
23232158 ATATTCCATTTTAAACGATACCAAATTCAGATAGATATTTGATTGAAAGTTATCAGATAAAGCAG
66 ATATTCCATTTTAAACGATACCAAATTCAGATAGATATTTGATTGAAAGTTATCAGATAAAGCAA
23232223 AGCTCAAACAACTATCAGAAAGATAAACAAGTCTAATGAAAATAACCCAGAACCTGCCCACCTAC
131 AGCTCAAACAACTATCAGAAAGATAAACAAGTCTAATGAAAATAACCCAGAACCTGCCCACCTAC
*
23232288 ATTCCTTCGAATGGCTTCTTCATGATCCAAAACACCATCCGGAGTTGAAATCACAACATAACC
196 ATTCCTTCGAATGGCTTCTTCATGATCCAAAACACCATCCAGAGTTGAAATCACAACATAACC
23232351 CCACTGCACA
Statistics
Matches: 253, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
259 253 1.00
ACGTcount: A:0.43, C:0.21, G:0.10, T:0.26
Consensus pattern (259 bp):
AAACACTGTAAAATTCTAATCCTCAAATACAAATACAGGCATCAAACCAAAAGTTATATATTCTA
ATATTCCATTTTAAACGATACCAAATTCAGATAGATATTTGATTGAAAGTTATCAGATAAAGCAA
AGCTCAAACAACTATCAGAAAGATAAACAAGTCTAATGAAAATAACCCAGAACCTGCCCACCTAC
ATTCCTTCGAATGGCTTCTTCATGATCCAAAACACCATCCAGAGTTGAAATCACAACATAACCT
Found at i:23234772 original size:13 final size:13
Alignment explanation
Indices: 23234754--23234787 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
23234744 ACCCAAATAC
23234754 CCTAAACTTTAAA
1 CCTAAACTTTAAA
*
23234767 CCTAAATTTTAAA
1 CCTAAACTTTAAA
23234780 CTCTAAAC
1 C-CTAAAC
23234788 CCTAATTCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 13 0.72
14 5 0.28
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (13 bp):
CCTAAACTTTAAA
Found at i:23234925 original size:19 final size:19
Alignment explanation
Indices: 23234901--23234943 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
23234891 CCTTACCTTA
23234901 AAACCATATATAATACTCT
1 AAACCATATATAATACTCT
23234920 AAACCATATATAATACTCT
1 AAACCATATATAATACTCT
23234939 AAACC
1 AAACC
23234944 TGTACTAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.49, C:0.23, G:0.00, T:0.28
Consensus pattern (19 bp):
AAACCATATATAATACTCT
Found at i:23235749 original size:40 final size:41
Alignment explanation
Indices: 23235664--23235798 Score: 179
Period size: 40 Copynumber: 3.3 Consensus size: 41
23235654 TGTTTGCTAA
*
23235664 AAAAACGCCGCTACTT-CTCAGTTTTTAGCGGCGTTTGGA-C
1 AAAAACGCCGCTA-TTACTCAGTTTTTAGCGGCGTTTTGAGC
*
23235704 TAAAAACGCCGCTATTACTCAG-TTTTAGCGGCATTTTGAGC
1 -AAAAACGCCGCTATTACTCAGTTTTTAGCGGCGTTTTGAGC
* *
23235745 AAAAACGCCGCTATTACTTAGTTTTTTAGCGGCGTTTTTAG-
1 AAAAACGCCGCTATTACTCAG-TTTTTAGCGGCGTTTTGAGC
23235786 AAAAACGCCGCTA
1 AAAAACGCCGCTA
23235799 ATGCATAATC
Statistics
Matches: 85, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
40 37 0.44
41 32 0.38
42 16 0.19
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (41 bp):
AAAAACGCCGCTATTACTCAGTTTTTAGCGGCGTTTTGAGC
Found at i:23241452 original size:51 final size:51
Alignment explanation
Indices: 23241382--23241490 Score: 157
Period size: 51 Copynumber: 2.1 Consensus size: 51
23241372 AGCTATAGCA
* *
23241382 TCCATAAACACACCTAGGCACTGAGCG-TCAAGCCCGTAGGCTTCACATCCC
1 TCCAGAAACAAACCTAGGCACTGAGCGCT-AAGCCCGTAGGCTTCACATCCC
* * *
23241433 TCTAGAAACAAACCTAGGCACTGAGTGCTAAGCCTGTAGGCTTCACATCCC
1 TCCAGAAACAAACCTAGGCACTGAGCGCTAAGCCCGTAGGCTTCACATCCC
23241484 TCCAGAA
1 TCCAGAA
23241491 CACACTTGAA
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
51 50 0.98
52 1 0.02
ACGTcount: A:0.29, C:0.33, G:0.18, T:0.19
Consensus pattern (51 bp):
TCCAGAAACAAACCTAGGCACTGAGCGCTAAGCCCGTAGGCTTCACATCCC
Found at i:23245454 original size:2 final size:2
Alignment explanation
Indices: 23245447--23245479 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
23245437 CCTTTCTTCT
*
23245447 TA TA TA TA TA TA TG TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
23245480 AAACAATTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:23253221 original size:49 final size:49
Alignment explanation
Indices: 23253144--23253240 Score: 158
Period size: 49 Copynumber: 2.0 Consensus size: 49
23253134 TCCTCTAAAT
* * *
23253144 ATATTTGAAAAAACTTAGAGATGATTAAGCATACTTGTAGTGGACACAG
1 ATATGTGAAAAAACTTAGAGATAATTAAGCATACTTGTAATGGACACAG
*
23253193 ATATGTGAAAAAACTTGGAGATAATTAAGCATACTTGTAATGGACACA
1 ATATGTGAAAAAACTTAGAGATAATTAAGCATACTTGTAATGGACACA
23253241 TACCCAGTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.42, C:0.10, G:0.20, T:0.28
Consensus pattern (49 bp):
ATATGTGAAAAAACTTAGAGATAATTAAGCATACTTGTAATGGACACAG
Found at i:23257976 original size:12 final size:12
Alignment explanation
Indices: 23257959--23257983 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
23257949 GCCGACTACT
23257959 GTTACTGTTATC
1 GTTACTGTTATC
23257971 GTTACTGTTATC
1 GTTACTGTTATC
23257983 G
1 G
23257984 ATTCGGCATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.16, G:0.20, T:0.48
Consensus pattern (12 bp):
GTTACTGTTATC
Found at i:23258011 original size:45 final size:45
Alignment explanation
Indices: 23257961--23258070 Score: 150
Period size: 45 Copynumber: 2.4 Consensus size: 45
23257951 CGACTACTGT
* *
23257961 TACTGTTA-TCGTTACTGTTATCGATTCGGCATTTTGTGTGTCGAA
1 TACTGTTACT-GTTACTGTTATCGATTCAGCACTTTGTGTGTCGAA
* * * *
23258006 TACTGTTACTGTTACCGTTTTCGATTCAGTACTTTGTGTGTTGAA
1 TACTGTTACTGTTACTGTTATCGATTCAGCACTTTGTGTGTCGAA
23258051 TACTGTTACTGTTACTGTTA
1 TACTGTTACTGTTACTGTTA
23258071 CTGTTACTGT
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
45 55 0.98
46 1 0.02
ACGTcount: A:0.18, C:0.15, G:0.20, T:0.46
Consensus pattern (45 bp):
TACTGTTACTGTTACTGTTATCGATTCAGCACTTTGTGTGTCGAA
Found at i:23258062 original size:6 final size:6
Alignment explanation
Indices: 23258051--23258081 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
23258041 GTGTGTTGAA
23258051 TACTGT TACTGT TACTGT TACTGT TACTGT T
1 TACTGT TACTGT TACTGT TACTGT TACTGT T
23258082 TCAGATTTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.52
Consensus pattern (6 bp):
TACTGT
Found at i:23258460 original size:18 final size:18
Alignment explanation
Indices: 23258257--23258459 Score: 162
Period size: 18 Copynumber: 11.3 Consensus size: 18
23258247 TAACTGATTA
23258257 TTACTGAATAATTGACTG
1 TTACTGAATAATTGACTG
*
23258275 TTACCGAATAATTGACTG
1 TTACTGAATAATTGACTG
* * * *
23258293 TTACTGGACAATAGACTA
1 TTACTGAATAATTGACTG
* * *
23258311 TTACTGAATAACTGAATA
1 TTACTGAATAATTGACTG
*
23258329 TTACTGAATAATTGA-TCA
1 TTACTGAATAATTGACT-G
*
23258347 TTACTGAATAATTGA-TCA
1 TTACTGAATAATTGACT-G
* *
23258365 TTACTGAATAACTGATTG
1 TTACTGAATAATTGACTG
* *
23258383 TCACTGAATAAATGACTG
1 TTACTGAATAATTGACTG
* * *
23258401 TTATTGAATAACTTAATTG
1 TTACTGAATAA-TTGACTG
* *
23258420 CTACTGAAT-ATCTGA-TT
1 TTACTGAATAAT-TGACTG
*
23258437 TTACTAAATAATTGACTG
1 TTACTGAATAATTGACTG
23258455 TTACT
1 TTACT
23258460 AGATAACTGA
Statistics
Matches: 150, Mismatches: 29, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
17 13 0.09
18 125 0.83
19 12 0.08
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.37
Consensus pattern (18 bp):
TTACTGAATAATTGACTG
Found at i:23258534 original size:18 final size:18
Alignment explanation
Indices: 23258511--23258545 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
23258501 ATTGAACAAT
23258511 TGATTGTTACCGAATAAG
1 TGATTGTTACCGAATAAG
*
23258529 TGATTGTTACTGAATAA
1 TGATTGTTACCGAATAA
23258546 ATAATTGTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.09, G:0.20, T:0.37
Consensus pattern (18 bp):
TGATTGTTACCGAATAAG
Found at i:23258552 original size:18 final size:18
Alignment explanation
Indices: 23258513--23258558 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
23258503 TGAACAATTG
* * *
23258513 ATTGTTACCGAATAAGTG
1 ATTGTTACTGAATAAATA
23258531 ATTGTTACTGAATAAATA
1 ATTGTTACTGAATAAATA
23258549 ATTGTT-CTGA
1 ATTGTTACTGA
23258559 TTGTTAATGA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
17 4 0.16
18 21 0.84
ACGTcount: A:0.35, C:0.09, G:0.17, T:0.39
Consensus pattern (18 bp):
ATTGTTACTGAATAAATA
Found at i:23260017 original size:57 final size:57
Alignment explanation
Indices: 23259943--23260074 Score: 160
Period size: 57 Copynumber: 2.3 Consensus size: 57
23259933 TCTTTCAGGT
* * *
23259943 TATTTCCATTTTCATTTTGGA-GAAAACCATATTTATTTTCAAATGATT-CAATTTCTC
1 TATTTTCATTTTCATTTT-GATGAAAACCATAATCATTTTCAAATGATTCCAATTT-TC
* * * *
23260000 TGTTTTCATTTTTATTTTGATGAAAATCATAATCATTTTCAAATGATTCCAGTTTTC
1 TATTTTCATTTTCATTTTGATGAAAACCATAATCATTTTCAAATGATTCCAATTTTC
*
23260057 TATTTTTATTTTCATTTT
1 TATTTTCATTTTCATTTT
23260075 CAAAAAAAAA
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
56 2 0.03
57 56 0.89
58 5 0.08
ACGTcount: A:0.27, C:0.13, G:0.07, T:0.53
Consensus pattern (57 bp):
TATTTTCATTTTCATTTTGATGAAAACCATAATCATTTTCAAATGATTCCAATTTTC
Found at i:23260091 original size:57 final size:57
Alignment explanation
Indices: 23259977--23260104 Score: 141
Period size: 57 Copynumber: 2.2 Consensus size: 57
23259967 AACCATATTT
* * * ** ** *
23259977 ATTTTCAAATGATTCAATTTCTCTGTTTTCATTTTTATTTTGATGAAAATCATAATC
1 ATTTTCAAATGATTCAATTTCTCTATTTTCATTTTCATTTTCAAAAAAAAAAAAATC
* *
23260034 ATTTTCAAATGATTCCAGTTT-TCTATTTTTATTTTCATTTTCAAAAAAAAAAAAATC
1 ATTTTCAAATGATT-CAATTTCTCTATTTTCATTTTCATTTTCAAAAAAAAAAAAATC
*
23260091 ATTTCCAAATGATT
1 ATTTTCAAATGATT
23260105 TCTCATTTCT
Statistics
Matches: 59, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
57 54 0.92
58 5 0.08
ACGTcount: A:0.34, C:0.12, G:0.05, T:0.48
Consensus pattern (57 bp):
ATTTTCAAATGATTCAATTTCTCTATTTTCATTTTCATTTTCAAAAAAAAAAAAATC
Found at i:23262856 original size:43 final size:43
Alignment explanation
Indices: 23262795--23262882 Score: 167
Period size: 43 Copynumber: 2.0 Consensus size: 43
23262785 TCAATTTTGG
23262795 ACTCCTAGTGTCATTAGGTTTGCTTTGCTAGATTGATTCTTAC
1 ACTCCTAGTGTCATTAGGTTTGCTTTGCTAGATTGATTCTTAC
*
23262838 ACTCCTAGTGTCATTAGGTTTGCTTTGTTAGATTGATTCTTAC
1 ACTCCTAGTGTCATTAGGTTTGCTTTGCTAGATTGATTCTTAC
23262881 AC
1 AC
23262883 ATTTTGATTT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.19, C:0.18, G:0.18, T:0.44
Consensus pattern (43 bp):
ACTCCTAGTGTCATTAGGTTTGCTTTGCTAGATTGATTCTTAC
Found at i:23265526 original size:27 final size:27
Alignment explanation
Indices: 23265488--23265545 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 27
23265478 GAGTTAATAA
23265488 AATTCTCTTTGAGTTTTTCTTTT-AAAG
1 AATTCTCTTTGAG-TTTTCTTTTGAAAG
*
23265515 AATTC-CTCTTGAGTTTTCTTTTGGAAG
1 AATTCTCT-TTGAGTTTTCTTTTGAAAG
23265542 AATT
1 AATT
23265546 TTAATAATCT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
26 11 0.39
27 17 0.61
ACGTcount: A:0.22, C:0.12, G:0.14, T:0.52
Consensus pattern (27 bp):
AATTCTCTTTGAGTTTTCTTTTGAAAG
Found at i:23266490 original size:47 final size:47
Alignment explanation
Indices: 23266421--23266515 Score: 154
Period size: 47 Copynumber: 2.0 Consensus size: 47
23266411 ATTTATAGAG
* *
23266421 ATAAAATTTAGAATTCTAATTCTAATAGACACCAAAATGCTAAAACT
1 ATAAAATATAGAATTCTAATTCTAATAGACACCAAAATACTAAAACT
* *
23266468 ATAAAATATAGAATTCTAATTCTAATAGGCATCAAAATACTAAAACT
1 ATAAAATATAGAATTCTAATTCTAATAGACACCAAAATACTAAAACT
23266515 A
1 A
23266516 AAATTTTATT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.51, C:0.14, G:0.06, T:0.29
Consensus pattern (47 bp):
ATAAAATATAGAATTCTAATTCTAATAGACACCAAAATACTAAAACT
Found at i:23267713 original size:19 final size:19
Alignment explanation
Indices: 23267676--23267739 Score: 67
Period size: 21 Copynumber: 3.3 Consensus size: 19
23267666 TTTTTCGATA
* **
23267676 AAAATACATAAGATTTTAT
1 AAAATACATAAAAAATTAT
*
23267695 AAAATACATATAAAATTAT
1 AAAATACATAAAAAATTAT
23267714 AAAAAATACATAAAAAATTA-
1 --AAAATACATAAAAAATTAT
23267734 AAAATA
1 AAAATA
23267740 AATGAATATT
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
18 6 0.16
19 15 0.39
21 17 0.45
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.28
Consensus pattern (19 bp):
AAAATACATAAAAAATTAT
Found at i:23267719 original size:21 final size:20
Alignment explanation
Indices: 23267695--23267737 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 20
23267685 AAGATTTTAT
*
23267695 AAAATACATATAAAATTATAA
1 AAAATACATAAAAAATTA-AA
23267716 AAAATACATAAAAAATTAAA
1 AAAATACATAAAAAATTAAA
23267736 AA
1 AA
23267738 TAAATGAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (20 bp):
AAAATACATAAAAAATTAAA
Found at i:23273020 original size:27 final size:27
Alignment explanation
Indices: 23272990--23273167 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
23272980 ATATTGAGTC
* * * *
23272990 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
23273017 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
23273044 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
23273072 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
23273099 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
23273126 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
23273153 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
23273168 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:23273129 original size:82 final size:81
Alignment explanation
Indices: 23273011--23273166 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
23273001 TGCTATATAA
* *
23273011 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
23273076 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
23273093 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
23273157 CACTTAGTGC
65 CACTTAGTGC
23273167 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:23281210 original size:27 final size:27
Alignment explanation
Indices: 23281180--23281357 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
23281170 ATATTGAGTC
* * * *
23281180 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
23281207 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
23281234 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
23281262 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
23281289 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
23281316 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
23281343 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
23281358 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:23281319 original size:82 final size:81
Alignment explanation
Indices: 23281201--23281356 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
23281191 TGCTATATAA
* *
23281201 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
23281266 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
23281283 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
23281347 CACTTAGTGC
65 CACTTAGTGC
23281357 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:23284653 original size:22 final size:22
Alignment explanation
Indices: 23284595--23284741 Score: 70
Period size: 22 Copynumber: 6.6 Consensus size: 22
23284585 TTTGCAGGTT
* *
23284595 TTTGGTGCTA-TTTTGGTGTTG
1 TTTGGTGCTATTTTTTGTGCTG
* *
23284616 TTGGTGATGCTGTTTTTTGTGCTG
1 TT--TGGTGCTATTTTTTGTGCTG
**
23284640 TTTGGTGCTATTTTTTGTATTG
1 TTTGGTGCTATTTTTTGTGCTG
* * *
23284662 TTTGGTGTTGTTTTAT-TGCTG
1 TTTGGTGCTATTTTTTGTGCTG
* * *
23284683 TGTTAGTG-T-TGTTTTGTTGTTG
1 T-TTGGTGCTATTTTTTG-TGCTG
* *
23284705 TTTTGGTGCTA-TGTTGGTGCTG
1 -TTTGGTGCTATTTTTTGTGCTG
*
23284727 TTTTGTTGCTATTTT
1 -TTTGGTGCTATTTT
23284742 GGTACTATTT
Statistics
Matches: 92, Mismatches: 24, Indels: 18
0.69 0.18 0.13
Matches are distributed among these distances:
20 4 0.04
21 7 0.08
22 57 0.62
23 13 0.14
24 11 0.12
ACGTcount: A:0.05, C:0.05, G:0.29, T:0.60
Consensus pattern (22 bp):
TTTGGTGCTATTTTTTGTGCTG
Found at i:23284706 original size:33 final size:33
Alignment explanation
Indices: 23284662--23284734 Score: 92
Period size: 33 Copynumber: 2.2 Consensus size: 33
23284652 TTTTGTATTG
* * * *
23284662 TTTGGTGTTGTTTTATTGCTGTGTTAGTGTTGT
1 TTTGTTGTTGTTTTAGTGCTATGTTAGTGCTGT
* *
23284695 TTTGTTGTTGTTTTGGTGCTATGTTGGTGCTGT
1 TTTGTTGTTGTTTTAGTGCTATGTTAGTGCTGT
23284728 TTTGTTG
1 TTTGTTG
23284735 CTATTTTGGT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.04, C:0.04, G:0.32, T:0.60
Consensus pattern (33 bp):
TTTGTTGTTGTTTTAGTGCTATGTTAGTGCTGT
Found at i:23284721 original size:11 final size:11
Alignment explanation
Indices: 23284705--23284763 Score: 64
Period size: 11 Copynumber: 5.4 Consensus size: 11
23284695 TTTGTTGTTG
23284705 TTTTGGTGCTA
1 TTTTGGTGCTA
* *
23284716 TGTTGGTGCTG
1 TTTTGGTGCTA
*
23284727 TTTTGTTGCTA
1 TTTTGGTGCTA
*
23284738 TTTTGGTACTA
1 TTTTGGTGCTA
* *
23284749 TTTTGTTACTA
1 TTTTGGTGCTA
23284760 TTTT
1 TTTT
23284764 TATATTTAGG
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 40 1.00
ACGTcount: A:0.10, C:0.08, G:0.22, T:0.59
Consensus pattern (11 bp):
TTTTGGTGCTA
Found at i:23284742 original size:33 final size:33
Alignment explanation
Indices: 23284678--23284749 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 33
23284668 GTTGTTTTAT
* * * *
23284678 TGCTGTGTTAGTGTTGTTTTGTTGTTGTTTTGG
1 TGCTATGTTAGTGCTGTTTTGTTGCTATTTTGG
*
23284711 TGCTATGTTGGTGCTGTTTTGTTGCTATTTTGG
1 TGCTATGTTAGTGCTGTTTTGTTGCTATTTTGG
*
23284744 TACTAT
1 TGCTAT
23284750 TTTGTTACTA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.07, C:0.07, G:0.29, T:0.57
Consensus pattern (33 bp):
TGCTATGTTAGTGCTGTTTTGTTGCTATTTTGG
Found at i:23284743 original size:22 final size:22
Alignment explanation
Indices: 23284694--23284763 Score: 77
Period size: 22 Copynumber: 3.2 Consensus size: 22
23284684 GTTAGTGTTG
* * *
23284694 TTTTGTTGTTGTTTTGGTGCTA
1 TTTTGGTGCTGTTTTGTTGCTA
*
23284716 TGTTGGTGCTGTTTTGTTGCTA
1 TTTTGGTGCTGTTTTGTTGCTA
* * *
23284738 TTTTGGTACTATTTTGTTACTA
1 TTTTGGTGCTGTTTTGTTGCTA
23284760 TTTT
1 TTTT
23284764 TATATTTAGG
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.09, C:0.07, G:0.23, T:0.61
Consensus pattern (22 bp):
TTTTGGTGCTGTTTTGTTGCTA
Found at i:23285809 original size:12 final size:11
Alignment explanation
Indices: 23285792--23285824 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 11
23285782 TTATTTGTTT
23285792 TTTGTTTTAATA
1 TTTGTTTTAA-A
23285804 TTTGTTTTAAA
1 TTTGTTTTAAA
23285815 TTT-TTTTAAA
1 TTTGTTTTAAA
23285825 ATGAAATAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 7 0.33
11 4 0.19
12 10 0.48
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (11 bp):
TTTGTTTTAAA
Found at i:23293803 original size:124 final size:124
Alignment explanation
Indices: 23293567--23293884 Score: 361
Period size: 124 Copynumber: 2.6 Consensus size: 124
23293557 GGGCTTAACC
* * * *
23293567 CTGCAAGCTCTTAGAATA-TCGATTGGGAGCGTAGGTCCGCTAACTGTTTTTGGAGGTTGCGATC
1 CTGCAAGCTCTTAGAATATTAG-CTGGGAGCATAGGTCCGCTAACTGTTTTTGGAGGTTGCGACC
** *
23293631 ATGTACCGACAAACCTTTATAACATCAGCTGGAAACGTAAGTCCGCTAGCTA-TGTTGGAG
65 ATAAACCGACAAACCTTTATAACATCAGCTGGAAACATAAGTCCGCTAG-TAGTGTTGGAG
* * ** * *
23293691 CTGCGAGCTCTTAGAATATTAGCTGTGAGCATAGGTCCGCTATTTGTTTTTTGAGGTTGTGACCA
1 CTGCAAGCTCTTAGAATATTAGCTGGGAGCATAGGTCCGCTAACTGTTTTTGGAGGTTGCGACCA
* * * * *
23293756 TAAACCGGCAAACCTTTATAACATCAGCTGGGAACATAGGTCTGCTAGTAGTGTTTGAG
66 TAAACCGACAAACCTTTATAACATCAGCTGGAAACATAAGTCCGCTAGTAGTGTTGGAG
* ** * * * * * *
23293815 CTGTAAGCTCTTAGAATATTAGCTGGGAGTGTAGGTCTGCTAGCTATTTTTGAAGGTTACGATCA
1 CTGCAAGCTCTTAGAATATTAGCTGGGAGCATAGGTCCGCTAACTGTTTTTGGAGGTTGCGACCA
23293880 TAAAC
66 TAAAC
23293885 TAGCAAATGT
Statistics
Matches: 160, Mismatches: 32, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
123 2 0.01
124 156 0.98
125 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (124 bp):
CTGCAAGCTCTTAGAATATTAGCTGGGAGCATAGGTCCGCTAACTGTTTTTGGAGGTTGCGACCA
TAAACCGACAAACCTTTATAACATCAGCTGGAAACATAAGTCCGCTAGTAGTGTTGGAG
Found at i:23294547 original size:22 final size:22
Alignment explanation
Indices: 23294522--23294563 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
23294512 AATAAGGCGG
23294522 CATAAGTGTAAGAAAAATCTTA
1 CATAAGTGTAAGAAAAATCTTA
23294544 CATAAGTGTAAGAAAAATCT
1 CATAAGTGTAAGAAAAATCT
23294564 AAGATTTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.50, C:0.10, G:0.14, T:0.26
Consensus pattern (22 bp):
CATAAGTGTAAGAAAAATCTTA
Found at i:23294604 original size:16 final size:16
Alignment explanation
Indices: 23294583--23294627 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
23294573 CTTAATTTCT
23294583 TAATTATTATATTATA
1 TAATTATTATATTATA
* *
23294599 TAATTATTATTTTATT
1 TAATTATTATATTATA
*
23294615 TAAATTATAATAT
1 T-AATTATTATAT
23294628 GAATTATAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
16 15 0.62
17 9 0.38
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TAATTATTATATTATA
Found at i:23294773 original size:3 final size:3
Alignment explanation
Indices: 23294765--23294811 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
23294755 TAAGTAAAAG
23294765 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
23294812 TATTATTATT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:23308642 original size:3 final size:3
Alignment explanation
Indices: 23308634--23308694 Score: 122
Period size: 3 Copynumber: 20.3 Consensus size: 3
23308624 TAAAAAGTTG
23308634 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
23308682 ATA ATA ATA ATA A
1 ATA ATA ATA ATA A
23308695 AGTAAGGACA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:23310965 original size:17 final size:18
Alignment explanation
Indices: 23310943--23310978 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
23310933 ATTTTTATTT
*
23310943 AAAAAAATTAAT-AATGA
1 AAAAAAATGAATGAATGA
23310960 AAAAAAATGAATGAATGA
1 AAAAAAATGAATGAATGA
23310978 A
1 A
23310979 GTCAATTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.69, C:0.00, G:0.11, T:0.19
Consensus pattern (18 bp):
AAAAAAATGAATGAATGA
Found at i:23317575 original size:25 final size:25
Alignment explanation
Indices: 23317537--23317604 Score: 95
Period size: 25 Copynumber: 2.7 Consensus size: 25
23317527 AGACATACCA
23317537 CAGCTCGTATGAGCTTACCGATTTG
1 CAGCTCGTATGAGCTTACCGATTTG
23317562 CAGCTCGTGA-GAGCTTACCGATTCT-
1 CAGCTCGT-ATGAGCTTACCGATT-TG
*
23317587 CAGTTCGTATGAGCTTAC
1 CAGCTCGTATGAGCTTAC
23317605 TTGTAATAGC
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
24 1 0.03
25 36 0.92
26 2 0.05
ACGTcount: A:0.21, C:0.25, G:0.24, T:0.31
Consensus pattern (25 bp):
CAGCTCGTATGAGCTTACCGATTTG
Found at i:23318936 original size:43 final size:42
Alignment explanation
Indices: 23318808--23318967 Score: 223
Period size: 44 Copynumber: 3.7 Consensus size: 42
23318798 TTTGCGTGTA
23318808 AAGACCATATCTGGGATATGGCATTGATATGAGACTTCATGTT
1 AAGACCATATCTGGGATATGGCATTGATATGAGACTTCATG-T
23318851 GAAGACCATATCTGGGATATGGCATTGATATGAGACTTCATGT
1 -AAGACCATATCTGGGATATGGCATTGATATGAGACTTCATGT
* * * * *
23318894 AAGACCATAGCTGGGCTATTGGCATTGATATAAG-GTCCCATGT
1 AAGACCATATCTGGGATA-TGGCATTGATATGAGACT-TCATGT
*
23318937 AAGACCATATCTGGGATATGGCATTGGTATG
1 AAGACCATATCTGGGATATGGCATTGATATG
23318968 GTACTATGTA
Statistics
Matches: 105, Mismatches: 9, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
42 28 0.27
43 36 0.34
44 41 0.39
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (42 bp):
AAGACCATATCTGGGATATGGCATTGATATGAGACTTCATGT
Found at i:23318958 original size:85 final size:86
Alignment explanation
Indices: 23318808--23318967 Score: 227
Period size: 85 Copynumber: 1.9 Consensus size: 86
23318798 TTTGCGTGTA
* * *
23318808 AAGACCATATCTGGGATATGGCATTGATATGAGACTTCATGTTGAAGACCATATCTGGGATATGG
1 AAGACCATAGCTGGGATATGGCATTGATATAAGACTCCATGTTGAAGACCATATCTGGGATATGG
23318873 CATTGATATGAGACTTCATGT
66 CATTGATATGAGACTTCATGT
* *
23318894 AAGACCATAGCTGGGCTATTGGCATTGATATAAG-GTCCCATG-T-AAGACCATATCTGGGATAT
1 AAGACCATAGCTGGGATA-TGGCATTGATATAAGACT-CCATGTTGAAGACCATATCTGGGATAT
*
23318956 GGCATTGGTATG
64 GGCATTGATATG
23318968 GTACTATGTA
Statistics
Matches: 66, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
85 30 0.45
86 18 0.27
87 18 0.27
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (86 bp):
AAGACCATAGCTGGGATATGGCATTGATATAAGACTCCATGTTGAAGACCATATCTGGGATATGG
CATTGATATGAGACTTCATGT
Found at i:23326674 original size:43 final size:43
Alignment explanation
Indices: 23326626--23326713 Score: 131
Period size: 43 Copynumber: 2.0 Consensus size: 43
23326616 CCTAAGACAC
*
23326626 GGGTGTGTCTCTTGGACGTGTAAGTCACACAGCCTGGTCACAT
1 GGGTGTGTCTCTTGGACATGTAAGTCACACAGCCTGGTCACAT
* * * *
23326669 GGGTGTGTCTTTTGGACATGTGAGTCAGACGGCCTGGTCACAT
1 GGGTGTGTCTCTTGGACATGTAAGTCACACAGCCTGGTCACAT
23326712 GG
1 GG
23326714 TCGTGTGACC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.17, C:0.20, G:0.34, T:0.28
Consensus pattern (43 bp):
GGGTGTGTCTCTTGGACATGTAAGTCACACAGCCTGGTCACAT
Found at i:23329310 original size:40 final size:40
Alignment explanation
Indices: 23329265--23329345 Score: 99
Period size: 40 Copynumber: 2.0 Consensus size: 40
23329255 TTTTATCTGA
* *
23329265 ATTTTTATAAATATTTTGTAGTGTTAATTATAAGTTTTAT
1 ATTTTTATAAATATTTTGTAGTATTAATTATAAGTCTTAT
* * * * *
23329305 ATTTTTGTGAATCTTTTGTATTATTAATTATAGGTCTTAT
1 ATTTTTATAAATATTTTGTAGTATTAATTATAAGTCTTAT
23329345 A
1 A
23329346 AATTTTTTTT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.30, C:0.02, G:0.11, T:0.57
Consensus pattern (40 bp):
ATTTTTATAAATATTTTGTAGTATTAATTATAAGTCTTAT
Found at i:23329434 original size:34 final size:33
Alignment explanation
Indices: 23329387--23329487 Score: 123
Period size: 34 Copynumber: 3.0 Consensus size: 33
23329377 CTACTATTAG
*
23329387 AGTTTTAAGTCTTATTACTTTTGTTTCATTTTGT
1 AGTTTTAACTCTTATTA-TTTTGTTTCATTTTGT
*
23329421 AGTTTTAACTCTTATTATATTTGTTTCATTTTTT
1 AGTTTTAACTCTTATTAT-TTTGTTTCATTTTGT
* *
23329455 AGTTTTAAGC-CTTATCATTTTTGTTCCATTTTG
1 AGTTTTAA-CTCTTATTA-TTTTGTTTCATTTTG
23329488 GTGAATATTT
Statistics
Matches: 59, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
33 1 0.02
34 56 0.95
35 2 0.03
ACGTcount: A:0.19, C:0.11, G:0.10, T:0.60
Consensus pattern (33 bp):
AGTTTTAACTCTTATTATTTTGTTTCATTTTGT
Found at i:23333067 original size:22 final size:23
Alignment explanation
Indices: 23333042--23333084 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
23333032 ATTGAAGAAA
23333042 AATTCAAATT-TT-GAGTTAAACG
1 AATT-AAATTATTCGAGTTAAACG
23333064 AATTAAATTATTCGAGTTAAA
1 AATTAAATTATTCGAGTTAAA
23333085 TAAGTTATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.26
22 6 0.32
23 8 0.42
ACGTcount: A:0.44, C:0.07, G:0.12, T:0.37
Consensus pattern (23 bp):
AATTAAATTATTCGAGTTAAACG
Found at i:23334087 original size:6 final size:6
Alignment explanation
Indices: 23334073--23334106 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
23334063 ATTCGATTCG
* *
23334073 ATTCGA ATTCAA ATTCAA ATTCGA ATTCAA ATTC
1 ATTCAA ATTCAA ATTCAA ATTCAA ATTCAA ATTC
23334107 CATCTCACTC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.41, C:0.18, G:0.06, T:0.35
Consensus pattern (6 bp):
ATTCAA
Found at i:23338396 original size:52 final size:52
Alignment explanation
Indices: 23338333--23338473 Score: 187
Period size: 52 Copynumber: 2.7 Consensus size: 52
23338323 AGGGAGGGAA
23338333 GCCAAAGTGAAAACCCGCAAAGGGCGCTTTGAGACTTTCAAA-AAAAATGG-GG
1 GCCAAAGTGAAAACCCGCAAAGGGCGCTTTGAGAC--TCAAATAAAAATGGAGG
* * *
23338385 GGCAAAGTGAAAACCCGCAAAGGGCACTTTGATACTCAAATAAAAATGGAAAGG
1 GCCAAAGTGAAAACCCGCAAAGGGCGCTTTGAGACTCAAATAAAAATGG--AGG
* *
23338439 GCCAAAGTGAAAACTCGCAAAGGACGCTTTGAGAC
1 GCCAAAGTGAAAACCCGCAAAGGGCGCTTTGAGAC
23338474 CCAATAATAA
Statistics
Matches: 77, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
50 5 0.06
51 8 0.10
52 32 0.42
54 32 0.42
ACGTcount: A:0.40, C:0.19, G:0.26, T:0.15
Consensus pattern (52 bp):
GCCAAAGTGAAAACCCGCAAAGGGCGCTTTGAGACTCAAATAAAAATGGAGG
Found at i:23339790 original size:45 final size:43
Alignment explanation
Indices: 23339692--23339790 Score: 103
Period size: 43 Copynumber: 2.3 Consensus size: 43
23339682 CAGCAAGCCC
* * *
23339692 TATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAATGAGTCT
1 TATCTCCCTGAGGAAGCAAGAGAGCAGATTGAAGAATGAGTCT
* *
23339735 TATCTTCCTGAGGAAGCAAG-GAAGCAGATTG-AGAATTGAAGATTT
1 TATCTCCCTGAGGAAGCAAGAG-AGCAGATTGAAGAA-TG-AG-TCT
23339780 TATCTCCCTGA
1 TATCTCCCTGA
23339791 AGTTGCAGCG
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
42 5 0.11
43 27 0.59
44 2 0.04
45 12 0.26
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.27
Consensus pattern (43 bp):
TATCTCCCTGAGGAAGCAAGAGAGCAGATTGAAGAATGAGTCT
Found at i:23339890 original size:178 final size:178
Alignment explanation
Indices: 23339591--23340565 Score: 1517
Period size: 178 Copynumber: 5.5 Consensus size: 178
23339581 ATTGGTAAAG
* * * ** *
23339591 ATTGAAGATCTTATTTCCCTGAAGTTGCAGTGGAATAGATCTTCGCAGATGGAATCTTATCTTCA
1 ATTGAAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATCTTCGCAGATGGAATCTTATCTCCA
* * * *
23339656 TGTATCGACAATGGAGAAGATTTCACCAGCAAGCCCTATCTCTCTGAGGTAGCAAGAGAGCAGGT
66 TGTATCGGCAATGGAGCAGATTTCACCACCAAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGT
* * *
23339721 TGAAGAATGAGTCTTATCTTCCTGAGGAAGCAAGGAAGCAGATTGAGA
131 TGAAGAATGAATTTTATCTTCCTGAGGTAGCAAGGAAGCAGATTGAGA
23339769 ATTGAAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATCTTCGCAGATGGAATCTTATCTCCA
1 ATTGAAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATCTTCGCAGATGGAATCTTATCTCCA
*
23339834 TGTATCGGCAAAGGAGCAGATTTCACCACCAAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGT
66 TGTATCGGCAATGGAGCAGATTTCACCACCAAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGT
23339899 TGAAGAATGAATTTTATCTTCCTGAGGTAGCAAGGAAGCAGATTGAGA
131 TGAAGAATGAATTTTATCTTCCTGAGGTAGCAAGGAAGCAGATTGAGA
23339947 ATTGAAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATCTTCGCAGATGGAATCTTATCTCCA
1 ATTGAAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATCTTCGCAGATGGAATCTTATCTCCA
23340012 TGTATCGGCAATGGAGCAGATTTCACCACCAAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGT
66 TGTATCGGCAATGGAGCAGATTTCACCACCAAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGT
23340077 TGAAGAATGAATTTTATCTTCCTGAGGTAGCAAGGAAGCAGATTGAGA
131 TGAAGAATGAATTTTATCTTCCTGAGGTAGCAAGGAAGCAGATTGAGA
23340125 ATTGAAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATCTTCGCAGATGGAATCTTATCTCCA
1 ATTGAAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATCTTCGCAGATGGAATCTTATCTCCA
* * *
23340190 TGTATCGGCAAGGGAGCAGATTTCACCACCAAGCCTTATCTCTCCGAGGTAGCAAGAGAACAGGT
66 TGTATCGGCAATGGAGCAGATTTCACCACCAAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGT
*
23340255 TGAAGAATGAATTTCATCTTCCTGAGGTAGCAAGGAAGCAGATTGAGA
131 TGAAGAATGAATTTTATCTTCCTGAGGTAGCAAGGAAGCAGATTGAGA
* * *
23340303 ATTGAAGATTTTATCTCCCTGAAGATACAGCGGAGCAGATCTTCGCAGATGAAATCTTATCTCCA
1 ATTGAAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATCTTCGCAGATGGAATCTTATCTCCA
* * * *
23340368 TGTATCGACAATGGAGCATATTTCACCACCAAGCCTTATCTCTCTAAGGTAGCAAGAGAGCAAGT
66 TGTATCGGCAATGGAGCAGATTTCACCACCAAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGT
* * * * *
23340433 TGAAGAATGAGTTTTATTTTCCTGAGGTAGCAGGGAAGCAAACTGA-A
131 TGAAGAATGAATTTTATCTTCCTGAGGTAGCAAGGAAGCAGATTGAGA
* * * * ** * ** * ** * *
23340480 GGTTGAGGATCTTATTTCCCCAAAGTGGCAGTAGAACAGA--TT-AAAAATGGAATTTTATCTCC
1 -ATTGAAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATCTTCGCAGATGGAATCTTATCTCC
23340542 ATGTATCGGCAATGGAGCAGATTT
65 ATGTATCGGCAATGGAGCAGATTT
23340566 AATCTCGTTT
Statistics
Matches: 742, Mismatches: 54, Indels: 5
0.93 0.07 0.01
Matches are distributed among these distances:
175 37 0.05
176 2 0.00
177 1 0.00
178 702 0.95
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (178 bp):
ATTGAAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATCTTCGCAGATGGAATCTTATCTCCA
TGTATCGGCAATGGAGCAGATTTCACCACCAAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGT
TGAAGAATGAATTTTATCTTCCTGAGGTAGCAAGGAAGCAGATTGAGA
Found at i:23339924 original size:43 final size:45
Alignment explanation
Indices: 23339869--23339968 Score: 120
Period size: 43 Copynumber: 2.3 Consensus size: 45
23339859 CCACCAAGCC
*
23339869 TTATC-TCTCTGAGGTAGCAA-GAGAGCAGGTTGAAGAA-TG-A-ATT
1 TTATCTTC-CTGAGGTAGCAAGGA-AGCAGATTG-AGAATTGAAGATT
23339912 TTATCTTCCTGAGGTAGCAAGGAAGCAGATTGAGAATTGAAGATT
1 TTATCTTCCTGAGGTAGCAAGGAAGCAGATTGAGAATTGAAGATT
*
23339957 TTATCTCCCTGA
1 TTATCTTCCTGA
23339969 AGTTGCAGCG
Statistics
Matches: 50, Mismatches: 2, Indels: 8
0.83 0.03 0.13
Matches are distributed among these distances:
42 4 0.08
43 27 0.54
44 5 0.10
45 14 0.28
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.30
Consensus pattern (45 bp):
TTATCTTCCTGAGGTAGCAAGGAAGCAGATTGAGAATTGAAGATT
Found at i:23340102 original size:43 final size:45
Alignment explanation
Indices: 23340047--23340146 Score: 120
Period size: 43 Copynumber: 2.3 Consensus size: 45
23340037 CCACCAAGCC
*
23340047 TTATC-TCTCTGAGGTAGCAA-GAGAGCAGGTTGAAGAA-TG-A-ATT
1 TTATCTTC-CTGAGGTAGCAAGGA-AGCAGATTG-AGAATTGAAGATT
23340090 TTATCTTCCTGAGGTAGCAAGGAAGCAGATTGAGAATTGAAGATT
1 TTATCTTCCTGAGGTAGCAAGGAAGCAGATTGAGAATTGAAGATT
*
23340135 TTATCTCCCTGA
1 TTATCTTCCTGA
23340147 AGTTGCAGCG
Statistics
Matches: 50, Mismatches: 2, Indels: 8
0.83 0.03 0.13
Matches are distributed among these distances:
42 4 0.08
43 27 0.54
44 5 0.10
45 14 0.28
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.30
Consensus pattern (45 bp):
TTATCTTCCTGAGGTAGCAAGGAAGCAGATTGAGAATTGAAGATT
Found at i:23351526 original size:199 final size:193
Alignment explanation
Indices: 23351192--23351583 Score: 516
Period size: 199 Copynumber: 2.0 Consensus size: 193
23351182 TGTATTTAAT
* * *
23351192 TTTTTTGGGACTTAACTAGTACCTAAACTTAAAAATTGTAAGTTGATACTTTTTTAAGTACCTAA
1 TTTTTTGGGACATAACTAGTACCTAAACTTAAAAATTGTAACTTGATACTTTTTTAAGTACATAA
* * ** * *
23351257 CTAACACTATTAAAATATGTTGATATGGAACTGACGACCAATTAACATGGTTACACATGTTAAGT
66 CTAACACAATTAAAAAACATTGATATGGAACTGACGACCAATTAACATGGTGACACATATTAAGT
* * * *
23351322 TTGTAATG-CCTTCAACCCGATCCAATTCGCTAGATCCGAATCTTAGGTGTTACAACTCGATTA
131 TTGTAACGCCCTT-AACCCGATCCAATTCGCCAAATCCGAATCTTAGGTGTTACAACTCAATTA
*
23351385 TTTTTTGGGACATAACTAGTACTTAAACTTAAAAATCGTAAGTTAACTTGATACTTTTTTTAAGT
1 TTTTTTGGGACATAACTAGTACCTAAACTTAAAAAT--T--G-TAACTTGATAC-TTTTTTAAGT
* * *
23351450 ACATGACTAACACAATTAAAAAACATTGATATGGAGCTGACGACCAATTAGCATGGTGACACATA
60 ACATAACTAACACAATTAAAAAACATTGATATGGAACTGACGACCAATTAACATGGTGACACATA
* * * * *
23351515 TTAATTTTGTAACGCCCTTAACCCGATCCTATTTGCCAAATCTGAATCTTGGGTGTTACAACTCA
125 TTAAGTTTGTAACGCCCTTAACCCGATCCAATTCGCCAAATCCGAATCTTAGGTGTTACAACTCA
23351580 ATTA
190 ATTA
23351584 CATACTTACT
Statistics
Matches: 170, Mismatches: 22, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
193 34 0.20
195 1 0.01
197 1 0.01
198 10 0.06
199 120 0.71
200 4 0.02
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (193 bp):
TTTTTTGGGACATAACTAGTACCTAAACTTAAAAATTGTAACTTGATACTTTTTTAAGTACATAA
CTAACACAATTAAAAAACATTGATATGGAACTGACGACCAATTAACATGGTGACACATATTAAGT
TTGTAACGCCCTTAACCCGATCCAATTCGCCAAATCCGAATCTTAGGTGTTACAACTCAATTA
Found at i:23352518 original size:247 final size:247
Alignment explanation
Indices: 23352082--23352575 Score: 988
Period size: 247 Copynumber: 2.0 Consensus size: 247
23352072 TCATGTTTTA
23352082 CCCCTCTCTTCACTAATTCATTACTTACATTATTTACTTAACCCATTTCGAGGTTTCTTAGCCAT
1 CCCCTCTCTTCACTAATTCATTACTTACATTATTTACTTAACCCATTTCGAGGTTTCTTAGCCAT
23352147 TATCATTCTAAGTTCTATACAAACTAAGTATTGTTAATCGACTTAATCTTCAAGTCCGTTTGACT
66 TATCATTCTAAGTTCTATACAAACTAAGTATTGTTAATCGACTTAATCTTCAAGTCCGTTTGACT
23352212 CATACCTTGAATTCGCCACATATTTCGGTGCTTTCCATCTTCTTTTTCCATATCTTAAGACAATG
131 CATACCTTGAATTCGCCACATATTTCGGTGCTTTCCATCTTCTTTTTCCATATCTTAAGACAATG
23352277 CAGGATACGCCACAACATTTCTTACGGAATTTTTTCTCTCAGTGTTCGCCAT
196 CAGGATACGCCACAACATTTCTTACGGAATTTTTTCTCTCAGTGTTCGCCAT
23352329 CCCCTCTCTTCACTAATTCATTACTTACATTATTTACTTAACCCATTTCGAGGTTTCTTAGCCAT
1 CCCCTCTCTTCACTAATTCATTACTTACATTATTTACTTAACCCATTTCGAGGTTTCTTAGCCAT
23352394 TATCATTCTAAGTTCTATACAAACTAAGTATTGTTAATCGACTTAATCTTCAAGTCCGTTTGACT
66 TATCATTCTAAGTTCTATACAAACTAAGTATTGTTAATCGACTTAATCTTCAAGTCCGTTTGACT
23352459 CATACCTTGAATTCGCCACATATTTCGGTGCTTTCCATCTTCTTTTTCCATATCTTAAGACAATG
131 CATACCTTGAATTCGCCACATATTTCGGTGCTTTCCATCTTCTTTTTCCATATCTTAAGACAATG
23352524 CAGGATACGCCACAACATTTCTTACGGAATTTTTTCTCTCAGTGTTCGCCAT
196 CAGGATACGCCACAACATTTCTTACGGAATTTTTTCTCTCAGTGTTCGCCAT
23352576 ATGTTCTATT
Statistics
Matches: 247, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
247 247 1.00
ACGTcount: A:0.25, C:0.25, G:0.11, T:0.39
Consensus pattern (247 bp):
CCCCTCTCTTCACTAATTCATTACTTACATTATTTACTTAACCCATTTCGAGGTTTCTTAGCCAT
TATCATTCTAAGTTCTATACAAACTAAGTATTGTTAATCGACTTAATCTTCAAGTCCGTTTGACT
CATACCTTGAATTCGCCACATATTTCGGTGCTTTCCATCTTCTTTTTCCATATCTTAAGACAATG
CAGGATACGCCACAACATTTCTTACGGAATTTTTTCTCTCAGTGTTCGCCAT
Found at i:23352649 original size:27 final size:27
Alignment explanation
Indices: 23352562--23352651 Score: 126
Period size: 27 Copynumber: 3.3 Consensus size: 27
23352552 ATTTTTTCTC
*
23352562 TCAGTGTTCGCCATATGTTCTATTCCT
1 TCAGTGTTCGCCATATGTACTATTCCT
** *
23352589 TCAAAGTTCGTCATATGTACTATTCCT
1 TCAGTGTTCGCCATATGTACTATTCCT
*
23352616 TCAGTGTTTGCCATATGTACTATTCCT
1 TCAGTGTTCGCCATATGTACTATTCCT
*
23352643 TCTGTGTTC
1 TCAGTGTTC
23352652 ACGATACTTA
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.18, C:0.23, G:0.14, T:0.44
Consensus pattern (27 bp):
TCAGTGTTCGCCATATGTACTATTCCT
Found at i:23352833 original size:27 final size:27
Alignment explanation
Indices: 23352766--23352837 Score: 99
Period size: 27 Copynumber: 2.7 Consensus size: 27
23352756 TCCATGATCA
* *
23352766 CCACAAAGGCTCCCATTTCACAGATTG
1 CCACAAAAGCTTCCATTTCACAGATTG
* *
23352793 CCACAAAGGCTTCCATTTCATAGATTG
1 CCACAAAAGCTTCCATTTCACAGATTG
*
23352820 CCACAAAAGTTTCCATTT
1 CCACAAAAGCTTCCATTT
23352838 TTTAACGTGT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.31, C:0.29, G:0.12, T:0.28
Consensus pattern (27 bp):
CCACAAAAGCTTCCATTTCACAGATTG
Found at i:23361054 original size:50 final size:50
Alignment explanation
Indices: 23360993--23361093 Score: 202
Period size: 50 Copynumber: 2.0 Consensus size: 50
23360983 TCAAGGAAAA
23360993 AGTTAAAAAGCAGTTTGATGCGGGATTCCTTCAGGTGATCAAGTACTCAG
1 AGTTAAAAAGCAGTTTGATGCGGGATTCCTTCAGGTGATCAAGTACTCAG
23361043 AGTTAAAAAGCAGTTTGATGCGGGATTCCTTCAGGTGATCAAGTACTCAG
1 AGTTAAAAAGCAGTTTGATGCGGGATTCCTTCAGGTGATCAAGTACTCAG
23361093 A
1 A
23361094 ATGGGTAGCT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.28
Consensus pattern (50 bp):
AGTTAAAAAGCAGTTTGATGCGGGATTCCTTCAGGTGATCAAGTACTCAG
Found at i:23361295 original size:50 final size:50
Alignment explanation
Indices: 23361220--23361327 Score: 198
Period size: 50 Copynumber: 2.1 Consensus size: 50
23361210 ATACACTAGT
23361220 GGATAATACGGCTGGTTACTCGTTGTTTTCCTTTATGGATGGTTTCTCGG
1 GGATAATACGGCTGGTTACTCGTTGTTTTCCTTTATGGATGGTTTCTCGG
*
23361270 GGATAATACGGCTGGTTACTCGTTGTTTTCCTTTATGGATGGTTTCTTGG
1 GGATAATACGGCTGGTTACTCGTTGTTTTCCTTTATGGATGGTTTCTCGG
23361320 GGTATAAT
1 GG-ATAAT
23361328 CAGATCAAGA
Statistics
Matches: 56, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
50 51 0.91
51 5 0.09
ACGTcount: A:0.16, C:0.14, G:0.28, T:0.43
Consensus pattern (50 bp):
GGATAATACGGCTGGTTACTCGTTGTTTTCCTTTATGGATGGTTTCTCGG
Found at i:23362833 original size:42 final size:42
Alignment explanation
Indices: 23362773--23362860 Score: 167
Period size: 42 Copynumber: 2.1 Consensus size: 42
23362763 TTTGGCTTCC
*
23362773 ATGATCAAAGTAAGCCGACAAGAGGATGTGAAGCCTATTCAG
1 ATGATCAAAGTAAACCGACAAGAGGATGTGAAGCCTATTCAG
23362815 ATGATCAAAGTAAACCGACAAGAGGATGTGAAGCCTATTCAG
1 ATGATCAAAGTAAACCGACAAGAGGATGTGAAGCCTATTCAG
23362857 ATGA
1 ATGA
23362861 GTATTTATGA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.40, C:0.16, G:0.25, T:0.19
Consensus pattern (42 bp):
ATGATCAAAGTAAACCGACAAGAGGATGTGAAGCCTATTCAG
Found at i:23364242 original size:52 final size:52
Alignment explanation
Indices: 23364183--23364337 Score: 179
Period size: 54 Copynumber: 2.9 Consensus size: 52
23364173 AGGGAGGGAA
23364183 GCCAAAGTGAAAACCCGCAAAGGGCGCTTTGAGACTTTCAAA-AAAAAAGG-GG
1 GCCAAAGTGAAAACCCGCAAAGGGCGCTTTGAGAC--TCAAATAAAAAAGGAGG
* * * *
23364235 GGCAAAGTGAAAACCCGCAAAGGGCACTTTGATACTCAAATAAAAATGGAAAGG
1 GCCAAAGTGAAAACCCGCAAAGGGCGCTTTGAGACTCAAATAAAAAAGG--AGG
* * *
23364289 GCCAAAGTGAAAACTCGCAAAGGACGCTTTGAGACCCAATAATAAAAAA
1 GCCAAAGTGAAAACCCGCAAAGGGCGCTTTGAGACTC-A-AATAAAAAA
23364338 AGAAAAAAAA
Statistics
Matches: 86, Mismatches: 11, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
50 5 0.06
51 7 0.08
52 32 0.37
54 33 0.38
55 1 0.01
56 8 0.09
ACGTcount: A:0.44, C:0.19, G:0.23, T:0.14
Consensus pattern (52 bp):
GCCAAAGTGAAAACCCGCAAAGGGCGCTTTGAGACTCAAATAAAAAAGGAGG
Found at i:23375810 original size:44 final size:44
Alignment explanation
Indices: 23375747--23375836 Score: 162
Period size: 44 Copynumber: 2.0 Consensus size: 44
23375737 TATTCCGCAT
*
23375747 GGACAGATGTATCAAAAGAGAATGATGCGGGCTTATGAAAAAAA
1 GGACAGATATATCAAAAGAGAATGATGCGGGCTTATGAAAAAAA
*
23375791 GGACAGATATATCAAAAGAGAATGATGTGGGCTTATGAAAAAAA
1 GGACAGATATATCAAAAGAGAATGATGCGGGCTTATGAAAAAAA
23375835 GG
1 GG
23375837 TTCGCCCAAG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.46, C:0.08, G:0.28, T:0.19
Consensus pattern (44 bp):
GGACAGATATATCAAAAGAGAATGATGCGGGCTTATGAAAAAAA
Found at i:23376144 original size:53 final size:52
Alignment explanation
Indices: 23376063--23376214 Score: 189
Period size: 53 Copynumber: 2.8 Consensus size: 52
23376053 GGAGGGAAGC
*
23376063 CAAAGTGAAAACCCGCAAAGGGCGCTTTGAGACTTTCAAAAAAAAATGG-GGGG
1 CAAAGTGAAAACCCGCAAAGGGCGCTTTGAGAC--TCAAAAAAAAATGGAAGGG
* * *
23376116 CAAAGTGAAAACCCGCAAAGGGCACTTTGATACTCAAATAAAAATGGAAAGGG
1 CAAAGTGAAAACCCGCAAAGGGCGCTTTGAGACTCAAAAAAAAATGG-AAGGG
* * *
23376169 CAAAAGTGAAAACTCGCAAAGGACGCTTTGAGACCCAATAAAAAAA
1 C-AAAGTGAAAACCCGCAAAGGGCGCTTTGAGACTCAA-AAAAAAA
23376215 AAAGAAAAAA
Statistics
Matches: 85, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
51 13 0.15
53 35 0.41
54 31 0.36
55 6 0.07
ACGTcount: A:0.45, C:0.18, G:0.23, T:0.14
Consensus pattern (52 bp):
CAAAGTGAAAACCCGCAAAGGGCGCTTTGAGACTCAAAAAAAAATGGAAGGG
Found at i:23376213 original size:54 final size:50
Alignment explanation
Indices: 23376063--23376213 Score: 176
Period size: 54 Copynumber: 2.9 Consensus size: 50
23376053 GGAGGGAAGC
*
23376063 CAAAGTGAAAACCCGCAAAGGGCGCTTTGAGACTTTCAAAAAAAAATGGGGGG
1 CAAAGTGAAAACCCGCAAAGGGCGCTTTGAGAC--TC-AAAAAAAATGGAGGG
* *
23376116 CAAAGTGAAAACCCGCAAAGGGCACTTTGATACTCAAATAAAAATGGAAAGGG
1 CAAAGTGAAAACCCGCAAAGGGCGCTTTGAGACTCAAA-AAAAATGG--AGGG
* * *
23376169 CAAAAGTGAAAACTCGCAAAGGACGCTTTGAGACCCAATAAAAAA
1 C-AAAGTGAAAACCCGCAAAGGGCGCTTTGAGACTCAA-AAAAAA
23376214 AAAAGAAAAA
Statistics
Matches: 85, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
50 3 0.04
51 10 0.12
53 35 0.41
54 36 0.42
55 1 0.01
ACGTcount: A:0.44, C:0.18, G:0.23, T:0.15
Consensus pattern (50 bp):
CAAAGTGAAAACCCGCAAAGGGCGCTTTGAGACTCAAAAAAAATGGAGGG
Found at i:23377618 original size:178 final size:178
Alignment explanation
Indices: 23377319--23378118 Score: 1343
Period size: 178 Copynumber: 4.5 Consensus size: 178
23377309 ATTGGTAAAG
* * * ** * *
23377319 ATTGAAGATCTTATTTCCCTGAAGTTGCAGTGGAATAGATCCTCGCAGATGGAATCTTATCTTCA
1 ATTGAAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATCTTCGCAGATGGAATCTTATCTCCA
* * * * *
23377384 TGTATCGGCAA-TGGAGAATATTTCACCACCAAGCCCTATCTCTCTGAGGTAGCAAGAGAGCAGG
66 TGTATCGGCAAGT-GAGCAGATTTCACCACCAAGCCTTATCTCTCCGAGGTAGCAAGAGAACAGG
* *
23377448 TTGAAGAATGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGATTGAGA
130 TTGAAGAATGAATTTTATCTTCCTGAGGTAGCAAGGAAGCAGATTGAGA
23377497 ATTGAAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATCTTCGCAGATGGAATCTTATCTCCA
1 ATTGAAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATCTTCGCAGATGGAATCTTATCTCCA
* *
23377562 TGTATCGGCAAGTGAGCAGATTTCACCACCAAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGT
66 TGTATCGGCAAGTGAGCAGATTTCACCACCAAGCCTTATCTCTCCGAGGTAGCAAGAGAACAGGT
23377627 TGAAGAATGAATTTTATCTTCCTGAGGTAGCAAGGAAGCAGATTGAGA
131 TGAAGAATGAATTTTATCTTCCTGAGGTAGCAAGGAAGCAGATTGAGA
* * *
23377675 ATTGAAGATTTTATCTCCCTAAAGTTGCAGCGGAGCAGATCTTCGGAGATGGAATCTTATCTCTA
1 ATTGAAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATCTTCGCAGATGGAATCTTATCTCCA
* * *
23377740 TGTATCGGCAAGGGAGCAGATTTCACCCCCAAGCCTTATCTCTCCGAGGTAGCAAGAGAACAAGT
66 TGTATCGGCAAGTGAGCAGATTTCACCACCAAGCCTTATCTCTCCGAGGTAGCAAGAGAACAGGT
23377805 TGAAGAATGAATTTTATCTTCCTGAGGTAGCAAGGAAGCAGATTGAGA
131 TGAAGAATGAATTTTATCTTCCTGAGGTAGCAAGGAAGCAGATTGAGA
*
23377853 ATTGAAGATTTTATCTCCCTAAAGTTGCAGCGGAGCAGATCTTCGCAGATGGAATCTTATCTCCA
1 ATTGAAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATCTTCGCAGATGGAATCTTATCTCCA
* *
23377918 TGTATCGGCAAGGGAGCAGATTTCACCACCAAGCCTTATCTCTCCAAGGTAGCAAGAGAACAGGT
66 TGTATCGGCAAGTGAGCAGATTTCACCACCAAGCCTTATCTCTCCGAGGTAGCAAGAGAACAGGT
23377983 TGAAGAATGAATTTTATCTTCCTGAGGTAGCAAGGAAGCAGATTGAGA
131 TGAAGAATGAATTTTATCTTCCTGAGGTAGCAAGGAAGCAGATTGAGA
23378031 ATTGAAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATCTTCGCAGATGGAATCTTATCTCCA
1 ATTGAAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATCTTCGCAGATGGAATCTTATCTCCA
23378096 TGTATCGGCAA-TGGAGCAGATTT
66 TGTATCGGCAAGT-GAGCAGATTT
23378119 AATCTCGTCT
Statistics
Matches: 593, Mismatches: 27, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
178 592 1.00
179 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (178 bp):
ATTGAAGATTTTATCTCCCTGAAGTTGCAGCGGAGCAGATCTTCGCAGATGGAATCTTATCTCCA
TGTATCGGCAAGTGAGCAGATTTCACCACCAAGCCTTATCTCTCCGAGGTAGCAAGAGAACAGGT
TGAAGAATGAATTTTATCTTCCTGAGGTAGCAAGGAAGCAGATTGAGA
Found at i:23377652 original size:43 final size:46
Alignment explanation
Indices: 23377597--23377690 Score: 119
Period size: 43 Copynumber: 2.1 Consensus size: 46
23377587 CCACCAAGCC
*
23377597 TTATC-TCTCTGAGGTAGCAA-GAGAGCAGGTTGAAGAA-TG-A-ATT
1 TTATCTTCTCTGAGGTAGCAAGGA-AGCAGATTG-AGAATTGAAGATT
23377640 TTATCTTC-CTGAGGTAGCAAGGAAGCAGATTGAGAATTGAAGATT
1 TTATCTTCTCTGAGGTAGCAAGGAAGCAGATTGAGAATTGAAGATT
23377685 TTATCT
1 TTATCT
23377691 CCCTAAAGTT
Statistics
Matches: 45, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
42 4 0.09
43 27 0.60
44 5 0.11
45 9 0.20
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.31
Consensus pattern (46 bp):
TTATCTTCTCTGAGGTAGCAAGGAAGCAGATTGAGAATTGAAGATT
Found at i:23378011 original size:43 final size:45
Alignment explanation
Indices: 23377964--23378052 Score: 114
Period size: 43 Copynumber: 2.0 Consensus size: 45
23377954 TATCTCTCCA
* *
23377964 AGGTAGCAAGAGAA-CAGGTTGAAGAA-TG-A-ATTTTATCTTCCTG
1 AGGTAGCAAG-GAAGCAGATTG-AGAATTGAAGATTTTATCTCCCTG
23378007 AGGTAGCAAGGAAGCAGATTGAGAATTGAAGATTTTATCTCCCTG
1 AGGTAGCAAGGAAGCAGATTGAGAATTGAAGATTTTATCTCCCTG
23378052 A
1 A
23378053 AGTTGCAGCG
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
42 7 0.17
43 18 0.45
44 1 0.03
45 14 0.35
ACGTcount: A:0.35, C:0.12, G:0.26, T:0.27
Consensus pattern (45 bp):
AGGTAGCAAGGAAGCAGATTGAGAATTGAAGATTTTATCTCCCTG
Found at i:23381285 original size:186 final size:188
Alignment explanation
Indices: 23380944--23381318 Score: 718
Period size: 186 Copynumber: 2.0 Consensus size: 188
23380934 TGCTCAATCA
23380944 TACTGGGTATGACTTTTCCGATGAACCAAATATTTAGATAACCTTTTATACTTTTAATGTATGAG
1 TACTGGGTATGACTTTTCCGATGAACCAAATATTTAGATAACCTTTTATACTTTTAATGTATGAG
*
23381009 TTTTTTTTAAAAAAAAAATTCGAAAATCAATTGTATCTTAAAGGTATAAGGGATCGTATCTAACC
66 TTTTTTTTAAAAAAAAAATTCGAAAATCAATTGCATCTTAAAGGTATAAGGGATCGTATCTAACC
*
23381074 GTACTGGGTATGAAACCTCATATCTTTGGAACGAGAGATTTTTGATAGCTAATTTGAG
131 GTACTGGGCATGAAACCTCATATCTTTGGAACGAGAGATTTTTGATAGCTAATTTGAG
23381132 TACTGGGTATGACTTTTCCGATGAACCAAATATTTAGATAACCTTTTATACTTTTAATGTATGAG
1 TACTGGGTATGACTTTTCCGATGAACCAAATATTTAGATAACCTTTTATACTTTTAATGTATGAG
23381197 -TTTTTTT-AAAAAAAAATTCGAAAATCAATTGCATCTTAAAGGTATAAGGGATCGTATCTAACC
66 TTTTTTTTAAAAAAAAAATTCGAAAATCAATTGCATCTTAAAGGTATAAGGGATCGTATCTAACC
23381260 GTACTGGGCATGAAACCTCATATCTTTGGAACGAGAGATTTTTGATAGCTAATTTGAG
131 GTACTGGGCATGAAACCTCATATCTTTGGAACGAGAGATTTTTGATAGCTAATTTGAG
23381318 T
1 T
23381319 TATTCAAACA
Statistics
Matches: 185, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
186 113 0.61
187 7 0.04
188 65 0.35
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.36
Consensus pattern (188 bp):
TACTGGGTATGACTTTTCCGATGAACCAAATATTTAGATAACCTTTTATACTTTTAATGTATGAG
TTTTTTTTAAAAAAAAAATTCGAAAATCAATTGCATCTTAAAGGTATAAGGGATCGTATCTAACC
GTACTGGGCATGAAACCTCATATCTTTGGAACGAGAGATTTTTGATAGCTAATTTGAG
Found at i:23389669 original size:199 final size:198
Alignment explanation
Indices: 23389330--23389726 Score: 562
Period size: 199 Copynumber: 2.0 Consensus size: 198
23389320 TGTATTTAAT
* *
23389330 TTTTTTGGGACTTAACTAGTACCTAAACTTAAAAATTGTAAGTTAACTTGATACTTTTTTAAGTA
1 TTTTTTGGGACATAACTAGTACCTAAACTTAAAAATCGTAAGTTAACTTGATACTTTTTTAAGTA
* * * ** * *
23389395 CCTAACTAACACTATTAAAATATGTTGATATGGAACTGACGACCAATTAACATGGTTACACATGT
66 CATAACTAACACAATTAAAAAACATTGATATGGAACTGACGACCAATTAACATGGTGACACATAT
* * * *
23389460 TAAGTTTGTAATG-CCTTCAACCCGATCCAATTCGCTAGATCCGAATCTTAGGTGTTACAACTCG
131 TAAGTTTGTAACGCCCTT-AACCCGATCCAATTCGCCAAATCCGAATCTTAGGTGTTACAACTCA
23389524 ATTA
195 ATTA
*
23389528 TTTTTTGGGACATAACTAGTACTTAAACTTAAAAATCGTAAGTTAACTTGATACTTTTTTTAAGT
1 TTTTTTGGGACATAACTAGTACCTAAACTTAAAAATCGTAAGTTAACTTGATAC-TTTTTTAAGT
* * * *
23389593 ACATGACTAACACAATTAAAAAACATTGATATGGAGCTGATGACCAATTAGCATGGTGACACATA
65 ACATAACTAACACAATTAAAAAACATTGATATGGAACTGACGACCAATTAACATGGTGACACATA
* * * * *
23389658 TTAATTTTGTAACGCCCTTAACCCGATCCTATTTGCCAAATCTGAATCTTGGGTGTTACAACTCA
130 TTAAGTTTGTAACGCCCTTAACCCGATCCAATTCGCCAAATCCGAATCTTAGGTGTTACAACTCA
23389723 ATTA
195 ATTA
23389727 CATACTTACT
Statistics
Matches: 174, Mismatches: 23, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
198 51 0.29
199 119 0.68
200 4 0.02
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35
Consensus pattern (198 bp):
TTTTTTGGGACATAACTAGTACCTAAACTTAAAAATCGTAAGTTAACTTGATACTTTTTTAAGTA
CATAACTAACACAATTAAAAAACATTGATATGGAACTGACGACCAATTAACATGGTGACACATAT
TAAGTTTGTAACGCCCTTAACCCGATCCAATTCGCCAAATCCGAATCTTAGGTGTTACAACTCAA
TTA
Found at i:23390406 original size:211 final size:211
Alignment explanation
Indices: 23390042--23390461 Score: 759
Period size: 211 Copynumber: 2.0 Consensus size: 211
23390032 CTGTAGCACA
23390042 ATACACAAAGGTAAGTTCATGAGAGCTTCGTGAGTTAGACTCAATTTACTTGTATTGTCTCCATA
1 ATACACAAAGGTAAGTTCATGAGAGCTTCGTGAGTTAGACTCAATTTACTTGTATTGTCTCCATA
*
23390107 CAACGTATCTAGGAATTTCATTATCATGTGATTGTTCTTCGTTCTTCAACTTGACTTTGGCGAGT
66 CAACGTATCTAGGAATTTCATTATCATGTCATTGTTCTTCGTTCTTCAACTTGACTTTGGCGAGT
* *
23390172 ATCTTTCTTCTTTATACCATAGACATCACACCTAACCTTGAAATCATGTTTTATCCTTCTCTTCA
131 ATCTTTCTTCTTCATACCATAGACATCACACCTAACCTTGAAATCATGTTTTACCCTTCTCTTCA
*
23390237 CTGATTCATTACTTGT
196 CTAATTCATTACTTGT
*
23390253 ATACACAAAGGTAAGTTCATGAGAGCTTCGTGAGTTAGATTCAATTTACTTGTATTGTCTCCATA
1 ATACACAAAGGTAAGTTCATGAGAGCTTCGTGAGTTAGACTCAATTTACTTGTATTGTCTCCATA
* * *
23390318 CAACGTATCTAGGAATTTTATTGTCATGTCATTGTTCTTCGTTCTTCATCTTGACTTTGGCGAGT
66 CAACGTATCTAGGAATTTCATTATCATGTCATTGTTCTTCGTTCTTCAACTTGACTTTGGCGAGT
*
23390383 ATTTTTCTTCTTCATACCATAGACATCACACCTAACCTTGAAATCATGTTTTACCCTTCTCTTCA
131 ATCTTTCTTCTTCATACCATAGACATCACACCTAACCTTGAAATCATGTTTTACCCTTCTCTTCA
23390448 CTAATTCATTACTT
196 CTAATTCATTACTT
23390462 ACATTATTTA
Statistics
Matches: 200, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
211 200 1.00
ACGTcount: A:0.25, C:0.21, G:0.13, T:0.40
Consensus pattern (211 bp):
ATACACAAAGGTAAGTTCATGAGAGCTTCGTGAGTTAGACTCAATTTACTTGTATTGTCTCCATA
CAACGTATCTAGGAATTTCATTATCATGTCATTGTTCTTCGTTCTTCAACTTGACTTTGGCGAGT
ATCTTTCTTCTTCATACCATAGACATCACACCTAACCTTGAAATCATGTTTTACCCTTCTCTTCA
CTAATTCATTACTTGT
Found at i:23390756 original size:27 final size:27
Alignment explanation
Indices: 23390669--23390758 Score: 126
Period size: 27 Copynumber: 3.3 Consensus size: 27
23390659 ATTTTTTCTC
*
23390669 TCAGTGTTCGCCATATGTTCTATTCCT
1 TCAGTGTTCGCCATATGTACTATTCCT
** *
23390696 TCAAAGTTCGTCATATGTACTATTCCT
1 TCAGTGTTCGCCATATGTACTATTCCT
*
23390723 TCAGTGTTTGCCATATGTACTATTCCT
1 TCAGTGTTCGCCATATGTACTATTCCT
*
23390750 TCTGTGTTC
1 TCAGTGTTC
23390759 ACGATACTTA
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.18, C:0.23, G:0.14, T:0.44
Consensus pattern (27 bp):
TCAGTGTTCGCCATATGTACTATTCCT
Found at i:23390940 original size:27 final size:27
Alignment explanation
Indices: 23390873--23390944 Score: 99
Period size: 27 Copynumber: 2.7 Consensus size: 27
23390863 TCCATGATCA
* *
23390873 CCACAAAGGCTCCCATTTCACAGATTG
1 CCACAAAAGCTTCCATTTCACAGATTG
* *
23390900 CCACAAAGGCTTCCATTTCATAGATTG
1 CCACAAAAGCTTCCATTTCACAGATTG
*
23390927 CCACAAAAGTTTCCATTT
1 CCACAAAAGCTTCCATTT
23390945 TTTAACGTGT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.31, C:0.29, G:0.12, T:0.28
Consensus pattern (27 bp):
CCACAAAAGCTTCCATTTCACAGATTG
Found at i:23393554 original size:134 final size:133
Alignment explanation
Indices: 23393314--23394001 Score: 710
Period size: 134 Copynumber: 5.2 Consensus size: 133
23393304 GGATAAGTTA
** * *
23393314 TAGAGTTCATTGATTTACGATTGCAACTACATTCAAACAGTTCACTGATTTATGATCACAATTGA
1 TAGAGTTCACCGATTTACGATTGCAACT-CATTCAAACAGTTCACTAATTTACGATCACAATTGA
* * * *
23393379 TATTATCAAAGCTCAG-TGATTTA-TATTCATAGCTTACGTTCATTGATTTACGATCATGAACTA
65 TATTATTAAAGCTC-GTTGATTTACGA-TCACAGCTTAAGTTCATTGATTTACGATCATGAACTA
23393442 TTCACT
128 TTCACT
* *
23393448 TAGAGTTCACCAATTTACGATTGCAACTCTATTCAAACATTTCACTAATTTACGATCACAATTGA
1 TAGAGTTCACCGATTTACGATTGCAACTC-ATTCAAACAGTTCACTAATTTACGATCACAATTGA
* * *
23393513 TATTGTTAAAGCTCGTTGATTTACGTTCACATG-TTAGGTTCATTGATTTACGATCATGAA-TAG
65 TATTATTAAAGCTCGTTGATTTACGATCACA-GCTTAAGTTCATTGATTTACGATCATGAACTA-
23393576 TTCACT
128 TTCACT
* ** *
23393582 TAGAGGTT-ACTGATTTACGATTGCAACTCCATTTGAATAGTTCGACT-ATTTACGATCACAATT
1 TAGA-GTTCACCGATTTACGATTGCAACT-CATTCAAACAGTTC-ACTAATTTACGATCACAATT
* * **
23393645 GATAATATTAAAGCTTGTTGATTTACGATCACAGCTTAAGTTCATTGATTTACGATCATGAACGG
63 GATATTATTAAAGCTCGTTGATTTACGATCACAGCTTAAGTTCATTGATTTACGATCATGAACTA
23393710 TTCACT
128 TTCACT
* * * * *
23393716 TAGAGTTCACTGATTTACG-TTCACAACTCCATTCAAATAGTTCATTAATTTACGATCACAACTG
1 TAGAGTTCACCGATTTACGATT-GCAACT-CATTCAAACAGTTCACTAATTTACGATCACAATTG
* * * * * * ** *
23393780 ATATTGTTAAAACTCGTTGATTTACGATCATAGATTAAGTTTATTAATTTATAATCATAAACT-T
64 ATATTATTAAAGCTCGTTGATTTACGATCACAGCTTAAGTTCATTGATTTACGATCATGAACTAT
23393844 TCACT
129 TCACT
* * ** * * * *
23393849 TAAAGTTCATCGATTTATAATCGCAACTACATTCAAACATTTCACTAATTTATGATCACAACTGA
1 TAGAGTTCACCGATTTACGATTGCAACT-CATTCAAACAGTTCACTAATTTACGATCACAATTGA
* * * * * * * *
23393914 TATTCTTAAAACTCGTTGATTTATGATCACAACTT-AGTTCATTGATTTATGATTATGAACAACT
65 TATTATTAAAGCTCGTTGATTTACGATCACAGCTTAAGTTCATTGATTTACGATCATGAACTATT
*
23393978 CATT
130 CACT
* * *
23393982 TTGAGTTAACTGATTTACGA
1 TAGAGTTCACCGATTTACGA
23394002 GTTAACTGAT
Statistics
Matches: 465, Mismatches: 74, Indels: 31
0.82 0.13 0.05
Matches are distributed among these distances:
132 20 0.04
133 116 0.25
134 321 0.69
135 8 0.02
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (133 bp):
TAGAGTTCACCGATTTACGATTGCAACTCATTCAAACAGTTCACTAATTTACGATCACAATTGAT
ATTATTAAAGCTCGTTGATTTACGATCACAGCTTAAGTTCATTGATTTACGATCATGAACTATTC
ACT
Found at i:23394005 original size:16 final size:16
Alignment explanation
Indices: 23393984--23394015 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
23393974 AACTCATTTT
23393984 GAGTTAACTGATTTAC
1 GAGTTAACTGATTTAC
23394000 GAGTTAACTGATTTAC
1 GAGTTAACTGATTTAC
23394016 AATCACAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (16 bp):
GAGTTAACTGATTTAC
Found at i:23395531 original size:13 final size:13
Alignment explanation
Indices: 23395513--23395550 Score: 76
Period size: 13 Copynumber: 2.9 Consensus size: 13
23395503 GTTTCGGGAC
23395513 CACTTAATTTGGG
1 CACTTAATTTGGG
23395526 CACTTAATTTGGG
1 CACTTAATTTGGG
23395539 CACTTAATTTGG
1 CACTTAATTTGG
23395551 TCAAAAGGAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.24, C:0.16, G:0.21, T:0.39
Consensus pattern (13 bp):
CACTTAATTTGGG
Found at i:23396656 original size:42 final size:42
Alignment explanation
Indices: 23396591--23396701 Score: 134
Period size: 42 Copynumber: 2.6 Consensus size: 42
23396581 ATTAAGATTC
* *
23396591 CATATAAGACCATATCTGAGATATGGCCTCGATATG-TGATTT
1 CATATAAGACCATATCGGGGATATGGCCTCGATATGAT-ATTT
* * * *
23396633 CGTATAAGACTATGTCGGGGATATGGCGTCGATATGATATTT
1 CATATAAGACCATATCGGGGATATGGCCTCGATATGATATTT
* *
23396675 CATGTAAGACCATATCGGGAATATGGC
1 CATATAAGACCATATCGGGGATATGGC
23396702 ATTGAAACAA
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
42 56 0.98
43 1 0.02
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (42 bp):
CATATAAGACCATATCGGGGATATGGCCTCGATATGATATTT
Found at i:23398161 original size:18 final size:19
Alignment explanation
Indices: 23398129--23398166 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
23398119 AAATAGTTCG
23398129 AGTTATTTGAGTTAA-TCA
1 AGTTATTTGAGTTAACTCA
23398147 AGTTATTTG-GATTAACTCA
1 AGTTATTTGAG-TTAACTCA
23398166 A
1 A
23398167 ATAAAAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 1 0.06
18 13 0.72
19 4 0.22
ACGTcount: A:0.34, C:0.08, G:0.16, T:0.42
Consensus pattern (19 bp):
AGTTATTTGAGTTAACTCA
Found at i:23410526 original size:77 final size:77
Alignment explanation
Indices: 23410397--23410546 Score: 266
Period size: 77 Copynumber: 1.9 Consensus size: 77
23410387 AAAATGAAAC
* *
23410397 GACTTCATGGCTAGCTATCTTCCATCGGTTTCAATGGTGGAATGTGGTAGTCAAATGGTCGAACA
1 GACTTCATGGCTAGCTATCTTCCATCGGTTTCAATGGTGGAATATGGCAGTCAAATGGTCGAACA
23410462 GAGGGTTACGGT
66 GAGGGTTACGGT
23410474 GACTTCATGG-TGAGCTATCTTCCATCGGTTTCAATGGTGGAATATGGCAGTCAAATGGTCGAAC
1 GACTTCATGGCT-AGCTATCTTCCATCGGTTTCAATGGTGGAATATGGCAGTCAAATGGTCGAAC
23410538 AGAGGGTTA
65 AGAGGGTTA
23410547 GGGAAGCATC
Statistics
Matches: 70, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
76 1 0.01
77 69 0.99
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (77 bp):
GACTTCATGGCTAGCTATCTTCCATCGGTTTCAATGGTGGAATATGGCAGTCAAATGGTCGAACA
GAGGGTTACGGT
Found at i:23412417 original size:130 final size:131
Alignment explanation
Indices: 23412168--23412534 Score: 397
Period size: 130 Copynumber: 2.8 Consensus size: 131
23412158 AAAATTCTTC
* * *
23412168 AAAACGAAGACGAAATTTGATGTTCGGCGATTCACGGAATCGT-GCCCTAACGTGTTGGGTTACA
1 AAAACGAAGACGAAATTTGATGTTTGGCAATTCACGGAATCGTAGCCCTAACGTGTTGGGTTGCA
* * **
23412232 ATTTCGCATTTGCTCAAAATAATCGAATTTTCCTTCGAAA-TTTCATTCATATCTTTTAAAATCC
66 ATTTCGCATTTGTTCAAAATAATCGAA-TATCCTTTAAAATTTTCATTCATATCTTTTAAAATCC
23412296 CT
130 CT
* * * * *
23412298 TAAATGAAGATGAGATTTGATGTTTGGCAATTCGCGGAATC-TAGCCCTAACGTGTTGGGTTGCA
1 AAAACGAAGACGAAATTTGATGTTTGGCAATTCACGGAATCGTAGCCCTAACGTGTTGGGTTGCA
* *
23412362 ATTTCGCATTTGTTCAAAATAATCGAATATCACTTTAAAATTTTGC-TT-GTGTCTTTTAAAATC
66 ATTTCGCATTTGTTCAAAATAATCGAATATC-CTTTAAAATTTT-CATTCATATCTTTTAAAATC
*
23412425 TCT
129 CCT
* * * * * * * * *
23412428 AAAACAAAGGCGATATGTGATATTTGGCAATTCTCGGGATCGTA-CCTTAACGTGTTGGGTAGCA
1 AAAACGAAGACGAAATTTGATGTTTGGCAATTCACGGAATCGTAGCCCTAACGTGTTGGGTTGCA
* * *
23412492 ATTTCCCGA-TTGTTTAAAATAATCAAATATCCTTTCAAAATTT
66 ATTTCGC-ATTTGTTCAAAATAATCGAATATCCTTT-AAAATTT
23412535 CACTCGACTC
Statistics
Matches: 200, Mismatches: 30, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
129 8 0.04
130 183 0.92
131 8 0.04
132 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.35
Consensus pattern (131 bp):
AAAACGAAGACGAAATTTGATGTTTGGCAATTCACGGAATCGTAGCCCTAACGTGTTGGGTTGCA
ATTTCGCATTTGTTCAAAATAATCGAATATCCTTTAAAATTTTCATTCATATCTTTTAAAATCCC
T
Found at i:23412552 original size:130 final size:132
Alignment explanation
Indices: 23412315--23412570 Score: 306
Period size: 130 Copynumber: 2.0 Consensus size: 132
23412305 AGATGAGATT
* * *
23412315 TGATGTTTGGCAATTCGCGGAATCTAGCCCTAACGTGTTGGGTTGCAATTTCGCATTTGTTCAAA
1 TGATATTTGGCAATTCGCGGAATCTAGCCCTAACGTGTTGGGTAGCAATTTCCCATTTGTTCAAA
* ** * ** *
23412380 ATAATCGAATATCACTTTAAAATTTTGCTTGTGTCTT-TTAAAATC-TCTAAAACAAAGGCGATA
66 ATAATCAAATATCACTTTAAAATTTCACTCGACTCTTCTAAAAATCTTCTAAAACAAAGGCGATA
23412443 TG
131 TG
* * * *
23412445 TGATATTTGGCAATTCTCGGGATCGTA-CCTTAACGTGTTGGGTAGCAATTTCCCGA-TTGTTTA
1 TGATATTTGGCAATTCGCGGAATC-TAGCCCTAACGTGTTGGGTAGCAATTTCCC-ATTTGTTCA
* *
23412508 AAATAATCAAATATC-CTTTCAAAATTTCACTCGACTCTTCTAAAAATCTTTTAAAACGAAGGC
64 AAATAATCAAATATCACTTT-AAAATTTCACTCGACTCTTCTAAAAATCTTCTAAAACAAAGGC
23412571 AATACTCGGT
Statistics
Matches: 105, Mismatches: 16, Indels: 8
0.81 0.12 0.06
Matches are distributed among these distances:
129 4 0.04
130 79 0.75
131 10 0.10
132 12 0.11
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.36
Consensus pattern (132 bp):
TGATATTTGGCAATTCGCGGAATCTAGCCCTAACGTGTTGGGTAGCAATTTCCCATTTGTTCAAA
ATAATCAAATATCACTTTAAAATTTCACTCGACTCTTCTAAAAATCTTCTAAAACAAAGGCGATA
TG
Found at i:23428920 original size:44 final size:44
Alignment explanation
Indices: 23428871--23429162 Score: 433
Period size: 44 Copynumber: 6.6 Consensus size: 44
23428861 CCCGCAGATC
* *
23428871 GCGGAGAGCAGATCGAGGATAGTAGATTTGGCATCTCTGTATTG
1 GCGGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTG
*
23428915 GCGGAGAGCAGATCGAGGATAGCAGATTTGGCATCTCTGTATTG
1 GCGGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTG
* *
23428959 ACGGAGAGTAGATCGAAGATAGCAGATTTGGCATCTCTGTATTG
1 GCGGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTG
23429003 GCGGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTG
1 GCGGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTG
* * *
23429047 GCAGAGAGCAGATCGAAAATAACAGATTTGGCATCTCTGTATTG
1 GCGGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTG
* *
23429091 GCGGAGAGCAGATCGAAGA-CGACAGATTTGACATCTCTGTATTG
1 GCGGAGAGCAGATCGAAGATAG-CAGATTTGGCATCTCTGTATTG
* * * * *
23429135 ACAGAGAGCAGATTGAAAATAACAGATT
1 GCGGAGAGCAGATCGAAGATAGCAGATT
23429163 GGTGTTCCCG
Statistics
Matches: 226, Mismatches: 20, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
44 226 1.00
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.25
Consensus pattern (44 bp):
GCGGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTG
Found at i:23430947 original size:130 final size:131
Alignment explanation
Indices: 23430698--23431064 Score: 397
Period size: 130 Copynumber: 2.8 Consensus size: 131
23430688 AAAATTCTTC
* * *
23430698 AAAACGAAGACGAAATTTGATGTTCGGCGATTCACGGAATCGT-GCCCTAACGTGTTGGGTTACA
1 AAAACGAAGACGAAATTTGATGTTTGGCAATTCACGGAATCGTAGCCCTAACGTGTTGGGTTGCA
* * **
23430762 ATTTCGCATTTGCTCAAAATAATCGAATTTTCCTTCGAAA-TTTCATTCATATCTTTTAAAATCC
66 ATTTCGCATTTGTTCAAAATAATCGAA-TATCCTTTAAAATTTTCATTCATATCTTTTAAAATCC
23430826 CT
130 CT
* * * * *
23430828 TAAATGAAGATGAGATTTGATGTTTGGCAATTCGCGGAATC-TAGCCCTAACGTGTTGGGTTGCA
1 AAAACGAAGACGAAATTTGATGTTTGGCAATTCACGGAATCGTAGCCCTAACGTGTTGGGTTGCA
* *
23430892 ATTTCGCATTTGTTCAAAATAATCGAATATCACTTTAAAATTTTGC-TT-GTGTCTTTTAAAATC
66 ATTTCGCATTTGTTCAAAATAATCGAATATC-CTTTAAAATTTT-CATTCATATCTTTTAAAATC
*
23430955 TCT
129 CCT
* * * * * * * * *
23430958 AAAACAAAGGCGATATGTGATATTTGGCAATTCTCGGGATCGTA-CCTTAACGTGTTGGGTAGCA
1 AAAACGAAGACGAAATTTGATGTTTGGCAATTCACGGAATCGTAGCCCTAACGTGTTGGGTTGCA
* * *
23431022 ATTTCCCGA-TTGTTTAAAATAATCAAATATCCTTTCAAAATTT
66 ATTTCGC-ATTTGTTCAAAATAATCGAATATCCTTT-AAAATTT
23431065 CACTCGACTC
Statistics
Matches: 200, Mismatches: 30, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
129 8 0.04
130 183 0.92
131 8 0.04
132 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.35
Consensus pattern (131 bp):
AAAACGAAGACGAAATTTGATGTTTGGCAATTCACGGAATCGTAGCCCTAACGTGTTGGGTTGCA
ATTTCGCATTTGTTCAAAATAATCGAATATCCTTTAAAATTTTCATTCATATCTTTTAAAATCCC
T
Found at i:23431082 original size:130 final size:132
Alignment explanation
Indices: 23430845--23431100 Score: 306
Period size: 130 Copynumber: 2.0 Consensus size: 132
23430835 AGATGAGATT
* * *
23430845 TGATGTTTGGCAATTCGCGGAATCTAGCCCTAACGTGTTGGGTTGCAATTTCGCATTTGTTCAAA
1 TGATATTTGGCAATTCGCGGAATCTAGCCCTAACGTGTTGGGTAGCAATTTCCCATTTGTTCAAA
* ** * ** *
23430910 ATAATCGAATATCACTTTAAAATTTTGCTTGTGTCTT-TTAAAATC-TCTAAAACAAAGGCGATA
66 ATAATCAAATATCACTTTAAAATTTCACTCGACTCTTCTAAAAATCTTCTAAAACAAAGGCGATA
23430973 TG
131 TG
* * * *
23430975 TGATATTTGGCAATTCTCGGGATCGTA-CCTTAACGTGTTGGGTAGCAATTTCCCGA-TTGTTTA
1 TGATATTTGGCAATTCGCGGAATC-TAGCCCTAACGTGTTGGGTAGCAATTTCCC-ATTTGTTCA
* *
23431038 AAATAATCAAATATC-CTTTCAAAATTTCACTCGACTCTTCTAAAAATCTTTTAAAACGAAGGC
64 AAATAATCAAATATCACTTT-AAAATTTCACTCGACTCTTCTAAAAATCTTCTAAAACAAAGGC
23431101 AATACTCGGT
Statistics
Matches: 105, Mismatches: 16, Indels: 8
0.81 0.12 0.06
Matches are distributed among these distances:
129 4 0.04
130 79 0.75
131 10 0.10
132 12 0.11
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.36
Consensus pattern (132 bp):
TGATATTTGGCAATTCGCGGAATCTAGCCCTAACGTGTTGGGTAGCAATTTCCCATTTGTTCAAA
ATAATCAAATATCACTTTAAAATTTCACTCGACTCTTCTAAAAATCTTCTAAAACAAAGGCGATA
TG
Found at i:23438714 original size:8 final size:8
Alignment explanation
Indices: 23438701--23438726 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
23438691 TAATTAATCG
23438701 AATTAACC
1 AATTAACC
23438709 AATTAACC
1 AATTAACC
23438717 AATTAACC
1 AATTAACC
23438725 AA
1 AA
23438727 AATATTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.54, C:0.23, G:0.00, T:0.23
Consensus pattern (8 bp):
AATTAACC
Found at i:23439530 original size:10 final size:9
Alignment explanation
Indices: 23439466--23439549 Score: 69
Period size: 9 Copynumber: 8.7 Consensus size: 9
23439456 CTTACACGGT
23439466 ATTATAAAA
1 ATTATAAAA
*
23439475 ATTTTAGAAA
1 ATTATA-AAA
*
23439485 ACTATAGTAAA
1 ATTATA--AAA
*
23439496 ATTATATAA
1 ATTATAAAA
23439505 ATTACTAAAA
1 ATTA-TAAAA
*
23439515 TTTTATAAAGA
1 -ATTATAAA-A
23439526 ATTATAAAA
1 ATTATAAAA
*
23439535 ATAATAAAA
1 ATTATAAAA
23439544 ATTATA
1 ATTATA
23439550 GATAAAATTT
Statistics
Matches: 59, Mismatches: 11, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
9 25 0.42
10 22 0.37
11 12 0.20
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (9 bp):
ATTATAAAA
Found at i:23449777 original size:19 final size:19
Alignment explanation
Indices: 23449750--23449786 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
23449740 GATTCAACTT
*
23449750 TCTTTTCTGACATTCTTGA
1 TCTTCTCTGACATTCTTGA
23449769 TCTTCTCTGACATTCTTG
1 TCTTCTCTGACATTCTTG
23449787 CAACTGAGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.14, C:0.24, G:0.11, T:0.51
Consensus pattern (19 bp):
TCTTCTCTGACATTCTTGA
Found at i:23449939 original size:216 final size:216
Alignment explanation
Indices: 23449564--23449984 Score: 743
Period size: 216 Copynumber: 1.9 Consensus size: 216
23449554 CTATCGGTCA
* *
23449564 ATTCTTGCAACTAAGACTTCAGTTTTTTAAGTTTGGTCGGATCCATTCTATATGGAGCTATCAAA
1 ATTCTTGCAACTAAGACTTCAGTTTTTTAAGTTTGGTCGGAGCCATTCTATACGGAGCTATCAAA
* * *
23449629 ATCGGAGTAGTACCAGGTACCAATTCAATGCCAAATTCAACTTCTCTAACCGAAGGTAATCCCGG
66 ATCGGAGTAGTACCAAGTACCAATTCAATGCCAAATTCAACATCTCTAACCGAAGGTAATCCCAG
*
23449694 AAGTTCTTCAAGAAACACATCAGGGAACTCACAGACAACAGGCACAGATTCAACTTTCTTTTCTG
131 AAGTTCTTCAAGAAACACATCAAGGAACTCACAGACAACAGGCACAGATTCAACTTTCTTTTCTG
23449759 ACATTCTTGATCTTCTCTGAC
196 ACATTCTTGATCTTCTCTGAC
*
23449780 ATTCTTGCAACTGAGACTTCAGTTTTTTAAGTTTGGTCGGAGCCATTCTATACGGAGCTATCAAA
1 ATTCTTGCAACTAAGACTTCAGTTTTTTAAGTTTGGTCGGAGCCATTCTATACGGAGCTATCAAA
* * * *
23449845 ATCGGAGTAGTACCAAGTACCAATTCAATGCCAAATTTAACATCTCTAGCTGGAGGTAATCCCAG
66 ATCGGAGTAGTACCAAGTACCAATTCAATGCCAAATTCAACATCTCTAACCGAAGGTAATCCCAG
23449910 AAGTTCTTCAAGAAACACATCAAGGAACTCACAGACAACAGGCACAGATTCAACTTTCTTTTCTG
131 AAGTTCTTCAAGAAACACATCAAGGAACTCACAGACAACAGGCACAGATTCAACTTTCTTTTCTG
23449975 ACATTCTTGA
196 ACATTCTTGA
23449985 ATCAATCACA
Statistics
Matches: 194, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
216 194 1.00
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (216 bp):
ATTCTTGCAACTAAGACTTCAGTTTTTTAAGTTTGGTCGGAGCCATTCTATACGGAGCTATCAAA
ATCGGAGTAGTACCAAGTACCAATTCAATGCCAAATTCAACATCTCTAACCGAAGGTAATCCCAG
AAGTTCTTCAAGAAACACATCAAGGAACTCACAGACAACAGGCACAGATTCAACTTTCTTTTCTG
ACATTCTTGATCTTCTCTGAC
Found at i:23450713 original size:42 final size:42
Alignment explanation
Indices: 23450654--23450734 Score: 144
Period size: 42 Copynumber: 1.9 Consensus size: 42
23450644 AAATGATTTC
*
23450654 GTGAACCACAATTGTAACAAGCTCGGTTATTACTCTTTCTTT
1 GTGAACCACAACTGTAACAAGCTCGGTTATTACTCTTTCTTT
*
23450696 GTGAACCACAACTGTAACAAGCTCGTTTATTACTCTTTC
1 GTGAACCACAACTGTAACAAGCTCGGTTATTACTCTTTC
23450735 CCCAGCACTC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (42 bp):
GTGAACCACAACTGTAACAAGCTCGGTTATTACTCTTTCTTT
Found at i:23455709 original size:16 final size:16
Alignment explanation
Indices: 23455688--23455722 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
23455678 AGTATCACAG
*
23455688 TAAATAAAAAAATTAT
1 TAAATAAAAAAATAAT
*
23455704 TAAATAACAAAATAAT
1 TAAATAAAAAAATAAT
23455720 TAA
1 TAA
23455723 TAACTTGAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.29
Consensus pattern (16 bp):
TAAATAAAAAAATAAT
Found at i:23462166 original size:26 final size:26
Alignment explanation
Indices: 23462137--23462196 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
23462127 TTTGGAGGAA
* **
23462137 GTTCTATACTAGTGGTTTTGCCACGT
1 GTTCTATACTAGTGGCTCCGCCACGT
*
23462163 GTTCTGATTCTAGTGGCTCCGCCACGT
1 GTTCT-ATACTAGTGGCTCCGCCACGT
*
23462190 TTTCTAT
1 GTTCTAT
23462197 TATTAGCAGT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.13, C:0.23, G:0.22, T:0.42
Consensus pattern (26 bp):
GTTCTATACTAGTGGCTCCGCCACGT
Found at i:23462364 original size:33 final size:33
Alignment explanation
Indices: 23462312--23462375 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
23462302 TTGAGGCCAC
* *
23462312 TCTGCTACTGTATAGGGCTAAAGCCCAGACTGA
1 TCTGCTACTGAATAAGGCTAAAGCCCAGACTGA
* *
23462345 TCTGTTACTGAATAAGGCTAAGGCCCAGACT
1 TCTGCTACTGAATAAGGCTAAAGCCCAGACT
23462376 ATTTTGCATA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.25
Consensus pattern (33 bp):
TCTGCTACTGAATAAGGCTAAAGCCCAGACTGA
Found at i:23466130 original size:18 final size:18
Alignment explanation
Indices: 23466071--23466131 Score: 52
Period size: 18 Copynumber: 3.2 Consensus size: 18
23466061 TTAAAAAATG
23466071 AAATTTTAACATAAAAA-
1 AAATTTTAACATAAAAAC
* *
23466088 AAATTGTCTACTAACACAAACAC
1 AAA-T-T-T--TAACATAAAAAC
23466111 AAATTTTAACATAAAAAC
1 AAATTTTAACATAAAAAC
23466129 AAA
1 AAA
23466132 GCTTATGTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 11
0.69 0.08 0.22
Matches are distributed among these distances:
17 3 0.09
18 14 0.41
19 1 0.03
20 2 0.06
21 1 0.03
22 10 0.29
23 3 0.09
ACGTcount: A:0.59, C:0.15, G:0.02, T:0.25
Consensus pattern (18 bp):
AAATTTTAACATAAAAAC
Found at i:23477359 original size:40 final size:40
Alignment explanation
Indices: 23477283--23477357 Score: 125
Period size: 40 Copynumber: 1.9 Consensus size: 40
23477273 TGAAATTTCA
*
23477283 ATCAAAACTTTTAGTTCTATTTTTATTTTATTTTTTCTAG
1 ATCAAAACTTTTAATTCTATTTTTATTTTATTTTTTCTAG
*
23477323 ATCAAAACTTTTAATTTTATTTTT-TTTTATTTTTT
1 ATCAAAACTTTTAATTCTATTTTTATTTTATTTTTT
23477358 TCCAAGTAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
39 11 0.33
40 22 0.67
ACGTcount: A:0.25, C:0.08, G:0.03, T:0.64
Consensus pattern (40 bp):
ATCAAAACTTTTAATTCTATTTTTATTTTATTTTTTCTAG
Found at i:23482943 original size:20 final size:22
Alignment explanation
Indices: 23482906--23482945 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
23482896 ATTATTAGAA
*
23482906 TTTATAAAAATGTTAAATAAAT
1 TTTATAAAAATGTAAAATAAAT
23482928 TTTA-AAAAAT-TAAAATAA
1 TTTATAAAAATGTAAAATAA
23482946 TAAAAATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 6 0.35
22 4 0.24
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (22 bp):
TTTATAAAAATGTAAAATAAAT
Found at i:23483605 original size:10 final size:10
Alignment explanation
Indices: 23483590--23483619 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
23483580 TTAGTGGTCA
23483590 GATTTAGTGG
1 GATTTAGTGG
23483600 GATTTAGTGG
1 GATTTAGTGG
*
23483610 GATTTGGTGG
1 GATTTAGTGG
23483620 TTAGTGGGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.17, C:0.00, G:0.43, T:0.40
Consensus pattern (10 bp):
GATTTAGTGG
Done.