Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 61 of 255
Found at i:17478243 original size:40 final size:40
Alignment explanation
Indices: 17477960--17478231 Score: 445
Period size: 40 Copynumber: 6.8 Consensus size: 40
17477950 GAGAATTGAG
17477960 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
17478000 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
17478040 AGTGATATATCCGGGCTAAGTCCTGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
17478080 AGTGATGTATCCGGGCTAAGTCCCGAAGAGTATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
17478120 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
17478160 AGTGATGTATCCGGACTAAGTCCCGGAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * * *
17478200 GGTGTTATATCCGGGCTAGGTCTCAAAGAGCA
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCA
17478232 ATCATGCTGG
Statistics
Matches: 215, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 215 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:17482414 original size:47 final size:47
Alignment explanation
Indices: 17482361--17482505 Score: 186
Period size: 47 Copynumber: 3.1 Consensus size: 47
17482351 TTAGGATTTT
*
17482361 ATGTGATGAATGTGAACATACATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
17482408 ATGTGATGATTGTGAGCATGCATATGTGTGATAAGGCCAAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
17482455 ATGTGGTGAATATGAACATGC--ATATGTGGTAAAGCCGAATGGTCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
17482500 ATGTGA
1 ATGTGA
17482506 AATATATATA
Statistics
Matches: 83, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
45 24 0.29
47 59 0.71
ACGTcount: A:0.33, C:0.12, G:0.28, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:17482533 original size:50 final size:50
Alignment explanation
Indices: 17482464--17482610 Score: 235
Period size: 50 Copynumber: 3.0 Consensus size: 50
17482454 AATGTGGTGA
*
17482464 ATATGA-ACATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATAT
1 ATATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATAT
17482513 ATATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATAT
1 ATATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATAT
* * *
17482563 ATATGAGATATGTATATGTGGTAAAGTCGAATGG-CTAGTGTGAAATAT
1 ATATGAGATATGCATATGTGGTAAAGCCGAATGGTC-AATGTGAAATAT
17482611 GTAGGCGATG
Statistics
Matches: 92, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
49 7 0.08
50 85 0.92
ACGTcount: A:0.37, C:0.07, G:0.24, T:0.31
Consensus pattern (50 bp):
ATATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATAT
Found at i:17482868 original size:37 final size:37
Alignment explanation
Indices: 17482760--17482868 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
17482750 GGAAATATAT
*
17482760 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
17482797 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
17482834 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
17482869 CGTCTGAGCT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:17493782 original size:49 final size:49
Alignment explanation
Indices: 17493718--17493892 Score: 160
Period size: 49 Copynumber: 3.6 Consensus size: 49
17493708 CTTGTTGTGT
*
17493718 GTCAGTGTAAGACCTGTCTGGGACATGGCATCGACAC-CGATAGATGAGA
1 GTCAGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTCGATAGATGAAA
* * * * * *
17493767 G-CTAGTGCAAGACCTGTCTGGGACACGACATCGGCCTTGATATATGAAA
1 GTC-AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAA
* * * * **
17493816 GTCAGTGTAAGACCTGCCTGAGACATGGCATCGACTTTGAT-G-TGCTA
1 GTCAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAA
* *
17493863 GCCAGTGTAAGACCACGTCTGGGACATGGC
1 GTCAGTGTAAGACC-TGTCTGGGACATGGC
17493893 GTTGGCATCT
Statistics
Matches: 101, Mismatches: 21, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
47 16 0.16
48 14 0.14
49 70 0.69
50 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.22
Consensus pattern (49 bp):
GTCAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAA
Found at i:17497085 original size:47 final size:47
Alignment explanation
Indices: 17497031--17497768 Score: 1242
Period size: 47 Copynumber: 15.6 Consensus size: 47
17497021 TATTTGAATA
17497031 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
17497078 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * *
17497127 AATGTGAAAGTATATATATGTCATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
17497174 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
17497223 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
17497270 AATGTGAAAATGTATATATATGTGATAAGGCCAAATGGCCGATGTGATG
1 AATGTG-AAA-GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
17497319 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
17497366 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
17497413 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
17497460 AATGTGAAAGTGTATATATTTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
17497507 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
17497554 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
17497601 AATGTGAAAGTGTATATATGTGATAAGGACTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
17497648 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
17497695 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
17497742 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
17497769 TCCCGAAGGG
Statistics
Matches: 654, Mismatches: 31, Indels: 12
0.94 0.04 0.02
Matches are distributed among these distances:
47 516 0.79
48 6 0.01
49 132 0.20
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:17497988 original size:37 final size:37
Alignment explanation
Indices: 17497887--17497988 Score: 177
Period size: 37 Copynumber: 2.8 Consensus size: 37
17497877 CCGAGCTCTA
*
17497887 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
17497924 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
* *
17497961 AAGACCCGATAACTTCGTGTGGAGATTT
1 AAGACCCGATGACTACGTGTGGAGATTT
17497989 CGTCTGAGCT
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
Found at i:17499764 original size:39 final size:38
Alignment explanation
Indices: 17499701--17499784 Score: 114
Period size: 39 Copynumber: 2.2 Consensus size: 38
17499691 GGGTGTTACA
17499701 ATTAATATGAGTTTTAATTATGTCATAATCTAAACATC
1 ATTAATATGAGTTTTAATTATGTCATAATCTAAACATC
* * * * *
17499739 ATTAATATGGGTCTTTGATTATGTCATAGTTTGAACATC
1 ATTAATATGAGT-TTTAATTATGTCATAATCTAAACATC
17499778 ATTAATA
1 ATTAATA
17499785 CTTGTTTTCA
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
38 11 0.28
39 29 0.73
ACGTcount: A:0.36, C:0.10, G:0.12, T:0.43
Consensus pattern (38 bp):
ATTAATATGAGTTTTAATTATGTCATAATCTAAACATC
Found at i:17502011 original size:24 final size:25
Alignment explanation
Indices: 17501984--17502035 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
17501974 GCCTAGCCTC
*
17501984 TTTTAAT-ACCTGAGGCAAAGCCCT
1 TTTTAATAAACTGAGGCAAAGCCCT
** *
17502008 TTTTGGTAAACTGGGGCAAAGCCCT
1 TTTTAATAAACTGAGGCAAAGCCCT
17502033 TTT
1 TTT
17502036 CGCACTTCCT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 5 0.22
25 18 0.78
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (25 bp):
TTTTAATAAACTGAGGCAAAGCCCT
Found at i:17502110 original size:21 final size:21
Alignment explanation
Indices: 17502083--17502143 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
17502073 TATAATGAGT
17502083 ATATCATAGCATATCATGTGC
1 ATATCATAGCATATCATGTGC
* * *
17502104 ATCTCATAACATATCATATGC
1 ATATCATAGCATATCATGTGC
*
17502125 ATATTAT-GTCATATCATGT
1 ATATCATAG-CATATCATGT
17502144 ATAACAATAT
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.34, C:0.18, G:0.10, T:0.38
Consensus pattern (21 bp):
ATATCATAGCATATCATGTGC
Found at i:17511160 original size:28 final size:28
Alignment explanation
Indices: 17511127--17511255 Score: 159
Period size: 29 Copynumber: 4.5 Consensus size: 28
17511117 TATAGTAAGT
*
17511127 CCGCACACTTAGTGTTATATAATCAAAC
1 CCGCACACTTAGTGCTATATAATCAAAC
* *
17511155 TCGCACACTTAGTGCTTACATAATCAAAC
1 CCGCACACTTAGTGC-TATATAATCAAAC
17511184 CCGCACACTTAGTGCTATATAATCAAAC
1 CCGCACACTTAGTGCTATATAATCAAAC
** * ** *
17511212 TTGCACACTCAGTGCTATGCAATTTAAAC
1 CCGCACACTTAGTGCTATATAA-TCAAAC
17511241 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
17511256 CAATCTCATG
Statistics
Matches: 85, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
28 42 0.49
29 43 0.51
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.27
Consensus pattern (28 bp):
CCGCACACTTAGTGCTATATAATCAAAC
Found at i:17511218 original size:57 final size:57
Alignment explanation
Indices: 17511127--17511255 Score: 188
Period size: 57 Copynumber: 2.3 Consensus size: 57
17511117 TATAGTAAGT
* *
17511127 CCGCACACTTAGTGTTATATAATCAAACTCGCACACTTAGTGCT-TACATAATCAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTCGCACACTCAGTGCTATACA-AATCAAAC
* * * *
17511184 CCGCACACTTAGTGCTATATAATCAAACTTGCACACTCAGTGCTATGCAATTTAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTCGCACACTCAGTGCTATACAAATCAAAC
17511241 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
17511256 CAATCTCATG
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
57 62 0.95
58 3 0.05
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.27
Consensus pattern (57 bp):
CCGCACACTTAGTGCTATATAATCAAACTCGCACACTCAGTGCTATACAAATCAAAC
Found at i:17512963 original size:10 final size:11
Alignment explanation
Indices: 17512945--17512997 Score: 56
Period size: 11 Copynumber: 5.0 Consensus size: 11
17512935 ATATTGTTAT
17512945 ACATGATATG-
1 ACATGATATGC
*
17512955 ACATAATATGC
1 ACATGATATGC
17512966 ACATGATATGC
1 ACATGATATGC
* * *
17512977 -TATGAGATAC
1 ACATGATATGC
17512987 ACATGATATGC
1 ACATGATATGC
17512998 TAAGATATAC
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
10 16 0.48
11 17 0.52
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (11 bp):
ACATGATATGC
Found at i:17513007 original size:21 final size:21
Alignment explanation
Indices: 17512960--17513007 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
17512950 ATATGACATA
* *
17512960 ATATGCACATGATATGCTATG
1 ATATACACATGATATGCTAAG
*
17512981 AGATACACATGATATGCTAAG
1 ATATACACATGATATGCTAAG
17513002 ATATAC
1 ATATAC
17513008 TTATTATATG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.29
Consensus pattern (21 bp):
ATATACACATGATATGCTAAG
Found at i:17513110 original size:24 final size:25
Alignment explanation
Indices: 17513053--17513110 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 25
17513043 AAGAAGTGCG
17513053 AAAAG-GGCTTTGCCCCAGTTTACC
1 AAAAGAGGCTTTGCCCCAGTTTACC
**
17513077 AAAA-AGGGCTTTGCCCCAG-TTATT
1 AAAAGA-GGCTTTGCCCCAGTTTACC
17513101 AAAAGAGGCT
1 AAAAGAGGCT
17513111 AGTCCTCCAG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
24 15 0.52
25 14 0.48
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.24
Consensus pattern (25 bp):
AAAAGAGGCTTTGCCCCAGTTTACC
Found at i:17520773 original size:47 final size:47
Alignment explanation
Indices: 17520704--17520796 Score: 150
Period size: 47 Copynumber: 2.0 Consensus size: 47
17520694 GCAGTTGAGA
* *
17520704 AAATATATAAACAAAACTGGGAAGAATTCTCCTATGCTAAATAAGGG
1 AAATATATAAACAAAACTGGGAAAAATTCTCCTATACTAAATAAGGG
* *
17520751 AAATATATAAACAGAACTGGGAAAAATTTTCCTATACTAAATAAGG
1 AAATATATAAACAAAACTGGGAAAAATTCTCCTATACTAAATAAGG
17520797 CTTCTTACCC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.48, C:0.12, G:0.15, T:0.25
Consensus pattern (47 bp):
AAATATATAAACAAAACTGGGAAAAATTCTCCTATACTAAATAAGGG
Found at i:17526162 original size:20 final size:21
Alignment explanation
Indices: 17526134--17526172 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
17526124 TGAGTCTTCA
*
17526134 AAAATAAATAGAAATAAAAGT
1 AAAATAAATAAAAATAAAAGT
17526155 AAAA-AAATAAAAATAAAA
1 AAAATAAATAAAAATAAAA
17526173 CAAGTTTGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.15
Consensus pattern (21 bp):
AAAATAAATAAAAATAAAAGT
Found at i:17526164 original size:14 final size:14
Alignment explanation
Indices: 17526133--17526172 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 14
17526123 ATGAGTCTTC
17526133 AAAAATAAATAGAAAT
1 AAAAATAAA-A-AAAT
*
17526149 AAAAGTAAAAAAAT
1 AAAAATAAAAAAAT
17526163 AAAAATAAAA
1 AAAAATAAAA
17526173 CAAGTTTGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 13 0.59
15 1 0.05
16 8 0.36
ACGTcount: A:0.80, C:0.00, G:0.05, T:0.15
Consensus pattern (14 bp):
AAAAATAAAAAAAT
Found at i:17540400 original size:6 final size:6
Alignment explanation
Indices: 17540370--17540494 Score: 87
Period size: 6 Copynumber: 20.3 Consensus size: 6
17540360 AAGAAACATT
* *
17540370 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCAGA ATCAG-
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * * * *
17540417 GTGACAGA ATCATA ATCAGA ATCAGA ATTATGTG A-CAGA ATCAGA ATCAGT
1 AT--CAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA
*
17540468 ATCAAGTA A-CAGA ATCAGA ATTAGA AT
1 ATC-AG-A ATCAGA ATCAGA ATCAGA AT
17540495 GTGAATGCAA
Statistics
Matches: 93, Mismatches: 15, Indels: 22
0.72 0.12 0.17
Matches are distributed among these distances:
5 5 0.05
6 76 0.82
7 9 0.10
8 3 0.03
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:17540427 original size:25 final size:25
Alignment explanation
Indices: 17540396--17540494 Score: 99
Period size: 25 Copynumber: 3.7 Consensus size: 25
17540386 AAATGAGAAT
17540396 CAGAATCAGAATCAGAATCAGGTGA
1 CAGAATCAGAATCAGAATCAGGTGA
*
17540421 CAGAATCATAATCAGAATCAGAATTATGTGA
1 CAGAATCAGAATCAGAATCAG------GTGA
* * *
17540452 CAGAATCAGAATCAGTATCAAGTAA
1 CAGAATCAGAATCAGAATCAGGTGA
*
17540477 CAGAATCAGAATTAGAAT
1 CAGAATCAGAATCAGAAT
17540495 GTGAATGCAA
Statistics
Matches: 61, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
25 39 0.64
31 22 0.36
ACGTcount: A:0.46, C:0.14, G:0.18, T:0.21
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATCAGGTGA
Found at i:17540434 original size:31 final size:31
Alignment explanation
Indices: 17540391--17540471 Score: 126
Period size: 31 Copynumber: 2.6 Consensus size: 31
17540381 AATCAAAATG
17540391 AGAATCAGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGGTGAC
* * *
17540422 AGAATCATAATCAGAATCAGAATTATGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGGTGAC
*
17540453 AGAATCAGAATCAGTATCA
1 AGAATCAGAATCAGAATCA
17540472 AGTAACAGAA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.46, C:0.15, G:0.19, T:0.21
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGAATCAGGTGAC
Found at i:17540487 original size:31 final size:30
Alignment explanation
Indices: 17540391--17540494 Score: 101
Period size: 31 Copynumber: 3.6 Consensus size: 30
17540381 AATCAAAATG
*
17540391 AGAATCAGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAAGT-AC
* * *
17540422 AGAATCATAATCAGAATCAGAATTATGT--
1 AGAATCAGAATCAGAATCAGAATCAAGTAC
*
17540450 -G-A-CAGAATCAGAATCAGTATCAAGTAAC
1 AGAATCAGAATCAGAATCAGAATCAAGT-AC
*
17540478 AGAATCAGAATTAGAAT
1 AGAATCAGAATCAGAAT
17540495 GTGAATGCAA
Statistics
Matches: 59, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
25 19 0.32
26 1 0.02
27 1 0.02
29 1 0.02
30 1 0.02
31 36 0.61
ACGTcount: A:0.47, C:0.13, G:0.18, T:0.21
Consensus pattern (30 bp):
AGAATCAGAATCAGAATCAGAATCAAGTAC
Found at i:17540649 original size:27 final size:26
Alignment explanation
Indices: 17540612--17540747 Score: 128
Period size: 27 Copynumber: 5.0 Consensus size: 26
17540602 AGCATGGCTG
*
17540612 CCAGAACAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGACAGAGCCA
**
17540638 CCAGATACAGATATTGTGGTAGAGCCA
1 CCAGA-ACAGATATTGTGACAGAGCCA
* * *
17540665 CCAGAATAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-TTGTGACAGAGCCA
*
17540692 CCAGAAATAGAATATTGTGACAGAGCCA
1 CCAG-AACAG-ATATTGTGACAGAGCCA
* * * *
17540720 TCAGAATCAGATAATGTGGCAAAGCCA
1 CCAGAA-CAGATATTGTGACAGAGCCA
17540747 C
1 C
17540748 TTAACAGAAT
Statistics
Matches: 91, Mismatches: 14, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
26 11 0.12
27 55 0.60
28 22 0.24
29 3 0.03
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.21
Consensus pattern (26 bp):
CCAGAACAGATATTGTGACAGAGCCA
Found at i:17540717 original size:55 final size:53
Alignment explanation
Indices: 17540612--17540747 Score: 146
Period size: 55 Copynumber: 2.5 Consensus size: 53
17540602 AGCATGGCTG
* * * * * **
17540612 CCAGAACAGATATTGTGACAGAGTCACCAGATACAGATATTGTGGTAGAGCCA
1 CCAGAATAGATATTGTGGCAAAGCCACCAGAAACAGATATTGTGACAGAGCCA
* *
17540665 CCAGAATAGATATTTGTGGCATAGCCACCAGAAATAGAATATTGTGACAGAGCCA
1 CCAGAATAGATA-TTGTGGCAAAGCCACCAGAAACAG-ATATTGTGACAGAGCCA
* *
17540720 TCAGAATCAGATAATGTGGCAAAGCCAC
1 CCAGAAT-AGATATTGTGGCAAAGCCAC
17540748 TTAACAGAAT
Statistics
Matches: 69, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
53 11 0.16
54 19 0.28
55 34 0.49
56 5 0.07
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.21
Consensus pattern (53 bp):
CCAGAATAGATATTGTGGCAAAGCCACCAGAAACAGATATTGTGACAGAGCCA
Found at i:17541338 original size:27 final size:27
Alignment explanation
Indices: 17541290--17541416 Score: 121
Period size: 27 Copynumber: 4.7 Consensus size: 27
17541280 GGGGCAAAAT
* * *
17541290 GGTAATTTTACCCCAC-GAGGGTATCTC
1 GGTAATTCTACCCTACAG-GGGTATTTC
17541317 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * * *
17541344 AGTATTTCTACCATATAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
17541371 GGTAATTCTATCCAACAGGGTTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
**
17541398 AATAATTCTACCCTACAGG
1 GGTAATTCTACCCTACAGG
17541417 TTCTCATATT
Statistics
Matches: 79, Mismatches: 20, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
27 78 0.99
28 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:17541365 original size:54 final size:54
Alignment explanation
Indices: 17541307--17541409 Score: 152
Period size: 54 Copynumber: 1.9 Consensus size: 54
17541297 TTACCCCACG
* * *
17541307 AGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCATATA
1 AGGGTATCTCGGTAATTCTACCCAACAGGGGTATTTCAATAATTCTACCATATA
* * *
17541361 AGGGTATTTCGGTAATTCTATCCAACAGGGTTATTTCAATAATTCTACC
1 AGGGTATCTCGGTAATTCTACCCAACAGGGGTATTTCAATAATTCTACC
17541410 CTACAGGTTC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 43 1.00
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.36
Consensus pattern (54 bp):
AGGGTATCTCGGTAATTCTACCCAACAGGGGTATTTCAATAATTCTACCATATA
Found at i:17544534 original size:40 final size:40
Alignment explanation
Indices: 17544457--17544679 Score: 292
Period size: 40 Copynumber: 5.6 Consensus size: 40
17544447 AAACCAAGTA
* *
17544457 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
17544496 CCTTCGGGACTTAGCCC-GATTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGA-TATAGTAACTCGCACAAATG
17544536 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* ** * *
17544576 CCTTCGGGACTTAGCCCGGATATAATCGCTAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
17544616 CCTTCGGGACATAGCCCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
17544656 CCTTC-GGATCTTAGTCCGGTTATA
1 CCTTCGGGA-CTTAGCCCGGATATA
17544680 ATCCGACTAA
Statistics
Matches: 162, Mismatches: 17, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
39 19 0.12
40 141 0.87
41 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:17549360 original size:28 final size:28
Alignment explanation
Indices: 17549327--17549381 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
17549317 CAAATGGTGT
17549327 TAAGACACATTCATTTTTCATGTGTTAG
1 TAAGACACATTCATTTTTCATGTGTTAG
17549355 TAAGACACATTCATTTTTCATGTGTTA
1 TAAGACACATTCATTTTTCATGTGTTA
17549382 ACACTTCGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.29, C:0.15, G:0.13, T:0.44
Consensus pattern (28 bp):
TAAGACACATTCATTTTTCATGTGTTAG
Found at i:17553352 original size:42 final size:39
Alignment explanation
Indices: 17553253--17553450 Score: 128
Period size: 42 Copynumber: 4.8 Consensus size: 39
17553243 TACCATAGCA
* *
17553253 ATGTCCCAAACGTGGTCTTACATGTAATCAATCGATGCC
1 ATGTCCCAAACATGGTCTTACATGAAATCAATCGATGCC
* * *
17553292 ACTGTCCCAAATAGGGTCTTACATGAAATCATATACGATGTCG
1 A-TGTCCCAAACATGGTCTTACATGAAATCA-AT-CGATG-CC
* * *
17553335 ATGTCCCAGACATGGTCTTACACG-TATCTTAAATCGATGCC
1 ATGTCCCAAACATGGTCTTACATGAAATC---AATCGATGCC
* * * *
17553376 AACGTCCCAAACGTGGTATTACACGTAAATCTCAAATCGATGCC
1 -ATGTCCCAAACATGGTCTTACATG-AAA--TC-AATCGATGCC
* * * *
17553420 AACGTCCCAGACGTGGTCTTACACGAAATCA
1 -ATGTCCCAAACATGGTCTTACATGAAATCA
17553451 CATATTGGAA
Statistics
Matches: 129, Mismatches: 18, Indels: 23
0.76 0.11 0.14
Matches are distributed among these distances:
39 1 0.01
40 26 0.20
41 8 0.06
42 49 0.38
43 7 0.05
44 36 0.28
46 2 0.02
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.26
Consensus pattern (39 bp):
ATGTCCCAAACATGGTCTTACATGAAATCAATCGATGCC
Found at i:17553423 original size:44 final size:44
Alignment explanation
Indices: 17553337--17553449 Score: 169
Period size: 44 Copynumber: 2.6 Consensus size: 44
17553327 CGATGTCGAT
* *
17553337 GTCCCAGACATGGTCTTACACGT--ATCTTAAATCGATGCCAAC
1 GTCCCAGACGTGGTCTTACACGTAAATCTCAAATCGATGCCAAC
* *
17553379 GTCCCAAACGTGGTATTACACGTAAATCTCAAATCGATGCCAAC
1 GTCCCAGACGTGGTCTTACACGTAAATCTCAAATCGATGCCAAC
17553423 GTCCCAGACGTGGTCTTACACG-AAATC
1 GTCCCAGACGTGGTCTTACACGTAAATC
17553450 ACATATTGGA
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
42 20 0.32
43 5 0.08
44 38 0.60
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (44 bp):
GTCCCAGACGTGGTCTTACACGTAAATCTCAAATCGATGCCAAC
Found at i:17558854 original size:80 final size:80
Alignment explanation
Indices: 17558721--17558883 Score: 326
Period size: 80 Copynumber: 2.0 Consensus size: 80
17558711 CATTTCCAAT
17558721 TCAAAGACCACAAAAAAGAAGCACAAGCACAAGAAACTATTCTTCGGTTCATTTAGGCTACACTA
1 TCAAAGACCACAAAAAAGAAGCACAAGCACAAGAAACTATTCTTCGGTTCATTTAGGCTACACTA
17558786 TAATTGGTGCTCTTC
66 TAATTGGTGCTCTTC
17558801 TCAAAGACCACAAAAAAGAAGCACAAGCACAAGAAACTATTCTTCGGTTCATTTAGGCTACACTA
1 TCAAAGACCACAAAAAAGAAGCACAAGCACAAGAAACTATTCTTCGGTTCATTTAGGCTACACTA
17558866 TAATTGGTGCTCTTC
66 TAATTGGTGCTCTTC
17558881 TCA
1 TCA
17558884 TGTTGCACCA
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
80 83 1.00
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.25
Consensus pattern (80 bp):
TCAAAGACCACAAAAAAGAAGCACAAGCACAAGAAACTATTCTTCGGTTCATTTAGGCTACACTA
TAATTGGTGCTCTTC
Found at i:17566697 original size:19 final size:19
Alignment explanation
Indices: 17566675--17566712 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
17566665 ACGGGGAGAA
17566675 ACTGAGATAATATAAGGTG
1 ACTGAGATAATATAAGGTG
17566694 ACTGAGATAATATAAGGTG
1 ACTGAGATAATATAAGGTG
17566713 GGCTTGTCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.05, G:0.26, T:0.26
Consensus pattern (19 bp):
ACTGAGATAATATAAGGTG
Found at i:17567532 original size:14 final size:15
Alignment explanation
Indices: 17567503--17567540 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
17567493 TTAAACTAGA
*
17567503 TTAATTTAAGTTAAG
1 TTAAATTAAGTTAAG
17567518 TTAAATTAA-TTAAG
1 TTAAATTAAGTTAAG
*
17567532 TTCAATTAA
1 TTAAATTAA
17567541 ACTATAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 13 0.62
15 8 0.38
ACGTcount: A:0.45, C:0.03, G:0.08, T:0.45
Consensus pattern (15 bp):
TTAAATTAAGTTAAG
Found at i:17568637 original size:20 final size:20
Alignment explanation
Indices: 17568612--17568649 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
17568602 CAGTATGCAC
*
17568612 TTTGTACTCCAGGATGCATT
1 TTTGTACACCAGGATGCATT
*
17568632 TTTGTACACTAGGATGCA
1 TTTGTACACCAGGATGCA
17568650 CGTTACATGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.37
Consensus pattern (20 bp):
TTTGTACACCAGGATGCATT
Found at i:17574180 original size:18 final size:18
Alignment explanation
Indices: 17574157--17574197 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
17574147 AGTCAAAAGG
*
17574157 TTTATATGATGAATAATC
1 TTTATATGATGAATAATA
17574175 TTTATATGATGAATAATA
1 TTTATATGATGAATAATA
17574193 TTTAT
1 TTTAT
17574198 GTATATGATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.39, C:0.02, G:0.10, T:0.49
Consensus pattern (18 bp):
TTTATATGATGAATAATA
Found at i:17581460 original size:40 final size:40
Alignment explanation
Indices: 17581317--17581500 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
17581307 TAACTCATAC
* *
17581317 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
17581357 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
* *
17581397 AAGGCCTTCGGGACTTGACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
** * * *
17581437 AATGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
17581478 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
17581501 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
39 8 0.07
40 103 0.84
41 11 0.09
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:17581460 original size:80 final size:79
Alignment explanation
Indices: 17581280--17581500 Score: 211
Period size: 80 Copynumber: 2.8 Consensus size: 79
17581270 CTCGGTCAAG
* * * * * * * * *
17581280 TGCCTTCGGGACATAGCCCAGTTATAGTAACTCA-TACAATGCCTTCGGGACTTAACCCGGATTT
1 TGCCTTCGGGACTTAACCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTT-ACCCGGATAT
*
17581344 TAAAACTCGCACGAA
65 TAAAACTCGCACAAA
*
17581359 TGCCTTCGGGACTTAACCCGGA-ATTAGT-A-TCTCGCACAAAGGCCTTCGGGACTTGACCCGGA
1 TGCCTTCGGGACTTAACCCGGATA-TAGTCACT-TAGCACAAA-GCCTTCGGGACTT-ACCCGGA
17581421 -ATTAATAACTCGCACAAA
62 TATTAA-AACTCGCACAAA
**
17581439 TGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGA-CTTAACCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTA-CCCGGA
17581501 CAGCATTCAA
Statistics
Matches: 118, Mismatches: 14, Indels: 19
0.78 0.09 0.13
Matches are distributed among these distances:
77 1 0.01
78 2 0.02
79 34 0.29
80 70 0.59
81 10 0.08
82 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (79 bp):
TGCCTTCGGGACTTAACCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTACCCGGATATT
AAAACTCGCACAAA
Found at i:17588754 original size:40 final size:40
Alignment explanation
Indices: 17588574--17588794 Score: 188
Period size: 40 Copynumber: 5.5 Consensus size: 40
17588564 CTCGTTCAAG
* **
17588574 TGCCTTCGGGACATAGCCCGG--TTATAGTAACTCATAC-AA
1 TGCCTTCGGGACTTAGCCCGGAATTA-A-TAACTCGCACAAA
* * * *
17588613 TGCCTTCGGGACTTAACCCAGATTTTAA-AACTCGCACGAA
1 TGCCTTCGGGACTTAGCCCGGA-ATTAATAACTCGCACAAA
* * *
17588653 TGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAA
1 TGCCTTCGGGACTTAGCCCGGAATTAATAACTCGCACAAA
*
17588693 GGCCTTCGGGACTT-GACCCGGAATTAATAACTCGCACAAA
1 TGCCTTCGGGACTTAG-CCCGGAATTAATAACTCGCACAAA
* * * *
17588733 TGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACAAA
1 TGCCTTCGGGA-CTTAGCCCGGAAT-TAATAAC-TCGCACAAA
17588774 -GCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGACTTAGCCCGGA
17588795 CAGCATTCAA
Statistics
Matches: 150, Mismatches: 20, Indels: 22
0.78 0.10 0.11
Matches are distributed among these distances:
39 33 0.22
40 101 0.67
41 13 0.09
42 3 0.02
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCCTTCGGGACTTAGCCCGGAATTAATAACTCGCACAAA
Found at i:17588754 original size:80 final size:79
Alignment explanation
Indices: 17588574--17588794 Score: 211
Period size: 80 Copynumber: 2.8 Consensus size: 79
17588564 CTCGTTCAAG
* * * * * * * * *
17588574 TGCCTTCGGGACATAGCCCGGTTATAGTAACTCA-TACAATGCCTTCGGGACTTAACCCAGATTT
1 TGCCTTCGGGACTTAACCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTT-ACCCGGATAT
*
17588638 TAAAACTCGCACGAA
65 TAAAACTCGCACAAA
*
17588653 TGCCTTCGGGACTTAACCCGGA-ATTAGT-A-TCTCGCACAAAGGCCTTCGGGACTTGACCCGGA
1 TGCCTTCGGGACTTAACCCGGATA-TAGTCACT-TAGCACAAA-GCCTTCGGGACTT-ACCCGGA
17588715 -ATTAATAACTCGCACAAA
62 TATTAA-AACTCGCACAAA
**
17588733 TGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGA-CTTAACCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTA-CCCGGA
17588795 CAGCATTCAA
Statistics
Matches: 118, Mismatches: 14, Indels: 19
0.78 0.09 0.13
Matches are distributed among these distances:
77 1 0.01
78 2 0.02
79 35 0.30
80 69 0.58
81 10 0.08
82 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (79 bp):
TGCCTTCGGGACTTAACCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTACCCGGATATT
AAAACTCGCACAAA
Found at i:17590112 original size:27 final size:27
Alignment explanation
Indices: 17590081--17590135 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
17590071 AAGATCCGAA
17590081 GGCATTTGTGCTAGTGACTATATCCGG
1 GGCATTTGTGCTAGTGACTATATCCGG
17590108 GGCATTTGTGCTAGTGACTATATCCGG
1 GGCATTTGTGCTAGTGACTATATCCGG
17590135 G
1 G
17590136 CTAAGTCCCG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.18, C:0.18, G:0.31, T:0.33
Consensus pattern (27 bp):
GGCATTTGTGCTAGTGACTATATCCGG
Found at i:17590163 original size:40 final size:40
Alignment explanation
Indices: 17590108--17590228 Score: 174
Period size: 40 Copynumber: 3.0 Consensus size: 40
17590098 CTATATCCGG
17590108 GGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAA
1 GGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAA
*
17590148 GGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAA
1 GGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAA
** * *
17590188 GGCATTCATGCGAGTTG-CTATATCC-GGCTAAATCCCGAA
1 GGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTCCCGAA
17590227 GG
1 GG
17590229 TACTTGGGTT
Statistics
Matches: 74, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
39 14 0.19
40 58 0.78
41 2 0.03
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
GGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAA
Found at i:17597323 original size:39 final size:39
Alignment explanation
Indices: 17597269--17597485 Score: 274
Period size: 39 Copynumber: 5.5 Consensus size: 39
17597259 TAATGGAGAA
* **
17597269 TTATATCCGAGCTAAGTCCTAAAGGCATTCATGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCATGCTGGTG
17597308 TTATATCCGGGCTAAGTCCCGAAGGCATTCATGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCATGCTGGTG
* *
17597347 TTATATCCGGGCTAAGTCTCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCATGCTGGTG
* * *
17597386 TTATATCCGGGTTAAGCCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCATGCTGGTG
* * ** * *
17597425 TTATATCCAGGCTAAAGTCCCGCAGGC-TTTGTGTTGGTA
1 TTATATCCGGGCT-AAGTCCCGAAGGCATTCATGCTGGTG
17597464 TTATATCCGGGCTTAAAGTCCC
1 TTATATCCGGGC-T-AAGTCCC
17597486 ACATGCTTTG
Statistics
Matches: 160, Mismatches: 16, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 140 0.88
40 20 0.12
ACGTcount: A:0.21, C:0.22, G:0.27, T:0.30
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCATGCTGGTG
Found at i:17611322 original size:38 final size:38
Alignment explanation
Indices: 17611261--17611445 Score: 176
Period size: 38 Copynumber: 4.8 Consensus size: 38
17611251 ATTTGATGTG
* *
17611261 TATCCGGGCTTAAAGACCCGCAGGCTAT-ATGTTGGAATTA
1 TATCCGGG-TTAAA-TCCCGCAGGCT-TCGTGTTGGAATTA
*
17611301 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTTGTAA-TA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTG-TTGGAATTA
* * *
17611339 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTAGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGTTGGAATTA
* * * * *
17611377 TATCCGGGTTAAATCCCACAGGCCTAGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGTTGGAATTA
* * *
17611415 TATCTGAGTTTAAAGTCCCGTAGGCTTCGTG
1 TATCCG-GGTTAAA-TCCCGCAGGCTTCGTG
17611446 CTGGTGTTAT
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
37 3 0.02
38 84 0.68
39 16 0.13
40 20 0.16
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.31
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGTTGGAATTA
Found at i:17611360 original size:76 final size:78
Alignment explanation
Indices: 17611261--17611447 Score: 200
Period size: 76 Copynumber: 2.4 Consensus size: 78
17611251 ATTTGATGTG
* * * *
17611261 TATCCGGGCTTAAAGACCCGCAGGCTAT-ATGTTGGAATTATATCCGGGTTAAATCCCGCAGGCT
1 TATCCGGGCTTAAAGACCCGCAGGCT-TCATGCTAGAATTATATCCGGGTTAAATCCCACAGGCC
* *
17611325 TCGTGCTTGTAATA
65 TAGTGCTGGTAATA
* * *
17611339 TATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTAGTATTATATCCGGGTTAAATCCCACAGGCCT
1 TATCCGGGCTTAAAGACCCGCAGGCTTCATGCTAGAATTATATCCGGGTTAAATCCCACAGGCCT
*
17611402 AGTGCTGGTATTA
66 AGTGCTGGTAATA
* * * * * *
17611415 TATCTGAGTTTAAAGTCCCGTAGGCTTCGTGCT
1 TATCCGGGCTTAAAGACCCGCAGGCTTCATGCT
17611448 GGTGTTATGT
Statistics
Matches: 93, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
75 1 0.01
76 57 0.61
77 10 0.11
78 25 0.27
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.31
Consensus pattern (78 bp):
TATCCGGGCTTAAAGACCCGCAGGCTTCATGCTAGAATTATATCCGGGTTAAATCCCACAGGCCT
AGTGCTGGTAATA
Found at i:17613062 original size:43 final size:43
Alignment explanation
Indices: 17613014--17613364 Score: 558
Period size: 43 Copynumber: 8.2 Consensus size: 43
17613004 GCATGAAACT
* *
17613014 CGGTGATGTGTATTCGGGCCTTTGTGCCTTGCAGGCTTCGTAC
1 CGGTGATGTGTATTCGGGCCTTTGTGCCTAGCAGGCTTCGTGC
17613057 CGGTGATGTGTATTCGGGCCTTTGTGCCTAGCAGGCTTCGTGC
1 CGGTGATGTGTATTCGGGCCTTTGTGCCTAGCAGGCTTCGTGC
*
17613100 CGGTGATGTGTATTCGGGCCTTTGTGCCTAGCAGGCTTTGTGC
1 CGGTGATGTGTATTCGGGCCTTTGTGCCTAGCAGGCTTCGTGC
* *
17613143 TGGTGATGAGTATTCGGGCCTTTGTGCCTAGCAGGCTTCGTGC
1 CGGTGATGTGTATTCGGGCCTTTGTGCCTAGCAGGCTTCGTGC
*
17613186 CGGTGATGTGTATTCGGGCCTTTATGCCTAGCAGGCTTCGTGC
1 CGGTGATGTGTATTCGGGCCTTTGTGCCTAGCAGGCTTCGTGC
** *
17613229 CGGTGATGTGTATTCGGGCCTTCATGCCTAGCAGGCTTCGTGT
1 CGGTGATGTGTATTCGGGCCTTTGTGCCTAGCAGGCTTCGTGC
* *
17613272 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTCCGTGC
1 CGGTGATGTGTATTCGGGCCTTTGTGCCTAGCAGGCTTCGTGC
* * * **
17613315 CAGTGATGTGTATTCGGGTCTTCGTGCCTAGCAGGCTTAATGC
1 CGGTGATGTGTATTCGGGCCTTTGTGCCTAGCAGGCTTCGTGC
17613358 CGGTGAT
1 CGGTGAT
17613365 TCGAGCAAGG
Statistics
Matches: 288, Mismatches: 20, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 288 1.00
ACGTcount: A:0.11, C:0.23, G:0.34, T:0.32
Consensus pattern (43 bp):
CGGTGATGTGTATTCGGGCCTTTGTGCCTAGCAGGCTTCGTGC
Found at i:17613616 original size:57 final size:58
Alignment explanation
Indices: 17613518--17613626 Score: 148
Period size: 57 Copynumber: 1.9 Consensus size: 58
17613508 CGAATGATTA
* *
17613518 GAGGCACTGTGTGTGCAAATTGCTTTAACCGAGCACAATGTGTACGAAATCGGTAATT
1 GAGGCACTGTGTGTACAAATTGCTTCAACCGAGCACAATGTGTACGAAATCGGTAATT
* * * * *
17613576 GAGGCACTGTGTGTACGAGTT-CTTCAACCGAGCACTATGTGTGCGAGATCG
1 GAGGCACTGTGTGTACAAATTGCTTCAACCGAGCACAATGTGTACGAAATCG
17613627 ATCAGTGGGC
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
57 26 0.59
58 18 0.41
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (58 bp):
GAGGCACTGTGTGTACAAATTGCTTCAACCGAGCACAATGTGTACGAAATCGGTAATT
Found at i:17617820 original size:39 final size:38
Alignment explanation
Indices: 17617758--17617953 Score: 187
Period size: 38 Copynumber: 5.0 Consensus size: 38
17617748 ATTTGATGTG
* * *
17617758 TATCCGGGCTTAAAGACTCGCAGGCTAT-ATGCTGGAATTA
1 TATCCGGG-TTAAA-ACCCGCAGGCT-TCGTGCTGGTATTA
17617798 TATCCGGGTTAAAACCCAGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAAACCC-GCAGGCTTCGTGCTGGTATTA
* * *
17617837 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTAGTATTT
1 TATCCGGGTTAAAACCCGCAGGCTTCGTGCTGGTATTA
* * * *
17617875 TATCCGGGTTAAATCCCACAGGCCTAGTGCTGGTATTA
1 TATCCGGGTTAAAACCCGCAGGCTTCGTGCTGGTATTA
* * * * * *
17617913 TATCTGAGTTTAAAGTCCCGTAGGCTTGGTGCTGGTGTTA
1 TATCCG-GGTTAAA-ACCCGCAGGCTTCGTGCTGGTATTA
17617953 T
1 T
17617954 GTTTGGGTTT
Statistics
Matches: 134, Mismatches: 18, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
38 61 0.46
39 44 0.33
40 29 0.22
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.32
Consensus pattern (38 bp):
TATCCGGGTTAAAACCCGCAGGCTTCGTGCTGGTATTA
Found at i:17617867 original size:38 final size:38
Alignment explanation
Indices: 17617787--17617953 Score: 199
Period size: 38 Copynumber: 4.3 Consensus size: 38
17617777 GCAGGCTATA
* *
17617787 TGCTGGAATTATATCCGGGTTAAAACCCAGCAGGCTTCG
1 TGCTGGTATTATATCCGGGTTAAATCCC-GCAGGCTTCG
17617826 TGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTCG
1 TGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTCG
* * * * *
17617864 TGCTAGTATTTTATCCGGGTTAAATCCCACAGGCCTAG
1 TGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTCG
* * * *
17617902 TGCTGGTATTATATCTGAGTTTAAAGTCCCGTAGGCTTGG
1 TGCTGGTATTATATCCG-GGTTAAA-TCCCGCAGGCTTCG
*
17617942 TGCTGGTGTTAT
1 TGCTGGTATTAT
17617954 GTTTGGGTTT
Statistics
Matches: 110, Mismatches: 16, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
38 57 0.52
39 32 0.29
40 21 0.19
ACGTcount: A:0.21, C:0.20, G:0.26, T:0.33
Consensus pattern (38 bp):
TGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTCG
Found at i:17619860 original size:90 final size:90
Alignment explanation
Indices: 17619660--17619864 Score: 216
Period size: 90 Copynumber: 2.3 Consensus size: 90
17619650 TAAGGTACCA
* * * * ** * *
17619660 AAGCCATGTCCCAGACATGGTCTTAGATGGAACCGAACATCGATGCCATATCCCAGATATGGTCT
1 AAGCCATATCCCAGACATGGTCTTATACGGGACCTCATATCGATGCCATATCCCAAATATGGTCT
* * *
17619725 TATACGAAGTCTCGAATTGGTGCTG
66 TATACGAAATCACGAATTGATGCTG
* * *
17619750 ACGCCATGTCCCAGACATGGTCTTATACGGGACCTCATATCGATGCCATGTCCCAAATATGGTCT
1 AAGCCATATCCCAGACATGGTCTTATACGGGACCTCATATCGATGCCATATCCCAAATATGGTCT
*
17619815 TATACGAAATCACTTAA-TGATG-TCG
66 TATACGAAATCAC-GAATTGATGCT-G
* * *
17619840 AAGCCTTATCCCTGATATGGTCTTA
1 AAGCCATATCCCAGACATGGTCTTA
17619865 CATAGGATCT
Statistics
Matches: 95, Mismatches: 18, Indels: 4
0.81 0.15 0.03
Matches are distributed among these distances:
89 1 0.01
90 92 0.97
91 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.28
Consensus pattern (90 bp):
AAGCCATATCCCAGACATGGTCTTATACGGGACCTCATATCGATGCCATATCCCAAATATGGTCT
TATACGAAATCACGAATTGATGCTG
Found at i:17621809 original size:26 final size:26
Alignment explanation
Indices: 17621720--17621812 Score: 89
Period size: 27 Copynumber: 3.5 Consensus size: 26
17621710 CAAAGGCATT
* *
17621720 TCTTTTAAAGTTCACCACAAAGACTA
1 TCTTTTAGAGTTCAACACAAAGACTA
* * * **
17621746 GTCTTTCAGAATTCATCACAAAGGTTA
1 -TCTTTTAGAGTTCAACACAAAGACTA
17621773 TTCTTTTAGAGTTCAACAC-AAGACTA
1 -TCTTTTAGAGTTCAACACAAAGACTA
17621799 TCCTTTTAGAGTTC
1 T-CTTTTAGAGTTC
17621813 TCCACAATGG
Statistics
Matches: 53, Mismatches: 12, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
25 1 0.02
26 17 0.32
27 35 0.66
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.35
Consensus pattern (26 bp):
TCTTTTAGAGTTCAACACAAAGACTA
Found at i:17621828 original size:53 final size:54
Alignment explanation
Indices: 17621696--17621831 Score: 145
Period size: 54 Copynumber: 2.5 Consensus size: 54
17621686 AGGTGATCTA
** *
17621696 TTCAGAATTTTTCACAAAGGC-ATTTCTTTTAAAGTTCACCACAAAGACTAGTCT
1 TTCAGAATTCATCACAAAGGCTA-TTCTTTTAAAGTTCAACACAAAGACTAGTCT
* *
17621750 TTCAGAATTCATCACAAAGGTTATTCTTTTAGAGTTCAACAC-AAGACTA-TCCT
1 TTCAGAATTCATCACAAAGGCTATTCTTTTAAAGTTCAACACAAAGACTAGT-CT
* * *
17621803 TTTAGAGTTC-TCCACAATGGCTATTCTTT
1 TTCAGAATTCAT-CACAAAGGCTATTCTTT
17621832 CAAAATTTGC
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
52 2 0.03
53 32 0.46
54 35 0.50
55 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.37
Consensus pattern (54 bp):
TTCAGAATTCATCACAAAGGCTATTCTTTTAAAGTTCAACACAAAGACTAGTCT
Found at i:17625881 original size:43 final size:42
Alignment explanation
Indices: 17625726--17625882 Score: 140
Period size: 43 Copynumber: 3.7 Consensus size: 42
17625716 TGTGATATCG
* *
17625726 TGTAAGACCACGTCTGGGACATTGGCAT-AAATTTGAGATTTACG
1 TGTAAGACCACGTCTGGGACATTGGCATCATATTT--GA-TTACA
* *
17625770 TGTAAGACCATGTCTGGGACATTGGCATCAT-TTATGATTTCA
1 TGTAAGACCACGTCTGGGACATTGGCATCATATT-TGATTACA
* * * * **
17625812 TGTAAGAACC-TGTTTAGAACGGTGGCATCGATATTTGATTACA
1 TGTAAG-ACCACGTCTGGGACATTGGCATC-ATATTTGATTACA
*
17625855 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACATTGGCAT
17625883 TGTACGAGCT
Statistics
Matches: 92, Mismatches: 15, Indels: 13
0.77 0.12 0.11
Matches are distributed among these distances:
42 26 0.28
43 33 0.36
44 31 0.34
45 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACATTGGCATCATATTTGATTACA
Found at i:17626753 original size:28 final size:28
Alignment explanation
Indices: 17626712--17626773 Score: 106
Period size: 28 Copynumber: 2.2 Consensus size: 28
17626702 CACAGGCAGA
*
17626712 GACACAGGCATGTGTCTTAGCCGTGTGC
1 GACACAGGCATGTGTCTTAGCCATGTGC
*
17626740 GACACAGGCGTGTGTCTTAGCCATGTGC
1 GACACAGGCATGTGTCTTAGCCATGTGC
17626768 GACACA
1 GACACA
17626774 TGGTCACATT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.21, C:0.26, G:0.31, T:0.23
Consensus pattern (28 bp):
GACACAGGCATGTGTCTTAGCCATGTGC
Found at i:17634924 original size:45 final size:45
Alignment explanation
Indices: 17634769--17634939 Score: 172
Period size: 45 Copynumber: 3.7 Consensus size: 45
17634759 TTGTGAGAAC
* *
17634769 CAGTGTAAGACCATGTCTGGGACATGGCATCGGC-ATTGAGATGAGT
1 CAGTGTAAGA-CATGTCTGGGACATGGCATCGGCTA-CGAGATGTGT
* * * *
17634815 GCTAGTGTAAGACATGTTTGGG-CAT-GTATCAGCCT-CGAGACGTAAGT
1 -C-AGTGTAAGACATGTCTGGGACATGGCATC-GGCTACGAGATGT--GT
*
17634862 CAATGTAAGACATGTCTGGGACAT-GCATCGGCTACGAGATGTGT
1 CAGTGTAAGACATGTCTGGGACATGGCATCGGCTACGAGATGTGT
17634906 CAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 CAGTGTAAGA-CATGTCTGGGACATGGCATCGGC
17634940 ATAGATATGC
Statistics
Matches: 103, Mismatches: 12, Indels: 19
0.77 0.09 0.14
Matches are distributed among these distances:
44 11 0.11
45 43 0.42
46 28 0.27
47 12 0.12
48 9 0.09
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.25
Consensus pattern (45 bp):
CAGTGTAAGACATGTCTGGGACATGGCATCGGCTACGAGATGTGT
Found at i:17641608 original size:48 final size:47
Alignment explanation
Indices: 17641501--17641628 Score: 140
Period size: 48 Copynumber: 2.7 Consensus size: 47
17641491 GGGCTATTGT
*
17641501 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCACATTGTGA
1 GAGCTAGTGTAAGACCATGTCTTGGACATGGCATCAG-CACATTGTGA
*
17641547 GAGCCAGTGTAAGACCATGTCTTGGACATGGCATC-G-ACATTGAGATGA
1 GAGCTAGTGTAAGACCATGTCTTGGACATGGCATCAGCACATT--G-TGA
* *
17641595 GTGCTAGTGTAAGACCAT-TTTTGGGACATGGCAT
1 GAGCTAGTGTAAGACCATGTCTT-GGACATGGCAT
17641629 TGGCATCTTA
Statistics
Matches: 71, Mismatches: 5, Indels: 10
0.83 0.06 0.12
Matches are distributed among these distances:
45 5 0.07
46 13 0.18
47 18 0.25
48 35 0.49
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (47 bp):
GAGCTAGTGTAAGACCATGTCTTGGACATGGCATCAGCACATTGTGA
Found at i:17646606 original size:79 final size:81
Alignment explanation
Indices: 17646504--17646688 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
17646494 GCTACTCATT
* *
17646504 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
17646567 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* ** *
17646584 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGT
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
17646648 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
17646664 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
17646689 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:17646621 original size:39 final size:40
Alignment explanation
Indices: 17646504--17646688 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
17646494 GCTACTCATT
*
17646504 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
17646544 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
17646584 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
17646623 CAAATGCCTTC-GGATCTTAGTCCGTATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
17646664 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
17646689 CATCATTCAA
Statistics
Matches: 125, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
38 2 0.02
39 33 0.26
40 77 0.62
41 13 0.10
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:17654482 original size:38 final size:38
Alignment explanation
Indices: 17654421--17654617 Score: 145
Period size: 40 Copynumber: 5.0 Consensus size: 38
17654411 CGGAATTTAA
* **
17654421 CCGGATATAGCTACTCGTTCAAATG-CTTCGGGACATAGC
1 CCGGTTATAG-TACTCGCACAAATGCCTTCGGGAC-TAGC
* *
17654460 CCGGTTATAGTACTCGCACAAATGCCTTCGGGATTTAAC
1 CCGGTTATAGTACTCGCACAAATGCCTTCGGGA-CTAGC
17654499 CCGGATT-TAGTAACTCGCACAAATGCCTTCGGG-CTAGC
1 CCGG-TTATAGT-ACTCGCACAAATGCCTTCGGGACTAGC
* * *
17654537 CCGG-AATTAGTATCTCGCACAAATGCGTTC-GGATCTTAGT
1 CCGGTTA-TAGTA-CTCGCACAAATGCCTTCGGGA-C-TAGC
* * *
17654577 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGTTATAGT-AC-TCGCACAAATGCCTTCGGGAC-TAGC
17654617 C
1 C
17654618 GGACATCATT
Statistics
Matches: 129, Mismatches: 15, Indels: 27
0.75 0.09 0.16
Matches are distributed among these distances:
37 3 0.02
38 39 0.30
39 29 0.22
40 45 0.35
41 13 0.10
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (38 bp):
CCGGTTATAGTACTCGCACAAATGCCTTCGGGACTAGC
Found at i:17654502 original size:39 final size:39
Alignment explanation
Indices: 17654410--17654531 Score: 133
Period size: 39 Copynumber: 3.1 Consensus size: 39
17654400 ATCACGTACC
* * **
17654410 TCGGAATTTAA-CCGGATATAGCTACTCGTTCAAATG-CT
1 TCGGGATTTAACCCGGTTATAG-TACTCGCACAAATGCCT
** *
17654448 TCGGGACATAGCCCGGTTATAGTACTCGCACAAATGCCT
1 TCGGGATTTAACCCGGTTATAGTACTCGCACAAATGCCT
17654487 TCGGGATTTAACCCGGATT-TAGTAACTCGCACAAATGCCT
1 TCGGGATTTAACCCGG-TTATAGT-ACTCGCACAAATGCCT
17654527 TCGGG
1 TCGGG
17654532 CTAGCCCGGA
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
38 19 0.27
39 28 0.40
40 23 0.33
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.27
Consensus pattern (39 bp):
TCGGGATTTAACCCGGTTATAGTACTCGCACAAATGCCT
Found at i:17654554 original size:78 final size:77
Alignment explanation
Indices: 17654410--17654569 Score: 193
Period size: 78 Copynumber: 2.1 Consensus size: 77
17654400 ATCACGTACC
** *
17654410 TCGGAATTTAACCGGATATAGCTACTCGTTCAAATGCTTCGGGACATAGCCCGGTTATAGTACTC
1 TCGGAATTTAACCGGATATAGCTACTCGCACAAATGCTTCGGGACATAGCCCGGATATAGTACTC
17654475 GCACAAATGCCT
66 GCACAAATGCCT
* *
17654487 TCGGGATTTAACCCGGATTTAG-TAACTCGCACAAATGCCTTCGGG-C-TAGCCCGGA-ATTAGT
1 TCGGAATTTAA-CCGGATATAGCT-ACTCGCACAAATG-CTTCGGGACATAGCCCGGATA-TAGT
*
17654548 ATCTCGCACAAATGCGT
62 A-CTCGCACAAATGCCT
17654565 TCGGA
1 TCGGA
17654570 TCTTAGTCCG
Statistics
Matches: 71, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
76 1 0.01
77 24 0.34
78 39 0.55
79 7 0.10
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.26
Consensus pattern (77 bp):
TCGGAATTTAACCGGATATAGCTACTCGCACAAATGCTTCGGGACATAGCCCGGATATAGTACTC
GCACAAATGCCT
Found at i:17654581 original size:78 final size:80
Alignment explanation
Indices: 17654440--17654617 Score: 199
Period size: 78 Copynumber: 2.3 Consensus size: 80
17654430 GCTACTCGTT
*
17654440 CAAATG-CTTCGGGACATAGCCCGGTTATAGTACTCGCACAAATGCCTTCGGGATTTAACCCGGA
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTACTCGCACAAATGCCTTCGGGATTTAACCCGGA
* *
17654504 TTTAGTAAC-TCGCA
66 TATAGTAACTTAGCA
* **
17654518 CAAATGCCTTCGGG-C-TAGCCCGGA-ATTAGTATCTCGCACAAATGCGTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACATAGCCCGGATA-TAGTA-CTCGCACAAATGCCTTCGGGAT-TTAACCC
* *
17654579 GGATATGGTCACTTAGCA
63 GGATATAGTAACTTAGCA
*
17654597 CAAA-GCCTTCGGGACTTAGCC
1 CAAATGCCTTCGGGACATAGCC
17654618 GGACATCATT
Statistics
Matches: 85, Mismatches: 8, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
76 1 0.01
77 17 0.20
78 46 0.54
79 16 0.19
80 5 0.06
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTACTCGCACAAATGCCTTCGGGATTTAACCCGGA
TATAGTAACTTAGCA
Found at i:17667266 original size:21 final size:21
Alignment explanation
Indices: 17667241--17667291 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
17667231 ATATTTGAGA
17667241 AGGAAGCTGTTGCT-ATAGAAG
1 AGGAAGCTGTTGCTGA-AGAAG
*
17667262 AGGAAGTTGTTGCTGAAGAAG
1 AGGAAGCTGTTGCTGAAGAAG
*
17667283 AAGAAGCTG
1 AGGAAGCTG
17667292 CTGAAAATGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 25 0.96
22 1 0.04
ACGTcount: A:0.35, C:0.08, G:0.35, T:0.22
Consensus pattern (21 bp):
AGGAAGCTGTTGCTGAAGAAG
Found at i:17668998 original size:37 final size:37
Alignment explanation
Indices: 17668937--17669015 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
17668927 TTATTACGAA
* * *
17668937 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGAACAAAATCTCCACACGAAGTCATCGG
*
17668974 GTCTTACCCGAACAAAAT-TCCCACACGTAGTCATCGG
1 GTCTTACCCGAACAAAATCT-CCACACGAAGTCATCGG
17669011 GTCTT
1 GTCTT
17669016 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
36 1 0.03
37 36 0.97
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGAACAAAATCTCCACACGAAGTCATCGG
Found at i:17669312 original size:51 final size:51
Alignment explanation
Indices: 17669189--17669438 Score: 408
Period size: 51 Copynumber: 5.1 Consensus size: 51
17669179 GCCCTGTCAC
17669189 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC----
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
*
17669236 ATATATACACTCTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
17669287 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC----
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
** *
17669334 ATATATACACCCTCACATTCATCACGTCGGCCATTAGGCCTTATCACATAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
17669385 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
17669436 ATA
1 ATA
17669439 CACTTTCACA
Statistics
Matches: 187, Mismatches: 8, Indels: 12
0.90 0.04 0.06
Matches are distributed among these distances:
47 90 0.48
51 97 0.52
ACGTcount: A:0.31, C:0.29, G:0.08, T:0.32
Consensus pattern (51 bp):
ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
Found at i:17669331 original size:98 final size:98
Alignment explanation
Indices: 17669134--17669450 Score: 507
Period size: 98 Copynumber: 3.3 Consensus size: 98
17669124 CCCTTCGGGA
* * * * * * * *
17669134 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC----ATATAT
1 CTTATCACATATATACACTCTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATATAT
17669195 ACACTTTCACATTCATCACATCGGCCATTAGGC
66 ACACTTTCACATTCATCACATCGGCCATTAGGC
*
17669228 CTTATCACATATATACACTCTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAT
1 CTTATCACATATATACACTCTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATATAT
17669293 ACACTTTCACATTCATCACATCGGCCATTAGGC
66 ACACTTTCACATTCATCACATCGGCCATTAGGC
*
17669326 CTTATCACATATATACACCCTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATATAT
1 CTTATCACATATATACACTCTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATATAT
17669391 ACACTTTCACATTCATCACATCGGCCATTAGGC
66 ACACTTTCACATTCATCACATCGGCCATTAGGC
*
17669424 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTCTCACATT
17669451 TATTCAAATA
Statistics
Matches: 206, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
94 46 0.22
98 160 0.78
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.32
Consensus pattern (98 bp):
CTTATCACATATATACACTCTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATATAT
ACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:17669456 original size:51 final size:47
Alignment explanation
Indices: 17669134--17669450 Score: 454
Period size: 47 Copynumber: 6.6 Consensus size: 47
17669124 CCCTTCGGGA
* * * * * *
17669134 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
17669181 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
17669228 CTTATCACATATATACACTCTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17669275 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
** *
17669326 CTTATCACATATATACACCCTCACATTCATCACGTCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17669373 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17669424 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
17669451 TATTCAAATA
Statistics
Matches: 244, Mismatches: 18, Indels: 16
0.88 0.06 0.06
Matches are distributed among these distances:
47 154 0.63
51 90 0.37
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:17672018 original size:14 final size:15
Alignment explanation
Indices: 17671999--17672030 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
17671989 ATAAAAAAAT
17671999 AAAAGGAGGAG-AAG
1 AAAAGGAGGAGAAAG
17672013 AAAAGGAGGAGAAAG
1 AAAAGGAGGAGAAAG
17672028 AAA
1 AAA
17672031 TATCATGCAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (15 bp):
AAAAGGAGGAGAAAG
Found at i:17675619 original size:7 final size:7
Alignment explanation
Indices: 17675607--17675634 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
17675597 GTTGATGGGA
17675607 TGGTGAG
1 TGGTGAG
17675614 TGGTGAG
1 TGGTGAG
17675621 TGGTGAG
1 TGGTGAG
17675628 TGGTGAG
1 TGGTGAG
17675635 GGATGATTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.14, C:0.00, G:0.57, T:0.29
Consensus pattern (7 bp):
TGGTGAG
Found at i:17677670 original size:50 final size:49
Alignment explanation
Indices: 17677557--17677732 Score: 199
Period size: 50 Copynumber: 3.5 Consensus size: 49
17677547 CTAGTACGCA
* **
17677557 TAGTAGCCTGCACTTAGTACTACACATGAAACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
* ** * *
17677606 TAGTATCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCGGTACACG
* * * * *
17677656 TAGTAGCCTGCACTTAATACTACACACGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCCGGTACACG
*
17677707 TGGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
17677733 TGCGACCTCA
Statistics
Matches: 105, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
49 29 0.28
50 43 0.41
51 33 0.31
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
Found at i:17677740 original size:101 final size:99
Alignment explanation
Indices: 17677557--17677740 Score: 244
Period size: 101 Copynumber: 1.8 Consensus size: 99
17677547 CTAGTACGCA
* * *
17677557 TAGTAGCCTGCACTTAGTACTACACATGAAACCAATTATCCGGTACACGTAGTATCCTGCACTTA
1 TAGTAGCCTGCACTTAATACTACACATGAAACCAATTATCCGGTACACATAGTAGCCTGCACTTA
*
17677622 GTACTACACACGTGACCTAACCATCTGATACACG
66 GTACTACACACGCGACCTAACCATCTGATACACG
* * * * *
17677656 TAGTAGCCTGCACTTAATACTACACACGTG-ATCGAAGTTATCGGGTACGCATGGTAGCCTGCAC
1 TAGTAGCCTGCACTTAATACTACACA--TGAAACCAA-TTATCCGGTACACATAGTAGCCTGCAC
*
17677720 TTAGTACTACACATGCGACCT
63 TTAGTACTACACACGCGACCT
17677741 CACAATAGAT
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
99 25 0.35
100 4 0.06
101 43 0.60
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAATACTACACATGAAACCAATTATCCGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCTAACCATCTGATACACG
Found at i:17684739 original size:40 final size:40
Alignment explanation
Indices: 17684684--17684912 Score: 256
Period size: 40 Copynumber: 5.8 Consensus size: 40
17684674 TGGATGATAA
*
17684684 CCGGGCTAAGTCCCG-AGAGCATTTGAGCTAG-TAGCTAATT
1 CCGGGCTAAGTCCCGAAG-GCATTTGTGCTAGCTA-CTAATT
17684724 CCGGGCTAAGTCCCGAAGGCATTTGTG-TGAGCTACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCTACTAATT
* *
17684764 CCTGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACT-ATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCTACTAAT-T
* * * * *
17684804 CCGGGCTAAGTCCCAAAGGCA-TTGTGCGAGTTA-TTATA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCTACTAATT
* * *
17684842 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT-ATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCTACTAAT-T
*
17684882 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAG
17684913 TGGCTATATC
Statistics
Matches: 169, Mismatches: 11, Indels: 18
0.85 0.06 0.09
Matches are distributed among these distances:
38 21 0.12
39 29 0.17
40 115 0.68
41 4 0.02
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCTACTAATT
Found at i:17684868 original size:78 final size:78
Alignment explanation
Indices: 17684683--17684904 Score: 279
Period size: 78 Copynumber: 2.8 Consensus size: 78
17684673 TTGGATGATA
* *
17684683 ACCGGGCTAAGTCCCG-AGAGCATTTGAGCTAGTAGCTA-ATTCCGGGCTAAGTCCCGAAGGCAT
1 ACCGGGCTAAGTCCCGAAG-GCATTTGTGCAAGTA-CTATA-TCCGGGCTAAGTCCCGAAGGCA-
*
17684746 TTGTGTGAGCTACTAAT
62 TTGTGCGAGCTACTAAT
* * * *
17684763 TCCTGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATCCGGGCTAAGTCCCAAAGGCATTG
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TACTATATCCGGGCTAAGTCCCGAAGGCATTG
* *
17684828 TGCGAGTTA-TTAT
65 TGCGAGCTACTAAT
*
17684841 ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAACCGGGCTAAGTCCCGAAGGCATT
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TACTATATCCGGGCTAAGTCCCGAAGGCATT
17684905 TGAGCTAGTG
Statistics
Matches: 125, Mismatches: 14, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
78 61 0.49
79 10 0.08
80 49 0.39
81 5 0.04
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (78 bp):
ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTACTATATCCGGGCTAAGTCCCGAAGGCATTGT
GCGAGCTACTAAT
Found at i:17696596 original size:28 final size:28
Alignment explanation
Indices: 17696533--17696714 Score: 321
Period size: 28 Copynumber: 6.5 Consensus size: 28
17696523 ATATTAAGTC
* *
17696533 CGCACACTCAGTGCTATATAATCAA-CT
1 CGCACACTTAGTGCTACATAATCAAGCT
* *
17696560 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAGCT
17696588 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAGCT
17696616 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAGCT
17696644 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAGCT
17696672 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAGCT
17696700 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
17696715 GTGCAATTTA
Statistics
Matches: 151, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
27 24 0.16
28 127 0.84
ACGTcount: A:0.32, C:0.29, G:0.14, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAGCT
Found at i:17700963 original size:37 final size:37
Alignment explanation
Indices: 17700920--17701027 Score: 180
Period size: 37 Copynumber: 2.9 Consensus size: 37
17700910 GCTCGGACGT
* *
17700920 AATCTCCACACGAAGTTATCGGGTCTTACCCGGACAA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
*
17700957 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
*
17700994 AATCTCCACACGTAGTCATCGGGTCTCACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
17701028 ATATATTTCC
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.22
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
Found at i:17701242 original size:47 final size:47
Alignment explanation
Indices: 17701190--17701422 Score: 340
Period size: 47 Copynumber: 5.0 Consensus size: 47
17701180 TTTCACACTA
* * * * * *
17701190 GCCATTCGGCTTTACCGCATATATGCATTTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* *
17701237 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* *
17701284 GCCATTCGGCCTTATCACATATATGCATGCTCACATTTATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* * *
17701331 GCCATTCGGCGTCATCACATATATGCATGTTCACATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
*
17701378 GCCATTCGGCCTCATCACATATATGCATGTTCACATTCATCACAT
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACAT
17701423 AAAATCCTAA
Statistics
Matches: 169, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 169 1.00
ACGTcount: A:0.25, C:0.30, G:0.13, T:0.32
Consensus pattern (47 bp):
GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
Found at i:17701417 original size:25 final size:25
Alignment explanation
Indices: 17701342--17701423 Score: 75
Period size: 25 Copynumber: 3.4 Consensus size: 25
17701332 CCATTCGGCG
17701342 TCATCACATATATGCATGTTCACAT
1 TCATCACATATATGCATGTTCACAT
* * * *
17701367 TCACCACAT-T-GGCCA--TTCGGC-C
1 TCATCACATATATG-CATGTTC-ACAT
17701389 TCATCACATATATGCATGTTCACAT
1 TCATCACATATATGCATGTTCACAT
17701414 TCATCACATA
1 TCATCACATA
17701424 AAATCCTAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 14
0.66 0.12 0.22
Matches are distributed among these distances:
22 11 0.26
23 5 0.12
24 5 0.12
25 21 0.50
ACGTcount: A:0.29, C:0.29, G:0.10, T:0.32
Consensus pattern (25 bp):
TCATCACATATATGCATGTTCACAT
Found at i:17737082 original size:40 final size:40
Alignment explanation
Indices: 17737038--17737259 Score: 270
Period size: 40 Copynumber: 5.6 Consensus size: 40
17737028 CCACTAGCTT
* *
17737038 AAATGCCTTCGGGACTTAGCCCGG-CTATAGTAACTTGCAC
1 AAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCAC
* * *
17737078 AAATGCCTTCGGGACTTAGCCCGGTA-TAATAACTCACAC
1 AAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCAC
* *
17737117 AAATGCCTTCGGGACTTAGCCCGGAAGTAGTAGCTCGCAC
1 AAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCAC
* * *
17737157 AAATGCCTTCGGGACTTAGCTCGAAATTAGTAGCTCGCAC
1 AAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCAC
* ** * *
17737197 AAATGCCTTTGGGACTTAGCCCGGAATTAGCCACTAGCTC
1 AAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCAC
17737237 AAATG-CTCTCGGGACTTAGCCCG
1 AAATGCCT-TCGGGACTTAGCCCG
17737260 ATTATCATCT
Statistics
Matches: 159, Mismatches: 20, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
39 37 0.23
40 122 0.77
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
AAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCAC
Found at i:17739259 original size:20 final size:20
Alignment explanation
Indices: 17739236--17739345 Score: 103
Period size: 20 Copynumber: 5.5 Consensus size: 20
17739226 ATATTTATAA
*
17739236 CTTTGTGCCACTATTGATGG
1 CTTTGTGCCACTATTAATGG
* *
17739256 CTTTGTGTCGCTATTAATGG
1 CTTTGTGCCACTATTAATGG
*
17739276 CTTTGTGCCGCTATTAATGG
1 CTTTGTGCCACTATTAATGG
* * * *
17739296 CTTTGTGTCGCTACTGATGG
1 CTTTGTGCCACTATTAATGG
* * * * *
17739316 CTTCGAGCCACTACTCATGA
1 CTTTGTGCCACTATTAATGG
17739336 CTTTGTGCCA
1 CTTTGTGCCA
17739346 TATACGGATA
Statistics
Matches: 75, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 75 1.00
ACGTcount: A:0.15, C:0.23, G:0.24, T:0.38
Consensus pattern (20 bp):
CTTTGTGCCACTATTAATGG
Found at i:17739281 original size:40 final size:40
Alignment explanation
Indices: 17739236--17739342 Score: 133
Period size: 40 Copynumber: 2.7 Consensus size: 40
17739226 ATATTTATAA
* *
17739236 CTTTGTGCCACTATTGATGGCTTTGTGTCGCTATTAATGG
1 CTTTGTGCCACTATTAATGGCTTTGTGTCGCTACTAATGG
* *
17739276 CTTTGTGCCGCTATTAATGGCTTTGTGTCGCTACTGATGG
1 CTTTGTGCCACTATTAATGGCTTTGTGTCGCTACTAATGG
* * * * *
17739316 CTTCGAGCCACTACTCATGACTTTGTG
1 CTTTGTGCCACTATTAATGGCTTTGTG
17739343 CCATATACGG
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 57 1.00
ACGTcount: A:0.15, C:0.21, G:0.24, T:0.39
Consensus pattern (40 bp):
CTTTGTGCCACTATTAATGGCTTTGTGTCGCTACTAATGG
Found at i:17741468 original size:40 final size:39
Alignment explanation
Indices: 17741365--17741541 Score: 207
Period size: 40 Copynumber: 4.5 Consensus size: 39
17741355 TGGATGATAA
*
17741365 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTATA-T
*
17741405 CCGGGCTAAG-CCCGAAGGCATTTGTCCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAT
* *
17741444 CCGGGCTAAGTCCCGAAAGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAT
* * *
17741484 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTAGTTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTA-CTATAT
* *
17741524 CC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
17741542 TACTTGGTTT
Statistics
Matches: 120, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
39 49 0.41
40 71 0.59
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATAT
Found at i:17741539 original size:79 final size:79
Alignment explanation
Indices: 17741365--17741531 Score: 214
Period size: 79 Copynumber: 2.1 Consensus size: 79
17741355 TGGATGATAA
* * * *
17741365 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCATTTGT
1 CCGGGCTAAGTCCCGAAAGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCATTTGA
*
17741430 CCGAGCTACTATAT
66 CCAAGCTACTATAT
*
17741444 CCGGGCTAAGTCCCGAAAGCATTTGTGCGAGTTACT-ATAACCGGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAAGCATTTGTGCGAGTGACTAAT-ACCGGGCTAAG-CCCGAAGGCATTT
* *
17741508 GAGCAAG-TAGTTATAT
64 GACCAAGCTA-CTATAT
17741524 CC-GGCTAA
1 CCGGGCTAA
17741532 ATTCCGAAGG
Statistics
Matches: 77, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 51 0.66
80 24 0.31
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAAGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCATTTGA
CCAAGCTACTATAT
Found at i:17750409 original size:5 final size:5
Alignment explanation
Indices: 17750391--17750420 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
17750381 GGATTCAGTT
17750391 TTTTC TTCTTC TTTTC TTTTC TTTTC TTTT
1 TTTTC TT-TTC TTTTC TTTTC TTTTC TTTT
17750421 ATCTTCATCT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTC
Found at i:17756452 original size:28 final size:26
Alignment explanation
Indices: 17756419--17756470 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
17756409 TTTAACCACA
17756419 TATTTTCACATTTTCACAAATAAATCCC
1 TATTTT-ACATTTTCACAAA-AAATCCC
* *
17756447 TATTTTTCATTTTCACTAAAAATC
1 TATTTTACATTTTCACAAAAAATC
17756471 ACTTAACAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 5 0.23
27 11 0.50
28 6 0.27
ACGTcount: A:0.35, C:0.21, G:0.00, T:0.44
Consensus pattern (26 bp):
TATTTTACATTTTCACAAAAAATCCC
Found at i:17760318 original size:56 final size:56
Alignment explanation
Indices: 17760232--17760351 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
17760222 ACAAGGGATG
17760232 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
17760288 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
17760344 ATGGGCAA
1 ATGGGCAA
17760352 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:17760440 original size:14 final size:16
Alignment explanation
Indices: 17760421--17760452 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
17760411 ATGCATGACC
17760421 AAAAAAAA-AA-AGAA
1 AAAAAAAAGAAGAGAA
17760435 AAAAAAAAGAAGAGAA
1 AAAAAAAAGAAGAGAA
17760451 AA
1 AA
17760453 GCTCTCATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 2 0.12
16 6 0.38
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (16 bp):
AAAAAAAAGAAGAGAA
Found at i:17761864 original size:47 final size:47
Alignment explanation
Indices: 17761810--17762493 Score: 937
Period size: 47 Copynumber: 14.6 Consensus size: 47
17761800 TATTTGAATA
*
17761810 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
17761857 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
17761906 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
17761955 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
17762002 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
17762049 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
17762098 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
17762145 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGA--
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
17762192 ACA--T----GTG--TATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 A-ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
17762232 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
17762279 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
17762326 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGTCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
17762373 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
17762420 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
17762467 GATGTGGAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
17762494 TCCCGAAGGG
Statistics
Matches: 597, Mismatches: 21, Indels: 38
0.91 0.03 0.06
Matches are distributed among these distances:
38 30 0.05
39 1 0.00
40 1 0.00
41 1 0.00
42 3 0.01
45 2 0.00
46 2 0.00
47 381 0.64
48 1 0.00
49 175 0.29
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:17765315 original size:27 final size:27
Alignment explanation
Indices: 17765284--17765359 Score: 100
Period size: 27 Copynumber: 2.8 Consensus size: 27
17765274 ATAAATACCT
17765284 CACATAAGGGC-AAATGAGTCATCTCAC
1 CACATAAGGGCAAAAT-AGTCATCTCAC
* *
17765311 CACATAAGGGCAAAATAGTCATTTTAC
1 CACATAAGGGCAAAATAGTCATCTCAC
* *
17765338 CATATAAGGGTAAAATAGTCAT
1 CACATAAGGGCAAAATAGTCAT
17765360 TTTATCAATT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
27 40 0.91
28 4 0.09
ACGTcount: A:0.41, C:0.18, G:0.17, T:0.24
Consensus pattern (27 bp):
CACATAAGGGCAAAATAGTCATCTCAC
Found at i:17776756 original size:35 final size:35
Alignment explanation
Indices: 17776690--17776756 Score: 84
Period size: 35 Copynumber: 1.9 Consensus size: 35
17776680 TAACATAATT
*
17776690 GATACATAACAACCATACCATTTTTGCCATTTAAA
1 GATACATAACAACCATACCATTTTGGCCATTTAAA
*
17776725 GATACATTAA-AA-CATACCAATTTTGGTCATTT
1 GATACA-TAACAACCATACC-ATTTTGGCCATTT
17776757 CAAAAAAACA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
34 6 0.21
35 19 0.68
36 3 0.11
ACGTcount: A:0.39, C:0.19, G:0.07, T:0.34
Consensus pattern (35 bp):
GATACATAACAACCATACCATTTTGGCCATTTAAA
Found at i:17782945 original size:33 final size:33
Alignment explanation
Indices: 17782903--17782965 Score: 126
Period size: 33 Copynumber: 1.9 Consensus size: 33
17782893 GACTTACGAC
17782903 TTAGTATGCATTCGCTGGTTTAAGTGATTGTGG
1 TTAGTATGCATTCGCTGGTTTAAGTGATTGTGG
17782936 TTAGTATGCATTCGCTGGTTTAAGTGATTG
1 TTAGTATGCATTCGCTGGTTTAAGTGATTG
17782966 GGGTGGTCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.19, C:0.10, G:0.29, T:0.43
Consensus pattern (33 bp):
TTAGTATGCATTCGCTGGTTTAAGTGATTGTGG
Found at i:17783675 original size:33 final size:32
Alignment explanation
Indices: 17783613--17783676 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
17783603 AGGAAGTCAC
* * *
17783613 CAGATATAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATAGATATTGTGCCGAAGCCACCAGAA
*
17783645 CAGATATATATATATGTGCCGAAGCCACCAGA
1 CAGATATAGATAT-TGTGCCGAAGCCACCAGA
17783677 TTGCAGCGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 12 0.44
33 15 0.56
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.22
Consensus pattern (32 bp):
CAGATATAGATATTGTGCCGAAGCCACCAGAA
Found at i:17784425 original size:27 final size:27
Alignment explanation
Indices: 17784395--17784513 Score: 166
Period size: 27 Copynumber: 4.4 Consensus size: 27
17784385 GGGGCAAAAT
* * *
17784395 GGTAATTTTACCCCACAGGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
17784422 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
17784449 AGTATTTCTACCTTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
17784476 GGTAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
17784503 GGTAATTCTAC
1 GGTAATTCTAC
17784514 AACTTATCCA
Statistics
Matches: 79, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 79 1.00
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:17785688 original size:6 final size:6
Alignment explanation
Indices: 17785670--17785757 Score: 74
Period size: 6 Copynumber: 14.3 Consensus size: 6
17785660 AAGAAACATT
* *
17785670 ATCAGA A-CTAGA ATCAGA ATTAGA ATCAGA ATCAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* *
17785719 ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
17785758 GTGAATGCAA
Statistics
Matches: 66, Mismatches: 8, Indels: 16
0.73 0.09 0.18
Matches are distributed among these distances:
5 4 0.06
6 53 0.80
7 7 0.11
8 2 0.03
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:17785717 original size:31 final size:31
Alignment explanation
Indices: 17785679--17785757 Score: 122
Period size: 31 Copynumber: 2.5 Consensus size: 31
17785669 TATCAGAACT
* *
17785679 AGAATCAGAATTAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
*
17785710 AGAATCAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
*
17785741 AGAATCAAAATCAGAAT
1 AGAATCAGAATCAGAAT
17785758 GTGAATGCAA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.19
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGAATCAGGTAAC
Found at i:17785747 original size:25 final size:24
Alignment explanation
Indices: 17785684--17785730 Score: 76
Period size: 25 Copynumber: 1.9 Consensus size: 24
17785674 GAACTAGAAT
*
17785684 CAGAATTAGAATCAGAATCAGGTGA
1 CAGAATCAGAATCAGAATCA-GTGA
17785709 CAGAATCAGAATCAGAATCAGT
1 CAGAATCAGAATCAGAATCAGT
17785731 ATCAGGTAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 2 0.10
25 19 0.90
ACGTcount: A:0.45, C:0.15, G:0.21, T:0.19
Consensus pattern (24 bp):
CAGAATCAGAATCAGAATCAGTGA
Found at i:17786309 original size:81 final size:81
Alignment explanation
Indices: 17786154--17786321 Score: 237
Period size: 81 Copynumber: 2.1 Consensus size: 81
17786144 GGCAAAATGG
* *
17786154 TAATTTTACCCCACAAGGGTATCTCAGTAATTCTACCCTACAAGGGTATTTCGATATTTATACCT
1 TAATTTTACCCCACAAGGGTATCTCAGTAATTCTACCCTACAAGGGTATTTCGATAATTATACCC
17786219 TACAAGGGTATTTCGA
66 TACAAGGGTATTTCGA
* * * * *
17786235 TAATTTTACCCTATAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCC
1 TAATTTTACCCCACAAGGGTATCTCAGTAATTCTACCCTACAAGGGTATTTCGATAATTATACCC
* * * *
17786300 TAGAGGGGTATTTTGG
66 TACAAGGGTATTTCGA
17786316 TAATTT
1 TAATTT
17786322 CACAAATTAG
Statistics
Matches: 76, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 76 1.00
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.37
Consensus pattern (81 bp):
TAATTTTACCCCACAAGGGTATCTCAGTAATTCTACCCTACAAGGGTATTTCGATAATTATACCC
TACAAGGGTATTTCGA
Found at i:17786317 original size:27 final size:27
Alignment explanation
Indices: 17786152--17786320 Score: 203
Period size: 27 Copynumber: 6.3 Consensus size: 27
17786142 GGGGCAAAAT
* * *
17786152 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
17786179 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
17786206 GATATTTATACCTTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
17786233 GATAATTTTACCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
17786260 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
17786287 GGTAATTCTACCCTAGAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
17786314 GGTAATT
1 GGTAATT
17786321 TCACAAATTA
Statistics
Matches: 121, Mismatches: 21, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 121 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:17786347 original size:81 final size:81
Alignment explanation
Indices: 17786168--17786339 Score: 211
Period size: 81 Copynumber: 2.1 Consensus size: 81
17786158 TTTACCCCAC
* * *
17786168 AAGGGTATCTCAGTAATTCTACCCTACAAGGGTATTTCGATATTTATACCTTACAAGGGTATTTC
1 AAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGATAATTATACCCTACAAGGGTATTTC
* **
17786233 GATAATTTTACCCTAT
66 GATAATTTCACAATAT
* * * * *
17786249 AAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTAGAGGGGTATTTT
1 AAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGATAATTATACCCTACAAGGGTATTTC
*
17786314 GGTAATTTCACAA-ATT
66 GATAATTTCACAATA-T
*
17786330 AGGGGTATTT
1 AAGGGTATTT
17786340 TGGTAATTTT
Statistics
Matches: 77, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
80 1 0.01
81 76 0.99
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (81 bp):
AAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGATAATTATACCCTACAAGGGTATTTC
GATAATTTCACAATAT
Found at i:17786362 original size:27 final size:27
Alignment explanation
Indices: 17786305--17786705 Score: 119
Period size: 27 Copynumber: 14.9 Consensus size: 27
17786295 TACCCTAGAG
*** * *
17786305 GGGTATTTTGGTAATTTCACAAATTAG
1 GGGTATTTTGGTAATTTTGTAAATCAA
*
17786332 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTGTAAATCAA
*** *
17786359 GGGTATTTCAATAATTTTGTAAATCGA
1 GGGTATTTTGGTAATTTTGTAAATCAA
*** *
17786386 GGGTAAAATGGTAATTATGTAAATCGAA
1 GGGTATTTTGGTAATTTTGTAAATC-AA
*** * *
17786414 -GGTAAAATGGTAATTCTGTAAATCGA
1 GGGTATTTTGGTAATTTTGTAAATCAA
***** * *
17786440 GGGTAAGACAGTAATTCTGTAAATCGA
1 GGGTATTTTGGTAATTTTGTAAATCAA
*** * * *
17786467 GGGTAAAATGGTAATTCTATAAATCGA
1 GGGTATTTTGGTAATTTTGTAAATCAA
**** *
17786494 GGGTAAAACGGTAATTCTGTAAATCAA
1 GGGTATTTTGGTAATTTTGTAAATCAA
*** * *
17786521 GGGTAAAATGGTAATTCTATCT-TA-C-A
1 GGGTATTTTGGTAATT-T-TGTAAATCAA
** ** *
17786547 GGAGTATTTCAGTAATTTTACAAATCGA
1 GG-GTATTTTGGTAATTTTGTAAATCAA
** * *
17786575 GGGTATTTCAGTAATTTTGCAAA-CTGA
1 GGGTATTTTGGTAATTTTGTAAATC-AA
* * ** *
17786602 GGGTATTTCGATAATTTTACAAATCGA
1 GGGTATTTTGGTAATTTTGTAAATCAA
* * * *
17786629 GGATATTTGGGTAATTTTATAAATCAG
1 GGGTATTTTGGTAATTTTGTAAATCAA
* * * *
17786656 GGGTACTTTGGTAATTTTATAAGTCGA
1 GGGTATTTTGGTAATTTTGTAAATCAA
** *
17786683 GGGTATTTCAGTAATTTGGTAAA
1 GGGTATTTTGGTAATTTTGTAAA
17786706 CTAAAGTATT
Statistics
Matches: 299, Mismatches: 65, Indels: 20
0.78 0.17 0.05
Matches are distributed among these distances:
25 1 0.00
26 7 0.02
27 283 0.95
28 6 0.02
29 2 0.01
ACGTcount: A:0.34, C:0.08, G:0.22, T:0.35
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTGTAAATCAA
Found at i:17786425 original size:81 final size:81
Alignment explanation
Indices: 17786340--17786526 Score: 266
Period size: 81 Copynumber: 2.3 Consensus size: 81
17786330 AGGGGTATTT
* * *** * *
17786340 TGGTAATTTTGTAAACCAAGGGTATTTCAATAATTTTGTAAATCGAGGGTAAAATGGTAATTATG
1 TGGTAATTCTGTAAATCAAGGGTAAGACAATAATTCTGTAAATCGAGGGTAAAATGGTAATTATA
17786405 TAAATCGAAGGTAAAA
66 TAAATCGAAGGTAAAA
* * *
17786421 TGGTAATTCTGTAAATCGAGGGTAAGACAGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTA
1 TGGTAATTCTGTAAATCAAGGGTAAGACAATAATTCTGTAAATCGAGGGTAAAATGGTAATTATA
*
17786486 TAAATCGAGGGTAAAA
66 TAAATCGAAGGTAAAA
*
17786502 CGGTAATTCTGTAAATCAAGGGTAA
1 TGGTAATTCTGTAAATCAAGGGTAA
17786527 AATGGTAATT
Statistics
Matches: 93, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 93 1.00
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.30
Consensus pattern (81 bp):
TGGTAATTCTGTAAATCAAGGGTAAGACAATAATTCTGTAAATCGAGGGTAAAATGGTAATTATA
TAAATCGAAGGTAAAA
Found at i:17786428 original size:54 final size:54
Alignment explanation
Indices: 17786370--17786538 Score: 259
Period size: 54 Copynumber: 3.1 Consensus size: 54
17786360 GGTATTTCAA
* * *
17786370 TAATTTTGTAAATCGAGGGTAAAATGGTAATTATGTAAATCGAAGGTAAAATGG
1 TAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAAGGTAAAATGG
* * *
17786424 TAATTCTGTAAATCGAGGGTAAGACAGTAATTCTGTAAATCGAGGGTAAAATGG
1 TAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAAGGTAAAATGG
*
17786478 TAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATC-AAGGGTAAAATGG
1 TAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAA-GGTAAAATGG
17786532 TAATTCT
1 TAATTCT
17786539 ATCTTACAGG
Statistics
Matches: 104, Mismatches: 10, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
53 1 0.01
54 103 0.99
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.30
Consensus pattern (54 bp):
TAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAAGGTAAAATGG
Found at i:17786589 original size:54 final size:51
Alignment explanation
Indices: 17786544--17786699 Score: 154
Period size: 54 Copynumber: 2.9 Consensus size: 51
17786534 ATTCTATCTT
17786544 ACAGGAGTATTTCAGTAATTTTACAAATCGAGGGTATTTCAGTAATTT-TGCAA
1 ACAGG-GTATTTC-GTAATTTTACAAATCGAGGGTATTTCAGTAATTTAT-CAA
* **
17786597 ACTGAGGGTATTTCGATAATTTTACAAATCGAGGATATTTGGGTAATTTTAT-AA
1 AC--AGGGTATTTCG-TAATTTTACAAATCGAGGGTATTTCAGTAA-TTTATCAA
* * *
17786651 ATCAGGGGTACTTTGGTAATTTTATAAGTCGAGGGTATTTCAGTAATTT
1 A-CA-GGGTA-TTTCGTAATTTTACAAATCGAGGGTATTTCAGTAATTT
17786700 GGTAAACTAA
Statistics
Matches: 86, Mismatches: 9, Indels: 16
0.77 0.08 0.14
Matches are distributed among these distances:
53 7 0.08
54 67 0.78
55 11 0.13
56 1 0.01
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.38
Consensus pattern (51 bp):
ACAGGGTATTTCGTAATTTTACAAATCGAGGGTATTTCAGTAATTTATCAA
Found at i:17790611 original size:27 final size:27
Alignment explanation
Indices: 17790580--17790725 Score: 166
Period size: 27 Copynumber: 5.4 Consensus size: 27
17790570 TAAGACCCCG
* * *
17790580 ATTTGTGAAATTATTGAAATACCCCTG
1 ATTTGTAAAATTACTGAAATACCCCTA
* *
17790607 ATTTGTGAAATTACTGAAATACTCCTA
1 ATTTGTAAAATTACTGAAATACCCCTA
** * *
17790634 GGTTGTAAAATTACTGAAATACCCTTT
1 ATTTGTAAAATTACTGAAATACCCCTA
* * *
17790661 ATTTGTGAAATTACCGAAATACCCCCA
1 ATTTGTAAAATTACTGAAATACCCCTA
**
17790688 ATTTGTAAAATTACCAAAATACCCCTA
1 ATTTGTAAAATTACTGAAATACCCCTA
17790715 ATTTGTAAAAT
1 ATTTGTAAAAT
17790726 GACCATAATA
Statistics
Matches: 100, Mismatches: 19, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 100 1.00
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.34
Consensus pattern (27 bp):
ATTTGTAAAATTACTGAAATACCCCTA
Found at i:17790735 original size:27 final size:26
Alignment explanation
Indices: 17790596--17790740 Score: 128
Period size: 27 Copynumber: 5.4 Consensus size: 26
17790586 GAAATTATTG
* * *
17790596 AAATACCCCTGATTTGTGAAATTACTG
1 AAATACCCCTAATTTGTAAAATTAC-C
* ** *
17790623 AAATACTCCTAGGTTGTAAAATTACTG
1 AAATACCCCTAATTTGTAAAATTAC-C
* * *
17790650 AAATACCCTTTATTTGTGAAATTACC
1 AAATACCCCTAATTTGTAAAATTACC
*
17790676 GAAATACCCCCAATTTGTAAAATTACC
1 -AAATACCCCTAATTTGTAAAATTACC
*
17790703 AAAATACCCCTAATTTGTAAAATGACC
1 -AAATACCCCTAATTTGTAAAATTACC
*
17790730 ATAATATCCCT
1 A-AATACCCCT
17790741 GTAGGGTAAA
Statistics
Matches: 96, Mismatches: 20, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
26 1 0.01
27 95 0.99
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.32
Consensus pattern (26 bp):
AAATACCCCTAATTTGTAAAATTACC
Found at i:17790749 original size:27 final size:27
Alignment explanation
Indices: 17790719--17790836 Score: 146
Period size: 27 Copynumber: 4.4 Consensus size: 27
17790709 CCCCTAATTT
* * *
17790719 GTAAAATGACCATAATATCCCTGTAGG
1 GTAAAATGACCGTAATACCCCTATAGG
**
17790746 GTAAAATGGTCGTAATACCCCTATAGG
1 GTAAAATGACCGTAATACCCCTATAGG
17790773 GTAAAATGACCGTAATACCCCTATAGG
1 GTAAAATGACCGTAATACCCCTATAGG
** * *
17790800 GTAAAATGATTGTAATACCCCTGTATG
1 GTAAAATGACCGTAATACCCCTATAGG
*
17790827 GTAGAATGAC
1 GTAAAATGAC
17790837 GATTATGCCC
Statistics
Matches: 78, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 78 1.00
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (27 bp):
GTAAAATGACCGTAATACCCCTATAGG
Found at i:17790750 original size:54 final size:54
Alignment explanation
Indices: 17790692--17790808 Score: 128
Period size: 54 Copynumber: 2.2 Consensus size: 54
17790682 CCCCCAATTT
* ** * *
17790692 GTAAAATTACCAAAATACCCCTA-ATTTGTAAAATGACCATAATATCCCTGTAGG
1 GTAAAATGACCAAAATACCCCTATA-GGGTAAAATGACCATAATACCCCTATAGG
** ** *
17790746 GTAAAATGGTCGTAATACCCCTATAGGGTAAAATGACCGTAATACCCCTATAGG
1 GTAAAATGACCAAAATACCCCTATAGGGTAAAATGACCATAATACCCCTATAGG
17790800 GTAAAATGA
1 GTAAAATGA
17790809 TTGTAATACC
Statistics
Matches: 51, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
54 50 0.98
55 1 0.02
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.26
Consensus pattern (54 bp):
GTAAAATGACCAAAATACCCCTATAGGGTAAAATGACCATAATACCCCTATAGG
Found at i:17790815 original size:54 final size:54
Alignment explanation
Indices: 17790719--17790836 Score: 164
Period size: 54 Copynumber: 2.2 Consensus size: 54
17790709 CCCCTAATTT
* * *
17790719 GTAAAATGACCATAATATCCCTGTAGGGTAAAATGGTCGTAATACCCCTATAGG
1 GTAAAATGACCATAATACCCCTATAGGGTAAAATGATCGTAATACCCCTATAGG
* * * *
17790773 GTAAAATGACCGTAATACCCCTATAGGGTAAAATGATTGTAATACCCCTGTATG
1 GTAAAATGACCATAATACCCCTATAGGGTAAAATGATCGTAATACCCCTATAGG
*
17790827 GTAGAATGAC
1 GTAAAATGAC
17790837 GATTATGCCC
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 56 1.00
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (54 bp):
GTAAAATGACCATAATACCCCTATAGGGTAAAATGATCGTAATACCCCTATAGG
Found at i:17791249 original size:27 final size:27
Alignment explanation
Indices: 17791190--17791250 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 27
17791180 CACGGTACTG
17791190 ATACTGTAATGGGCTTAAGCCCACACT
1 ATACTGTAATGGGCTTAAGCCCACACT
*
17791217 ATTACTGT-ATAGGGC-TAAGGCCCAGACT
1 A-TACTGTAAT-GGGCTTAA-GCCCACACT
17791245 ATACTG
1 ATACTG
17791251 ATACTGAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
27 11 0.37
28 19 0.63
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (27 bp):
ATACTGTAATGGGCTTAAGCCCACACT
Found at i:17795328 original size:47 final size:47
Alignment explanation
Indices: 17795277--17795452 Score: 228
Period size: 47 Copynumber: 3.7 Consensus size: 47
17795267 TTAAGATTCT
* *
17795277 ATGTGATGGATGTGAACA-TGCATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
*
17795324 ATGTGATGAATATGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
17795371 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* ** *
17795418 ACGTGATGGGTGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
17795453 TCCCGAAGGG
Statistics
Matches: 113, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
46 1 0.01
47 112 0.99
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:17795627 original size:37 final size:37
Alignment explanation
Indices: 17795571--17795649 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
17795561 CCGAGCTCTA
* * *
17795571 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
17795608 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
17795645 AAGAC
1 AAGAC
17795650 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:17797723 original size:100 final size:100
Alignment explanation
Indices: 17797609--17797796 Score: 331
Period size: 100 Copynumber: 1.9 Consensus size: 100
17797599 GAAGCTATCT
* ***
17797609 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCTGGTCCTTGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCTGGTACACATAGTAGCC
17797674 TGCACTTAGTACTACACACGTGATCATAGTTTTCG
66 TGCACTTAGTACTACACACGTGATCATAGTTTTCG
*
17797709 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACACATAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCTGGTACACATAGTAGCC
17797774 TGCACTTAGTACTACACACGTGA
66 TGCACTTAGTACTACACACGTGA
17797797 CCTCACAATA
Statistics
Matches: 83, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
100 83 1.00
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.27
Consensus pattern (100 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCTGGTACACATAGTAGCC
TGCACTTAGTACTACACACGTGATCATAGTTTTCG
Found at i:17797742 original size:51 final size:49
Alignment explanation
Indices: 17797604--17797798 Score: 255
Period size: 49 Copynumber: 3.9 Consensus size: 49
17797594 TAGCCGAAGC
*
17797604 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* * *** * *
17797653 AATCTGGTCCTTGTAGTAGCCTGCACTTAGTACTACACACGTGATCATAGT
1 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACCA-A-T
* * *
17797704 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* *
17797753 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACC
17797799 TCACAATAGT
Statistics
Matches: 121, Mismatches: 23, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
49 81 0.67
50 2 0.02
51 38 0.31
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (49 bp):
TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
Found at i:17805241 original size:27 final size:27
Alignment explanation
Indices: 17805207--17805276 Score: 88
Period size: 27 Copynumber: 2.6 Consensus size: 27
17805197 GTCATCTGAG
* * *
17805207 CATATAAGGGCAATATAGCCATTCTAC
1 CATATAAGGGCAAAACAACCATTCTAC
17805234 CACT-TAAGGGCAAAACAACCATTCTAC
1 CA-TATAAGGGCAAAACAACCATTCTAC
*
17805261 CATATAAGGGAAAAAC
1 CATATAAGGGCAAAAC
17805277 TGTCATTTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
26 1 0.03
27 35 0.95
28 1 0.03
ACGTcount: A:0.43, C:0.23, G:0.14, T:0.20
Consensus pattern (27 bp):
CATATAAGGGCAAAACAACCATTCTAC
Found at i:17805317 original size:27 final size:27
Alignment explanation
Indices: 17805226--17805324 Score: 108
Period size: 27 Copynumber: 3.7 Consensus size: 27
17805216 GCAATATAGC
* * * ***
17805226 CATTCTACCACTTAAGGGCAAAACAAC
1 CATTTTACCACATAAGGGAAAAACTGT
* *
17805253 CATTCTACCATATAAGGGAAAAACTGT
1 CATTTTACCACATAAGGGAAAAACTGT
*
17805280 CATTTTACCACATAAGGGAAAAATTGT
1 CATTTTACCACATAAGGGAAAAACTGT
*
17805307 CATTTTACCACACAAGGG
1 CATTTTACCACATAAGGG
17805325 CTGTAACAGC
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 62 1.00
ACGTcount: A:0.39, C:0.22, G:0.14, T:0.24
Consensus pattern (27 bp):
CATTTTACCACATAAGGGAAAAACTGT
Found at i:17806183 original size:30 final size:30
Alignment explanation
Indices: 17806149--17806206 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
17806139 TTTTTGGGCA
* * *
17806149 TAGGGGTAAAATAGTTATTTTGCCAAAGTT
1 TAGGGGCAAAATAGTCATTTTACCAAAGTT
*
17806179 TAGGGGCAAAATGGTCATTTTACCAAAG
1 TAGGGGCAAAATAGTCATTTTACCAAAG
17806207 ATGTAAATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.34, C:0.10, G:0.24, T:0.31
Consensus pattern (30 bp):
TAGGGGCAAAATAGTCATTTTACCAAAGTT
Found at i:17807644 original size:27 final size:27
Alignment explanation
Indices: 17807621--17807817 Score: 241
Period size: 27 Copynumber: 7.3 Consensus size: 27
17807611 GAGTACCCCC
* **
17807621 GATTTACAAAATTACCGTTTTACCCCC
1 GATTTACAGAATTACCGTTTTACCCTT
* *
17807648 GATTTACATAATTACCGTTTTACCCCT
1 GATTTACAGAATTACCGTTTTACCCTT
* * *
17807675 GATTTACATAATTATCGTTTTACCATT
1 GATTTACAGAATTACCGTTTTACCCTT
* *
17807702 GACTTATAGAATTACCGTTTTACCCTT
1 GATTTACAGAATTACCGTTTTACCCTT
* *
17807729 GATTTACAGAAGTACTGTTTTACCCTT
1 GATTTACAGAATTACCGTTTTACCCTT
* **
17807756 GATTTATAGAATTACTATTTTACCCTT
1 GATTTACAGAATTACCGTTTTACCCTT
* *
17807783 GATTTACAGAATTACTGTTTTACCCTC
1 GATTTACAGAATTACCGTTTTACCCTT
17807810 GATTTACA
1 GATTTACA
17807818 AAATCACTAA
Statistics
Matches: 150, Mismatches: 20, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 150 1.00
ACGTcount: A:0.28, C:0.21, G:0.10, T:0.42
Consensus pattern (27 bp):
GATTTACAGAATTACCGTTTTACCCTT
Found at i:17807833 original size:27 final size:27
Alignment explanation
Indices: 17807749--17808077 Score: 141
Period size: 27 Copynumber: 12.1 Consensus size: 27
17807739 AGTACTGTTT
* * ***
17807749 TACCCTTGATTTATAGAATTACTATTT
1 TACCCTCGATTTATAAAATTACTAAAA
* * * ****
17807776 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTATAAAATTACTAAAA
* *
17807803 TACCCTCGATTTACAAAATCACTAAAA
1 TACCCTCGATTTATAAAATTACTAAAA
* * *
17807830 TACCCTAG-TCTGTAAAATTACTAAAA
1 TACCCTCGATTTATAAAATTACTAAAA
* * * *
17807856 TACCATTGGTTTGTAAAATTAC-AGAAA
1 TACCCTCGATTTATAAAATTACTA-AAA
* *
17807883 TACCCTCAATTTATAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACTAAAA
* * *
17807910 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTATAAAATTACTAAAA
* * * **
17807937 TACCACT-GGTTTGTGAAATTACCGAAA
1 TACC-CTCGATTTATAAAATTACTAAAA
* * *
17807964 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACTAAAA
* *
17807991 TACCC-CTGATTTACAAAGTTAC-AGAAA
1 TACCCTC-GATTTATAAAATTACTA-AAA
* * *
17808018 TACCCTTGACTTTTTAAAAATTA-TGGAAA
1 TACCCTCGA-TTTAT-AAAATTACT-AAAA
* * * * *
17808047 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTCGATTTATAAAATTACTAAAA
17808074 TACC
1 TACC
17808078 TTTGGTTTGC
Statistics
Matches: 242, Mismatches: 45, Indels: 30
0.76 0.14 0.09
Matches are distributed among these distances:
26 27 0.11
27 190 0.79
28 9 0.04
29 16 0.07
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.33
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACTAAAA
Found at i:17807834 original size:54 final size:54
Alignment explanation
Indices: 17807722--17807835 Score: 156
Period size: 54 Copynumber: 2.1 Consensus size: 54
17807712 ATTACCGTTT
* * * * ***
17807722 TACCCTTGATTTACAGAAGTACTGTTTTACCCTTGATTTATAGAATTACTATTT
1 TACCCTTGATTTACAGAAGTACTGTTTTACCCTCGATTTACAAAATCACTAAAA
*
17807776 TACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATCACTAAAA
1 TACCCTTGATTTACAGAAGTACTGTTTTACCCTCGATTTACAAAATCACTAAAA
17807830 TACCCT
1 TACCCT
17807836 AGTCTGTAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.31, C:0.21, G:0.09, T:0.39
Consensus pattern (54 bp):
TACCCTTGATTTACAGAAGTACTGTTTTACCCTCGATTTACAAAATCACTAAAA
Found at i:17807947 original size:81 final size:81
Alignment explanation
Indices: 17807803--17807997 Score: 293
Period size: 81 Copynumber: 2.4 Consensus size: 81
17807793 ATTACTGTTT
* * * * * *
17807803 TACCCTCGATTTACAAAATCACTAAAATA-CCCTAGTCTGTAAAATTACTAAAATACCATTGGTT
1 TACCCTCAATTTATAAAATTACCAAAATACCCCTAGTCTGTAAAATTACCAAAATACCACTGGTT
17807867 TGTAAAATTACAGAAA
66 TGTAAAATTACAGAAA
*
17807883 TACCCTCAATTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCACTGGTT
1 TACCCTCAATTTATAAAATTACCAAAATACCCCTAGTCTGTAAAATTACCAAAATACCACTGGTT
* *
17807948 TGTGAAATTACCGAAA
66 TGTAAAATTACAGAAA
*
17807964 TACCCTCAATTTGTAAAATTACCAAAATACCCCT
1 TACCCTCAATTTATAAAATTACCAAAATACCCCT
17807998 GATTTACAAA
Statistics
Matches: 104, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
80 25 0.24
81 79 0.76
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.30
Consensus pattern (81 bp):
TACCCTCAATTTATAAAATTACCAAAATACCCCTAGTCTGTAAAATTACCAAAATACCACTGGTT
TGTAAAATTACAGAAA
Found at i:17807956 original size:54 final size:53
Alignment explanation
Indices: 17807817--17807995 Score: 191
Period size: 54 Copynumber: 3.3 Consensus size: 53
17807807 CTCGATTTAC
* * * * ** *
17807817 AAAATCACTAAAATACCCTAGTCTGTAAAATTACTAAAATACCATTGGTTTGT
1 AAAATTACCAAAATACCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGT
* *
17807870 AAAATTA-CAGAAATACCCTCAATTTATAAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCA-AAATACCCT-AGTTTGTAAAATTACCAAAATACCCCTAGTTTGT
* * * *
17807924 AAAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAATA-CCCTCAATTTGT
1 AAAATTACCAAAATACC-CTAGTTTGTAAAATTACCAAAATACCCCT-AGTTTGT
17807978 AAAATTACCAAAATACCC
1 AAAATTACCAAAATACCC
17807996 CTGATTTACA
Statistics
Matches: 106, Mismatches: 15, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
52 1 0.01
53 20 0.19
54 81 0.76
55 4 0.04
ACGTcount: A:0.43, C:0.20, G:0.08, T:0.29
Consensus pattern (53 bp):
AAAATTACCAAAATACCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGT
Found at i:17808018 original size:54 final size:54
Alignment explanation
Indices: 17807865--17808023 Score: 157
Period size: 54 Copynumber: 2.9 Consensus size: 54
17807855 ATACCATTGG
* * *
17807865 TTTGTAAAATTA-CAGAAATA-CCCTCAATTTATAAAATTACCA-AAATACCC-CTAG
1 TTTGTAAAATTACCA-AAATACCCCT-GATTTA-CAAATTA-CAGAAATACCCTCTAA
* * ** *
17807919 TTTGTAAAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAATACCCTC-AA
1 TTTGTAAAATTACCAAAATACCCCTGATTT-ACAAATTACAGAAATACCCTCTAA
17807973 TTTGTAAAATTACCAAAATACCCCTGATTTACAAAGTTACAGAAATACCCT
1 TTTGTAAAATTACCAAAATACCCCTGATTTACAAA-TTACAGAAATACCCT
17808024 TGACTTTTTA
Statistics
Matches: 87, Mismatches: 12, Indels: 12
0.78 0.11 0.11
Matches are distributed among these distances:
53 4 0.05
54 77 0.89
55 6 0.07
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.30
Consensus pattern (54 bp):
TTTGTAAAATTACCAAAATACCCCTGATTTACAAATTACAGAAATACCCTCTAA
Done.