Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 79 of 161
Found at i:24795958 original size:20 final size:20
Alignment explanation
Indices: 24795933--24795978 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
24795923 CTAACTTAGT
24795933 TCAGCTCACTCGAGCTCAAG
1 TCAGCTCACTCGAGCTCAAG
* *
24795953 TCAGCTCATTCGAGCTCAAT
1 TCAGCTCACTCGAGCTCAAG
24795973 TCAGCT
1 TCAGCT
24795979 TAATCTTAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.24, C:0.33, G:0.17, T:0.26
Consensus pattern (20 bp):
TCAGCTCACTCGAGCTCAAG
Found at i:24796863 original size:33 final size:34
Alignment explanation
Indices: 24796826--24796897 Score: 110
Period size: 33 Copynumber: 2.1 Consensus size: 34
24796816 GAGTTAGTTT
24796826 ATTAAATTTAGTTCAACTCAAATAAGTGTTAG-A
1 ATTAAATTTAGTTCAACTCAAATAAGTGTTAGTA
* * *
24796859 ATTAATTTTAGTTCAGCTTAAATAAGTGTTAGTA
1 ATTAAATTTAGTTCAACTCAAATAAGTGTTAGTA
24796893 ATTAA
1 ATTAA
24796898 TTTGTTTAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
33 29 0.83
34 6 0.17
ACGTcount: A:0.40, C:0.07, G:0.12, T:0.40
Consensus pattern (34 bp):
ATTAAATTTAGTTCAACTCAAATAAGTGTTAGTA
Found at i:24801618 original size:16 final size:17
Alignment explanation
Indices: 24801597--24801630 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
24801587 AGGAATCACC
*
24801597 TTTTTGT-TTTTGTTTT
1 TTTTTGTATTTTCTTTT
24801613 TTTTTGTATTTTCTTTT
1 TTTTTGTATTTTCTTTT
24801630 T
1 T
24801631 AAAATCTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.03, C:0.03, G:0.09, T:0.85
Consensus pattern (17 bp):
TTTTTGTATTTTCTTTT
Found at i:24801994 original size:16 final size:16
Alignment explanation
Indices: 24801962--24802001 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
24801952 GTTAATCGTG
24801962 TTGGGTTAGATTAGGT
1 TTGGGTTAGATTAGGT
*
24801978 TTGGGCTTA-ATTGGGT
1 TTGGG-TTAGATTAGGT
24801994 TTGGGTTA
1 TTGGGTTA
24802002 TAACCGAGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 3 0.14
16 16 0.73
17 3 0.14
ACGTcount: A:0.15, C:0.03, G:0.38, T:0.45
Consensus pattern (16 bp):
TTGGGTTAGATTAGGT
Found at i:24802800 original size:44 final size:43
Alignment explanation
Indices: 24802768--24802983 Score: 308
Period size: 44 Copynumber: 4.9 Consensus size: 43
24802758 ATGATCTGTA
* *
24802768 ATCTTCAACCTATTCCACTATTGTCCAGGGAGATAGGACTTACA
1 ATCTTCAACCTATTCCACTACTGTCCAGGGAGATAGGACTTA-G
* *
24802812 ATCATCAACCTATTCCACTACTATCCAGGGAGATAGGACTTATG
1 ATCTTCAACCTATTCCACTACTGTCCAGGGAGATAGGACTTA-G
24802856 ATCTTCAACCTATTCCACTACTGTCCAGGGAGATAGGACTTAAG
1 ATCTTCAACCTATTCCACTACTGTCCAGGGAGATAGGACTT-AG
* *
24802900 AT-TGTTAACCTATTTCACTACTGTCCAGGGAGATAGGACTTACG
1 ATCT-TCAACCTATTCCACTACTGTCCAGGGAGATAGGACTTA-G
* *
24802944 ATCTTTAACCTATACCACTACTGTCCAGGGAGATAGGACT
1 ATCTTCAACCTATTCCACTACTGTCCAGGGAGATAGGACT
24802984 AGTGGCTTAA
Statistics
Matches: 157, Mismatches: 11, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
43 2 0.01
44 153 0.97
45 2 0.01
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.29
Consensus pattern (43 bp):
ATCTTCAACCTATTCCACTACTGTCCAGGGAGATAGGACTTAG
Found at i:24803022 original size:88 final size:85
Alignment explanation
Indices: 24802768--24803011 Score: 276
Period size: 88 Copynumber: 2.8 Consensus size: 85
24802758 ATGATCTGTA
* ** * *
24802768 ATCTTCAACCTATTCCACTATTGTCCAGGGAGATAGGACTTACAATCATCAACCTATTCCACTAC
1 ATCTTCAACCTATTCCACTACTGTCCAGGGAGATAGGACTTAGTAGC-TTAACCTATTCC-CTAC
*
24802833 TATCCAGGGAGATAGGACTTATG
64 TA-CCAGGGAGATAGGACTTACG
* *
24802856 ATCTTCAACCTATTCCACTACTGTCCAGGGAGATAGGACTTAAGATTG-TTAACCTATTTCACTA
1 ATCTTCAACCTATTCCACTACTGTCCAGGGAGATAGGACTT-AG-TAGCTTAACCTA-TTCCCTA
*
24802920 CTGTCCAGGGAGATAGGACTTACG
63 CT-ACCAGGGAGATAGGACTTACG
* * * *
24802944 ATCTTTAACCTATACCACTACTGTCCAGGGAGATAGGAC-TAGTGGCTTAAACCTGCTTCCCTAC
1 ATCTTCAACCTATTCCACTACTGTCCAGGGAGATAGGACTTAGTAGCTT-AACCT-ATTCCCTAC
24803008 TACC
64 TACC
24803012 TGTGGAAGAT
Statistics
Matches: 134, Mismatches: 15, Indels: 16
0.81 0.09 0.10
Matches are distributed among these distances:
85 2 0.01
86 6 0.04
87 14 0.10
88 108 0.81
89 4 0.03
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (85 bp):
ATCTTCAACCTATTCCACTACTGTCCAGGGAGATAGGACTTAGTAGCTTAACCTATTCCCTACTA
CCAGGGAGATAGGACTTACG
Found at i:24803174 original size:88 final size:87
Alignment explanation
Indices: 24803066--24804223 Score: 1306
Period size: 88 Copynumber: 13.2 Consensus size: 87
24803056 TTAGGGAGAT
* * * *
24803066 AAGATCTG-TAATTTTTAACCTGCTCCGCTGTAACCGAGGGAGGCAAGGCTGGGGTCTTCAATCT
1 AAGATCTGCT-ATTTTCAACCTGCTCCGCTGCAACC-AGGGAGGCAAGGCTGGTGTCTTCGATCT
* * * * * *
24803130 ACTTAACTATCACTACAGGAAGGA
64 GCTTCACTGTCAGTGCAGGAAGGC
* * * *
24803154 AAGATCTGCTATCTTCAACCTGCTCCACTGCAATCCAGGGAGGCAAGGCTAGCGTCTTCGATCTG
1 AAGATCTGCTATTTTCAACCTGCTCCGCTGCAA-CCAGGGAGGCAAGGCTGGTGTCTTCGATCTG
* * *
24803219 CTTCGCTATCGGTGCAGGAAGGC
65 CTTCACTGTCAGTGCAGGAAGGC
* * * * *
24803242 AAAATCTACTATTTTAAACCTGCTCCGCTGCAACCCAAGGAGG-ATAGGCTAGTGTCTTCGATCT
1 AAGATCTGCTATTTTCAACCTGCTCCGCTGCAA-CCAGGGAGGCA-AGGCTGGTGTCTTCGATCT
* *
24803306 GCTTCGCTGTCGGTGCAGGAAGGC
64 GCTTCACTGTCAGTGCAGGAAGGC
* *
24803330 AAGATATACTATTTTCAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCT-GTGTCTTCGATCTG
1 AAGATCTGCTATTTTCAACCTGCTCCGCTGCAA-CCAGGGAGGCAAGGCTGGTGTCTTCGATCTG
*
24803394 CTTCACTGTCGGTGCAGGAAGGC
65 CTTCACTGTCAGTGCAGGAAGGC
* * *
24803417 AAGATCTACTATTTTCAACCTGCTCCGCTGTAATCCAGGGAGGCAAGGCTGGTGTCTTTGATCTG
1 AAGATCTGCTATTTTCAACCTGCTCCGCTGCAA-CCAGGGAGGCAAGGCTGGTGTCTTCGATCTG
*** *
24803482 CTTTGTTGTCGGTGCAGGAAGGC
65 CTTCACTGTCAGTGCAGGAAGGC
* * * *
24803505 AAGATCTGCTATTTTCAACCTGCTCCGCTGCAGCCCAGGAAGGCAAGGCTGGTGTCTTTGATCAG
1 AAGATCTGCTATTTTCAACCTGCTCCGCTGCA-ACCAGGGAGGCAAGGCTGGTGTCTTCGATCTG
* *
24803570 CTTCGCTATC-GATGCAGGAAGGC
65 CTTCACTGTCAG-TGCAGGAAGGC
* *
24803593 AAGATCTGCTATTTTCAACCTGCTCTGCTACAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTG
1 AAGATCTGCTATTTTCAACCTGCTCCGCTGCAA-CCAGGGAGGCAAGGCTGGTGTCTTCGATCTG
* * *
24803658 CTTCGCTGTCATTACAGGAAGGC
65 CTTCACTGTCAGTGCAGGAAGGC
** * *
24803681 AAGATCTGCTATTTTCAACCTGCTCTACTGCAACCTAGGGAGGCAAGTCTGGTGTCTTCGATCTA
1 AAGATCTGCTATTTTCAACCTGCTCCGCTGCAACC-AGGGAGGCAAGGCTGGTGTCTTCGATCTG
* *
24803746 CTTAACTGTCAGTACAGGAAGGC
65 CTTCACTGTCAGTGCAGGAAGGC
* * *
24803769 AAGATCTGCTATCTTCAACCTGCTCCACTGCAATCCAGGGAGGCAAGGTTGGTGTCTTCGATCTG
1 AAGATCTGCTATTTTCAACCTGCTCCGCTGCAA-CCAGGGAGGCAAGGCTGGTGTCTTCGATCTG
* *
24803834 CTTC-GTCGTCGGTGCAGGAAGGC
65 CTTCACT-GTCAGTGCAGGAAGGC
* * *
24803857 AAGATCTGCTATTTTCAACCTGCTCCGCTGTAACCAGGGAGGCAAGTCTGGTGTCTTCGATCTTC
1 AAGATCTGCTATTTTCAACCTGCTCCGCTGCAACCAGGGAGGCAAGGCTGGTGTCTTCGATCTGC
* *
24803922 TTAACTGTCAGTACAGGAAGGC
66 TTCACTGTCAGTGCAGGAAGGC
* * * *
24803944 AAGATCTGCTATCTTT-AACCTACTCCACTACAATCTAGGGAGGCAAGGCTGGTGTCTTCGATCT
1 AAGATCTGCTAT-TTTCAACCTGCTCCGCTGCAA-CCAGGGAGGCAAGGCTGGTGTCTTCGATCT
*
24804008 GCTTCACTGTCAGTGCCGGAAGGC
64 GCTTCACTGTCAGTGCAGGAAGGC
* * * * * * * *
24804032 AAGATCTACTATTTTCAACCTGTTCCGCTGTAACCCACGGTGGCTAGGCTAGTATCTTCGATCTG
1 AAGATCTGCTATTTTCAACCTGCTCCGCTGCAA-CCAGGGAGGCAAGGCTGGTGTCTTCGATCTG
* * * **
24804097 CTTCGCTGTGAATGCAAAAAGGC
65 CTTCACTGTCAGTGCAGGAAGGC
* * * * * *
24804120 AATATTTGTTATCTTT-AACCTGCTCCGCTACAACCGAGGGAGGCAAGGCT-TTGTTTTCGATCT
1 AAGATCTGCTAT-TTTCAACCTGCTCCGCTGCAACC-AGGGAGGCAAGGCTGGTGTCTTCGATCT
* *
24804183 GCTTCGCTGTCAATGCAGGAAGGC
64 GCTTCACTGTCAGTGCAGGAAGGC
*
24804207 AAGATCTGCTATCTTCA
1 AAGATCTGCTATTTTCA
24804224 CTGATGTGTT
Statistics
Matches: 924, Mismatches: 127, Indels: 39
0.85 0.12 0.04
Matches are distributed among these distances:
86 2 0.00
87 204 0.22
88 709 0.77
89 9 0.01
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.27
Consensus pattern (87 bp):
AAGATCTGCTATTTTCAACCTGCTCCGCTGCAACCAGGGAGGCAAGGCTGGTGTCTTCGATCTGC
TTCACTGTCAGTGCAGGAAGGC
Found at i:24803438 original size:263 final size:264
Alignment explanation
Indices: 24803066--24804223 Score: 1438
Period size: 263 Copynumber: 4.4 Consensus size: 264
24803056 TTAGGGAGAT
* * * * *
24803066 AAGATCTG-TAATTTTTAACCTGCTCCGCTGTAACCGAGGGAGGCAAGGCTGGGGTCTTCAATCT
1 AAGATCTGCT-ATTTTCAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCT
* * * * * *
24803130 ACTTAACTATCACTACAGGAAGGAAAGATCTGCTATCTTCAACCTGCTCCACTGCAATCCAGGGA
65 GCTTCACTGTCAGTACAGGAAGGCAAGATCTGCTATTTTCAACCTGCTCCACTGCAATCCAGGGA
* * * * * * *
24803195 GGCAAGGCTAGCGTCTTCGATCTGCTTCGCTATCGGTGCAGGAAGGCAAAATCTACTATTTTAAA
130 GGCAAGGCTGGTGTCTTCGATCTGCTTCACTGTCAGTGCAGGAAGGCAAGATCTACTATTTTCAA
*
24803260 CCTGCTCCGCTGCAACCCAAGGAGG-ATAGGCTAGTGTCTTCGATCTGCTTCGCTGTCGGTGCAG
195 CCTGCTCCGCTGCAACCCAAGGAGGCA-AGGCTAGTGTCTTCGATCTGCTTCGCTGTCGATGCAG
24803324 GAAGGC
259 GAAGGC
* *
24803330 AAGATATACTATTTTCAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCT-GTGTCTTCGATCTG
1 AAGATCTGCTATTTTCAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTG
* * * * *
24803394 CTTCACTGTCGGTGCAGGAAGGCAAGATCTACTATTTTCAACCTGCTCCGCTGTAATCCAGGGAG
66 CTTCACTGTCAGTACAGGAAGGCAAGATCTGCTATTTTCAACCTGCTCCACTGCAATCCAGGGAG
* *** * *
24803459 GCAAGGCTGGTGTCTTTGATCTGCTTTGTTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTCAAC
131 GCAAGGCTGGTGTCTTCGATCTGCTTCACTGTCAGTGCAGGAAGGCAAGATCTACTATTTTCAAC
* * * * *
24803524 CTGCTCCGCTGCAGCCC-AGGAAGGCAAGGCTGGTGTCTTTGATCAGCTTCGCTATCGATGCAGG
196 CTGCTCCGCTGCAACCCAAGG-AGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCGATGCAGG
24803588 AAGGC
260 AAGGC
* *
24803593 AAGATCTGCTATTTTCAACCTGCTCTGCTACAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTG
1 AAGATCTGCTATTTTCAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTG
* * *
24803658 CTTCGCTGTCATTACAGGAAGGCAAGATCTGCTATTTTCAACCTGCTCTACTGCAA-CCTAGGGA
66 CTTCACTGTCAGTACAGGAAGGCAAGATCTGCTATTTTCAACCTGCTCCACTGCAATCC-AGGGA
* * * * * *
24803722 GGCAAGTCTGGTGTCTTCGATCTACTTAACTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAA
130 GGCAAGGCTGGTGTCTTCGATCTGCTTCACTGTCAGTGCAGGAAGGCAAGATCTACTATTTTCAA
* * * * * *
24803787 CCTGCTCCACTGCAATCCAGGGAGGCAAGGTTGGTGTCTTCGATCTGCTTCG-TCGTCGGTGCAG
195 CCTGCTCCGCTGCAACCCAAGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCT-GTCGATGCAG
24803851 GAAGGC
259 GAAGGC
* * *
24803857 AAGATCTGCTATTTTCAACCTGCTCCGCTGTAA-CCAGGGAGGCAAGTCTGGTGTCTTCGATCTT
1 AAGATCTGCTATTTTCAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTG
* * * *
24803921 CTTAACTGTCAGTACAGGAAGGCAAGATCTGCTATCTTT-AACCTACTCCACTACAATCTAGGGA
66 CTTCACTGTCAGTACAGGAAGGCAAGATCTGCTAT-TTTCAACCTGCTCCACTGCAATCCAGGGA
*
24803985 GGCAAGGCTGGTGTCTTCGATCTGCTTCACTGTCAGTGCCGGAAGGCAAGATCTACTATTTTCAA
130 GGCAAGGCTGGTGTCTTCGATCTGCTTCACTGTCAGTGCAGGAAGGCAAGATCTACTATTTTCAA
* * * * * * *
24804050 CCTGTTCCGCTGTAACCCACGGTGGCTAGGCTAGTATCTTCGATCTGCTTCGCTGT-GAATGCAA
195 CCTGCTCCGCTGCAACCCAAGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCG-ATGCAG
*
24804114 AAAGGC
259 GAAGGC
* * * * * * *
24804120 AATATTTGTTATCTTT-AACCTGCTCCGCTACAACCGAGGGAGGCAAGGCT-TTGTTTTCGATCT
1 AAGATCTGCTAT-TTTCAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCT
* * * *
24804183 GCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTCA
65 GCTTCACTGTCAGTACAGGAAGGCAAGATCTGCTATTTTCA
24804224 CTGATGTGTT
Statistics
Matches: 770, Mismatches: 110, Indels: 29
0.85 0.12 0.03
Matches are distributed among these distances:
262 6 0.01
263 486 0.63
264 275 0.36
265 3 0.00
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.27
Consensus pattern (264 bp):
AAGATCTGCTATTTTCAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTG
CTTCACTGTCAGTACAGGAAGGCAAGATCTGCTATTTTCAACCTGCTCCACTGCAATCCAGGGAG
GCAAGGCTGGTGTCTTCGATCTGCTTCACTGTCAGTGCAGGAAGGCAAGATCTACTATTTTCAAC
CTGCTCCGCTGCAACCCAAGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCGATGCAGGA
AGGC
Found at i:24803714 original size:351 final size:350
Alignment explanation
Indices: 24803066--24804223 Score: 1400
Period size: 351 Copynumber: 3.3 Consensus size: 350
24803056 TTAGGGAGAT
* * * *
24803066 AAGATCTG-TAATTTTTAACCTGCTCCGCTGTAACCGAGGGAGGCAAGGCTGGGGTCTTCAATCT
1 AAGATCTGCT-ATTTTCAACCTGCTCCGCTGCAACCGAGGGAGGCAAGGCTGGTGTCTTCGATCT
* ** * * * * *
24803130 ACTTAACTATCACTACAGGAAGGAAAGATCTGCTATCTTCAACCTGCTCCACTGCAATCCAGGGA
65 GCTTCGCTGTCAGTGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCGCTGCAA-CCAGGGA
* * * * *
24803195 GGCAAGGCTAGCGTCTTCGATCTGCTTCGCTATCGGTGCAGGAAGGCAAAATCTACTATTTTAAA
129 GGCAAGGCTGGTGTCTTCGATCTGCTTCGCTATCGATGCAGGAAGGCAAGATCTGCTATTTT-AA
* * * *
24803260 CCTGCTCCGCTGCAACCCAAGGAGG-ATAGGCTAGTGTCTTCGATCTGCTTCGCTGTCGGTGCAG
193 CCTGCTCCGCTACAACCCAGGGAGGCA-AGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTGCAG
*
24803324 GAAGGCAAGATATACTATTTTCAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCT-GTGTCTTC
257 GAAGGCAAGATCTACTATTTTCAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTC
24803388 GATCTGCTTCACTGTCGGTGCAGGAAGGC
322 GATCTGCTTCACTGTCGGTGCAGGAAGGC
* * *
24803417 AAGATCTACTATTTTCAACCTGCTCCGCTGTAATCC-AGGGAGGCAAGGCTGGTGTCTTTGATCT
1 AAGATCTGCTATTTTCAACCTGCTCCGCTGCAA-CCGAGGGAGGCAAGGCTGGTGTCTTCGATCT
* * * * * *
24803481 GCTTTGTTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTCAACCTGCTCCGCTGCAGCCCAGGAA
65 GCTTCGCTGTCAGTGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCGCTGCA-ACCAGGGA
* *
24803546 GGCAAGGCTGGTGTCTTTGATCAGCTTCGCTATCGATGCAGGAAGGCAAGATCTGCTATTTTCAA
129 GGCAAGGCTGGTGTCTTCGATCTGCTTCGCTATCGATGCAGGAAGGCAAGATCTGCTATTTT-AA
* * *
24803611 CCTGCTCTGCTACAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCATTACAGG
193 CCTGCTCCGCTACAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTGCAGG
* ** * * *
24803676 AAGGCAAGATCTGCTATTTTCAACCTGCTCTACTGCAACCTAGGGAGGCAAGTCTGGTGTCTTCG
258 AAGGCAAGATCTACTATTTTCAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCG
* * * *
24803741 ATCTACTTAACTGTCAGTACAGGAAGGC
323 ATCTGCTTCACTGTCGGTGCAGGAAGGC
* * *
24803769 AAGATCTGCTATCTTCAACCTGCTCCACTGCAATCC-AGGGAGGCAAGGTTGGTGTCTTCGATCT
1 AAGATCTGCTATTTTCAACCTGCTCCGCTGCAA-CCGAGGGAGGCAAGGCTGGTGTCTTCGATCT
* * *
24803833 GCTTCG-TCGTCGGTGCAGGAAGGCAAGATCTGCTATTTTCAACCTGCTCCGCTGTAACCAGGGA
65 GCTTCGCT-GTCAGTGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCGCTGCAACCAGGGA
* * ** * *
24803897 GGCAAGTCTGGTGTCTTCGATCTTCTTAACTGTC-AGTACAGGAAGGCAAGATCTGCTATCTTTA
129 GGCAAGGCTGGTGTCTTCGATCTGCTTCGCTATCGA-TGCAGGAAGGCAAGATCTGCTAT-TTTA
* * * * * *
24803961 ACCTACTCCACTACAATCTAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTGTCAGTGCCG
192 ACCTGCTCCGCTACAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTGCAG
* * * * * *
24804026 GAAGGCAAGATCTACTATTTTCAACCTGTTCCGCTGTAACCCACGGTGGCTAGGCTAGTATCTTC
257 GAAGGCAAGATCTACTATTTTCAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTC
* * **
24804091 GATCTGCTTCGCTGT-GAATGCAAAAAGGC
322 GATCTGCTTCACTGTCG-GTGCAGGAAGGC
* * * * * *
24804120 AATATTTGTTATCTTT-AACCTGCTCCGCTACAACCGAGGGAGGCAAGGCT-TTGTTTTCGATCT
1 AAGATCTGCTAT-TTTCAACCTGCTCCGCTGCAACCGAGGGAGGCAAGGCTGGTGTCTTCGATCT
*
24804183 GCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTCA
65 GCTTCGCTGTCAGTGCAGGAAGGCAAGATCTGCTATCTTCA
24804224 CTGATGTGTT
Statistics
Matches: 693, Mismatches: 102, Indels: 25
0.85 0.12 0.03
Matches are distributed among these distances:
350 50 0.07
351 491 0.71
352 152 0.22
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.27
Consensus pattern (350 bp):
AAGATCTGCTATTTTCAACCTGCTCCGCTGCAACCGAGGGAGGCAAGGCTGGTGTCTTCGATCTG
CTTCGCTGTCAGTGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCGCTGCAACCAGGGAGG
CAAGGCTGGTGTCTTCGATCTGCTTCGCTATCGATGCAGGAAGGCAAGATCTGCTATTTTAACCT
GCTCCGCTACAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTGCAGGAAG
GCAAGATCTACTATTTTCAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATC
TGCTTCACTGTCGGTGCAGGAAGGC
Found at i:24805958 original size:32 final size:31
Alignment explanation
Indices: 24805888--24805959 Score: 76
Period size: 32 Copynumber: 2.3 Consensus size: 31
24805878 TTCATTTTCA
24805888 TTTTTTGACTTTGATTTTGATTTTTTCTTTT
1 TTTTTTGACTTTGATTTTGATTTTTTCTTTT
* *
24805919 TGCTTTTG-CTTTTGCTTTTGA-TTTTTCTTCCTT
1 T-TTTTTGAC-TTTGATTTTGATTTTTTCTT--TT
24805952 TTTTTTGA
1 TTTTTTGA
24805960 ATTGGATCTG
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
31 10 0.30
32 20 0.61
33 3 0.09
ACGTcount: A:0.07, C:0.11, G:0.11, T:0.71
Consensus pattern (31 bp):
TTTTTTGACTTTGATTTTGATTTTTTCTTTT
Found at i:24806047 original size:14 final size:14
Alignment explanation
Indices: 24806024--24806057 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
24806014 ATCAATGTTA
* *
24806024 TTCCAGATAAGGTC
1 TTCCACATAAGATC
24806038 TTCCACATAAGATC
1 TTCCACATAAGATC
24806052 TTCCAC
1 TTCCAC
24806058 TTTCATCTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.29, C:0.29, G:0.12, T:0.29
Consensus pattern (14 bp):
TTCCACATAAGATC
Found at i:24815642 original size:4 final size:4
Alignment explanation
Indices: 24815633--24815666 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
24815623 AAGTTTTATT
24815633 TTTA TTTA TTTA TTTA TTTA TTTTA TTTA GTTTA
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA -TTTA
24815667 AATTTTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:24815674 original size:22 final size:22
Alignment explanation
Indices: 24815616--24815675 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
24815606 AAGTGGCCCA
*
24815616 AGTTGTAAAGTTTTATTTTTATTT
1 AGTT-TAAATTTTTA-TTTTATTT
*
24815640 A-TTT-ATTTATTTATTTTATTT
1 AGTTTAAATT-TTTATTTTATTT
24815661 AGTTTAAATTTTTAT
1 AGTTTAAATTTTTAT
24815676 ATTCAGTCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 11 0.37
22 13 0.43
23 5 0.17
24 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (22 bp):
AGTTTAAATTTTTATTTTATTT
Found at i:24824742 original size:40 final size:40
Alignment explanation
Indices: 24824687--24824875 Score: 288
Period size: 40 Copynumber: 4.7 Consensus size: 40
24824677 TGAGCATTGG
24824687 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
24824727 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* * **
24824767 AATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGAC
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* * *
24824807 GATATATCCGGGCTAAGACCCGAAGGCAATTAGGCAAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* * *
24824847 GATATGTCCGGGTTAAGACCCGAAGGCAA
1 AATATATCCGGGCTAAGACCCGAAGGCAA
24824876 GTGTGTTTGC
Statistics
Matches: 136, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 136 1.00
ACGTcount: A:0.32, C:0.21, G:0.27, T:0.21
Consensus pattern (40 bp):
AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
Found at i:24833287 original size:18 final size:19
Alignment explanation
Indices: 24833251--24833289 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
24833241 TCACTTTTTC
* *
24833251 TTTTTGTTTTCTCACTCTT
1 TTTTTCTTTTCCCACTCTT
24833270 TTTTTCTTTTCCCA-TCTT
1 TTTTTCTTTTCCCACTCTT
24833288 TT
1 TT
24833290 CTTTTTGTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.05, C:0.23, G:0.03, T:0.69
Consensus pattern (19 bp):
TTTTTCTTTTCCCACTCTT
Found at i:24833840 original size:20 final size:20
Alignment explanation
Indices: 24833794--24833840 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
24833784 AGCTTGTTTC
*
24833794 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* * *
24833814 CAACTCATTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
24833834 CAGCTCA
1 CAGCTCA
24833841 ATCTTAACCC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.34, G:0.13, T:0.23
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:24835394 original size:44 final size:41
Alignment explanation
Indices: 24835344--24835424 Score: 117
Period size: 44 Copynumber: 1.9 Consensus size: 41
24835334 ATAAAATCGA
24835344 AAAAAAATTCAAAAAAAATTGAGCAAAAAAAAAGAGAGAGAAAT
1 AAAAAAATTCAAAAAAAATTGA--AAAAAAAAAGA-AGAGAAAT
* *
24835388 AAAAAAATTGAAAAAAAATTGAAAAAAAAGAGAAGAG
1 AAAAAAATTCAAAAAAAATTGAAAAAAAAAAGAAGAG
24835425 GATTTCGTGA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
41 4 0.11
42 10 0.29
44 21 0.60
ACGTcount: A:0.72, C:0.02, G:0.15, T:0.11
Consensus pattern (41 bp):
AAAAAAATTCAAAAAAAATTGAAAAAAAAAAGAAGAGAAAT
Found at i:24835404 original size:11 final size:11
Alignment explanation
Indices: 24835388--24835416 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
24835378 AGAGAGAAAT
24835388 AAAAAAATTGA
1 AAAAAAATTGA
24835399 AAAAAAATTGA
1 AAAAAAATTGA
24835410 AAAAAAA
1 AAAAAAA
24835417 GAGAAGAGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.79, C:0.00, G:0.07, T:0.14
Consensus pattern (11 bp):
AAAAAAATTGA
Found at i:24835502 original size:18 final size:17
Alignment explanation
Indices: 24835467--24835501 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
24835457 ATTCAATTGT
24835467 ATTTGAAGTGAAAAAAA
1 ATTTGAAGTGAAAAAAA
24835484 ATTTGAAGT-ATAAAAAA
1 ATTTGAAGTGA-AAAAAA
24835501 A
1 A
24835502 AGAAGTGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 1 0.06
17 16 0.94
ACGTcount: A:0.60, C:0.00, G:0.14, T:0.26
Consensus pattern (17 bp):
ATTTGAAGTGAAAAAAA
Found at i:24852922 original size:23 final size:22
Alignment explanation
Indices: 24852871--24852922 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
24852861 CCTCGTCTTT
*
24852871 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
24852893 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
24852916 TTCTTTT
1 TTCTTTT
24852923 TCAATTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:24853915 original size:7 final size:8
Alignment explanation
Indices: 24853899--24853926 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
24853889 AAATCGAGTT
24853899 AAAAGAAA
1 AAAAGAAA
24853907 AAAAGAAA
1 AAAAGAAA
24853915 AAAAGAAA
1 AAAAGAAA
24853923 AAAA
1 AAAA
24853927 AAGTGAAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (8 bp):
AAAAGAAA
Found at i:24854827 original size:18 final size:18
Alignment explanation
Indices: 24854806--24854840 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
24854796 AGAAAAGAAA
24854806 ATTGA-AAAAGAAATTGAG
1 ATTGAGAAAA-AAATTGAG
24854824 ATTGAGAAAAAAATTGA
1 ATTGAGAAAAAAATTGA
24854841 AAAAGAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.57, C:0.00, G:0.20, T:0.23
Consensus pattern (18 bp):
ATTGAGAAAAAAATTGAG
Found at i:24859067 original size:24 final size:24
Alignment explanation
Indices: 24859040--24859089 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
24859030 TATTGACCCG
* *
24859040 GGCATCGATATTGGCATCGATGAT
1 GGCATCGATATTGCCATCGATAAT
* *
24859064 GGCATCGCTGTTGCCATCGATAAT
1 GGCATCGATATTGCCATCGATAAT
24859088 GG
1 GG
24859090 TACTAGAGTC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (24 bp):
GGCATCGATATTGCCATCGATAAT
Found at i:24862497 original size:43 final size:44
Alignment explanation
Indices: 24862444--24862610 Score: 186
Period size: 43 Copynumber: 3.9 Consensus size: 44
24862434 GATTGCCGAG
*
24862444 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
*
24862488 -TGTTATTACATGTAAGACCA-GATCTGGGACATTGGCATCGT-T
1 ATGTGATTACATGTAAGACCATG-TCTGGGACATTGGCATCGTAT
* *
24862530 ATGTGATTTCGTGTAAGACCATAGT-TGGG-CTATTGGCATCG-AT
1 ATGTGATTACATGTAAGACCAT-GTCTGGGAC-ATTGGCATCGTAT
* * * *
24862573 ATGAGATAACATGTAAGACCATATCTGGGATA-TGGCAT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCAT
24862611 TGTACGAGCT
Statistics
Matches: 104, Mismatches: 11, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
42 10 0.10
43 92 0.88
44 1 0.01
45 1 0.01
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.32
Consensus pattern (44 bp):
ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
Found at i:24862589 original size:86 final size:85
Alignment explanation
Indices: 24862444--24862610 Score: 205
Period size: 86 Copynumber: 2.0 Consensus size: 85
24862434 GATTGCCGAG
* ** *
24862444 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGTTATTACATGTAAGACCAG
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTGAGATAACATGTAAGACCAG
24862509 ATCTGGGACATTGGCATCGTT
66 ATCTGGGACA-TGGCATCGTT
* *
24862530 ATGTGATTTCGTGTAAGACCATAGT-TGGG-CTATTGGCATCG-ATATGAGATAACATGTAAGAC
1 ATGTGATTACATGTAAGACCAT-GTCTGGGAC-ATTGGCATCGTAT-TGAGATAACATGTAAGAC
* *
24862592 CATATCTGGGATATGGCAT
63 CAGATCTGGGACATGGCAT
24862611 TGTACGAGCT
Statistics
Matches: 70, Mismatches: 8, Indels: 7
0.82 0.09 0.08
Matches are distributed among these distances:
85 9 0.13
86 59 0.84
87 2 0.03
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.32
Consensus pattern (85 bp):
ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTGAGATAACATGTAAGACCAG
ATCTGGGACATGGCATCGTT
Found at i:24864551 original size:11 final size:11
Alignment explanation
Indices: 24864515--24864570 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
24864505 CATGGTATGT
24864515 ATGATATGCAC
1 ATGATATGCAC
* *
24864526 ATGACATG--T
1 ATGATATGCAC
24864535 ATGATATGCAC
1 ATGATATGCAC
*
24864546 ATGATATG--T
1 ATGATATGCAC
24864555 ATGATATGCAC
1 ATGATATGCAC
24864566 ATGAT
1 ATGAT
24864571 GTAATCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:24864570 original size:20 final size:20
Alignment explanation
Indices: 24864504--24864570 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
24864494 ATTTTGATAA
*
24864504 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
24864524 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
24864544 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
24864564 ACATGAT
1 ACATGAT
24864571 GTAATCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:24864646 original size:24 final size:24
Alignment explanation
Indices: 24864619--24864964 Score: 667
Period size: 24 Copynumber: 14.4 Consensus size: 24
24864609 GGAGGAAGTG
24864619 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
24864643 T-AAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
24864666 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
24864690 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
24864714 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
24864738 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
24864762 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
24864786 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
24864810 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
24864834 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
24864858 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
24864882 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
24864906 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
24864930 TAAAAGGGCTTTTGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
24864954 TAAAAGAGGCT
1 TAAAAG-GGCT
24864965 AGGCCTCTAG
Statistics
Matches: 319, Mismatches: 1, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
23 23 0.07
24 292 0.92
25 4 0.01
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:24865207 original size:31 final size:31
Alignment explanation
Indices: 24865172--24865235 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
24865162 CGTTTACAGT
*
24865172 AAAGGCTTCGGCCCAATAATATGAAATATGA
1 AAAGGCTTCAGCCCAATAATATGAAATATGA
* ** *
24865203 AAAGGCTTCAGCCCAGTGTTGTGAAATATGA
1 AAAGGCTTCAGCCCAATAATATGAAATATGA
24865234 AA
1 AA
24865236 TATGAAAAGG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCAGCCCAATAATATGAAATATGA
Found at i:24872921 original size:20 final size:20
Alignment explanation
Indices: 24872855--24872921 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
24872845 ATTTTGATAA
*
24872855 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
24872875 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
*
24872895 ACATGATATGTATGACATGC
1 ACATGATATGTATGATATGC
*
24872915 ACGTGAT
1 ACATGAT
24872922 GTAATCATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.33, C:0.13, G:0.22, T:0.31
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:24872997 original size:24 final size:24
Alignment explanation
Indices: 24872970--24873065 Score: 142
Period size: 24 Copynumber: 4.0 Consensus size: 24
24872960 GGAGGAAGTG
24872970 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
24872994 T-AAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
24873017 TAAAAGGGCTTTTGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
24873041 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 TAAAAG-GGCTTATGCC-CCAGTTAT
24873066 ATGATAAAGC
Statistics
Matches: 66, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
23 23 0.35
24 32 0.48
25 11 0.17
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:24873001 original size:23 final size:23
Alignment explanation
Indices: 24872972--24873044 Score: 128
Period size: 23 Copynumber: 3.1 Consensus size: 23
24872962 AGGAAGTGTA
24872972 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
24872995 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
24873018 AAAAGGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
24873042 AAA
1 AAA
24873045 AGAGGCTAGG
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
23 26 0.54
24 22 0.46
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.30
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:24873295 original size:31 final size:31
Alignment explanation
Indices: 24873259--24873322 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
24873249 CATTTACAGT
*
24873259 AAAGGCTTCGGCCTAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
* **
24873290 AAAGGCTTCGGCCCGGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
24873321 AA
1 AA
24873323 TATGAAATGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:24883708 original size:93 final size:93
Alignment explanation
Indices: 24883598--24883921 Score: 630
Period size: 93 Copynumber: 3.5 Consensus size: 93
24883588 CAAATATTTG
* *
24883598 GGCATCCAAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
1 GGCATCCAAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
24883663 TTGAGTCCGAGTTCATGAAATGTAACTA
66 TTGAGTCCGAGTTCATGAAATGTAACTA
24883691 GGCATCCAAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
1 GGCATCCAAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
24883756 TTGAGTCCGAGTTCATGAAATGTAACTA
66 TTGAGTCCGAGTTCATGAAATGTAACTA
24883784 GGCATCCAAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
1 GGCATCCAAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
24883849 TTGAGTCCGAGTTCATGAAATGTAACTA
66 TTGAGTCCGAGTTCATGAAATGTAACTA
24883877 GGCATCCAAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GGCATCCAAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
24883922 AAAAACGCTT
Statistics
Matches: 229, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 229 1.00
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (93 bp):
GGCATCCAAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCATGAAATGTAACTA
Found at i:24883803 original size:47 final size:47
Alignment explanation
Indices: 24883652--24883910 Score: 287
Period size: 47 Copynumber: 5.6 Consensus size: 47
24883642 CGAACGTCCG
24883652 AACTCGTTGAGTTGAGTCCGAGTTCATGAAATGTAACTAGGCATCCA
1 AACTCGTTGAGTTGAGTCCGAGTTCATGAAATGTAACTAGGCATCCA
* * * * * * * *
24883699 AACTTGTTGAGTTGAGTCCGAGTTCACT--TATGGATGCGA-ACGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCA-TGAAATGTA-ACTAGGCATCCA
24883745 AACTCGTTGAGTTGAGTCCGAGTTCATGAAATGTAACTAGGCATCCA
1 AACTCGTTGAGTTGAGTCCGAGTTCATGAAATGTAACTAGGCATCCA
* * * * * * * *
24883792 AACTTGTTGAGTTGAGTCCGAGTTCACT--TATGGATGCGA-ACGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCA-TGAAATGTA-ACTAGGCATCCA
24883838 AACTCGTTGAGTTGAGTCCGAGTTCATGAAATGTAACTAGGCATCCA
1 AACTCGTTGAGTTGAGTCCGAGTTCATGAAATGTAACTAGGCATCCA
*
24883885 AACTTGTTGAGTTGAGTCCGAGTTCA
1 AACTCGTTGAGTTGAGTCCGAGTTCA
24883911 CTTATGGATG
Statistics
Matches: 169, Mismatches: 33, Indels: 20
0.76 0.15 0.09
Matches are distributed among these distances:
45 2 0.01
46 70 0.41
47 95 0.56
48 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.29
Consensus pattern (47 bp):
AACTCGTTGAGTTGAGTCCGAGTTCATGAAATGTAACTAGGCATCCA
Found at i:24886142 original size:20 final size:20
Alignment explanation
Indices: 24886114--24886151 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
24886104 CAATGTTAAA
24886114 GTTGGGAAAGACTATGGTAT
1 GTTGGGAAAGACTATGGTAT
* *
24886134 GTTGTGAAAGATTATGGT
1 GTTGGGAAAGACTATGGT
24886152 GAGTTGCAAG
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:0.29, C:0.03, G:0.34, T:0.34
Consensus pattern (20 bp):
GTTGGGAAAGACTATGGTAT
Found at i:24886157 original size:20 final size:19
Alignment explanation
Indices: 24886113--24886157 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
24886103 GCAATGTTAA
24886113 AGTTGGGAAAGACTATGGT
1 AGTTGGGAAAGACTATGGT
* *
24886132 ATGTTGTGAAAGATTATGGT
1 A-GTTGGGAAAGACTATGGT
24886152 GAGTTG
1 -AGTTG
24886158 CAAGTTGGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 1 0.05
20 20 0.91
21 1 0.05
ACGTcount: A:0.29, C:0.02, G:0.36, T:0.33
Consensus pattern (19 bp):
AGTTGGGAAAGACTATGGT
Found at i:24888482 original size:33 final size:33
Alignment explanation
Indices: 24888440--24888507 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
24888430 GTTGAAAAGC
*
24888440 TGACTGGTAGGGA-TGATTCCATCGAGGCTATGA
1 TGACTGGTA-GGACTGATGCCATCGAGGCTATGA
*
24888473 TGACTGGTAGGACTGATGCCATTGAGGCTATGA
1 TGACTGGTAGGACTGATGCCATCGAGGCTATGA
24888506 TG
1 TG
24888508 GCGACCTTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
32 3 0.09
33 29 0.91
ACGTcount: A:0.24, C:0.15, G:0.34, T:0.28
Consensus pattern (33 bp):
TGACTGGTAGGACTGATGCCATCGAGGCTATGA
Found at i:24898554 original size:49 final size:49
Alignment explanation
Indices: 24898380--24898840 Score: 778
Period size: 49 Copynumber: 9.6 Consensus size: 49
24898370 CCCTTCGGGA
* * * * * *
24898380 CTTATCACAT-T-TATACACTTTCACATCCCTCACGTTGGCCACTCGG-
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
24898426 CTCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CT-TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
24898474 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
24898521 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
24898570 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
24898619 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
24898668 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
24898717 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
24898766 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
24898815 CTTATCACATATATATACA--TTCACAT
1 CTTATCACATATATATACACTTTCACAT
24898841 CACAATTATC
Statistics
Matches: 399, Mismatches: 10, Indels: 11
0.95 0.02 0.03
Matches are distributed among these distances:
46 3 0.01
47 91 0.23
48 2 0.01
49 303 0.76
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:24907950 original size:49 final size:48
Alignment explanation
Indices: 24907804--24907976 Score: 174
Period size: 49 Copynumber: 3.5 Consensus size: 48
24907794 GACGAGAGCT
* *
24907804 AGTGTAAGACATGTCTGGGACAT-GCATTGGCCT-CATGATAT-ACAAGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATTGGCCTCCA--ATATGA-AAGCC
* * * * *
24907852 AGTGTAAGACCTGTCTGGGACATAGCA-TCGACACCAATAGATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATTGGCCTCCAAT--ATGAAAGCC
*
24907901 AGTGTAAGACCTGTCTGGGACATGGCATTGGCCTCGCCATATGAAAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATTGGCCTC-CAATATGAAAGCC
*
24907950 AGTGTAAGACCATGTCTAGGACATGGC
1 AGTGTAAGACC-TGTCTGGGACATGGC
24907977 GTCGGCATCT
Statistics
Matches: 104, Mismatches: 13, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
47 2 0.02
48 25 0.24
49 55 0.53
50 19 0.18
51 3 0.03
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACCTGTCTGGGACATGGCATTGGCCTCCAATATGAAAGCC
Found at i:24913500 original size:43 final size:43
Alignment explanation
Indices: 24913439--24913524 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 43
24913429 ACAGCATGAA
* *
24913439 TCGCATCCATTATGAACTCGGACCACTCAACAAGCTCGGATGC
1 TCGCATCCATAATGAACTCGAACCACTCAACAAGCTCGGATGC
* * *
24913482 TCGCATCCATAATGAACTCGAACCTCTTAACGAGCTCGGATGC
1 TCGCATCCATAATGAACTCGAACCACTCAACAAGCTCGGATGC
24913525 CACATATCTC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (43 bp):
TCGCATCCATAATGAACTCGAACCACTCAACAAGCTCGGATGC
Found at i:24915550 original size:46 final size:46
Alignment explanation
Indices: 24915478--24915570 Score: 132
Period size: 46 Copynumber: 2.0 Consensus size: 46
24915468 TTATCGCTTG
* *
24915478 AGCGACAGAAATGTACTTGTCATCGAAATGAATCGAAGAGATAGTC
1 AGCGACAAAAATGTACTTGTCATCGAAATGAATCGAAAAGATAGTC
** * *
24915524 AGCGACAAAAATGTGTTTGTCGTCGAAATGAATCGAAAAGGTAGTC
1 AGCGACAAAAATGTACTTGTCATCGAAATGAATCGAAAAGATAGTC
24915570 A
1 A
24915571 TTCGTGAAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.39, C:0.14, G:0.25, T:0.23
Consensus pattern (46 bp):
AGCGACAAAAATGTACTTGTCATCGAAATGAATCGAAAAGATAGTC
Found at i:24918957 original size:5 final size:5
Alignment explanation
Indices: 24918947--24918971 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
24918937 AAAAATTTTA
24918947 AAAAG AAAAG AAAAG AAAAG AAAAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG
24918972 GAGATTCAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:24922777 original size:40 final size:40
Alignment explanation
Indices: 24922722--24922859 Score: 197
Period size: 40 Copynumber: 3.5 Consensus size: 40
24922712 CGGATGACAG
24922722 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATAT
* *
24922762 CCGGGCTAAGTCCCGAAAGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATAT
* * ** *
24922802 CCAGGCTAAGTCCCGAAGGCAGTTGAACGAGTAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATAT
*
24922842 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
24922860 TACTTGGTTT
Statistics
Matches: 88, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 15 0.17
40 73 0.83
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATAT
Found at i:24926455 original size:40 final size:40
Alignment explanation
Indices: 24926376--24926552 Score: 209
Period size: 40 Copynumber: 4.5 Consensus size: 40
24926366 CAGATGATAA
* * * *
24926376 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGATTATAT
* * * *
24926416 CCGGGCTATGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATTATAT
* *
24926456 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATTATAT
24926496 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGATTATAT
24926536 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
24926553 ATACTTGGGT
Statistics
Matches: 118, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
38 1 0.01
39 15 0.13
40 101 0.86
41 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATTATAT
Found at i:24926514 original size:80 final size:80
Alignment explanation
Indices: 24926376--24926552 Score: 243
Period size: 80 Copynumber: 2.2 Consensus size: 80
24926366 CAGATGATAA
* * * * *
24926376 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTATGTCCCGAAGGCATTTA
1 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTACTATATCCGGGCTAAGACCCGAAGGCATTTA
*
24926441 TGCTAG-TGATTATAT
66 TGCGAGTTG-TTATAT
* *
24926456 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTACTATATCCGGGCTAAGACCCGAAGGCATTTA
24926521 TGCGAGTTGTTATAT
66 TGCGAGTTGTTATAT
24926536 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
24926553 ATACTTGGGT
Statistics
Matches: 87, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
78 1 0.01
79 13 0.15
80 71 0.82
81 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTACTATATCCGGGCTAAGACCCGAAGGCATTTA
TGCGAGTTGTTATAT
Found at i:24927427 original size:72 final size:72
Alignment explanation
Indices: 24927343--24927485 Score: 261
Period size: 72 Copynumber: 2.0 Consensus size: 72
24927333 TGAAAGAAAA
24927343 AAAAAAGGGATCATCATTCATGTTCTTGCTAG-TCGAATCTAAAGAAAAAAAAAAGGGAACAAGA
1 AAAAAAGGGATCATCATTCATGTTCTTGCTAGCT-GAATCTAAAGAAAAAAAAAAGGGAACAAGA
24927407 GCATTCGG
65 GCATTCGG
*
24927415 AAAAAAGGGATCATCATTCATGTTCTTGCTAGCTGAATCTAAAGAAAAAAAGAAGGGAACAAGAG
1 AAAAAAGGGATCATCATTCATGTTCTTGCTAGCTGAATCTAAAGAAAAAAAAAAGGGAACAAGAG
24927480 CATTCG
66 CATTCG
24927486 ATGATGAAAA
Statistics
Matches: 69, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
72 68 0.99
73 1 0.01
ACGTcount: A:0.44, C:0.14, G:0.21, T:0.21
Consensus pattern (72 bp):
AAAAAAGGGATCATCATTCATGTTCTTGCTAGCTGAATCTAAAGAAAAAAAAAAGGGAACAAGAG
CATTCGG
Found at i:24928856 original size:40 final size:41
Alignment explanation
Indices: 24928801--24928968 Score: 183
Period size: 40 Copynumber: 4.2 Consensus size: 41
24928791 CGGATGATAA
24928801 CCGGGCTAAGTCCCG-AGAGCATTTGTGCTAGTGGCTAAT-T
1 CCGGGCTAAGTCCCGAAG-GCATTTGTGCTAGTGGCTAATAT
* * *
24928841 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCT-ACT-ATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGGCTAATAT
* *
24928881 CCGGGCTAAGTCCCGAAGGCGTTTGTGC-A--AGCTAATTAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGGCTAA-TAT
*
24928920 ACCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCT-ATAT
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGGCTAATAT
24928961 CC-GGCTAA
1 CCGGGCTAA
24928969 ACTCCGAAGG
Statistics
Matches: 109, Mismatches: 9, Indels: 21
0.78 0.06 0.15
Matches are distributed among these distances:
37 2 0.02
38 1 0.01
39 12 0.11
40 83 0.76
41 7 0.06
42 1 0.01
43 3 0.03
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.24
Consensus pattern (41 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGGCTAATAT
Found at i:24937119 original size:39 final size:39
Alignment explanation
Indices: 24936985--24937128 Score: 225
Period size: 40 Copynumber: 3.6 Consensus size: 39
24936975 GTGGCTAATT
* *
24936985 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTATTATA
* *
24937024 TCTGGGCTAAGTCCCGAAGGCGTTTGTGCGAGCTATTATA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTATTATA
*
24937064 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTATTATA
24937104 CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
24937129 AGCTAGTGGC
Statistics
Matches: 97, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 25 0.26
40 72 0.74
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTATTATA
Found at i:24937150 original size:39 final size:39
Alignment explanation
Indices: 24936945--24937151 Score: 224
Period size: 40 Copynumber: 5.2 Consensus size: 39
24936935 CAGATGATAA
** *
24936945 CCGGGCTAAGTCCCG-AGAGCATTTGTGATAGTGGCTA-ATT
1 CCGGGCTAAGTCCCGAAG-GCATTTGTGCGAGT-ACTATA-T
*
24936985 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAT
* * *
24937025 CTGGGCTAAGTCCCGAAGGCGTTTGTGCGAGCTATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAT
*
24937065 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAT
* * *
24937104 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTATAT
24937144 CC-GGCTAA
1 CCGGGCTAA
24937152 ACTCCGAAGG
Statistics
Matches: 147, Mismatches: 15, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
38 1 0.01
39 39 0.27
40 103 0.70
41 4 0.03
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATAT
Found at i:24946038 original size:40 final size:40
Alignment explanation
Indices: 24945971--24946095 Score: 155
Period size: 40 Copynumber: 3.1 Consensus size: 40
24945961 GGACTAAGAT
** * *
24945971 CCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTATGTC
1 CCGAAGGCATTTATGCGAGTTGTTATATCCGGGCTAAGTC
* *
24946011 CCGAAGGCATTTATGCTAG-TGATTATATCCGGGCTAAGAC
1 CCGAAGGCATTTATGCGAGTTG-TTATATCCGGGCTAAGTC
* *
24946051 CCGAAGGCATTTGTGCGAGTTGTTATATCC-GGCTAAATC
1 CCGAAGGCATTTATGCGAGTTGTTATATCCGGGCTAAGTC
24946090 CCGAAG
1 CCGAAG
24946096 ATACTTGGGT
Statistics
Matches: 73, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
39 15 0.21
40 56 0.77
41 2 0.03
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTTATGCGAGTTGTTATATCCGGGCTAAGTC
Found at i:24953592 original size:48 final size:48
Alignment explanation
Indices: 24953322--24953597 Score: 326
Period size: 48 Copynumber: 5.8 Consensus size: 48
24953312 TAAAGTACCA
* * ** * *
24953322 ATGCCATGTCCCCGACATGGTCTTACATGAATC-CACATATCATTGCCG
1 ATGCCATGTCCCAGACATGGTCTTACA-CAGGCACATATATCATCGCCG
* * *
24953370 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACT-TATCACCGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACA-TATATCATCGCCG
* *
24953418 ATGCCATGTCCCAGACATGGTTTTACACTA-GCACACATATCATCGCCG
1 ATGCCATGTCCCAGACATGGTCTTACAC-AGGCACATATATCATCGCCG
* * *
24953466 ATGCCATG-CCCTAGACATGTTCTTACACAGGTACATATATCATCACCG
1 ATGCCATGTCCC-AGACATGGTCTTACACAGGCACATATATCATCGCCG
** * *
24953514 ATGCCATGTCCTGGACATGGTCTTATACAGGCACATATATCATCACCG
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCGCCG
24953562 ATGCCATGTCCCAGACATGGTCTTACACAGGCACAT
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACAT
24953598 TTAGTACAGT
Statistics
Matches: 194, Mismatches: 27, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
47 5 0.03
48 187 0.96
49 2 0.01
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.26
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCGCCG
Found at i:24960231 original size:48 final size:48
Alignment explanation
Indices: 24960164--24960394 Score: 249
Period size: 48 Copynumber: 4.9 Consensus size: 48
24960154 CACATGGTAG
* * * *
24960164 GATGCCAATGCCATATCCCAGATATGGTCTTAAATGGGATCACATATT
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* *** * *
24960212 GATGCCAATGTCATGTCCCAGACATGGTCTTACATGGGATTGTAGATT
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* *
24960260 GATGCCAATGCCATGTCCCAAACATGGTCTTATATGGGATCACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* ** *
24960308 GATGCCAAT---A-G-CCCAG-CTATGGTCTTACACGAAATTACATATC
1 GATGCCAATGCCATGTCCCAGAC-ATGGTCTTACATGGGATCACATATC
* *
24960351 GATGCCAAAGCCATGTCCCAAACATGGTCTTACATGGGATCACA
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACA
24960395 CATAACCCTA
Statistics
Matches: 148, Mismatches: 28, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
42 1 0.01
43 32 0.22
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 110 0.74
49 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (48 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
Found at i:24960372 original size:91 final size:95
Alignment explanation
Indices: 24960164--24960394 Score: 283
Period size: 91 Copynumber: 2.5 Consensus size: 95
24960154 CACATGGTAG
* * * *
24960164 GATGCCAATGCCATATCCCAGATATGGTCTTAAATGGGATCACATATTGATGCCAATGTCATGTC
1 GATGCCAATGCCATGTCCCAAACATGGTCTTAAATGGGATCACATATCGATGCCAA-GTCATGTC
* ** ** *
24960229 CCAGACATGGTCTTACATGGGATTGTAGATT
65 CCAGACATGGTCTTACACGAAATTACAGATC
*
24960260 GATGCCAATGCCATGTCCCAAACATGGTCTTATATGGGATCACATATCGATGCCAA-T-A-G-CC
1 GATGCCAATGCCATGTCCCAAACATGGTCTTAAATGGGATCACATATCGATGCCAAGTCATGTCC
*
24960321 CAG-CTATGGTCTTACACGAAATTACATATC
66 CAGAC-ATGGTCTTACACGAAATTACAGATC
* *
24960351 GATGCCAAAGCCATGTCCCAAACATGGTCTTACATGGGATCACA
1 GATGCCAATGCCATGTCCCAAACATGGTCTTAAATGGGATCACA
24960395 CATAACCCTA
Statistics
Matches: 120, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
90 1 0.01
91 65 0.54
92 1 0.01
93 1 0.01
94 1 0.01
96 51 0.43
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (95 bp):
GATGCCAATGCCATGTCCCAAACATGGTCTTAAATGGGATCACATATCGATGCCAAGTCATGTCC
CAGACATGGTCTTACACGAAATTACAGATC
Found at i:24971224 original size:24 final size:24
Alignment explanation
Indices: 24971180--24971227 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
24971170 TTACACTTCA
* *
24971180 AACCTAAAATCTTTTCGAATTTTG
1 AACCTAAAATATTTTCAAATTTTG
24971204 AACCTAAAAATATTTT-AAATTTTG
1 AACCT-AAAATATTTTCAAATTTTG
24971228 GGCTCGTGTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.40, C:0.12, G:0.06, T:0.42
Consensus pattern (24 bp):
AACCTAAAATATTTTCAAATTTTG
Found at i:24971465 original size:31 final size:32
Alignment explanation
Indices: 24971416--24971478 Score: 110
Period size: 31 Copynumber: 2.0 Consensus size: 32
24971406 TTTAAAACCT
*
24971416 TAATTTTCACTTTTAATAACTTTCTAAACATC
1 TAATTTCCACTTTTAATAACTTTCTAAACATC
24971448 TAATTTCCAC-TTTAATAACTTTCTAAACATC
1 TAATTTCCACTTTTAATAACTTTCTAAACATC
24971479 CCTTAAATAC
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 21 0.70
32 9 0.30
ACGTcount: A:0.35, C:0.21, G:0.00, T:0.44
Consensus pattern (32 bp):
TAATTTCCACTTTTAATAACTTTCTAAACATC
Found at i:24975753 original size:46 final size:46
Alignment explanation
Indices: 24975695--24975959 Score: 197
Period size: 46 Copynumber: 5.7 Consensus size: 46
24975685 TGGGCATCCA
* *
24975695 AACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGTCTG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGTCCG
* * *
24975741 AACTCGTTGAGTTAAGTCCGAGTTC-GTGA--GATGT-AACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAC---G--TCCG
*
24975788 AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGAT-TCGAACGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGT-GAACGTCCG
* *
24975834 AACTCGTTGAGTTGAGTCCAAGTTCA-TGA--GATGT-AACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAC---G--TCCG
* * * * * *
24975881 AGCTCGTTAAGTTGAGTCTGAGTTCACTTATGGATGCGTACGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGTCCG
** * **
24975927 AGTTCATTGAGTTGAGTCCGAGTTTGCTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
24975960 GCGGGTTACA
Statistics
Matches: 173, Mismatches: 26, Indels: 40
0.72 0.11 0.17
Matches are distributed among these distances:
42 6 0.03
43 8 0.05
44 1 0.01
45 6 0.03
46 81 0.47
47 52 0.30
48 6 0.03
49 1 0.01
50 7 0.04
51 5 0.03
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.31
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGTCCG
Found at i:24975800 original size:47 final size:47
Alignment explanation
Indices: 24975743--24975906 Score: 183
Period size: 47 Copynumber: 3.5 Consensus size: 47
24975733 AACGTCTGAA
* *
24975743 CTCGTTGAGTTAAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCATGAGATGTAACTAGGCATCCGAG
* * * * *
24975790 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGAT-T--CGA-ACGTCCGAA
1 CTCGTTGAGTTGAGTCCGAGTTCA-TGA--GATGTAACTAGGCATCCGAG
*
24975836 CTCGTTGAGTTGAGTCCAAGTTCATGAGATGTAACTAGGCATCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCATGAGATGTAACTAGGCATCCGAG
* *
24975883 CTCGTTAAGTTGAGTCTGAGTTCA
1 CTCGTTGAGTTGAGTCCGAGTTCA
24975907 CTTATGGATG
Statistics
Matches: 94, Mismatches: 16, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 31 0.33
47 51 0.54
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (47 bp):
CTCGTTGAGTTGAGTCCGAGTTCATGAGATGTAACTAGGCATCCGAG
Found at i:24975937 original size:93 final size:93
Alignment explanation
Indices: 24975704--24975950 Score: 377
Period size: 93 Copynumber: 2.7 Consensus size: 93
24975694 AAACTTGTTG
* * * *
24975704 AGTTGAGTCCGAGTTCACTTATGGATGTGAACGTCTGAACTCGTTGAGTTAAGTCCGAGTTCGTG
1 AGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTTGAGTCCGAGTTCATG
*
24975769 AGATGTAACTAGGCATCCGAGCTCGTTG
66 AGATGTAACTAGGCATCCGAGCTCGTTA
* *
24975797 AGTTGAGTCCGAGTTCACTTATGGATTCGAACGTCCGAACTCGTTGAGTTGAGTCCAAGTTCATG
1 AGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTTGAGTCCGAGTTCATG
24975862 AGATGTAACTAGGCATCCGAGCTCGTTA
66 AGATGTAACTAGGCATCCGAGCTCGTTA
* * * ** *
24975890 AGTTGAGTCTGAGTTCACTTATGGATGCGTACGCCCGAGTTCATTGAGTTGAGTCCGAGTT
1 AGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTTGAGTCCGAGTT
24975951 TGCTTATGGG
Statistics
Matches: 139, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 139 1.00
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (93 bp):
AGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTTGAGTCCGAGTTCATG
AGATGTAACTAGGCATCCGAGCTCGTTA
Found at i:24985817 original size:21 final size:20
Alignment explanation
Indices: 24985778--24985822 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
24985768 TTTGCCTAAG
*
24985778 ATGTGAATTTGATGGAATTGA
1 ATGTGAATTTGATGAAATT-A
* *
24985799 ATGTGAATTTTATTAAATTA
1 ATGTGAATTTGATGAAATTA
24985819 ATGT
1 ATGT
24985823 TAAATTCATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.36, C:0.00, G:0.20, T:0.44
Consensus pattern (20 bp):
ATGTGAATTTGATGAAATTA
Found at i:24986337 original size:26 final size:25
Alignment explanation
Indices: 24986308--24986375 Score: 75
Period size: 26 Copynumber: 2.7 Consensus size: 25
24986298 CTATTATATG
24986308 GCTCTATGTGAGCTTCTCGATTAAAA
1 GCTCTATGTGAGCTTC-CGATTAAAA
* **
24986334 GCTCTTTGTGAGCTTCCAGATTAATG
1 GCTCTATGTGAGCTTCC-GATTAAAA
*
24986360 GCTCTCTG-GAGCTTCC
1 GCTCTATGTGAGCTTCC
24986376 CGATATGGCT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
25 9 0.24
26 28 0.76
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (25 bp):
GCTCTATGTGAGCTTCCGATTAAAA
Found at i:24986496 original size:25 final size:23
Alignment explanation
Indices: 24986429--24986501 Score: 76
Period size: 24 Copynumber: 3.1 Consensus size: 23
24986419 TTCTTTTTTA
*
24986429 ATGGCTCTT-TGGAGCTACCCGTT
1 ATGGCTCTTAT-GAGCTTCCCGTT
**
24986452 ATTGGCTCGCATGAGCTTCCCGATT
1 A-TGGCTCTTATGAGCTTCCCG-TT
*
24986477 ATGGCTCTTATGAGCTTTCCGTT
1 ATGGCTCTTATGAGCTTCCCGTT
24986500 AT
1 AT
24986502 ATAGCCCCGG
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
23 5 0.12
24 32 0.78
25 4 0.10
ACGTcount: A:0.15, C:0.25, G:0.23, T:0.37
Consensus pattern (23 bp):
ATGGCTCTTATGAGCTTCCCGTT
Found at i:25005767 original size:41 final size:41
Alignment explanation
Indices: 25005697--25005904 Score: 231
Period size: 41 Copynumber: 5.1 Consensus size: 41
25005687 GAAGAATAAT
*
25005697 CCTGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACC
1 CCTGAATTGCACATACATGCCCCTGTTTGTACTTCGGTACC
* * * *
25005738 CCTGAATTGCACATACATGTCCTTATTTGTACTTCGATACC
1 CCTGAATTGCACATACATGCCCCTGTTTGTACTTCGGTACC
** ** *
25005779 CCT-AATTTGCACATGTATGCCATTGTTTGTACTTCGATACC
1 CCTGAA-TTGCACATACATGCCCCTGTTTGTACTTCGGTACC
* *** *
25005820 CCTGAATTGTACATGTGTGTCCCTGTTTG-ATCTTCGGTACC
1 CCTGAATTGCACATACATGCCCCTGTTTGTA-CTTCGGTACC
* *
25005861 CCTAAATTGCACAGACATGCCCCTGTTTGTACTTCGGTACC
1 CCTGAATTGCACATACATGCCCCTGTTTGTACTTCGGTACC
25005902 CCT
1 CCT
25005905 AGATGTACTT
Statistics
Matches: 140, Mismatches: 23, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
40 3 0.02
41 134 0.96
42 3 0.02
ACGTcount: A:0.20, C:0.28, G:0.17, T:0.35
Consensus pattern (41 bp):
CCTGAATTGCACATACATGCCCCTGTTTGTACTTCGGTACC
Found at i:25013474 original size:17 final size:17
Alignment explanation
Indices: 25013431--25013482 Score: 68
Period size: 17 Copynumber: 2.9 Consensus size: 17
25013421 ATCTAACAAA
*
25013431 GCCCAGTAAATGATAAT
1 GCCCAATAAATGATAAT
*
25013448 GCTTCCAATAAATGATATT
1 GC--CCAATAAATGATAAT
25013467 GCCCAATAAATGATAA
1 GCCCAATAAATGATAA
25013483 ATGATAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 15 0.50
19 15 0.50
ACGTcount: A:0.42, C:0.17, G:0.13, T:0.27
Consensus pattern (17 bp):
GCCCAATAAATGATAAT
Found at i:25015516 original size:15 final size:15
Alignment explanation
Indices: 25015492--25015526 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
25015482 TATGATATGG
* *
25015492 GTGTGTCACTTGGCC
1 GTGTGGCACTTGCCC
25015507 GTGTGGCACTTGCCC
1 GTGTGGCACTTGCCC
25015522 GTGTG
1 GTGTG
25015527 AGCCACATGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.06, C:0.26, G:0.37, T:0.31
Consensus pattern (15 bp):
GTGTGGCACTTGCCC
Found at i:25017844 original size:42 final size:41
Alignment explanation
Indices: 25017734--25017899 Score: 161
Period size: 42 Copynumber: 3.9 Consensus size: 41
25017724 AGTACCGTAC
* * *
25017734 CAATGCCATATCTCAGATATGGTCTTACATGTAATCTCGTAT
1 CAATGCCATATCCCAGATATGGTCTTACACG-AATCTCATAT
* * * * *
25017776 CGATGCTAATAGCCCAGCTATGGTCTTACACGAAGCCTCATAT
1 CAATGC-CATATCCCAGATATGGTCTTACACGAA-TCTCATAT
*
25017819 CAATGCCATATCCCAGATTTGGTCTTACACGAAATCTCATAT
1 CAATGCCATATCCCAGATATGGTCTTACACG-AATCTCATAT
** * * *
25017861 TGATGCCATATCCCAAATATAGTCTTACACAAAATCTCA
1 CAATGCCATATCCCAGATATGGTCTTACAC-GAATCTCA
25017900 ATTACCCTAA
Statistics
Matches: 100, Mismatches: 20, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
42 67 0.67
43 33 0.33
ACGTcount: A:0.31, C:0.25, G:0.13, T:0.30
Consensus pattern (41 bp):
CAATGCCATATCCCAGATATGGTCTTACACGAATCTCATAT
Found at i:25026592 original size:52 final size:52
Alignment explanation
Indices: 25026520--25026633 Score: 124
Period size: 52 Copynumber: 2.2 Consensus size: 52
25026510 AAATTACATA
* * * *
25026520 ATATATAAATAAAAATGGTTAATTTTTTTAG-TTTCAAGACCAAATTGACATG
1 ATATATAAATAAAAATGGTTAAATATTTTAGATTT-AAAACCAAATTGACACG
* * **
25026572 TTATATAAATATTAAA-GGTTAAATATTTTAGATTTAAAATTAAATTGACACG
1 ATATATAAATA-AAAATGGTTAAATATTTTAGATTTAAAACCAAATTGACACG
25026624 ATATATAAAT
1 ATATATAAAT
25026634 TTTGAAGTTA
Statistics
Matches: 51, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
52 45 0.88
53 6 0.12
ACGTcount: A:0.46, C:0.05, G:0.10, T:0.39
Consensus pattern (52 bp):
ATATATAAATAAAAATGGTTAAATATTTTAGATTTAAAACCAAATTGACACG
Found at i:25027875 original size:24 final size:23
Alignment explanation
Indices: 25027847--25027891 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
25027837 TTTAAAATAT
* *
25027847 GTTTAATATATTTATAATTTTATA
1 GTTTAATAAATATAT-ATTTTATA
25027871 GTTTAATAAATATATATTTTA
1 GTTTAATAAATATATATTTTA
25027892 AATTATGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 6 0.32
24 13 0.68
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (23 bp):
GTTTAATAAATATATATTTTATA
Found at i:25029238 original size:22 final size:21
Alignment explanation
Indices: 25029198--25029238 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
25029188 CACTTGACAT
*
25029198 AGGGGCACACGCCTATGTGGG
1 AGGGGCACACGCCCATGTGGG
*
25029219 AGGGGCAACACGCCCCTGTG
1 AGGGGC-ACACGCCCATGTG
25029239 AGCATTCCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.20, C:0.29, G:0.39, T:0.12
Consensus pattern (21 bp):
AGGGGCACACGCCCATGTGGG
Found at i:25033316 original size:47 final size:47
Alignment explanation
Indices: 25033227--25033316 Score: 110
Period size: 47 Copynumber: 1.9 Consensus size: 47
25033217 GGTAAGGTGC
* * * *
25033227 CGATGCCATGTCCTAAACACGGTCTTACATTGGCTCATATCTCAAGT
1 CGATACCATGTCCTAAACACAGTCTTACACTGACTCATATCTCAAGT
* *
25033274 CGATACCATGTCCTAGACATAGTCTTACACTGACT-ATCATCTC
1 CGATACCATGTCCTAAACACAGTCTTACACTGACTCAT-ATCTC
25033317 GTAGCCGATG
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
46 2 0.06
47 34 0.94
ACGTcount: A:0.27, C:0.29, G:0.14, T:0.30
Consensus pattern (47 bp):
CGATACCATGTCCTAAACACAGTCTTACACTGACTCATATCTCAAGT
Found at i:25033407 original size:46 final size:44
Alignment explanation
Indices: 25033280--25033430 Score: 142
Period size: 46 Copynumber: 3.2 Consensus size: 44
25033270 AAGTCGATAC
* *
25033280 CATGTCCTAGACATAGTCTTACACTGACTATCATCTCGTAGCCGATG
1 CATGTCCTAGACAT-GTCTTACACTG-CCATCGTCTCG-AGCCGATG
* * *
25033327 CATGTCCCAGACATGT-TTGACACTGGCTTACGTCTCGAGGCCGATG
1 CATGTCCTAGACATGTCTT-ACACTGCCAT-CGTCTCGA-GCCGATG
* * *
25033373 CATGTCCTAAACATGTCTTACACTAGCCCTCGTCTCAATGCCGATG
1 CATGTCCTAGACATGTCTTACACT-GCCATCGTCTCGA-GCCGATG
25033419 CCATGTCCTAGA
1 -CATGTCCTAGA
25033431 ACGGTCTTAA
Statistics
Matches: 86, Mismatches: 12, Indels: 12
0.78 0.11 0.11
Matches are distributed among these distances:
45 4 0.05
46 54 0.63
47 28 0.33
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (44 bp):
CATGTCCTAGACATGTCTTACACTGCCATCGTCTCGAGCCGATG
Found at i:25039848 original size:17 final size:18
Alignment explanation
Indices: 25039826--25039864 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
25039816 TAGAATTGGG
25039826 TTGAAAAAATT-ATTTAA
1 TTGAAAAAATTAATTTAA
*
25039843 TTG-AAAAATTAATTTAT
1 TTGAAAAAATTAATTTAA
25039860 TTGAA
1 TTGAA
25039865 TTAATTTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 7 0.37
17 11 0.58
18 1 0.05
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.44
Consensus pattern (18 bp):
TTGAAAAAATTAATTTAA
Found at i:25045515 original size:52 final size:46
Alignment explanation
Indices: 25045433--25045655 Score: 159
Period size: 46 Copynumber: 4.6 Consensus size: 46
25045423 CTATACATAT
*
25045433 CGATGCCATGTCCCAGGCATGGTCTTACACTGACACATTGACACATCTCGTA-GC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTG--AC-TT---ACATCTCG-AGGC
*
25045487 CGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGACTTACATCTCGAGGC
* * * * *
25045533 CGATGCATGTCCCAGACATATCTTACACT-AGCTCTA-GTCTCAATGT
1 CGATGCATGTCCCAGACATGTCTTACACTGA-CT-TACATCTCGAGGC
* * * * *
25045579 TGATGCCATATCCCAGACATGGTCTTACACTGGCTCT-CATAAT-GTGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGACT-TACAT-CTCGAGGC
*
25045627 CGATGCATGTCCCAAACATGTCTTACACT
1 CGATGCATGTCCCAGACATGTCTTACACT
25045656 AGCACACAAA
Statistics
Matches: 140, Mismatches: 21, Indels: 24
0.76 0.11 0.13
Matches are distributed among these distances:
45 1 0.01
46 60 0.43
47 27 0.19
48 19 0.14
49 3 0.02
50 1 0.01
52 11 0.08
53 13 0.09
54 5 0.04
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTGACTTACATCTCGAGGC
Found at i:25045528 original size:46 final size:48
Alignment explanation
Indices: 25045475--25045655 Score: 189
Period size: 46 Copynumber: 3.9 Consensus size: 48
25045465 ACACATTGAC
25045475 ACATCTCGTA-GCCGATGCATGTCCCAGACATGTCTTACACTGGCT-T
1 ACATCTCGTAGGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCT
* *
25045521 ACATCTCG-AGGCCGATGCATGTCCCAGACATATCTTACACTAGCTCT
1 ACATCTCGTAGGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCT
* * * ** *
25045568 A-GTCTC-AATGTTGATGCCATATCCCAGACATGGTCTTACACTGGCTCT
1 ACATCTCGTAGGCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCT
* *
25045616 -CATAAT-GT-GGCCGATGCATGTCCCAAACATGTCTTACACT
1 ACAT-CTCGTAGGCCGATGCATGTCCCAGACATGTCTTACACT
25045656 AGCACACAAA
Statistics
Matches: 110, Mismatches: 17, Indels: 16
0.77 0.12 0.11
Matches are distributed among these distances:
45 1 0.01
46 61 0.55
47 27 0.25
48 20 0.18
49 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.28
Consensus pattern (48 bp):
ACATCTCGTAGGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCT
Found at i:25045605 original size:94 final size:92
Alignment explanation
Indices: 25045488--25045658 Score: 247
Period size: 94 Copynumber: 1.8 Consensus size: 92
25045478 TCTCGTAGCC
* * *
25045488 GATGCATGTCCCAGACATGTCTTACACTGGCT-TACAT-CTCGAGGCCGATGCATGTCCCAGACA
1 GATGCATATCCCAGACATGTCTTACACTGGCTCT-CATAAT-GAGGCCGATGCATGTCCCAAACA
25045551 TATCTTACACTAGCTCTAGTCTCAATGTT
64 TATCTTACACTAGCTCTAGTCTCAATGTT
*
25045580 GATGCCATATCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCCAAACA
1 GATG-CATATCCCAGACAT-GTCTTACACTGGCTCTCATAATGAGGCCGATGCATGTCCCAAACA
*
25045645 TGTCTTACACTAGC
64 TATCTTACACTAGC
25045659 ACACAAATAA
Statistics
Matches: 70, Mismatches: 5, Indels: 6
0.86 0.06 0.07
Matches are distributed among these distances:
92 4 0.06
93 13 0.19
94 51 0.73
95 2 0.03
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.28
Consensus pattern (92 bp):
GATGCATATCCCAGACATGTCTTACACTGGCTCTCATAATGAGGCCGATGCATGTCCCAAACATA
TCTTACACTAGCTCTAGTCTCAATGTT
Found at i:25050212 original size:40 final size:40
Alignment explanation
Indices: 25050157--25050416 Score: 411
Period size: 40 Copynumber: 6.6 Consensus size: 40
25050147 TATTCGAATG
*
25050157 ATATCTGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
25050197 ATATCCGGGCTAAGTCCCGAAGG--TTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
25050235 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
25050275 ATATCCGGGCTAAGTCCCAAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
25050315 ATATCCGGGCCAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
25050355 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
* *
25050395 AGATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
25050417 TACTTGGGTT
Statistics
Matches: 205, Mismatches: 12, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
38 38 0.19
39 14 0.07
40 151 0.74
41 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:25057338 original size:39 final size:39
Alignment explanation
Indices: 25057295--25057394 Score: 110
Period size: 39 Copynumber: 2.6 Consensus size: 39
25057285 CTTGTTTTTA
* *
25057295 AGTATTGTGATATATACTTAAATGTTATGCAATTATATG
1 AGTATTGTGATATATACTTAAACGTTATGCAATTATATC
** * * *
25057334 AGTATTACGATATGTGCTTAAACGTTATGTAATTATATC
1 AGTATTGTGATATATACTTAAACGTTATGCAATTATATC
* * *
25057373 TGTAATGTGATACATACTTAAA
1 AGTATTGTGATATATACTTAAA
25057395 AGTGAATATG
Statistics
Matches: 47, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.36, C:0.08, G:0.15, T:0.41
Consensus pattern (39 bp):
AGTATTGTGATATATACTTAAACGTTATGCAATTATATC
Found at i:25062764 original size:15 final size:14
Alignment explanation
Indices: 25062738--25062775 Score: 58
Period size: 15 Copynumber: 2.6 Consensus size: 14
25062728 ATTTATTATT
25062738 TTAATTTTAATTAA
1 TTAATTTTAATTAA
25062752 TTAATTTTCAATTAA
1 TTAATTTT-AATTAA
*
25062767 ATAATTTTA
1 TTAATTTTA
25062776 TCAATCAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (14 bp):
TTAATTTTAATTAA
Found at i:25063716 original size:54 final size:54
Alignment explanation
Indices: 25063653--25063762 Score: 211
Period size: 54 Copynumber: 2.0 Consensus size: 54
25063643 AGTATGAATG
*
25063653 AAAATATGCTAGGGTAATTATAATGTTGTGGAAAATCTCAAAGAATAAGTGGGA
1 AAAATATGCTAGGGTAATTATAATGTTGTGGAAAATCTCAAAGAATAAGTAGGA
25063707 AAAATATGCTAGGGTAATTATAATGTTGTGGAAAATCTCAAAGAATAAGTAGGA
1 AAAATATGCTAGGGTAATTATAATGTTGTGGAAAATCTCAAAGAATAAGTAGGA
25063761 AA
1 AA
25063763 GAGTTTGCCC
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.45, C:0.05, G:0.23, T:0.27
Consensus pattern (54 bp):
AAAATATGCTAGGGTAATTATAATGTTGTGGAAAATCTCAAAGAATAAGTAGGA
Found at i:25066655 original size:46 final size:45
Alignment explanation
Indices: 25066548--25066829 Score: 165
Period size: 46 Copynumber: 5.9 Consensus size: 45
25066538 CGGCCACATT
* *
25066548 ATGAGAGCCAGTGTAAGACCATGTTTGGGAAATGGCATCGGCATTGAG
1 ATGAGAG-CAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATTGAG
* * *
25066596 ATGAGAGCTAGTGTAAGACATGTCTGGGACATGTATTGGCCTTGAG
1 ATGAGAGC-AGTGTAAGACATGTCTGGGACATGCATCGGCATTGAG
* *
25066642 ATGTA-AGGCAGTGTAAGACATGTCTGGGACATGCATCAGC-TACGAG
1 ATG-AGA-GCAGTGTAAGACATGTCTGGGACATGCATCGGCAT-TGAG
**** * ** *
25066688 ATG-TTTTAGTGTGAGACCATGTCTGGGACATGGCATCGGCACGGAT
1 ATGAGAGCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATTGAG
* ** * * *
25066734 ATGTGAGAGCTAGTGTAAGACCATGTCTAGGACATGGTGTCGGCCTCGAT
1 A--TGAGAGC-AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATTGAG
* * *
25066784 TTCGATAGTCAGTGTAAGACCATGTCTGGGACATGGCATCGTCATT
1 AT-GAGAG-CAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATT
25066830 ATACCCTATG
Statistics
Matches: 184, Mismatches: 36, Indels: 27
0.74 0.15 0.11
Matches are distributed among these distances:
44 8 0.04
45 15 0.08
46 59 0.32
47 16 0.09
48 19 0.10
49 34 0.18
50 33 0.18
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (45 bp):
ATGAGAGCAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAG
Found at i:25066759 original size:50 final size:48
Alignment explanation
Indices: 25066694--25066824 Score: 149
Period size: 49 Copynumber: 2.7 Consensus size: 48
25066684 CGAGATGTTT
* *
25066694 TAGTGTGAGACCATGTCTGGGACATGGCATCGGCAC-GGATATGT-GAGAG
1 TAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCGAT-T-TCGAGAG
* ** *
25066743 CTAGTGTAAGACCATGTCTAGGACATGGTGTCGGCCTCGATTTCGATAG
1 -TAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATTTCGAGAG
25066792 TCAGTGTAAGACCATGTCTGGGACATGGCATCG
1 T-AGTGTAAGACCATGTCTGGGACATGGCATCG
25066825 TCATTATACC
Statistics
Matches: 69, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
48 2 0.03
49 34 0.49
50 33 0.48
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (48 bp):
TAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATTTCGAGAG
Found at i:25089756 original size:16 final size:16
Alignment explanation
Indices: 25089735--25089817 Score: 50
Period size: 16 Copynumber: 5.2 Consensus size: 16
25089725 ATACTCCTAT
25089735 TTTTTA-GTTAGTTTTA
1 TTTTTATGTTA-TTTTA
*
25089751 TTTTTATTTTATTTTA
1 TTTTTATGTTATTTTA
* *
25089767 TTTTAATTTTAATTTTAA
1 TTTTTATGTT-ATTTT-A
*
25089785 TTTTT-T-TTCATTTCA
1 TTTTTATGTT-ATTTTA
*
25089800 ATTTTA--TTATTTTA
1 TTTTTATGTTATTTTA
25089814 TTTT
1 TTTT
25089818 GAAAGACATA
Statistics
Matches: 55, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
14 8 0.15
15 7 0.13
16 26 0.47
17 9 0.16
18 5 0.09
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.73
Consensus pattern (16 bp):
TTTTTATGTTATTTTA
Found at i:25089760 original size:5 final size:5
Alignment explanation
Indices: 25089746--25089817 Score: 60
Period size: 6 Copynumber: 13.8 Consensus size: 5
25089736 TTTTAGTTAG
25089746 TTTTA TTTTTA TTTTA TTTTA TTTTAA TTTTAA TTTTAA TTTT- TTTTCA
1 TTTTA -TTTTA TTTTA TTTTA TTTT-A TTTT-A TTTT-A TTTTA TTTT-A
*
25089795 TTTCAA TTTTA --TTA TTTTA TTTT
1 TTT-TA TTTTA TTTTA TTTTA TTTT
25089818 GAAAGACATA
Statistics
Matches: 58, Mismatches: 2, Indels: 13
0.79 0.03 0.18
Matches are distributed among these distances:
3 3 0.05
4 4 0.07
5 22 0.38
6 29 0.50
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:25089812 original size:22 final size:21
Alignment explanation
Indices: 25089756--25089812 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 21
25089746 TTTTATTTTT
*
25089756 ATTTTATTTTATTTTAATTTTA
1 ATTTTATTTT-TTTTAATTTCA
*
25089778 ATTTTAATTTTTTTTCATTTCA
1 ATTTT-ATTTTTTTTAATTTCA
*
25089800 ATTTTATTATTTT
1 ATTTTATTTTTTT
25089813 ATTTTGAAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 7 0.23
22 19 0.61
23 5 0.16
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.72
Consensus pattern (21 bp):
ATTTTATTTTTTTTAATTTCA
Found at i:25104277 original size:19 final size:21
Alignment explanation
Indices: 25104239--25104278 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
25104229 TTGTTTCCTC
25104239 AGCCTCCTCAGGCTCCCATGT
1 AGCCTCCTCAGGCTCCCATGT
*
25104260 AGCCTCTTCA-GC-CCCATGT
1 AGCCTCCTCAGGCTCCCATGT
25104279 CTTTGCCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 2 0.11
21 9 0.50
ACGTcount: A:0.15, C:0.42, G:0.17, T:0.25
Consensus pattern (21 bp):
AGCCTCCTCAGGCTCCCATGT
Found at i:25118311 original size:17 final size:16
Alignment explanation
Indices: 25118283--25118332 Score: 57
Period size: 17 Copynumber: 3.0 Consensus size: 16
25118273 CATAGTTATA
25118283 AAAATTAATATTTTAAT
1 AAAATT-ATATTTTAAT
*
25118300 AATATTATTATTATT-AT
1 AAAATTA-TATT-TTAAT
25118317 AAAATTATATTTTAAT
1 AAAATTATATTTTAAT
25118333 GTAAAAAGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
15 2 0.07
16 7 0.25
17 17 0.61
18 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
AAAATTATATTTTAAT
Found at i:25118513 original size:21 final size:23
Alignment explanation
Indices: 25118488--25118540 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
25118478 ATGTTTTTAA
25118488 ATTTAA-A-AAGTTAGTCAAATT
1 ATTTAATATAAGTTAGTCAAATT
**
25118509 ATTTAATATTATTTTAGTCAAATT
1 ATTTAATA-TAAGTTAGTCAAATT
25118533 ATTTAATA
1 ATTTAATA
25118541 CTATTAAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 6 0.22
22 1 0.04
24 20 0.74
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.47
Consensus pattern (23 bp):
ATTTAATATAAGTTAGTCAAATT
Found at i:25118527 original size:24 final size:24
Alignment explanation
Indices: 25118498--25118545 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
25118488 ATTTAAAAAG
*
25118498 TTAGTCAAATTATTTAATATTATT
1 TTAGTCAAATTATTTAATACTATT
25118522 TTAGTCAAATTATTTAATACTATT
1 TTAGTCAAATTATTTAATACTATT
25118546 AAACTCAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.52
Consensus pattern (24 bp):
TTAGTCAAATTATTTAATACTATT
Found at i:25118553 original size:24 final size:24
Alignment explanation
Indices: 25118502--25118557 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
25118492 AAAAAGTTAG
* ** *
25118502 TCAAATTATTTAATATTATTTTAG
1 TCAAATTATTTAATACTATTAAAC
25118526 TCAAATTATTTAATACTATTAAAC
1 TCAAATTATTTAATACTATTAAAC
25118550 TC-AATTAT
1 TCAAATTAT
25118558 CAAATTATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
23 6 0.21
24 22 0.79
ACGTcount: A:0.41, C:0.09, G:0.02, T:0.48
Consensus pattern (24 bp):
TCAAATTATTTAATACTATTAAAC
Found at i:25119401 original size:43 final size:42
Alignment explanation
Indices: 25119363--25119442 Score: 110
Period size: 41 Copynumber: 1.9 Consensus size: 42
25119353 ATTTAGTGTT
**
25119363 GTTTTATAA-AAATTATTTAAATTAGGG-TTTAGGGTTTAGGG
1 GTTTTA-AATAAATTAACTAAATTAGGGTTTTAGGGTTTAGGG
25119404 GTTTTAAATAAATTAACTAAATTAGGGTTTTTAGGGTTT
1 GTTTTAAATAAATTAACTAAATTAGGG-TTTTAGGGTTT
25119443 TAAATAAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
40 2 0.06
41 22 0.65
43 10 0.29
ACGTcount: A:0.33, C:0.01, G:0.21, T:0.45
Consensus pattern (42 bp):
GTTTTAAATAAATTAACTAAATTAGGGTTTTAGGGTTTAGGG
Found at i:25119495 original size:88 final size:90
Alignment explanation
Indices: 25119380--25119594 Score: 305
Period size: 88 Copynumber: 2.4 Consensus size: 90
25119370 AAAAATTATT
* * *
25119380 TAAATTAGGGTTTAGGGTTTAGGGGTTTTAAATAAATTAACTAAATTAGGGTTTTTAGGGTTTTA
1 TAAATTAGGATTTAGGGTTTA-TGGTTTTAAATAAATTAACTAAATTAGGG-TTCTAGGGTTTTA
25119445 AATAAATT-AAG-TTAGGG-TTTTAAA
64 AATAAATTAAAGTTTAGGGTTTTTAAA
* * *
25119469 TAATTTAGGATTTAGGATTTATGGTTTTAAATAAATTAAGTAAATTAGGGTTCTAGGGTTTTAAA
1 TAAATTAGGATTTAGGGTTTATGGTTTTAAATAAATTAACTAAATTAGGGTTCTAGGGTTTTAAA
25119534 TAAATTAAAGTTTAGGGTTTTTAAA
66 TAAATTAAAGTTTAGGGTTTTTAAA
* *
25119559 TAAACTA--AGTTAGGGTTTATGGTTTTAAATAAATTA
1 TAAATTAGGATTTAGGGTTTATGGTTTTAAATAAATTA
25119595 GGGTTTATGG
Statistics
Matches: 113, Mismatches: 10, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
87 20 0.18
88 57 0.50
89 24 0.21
90 12 0.11
ACGTcount: A:0.36, C:0.01, G:0.20, T:0.42
Consensus pattern (90 bp):
TAAATTAGGATTTAGGGTTTATGGTTTTAAATAAATTAACTAAATTAGGGTTCTAGGGTTTTAAA
TAAATTAAAGTTTAGGGTTTTTAAA
Found at i:25119532 original size:25 final size:24
Alignment explanation
Indices: 25119504--25119643 Score: 154
Period size: 25 Copynumber: 5.5 Consensus size: 24
25119494 TTTAAATAAA
*
25119504 TTAAGTAAATTAGGGTTCTAGGGTT
1 TTAAATAAATTAGGGTT-TAGGGTT
**
25119529 TTAAATAAATTAAAGTTTAGGGTTT
1 TTAAATAAATTAGGGTTTAGGG-TT
*
25119554 TTAAATAAACTAAGTTAGGGTTTATGGTT
1 TTAAAT--A--AA-TTAGGGTTTAGGGTT
*
25119583 TTAAATAAATTAGGGTTTATGGTT
1 TTAAATAAATTAGGGTTTAGGGTT
*
25119607 TTAAATAAATTAGGGTTCTAGGATT
1 TTAAATAAATTAGGGTT-TAGGGTT
25119632 TTAAATAAATTA
1 TTAAATAAATTA
25119644 AATTAGAGTT
Statistics
Matches: 100, Mismatches: 8, Indels: 14
0.82 0.07 0.11
Matches are distributed among these distances:
24 37 0.37
25 41 0.41
27 2 0.02
29 10 0.10
30 10 0.10
ACGTcount: A:0.36, C:0.02, G:0.19, T:0.42
Consensus pattern (24 bp):
TTAAATAAATTAGGGTTTAGGGTT
Found at i:25119533 original size:34 final size:32
Alignment explanation
Indices: 25119456--25119541 Score: 102
Period size: 34 Copynumber: 2.7 Consensus size: 32
25119446 ATAAATTAAG
* * *
25119456 TTAGGGTTTTAAAT-AATTTAGGATTTAGGAT
1 TTAGGGTTTTAAATAAATTAAGAAATTAGGAT
* *
25119487 TTATGGTTTTAAATAAATTAAGTAAATTAGGGT
1 TTAGGGTTTTAAATAAATTAAG-AAATTAGGAT
25119520 TCTAGGGTTTTAAATAAATTAA
1 T-TAGGGTTTTAAATAAATTAA
25119542 AGTTTAGGGT
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
31 13 0.28
32 6 0.13
33 8 0.17
34 19 0.41
ACGTcount: A:0.37, C:0.01, G:0.19, T:0.43
Consensus pattern (32 bp):
TTAGGGTTTTAAATAAATTAAGAAATTAGGAT
Found at i:25119614 original size:78 final size:80
Alignment explanation
Indices: 25119504--25119684 Score: 215
Period size: 78 Copynumber: 2.2 Consensus size: 80
25119494 TTTAAATAAA
* * *
25119504 TTAAGTAAATTAGGGTTCTAGGGTTTTAAATAAATTAAAGTT-TAGGGTTTTTAAATAAACTAAG
1 TTAAATAAATTAGGGTT-TAGGGTTTTAAATAAATTAAAGTTCTA-GGATTTTAAATAAACTAAA
* *
25119568 TTAGGGTTTATGG-T-T
64 TTAGAGTTTAGGGTTAT
* ** *
25119583 TTAAATAAATTAGGGTTTATGGTTTTAAATAAATTAGGGTTCTAGGATTTTAAATAAATTAAATT
1 TTAAATAAATTAGGGTTTAGGGTTTTAAATAAATTAAAGTTCTAGGATTTTAAATAAACTAAATT
25119648 AGAGTTTAGGGTTAAAT
66 AGAGTTTAGGGTT--AT
*
25119665 TTAATTAAATTAGGGTTTAG
1 TTAAATAAATTAGGGTTTAG
25119685 TTTTTTTTTA
Statistics
Matches: 86, Mismatches: 11, Indels: 7
0.83 0.11 0.07
Matches are distributed among these distances:
78 48 0.56
79 19 0.22
82 19 0.22
ACGTcount: A:0.36, C:0.02, G:0.20, T:0.42
Consensus pattern (80 bp):
TTAAATAAATTAGGGTTTAGGGTTTTAAATAAATTAAAGTTCTAGGATTTTAAATAAACTAAATT
AGAGTTTAGGGTTAT
Found at i:25119646 original size:54 final size:53
Alignment explanation
Indices: 25119504--25119660 Score: 134
Period size: 54 Copynumber: 3.0 Consensus size: 53
25119494 TTTAAATAAA
* *
25119504 TTAAGTAAATTAGGGTTCTAGGGTTTTAAATAAATTAAAGTTTAGGGTTT-T--TAA
1 TTAAATAAATTAGGGTTCTA-GGTTTTAAATAAATTAAA--TTAGGGTTTATGGT-T
* *
25119558 ATAAACTAAGTTAGGGTT-TATGG-TTT---TAAA-TAAATTAGGGTTTATGGTT
1 TTAAA-TAAATTAGGGTTCTA-GGTTTTAAATAAATTAAATTAGGGTTTATGGTT
* *
25119607 TTAAATAAATTAGGGTTCTAGGATTTTAAATAAATTAAATTAGAGTTTAGGGTT
1 TTAAATAAATTAGGGTTCTAGG-TTTTAAATAAATTAAATTAGGGTTTATGGTT
25119661 AAATTTAATT
Statistics
Matches: 83, Mismatches: 9, Indels: 22
0.73 0.08 0.19
Matches are distributed among these distances:
47 9 0.11
48 14 0.17
49 10 0.12
50 8 0.10
53 7 0.08
54 24 0.29
55 11 0.13
ACGTcount: A:0.36, C:0.02, G:0.20, T:0.42
Consensus pattern (53 bp):
TTAAATAAATTAGGGTTCTAGGTTTTAAATAAATTAAATTAGGGTTTATGGTT
Found at i:25119978 original size:126 final size:126
Alignment explanation
Indices: 25119746--25120123 Score: 546
Period size: 126 Copynumber: 3.0 Consensus size: 126
25119736 TTGTACCCTA
*
25119746 AAAAAATAATTTTGAGAAAACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGTAGGATGCAC
1 AAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGTAGGATGCAC
* * * * *
25119811 TG-CAAGCAAAAATACAAAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTCTTG
66 TGTC-AGCAAAATTACGAAAAAAAGCTCCCACGTGGATGCTCTTTTTCTATAGTAGTTCATG
* * *
25119872 AAAAAATAATTTTGAGAAGACATTTCTGAACAAATAGTGTCAAAAACACTTCAAGTAGGATGTAC
1 AAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGTAGGATGCAC
* *
25119937 TGTCAGCAAAATTACGAAAAAAAGCTACCACGTCGATGCTCTTTTTCTATAGTAGTTCATG
66 TGTCAGCAAAATTACGAAAAAAAGCTCCCACGTGGATGCTCTTTTTCTATAGTAGTTCATG
* * * * * *
25119998 AAAAAATAATTTTGAGAAGACGTTTCTAAACAAATAGTGTCAAAAGCGTTTCAAGCACGATGCAA
1 AAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGTAGGATGCAC
* *
25120063 TGTCAGCAAAATTTCTG--AAAAAGCTCCCACATGGATGCTCTTTTTCTATAGTAGTTCATG
66 TGTCAGCAAAATTAC-GAAAAAAAGCTCCCACGTGGATGCTCTTTTTCTATAGTAGTTCATG
25120123 A
1 A
25120124 TTGACCTTAG
Statistics
Matches: 226, Mismatches: 24, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
125 41 0.18
126 183 0.81
127 2 0.01
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.28
Consensus pattern (126 bp):
AAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGTAGGATGCAC
TGTCAGCAAAATTACGAAAAAAAGCTCCCACGTGGATGCTCTTTTTCTATAGTAGTTCATG
Found at i:25124271 original size:25 final size:24
Alignment explanation
Indices: 25124234--25124285 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 24
25124224 ATTGTTATAA
* *
25124234 AAAATTATAAAAT-AAAAATTAATT
1 AAAATTACAAAATGAAAAAAT-ATT
25124258 AAAATTACATAAATGAAAAAATATT
1 AAAATTACA-AAATGAAAAAATATT
25124283 AAA
1 AAA
25124286 TAATATTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 8 0.33
25 10 0.42
26 6 0.25
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (24 bp):
AAAATTACAAAATGAAAAAATATT
Found at i:25124283 original size:19 final size:19
Alignment explanation
Indices: 25124261--25124326 Score: 71
Period size: 19 Copynumber: 3.5 Consensus size: 19
25124251 ATTAATTAAA
*
25124261 ATTACATAAATGAAAAAAT
1 ATTAAATAAATGAAAAAAT
** *
25124280 ATTAAATAATATTTAAAACT
1 ATTAAATAA-ATGAAAAAAT
*
25124300 -TAAAATAAATGAAAAAAT
1 ATTAAATAAATGAAAAAAT
25124318 ATTAAATAA
1 ATTAAATAA
25124327 TATTCAAATT
Statistics
Matches: 36, Mismatches: 9, Indels: 4
0.73 0.18 0.08
Matches are distributed among these distances:
18 7 0.19
19 22 0.61
20 7 0.19
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (19 bp):
ATTAAATAAATGAAAAAAT
Found at i:25124314 original size:38 final size:38
Alignment explanation
Indices: 25124266--25124346 Score: 135
Period size: 38 Copynumber: 2.1 Consensus size: 38
25124256 TTAAAATTAC
*
25124266 ATAAATGAAAAAATATTAAATAATATTTAAAACTTAAA
1 ATAAATGAAAAAATATTAAATAATATTCAAAACTTAAA
**
25124304 ATAAATGAAAAAATATTAAATAATATTCAAATTTTAAA
1 ATAAATGAAAAAATATTAAATAATATTCAAAACTTAAA
25124342 ATAAA
1 ATAAA
25124347 CCGTTACCAT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.32
Consensus pattern (38 bp):
ATAAATGAAAAAATATTAAATAATATTCAAAACTTAAA
Found at i:25124534 original size:21 final size:21
Alignment explanation
Indices: 25124501--25124544 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
25124491 TATAAAGAGT
*
25124501 TTTGAGAAATTTAATGAGAAA
1 TTTGAGAAATTTAAGGAGAAA
** *
25124522 TTTGAGAGCTTTAGGGAGAAA
1 TTTGAGAAATTTAAGGAGAAA
25124543 TT
1 TT
25124545 GTAGAGATTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.39, C:0.02, G:0.25, T:0.34
Consensus pattern (21 bp):
TTTGAGAAATTTAAGGAGAAA
Found at i:25139400 original size:30 final size:30
Alignment explanation
Indices: 25139364--25139423 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
25139354 TTCCCGAGCC
* *
25139364 TAGGGGCAAAAGTGTAATTATGCCAAAGTT
1 TAGGGGCAAAAATGTAATTATACCAAAGTT
*
25139394 TAGGGGCAAAAATGTAATTTTACCAAAGTT
1 TAGGGGCAAAAATGTAATTATACCAAAGTT
25139424 CGTATTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.38, C:0.10, G:0.23, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATACCAAAGTT
Found at i:25144893 original size:46 final size:46
Alignment explanation
Indices: 25144792--25144914 Score: 115
Period size: 46 Copynumber: 2.6 Consensus size: 46
25144782 ATTGTGTGCT
*
25144792 AGTGTAAGACATGTCTGGGACATGCATCGTCCTCGAGACATAAGCC
1 AGTGTAAGACATGCCTGGGACATGCATCGTCCTCGAGACATAAGCC
** * * * *
25144838 AACGAAAGACATGCCTGGGACATGCATCG-GCTACGAGATGAT-AGTC
1 AGTGTAAGACATGCCTGGGACATGCATCGTCCT-CGAGA-CATAAGCC
* *
25144884 AGTGTAAGACCATGCCAGGGACTTGGCATCG
1 AGTGTAAGA-CATGCCTGGGACAT-GCATCG
25144915 ACACCTTACT
Statistics
Matches: 61, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
45 2 0.03
46 39 0.64
47 14 0.23
48 6 0.10
ACGTcount: A:0.29, C:0.23, G:0.28, T:0.20
Consensus pattern (46 bp):
AGTGTAAGACATGCCTGGGACATGCATCGTCCTCGAGACATAAGCC
Found at i:25149092 original size:55 final size:55
Alignment explanation
Indices: 25148988--25149102 Score: 126
Period size: 55 Copynumber: 2.1 Consensus size: 55
25148978 CAAAGTTGTG
* *
25148988 CACGGGTAGGCCACACGGGCGTGCGCCATGGCCGTGTTAAAATGACAGTGTCGTC
1 CACGGGTAGGCCACACGGGCGTGCGCCAAGGCCGTGTTAAAATGACAGTGTCGCC
* ** * * *
25149043 CACGGGTAGG-CAGTACGGGCGTGTTCCAAGGCCGTGTTGATAA-GTCAGTGTTGCC
1 CACGGGTAGGCCA-CACGGGCGTGCGCCAAGGCCGTGTT-AAAATGACAGTGTCGCC
25149098 CACGG
1 CACGG
25149103 TTGAAGGGCA
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
54 2 0.04
55 45 0.90
56 3 0.06
ACGTcount: A:0.19, C:0.25, G:0.36, T:0.20
Consensus pattern (55 bp):
CACGGGTAGGCCACACGGGCGTGCGCCAAGGCCGTGTTAAAATGACAGTGTCGCC
Found at i:25151577 original size:23 final size:23
Alignment explanation
Indices: 25151551--25151595 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
25151541 GTTAAGAGTG
25151551 AAAGAGCAAGATGTACCGAAGAT
1 AAAGAGCAAGATGTACCGAAGAT
25151574 AAAGAGCAAGATGTACCGAAGA
1 AAAGAGCAAGATGTACCGAAGA
25151596 CTGCATTTCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.49, C:0.13, G:0.27, T:0.11
Consensus pattern (23 bp):
AAAGAGCAAGATGTACCGAAGAT
Found at i:25155365 original size:47 final size:47
Alignment explanation
Indices: 25155300--25155560 Score: 175
Period size: 47 Copynumber: 5.6 Consensus size: 47
25155290 GTGAGCTAGA
* * *
25155300 GTAAGACATGTTTAGGACAT-GCATCGGCCATATTATGA-GAGCCAGT
1 GTAAGACATGTCTGGGACATGGCATCGGCCATA-GATGACGAGCCAGT
* *
25155346 GTAAGACCATGTCTGGGACATGGCATCGG-CATTGA-GACGAGTGCTAGT
1 GTAAGA-CATGTCTGGGACATGGCATCGGCCATAGATGACGA--GCCAGT
* * * *
25155394 GTAAGACATGTCTGGGACAT-GCATCAGTC-TCGA-GACGTAAGCTAGT
1 GTAAGACATGTCTGGGACATGGCATCGGCCATAGATGACG--AGCCAGT
* * * * * *
25155440 GAAAGACATGTCTGGGACAT-GCATCAGCTACGAGATGA-TAGTCAGT
1 GTAAGACATGTCTGGGACATGGCATCGGCCA-TAGATGACGAGCCAGT
** * * *
25155486 GTAAGACCATGTCCAGGACATGGCATC-GACTTGAGAT-ATGAGCCAGT
1 GTAAGA-CATGTCTGGGACATGGCATCGGCCAT-AGATGACGAGCCAGT
25155533 GTAAGACCATGTCTGGGACATGGCATCG
1 GTAAGA-CATGTCTGGGACATGGCATCG
25155561 ACACCTTACC
Statistics
Matches: 173, Mismatches: 26, Indels: 30
0.76 0.11 0.13
Matches are distributed among these distances:
45 2 0.01
46 65 0.38
47 78 0.45
48 26 0.15
49 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (47 bp):
GTAAGACATGTCTGGGACATGGCATCGGCCATAGATGACGAGCCAGT
Found at i:25155561 original size:47 final size:47
Alignment explanation
Indices: 25155338--25155562 Score: 212
Period size: 47 Copynumber: 4.8 Consensus size: 47
25155328 CATATTATGA
* * *
25155338 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGA-
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGAC-TCGAGA-TAT
* * * **
25155386 GTGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGTCTCGAGACGT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-GACTCGAGATAT
* * *
25155432 AAGCTAGTGAAAGA-CATGTCTGGGACAT-GCATC-AGCTACGAGATGAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGA-CT-CGAGAT-AT
* ** *
25155479 -AGTCAGTGTAAGACCATGTCCAGGACATGGCATCGACTTGAGATAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTCGAGATAT
25155525 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGAC
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGAC
25155563 ACCTTACCCC
Statistics
Matches: 147, Mismatches: 21, Indels: 19
0.79 0.11 0.10
Matches are distributed among these distances:
45 2 0.01
46 57 0.39
47 68 0.46
48 19 0.13
49 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (47 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTCGAGATAT
Found at i:25160781 original size:215 final size:215
Alignment explanation
Indices: 25160405--25160837 Score: 731
Period size: 215 Copynumber: 2.0 Consensus size: 215
25160395 TTGGTTGCCC
* ** *
25160405 CTTCGAACCATGCATTTATCGAGGATACAGTTTGGTTCCTTAAGTATAGCTCCATCAAAACCTAT
1 CTTCAAACCATGCATTTATCGAGGATACAACTTGGTTCCTTAAGTATAACTCCATCAAAACCTAT
* *
25160470 TGAAGGAAGAGTCAATTGAGTTAGCTACTTCCCAACATGGCGTTTAAGTTGAGACACATGGAAGG
66 TGAAGGAAGAGTCAATTGAGTTAGCTACTTCCCAACATGGCGTTTAAGCTGAGACACATGAAAGG
* *
25160535 TAGGGTGGATTTGAGTGCCTGGTGGCAATTGGAGCTTATATGCTACCTTTCCAACTTTAGCCTCC
131 TAGGGTGGATTTGAGTGCCTGGAGGCAATTGGAGCTTAAATGCTACCTTTCCAACTTTAGCCTCC
* * *
25160600 ATAATAAAAGGACCAAAAAA
196 ACAAAAAAAGAACCAAAAAA
*
25160620 CTTCAAACCATGCATTTATCGGGGATACAACTTGGTTCCTTAAGTATAACTCCATCAAAACCTAT
1 CTTCAAACCATGCATTTATCGAGGATACAACTTGGTTCCTTAAGTATAACTCCATCAAAACCTAT
* * *
25160685 TGGAGGCAGAGTCAATTGGGTTAGCTACTTCCCAACATGGCGTTTAAGCTGAGACACATGAAAGG
66 TGAAGGAAGAGTCAATTGAGTTAGCTACTTCCCAACATGGCGTTTAAGCTGAGACACATGAAAGG
25160750 TAGGGTGGATTTGAGTGCCTGGAGGCAATTGGAGCTTAAATGCTACCTTTCCAACTTTAGCCTCC
131 TAGGGTGGATTTGAGTGCCTGGAGGCAATTGGAGCTTAAATGCTACCTTTCCAACTTTAGCCTCC
25160815 ACAAAAAAAGAACCAAAAAA
196 ACAAAAAAAGAACCAAAAAA
25160835 CTT
1 CTT
25160838 GGGACAGAGT
Statistics
Matches: 203, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
215 203 1.00
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.27
Consensus pattern (215 bp):
CTTCAAACCATGCATTTATCGAGGATACAACTTGGTTCCTTAAGTATAACTCCATCAAAACCTAT
TGAAGGAAGAGTCAATTGAGTTAGCTACTTCCCAACATGGCGTTTAAGCTGAGACACATGAAAGG
TAGGGTGGATTTGAGTGCCTGGAGGCAATTGGAGCTTAAATGCTACCTTTCCAACTTTAGCCTCC
ACAAAAAAAGAACCAAAAAA
Found at i:25170708 original size:33 final size:32
Alignment explanation
Indices: 25170647--25170709 Score: 81
Period size: 34 Copynumber: 1.9 Consensus size: 32
25170637 GCTTGCCCTC
* *
25170647 AAAAAAACTAAACGAAAGCAAAATAAAAACCA
1 AAAAAAACTAAACAAAAACAAAATAAAAACCA
*
25170679 AAAACAAACTAAACAAAAAACAAAAAAAAAA
1 AAAA-AAACTAAAC-AAAAACAAAATAAAAA
25170710 TTCAAGAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 4 0.15
33 9 0.35
34 13 0.50
ACGTcount: A:0.78, C:0.14, G:0.03, T:0.05
Consensus pattern (32 bp):
AAAAAAACTAAACAAAAACAAAATAAAAACCA
Found at i:25171921 original size:13 final size:13
Alignment explanation
Indices: 25171886--25171914 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
25171876 TAAAACTATG
25171886 AAAAAC-TAGAAT
1 AAAAACATAGAAT
25171898 AAAAACATAGAAT
1 AAAAACATAGAAT
25171911 AAAA
1 AAAA
25171915 TAATAGACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.38
13 10 0.62
ACGTcount: A:0.72, C:0.07, G:0.07, T:0.14
Consensus pattern (13 bp):
AAAAACATAGAAT
Found at i:25180093 original size:26 final size:27
Alignment explanation
Indices: 25180064--25180123 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
25180054 AACCATAAAA
25180064 TCAAACATTAA-AACC-AATATAACGTC
1 TCAAACATTAATAACCAAATATAA-GTC
* *
25180090 TCAAA-ATTAATATCCAAATGTAAGTC
1 TCAAACATTAATAACCAAATATAAGTC
25180116 TCAAACAT
1 TCAAACAT
25180124 CCATTACAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
25 5 0.17
26 16 0.55
27 8 0.28
ACGTcount: A:0.48, C:0.20, G:0.05, T:0.27
Consensus pattern (27 bp):
TCAAACATTAATAACCAAATATAAGTC
Found at i:25180675 original size:59 final size:59
Alignment explanation
Indices: 25180608--25180724 Score: 216
Period size: 59 Copynumber: 2.0 Consensus size: 59
25180598 GTTAGATAAA
*
25180608 CAAAACTCCAATCTTCGAAATATCAAATACCATACTCTGGTTGAGTGGGGCATAGCCAG
1 CAAAACTCCAATCTTCCAAATATCAAATACCATACTCTGGTTGAGTGGGGCATAGCCAG
*
25180667 CAAAACTCCAATCTTCCAAATATCGAATACCATACTCTGGTTGAGTGGGGCATAGCCA
1 CAAAACTCCAATCTTCCAAATATCAAATACCATACTCTGGTTGAGTGGGGCATAGCCA
25180725 TACACTCCCT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 56 1.00
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (59 bp):
CAAAACTCCAATCTTCCAAATATCAAATACCATACTCTGGTTGAGTGGGGCATAGCCAG
Found at i:25186025 original size:24 final size:23
Alignment explanation
Indices: 25185985--25186029 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
25185975 ATTTATTTAC
25185985 TTATTATTTAAGAAATAATAATTA
1 TTATTATTTAAGAAAT-ATAATTA
*
25186009 TTATTA-TTAAGTTAATATAAT
1 TTATTATTTAAG-AAATATAAT
25186030 AATATAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (23 bp):
TTATTATTTAAGAAATATAATTA
Found at i:25186699 original size:12 final size:12
Alignment explanation
Indices: 25186682--25186706 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
25186672 GCCGACTATT
25186682 GTTACTGTTACC
1 GTTACTGTTACC
25186694 GTTACTGTTACC
1 GTTACTGTTACC
25186706 G
1 G
25186707 ATTCGACACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (12 bp):
GTTACTGTTACC
Found at i:25186734 original size:45 final size:45
Alignment explanation
Indices: 25186684--25186794 Score: 170
Period size: 45 Copynumber: 2.5 Consensus size: 45
25186674 CGACTATTGT
* *
25186684 TACTGTTACCGTTACTGTTACCGATTC-GACACTTTGTGTGTCGAA
1 TACTGTTACTGTTACTGTTACAGATTCAG-CACTTTGTGTGTCGAA
* *
25186729 TACTGTTACTGTTACTGTTACATATTCAGCACTTTGTGTGTTGAA
1 TACTGTTACTGTTACTGTTACAGATTCAGCACTTTGTGTGTCGAA
25186774 TACTGTTACTGTTACTGTTAC
1 TACTGTTACTGTTACTGTTAC
25186795 TGCTACTGCT
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
45 60 0.98
46 1 0.02
ACGTcount: A:0.21, C:0.19, G:0.18, T:0.42
Consensus pattern (45 bp):
TACTGTTACTGTTACTGTTACAGATTCAGCACTTTGTGTGTCGAA
Found at i:25186785 original size:6 final size:6
Alignment explanation
Indices: 25186774--25186821 Score: 60
Period size: 6 Copynumber: 7.8 Consensus size: 6
25186764 GTGTGTTGAA
* * *
25186774 TACTGT TACTGT TACTGT TACTGC TACTGC TACCGT TACTGAT TACTG
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACTGT TACTG-T TACTG
25186822 ATTAGGTACT
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
6 31 0.84
7 6 0.16
ACGTcount: A:0.19, C:0.23, G:0.17, T:0.42
Consensus pattern (6 bp):
TACTGT
Found at i:25189287 original size:368 final size:368
Alignment explanation
Indices: 25188610--25189346 Score: 1474
Period size: 368 Copynumber: 2.0 Consensus size: 368
25188600 TTATACTGGC
25188610 ACTCATAATGTGGCCGATGCATGTCCTAGACATGTCTTACACTGGCACACAAGAAATCCGATCGT
1 ACTCATAATGTGGCCGATGCATGTCCTAGACATGTCTTACACTGGCACACAAGAAATCCGATCGT
25188675 TATGGCATGAATACCCAGTTTGTTTCCTAGGGTCCCAACTAGACCATTCTACTATTTCAATCATG
66 TATGGCATGAATACCCAGTTTGTTTCCTAGGGTCCCAACTAGACCATTCTACTATTTCAATCATG
25188740 AAAATACAATCTCAGTTCACAATCTAGCAAATCATATTATATCAATCTAATGAAAATTCAAATAC
131 AAAATACAATCTCAGTTCACAATCTAGCAAATCATATTATATCAATCTAATGAAAATTCAAATAC
25188805 GTACATTAACGATGTAGTTGAATTATTGACATACAACTTACCTCGATTTACAAAATGCACTCGAC
196 GTACATTAACGATGTAGTTGAATTATTGACATACAACTTACCTCGATTTACAAAATGCACTCGAC
25188870 TAGTTGGTTTAGTCGGATTGTTTTGCTTTGCCCCAGTCTAGGTTTGATTTTGGAAAATCTTGATC
261 TAGTTGGTTTAGTCGGATTGTTTTGCTTTGCCCCAGTCTAGGTTTGATTTTGGAAAATCTTGATC
25188935 TATAATAAAAAAAGCACTCATTTAGTCACTAATTATAATTACG
326 TATAATAAAAAAAGCACTCATTTAGTCACTAATTATAATTACG
25188978 ACTCATAATGTGGCCGATGCATGTCCTAGACATGTCTTACACTGGCACACAAGAAATCCGATCGT
1 ACTCATAATGTGGCCGATGCATGTCCTAGACATGTCTTACACTGGCACACAAGAAATCCGATCGT
25189043 TATGGCATGAATACCCAGTTTGTTTCCTAGGGTCCCAACTAGACCATTCTACTATTTCAATCATG
66 TATGGCATGAATACCCAGTTTGTTTCCTAGGGTCCCAACTAGACCATTCTACTATTTCAATCATG
25189108 AAAATACAATCTCAGTTCACAATCTAGCAAATCATATTATATCAATCTAATGAAAATTCAAATAC
131 AAAATACAATCTCAGTTCACAATCTAGCAAATCATATTATATCAATCTAATGAAAATTCAAATAC
25189173 GTACATTAACGATGTAGTTGAATTATTGACATACAACTTACCTCGATTTACAAAATGCACTCGAC
196 GTACATTAACGATGTAGTTGAATTATTGACATACAACTTACCTCGATTTACAAAATGCACTCGAC
25189238 TAGTTGGTTTAGTCGGATTGTTTTGCTTTGCCCCAGTCTAGGTTTGATTTTGGAAAATCTTGATC
261 TAGTTGGTTTAGTCGGATTGTTTTGCTTTGCCCCAGTCTAGGTTTGATTTTGGAAAATCTTGATC
25189303 TATAATAAAAAAAGCACTCATTTAGTCACTAATTATAATTACG
326 TATAATAAAAAAAGCACTCATTTAGTCACTAATTATAATTACG
25189346 A
1 A
25189347 AACCTCTGAA
Statistics
Matches: 369, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
368 369 1.00
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.33
Consensus pattern (368 bp):
ACTCATAATGTGGCCGATGCATGTCCTAGACATGTCTTACACTGGCACACAAGAAATCCGATCGT
TATGGCATGAATACCCAGTTTGTTTCCTAGGGTCCCAACTAGACCATTCTACTATTTCAATCATG
AAAATACAATCTCAGTTCACAATCTAGCAAATCATATTATATCAATCTAATGAAAATTCAAATAC
GTACATTAACGATGTAGTTGAATTATTGACATACAACTTACCTCGATTTACAAAATGCACTCGAC
TAGTTGGTTTAGTCGGATTGTTTTGCTTTGCCCCAGTCTAGGTTTGATTTTGGAAAATCTTGATC
TATAATAAAAAAAGCACTCATTTAGTCACTAATTATAATTACG
Found at i:25190878 original size:14 final size:16
Alignment explanation
Indices: 25190855--25190886 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
25190845 AGATTCACAT
25190855 ACCAAGATATAA-TCA
1 ACCAAGATATAATTCA
25190870 ACCAA-ATATAATTCA
1 ACCAAGATATAATTCA
25190885 AC
1 AC
25190887 ATACCATCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.53, C:0.22, G:0.03, T:0.22
Consensus pattern (16 bp):
ACCAAGATATAATTCA
Found at i:25198439 original size:54 final size:53
Alignment explanation
Indices: 25198350--25198459 Score: 175
Period size: 54 Copynumber: 2.1 Consensus size: 53
25198340 CGGACTTGCT
* **
25198350 TCTCAACATACACGAACTTCCATTGTTTTTGCTCAAAATCCTACTTTGGACGC
1 TCTCAACATACACAAACTTCCATTGTTTTCACTCAAAATCCTACTTTGGACGC
*
25198403 TNCTCAACATACACAAACTTCCATTGTTTTCACTCAAAATCCTACTTTGGAGGC
1 T-CTCAACATACACAAACTTCCATTGTTTTCACTCAAAATCCTACTTTGGACGC
25198457 TCT
1 TCT
25198460 TCTTGTCCAT
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
53 3 0.06
54 49 0.94
ACGTcount: A:0.27, C:0.28, G:0.10, T:0.34
Consensus pattern (53 bp):
TCTCAACATACACAAACTTCCATTGTTTTCACTCAAAATCCTACTTTGGACGC
Found at i:25204392 original size:43 final size:43
Alignment explanation
Indices: 25204328--25204499 Score: 211
Period size: 43 Copynumber: 4.0 Consensus size: 43
25204318 TCTGAATTCA
* * **
25204328 TTCACCGGTATT-TCGCCTGCTAGGCTTGAAGCCCGATATCAT
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
* ** *
25204370 TTCACCGGCATTATAGCCTGCTAGGCCCGAGGCCTTTATATTAT
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCC-CGATATCAT
* *
25204414 CTCACCGGTATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
* *
25204457 TTCACCGACATTATAGCCTGCTAGGCTCGAAGCCCGTATATCA
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCG-ATATCA
25204500 CATTTCGATA
Statistics
Matches: 109, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
42 11 0.10
43 55 0.50
44 43 0.39
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (43 bp):
TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
Found at i:25204497 original size:87 final size:86
Alignment explanation
Indices: 25204329--25204497 Score: 257
Period size: 87 Copynumber: 2.0 Consensus size: 86
25204319 CTGAATTCAT
* ** *
25204329 TCACCGGTATTTCGCCTGCTAGGCTTGAAGCCCGATATCATTTCACCGGCATTATAGCCTGCTAG
1 TCACCGGTATTTAGCCTGCTAGGCCCGAAGCCCGATATCATTTCACCGACATTATAGCCTGCTAG
* **
25204394 GCCCGAGGCCTTTATATTATC
66 GCCCGAAGCCCGTATATTATC
25204415 TCACCGGTATTATAGCCTGCTAGGCCCGAAGCCCGATATCATTTCACCGACATTATAGCCTGCTA
1 TCACCGGTATT-TAGCCTGCTAGGCCCGAAGCCCGATATCATTTCACCGACATTATAGCCTGCTA
*
25204480 GGCTCGAAGCCCGTATAT
65 GGCCCGAAGCCCGTATAT
25204498 CACATTTCGA
Statistics
Matches: 74, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
86 11 0.15
87 63 0.85
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.28
Consensus pattern (86 bp):
TCACCGGTATTTAGCCTGCTAGGCCCGAAGCCCGATATCATTTCACCGACATTATAGCCTGCTAG
GCCCGAAGCCCGTATATTATC
Done.