Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 16 of 292
Found at i:4459157 original size:131 final size:131
Alignment explanation
Indices: 4458759--4459175 Score: 331
Period size: 131 Copynumber: 3.2 Consensus size: 131
4458749 TCCATCCTAT
* * * * * * *
4458759 CTCCATAAGAAGTAGTGGAGTAGGTTGAAGATTGTAGATCTTGTCTCCTTGAAGTTGTAGTGGAA
1 CTCCCTAAGTAGTAGTGAAGTAGGCTGAAGATTGCAGATCTTGTCTCCCTGAAGTTGCAGTGGAA
* ** * * *** * * * * * *
4458824 CAGATCGAAA-ATGGCGAACCTTGTCTCTCTGAAGTTGTAGTGGAGCAGATTTAAGCCGC-CATC
66 CAGATC-AAAGACGGCGAACCTTAACCCCCT-AACCAGTAGTGGAACGGACTGAAGCCACAAAT-
*
4458887 CTAT
128 CTAC
*
4458891 CTCCTTAAGTAGTAGTGAAGTAGGCTGAAGATTGCAGATCTTGTCTCCCTGAAGTTGCAGTGGAA
1 CTCCCTAAGTAGTAGTGAAGTAGGCTGAAGATTGCAGATCTTGTCTCCCTGAAGTTGCAGTGGAA
* * * ** * * * * * *
4458956 CTGATCGAAGACGGCGAATCTTGTCTCCCTGACCAGTAGTGGAACGGATTTAAGCCACCATTCTA
66 CAGATCAAAGACGGCGAACCTTAACCCCCTAACCAGTAGTGGAACGGACTGAAGCCACAAATCTA
*
4459021 T
131 C
* *
4459022 CTCCCTAAGTAGTAGTGGAGTAGGCTGAAGATTGCAGATCTTGTCTCTCTGAAGTTGCAGTGGAA
1 CTCCCTAAGTAGTAGTGAAGTAGGCTGAAGATTGCAGATCTTGTCTCCCTGAAGTTGCAGTGGAA
* * * ** **
4459087 CAGATCAAAGATGGTGAGCCTTAACCCCCTAAGTAGTAG-GGTAACAGG-CTGAA-TTACAAATC
66 CAGATCAAAGACGGCGAACCTTAACCCCCTAACCAGTAGTGG-AAC-GGACTGAAGCCACAAATC
4459149 TTAC
129 -TAC
* *
4459153 CTCCCTAAGCAGTAGTAAAGTAG
1 CTCCCTAAGTAGTAGTGAAGTAG
4459176 ATCAAAGACG
Statistics
Matches: 234, Mismatches: 46, Indels: 11
0.80 0.16 0.04
Matches are distributed among these distances:
130 7 0.03
131 144 0.62
132 83 0.35
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.27
Consensus pattern (131 bp):
CTCCCTAAGTAGTAGTGAAGTAGGCTGAAGATTGCAGATCTTGTCTCCCTGAAGTTGCAGTGGAA
CAGATCAAAGACGGCGAACCTTAACCCCCTAACCAGTAGTGGAACGGACTGAAGCCACAAATCTA
C
Found at i:4459189 original size:86 final size:87
Alignment explanation
Indices: 4459088--4459256 Score: 259
Period size: 86 Copynumber: 1.9 Consensus size: 87
4459078 GCAGTGGAAC
* * *
4459088 AGATCAAAGATGGTGAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTG-AATTACAAATCTTA
1 AGATCAAAGACGGTGAACCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAAATCACAAATCTTA
4459152 CCTCCCTAAGCAGTAGTAAAGT
66 CCTCCCTAAGCAGTAGTAAAGT
* *
4459174 AGATCAAAGACGGTGAACTTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAAAATCACAGATCTT
1 AGATCAAAGACGGTGAACCTTAACCCCCTAAGTAGTAGGGTAACAGGCTG-AAATCACAAATCTT
**
4459239 GTCTCCCTAAGCAGTAGT
65 ACCTCCCTAAGCAGTAGT
4459257 GGGGCAGGTT
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
86 47 0.64
88 27 0.36
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.23
Consensus pattern (87 bp):
AGATCAAAGACGGTGAACCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAAATCACAAATCTTA
CCTCCCTAAGCAGTAGTAAAGT
Found at i:4459399 original size:88 final size:88
Alignment explanation
Indices: 4459278--4459786 Score: 687
Period size: 88 Copynumber: 5.8 Consensus size: 88
4459268 AAATCAACAA
* * * *
4459278 TTCGTATCTCCTTGAAGTTTCAACGGAGAAGATCGAGTCTACAAACCTCTTCTCCCTGAAATGGC
1 TTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGC
*
4459343 ATTGGAGTGGCTCGAAGCCACAT
66 ATTGGAGTGGCTCGAAGCCACAG
* *
4459366 TTCGTATCTCCTTGAAGTTTCAGCAGAGTAGATCGAGGCTACAAATCTCTTCTCTCTGAAATGGC
1 TTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGC
*
4459431 ATTGGAGCGGCTCGAAGCCACAG
66 ATTGGAGTGGCTCGAAGCCACAG
** *
4459454 TTCGTATCTCCTTGAAG-TTCTAGCGGAGTAGATCGAAACTACAAATCTCTTCTCCTTGAAATGG
1 TTCGTATCTCCTTGAAGTTTC-AGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGG
* *
4459518 CATTGGAGTGGCTTGAAGCCATAG
65 CATTGGAGTGGCTCGAAGCCACAG
* * * *
4459542 TTAGTATCTCCTTGAAGTTCCAGCGGAGTAGATCAAGGCTACAAATCTCTTCTCCTTGAAATGGC
1 TTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGC
* * *
4459607 ACTAGAGTGGCTCGAAGCCATAG
66 ATTGGAGTGGCTCGAAGCCACAG
* * * *
4459630 TTCGTATCTCCTTGAAGTTTGAGCAGAGTAGATCGAGGCTACAAATCTCTTTTCCCTAAAATGGC
1 TTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGC
* * *
4459695 ATTGGAGCGGCTTGAAGCCACGG
66 ATTGGAGTGGCTCGAAGCCACAG
* * * * ** * *
4459718 TTCATATCTCCTTGAAGTTCCAGTGGGGTAGATCGAACCTACAAATATCTTCTCTCTGAAATGGC
1 TTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGC
4459783 ATTG
66 ATTG
4459787 AAACAGACTA
Statistics
Matches: 369, Mismatches: 50, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
87 3 0.01
88 364 0.99
89 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.29
Consensus pattern (88 bp):
TTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGC
ATTGGAGTGGCTCGAAGCCACAG
Found at i:4459526 original size:44 final size:44
Alignment explanation
Indices: 4459302--4459701 Score: 132
Period size: 44 Copynumber: 9.1 Consensus size: 44
4459292 AAGTTTCAAC
* * *
4459302 GGAGAAGATCG-AGTCTACAAACCTCTTCTCCCTGAAATGGCATT
1 GGAGTAGATCGAAG-CTACAAATCTCTTCTCCTTGAAATGGCATT
* * * * * ** **
4459346 GGAGTGGCTCGAAGC--CACATTTCGTATCTCCTTGAAGTTTCAGC
1 GGAGTAGATCGAAGCTACAAATCTC-T-TCTCCTTGAAATGGCATT
* *
4459390 AGAGTAGATCGAGGCTACAAATCTCTTCT-CTCTGAAATGGCATT
1 GGAGTAGATCGAAGCTACAAATCTCTTCTCCT-TGAAATGGCATT
** * * * * * **
4459434 GGAGCGGCTCGAAGCCAC-AGT-TCGTATCTCCTTGAAGT-TCTAGC
1 GGAGTAGATCGAAGCTACAAATCTC-T-TCTCCTTGAAATGGC-ATT
*
4459478 GGAGTAGATCGAAACTACAAATCTCTTCTCCTTGAAATGGCATT
1 GGAGTAGATCGAAGCTACAAATCTCTTCTCCTTGAAATGGCATT
* * * * * * ** **
4459522 GGAGTGGCTTGAAGC--CATAGT-TAGTATCTCCTTGAAGTTCCAGC
1 GGAGTAGATCGAAGCTACA-AATCT-CT-TCTCCTTGAAATGGCATT
*
4459566 GGAGTAGATC-AAGGCTACAAATCTCTTCTCCTTGAAATGGCACT
1 GGAGTAGATCGAA-GCTACAAATCTCTTCTCCTTGAAATGGCATT
* * * * *
4459610 AGAGTGGCTCGAAGC--CATAGT-TCGTATCTCCTTGAAGTTTGAGCA--
1 GGAGTAGATCGAAGCTACA-AATCTC-T-TCTCCTTGAA--ATG-GCATT
* * * *
4459655 -GAGTAGATCGAGGCTACAAATCTCTTTTCCCTAAAATGGCATT
1 GGAGTAGATCGAAGCTACAAATCTCTTCTCCTTGAAATGGCATT
4459698 GGAG
1 GGAG
4459702 CGGCTTGAAG
Statistics
Matches: 245, Mismatches: 78, Indels: 66
0.63 0.20 0.17
Matches are distributed among these distances:
41 3 0.01
42 16 0.07
43 15 0.06
44 174 0.71
45 17 0.07
46 17 0.07
47 3 0.01
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (44 bp):
GGAGTAGATCGAAGCTACAAATCTCTTCTCCTTGAAATGGCATT
Found at i:4459644 original size:264 final size:264
Alignment explanation
Indices: 4459281--4459786 Score: 789
Period size: 264 Copynumber: 1.9 Consensus size: 264
4459271 TCAACAATTC
* * * *
4459281 GTATCTCCTTGAAGTTTCAACGGAGAAGATCGAGTCTACAAACCTCTTCTCCCTGAAATGGCATT
1 GTATCTCCTTGAAGTTCCAACGGAGAAGATCAAGGCTACAAACCTCTTCTCCCTGAAATGGCACT
* *
4459346 GGAGTGGCTCGAAGCCACATTTCGTATCTCCTTGAAGTTTCAGCAGAGTAGATCGAGGCTACAAA
66 AGAGTGGCTCGAAGCCACAGTTCGTATCTCCTTGAAGTTTCAGCAGAGTAGATCGAGGCTACAAA
* * * *
4459411 TCTCTTCTCTCTGAAATGGCATTGGAGCGGCTCGAAGCCACAGTTCGTATCTCCTTGAAGTTCTA
131 TCTCTTCTCCCTAAAATGGCATTGGAGCGGCTCGAAGCCACAGTTCATATCTCCTTGAAGTTCCA
*
4459476 GCGGAGTAGATCGAAACTACAAATCTCTTCTC-CTTGAAATGGCATTGGAGTGGCTTGAAGCCAT
196 GCGGAGTAGATCGAAACTACAAATATCTTCTCTC-TGAAATGGCATTGGAGTGGCTTGAAGCCAT
4459540 AGTTA
260 AGTTA
* * * *
4459545 GTATCTCCTTGAAGTTCCAGCGGAGTAGATCAAGGCTACAAATCTCTTCTCCTTGAAATGGCACT
1 GTATCTCCTTGAAGTTCCAACGGAGAAGATCAAGGCTACAAACCTCTTCTCCCTGAAATGGCACT
* *
4459610 AGAGTGGCTCGAAGCCATAGTTCGTATCTCCTTGAAGTTTGAGCAGAGTAGATCGAGGCTACAAA
66 AGAGTGGCTCGAAGCCACAGTTCGTATCTCCTTGAAGTTTCAGCAGAGTAGATCGAGGCTACAAA
* * *
4459675 TCTCTTTTCCCTAAAATGGCATTGGAGCGGCTTGAAGCCACGGTTCATATCTCCTTGAAGTTCCA
131 TCTCTTCTCCCTAAAATGGCATTGGAGCGGCTCGAAGCCACAGTTCATATCTCCTTGAAGTTCCA
* * *
4459740 GTGGGGTAGATCGAACCTACAAATATCTTCTCTCTGAAATGGCATTG
196 GCGGAGTAGATCGAAACTACAAATATCTTCTCTCTGAAATGGCATTG
4459787 AAACAGACTA
Statistics
Matches: 218, Mismatches: 23, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
264 217 1.00
265 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.29
Consensus pattern (264 bp):
GTATCTCCTTGAAGTTCCAACGGAGAAGATCAAGGCTACAAACCTCTTCTCCCTGAAATGGCACT
AGAGTGGCTCGAAGCCACAGTTCGTATCTCCTTGAAGTTTCAGCAGAGTAGATCGAGGCTACAAA
TCTCTTCTCCCTAAAATGGCATTGGAGCGGCTCGAAGCCACAGTTCATATCTCCTTGAAGTTCCA
GCGGAGTAGATCGAAACTACAAATATCTTCTCTCTGAAATGGCATTGGAGTGGCTTGAAGCCATA
GTTA
Found at i:4459843 original size:44 final size:44
Alignment explanation
Indices: 4459790--4460106 Score: 190
Period size: 44 Copynumber: 7.0 Consensus size: 44
4459780 GGCATTGAAA
* * *
4459790 CAGACTAAAGATACCAATTTTATCTCCCTGAAGTTGTAGTGGAG
1 CAGACTAAAGATACAAATCTTATCTCCCTGAAGTTGCAGTGGAG
* * * * * *
4459834 CAGATTAAAGCTACAAACCTTATCCCCCTGAAGTGGCAGTGGGG
1 CAGACTAAAGATACAAATCTTATCTCCCTGAAGTTGCAGTGGAG
** * * * *
4459878 CAGGTTGAAGTTACAAGTCTTATCTCCCTGGAGTTGCAGTGGAG
1 CAGACTAAAGATACAAATCTTATCTCCCTGAAGTTGCAGTGGAG
* ** * *
4459922 TAGACTGGAGATAGCAAATCTTATCTCCATGAAGTTGCAAT-GAGG
1 CAGACTAAAGATA-CAAATCTTATCTCCCTGAAGTTGCAGTGGA-G
* * * *
4459967 CAGATTGAAGCTACAA-ACCACAAACCTTATCTCCTTGAATTTGCAGTGGAG
1 C--A--G-A-CTA-AAGA-TACAAATCTTATCTCCCTGAAGTTGCAGTGGAG
* * * * *
4460018 CAGACTGAAGATAGCAAACCTTATCTCCCCGAAGTAGTAGTGGAG
1 CAGACTAAAGATA-CAAATCTTATCTCCCTGAAGTTGCAGTGGAG
* ** * * * *
4460063 TAGGTTAAA-TTATAAGTCTTATCTCCCTGAAGTTACAGTGGAG
1 CAGACTAAAGATACAAATCTTATCTCCCTGAAGTTGCAGTGGAG
4460106 C
1 C
4460107 GGGTCAAAAC
Statistics
Matches: 205, Mismatches: 55, Indels: 27
0.71 0.19 0.09
Matches are distributed among these distances:
43 24 0.12
44 85 0.41
45 58 0.28
46 1 0.00
47 2 0.01
49 2 0.01
50 1 0.00
51 28 0.14
52 4 0.02
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (44 bp):
CAGACTAAAGATACAAATCTTATCTCCCTGAAGTTGCAGTGGAG
Found at i:4459849 original size:264 final size:264
Alignment explanation
Indices: 4459281--4459871 Score: 728
Period size: 264 Copynumber: 2.2 Consensus size: 264
4459271 TCAACAATTC
* * * * * *
4459281 GTATCTCCTTGAAGTTTCAACGGAGAAGATC-GAGTCTACAAACCTCTTCTCCCTGAAATGGCAT
1 GTATCTCCCTGAAGTTCCAGCGGAGCAGATCAAAG-CTACAAACCTCTTCTCCCTGAAATGGCAC
* *
4459345 TGGAGTGGCTCGAAGCCACATTTCGTATCTCCTTGAAGTTTCAGCAGAGTAGATCGAGGCTACAA
65 TAGAGTGGCTCGAAGCCACAGTTCGTATCTCCTTGAAGTTTCAGCAGAGTAGATCGAGGCTACAA
* * * *
4459410 ATCTCTTCTCTCTGAAATGGCATTGGAGCGGCTCGAAGCCACAGTTCGTATCTCCTTGAAGTTCT
130 ATCTCTTCTCCCTAAAATGGCATTGGAGCGGCTCGAAGCCACAGTTCATATCTCCTTGAAGTTCC
* * ** * *
4459475 AGCGGAGTAGATCGAAACTACAAATCTCTTCTCCTTGAAATGGCATTGGAGTGGCTTGAAGCCAT
195 AGCGGAGTAGATCGAAACTACAAATATCTTCTCCTTGAAATGGCATTGAACAGACTAGAAGCCAT
4459540 AGTTA
260 AGTTA
* * * * *
4459545 GTATCTCCTTGAAGTTCCAGCGGAGTAGATCAAGGCTACAAATCTCTTCTCCTTGAAATGGCACT
1 GTATCTCCCTGAAGTTCCAGCGGAGCAGATCAAAGCTACAAACCTCTTCTCCCTGAAATGGCACT
* *
4459610 AGAGTGGCTCGAAGCCATAGTTCGTATCTCCTTGAAGTTTGAGCAGAGTAGATCGAGGCTACAAA
66 AGAGTGGCTCGAAGCCACAGTTCGTATCTCCTTGAAGTTTCAGCAGAGTAGATCGAGGCTACAAA
* * *
4459675 TCTCTTTTCCCTAAAATGGCATTGGAGCGGCTTGAAGCCACGGTTCATATCTCCTTGAAGTTCCA
131 TCTCTTCTCCCTAAAATGGCATTGGAGCGGCTCGAAGCCACAGTTCATATCTCCTTGAAGTTCCA
* * *
4459740 GTGGGGTAGATCGAACCTACAAATATCTTCT-CTCTGAAATGGCATTGAAACAGACTA-AAGATA
196 GCGGAGTAGATCGAAACTACAAATATCTTCTCCT-TGAAATGGCATTG-AACAGACTAGAAG---
4459803 CCA-A-TT-
256 CCATAGTTA
* ** * * * *
4459809 TTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCTACAAACCT-TATCCCCCTGAAGTGGCA
1 GTATCTCCCTGAAGTTCCAGCGGAGCAGATCAAAGCTACAAACCTCT-TCTCCCTGAAATGGCA
4459872 GTGGGGCAGG
Statistics
Matches: 280, Mismatches: 40, Indels: 14
0.84 0.12 0.04
Matches are distributed among these distances:
263 3 0.01
264 266 0.95
265 7 0.03
266 1 0.00
267 3 0.01
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (264 bp):
GTATCTCCCTGAAGTTCCAGCGGAGCAGATCAAAGCTACAAACCTCTTCTCCCTGAAATGGCACT
AGAGTGGCTCGAAGCCACAGTTCGTATCTCCTTGAAGTTTCAGCAGAGTAGATCGAGGCTACAAA
TCTCTTCTCCCTAAAATGGCATTGGAGCGGCTCGAAGCCACAGTTCATATCTCCTTGAAGTTCCA
GCGGAGTAGATCGAAACTACAAATATCTTCTCCTTGAAATGGCATTGAACAGACTAGAAGCCATA
GTTA
Found at i:4459976 original size:89 final size:88
Alignment explanation
Indices: 4459809--4460042 Score: 207
Period size: 96 Copynumber: 2.6 Consensus size: 88
4459799 GATACCAATT
* * * * *
4459809 TTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCTACAAACCTTATCCCCCTGAAGTGGCAGT
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATACAAACCTTATCCCCATGAAGTGGCAAT
* * *
4459874 GGGGCAGGTTGAAGTTACAAGTC
66 GAGGCAGATTGAAGCTACAAGTC
* * ** * * *
4459897 TTATCTCCCTGGAGTTGCAGTGGAGTAGACTGGAGATAGCAAATCTTATCTCCATGAAGTTGCAA
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATA-CAAACCTTATCCCCATGAAGTGGCAA
**
4459962 TGAGGCAGATTGAAGCTACAAACCACAAACC
65 TGAGGCAGATTGAAGCT-------ACAAGTC
* * *
4459993 TTATCTCCTTGAATTTGCAGTGGAGCAGACTGAAGATAGCAAACCTTATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATA-CAAACCTTATC
4460043 TCCCCGAAGT
Statistics
Matches: 115, Mismatches: 23, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
88 31 0.27
89 35 0.30
96 49 0.43
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.26
Consensus pattern (88 bp):
TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATACAAACCTTATCCCCATGAAGTGGCAAT
GAGGCAGATTGAAGCTACAAGTC
Found at i:4460021 original size:51 final size:52
Alignment explanation
Indices: 4459936--4460037 Score: 127
Period size: 51 Copynumber: 2.0 Consensus size: 52
4459926 CTGGAGATAG
* * *
4459936 CAAATCTTATCTCCATGAAGTTGCAATGAGGCAGATTGAAGCTA-CAAACCA
1 CAAACCTTATCTCCATGAAGTTGCAATGAGGCAGACTGAAGATAGCAAACCA
* * *
4459987 CAAACCTTATCTCCTTGAATTTGCAGTG-GAGCAGACTGAAGATAGCAAACC
1 CAAACCTTATCTCCATGAAGTTGCAATGAG-GCAGACTGAAGATAGCAAACC
4460038 TTATCTCCCC
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
50 1 0.02
51 36 0.84
52 6 0.14
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.24
Consensus pattern (52 bp):
CAAACCTTATCTCCATGAAGTTGCAATGAGGCAGACTGAAGATAGCAAACCA
Found at i:4460060 original size:45 final size:44
Alignment explanation
Indices: 4459986--4460106 Score: 102
Period size: 45 Copynumber: 2.8 Consensus size: 44
4459976 GCTACAAACC
* * *
4459986 ACAAACCTTATCTCCTTGAATTTGCAGTGGAGCAGACTGAAGAT
1 ACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAT
* * * * *
4460030 AGCAAACCTTATCTCCCCGAAGTAGTAGTGGAGTAGGTT-AA-ATT
1 A-CAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA-T
* ** *
4460074 ATAAGTCTTATCTCCCTGAAGTTACAGTGGAGC
1 ACAAACCTTATCTCCCTGAAGTTGCAGTGGAGC
4460107 GGGTCAAAAC
Statistics
Matches: 59, Mismatches: 16, Indels: 5
0.74 0.20 0.06
Matches are distributed among these distances:
43 25 0.42
44 5 0.08
45 29 0.49
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (44 bp):
ACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAT
Found at i:4461804 original size:18 final size:18
Alignment explanation
Indices: 4461781--4461828 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 18
4461771 TTTTAACTGC
4461781 ATTTATTTTTATTT-TTAT
1 ATTTATTTTT-TTTGTTAT
4461799 ATTTATTTTTTTTGTTAT
1 ATTTATTTTTTTTGTTAT
*
4461817 AGTTATTATTTT
1 ATTTATT-TTTT
4461829 GAGACCTTAC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 3 0.11
18 20 0.74
19 4 0.15
ACGTcount: A:0.21, C:0.00, G:0.04, T:0.75
Consensus pattern (18 bp):
ATTTATTTTTTTTGTTAT
Found at i:4462038 original size:2 final size:2
Alignment explanation
Indices: 4462031--4462065 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
4462021 TCCTATTTAC
4462031 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4462066 TTTAATACTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4463073 original size:127 final size:127
Alignment explanation
Indices: 4462881--4463114 Score: 342
Period size: 127 Copynumber: 1.8 Consensus size: 127
4462871 GTCGACTTTA
* * * ** * *
4462881 TAAAACAAAGGCGAAGTTTGATGTTTAGCAATTCGAGGGTTCATGCCCTAATGTGTTGGGTTTCA
1 TAAAACAAAGGCGAAGTTTGATGTTTAGAAATTCAAAGAATCATGCCCTAATGTGCTGGGATTCA
* * *
4462946 ATCTTTTGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTCCTCGTTTTCTAAACCT
66 ATCTTTCGTTTGTCTAAATAATCAAATTTCCATTTAAAATTTCGTCCTCGTTTTCTAAACCT
* *
4463008 TAAAACAAAGGCGATGTTTGATGTTTAGAAATTCAAAGAATCATGCTCTAATGTGCTGGGATTCA
1 TAAAACAAAGGCGAAGTTTGATGTTTAGAAATTCAAAGAATCATGCCCTAATGTGCTGGGATTCA
* *
4463073 ATCTTTCGTTTGTCTAAATAATCAGATTTCCATTTTAAATTT
66 ATCTTTCGTTTGTCTAAATAATCAAATTTCCATTTAAAATTT
4463115 TTTTCGTGTT
Statistics
Matches: 93, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
127 93 1.00
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.39
Consensus pattern (127 bp):
TAAAACAAAGGCGAAGTTTGATGTTTAGAAATTCAAAGAATCATGCCCTAATGTGCTGGGATTCA
ATCTTTCGTTTGTCTAAATAATCAAATTTCCATTTAAAATTTCGTCCTCGTTTTCTAAACCT
Found at i:4463126 original size:127 final size:126
Alignment explanation
Indices: 4462881--4463142 Score: 337
Period size: 127 Copynumber: 2.1 Consensus size: 126
4462871 GTCGACTTTA
* * * ** * *
4462881 TAAAACAAAGGCGAAGTTTGATGTTTAGCAATTCGAGGGTTCATGCCCTAATGTGTTGGGTTTCA
1 TAAAACAAAGGCGAAGTTTGATGTTTAGAAATTCAAAGAATCATGCCCTAATGTGCTGGGATTCA
* *
4462946 ATCTTTTGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTCCTCGTTTTCTAAACCT
66 ATCTTTCGTTTGTCTAAATAATCAAATTTCCCTTTAAAATTTCGTCCTCGTTTTCTAAA-CT
* *
4463008 TAAAACAAAGGCGATGTTTGATGTTTAGAAATTCAAAGAATCATGCTCTAATGTGCTGGGATTCA
1 TAAAACAAAGGCGAAGTTTGATGTTTAGAAATTCAAAGAATCATGCCCTAATGTGCTGGGATTCA
* * * ** *
4463073 ATCTTTCGTTTGTCTAAATAATCAGATTTCCATTTTAAATTTTTTTCGT-GTTTTCTAAACT
66 ATCTTTCGTTTGTCTAAATAATCAAATTTCC-CTTTAAAATTTCGTCCTCGTTTTCTAAACT
4463134 TCAAAACAA
1 T-AAAACAA
4463143 GACAATATTT
Statistics
Matches: 116, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
126 3 0.03
127 101 0.87
128 12 0.10
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (126 bp):
TAAAACAAAGGCGAAGTTTGATGTTTAGAAATTCAAAGAATCATGCCCTAATGTGCTGGGATTCA
ATCTTTCGTTTGTCTAAATAATCAAATTTCCCTTTAAAATTTCGTCCTCGTTTTCTAAACT
Found at i:4471421 original size:3 final size:3
Alignment explanation
Indices: 4471408--4471459 Score: 95
Period size: 3 Copynumber: 17.0 Consensus size: 3
4471398 CCCTTTTTTG
4471408 TAA TCAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
4471454 TAA TAA
1 TAA TAA
4471460 CTCTATCAAT
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 45 0.94
4 3 0.06
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:4472557 original size:42 final size:42
Alignment explanation
Indices: 4472498--4472577 Score: 124
Period size: 42 Copynumber: 1.9 Consensus size: 42
4472488 TGCATTAGAA
4472498 CCACACGGGCAAGGACATGGACATGTGCCCAAGCCGTGTGAG
1 CCACACGGGCAAGGACATGGACATGTGCCCAAGCCGTGTGAG
* * * *
4472540 CCACACGGGCAAGGACATGGGCGTGTGTCCAGGCCGTG
1 CCACACGGGCAAGGACATGGACATGTGCCCAAGCCGTG
4472578 CAATAGACTG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.23, C:0.29, G:0.36, T:0.12
Consensus pattern (42 bp):
CCACACGGGCAAGGACATGGACATGTGCCCAAGCCGTGTGAG
Found at i:4472588 original size:104 final size:104
Alignment explanation
Indices: 4472406--4472672 Score: 324
Period size: 104 Copynumber: 2.6 Consensus size: 104
4472396 ACATGGTCAG
* * * * * *
4472406 GGACATGGGCATGTGCCTAGGCCGTGTGAGCCACACGGGCAAGGACATGGATGTGTTTCCAGGCT
1 GGACATGGACATGTGCCCAAGCCGTGTGAGCCACACGGGCAAGGACATGGGTGTGTGTCCAGGCC
* * *
4472471 GTGTAACTCACTGTTGATGCA-TTAGAACCACACGGGCAA
66 GTGCAACTCACTGTTGATG-ATTTAAAACCACACGAGCAA
*
4472510 GGACATGGACATGTGCCCAAGCCGTGTGAGCCACACGGGCAAGGACATGGGCGTGTGTCCAGGCC
1 GGACATGGACATGTGCCCAAGCCGTGTGAGCCACACGGGCAAGGACATGGGTGTGTGTCCAGGCC
* * *
4472575 GTGCAA-TAGACTGTTTATGATTTAAAACCATACGAGCAA
66 GTGCAACT-CACTGTTGATGATTTAAAACCACACGAGCAA
* * ** *
4472614 TGACATGGACGTGTGCCC-AGGTGATGTGAGCCACACAGGCAAGGACATGGGTGTGTGTC
1 GGACATGGACATGTGCCCAAGCCG-TGTGAGCCACACGGGCAAGGACATGGGTGTGTGTC
4472673 TAGATCGTAT
Statistics
Matches: 141, Mismatches: 19, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
103 5 0.04
104 136 0.96
ACGTcount: A:0.25, C:0.22, G:0.32, T:0.20
Consensus pattern (104 bp):
GGACATGGACATGTGCCCAAGCCGTGTGAGCCACACGGGCAAGGACATGGGTGTGTGTCCAGGCC
GTGCAACTCACTGTTGATGATTTAAAACCACACGAGCAA
Found at i:4476334 original size:17 final size:19
Alignment explanation
Indices: 4476312--4476376 Score: 75
Period size: 19 Copynumber: 3.6 Consensus size: 19
4476302 ATGGAAATAT
4476312 AATCTT-CA-ATGATATGC
1 AATCTTACATATGATATGC
*
4476329 AATCTTAGATATGATATGC
1 AATCTTACATATGATATGC
*
4476348 AATCTTAGATATGATA--C
1 AATCTTACATATGATATGC
*
4476365 AATCTTAGATAT
1 AATCTTACATAT
4476377 TGTAGACACT
Statistics
Matches: 45, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
17 19 0.42
18 1 0.02
19 25 0.56
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.37
Consensus pattern (19 bp):
AATCTTACATATGATATGC
Found at i:4476344 original size:19 final size:19
Alignment explanation
Indices: 4476320--4476376 Score: 100
Period size: 19 Copynumber: 3.1 Consensus size: 19
4476310 ATAATCTTCA
4476320 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
4476339 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
4476358 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
4476375 AT
1 AT
4476377 TGTAGACACT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
17 13 0.34
19 25 0.66
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.37
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:4476561 original size:243 final size:245
Alignment explanation
Indices: 4476131--4476619 Score: 937
Period size: 243 Copynumber: 2.0 Consensus size: 245
4476121 TCTTAAACAG
*
4476131 TTGTAGACACTCAATTTTGCCCGGGCCTAGAAATAAGTCCAAAAACAAAAATAATAAACCCAAAA
1 TTGTAGACACTCAATTTTGCCCGGGCCCAGAAATAAGTCCAAAAACAAAAATAATAAACCCAAAA
*
4476196 AAAAAATGAAGTCCAAGTTCAGTCCAGAATTACAAATATGATTTGGCCCGATCGGAATGGCCCAT
66 AAAAAATGAAGTCCAAGTTCAATCCAGAATTACAAATATGATTTGGCCCGATCGGAATGGCCCAT
4476261 TACTTGAAAAGATTTAAGGTCCATCTACAAGCTTGACTCATATGGAAATATAATCTTCAATGATA
131 TACTTGAAAAGATTTAAGGTCCATCTACAAGCTTGACTCATATGGAAATATAATCTTCAATGATA
4476326 TGCAATCTTAGATATGATATGCAATCTTAGATATGATACAATCTTAGATA
196 TGCAATCTTAGATATGATATGCAATCTTAGATATGATACAATCTTAGATA
*
4476376 TTGTAGACACTCAATTTTGCTCGGGCCCAGAAATAAGTCCAAAAACAAAAATAATAAACCC-AAA
1 TTGTAGACACTCAATTTTGCCCGGGCCCAGAAATAAGTCCAAAAACAAAAATAATAAACCCAAAA
4476440 AAAAAA-GAAGTCCAAGTTCAATCCAGAATTACAAATATGATTTGGCCCGATCGGAATGGCCCAT
66 AAAAAATGAAGTCCAAGTTCAATCCAGAATTACAAATATGATTTGGCCCGATCGGAATGGCCCAT
4476504 TACTTGAAAAGATTTAAGGTCCATCTACAAGCTTGACTCATATGGAAATATAATCTTCAATGATA
131 TACTTGAAAAGATTTAAGGTCCATCTACAAGCTTGACTCATATGGAAATATAATCTTCAATGATA
4476569 TGCAATCTTAGATATGATATGCAATCTTAGATATGATACAATCTTAGATA
196 TGCAATCTTAGATATGATATGCAATCTTAGATATGATACAATCTTAGATA
4476619 T
1 T
4476620 GATTGCAATC
Statistics
Matches: 241, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
243 173 0.72
244 9 0.04
245 59 0.24
ACGTcount: A:0.40, C:0.18, G:0.15, T:0.27
Consensus pattern (245 bp):
TTGTAGACACTCAATTTTGCCCGGGCCCAGAAATAAGTCCAAAAACAAAAATAATAAACCCAAAA
AAAAAATGAAGTCCAAGTTCAATCCAGAATTACAAATATGATTTGGCCCGATCGGAATGGCCCAT
TACTTGAAAAGATTTAAGGTCCATCTACAAGCTTGACTCATATGGAAATATAATCTTCAATGATA
TGCAATCTTAGATATGATATGCAATCTTAGATATGATACAATCTTAGATA
Found at i:4476587 original size:19 final size:19
Alignment explanation
Indices: 4476563--4476651 Score: 148
Period size: 19 Copynumber: 4.8 Consensus size: 19
4476553 ATAATCTTCA
4476563 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
4476582 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
4476601 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
4476618 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
4476636 ATGATATGTAATCTTA
1 ATGATATGCAATCTTA
4476652 AAAGATATGA
Statistics
Matches: 66, Mismatches: 1, Indels: 6
0.90 0.01 0.08
Matches are distributed among these distances:
17 16 0.24
18 16 0.24
19 34 0.52
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.38
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:4476634 original size:35 final size:36
Alignment explanation
Indices: 4476571--4476641 Score: 135
Period size: 35 Copynumber: 2.0 Consensus size: 36
4476561 CAATGATATG
4476571 CAATCTTAGATATGATATGCAATCTTAGATATGATA
1 CAATCTTAGATATGATATGCAATCTTAGATATGATA
4476607 CAATCTTAGATATGAT-TGCAATCTTAGATATGATA
1 CAATCTTAGATATGATATGCAATCTTAGATATGATA
4476642 TGTAATCTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 19 0.54
36 16 0.46
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (36 bp):
CAATCTTAGATATGATATGCAATCTTAGATATGATA
Found at i:4476660 original size:22 final size:23
Alignment explanation
Indices: 4476632--4476674 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
4476622 TTGCAATCTT
4476632 AGATATGA-TATGTAATCTTAAA
1 AGATATGATTATGTAATCTTAAA
*
4476654 AGATATGATTTTGTAATCTTA
1 AGATATGATTATGTAATCTTA
4476675 GAGATTTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.40, C:0.05, G:0.14, T:0.42
Consensus pattern (23 bp):
AGATATGATTATGTAATCTTAAA
Found at i:4476967 original size:17 final size:17
Alignment explanation
Indices: 4476943--4476977 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
4476933 TGTTTCCCTG
*
4476943 ATTTTTTTATATATTTTA
1 ATTTTTTAATA-ATTTTA
4476961 ATTTTTTAATAATTTTA
1 ATTTTTTAATAATTTTA
4476978 GTATCATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTTTTAATAATTTTA
Found at i:4479499 original size:26 final size:26
Alignment explanation
Indices: 4479463--4479572 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
4479453 TGATACAAAT
*
4479463 TGATAATAGGTTAGGTAAATGTTCAA
1 TGATAATAGGTTAGGTAAATGTTCCA
4479489 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
4479515 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
4479541 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
4479567 TGATAA
1 TGATAA
4479573 GAATTTCATG
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.35
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:4481232 original size:27 final size:27
Alignment explanation
Indices: 4481191--4481303 Score: 129
Period size: 27 Copynumber: 4.2 Consensus size: 27
4481181 GAGGAAGCGT
*
4481191 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
4481218 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
4481245 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
4481273 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
4481299 TCTGG
1 TCTGG
4481304 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
26 5 0.07
27 55 0.73
28 15 0.20
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:4481296 original size:54 final size:54
Alignment explanation
Indices: 4481189--4481303 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
4481179 TGGAGGAAGC
*
4481189 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
* * * *
4481243 GTTCTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCT
1 GTTCTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCT
4481297 GTTCTGG
1 GTTCTGG
4481304 CAGCCATGCT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
Found at i:4493937 original size:87 final size:86
Alignment explanation
Indices: 4493797--4493969 Score: 258
Period size: 87 Copynumber: 2.0 Consensus size: 86
4493787 GATGAAAATT
*
4493797 GAAAGGGTAGAAAAATAGAAAAAGAAAATATAAATTTTCTTTACATATATGTGCTTGGTAGGAAA
1 GAAAGGGTAGAAAAATAGAAAAAGAAAATATAAATTTTCTTTACATATATGTGCTTAGTAGGAAA
* *
4493862 TACGGAAAAATTGAAAGAAAA
66 GACGGAAAAATCGAAAGAAAA
* * *
4493883 GAAAGGGTAGAAAAATAGAAAGATGGAAAATATAAA-TTTCTTTTCATATGTGTGCTTAGTAGGA
1 GAAAGGGTAGAAAAATAGAAA-A-AGAAAATATAAATTTTCTTTACATATATGTGCTTAGTAGGA
*
4493947 AAGATGGAAAAATCGAAAGAAAA
64 AAGACGGAAAAATCGAAAGAAAA
4493970 AATATTTTCT
Statistics
Matches: 78, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
86 21 0.27
87 46 0.59
88 11 0.14
ACGTcount: A:0.50, C:0.05, G:0.21, T:0.24
Consensus pattern (86 bp):
GAAAGGGTAGAAAAATAGAAAAAGAAAATATAAATTTTCTTTACATATATGTGCTTAGTAGGAAA
GACGGAAAAATCGAAAGAAAA
Found at i:4494436 original size:16 final size:17
Alignment explanation
Indices: 4494404--4494448 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
4494394 TTAATATTTT
* *
4494404 TTTTACAAAATTATAAAA
1 TTTTAAAAAATTA-AATA
*
4494422 TTTTAAAAAATTAAATT
1 TTTTAAAAAATTAAATA
4494439 TTTTAAAAAA
1 TTTTAAAAAA
4494449 ATATTTTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 12 0.50
18 12 0.50
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (17 bp):
TTTTAAAAAATTAAATA
Found at i:4495807 original size:202 final size:202
Alignment explanation
Indices: 4495453--4495850 Score: 591
Period size: 202 Copynumber: 2.0 Consensus size: 202
4495443 GTTTGTTGGG
* * *
4495453 TTATTCTTTTTCTAACATTTAACATATACTTCTTATAATCATCTATTAGTCCTTGACCAATTTCT
1 TTATTCCTTTTCTAACATTTAACACATACTTCTTATAATCATCTATTAGCCCTTGACCAATTTCT
* * * **
4495518 TCATTGTTGATACAAGGTACAATAATGGAGGTGAGTAAGGAGGAGGTAAGGCGGAGTGAGTAGTG
66 TCATTGTTGATACAAGGTACAACAATGGAGGGGAGTAAGAAGGAGGTAAGGCAAAGTGAGTAGTG
* *
4495583 GTTTTGTGGAGGCCAATTCACTTAAAGAGGCGGAGAGTC-GAAAAGGAACAAGAGCACAAGTTGA
131 GTTTTGTAGAGGCCAATTCACTTAAAGAGGCGGAGAGTCAG-AAAGGAACAAGAGAACAAGTTGA
4495647 TTATTGCA
195 TTATTGCA
* * * *
4495655 TTATTCCTTTTCTAGCATTTGACACGTACTTCTTATCATCATCTATTAGCCCTTGACCAATTTCT
1 TTATTCCTTTTCTAACATTTAACACATACTTCTTATAATCATCTATTAGCCCTTGACCAATTTCT
*
4495720 TCATTGTTGATACAAGGTACAACAATGGAGGGGAGTAAGAAGGAGGTAAGGCAAAGTGAGTGGTG
66 TCATTGTTGATACAAGGTACAACAATGGAGGGGAGTAAGAAGGAGGTAAGGCAAAGTGAGTAGTG
** ** * *
4495785 GTTTTGTAGAGGCCGGTTCACTTAAAGAGGTTGAGAGTCAGAAATGAACAAGAGAACAGGTTGAT
131 GTTTTGTAGAGGCCAATTCACTTAAAGAGGCGGAGAGTCAGAAAGGAACAAGAGAACAAGTTGAT
4495850 T
196 T
4495851 GCTGAAAGAG
Statistics
Matches: 174, Mismatches: 21, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
202 173 0.99
203 1 0.01
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31
Consensus pattern (202 bp):
TTATTCCTTTTCTAACATTTAACACATACTTCTTATAATCATCTATTAGCCCTTGACCAATTTCT
TCATTGTTGATACAAGGTACAACAATGGAGGGGAGTAAGAAGGAGGTAAGGCAAAGTGAGTAGTG
GTTTTGTAGAGGCCAATTCACTTAAAGAGGCGGAGAGTCAGAAAGGAACAAGAGAACAAGTTGAT
TATTGCA
Found at i:4496286 original size:34 final size:34
Alignment explanation
Indices: 4496243--4496307 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
4496233 AATCTGAATA
4496243 TGTATCATTAACATTATC-GAGATCATTTTTTATC
1 TGTATCATTAACATTATCAG-GATCATTTTTTATC
* *
4496277 TGTATCATTAATATTATCAGGATCTTTTTTT
1 TGTATCATTAACATTATCAGGATCATTTTTT
4496308 TATGTACTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 27 0.96
35 1 0.04
ACGTcount: A:0.28, C:0.12, G:0.09, T:0.51
Consensus pattern (34 bp):
TGTATCATTAACATTATCAGGATCATTTTTTATC
Found at i:4496980 original size:22 final size:23
Alignment explanation
Indices: 4496955--4497000 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
4496945 ATCCAATAAG
*
4496955 AAATATATAATTATAT-T-TTAAA
1 AAATATA-AAATATATGTCTTAAA
4496977 AAATATAAAATATATGTCTTAAA
1 AAATATAAAATATATGTCTTAAA
4497000 A
1 A
4497001 TTAAAATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 7 0.33
22 8 0.38
23 6 0.29
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (23 bp):
AAATATAAAATATATGTCTTAAA
Found at i:4502764 original size:26 final size:23
Alignment explanation
Indices: 4502688--4502782 Score: 68
Period size: 26 Copynumber: 3.8 Consensus size: 23
4502678 CTTTTTACTA
4502688 TTTTA-CATTATTATATTTATTATTT
1 TTTTATCA-TATTATATTTA-T-TTT
*
4502713 ATTTTAACATATTATTATTTTATTTT
1 -TTTTATCATATTA-TA-TTTATTTT
*
4502739 CTTTTATCATTATTATACTTAGTTTT
1 -TTTTATCA-TATTATATTTA-TTTT
4502765 TGTTTAT-ATATTATATTT
1 T-TTTATCATATTATATTT
4502783 TCTCTTTTTT
Statistics
Matches: 59, Mismatches: 4, Indels: 14
0.77 0.05 0.18
Matches are distributed among these distances:
24 9 0.15
25 5 0.08
26 31 0.53
27 10 0.17
28 4 0.07
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.65
Consensus pattern (23 bp):
TTTTATCATATTATATTTATTTT
Found at i:4503042 original size:21 final size:18
Alignment explanation
Indices: 4503018--4503062 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 18
4503008 ATATTATGTA
4503018 TATGTATTTCTAATGTTATAT
1 TATGTATTTC--ATG-TATAT
4503039 TATGT-TTTCATGTATAT
1 TATGTATTTCATGTATAT
4503056 TATGTAT
1 TATGTAT
4503063 ATACCTCTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
17 10 0.43
18 4 0.17
20 4 0.17
21 5 0.22
ACGTcount: A:0.27, C:0.04, G:0.11, T:0.58
Consensus pattern (18 bp):
TATGTATTTCATGTATAT
Found at i:4503213 original size:24 final size:24
Alignment explanation
Indices: 4503167--4503213 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
4503157 CATATATATA
**
4503167 CTATTATTTTATTTATTTTTATTC
1 CTATTATTTTATTTATTAATATTC
4503191 CTATTATATTTA-TTATTAATATT
1 CTATTAT-TTTATTTATTAATATT
4503214 AGTATATGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (24 bp):
CTATTATTTTATTTATTAATATTC
Found at i:4503240 original size:41 final size:43
Alignment explanation
Indices: 4503195--4503292 Score: 96
Period size: 41 Copynumber: 2.3 Consensus size: 43
4503185 TTATTCCTAT
* *
4503195 TATATTTATTATTAATATTAGTA-TATGTATTTT-AT-TATACG
1 TATATTTATTATTAATATAAATAGTAT-TATTTTCATATATACG
* * * *
4503236 TATATATATATATT-TTATAAATAGTATTATTTTCATATATCCT
1 TATATTTAT-TATTAATATAAATAGTATTATTTTCATATATACG
4503279 TATATTTATTATTA
1 TATATTTATTATTA
4503293 TACTTATTAT
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
41 20 0.44
42 13 0.29
43 12 0.27
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.56
Consensus pattern (43 bp):
TATATTTATTATTAATATAAATAGTATTATTTTCATATATACG
Found at i:4503452 original size:19 final size:18
Alignment explanation
Indices: 4503428--4503471 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
4503418 TTTTATATAT
4503428 TATGTAGTTATA-TATTAC
1 TATGTA-TTATAGTATTAC
*
4503446 GTATGTATTTTAGTATTAC
1 -TATGTATTATAGTATTAC
4503465 TATGTAT
1 TATGTAT
4503472 ACACTTTTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 11 0.48
19 12 0.52
ACGTcount: A:0.30, C:0.05, G:0.14, T:0.52
Consensus pattern (18 bp):
TATGTATTATAGTATTAC
Found at i:4503510 original size:2 final size:2
Alignment explanation
Indices: 4503503--4503534 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
4503493 ACACATACTT
4503503 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4503535 GCACTATTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4504149 original size:34 final size:34
Alignment explanation
Indices: 4504106--4504196 Score: 121
Period size: 36 Copynumber: 2.6 Consensus size: 34
4504096 ATTATGTACG
*
4504106 TCATGTATATATACGTTTTAATGTTTTTGTACTA
1 TCATATATATATACGTTTTAATGTTTTTGTACTA
4504140 TCATATATATATATACGTTTTAATGTTTTTGTACTA
1 TC--ATATATATATACGTTTTAATGTTTTTGTACTA
* * *
4504176 TCTTATGTATATA-TTTTTAAT
1 TCATATATATATACGTTTTAAT
4504197 ATCTATATGA
Statistics
Matches: 51, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
33 7 0.14
34 11 0.22
36 33 0.65
ACGTcount: A:0.29, C:0.08, G:0.09, T:0.55
Consensus pattern (34 bp):
TCATATATATATACGTTTTAATGTTTTTGTACTA
Found at i:4504158 original size:36 final size:36
Alignment explanation
Indices: 4504111--4504189 Score: 140
Period size: 36 Copynumber: 2.2 Consensus size: 36
4504101 GTACGTCATG
4504111 TATATATACGTTTTAATGTTTTTGTACTATCATATA
1 TATATATACGTTTTAATGTTTTTGTACTATCATATA
* *
4504147 TATATATACGTTTTAATGTTTTTGTACTATCTTATG
1 TATATATACGTTTTAATGTTTTTGTACTATCATATA
4504183 TATATAT
1 TATATAT
4504190 TTTTAATATC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.29, C:0.08, G:0.09, T:0.54
Consensus pattern (36 bp):
TATATATACGTTTTAATGTTTTTGTACTATCATATA
Found at i:4510446 original size:133 final size:133
Alignment explanation
Indices: 4510208--4510512 Score: 387
Period size: 133 Copynumber: 2.3 Consensus size: 133
4510198 CTGATTCTAC
* * * * *
4510208 AGATCTTGTCTCCCTGAAATTGCAGTGGAGCAGATCGAAGATGGCGAATCTCGCCTTCCTGAAGT
1 AGATCTTGTCTCCCTGAAATTGCAGTGGAGCAGATCGAAAATGGCAAATCTCACATTCCTAAAGT
* * * * *
4510273 TGCAGTGAAGCAGATTTAAGCCACCTCCCTATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGAT
66 TGCAGTGAAGCAGATTTAAGCCACCTCCCTATCTCCCTAAAGTTGCAGTGGAGCAGACCGAAGAG
4510338 TGT
131 TGT
* * *
4510341 AGATCTTGTTTCCCTGAAGTTGCAGTGGAGTAGATCGAAAATGGCAAATCTCACATTCCTAAAGT
1 AGATCTTGTCTCCCTGAAATTGCAGTGGAGCAGATCGAAAATGGCAAATCTCACATTCCTAAAGT
* * * *
4510406 TGTAGTGAAGCAGATTTGAGCCACCAT-CTTATCTTCCTAAAGTTGCAGTGGAGCAGACCGAAGA
66 TGCAGTGAAGCAGATTTAAGCCACC-TCCCTATCTCCCTAAAGTTGCAGTGGAGCAGACCGAAGA
4510470 GTGT
130 GTGT
* * * ** *
4510474 AGATCTTATCTCCTTAAAATTATAGTGGAGCGGATCGAA
1 AGATCTTGTCTCCCTGAAATTGCAGTGGAGCAGATCGAA
4510513 GTCACAATCC
Statistics
Matches: 145, Mismatches: 26, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
133 144 0.99
134 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (133 bp):
AGATCTTGTCTCCCTGAAATTGCAGTGGAGCAGATCGAAAATGGCAAATCTCACATTCCTAAAGT
TGCAGTGAAGCAGATTTAAGCCACCTCCCTATCTCCCTAAAGTTGCAGTGGAGCAGACCGAAGAG
TGT
Found at i:4512451 original size:17 final size:18
Alignment explanation
Indices: 4512429--4512471 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
4512419 ATGGAAATAT
4512429 AATCTT-TAAGGATATGC
1 AATCTTATAAGGATATGC
* *
4512446 AATCTTAGTTATGATATGC
1 AATCTTA-TAAGGATATGC
4512465 AATCTTA
1 AATCTTA
4512472 GATATGACAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 6 0.27
19 16 0.73
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.40
Consensus pattern (18 bp):
AATCTTATAAGGATATGC
Found at i:4512463 original size:19 final size:19
Alignment explanation
Indices: 4512439--4512517 Score: 108
Period size: 19 Copynumber: 4.2 Consensus size: 19
4512429 AATCTTTAAG
*
4512439 GATATGCAATCTTAGTTAT
1 GATATGCAATCTTAGATAT
4512458 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
4512477 GACA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
4512494 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
4512515 GAT
1 GAT
4512518 CTTGTAATCT
Statistics
Matches: 53, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
17 16 0.30
19 28 0.53
21 9 0.17
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:4512475 original size:14 final size:15
Alignment explanation
Indices: 4512458--4512495 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
4512448 TCTTAGTTAT
4512458 GATATG-CAATCTTA
1 GATATGACAATCTTA
4512472 GATATGACACAATCTTA
1 GATATG--ACAATCTTA
4512489 GATATGA
1 GATATGA
4512496 TATGCAATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 6 0.29
15 1 0.05
17 14 0.67
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:4512485 original size:36 final size:37
Alignment explanation
Indices: 4512445--4512516 Score: 119
Period size: 36 Copynumber: 1.9 Consensus size: 37
4512435 TAAGGATATG
*
4512445 CAATCTTAGTTATGATATGCAATCTT-AGATATGACA
1 CAATCTTAGATATGATATGCAATCTTAAGATATGACA
4512481 CAATCTTAGATATGATATGCAATCTTGAAGATATGA
1 CAATCTTAGATATGATATGCAATCTT-AAGATATGA
4512517 TCTTGTAATC
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
36 25 0.76
38 8 0.24
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (37 bp):
CAATCTTAGATATGATATGCAATCTTAAGATATGACA
Found at i:4513956 original size:117 final size:118
Alignment explanation
Indices: 4513749--4513983 Score: 463
Period size: 117 Copynumber: 2.0 Consensus size: 118
4513739 CGTTACGAGG
4513749 GTGCTAACCCTTCCTCGTTCGTAACTGACTCCCGAACCCATTTTCTTGATCTCGTAGACCAAAAC
1 GTGCTAACCCTTCCTCGTTCGTAACTGACTCCCGAACCCATTTTCTTGATCTCGTAGACCAAAAC
4513814 TAATGATTTTAAACAAAACGATTTATTGGTGATCCAATCACACCTAAAAAGAT
66 TAATGATTTTAAACAAAACGATTTATTGGTGATCCAATCACACCTAAAAAGAT
4513867 GTGCTAACCCTTCCTCGTTCGTAAC-GACTCCCGAACCCATTTTCTTGATCTCGTAGACCAAAAC
1 GTGCTAACCCTTCCTCGTTCGTAACTGACTCCCGAACCCATTTTCTTGATCTCGTAGACCAAAAC
4513931 TAATGATTTTAAACAAAACGATTTATTGGTGATCCAATCACACCTAAAAAGAT
66 TAATGATTTTAAACAAAACGATTTATTGGTGATCCAATCACACCTAAAAAGAT
4513984 TGGTGGTGAC
Statistics
Matches: 117, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
117 92 0.79
118 25 0.21
ACGTcount: A:0.32, C:0.26, G:0.13, T:0.29
Consensus pattern (118 bp):
GTGCTAACCCTTCCTCGTTCGTAACTGACTCCCGAACCCATTTTCTTGATCTCGTAGACCAAAAC
TAATGATTTTAAACAAAACGATTTATTGGTGATCCAATCACACCTAAAAAGAT
Found at i:4519383 original size:6 final size:6
Alignment explanation
Indices: 4519368--4519443 Score: 70
Period size: 6 Copynumber: 12.8 Consensus size: 6
4519358 CTTCTATTTC
* *
4519368 AAAAAA AAAAAG AAAAAG -AAAAG -AAAAG AAAAAG AAAAA- AAGAA-
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG
*
4519412 AAAGAG AAAAGAG AAAAATG AAAAAAG AAAAA
1 AAAAAG AAAA-AG AAAAA-G -AAAAAG AAAAA
4519444 TGAAGAGGCC
Statistics
Matches: 60, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
5 17 0.28
6 30 0.50
7 8 0.13
8 5 0.08
ACGTcount: A:0.83, C:0.00, G:0.16, T:0.01
Consensus pattern (6 bp):
AAAAAG
Found at i:4519383 original size:7 final size:7
Alignment explanation
Indices: 4519368--4519443 Score: 75
Period size: 7 Copynumber: 10.6 Consensus size: 7
4519358 CTTCTATTTC
4519368 AAAAA-A
1 AAAAAGA
4519374 AAAAAG-
1 AAAAAGA
4519380 AAAAAGA
1 AAAAAGA
*
4519387 AAAGAAAA
1 AAA-AAGA
4519395 GAAAAAGAA
1 -AAAAAG-A
4519404 AAAAAGA
1 AAAAAGA
4519411 AAAAGAGA
1 AAAA-AGA
*
4519419 AAAGAGA
1 AAAAAGA
*
4519426 AAAATGA
1 AAAAAGA
4519433 AAAAAGA
1 AAAAAGA
4519440 AAAA
1 AAAA
4519444 TGAAGAGGCC
Statistics
Matches: 58, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
6 11 0.19
7 26 0.45
8 17 0.29
9 4 0.07
ACGTcount: A:0.83, C:0.00, G:0.16, T:0.01
Consensus pattern (7 bp):
AAAAAGA
Found at i:4519394 original size:16 final size:15
Alignment explanation
Indices: 4519371--4519437 Score: 91
Period size: 15 Copynumber: 4.4 Consensus size: 15
4519361 CTATTTCAAA
4519371 AAAAAAAAGAAAAAG
1 AAAAAAAAGAAAAAG
4519386 AAAAGAAAAGAAAAAG
1 AAAA-AAAAGAAAAAG
4519402 -AAAAAAAGAAAAAG
1 AAAAAAAAGAAAAAG
* *
4519416 AGAAAAGAGAAAAATG
1 AAAAAAAAGAAAAA-G
4519432 AAAAAA
1 AAAAAA
4519438 GAAAAATGAA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
14 11 0.24
15 18 0.39
16 17 0.37
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.01
Consensus pattern (15 bp):
AAAAAAAAGAAAAAG
Found at i:4519399 original size:22 final size:21
Alignment explanation
Indices: 4519368--4519437 Score: 81
Period size: 22 Copynumber: 3.2 Consensus size: 21
4519358 CTTCTATTTC
4519368 AAAAAA-AAAAAGAAAAAGAA
1 AAAAAAGAAAAAGAAAAAGAA
4519388 AAGAAAAGAAAAAGAAAAA-AA
1 AA-AAAAGAAAAAGAAAAAGAA
4519409 GAAAAAGAGAAAAGAGAAAAATGAA
1 -AAAAA-AGAAAA-AGAAAAA-GAA
4519434 AAAA
1 AAAA
4519438 GAAAAATGAA
Statistics
Matches: 43, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
20 2 0.05
21 9 0.21
22 19 0.44
23 7 0.16
24 4 0.09
25 2 0.05
ACGTcount: A:0.83, C:0.00, G:0.16, T:0.01
Consensus pattern (21 bp):
AAAAAAGAAAAAGAAAAAGAA
Found at i:4519438 original size:16 final size:14
Alignment explanation
Indices: 4519368--4519443 Score: 93
Period size: 14 Copynumber: 5.3 Consensus size: 14
4519358 CTTCTATTTC
4519368 AAAA-AAAAAAAGA
1 AAAAGAAAAAAAGA
4519381 AAAAGAAAAGAAAAGA
1 AAAAG-AAA-AAAAGA
4519397 AAAAGAAAAAAAGA
1 AAAAGAAAAAAAGA
*
4519411 AAAAGAGAAAAGAGA
1 AAAAGA-AAAAAAGA
4519426 AAAATG-AAAAAAGA
1 AAAA-GAAAAAAAGA
4519440 AAAA
1 AAAA
4519444 TGAAGAGGCC
Statistics
Matches: 56, Mismatches: 2, Indels: 9
0.84 0.03 0.13
Matches are distributed among these distances:
13 4 0.07
14 23 0.41
15 17 0.30
16 12 0.21
ACGTcount: A:0.83, C:0.00, G:0.16, T:0.01
Consensus pattern (14 bp):
AAAAGAAAAAAAGA
Found at i:4520432 original size:44 final size:44
Alignment explanation
Indices: 4520291--4520609 Score: 215
Period size: 44 Copynumber: 7.2 Consensus size: 44
4520281 CAAAGAAACA
* *
4520291 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGC
1 AGATTTGGCATCCCTGTGTTTATAGAGAACAAGTCGAAGATAGC
* * * * * * **
4520335 AGATCTGACA-CTCCTATGCTTACA-ACAA-AGCAGATCGAAGATTTC
1 AGATTTGGCATC-CCTGTGTTTATAGAGAACA--AG-TCGAAGATAGC
* *
4520380 AGCA--TGGCATCCCTATGTTTATAGAGAACAAGTTGAAGATAGC
1 AG-ATTTGGCATCCCTGTGTTTATAGAGAACAAGTCGAAGATAGC
* * *
4520423 AGGTTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGC
1 AGATTTGGCATCCCTGTGTTTATAGAGAACAAGTCGAAGATAGC
* * * * * **
4520467 AGATCTGACATTCCTGTGCTTACAGAGAAGC-AGATCGAAGATTTC
1 AGATTTGGCATCCCTGTGTTTATAGAGAA-CAAG-TCGAAGATAGC
* *
4520512 AGCA--TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGC
1 AG-ATTTGGCATCCCTGTGTTTATAGAGAACAAGTCGAAGATAGC
* * * *
4520555 AGATTTGGCATCCTTGTGCTTACA-AGGAACAAATCGAAGACATAGC
1 AGATTTGGCATCCCTGTGTTTATAGA-GAACAAGTCGAAG--ATAGC
*
4520601 TGATTTGGC
1 AGATTTGGC
4520610 TTTCACGGTT
Statistics
Matches: 209, Mismatches: 47, Indels: 36
0.72 0.16 0.12
Matches are distributed among these distances:
42 2 0.01
43 24 0.11
44 140 0.67
45 27 0.13
46 16 0.08
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (44 bp):
AGATTTGGCATCCCTGTGTTTATAGAGAACAAGTCGAAGATAGC
Found at i:4520531 original size:132 final size:132
Alignment explanation
Indices: 4520291--4520594 Score: 502
Period size: 132 Copynumber: 2.3 Consensus size: 132
4520281 CAAAGAAACA
4520291 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACACTCCTATGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACACTCCTATGCTT
4520356 ACAACAAAGCAGATCGAAGATTTCAGCATGGCATCCCTATGTTTATAGAGAACAAGTTGAAGATA
66 ACAACAAAGCAGATCGAAGATTTCAGCATGGCATCCCTATGTTTATAGAGAACAAGTTGAAGATA
4520421 GC
131 GC
* * *
4520423 AGGTTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACACTCCTATGCTT
* * *
4520488 ACAGA-GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGAT
66 ACA-ACAAAGCAGATCGAAGATTTCAGCATGGCATCCCTATGTTTATAGAGAACAAGTTGAAGAT
4520552 AGC
130 AGC
* * * *
4520555 AGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGA
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGA
4520595 CATAGCTGAT
Statistics
Matches: 160, Mismatches: 11, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
132 159 0.99
133 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (132 bp):
AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACACTCCTATGCTT
ACAACAAAGCAGATCGAAGATTTCAGCATGGCATCCCTATGTTTATAGAGAACAAGTTGAAGATA
GC
Found at i:4521122 original size:206 final size:206
Alignment explanation
Indices: 4520768--4521481 Score: 1122
Period size: 206 Copynumber: 3.5 Consensus size: 206
4520758 GGTGATTTGG
*
4520768 CAAGGAACAAATTGAAGACATAGCTGATTTGGCTTTCACATGCTTACGATGAAGCAAATCTAAGA
1 CAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACATGCTTACGATGAAGCAAATCTAAGA
*
4520833 TGATTTGGCATCTCTGTATTGTCAGAGAGCAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGA
66 TGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGA
** * * * *
4520898 GCAGACACATAGCAGATCTGGCCTTCATATGTTTATACTGAAGCAAATCCAAGGTGATTTGGCAT
131 GCAGACACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTAT
*
4520963 CCTTGCGCTTA
196 CCTTGTGCTTA
* * *
4520974 CAAGGAACAAATTGAAGACATAGCTGATTTGACTTTCACGTGCTTACGATGAAGCAAATCTAAGA
1 CAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACATGCTTACGATGAAGCAAATCTAAGA
* ** *
4521039 TGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCATCTCCATATTTAACGAAGA
66 TGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGA
4521104 GCAGACACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTAT
131 GCAGACACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTAT
*
4521169 TCTTGTGCTTA
196 CCTTGTGCTTA
* *
4521180 CAAGGAACAAATCAAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGA
1 CAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACATGCTTACGATGAAGCAAATCTAAGA
* ** * *
4521245 TGATTTGGCATCTCTGTATTGTCAAAGAACAAATCGAAGTTTGGCGTAACCACATTCGACGGAGG
66 TGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGA
* * * *
4521310 GCAGACACATAGCAGATCTAACGTTCAGATGATTAGACTGAAGCAGATCCAAGATGGTTTGGTAT
131 GCAGACACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTAT
4521375 CCTTGTGCTTA
196 CCTTGTGCTTA
* * * *
4521386 CAAGGAGCAAATCGAAGACATAGTTGATTTGGTTTTCGCATGCTTACGATGAAGCAAATCTAAGA
1 CAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACATGCTTACGATGAAGCAAATCTAAGA
* *
4521451 TGATTTGGCATCTCTATATTGTCAGAAAACA
66 TGATTTGGCATCTCTGTATTGTCAGAGAACA
4521482 GACCGAAGAT
Statistics
Matches: 467, Mismatches: 41, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
206 467 1.00
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (206 bp):
CAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACATGCTTACGATGAAGCAAATCTAAGA
TGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGA
GCAGACACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTAT
CCTTGTGCTTA
Found at i:4521379 original size:412 final size:398
Alignment explanation
Indices: 4520556--4521481 Score: 1359
Period size: 412 Copynumber: 2.3 Consensus size: 398
4520546 GAAGATAGCA
*
4520556 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACG-GTT
1 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
* *
4520620 TACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTTTCAGAGAACAAATCGAACTTTGG
66 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAACTTTGG
* * * ** *
4520685 CGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTGGCCTTCATATGTTTATACTGAAGC
131 CATCTCCATATTCAACGAAGAGCAGACACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGC
**
4520750 AGATCCAAGGTGATTTGGCAAGGAACAAATTGAAGACATAGCTGATTTGGCTTTCACATGCTTAC
196 AGATCCAAGGTGATTTGGCAAGGAACAAATCAAAGACATAGCTGATTTGGCTTTCACATGCTTAC
* *
4520815 GATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAGCAAATCGAAGTTTGGCGT
261 GATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAAAGAACAAATCGAAGTTTGGCGT
** * ** * * *
4520880 CTCCATATTCGACGGAGAGCAGACACATAGCAGATCTGGCCTTCATATGTTTATACTGAAGCAAA
326 AACCACATTCGACGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGATTAGACTGAAGCAAA
*
4520945 TCCAAGGT
391 TCCAAGAT
* * *
4520953 GATTTGGCATCCTTGCGCTTACAAGGAACAAATTGAAGACATAGCTGATTTGACTTTCACGTGCT
1 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
*
4521018 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGG
66 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAACTTTGG
*
4521083 CATCTCCATATTTAACGAAGAGCAGACACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGC
131 CATCTCCATATTCAACGAAGAGCAGACACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGC
4521148 AGATCCAAGATGATTTGGTATTCTTGTGCTTACAAGGAACAAATCAAAGACATAGCTGATTTGGC
196 AGATCCAAG--G---T-G-A-T-TTG-G----CAAGGAACAAATCAAAGACATAGCTGATTTGGC
*
4521213 TTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAAAGAACAAA
247 TTTCACATGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAAAGAACAAA
* *
4521278 TCGAAGTTTGGCGTAACCACATTCGACGGAGGGCAGACACATAGCAGATCTAACGTTCAGATGAT
312 TCGAAGTTTGGCGTAACCACATTCGACGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGAT
*
4521343 TAGACTGAAGCAGATCCAAGAT
377 TAGACTGAAGCAAATCCAAGAT
* * * * * * *
4521365 GGTTTGGTATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGTTGATTTGGTTTTCGCATGCT
1 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
* *
4521430 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTATATTGTCAGAAAACA
66 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACA
4521482 GACCGAAGAT
Statistics
Matches: 471, Mismatches: 43, Indels: 15
0.89 0.08 0.03
Matches are distributed among these distances:
397 58 0.12
398 131 0.28
400 1 0.00
403 1 0.00
404 1 0.00
405 1 0.00
406 1 0.00
407 3 0.01
408 1 0.00
412 273 0.58
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.28
Consensus pattern (398 bp):
GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAACTTTGG
CATCTCCATATTCAACGAAGAGCAGACACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGC
AGATCCAAGGTGATTTGGCAAGGAACAAATCAAAGACATAGCTGATTTGGCTTTCACATGCTTAC
GATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAAAGAACAAATCGAAGTTTGGCGT
AACCACATTCGACGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGATTAGACTGAAGCAAA
TCCAAGAT
Found at i:4521914 original size:19 final size:19
Alignment explanation
Indices: 4521886--4521964 Score: 117
Period size: 19 Copynumber: 4.2 Consensus size: 19
4521876 AATCTTTAAG
*
4521886 GATATACAATCTTAGATAT
1 GATATGCAATCTTAGATAT
4521905 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
4521924 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
4521941 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
4521962 GAT
1 GAT
4521965 CTTGTAATCT
Statistics
Matches: 55, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
17 17 0.31
19 29 0.53
21 9 0.16
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:4521916 original size:36 final size:36
Alignment explanation
Indices: 4521876--4521961 Score: 115
Period size: 36 Copynumber: 2.4 Consensus size: 36
4521866 ATGGAAATAT
4521876 AATCTTTAAGGATATACAATCTTAGATATGATATGC
1 AATCTTTAAGGATATACAATCTTAGATATGATATGC
*
4521912 AATC-TT-AGATATGATACAATCTTAGATATGATATGC
1 AATCTTTAAG-GAT-ATACAATCTTAGATATGATATGC
*
4521948 AATCTTGAA-GATAT
1 AATCTTTAAGGATAT
4521962 GATCTTGTAA
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
34 2 0.05
35 6 0.14
36 33 0.77
37 1 0.02
38 1 0.02
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.36
Consensus pattern (36 bp):
AATCTTTAAGGATATACAATCTTAGATATGATATGC
Found at i:4523579 original size:2 final size:2
Alignment explanation
Indices: 4523572--4523613 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
4523562 CACATAGTTT
4523572 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4523614 AGCATGTTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4524988 original size:131 final size:133
Alignment explanation
Indices: 4524673--4525148 Score: 418
Period size: 131 Copynumber: 3.6 Consensus size: 133
4524663 CATTCATGTT
* * ** * * *
4524673 TTCTAAAAA-TCCTTTAAAACGAAGGCGATGTACGATATTTGGCAATTCGTGGAATCGTGCCCTA
1 TTCTAAAAACT-CTATAAAACAAAGGTAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTA
* ** * * * * **
4524737 ACGTGCTGGGTTGTAATTTCTCATTTGCTCAAAATAATC-AAATGTCTCTTTGGAATTTCATTCA
65 TCGTGCTGGGTTGCGATTTCCCGTTCGCTCAAAATAATCGAAATGTCTCTTTGAAATTTCACCCA
* *
4524801 TGTT
130 CGTC
* * * * * *
4524805 TTCTAAAAACTCTTTAAAACGAAGGTAATATTTGATGTTTGGCAATTC-GGGAATAGTGCCTTAT
1 TTCTAAAAACTCTATAAAACAAAGGTAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTAT
* *
4524869 CGTGCTGGGTTGCGATTTCCCGTTCGTTCAAAACAATCGAATAT-TC-CTTTGAAATTTCACCCA
66 CGTGCTGGGTTGCGATTTCCCGTTCGCTCAAAATAATCGAA-ATGTCTCTTTGAAATTTCACCCA
4524932 CGTC
130 CGTC
* *
4524936 TT-TAAAGATTCTATAAAACAAAGGTAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTAT
1 TTCTAAAAACTCTATAAAACAAAGGTAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTAT
* * * * * *
4525000 CGTCCTGGGTTGCGATTTCCAGTTGGCTCAAAATAATCGAACAT-CCCCTTT-AGAATTTCACTC
66 CGTGCTGGGTTGCGATTTCCCGTTCGCTCAAAATAATCGAA-ATGTCTCTTTGA-AATTTCACCC
*
4525063 ATGT-
129 ACGTC
* * * * * * *
4525067 TTCTTAAAAACTCTA-AAAA-TAAGGCAATGCTCGATGTTTAGAAATTTGAGGAATCGTGCCCTA
1 TTC-TAAAAACTCTATAAAACAAAGGTAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTA
* *
4525130 -CTGTACTGGGTTTCGATTT
65 TC-GTGCTGGGTTGCGATTT
4525149 TACGTTGGAC
Statistics
Matches: 285, Mismatches: 50, Indels: 19
0.81 0.14 0.05
Matches are distributed among these distances:
130 40 0.14
131 169 0.59
132 64 0.22
133 12 0.04
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.34
Consensus pattern (133 bp):
TTCTAAAAACTCTATAAAACAAAGGTAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTAT
CGTGCTGGGTTGCGATTTCCCGTTCGCTCAAAATAATCGAAATGTCTCTTTGAAATTTCACCCAC
GTC
Found at i:4526750 original size:24 final size:24
Alignment explanation
Indices: 4526690--4526740 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
4526680 GATAAATACT
*
4526690 AAACCCCGAAAACCCGAAAATAAG
1 AAACCCCGAAAACCCGAAAAAAAG
4526714 AAACCCCGAAAACCCGAAAACAAAG
1 AAACCCCGAAAACCCGAAAA-AAAG
4526739 AA
1 AA
4526741 CCCTCAAAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
24 20 0.80
25 5 0.20
ACGTcount: A:0.57, C:0.29, G:0.12, T:0.02
Consensus pattern (24 bp):
AAACCCCGAAAACCCGAAAAAAAG
Found at i:4531443 original size:2 final size:2
Alignment explanation
Indices: 4531436--4531464 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4531426 GCTAACCGAG
4531436 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4531465 CATTAGCAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4533704 original size:3 final size:3
Alignment explanation
Indices: 4533698--4533769 Score: 144
Period size: 3 Copynumber: 24.0 Consensus size: 3
4533688 ACACTACTAT
4533698 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
4533746 ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA
4533770 TAGAAATGCA
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 69 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:4535292 original size:26 final size:26
Alignment explanation
Indices: 4535263--4535315 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
4535253 TCAAACATGC
4535263 ATTTAAGTCAATTTAAC-CCTAGGGGT
1 ATTTAAGT-AATTTAACTCCTAGGGGT
** *
4535289 ATTTCGGTAATTTATCTCCTAGGGGT
1 ATTTAAGTAATTTAACTCCTAGGGGT
4535315 A
1 A
4535316 AAACAGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAAGTAATTTAACTCCTAGGGGT
Found at i:4536892 original size:25 final size:26
Alignment explanation
Indices: 4536797--4536930 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
4536787 CATGAAATTC
4536797 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
4536823 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
4536849 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
4536875 TTATCA-GGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
4536900 TTATCATG-AACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
4536925 TTATCA
1 TTATCA
4536931 ATTTGTATCA
Statistics
Matches: 105, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
25 46 0.44
26 59 0.56
ACGTcount: A:0.37, C:0.25, G:0.04, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:4540810 original size:18 final size:18
Alignment explanation
Indices: 4540787--4540861 Score: 78
Period size: 18 Copynumber: 4.2 Consensus size: 18
4540777 ACCGTTTACG
4540787 GTACTATTCACATATACA
1 GTACTATTCACATATACA
* *
4540805 GTACTATTCACGTATACG
1 GTACTATTCACATATACA
* * * *
4540823 GCACTATTTACAAATACG
1 GTACTATTCACATATACA
* *
4540841 GTACTGTTCACGTATACA
1 GTACTATTCACATATACA
4540859 GTA
1 GTA
4540862 GTTGGGATTG
Statistics
Matches: 45, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 45 1.00
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.32
Consensus pattern (18 bp):
GTACTATTCACATATACA
Found at i:4540830 original size:36 final size:36
Alignment explanation
Indices: 4540783--4540857 Score: 105
Period size: 36 Copynumber: 2.1 Consensus size: 36
4540773 TACGACCGTT
* *
4540783 TACGGTACTATTCACATATACAGTACTATTCACGTA
1 TACGGCACTATTCACAAATACAGTACTATTCACGTA
* * *
4540819 TACGGCACTATTTACAAATACGGTACTGTTCACGTA
1 TACGGCACTATTCACAAATACAGTACTATTCACGTA
4540855 TAC
1 TAC
4540858 AGTAGTTGGG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.32, C:0.23, G:0.13, T:0.32
Consensus pattern (36 bp):
TACGGCACTATTCACAAATACAGTACTATTCACGTA
Found at i:4546003 original size:72 final size:70
Alignment explanation
Indices: 4545776--4546004 Score: 209
Period size: 72 Copynumber: 3.2 Consensus size: 70
4545766 TTCCCAAAGA
* *
4545776 GATTGGGAATATAGCAAATTTAACTTCATTAAGACTCTCCCAAAACAAATTGAGTGGTTCAATCC
1 GATTGGGAATTTAGCAAATTTAACTTCATTAAGCCTCTCCCAAAACAAATTGAGTGGTTCAATCC
*
4545841 CCTTT
66 CATTT
* * * *
4545846 CAGATTGGGAATTTAG-AAGCA-TT-ACGTTTC-TT-AGACCTCT-CTAAGAACAGACTGATTGG
1 --GATTGGGAATTTAGCAA--ATTTAAC--TTCATTAAG-CCTCTCCCAA-AACAAATTGAGTGG
* *
4545905 TTCCATTCCCATTGA
58 TT-CAATCCCATT-T
*
4545920 GATTGAGAATTTAGCAAATTTAACTTCATTAAGCCTCTCCCAAAACAAATTGAGTGGTTCAATCC
1 GATTGGGAATTTAGCAAATTTAACTTCATTAAGCCTCTCCCAAAACAAATTGAGTGGTTCAATCC
4545985 CATCTT
66 CAT-TT
*
4545991 GTATTGGCAATTTA
1 G-ATTGGGAATTTA
4546005 TCCAATTTGT
Statistics
Matches: 123, Mismatches: 18, Indels: 32
0.71 0.10 0.18
Matches are distributed among these distances:
71 22 0.18
72 80 0.65
73 21 0.17
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.33
Consensus pattern (70 bp):
GATTGGGAATTTAGCAAATTTAACTTCATTAAGCCTCTCCCAAAACAAATTGAGTGGTTCAATCC
CATTT
Found at i:4547014 original size:15 final size:15
Alignment explanation
Indices: 4546994--4547025 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
4546984 CTCCAGGTGA
4546994 TTTTCTTTGCTTCGT
1 TTTTCTTTGCTTCGT
4547009 TTTTCTTTGCTTCGT
1 TTTTCTTTGCTTCGT
4547024 TT
1 TT
4547026 GATGACATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.00, C:0.19, G:0.12, T:0.69
Consensus pattern (15 bp):
TTTTCTTTGCTTCGT
Found at i:4548466 original size:3 final size:3
Alignment explanation
Indices: 4548460--4548505 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
4548450 TTTTTTAAAA
4548460 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
4548506 GATTGAGCTC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:4549924 original size:87 final size:88
Alignment explanation
Indices: 4549787--4549951 Score: 269
Period size: 87 Copynumber: 1.9 Consensus size: 88
4549777 ATGAAAAATT
*
4549787 GAAAGGGTAGAAAAATAGAAAGATGGAAAATATAAATTTTCTTTCCATATGTGTACGCGGTAGGA
1 GAAAGGGTAGAAAAATAGAAAGATGGAAAATATAAATTTTCTTTCCATATGTGTACGCGGTAGAA
4549852 AAGATGGAAAAATTGAAAGAAAA
66 AAGATGGAAAAATTGAAAGAAAA
* * * **
4549875 GAAAGGGT-GGAAAATAGAAAGATGGAAAATATGAATTTTCTTTCCATATGTGTGCTTGGTAGAA
1 GAAAGGGTAGAAAAATAGAAAGATGGAAAATATAAATTTTCTTTCCATATGTGTACGCGGTAGAA
4549939 AAGATGGAAAAAT
66 AAGATGGAAAAAT
4549952 CAAAATAAAA
Statistics
Matches: 71, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
87 63 0.89
88 8 0.11
ACGTcount: A:0.45, C:0.05, G:0.25, T:0.25
Consensus pattern (88 bp):
GAAAGGGTAGAAAAATAGAAAGATGGAAAATATAAATTTTCTTTCCATATGTGTACGCGGTAGAA
AAGATGGAAAAATTGAAAGAAAA
Found at i:4551387 original size:28 final size:27
Alignment explanation
Indices: 4551335--4551387 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
4551325 CTATTCAGAA
* *
4551335 ATCAGTGTTAACTAGGCCTTAGCCCAT
1 ATCAGTATTAACTAGGCCATAGCCCAT
*
4551362 ATCAGTATTAATCTGGGCCATAGCCC
1 ATCAGTATTAA-CTAGGCCATAGCCC
4551388 CTTACAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 10 0.45
28 12 0.55
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.28
Consensus pattern (27 bp):
ATCAGTATTAACTAGGCCATAGCCCAT
Found at i:4551519 original size:19 final size:20
Alignment explanation
Indices: 4551476--4551531 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
4551466 ATTGGGTCTT
4551476 GCCCATATTAACACAGTTGG
1 GCCCATATTAACACAGTTGG
* *
4551496 GCCCATTTTAATACAGTT-G
1 GCCCATATTAACACAGTTGG
* *
4551515 GCCCATAATAAAACAGT
1 GCCCATATTAACACAGT
4551532 CTCATATGAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (20 bp):
GCCCATATTAACACAGTTGG
Found at i:4553645 original size:3 final size:3
Alignment explanation
Indices: 4553637--4553672 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
4553627 TAAAAACTAA
* *
4553637 AAT AAT AAT AAT AAT AAT AAT AAT AAC CAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
4553673 GAAGATTTCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:4563449 original size:5 final size:5
Alignment explanation
Indices: 4563439--4563480 Score: 54
Period size: 5 Copynumber: 8.8 Consensus size: 5
4563429 TACCCCAATT
4563439 TTTTA TTTTA TTTTA TTTTA -TTTA -TTTA -TTTA TTTATA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTT-TA TTTT
4563481 TGCTTAGTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
4 12 0.34
5 18 0.51
6 5 0.14
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTTA
Found at i:4563466 original size:23 final size:22
Alignment explanation
Indices: 4563436--4563480 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
4563426 TTTTACCCCA
4563436 ATTTTTTATTTTATTT-TATTTT
1 ATTTTTTA-TTTATTTATATTTT
4563458 ATTTATTTATTTATTTATATTTT
1 ATTT-TTTATTTATTTATATTTT
4563481 TGCTTAGTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 11 0.52
23 10 0.48
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (22 bp):
ATTTTTTATTTATTTATATTTT
Found at i:4565090 original size:6 final size:6
Alignment explanation
Indices: 4565075--4565135 Score: 97
Period size: 6 Copynumber: 10.3 Consensus size: 6
4565065 ATTGAGTTTA
* *
4565075 TTTA-T TTTATT TTTATT TTTATT TTTATT TTTATT TCTATT TTTATA
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
4565122 TTTATT TTTATT TT
1 TTTATT TTTATT TT
4565136 CTTAGACTTC
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
5 4 0.08
6 47 0.92
ACGTcount: A:0.18, C:0.02, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTATT
Found at i:4567161 original size:30 final size:30
Alignment explanation
Indices: 4567126--4567185 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
4567116 TATTTTATTA
*
4567126 TTAATTTTGTTATTATTTTAAAGGCATTTG
1 TTAATTTTATTATTATTTTAAAGGCATTTG
* *
4567156 TTAATTTTATTATTATTTTAGAGGTATTTG
1 TTAATTTTATTATTATTTTAAAGGCATTTG
4567186 CTTGTTAAGT
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:0.27, C:0.02, G:0.13, T:0.58
Consensus pattern (30 bp):
TTAATTTTATTATTATTTTAAAGGCATTTG
Found at i:4567756 original size:35 final size:35
Alignment explanation
Indices: 4567717--4567786 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
4567707 ACATGGTTTC
4567717 TTTCGGTTTTTTCATATTTCCTACTATGCAGACAT
1 TTTCGGTTTTTTCATATTTCCTACTATGCAGACAT
4567752 TTTCGGTTTTTTCATATTTCCTACTATGCAGACAT
1 TTTCGGTTTTTTCATATTTCCTACTATGCAGACAT
4567787 ATGGAAATAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.20, C:0.20, G:0.11, T:0.49
Consensus pattern (35 bp):
TTTCGGTTTTTTCATATTTCCTACTATGCAGACAT
Found at i:4568740 original size:26 final size:26
Alignment explanation
Indices: 4568711--4568818 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
4568701 TGGTACAAAT
4568711 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
4568737 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
4568763 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
4568789 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
4568815 TGAT
1 TGAT
4568819 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:4570007 original size:8 final size:8
Alignment explanation
Indices: 4569994--4570023 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
4569984 AGATCGGCAC
4569994 AAGCCGAA
1 AAGCCGAA
4570002 AAGCCGAA
1 AAGCCGAA
*
4570010 ATGCCGAA
1 AAGCCGAA
4570018 AAGCCG
1 AAGCCG
4570024 GTATTTTGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.43, C:0.27, G:0.27, T:0.03
Consensus pattern (8 bp):
AAGCCGAA
Found at i:4570453 original size:27 final size:27
Alignment explanation
Indices: 4570413--4570553 Score: 191
Period size: 27 Copynumber: 5.2 Consensus size: 27
4570403 AGGAAGCGTC
*
4570413 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
4570440 CTGGTGGCTCTGCCAC-ATCTATCTG-T
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
4570466 CCTGGTGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCACAATTATCTGAT
*
4570494 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
4570521 CTGGTGGCTCTGCCACAA-TATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
4570548 CTGGTG
1 CTGGTG
4570554 ATTTTGTCAC
Statistics
Matches: 102, Mismatches: 5, Indels: 14
0.84 0.04 0.12
Matches are distributed among these distances:
26 11 0.11
27 87 0.85
28 4 0.04
ACGTcount: A:0.17, C:0.26, G:0.23, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:4570492 original size:54 final size:54
Alignment explanation
Indices: 4570410--4570553 Score: 245
Period size: 54 Copynumber: 2.7 Consensus size: 54
4570400 TGGAGGAAGC
*
4570410 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATCTATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
4570464 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* *
4570518 GTTCTGGTGGCTCTGCCACAA-TATCTGTATCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
4570554 ATTTTGTCAC
Statistics
Matches: 86, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
53 6 0.07
54 80 0.93
ACGTcount: A:0.17, C:0.26, G:0.24, T:0.34
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:4570564 original size:27 final size:27
Alignment explanation
Indices: 4570413--4570571 Score: 182
Period size: 27 Copynumber: 5.9 Consensus size: 27
4570403 AGGAAGCGTC
*
4570413 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
* *
4570440 CTGGTGGCTCTGCCACATCTATCTGT-C
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
*
4570467 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
4570494 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
4570521 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
** * *
4570548 CTGGTGATTTTGTCACAATATCTG
1 CTGGTGGCTCTGCCACAATATCTG
4570572 GCAGCCTCGC
Statistics
Matches: 114, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
26 8 0.07
27 105 0.92
28 1 0.01
ACGTcount: A:0.18, C:0.25, G:0.22, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:4570565 original size:81 final size:80
Alignment explanation
Indices: 4570413--4570571 Score: 205
Period size: 81 Copynumber: 2.0 Consensus size: 80
4570403 AGGAAGCGTC
* *
4570413 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATCTATCTGTCCTGGTGGCTAT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTAT
4570478 GCCACAATTATCTGAT
66 GCCACAA-TATCTGAT
* * * *
4570494 CTGGTGGCTCTGCCAC-ATATATCTGTTCTGGTGGCTCTGCCACA-ATATCTGTATCTGGTGATT
1 CTGGTGGCTATGCCACAAT-TATCTGATCTGGTGGCTCTGCCACATATATCTGT-CCTGGTGACT
* *
4570557 TTGTCACAATATCTG
64 ATGCCACAATATCTG
4570572 GCAGCCTCGC
Statistics
Matches: 68, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
80 15 0.22
81 53 0.78
ACGTcount: A:0.18, C:0.25, G:0.22, T:0.35
Consensus pattern (80 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTAT
GCCACAATATCTGAT
Found at i:4573110 original size:26 final size:25
Alignment explanation
Indices: 4573081--4573165 Score: 116
Period size: 26 Copynumber: 3.3 Consensus size: 25
4573071 TGGTACAAAT
4573081 TGATAATGTGTTAGGTAAATGTTCCA
1 TGATAATG-GTTAGGTAAATGTTCCA
* *
4573107 TGATAATGGATTAGGTAAATATTCAA
1 TGATAATGG-TTAGGTAAATGTTCCA
4573133 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAAT-GGTTAGGTAAATGTTCCA
*
4573159 GGATAAT
1 TGATAAT
4573166 CATGATAATG
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
25 1 0.02
26 49 0.94
27 2 0.04
ACGTcount: A:0.35, C:0.06, G:0.24, T:0.35
Consensus pattern (25 bp):
TGATAATGGTTAGGTAAATGTTCCA
Found at i:4573175 original size:61 final size:61
Alignment explanation
Indices: 4573105--4573226 Score: 226
Period size: 61 Copynumber: 2.0 Consensus size: 61
4573095 GTAAATGTTC
4573105 CATGATAATGGATTAGGTAAATATTCAATGATAATGGGTTAGGTAAATGTTCCAGGATAAT
1 CATGATAATGGATTAGGTAAATATTCAATGATAATGGGTTAGGTAAATGTTCCAGGATAAT
* *
4573166 CATGATAATGGATTAGGTAAATATTCCATGATAATGGGTTAGGTAAATGTTCCATGATAAT
1 CATGATAATGGATTAGGTAAATATTCAATGATAATGGGTTAGGTAAATGTTCCAGGATAAT
4573227 GGTTTAGGTA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 59 1.00
ACGTcount: A:0.37, C:0.07, G:0.22, T:0.34
Consensus pattern (61 bp):
CATGATAATGGATTAGGTAAATATTCAATGATAATGGGTTAGGTAAATGTTCCAGGATAAT
Found at i:4573182 original size:35 final size:35
Alignment explanation
Indices: 4573132--4573200 Score: 111
Period size: 35 Copynumber: 2.0 Consensus size: 35
4573122 TAAATATTCA
* *
4573132 ATGATAATGGGTTAGGTAAATGTTCCAGGATAATC
1 ATGATAATGGATTAGGTAAATATTCCAGGATAATC
*
4573167 ATGATAATGGATTAGGTAAATATTCCATGATAAT
1 ATGATAATGGATTAGGTAAATATTCCAGGATAAT
4573201 GGGTTAGGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.38, C:0.07, G:0.22, T:0.33
Consensus pattern (35 bp):
ATGATAATGGATTAGGTAAATATTCCAGGATAATC
Found at i:4573202 original size:26 final size:26
Alignment explanation
Indices: 4573166--4573249 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
4573156 CCAGGATAAT
*
4573166 CATGATAATGGATTAGGTAAATATTC
1 CATGATAATGGATTAGGTAAATGTTC
*
4573192 CATGATAATGGGTTAGGTAAATGTTC
1 CATGATAATGGATTAGGTAAATGTTC
*
4573218 CATGATAATGGTTTAGGTAAATGTTC
1 CATGATAATGGATTAGGTAAATGTTC
4573244 CATGAT
1 CATGAT
4573250 GGGCATTTCA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.33, C:0.08, G:0.23, T:0.36
Consensus pattern (26 bp):
CATGATAATGGATTAGGTAAATGTTC
Found at i:4573227 original size:87 final size:87
Alignment explanation
Indices: 4573081--4573245 Score: 269
Period size: 87 Copynumber: 1.9 Consensus size: 87
4573071 TGGTACAAAT
*
4573081 TGATAATGTGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCAATGATAATGGGTTA
1 TGATAATGTGTTAGGTAAATATTCCATGATAATGGATTAGGTAAATATTCAATGATAATGGGTTA
4573146 GGTAAATGTTCCAGGATAATCA
66 GGTAAATGTTCCAGGATAATCA
* * * *
4573168 TGATAATG-GATTAGGTAAATATTCCATGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTT
1 TGATAATGTG-TTAGGTAAATATTCCATGATAATGGATTAGGTAAATATTCAATGATAATGGGTT
4573232 AGGTAAATGTTCCA
65 AGGTAAATGTTCCA
4573246 TGATGGGCAT
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
86 1 0.01
87 71 0.99
ACGTcount: A:0.35, C:0.07, G:0.23, T:0.35
Consensus pattern (87 bp):
TGATAATGTGTTAGGTAAATATTCCATGATAATGGATTAGGTAAATATTCAATGATAATGGGTTA
GGTAAATGTTCCAGGATAATCA
Found at i:4574822 original size:21 final size:21
Alignment explanation
Indices: 4574796--4574835 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
4574786 CATGTCTGAC
4574796 TGTTGTTATTA-CTGCATGCCA
1 TGTTGTTATTATCTG-ATGCCA
4574817 TGTTGTTATTATCTGATGC
1 TGTTGTTATTATCTGATGC
4574836 ATGGGACTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.17, C:0.15, G:0.20, T:0.47
Consensus pattern (21 bp):
TGTTGTTATTATCTGATGCCA
Found at i:4576629 original size:9 final size:10
Alignment explanation
Indices: 4576595--4576637 Score: 52
Period size: 10 Copynumber: 4.2 Consensus size: 10
4576585 TTTACAAATA
*
4576595 AAATATATAC
1 AAATATATAT
4576605 AAATCATATAAT
1 AAAT-ATAT-AT
4576617 AAATA-ATAT
1 AAATATATAT
4576626 AAATATATAT
1 AAATATATAT
4576636 AA
1 AA
4576638 TAAAATCTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
9 7 0.24
10 12 0.41
11 5 0.17
12 5 0.17
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.33
Consensus pattern (10 bp):
AAATATATAT
Found at i:4576648 original size:14 final size:15
Alignment explanation
Indices: 4576619--4576652 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
4576609 CATATAATAA
4576619 ATAATATAAATATAT
1 ATAATATAAATATAT
*
4576634 ATAATA-AAATCTAT
1 ATAATATAAATATAT
4576648 ATAAT
1 ATAAT
4576653 GCATATATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (15 bp):
ATAATATAAATATAT
Found at i:4576658 original size:45 final size:44
Alignment explanation
Indices: 4576591--4576675 Score: 102
Period size: 45 Copynumber: 1.9 Consensus size: 44
4576581 ATAATTTACA
*
4576591 AATAAAATATATACAAATCATATAATAA-ATAATATAAATATATAT
1 AATAAAATATATACAAATCATAT-ATAAGA-AAGATAAATATATAT
* *
4576636 AATAAAATCTATA-TAATGCATATATAAGAAAGATAAATAT
1 AATAAAATATATACAAAT-CATATATAAGAAAGATAAATAT
4576676 TGCAAGGAAC
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
44 17 0.49
45 18 0.51
ACGTcount: A:0.60, C:0.05, G:0.04, T:0.32
Consensus pattern (44 bp):
AATAAAATATATACAAATCATATATAAGAAAGATAAATATATAT
Found at i:4576730 original size:23 final size:23
Alignment explanation
Indices: 4576704--4576751 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
4576694 ATATAGCATG
4576704 TAAT-AAAAATGCATAAATAA-ATA
1 TAATGAAAAATG-ATAAA-AATATA
*
4576727 TAATGAAATATGATAAAAATATA
1 TAATGAAAAATGATAAAAATATA
4576750 TA
1 TA
4576752 TATATATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
22 2 0.09
23 14 0.64
24 6 0.27
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.29
Consensus pattern (23 bp):
TAATGAAAAATGATAAAAATATA
Found at i:4576771 original size:3 final size:3
Alignment explanation
Indices: 4576759--4576790 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
4576749 ATATATATAT
4576759 ATA A-A ATA ATA ATA ATA ATA ATA AT- ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
4576791 GTATTTTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
2 4 0.15
3 23 0.85
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:4576841 original size:15 final size:14
Alignment explanation
Indices: 4576749--4576842 Score: 70
Period size: 15 Copynumber: 6.5 Consensus size: 14
4576739 ATAAAAATAT
4576749 ATATATATATATAAA
1 ATATATATATA-AAA
*
4576764 ATA-ATA-ATAATA
1 ATATATATATAAAA
4576776 ATA-ATAATATAATAA
1 ATATAT-ATATAA-AA
* *
4576791 GTATTTTATATAAAA
1 ATA-TATATATAAAA
4576806 ATATAGTA-ATAAAA
1 ATATA-TATATAAAA
4576820 ATAATATATATTAAAA
1 AT-ATATATA-TAAAA
4576836 ATATATA
1 ATATATA
4576843 CCATATAGTA
Statistics
Matches: 64, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
12 7 0.11
13 4 0.06
14 18 0.28
15 21 0.33
16 13 0.20
17 1 0.02
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (14 bp):
ATATATATATAAAA
Found at i:4578849 original size:207 final size:206
Alignment explanation
Indices: 4578404--4578960 Score: 841
Period size: 207 Copynumber: 2.7 Consensus size: 206
4578394 AAATCTGCTT
* *
4578404 CTTCGATTTGTTCTCTGTCAATACAGAGATGCCAAATCATCTTAGATTTGTTTCAGT-GTAAGCA
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCA-TCGTAAGCA
* * * * * * * *
4578468 TGCGAAAACCAAATCAGCTATGTTTTCGATTTGCTCCTTGTAAGCATAAGGATACCAAACCATTT
65 CGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAA-CATCT
* * * * ** * *
4578533 TGGATC-TACTTTAGTCTAATCATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCGTCTAATA
129 TGGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCATCGAATA
4578597 TGGAGACGCCAAA
194 TGGAGACGCCAAA
*
4578610 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
4578675 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAA-CATCTT
* *
4578740 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCTCTTCATCGAATAT
130 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCATCGAATAT
4578805 GGAGACGCCAAA
195 GGAGACGCCAAA
*
4578817 CTTCGATTT-TCTCTCTGACAATATAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCA
1 CTTCGATTTGT-TCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCA
*
4578881 CGTGAAAGCCAAATCAGCTATATCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACTATCT
65 CGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAAC-ATCT
4578946 TGGATCTTGCTTCAG
129 TGGATCTTGCTTCAG
4578961 CCAGATTTGC
Statistics
Matches: 322, Mismatches: 25, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
205 1 0.00
206 123 0.38
207 198 0.61
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (206 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACATCTTG
GATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCATCGAATATG
GAGACGCCAAA
Found at i:4591108 original size:22 final size:23
Alignment explanation
Indices: 4591061--4591112 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
4591051 ATAATTTACA
*
4591061 AATAAAATATATACAAATCATAT
1 AATAAAAAATATACAAATCATAT
4591084 AATAAAAAATATA-AAGAT-ATAT
1 AATAAAAAATATACAA-ATCATAT
4591106 AATAAAA
1 AATAAAA
4591113 TCTATATAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 13 0.48
23 14 0.52
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (23 bp):
AATAAAAAATATACAAATCATAT
Found at i:4591206 original size:10 final size:10
Alignment explanation
Indices: 4591189--4591250 Score: 54
Period size: 10 Copynumber: 5.9 Consensus size: 10
4591179 AAAATGCATA
4591189 AATAAAATAT
1 AATAAAATAT
*
4591199 AATGAAATAT
1 AATAAAATAT
*
4591209 GATAAAATAT
1 AATAAAATAT
*
4591219 -ATATATATAT
1 AATA-AAATAT
4591229 AAATAATAATAAT
1 -AATAA-AAT-AT
4591242 AATAAAATA
1 AATAAAATA
4591251 ATAAGTATGT
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
9 3 0.07
10 23 0.55
11 4 0.10
12 10 0.24
13 2 0.05
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (10 bp):
AATAAAATAT
Found at i:4591292 original size:17 final size:18
Alignment explanation
Indices: 4591212--4591309 Score: 59
Period size: 17 Copynumber: 5.6 Consensus size: 18
4591202 GAAATATGAT
4591212 AAAAT-ATATATATATATA
1 AAAATAATATATATAT-TA
*
4591230 AATAATAATA-ATA-ATAA
1 AA-AATAATATATATATTA
* *
4591247 AATAATAAGTATGTTTATATA
1 AA-AATAA-TATATATAT-TA
*
4591268 AAAAT-ATA-GTA-A-TA
1 AAAATAATATATATATTA
4591282 AAAATAATATATATATTA
1 AAAATAATATATATATTA
4591300 AAAAT-ATATA
1 AAAATAATATA
4591310 CCATATAGTA
Statistics
Matches: 64, Mismatches: 6, Indels: 21
0.70 0.07 0.23
Matches are distributed among these distances:
14 7 0.11
15 3 0.05
16 3 0.05
17 17 0.27
18 15 0.23
19 8 0.12
20 8 0.12
21 3 0.05
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (18 bp):
AAAATAATATATATATTA
Found at i:4592799 original size:19 final size:19
Alignment explanation
Indices: 4592728--4592818 Score: 100
Period size: 19 Copynumber: 4.8 Consensus size: 19
4592718 AAATTAAATC
* *
4592728 TCTAAGATTACAAAATCATA
1 TCTAAGATTGC-ATATCATA
4592748 TCTTCAAGATTGCATATCATA
1 TC-T-AAGATTGCATATCATA
*
4592769 TC--ATA-T-CATATCATA
1 TCTAAGATTGCATATCATA
4592784 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
4592803 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
4592819 CTTAAAGATT
Statistics
Matches: 61, Mismatches: 4, Indels: 13
0.78 0.05 0.17
Matches are distributed among these distances:
15 11 0.18
16 1 0.02
17 4 0.07
18 1 0.02
19 25 0.41
20 2 0.03
21 10 0.16
22 7 0.11
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.36
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:4592804 original size:5 final size:5
Alignment explanation
Indices: 4592760--4592785 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
4592750 TTCAAGATTG
4592760 CATAT CATAT CATAT CATAT CATAT C
1 CATAT CATAT CATAT CATAT CATAT C
4592786 TAAGATTGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.38
Consensus pattern (5 bp):
CATAT
Found at i:4593352 original size:87 final size:87
Alignment explanation
Indices: 4593212--4593380 Score: 205
Period size: 87 Copynumber: 1.9 Consensus size: 87
4593202 ACAATACAGA
** *
4593212 GATGCCAAATCATCTTAGATCTACTTCAGCGTAAGCACGTGAAAGCCAAATCTGTTGTGTCTTCA
1 GATGCCAAATCATCTTAGATCTACTTCAGCAAAAGCACGTGAAAGCCAAATCTGTTATGTCTTCA
4593277 ATTTGCTCCTTATAAACACAAG
66 ATTTGCTCCTTATAAACACAAG
* * * * * * * *
4593299 GATGCCAAATCATCTTGGATCTGCTTCAGTAAAATCATC-TGAAGGTCAGATCTGTTATGTCTTT
1 GATGCCAAATCATCTTAGATCTACTTCAGCAAAAGCA-CGTGAAAGCCAAATCTGTTATGTCTTC
* *
4593363 AATTTGCTTCTTGTAAAC
65 AATTTGCTCCTTATAAAC
4593381 TTATGACTGT
Statistics
Matches: 68, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
87 67 0.99
88 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.34
Consensus pattern (87 bp):
GATGCCAAATCATCTTAGATCTACTTCAGCAAAAGCACGTGAAAGCCAAATCTGTTATGTCTTCA
ATTTGCTCCTTATAAACACAAG
Found at i:4594028 original size:204 final size:205
Alignment explanation
Indices: 4593446--4594257 Score: 1361
Period size: 205 Copynumber: 4.0 Consensus size: 205
4593436 AAATCTGTTT
* * *
4593446 CTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACATAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
* *
4593511 GCGAAAACCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * * *
4593576 GGATCTACTTCA--AT---CATCTGAAGGTTAGATCTACTATGTATCTGCTCTCCGTTGAAATGG
131 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTACTCTCCGTCGAAATGG
*
4593636 AGATGCTAGA
196 AGATGCCAGA
*
4593646 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTACTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
4593711 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
4593776 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTACTCTCCGTCGAAATGG
131 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTACTCTCCGTCGAAATGG
4593841 AGATGCCAGA
196 AGATGCCAGA
4593851 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
*
4593916 GTGAAAG-CAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATTTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
*
4593980 GGATCTGCTTCAGTATAAACATGTGAAGGTTAGATCTGCTATGTATCTACTCTCCGTCGAAATGG
131 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTACTCTCCGTCGAAATGG
*
4594045 AAATGCCAGA
196 AGATGCCAGA
*
4594055 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTTCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
* * *
4594120 GTGAAAGCCAAATCAGCTATGTCTTCAATTTGTTCCTTGTGAA-CACAAGGATGCGAAATCATCT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGT-AAGCACAAGGATGCCAAACCATCT
*
4594184 TGGATCTGCTTCAGTA-AAATCATCTGAAGGTTAGATCTGCTATGTATCTTCTCTCCGTCGAAAT
130 TGGATCTGCTTCAGTATAAA-CATCTGAAGGTTAGATCTGCTATGTATCTACTCTCCGTCGAAAT
**
4594248 AAAGATGCCA
194 GGAGATGCCA
4594258 AATCTGTTAT
Statistics
Matches: 579, Mismatches: 25, Indels: 11
0.94 0.04 0.02
Matches are distributed among these distances:
200 135 0.23
202 2 0.00
204 203 0.35
205 237 0.41
206 2 0.00
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.31
Consensus pattern (205 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTACTCTCCGTCGAAATGG
AGATGCCAGA
Found at i:4594210 original size:409 final size:405
Alignment explanation
Indices: 4593446--4594257 Score: 1360
Period size: 409 Copynumber: 2.0 Consensus size: 405
4593436 AAATCTGTTT
4593446 CTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACATAAGCAC
1 CTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACATAAGCAC
4593511 GCGAAAACCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GCGAAAACCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * *
4593576 GGATCTACTTCAATCATCTGAAGGTTAGATCTACTATGTATCTGCTCTCCGTTGAAATGGAGATG
131 GGATCTACTTCAATCATCTGAAGGTTAGATCTACTATGTATCTACTCTCCGTCGAAATGGAAATG
*
4593641 CTAGACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTACTTCATCGTA
196 CCAGACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTACTTCATCGTA
*
4593706 AGCACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACC
261 AGCACGTGAAAGCCAAATCAGCTATGTCTTCAATTTGTTCCTTGTAAGCACAAGGATGCCAAACC
4593771 ATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTACTCTCCGTCGA
326 ATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTACTCTCCGTCGA
**
4593836 AATGGAGATGCCAGA
391 AATAAAGATGCCAGA
* * *
4593851 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACATAAGCAC
* * *
4593916 GTG-AAAGCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATTTT
66 GCGAAAACCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * *
4593980 GGATCTGCTTCAGTATAAACATGTGAAGGTTAGATCTGCTATGTATCTACTCTCCGTCGAAATGG
131 GGATCTACTTCA--AT---CATCTGAAGGTTAGATCTACTATGTATCTACTCTCCGTCGAAATGG
*
4594045 AAATGCCAGACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTTCTTCA
191 AAATGCCAGACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTACTTCA
4594110 TCGTAAGCACGTGAAAGCCAAATCAGCTATGTCTTCAATTTGTTCCTTGTGAA-CACAAGGATGC
256 TCGTAAGCACGTGAAAGCCAAATCAGCTATGTCTTCAATTTGTTCCTTGT-AAGCACAAGGATGC
* * *
4594174 GAAATCATCTTGGATCTGCTTCAGTA-AAATCATCTGAAGGTTAGATCTGCTATGTATCTTCTCT
320 CAAACCATCTTGGATCTGCTTCAGTATAAA-CATCTGAAGGTTAGATCTGCTATGTATCTACTCT
4594238 CCGTCGAAATAAAGATGCCA
384 CCGTCGAAATAAAGATGCCA
4594258 AATCTGTTAT
Statistics
Matches: 380, Mismatches: 20, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
404 70 0.18
405 64 0.17
406 2 0.01
408 3 0.01
409 239 0.63
410 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.31
Consensus pattern (405 bp):
CTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACATAAGCAC
GCGAAAACCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTACTTCAATCATCTGAAGGTTAGATCTACTATGTATCTACTCTCCGTCGAAATGGAAATG
CCAGACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTACTTCATCGTA
AGCACGTGAAAGCCAAATCAGCTATGTCTTCAATTTGTTCCTTGTAAGCACAAGGATGCCAAACC
ATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTACTCTCCGTCGA
AATAAAGATGCCAGA
Found at i:4601529 original size:26 final size:25
Alignment explanation
Indices: 4601494--4601543 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
4601484 ATATATATCA
*
4601494 TAAAATAGCACATAAAAGAAATAAT
1 TAAAATAGCACATAAAAAAAATAAT
*
4601519 TAAACATAGCATATAAAAAAAATAA
1 TAAA-ATAGCACATAAAAAAAATAA
4601544 AACTATGCAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 4 0.18
26 18 0.82
ACGTcount: A:0.66, C:0.08, G:0.06, T:0.20
Consensus pattern (25 bp):
TAAAATAGCACATAAAAAAAATAAT
Found at i:4602118 original size:19 final size:19
Alignment explanation
Indices: 4602076--4602136 Score: 99
Period size: 19 Copynumber: 3.3 Consensus size: 19
4602066 CATATCATAT
*
4602076 CATATAATATCTAAGATT-
1 CATATCATATCTAAGATTG
4602094 -ATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG
4602112 CATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG
4602131 CATATC
1 CATATC
4602137 CTTAAAGATT
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
17 16 0.40
19 24 0.60
ACGTcount: A:0.39, C:0.15, G:0.08, T:0.38
Consensus pattern (19 bp):
CATATCATATCTAAGATTG
Found at i:4603922 original size:28 final size:24
Alignment explanation
Indices: 4603875--4603924 Score: 64
Period size: 28 Copynumber: 1.9 Consensus size: 24
4603865 CTAAATGGTT
4603875 TTTATTAATTTTTTATTTTTAAAC
1 TTTATTAATTTTTTATTTTTAAAC
4603899 TTTATTTAATATTTTATATATTTTAA
1 TTTA-TTAAT-TTTT-TAT-TTTTAA
4603925 TAATATTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 4 0.18
25 5 0.23
26 4 0.18
27 3 0.14
28 6 0.27
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (24 bp):
TTTATTAATTTTTTATTTTTAAAC
Found at i:4603974 original size:18 final size:18
Alignment explanation
Indices: 4603947--4603998 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 18
4603937 TTTTATAAAA
*
4603947 TTTTATAAAATATATTAT
1 TTTTAAAAAATATATTAT
*
4603965 TTTTAAAAAATATTATTTT
1 TTTTAAAAAATA-TATTAT
4603984 TAATTTAAAAAATAT
1 T--TTTAAAAAATAT
4603999 TAAGCTTCGA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 11 0.38
19 6 0.21
20 1 0.03
21 11 0.38
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
TTTTAAAAAATATATTAT
Found at i:4603977 original size:16 final size:16
Alignment explanation
Indices: 4603946--4603986 Score: 64
Period size: 16 Copynumber: 2.5 Consensus size: 16
4603936 ATTTTATAAA
*
4603946 ATTTTATAAAATATATT
1 ATTTT-TAAAAAATATT
4603963 ATTTTTAAAAAATATT
1 ATTTTTAAAAAATATT
4603979 ATTTTTAA
1 ATTTTTAA
4603987 TTTAAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 18 0.78
17 5 0.22
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
ATTTTTAAAAAATATT
Found at i:4605717 original size:26 final size:26
Alignment explanation
Indices: 4605658--4605792 Score: 218
Period size: 26 Copynumber: 5.2 Consensus size: 26
4605648 TGATACAAAT
4605658 TGATAATAGGTTAGGTAAATGTT-CA
1 TGATAATAGGTTAGGTAAATGTTCCA
4605683 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
4605709 TGTTAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
4605735 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
4605761 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
4605787 TGATAA
1 TGATAA
4605793 GAATTTCATG
Statistics
Matches: 105, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
25 23 0.22
26 82 0.78
ACGTcount: A:0.33, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:4607815 original size:136 final size:137
Alignment explanation
Indices: 4607570--4607855 Score: 520
Period size: 136 Copynumber: 2.1 Consensus size: 137
4607560 GAGTAGTCTC
4607570 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
* *
4607635 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTTTGGCCCAGTATC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
4607700 ACTGTTA
131 ACTGTTA
*
4607707 CCCAAATGGGCTTGCATATG-TTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
4607771 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
4607836 ACTGTTA
131 ACTGTTA
**
4607843 CCTGAATGGGCTT
1 CCCAAATGGGCTT
4607856 AGGCCCAATG
Statistics
Matches: 144, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
136 124 0.86
137 20 0.14
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.32
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:4611166 original size:32 final size:32
Alignment explanation
Indices: 4611106--4611167 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
4611096 CATATTATTC
* *
4611106 TATATTTTCTTTTAAATCTTTATGTGTATATA
1 TATATATTCTTTTAAATCTTTATATGTATATA
*
4611138 TATATATTCTTTTAAAT-TTATTTATGTATA
1 TATATATTCTTTTAAATCTT-TATATGTATA
4611168 ACTTGCTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 2 0.08
32 24 0.92
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.60
Consensus pattern (32 bp):
TATATATTCTTTTAAATCTTTATATGTATATA
Found at i:4612235 original size:50 final size:50
Alignment explanation
Indices: 4612156--4612254 Score: 171
Period size: 50 Copynumber: 2.0 Consensus size: 50
4612146 AATTTGGTAC
4612156 CATACGTAACCGGCTCCCGAACCCATTTTTTTTTAAATCTACGTAGACCT
1 CATACGTAACCGGCTCCCGAACCCATTTTTTTTTAAATCTACGTAGACCT
* * *
4612206 CATACGTAACCGGCTCCCGAACTCTTTTTTTTTTTAATCTACGTAGACC
1 CATACGTAACCGGCTCCCGAACCCATTTTTTTTTAAATCTACGTAGACC
4612255 AAAATCGATT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.24, C:0.29, G:0.12, T:0.34
Consensus pattern (50 bp):
CATACGTAACCGGCTCCCGAACCCATTTTTTTTTAAATCTACGTAGACCT
Found at i:4613260 original size:11 final size:11
Alignment explanation
Indices: 4613238--4613274 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
4613228 AAGCAATTTT
4613238 TATAAAATTATA
1 TATAAAA-TATA
*
4613250 TTTAAAATATA
1 TATAAAATATA
4613261 TATAAAATATA
1 TATAAAATATA
4613272 TAT
1 TAT
4613275 CCTAAAATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 17 0.74
12 6 0.26
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (11 bp):
TATAAAATATA
Found at i:4628576 original size:3 final size:3
Alignment explanation
Indices: 4628568--4628635 Score: 136
Period size: 3 Copynumber: 22.7 Consensus size: 3
4628558 CAAGGTGACT
4628568 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
4628616 TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TT
4628636 TTCATCTATT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:4629282 original size:17 final size:17
Alignment explanation
Indices: 4629260--4629300 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
4629250 TTTTAATTCA
4629260 ATTTTAGTCT-TTT-TTT
1 ATTTTA-TCTATTTATTT
4629276 CATTTTATCTATTTATTT
1 -ATTTTATCTATTTATTT
4629294 ATTTTAT
1 ATTTTAT
4629301 TTTCGTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 3 0.14
17 16 0.73
18 3 0.14
ACGTcount: A:0.20, C:0.07, G:0.02, T:0.71
Consensus pattern (17 bp):
ATTTTATCTATTTATTT
Found at i:4630172 original size:19 final size:22
Alignment explanation
Indices: 4630133--4630172 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
4630123 AGAAACCCAA
4630133 CCATATCCAACCGTATACACCC
1 CCATATCCAACCGTATACACCC
4630155 CCATA-CCAACC-T-TACACC
1 CCATATCCAACCGTATACACC
4630173 GTGTGGGGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 6 0.33
22 5 0.28
ACGTcount: A:0.33, C:0.47, G:0.03, T:0.17
Consensus pattern (22 bp):
CCATATCCAACCGTATACACCC
Found at i:4630271 original size:27 final size:28
Alignment explanation
Indices: 4630234--4630373 Score: 166
Period size: 27 Copynumber: 5.2 Consensus size: 28
4630224 AGCATGGCTG
* *
4630234 CCAGA-ACAGATA-ATGTGACAGAGTCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
4630260 CCAGATACAGATA-ATCATGGCAGAGCCA
1 CCAGATACAGATATAT-GTGGCAGAGCCA
*
4630288 CCAGA-ACAGATATATGTGGTAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
4630315 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* *
4630342 CCAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
4630369 CCAGA
1 CCAGA
4630374 ACGCTTCCTC
Statistics
Matches: 102, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
26 5 0.05
27 81 0.79
28 16 0.16
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.19
Consensus pattern (28 bp):
CCAGATACAGATATATGTGGCAGAGCCA
Found at i:4632032 original size:26 final size:26
Alignment explanation
Indices: 4631994--4632077 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
4631984 CATGAAATTC
* *
4631994 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
4632020 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
4632046 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
4632072 TTATCA
1 TTATCA
4632078 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.35
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Done.