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 7 of 292
Found at i:1958707 original size:21 final size:21
Alignment explanation
Indices: 1958683--1958724 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1958673 TTTTTTAAAG
*
1958683 TTTTAAAACTAATTTTA-ATTT
1 TTTTAAAAAT-ATTTTATATTT
1958704 TTTTAAAAATATTTTATATTT
1 TTTTAAAAATATTTTATATTT
1958725 AATGATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTTAAAAATATTTTATATTT
Found at i:1959624 original size:15 final size:15
Alignment explanation
Indices: 1959604--1959657 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 15
1959594 ATACTACAAA
1959604 ATATTTATTATTAAT
1 ATATTTATTATTAAT
*
1959619 ATATTTATAATTGTAAT
1 ATATTTATTA-T-TAAT
*
1959636 AAATATTTATTATTAAA
1 --ATATTTATTATTAAT
1959653 ATATT
1 ATATT
1959658 AACATTGAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
15 14 0.44
16 1 0.03
17 7 0.22
18 1 0.03
19 9 0.28
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATATTTATTATTAAT
Found at i:1959721 original size:16 final size:16
Alignment explanation
Indices: 1959690--1959726 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
1959680 ATGTGAATAA
1959690 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
1959706 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
1959722 TATTA
1 TATTA
1959727 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:1959774 original size:22 final size:22
Alignment explanation
Indices: 1959740--1959782 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
1959730 TAAAATTGAA
1959740 ATATTAAATAATTTATATTTATT
1 ATATTAAATAATTTAT-TTTATT
1959763 ATATT-AATAATTTATTTTAT
1 ATATTAAATAATTTATTTTAT
1959783 GACTAAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 5 0.25
22 10 0.50
23 5 0.25
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
ATATTAAATAATTTATTTTATT
Found at i:1960529 original size:17 final size:16
Alignment explanation
Indices: 1960509--1960541 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
1960499 TATTTCATAT
1960509 TAATTAAATAAAATAAA
1 TAATTAAAT-AAATAAA
1960526 TAATTAAATAAATAAA
1 TAATTAAATAAATAAA
1960542 AGAAAGACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
TAATTAAATAAATAAA
Found at i:1960632 original size:18 final size:18
Alignment explanation
Indices: 1960605--1960639 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1960595 TATAAATGTA
*
1960605 AAATAAATATTTGTTATT
1 AAATAAATATTTATTATT
*
1960623 AAATAGATATTTATTAT
1 AAATAAATATTTATTAT
1960640 AGTTATTAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.49
Consensus pattern (18 bp):
AAATAAATATTTATTATT
Found at i:1960645 original size:24 final size:24
Alignment explanation
Indices: 1960617--1960667 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
1960607 ATAAATATTT
1960617 GTTATTAAATAGATATTTATTATA
1 GTTATTAAATAGATATTTATTATA
1960641 GTTATTAAATAGATATTTATTATA
1 GTTATTAAATAGATATTTATTATA
1960665 GTT
1 GTT
1960668 GTCGAAACTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.39, C:0.00, G:0.10, T:0.51
Consensus pattern (24 bp):
GTTATTAAATAGATATTTATTATA
Found at i:1961343 original size:126 final size:126
Alignment explanation
Indices: 1961118--1961345 Score: 321
Period size: 126 Copynumber: 1.8 Consensus size: 126
1961108 TTTTAGCCTT
* * * * *
1961118 AAGAGGATATTCGAATATTCAAAATAAACAAAGAAAGCGGAGCCCAGTACGTTAGGGCACGATTC
1 AAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGAGCACGATCC
** * *
1961183 TTCGAATTCTTTAAATACCGAACATTGCCTTTATTTTGAAATCTTTTGAGAGTGCACTGGG
66 TTCGAATTCCATAAATACCGAAAATTGCCATTATTTTGAAATCTTTTGAGAGTGCACTGGG
* * * *
1961244 AAGAGGTTATTCGAATATTCAAGACCAGCAAAGAAAGCGAAACCCAGTACGTTAGAGCACGATCC
1 AAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGAGCACGATCC
* *
1961309 TTTGAGTTCCATAAATACCGAAAATTGCCATTATTTT
66 TTCGAATTCCATAAATACCGAAAATTGCCATTATTTT
1961346 AAAAATGATT
Statistics
Matches: 87, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
126 87 1.00
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (126 bp):
AAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGAGCACGATCC
TTCGAATTCCATAAATACCGAAAATTGCCATTATTTTGAAATCTTTTGAGAGTGCACTGGG
Found at i:1961791 original size:2 final size:2
Alignment explanation
Indices: 1961784--1961810 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1961774 GGGAGAACGA
1961784 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1961811 ATAGTATAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1961962 original size:11 final size:12
Alignment explanation
Indices: 1961944--1961972 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
1961934 TATAATGATT
1961944 TAAAAAAAATAG
1 TAAAAAAAATAG
1961956 TAAAAAAAATAG
1 TAAAAAAAATAG
1961968 TAAAA
1 TAAAA
1961973 CAAACGTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.17
Consensus pattern (12 bp):
TAAAAAAAATAG
Found at i:1962518 original size:10 final size:10
Alignment explanation
Indices: 1962503--1962527 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
1962493 GTTTTACTAT
1962503 AAGAAAAAAA
1 AAGAAAAAAA
1962513 AAGAAAAAAA
1 AAGAAAAAAA
1962523 AAGAA
1 AAGAA
1962528 GCAAATTCGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (10 bp):
AAGAAAAAAA
Found at i:1963492 original size:43 final size:44
Alignment explanation
Indices: 1963438--1964043 Score: 282
Period size: 43 Copynumber: 13.7 Consensus size: 44
1963428 CAAAATTCAA
* *
1963438 TCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGT-ATTTAG
1 TCTGCTCCACTCCTGCTCAGTGAAGATAAGATCTGATAATTTAG
* * * * *
1963481 CCTGCTCCACTCCTGCTTAGTGAAGATAAGATCTGATGATTGGAA
1 TCTGCTCCACTCCTGCTCAGTGAAGATAAGATCTGATAATT-TAG
* * * * * *
1963526 TCTGCTCCA-TCGCCGGT-ACGTGGAGATAAGATTCT-CTAAAATTCG
1 TCTGCTCCACTC-CTGCTCA-GTGAAGATAAGA-TCTGAT-AATTTAG
* * *
1963571 ATCTGCTTCACTCCTACTCAGTGAAGATAAGATCTGGT-ATTTAG
1 -TCTGCTCCACTCCTGCTCAGTGAAGATAAGATCTGATAATTTAG
* * * * *
1963615 CCTGCTCCACTCCTGCTCAGTGAAGATAAG-GCTGATGATTGGAA
1 TCTGCTCCACTCCTGCTCAGTGAAGATAAGATCTGATAATT-TAG
* * * * *
1963659 TCTGCTCCA-TCGCCGGTACA-TGGAGATAAGATTCATCAAAATTT-G
1 TCTGCTCCACTC-CTGCT-CAGTGAAGATAAGA-TC-TGATAATTTAG
* * *
1963704 ATCTGCTTCACTCCTACTCAGTGAAGATAAGATCTGGT-ATTTAG
1 -TCTGCTCCACTCCTGCTCAGTGAAGATAAGATCTGATAATTTAG
* * * * *
1963748 CCTGCTCCACTCCTGCTCAGTGAAGATAAG-GCTGATGATTGGAA
1 TCTGCTCCACTCCTGCTCAGTGAAGATAAGATCTGATAATT-TAG
* * * ** * * * *
1963792 TCTGCACCATCGCCGGGAC-GTGGAGATAAGATTCT-CTAAAATTCG
1 TCTGCTCCA-CTCCTGCTCAGTGAAGATAAGA-TCTGAT-AATTTAG
* *
1963837 ATCTACTTCACTCCTGCTCAGTGAAGATAAGATCT-AGT-ATTTAG
1 -TCTGCTCCACTCCTGCTCAGTGAAGATAAGATCTGA-TAATTTAG
* * * *
1963881 -CTTGCTCCACTCCTGCTCAGTGAAGATAAG-GCTGATGATTGGAA
1 TC-TGCTCCACTCCTGCTCAGTGAAGATAAGATCTGATAATT-TAG
* * ** * * * * *
1963925 TCTGCTCCATCGCCGGGAC-GTGGAGACAAGATTCT-CTAAAATTCG
1 TCTGCTCCA-CTCCTGCTCAGTGAAGATAAGA-TCTGAT-AATTTAG
*
1963970 ATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCT-AGT-ATTTAG
1 -TCTGCTCCACTCCTGCTCAGTGAAGATAAGATCTGA-TAATTTAG
* * *
1964014 CCTGCTCCACTCTTGCTCAATGAAGATAAG
1 TCTGCTCCACTCCTGCTCAGTGAAGATAAG
1964044 GCTGATGATA
Statistics
Matches: 408, Mismatches: 113, Indels: 84
0.67 0.19 0.14
Matches are distributed among these distances:
42 12 0.03
43 155 0.38
44 76 0.19
45 62 0.15
46 93 0.23
47 10 0.02
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.29
Consensus pattern (44 bp):
TCTGCTCCACTCCTGCTCAGTGAAGATAAGATCTGATAATTTAG
Found at i:1963719 original size:133 final size:133
Alignment explanation
Indices: 1963368--1964052 Score: 1176
Period size: 133 Copynumber: 5.1 Consensus size: 133
1963358 TACTGCTTAT
1963368 TGAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACGTGGAGATAAGATTCATC-AAA
1 TGAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACGTGGAGATAAGATTC-TCTAAA
*
1963432 ATTCAATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATTTAGCCTGCTCCACTCCTGC
65 ATTCGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATTTAGCCTGCTCCACTCCTGC
*
1963497 TTAG
130 TCAG
*
1963501 TGAAGATAAGATCTGATGATTGGAATCTGCTCCATCGCCGGTACGTGGAGATAAGATTCTCTAAA
1 TGAAGATAAG-GCTGATGATTGGAATCTGCTCCATCGCCGGTACGTGGAGATAAGATTCTCTAAA
*
1963566 ATTCGATCTGCTTCACTCCTACTCAGTGAAGATAAGATCTGGTATTTAGCCTGCTCCACTCCTGC
65 ATTCGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATTTAGCCTGCTCCACTCCTGC
1963631 TCAG
130 TCAG
*
1963635 TGAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACATGGAGATAAGATTCATC-AAA
1 TGAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACGTGGAGATAAGATTC-TCTAAA
* *
1963699 ATTTGATCTGCTTCACTCCTACTCAGTGAAGATAAGATCTGGTATTTAGCCTGCTCCACTCCTGC
65 ATTCGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATTTAGCCTGCTCCACTCCTGC
1963764 TCAG
130 TCAG
* *
1963768 TGAAGATAAGGCTGATGATTGGAATCTGCACCATCGCCGGGACGTGGAGATAAGATTCTCTAAAA
1 TGAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACGTGGAGATAAGATTCTCTAAAA
* * *
1963833 TTCGATCTACTTCACTCCTGCTCAGTGAAGATAAGATCTAGTATTTAGCTTGCTCCACTCCTGCT
66 TTCGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATTTAGCCTGCTCCACTCCTGCT
1963898 CAG
131 CAG
* *
1963901 TGAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGGACGTGGAGACAAGATTCTCTAAAA
1 TGAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACGTGGAGATAAGATTCTCTAAAA
* *
1963966 TTCGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTAGTATTTAGCCTGCTCCACTCTTGCT
66 TTCGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATTTAGCCTGCTCCACTCCTGCT
*
1964031 CAA
131 CAG
1964034 TGAAGATAAGGCTGATGAT
1 TGAAGATAAGGCTGATGAT
1964053 ATCTGTAATC
Statistics
Matches: 527, Mismatches: 21, Indels: 8
0.95 0.04 0.01
Matches are distributed among these distances:
132 2 0.00
133 397 0.75
134 128 0.24
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (133 bp):
TGAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACGTGGAGATAAGATTCTCTAAAA
TTCGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATTTAGCCTGCTCCACTCCTGCT
CAG
Found at i:1976050 original size:73 final size:73
Alignment explanation
Indices: 1975905--1976052 Score: 174
Period size: 73 Copynumber: 2.0 Consensus size: 73
1975895 CTTTTCAAGG
** * * *
1975905 AAAATAAACTCATATTTTGAGAGATGAGTTGAGCCTCAAGACACAGTTGAGGTATTTTTAATTTT
1 AAAATAAACTCATATTGAGAGAGATGAGTTGAGCCTCAAGACACAGCTGAGGTATTTTCAATTTC
*
1975970 TATTTTTC
66 TAGTTTTC
* * * *
1975978 AAAATCAACTCATATTGAGAGAGGTGAGTTGAGCCTC-AGCTCACGCGCTGAGGTATTTTCAATT
1 AAAATAAACTCATATTGAGAGAGATGAGTTGAGCCTCAAG-ACAC-AGCTGAGGTATTTTCAATT
1976042 TCT-GTTTTC
64 TCTAGTTTTC
1976051 AA
1 AA
1976053 TTTCTGTTCA
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
72 2 0.03
73 43 0.68
74 18 0.29
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.36
Consensus pattern (73 bp):
AAAATAAACTCATATTGAGAGAGATGAGTTGAGCCTCAAGACACAGCTGAGGTATTTTCAATTTC
TAGTTTTC
Found at i:1976051 original size:13 final size:13
Alignment explanation
Indices: 1976033--1976060 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1976023 CGCTGAGGTA
1976033 TTTTCAATTTCTG
1 TTTTCAATTTCTG
1976046 TTTTCAATTTCTG
1 TTTTCAATTTCTG
1976059 TT
1 TT
1976061 CATCAAAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.14, G:0.07, T:0.64
Consensus pattern (13 bp):
TTTTCAATTTCTG
Found at i:1976214 original size:14 final size:14
Alignment explanation
Indices: 1976195--1976223 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
1976185 CGCTGAGGTA
1976195 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
1976209 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
1976223 T
1 T
1976224 CGTCAAAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.14, G:0.07, T:0.66
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:1976316 original size:163 final size:163
Alignment explanation
Indices: 1975905--1976460 Score: 836
Period size: 163 Copynumber: 3.4 Consensus size: 163
1975895 CTTTTCAAGG
* ** * * * * *
1975905 AAAATAAACTCATATTTTGAGAGATGAGTTGAGCCTCAAGACACAGTTGAGGTATTTTTAATTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC-GCTGAGGTAATTTTAATTTC
* ** *
1975970 TATTTTTC---AAAATCAACTCATATTGAGAGAGGTGAGTTGAGCCTCAGCTCACGCGCTGAGGT
65 TGTTCATCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACGCGCTGAGGT
*
1976032 ATTTTCAATTTCTG-TTTTCAATTTCTGTTCATC
130 ATTTTCAATTTCTGTTTTTCAATTTCTGTTCGTC
*
1976065 AAAATCAACTCATATTGCGAGAGGTGAGTTTGAGCCTCAGGACACGCTGAGGTAATTTCAA-TTC
1 AAAATCAACTCATATTGCGAGAGGTGAG-TTGAGCCTCAGGACACGCTGAGGTAATTTTAATTTC
* *
1976129 TGTTCATAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAACTCACGCGCTGAGGT
65 TGTTCATCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACGCGCTGAGGT
1976194 ATTTTCAATTTCTGTTTTTCAATTTCTGTTCGTC
130 ATTTTCAATTTCTGTTTTTCAATTTCTGTTCGTC
*
1976228 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGTTGAGGTAATTTTAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTAATTTCT
*
1976293 GTTCATCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGCTCACGCGCTGAGGTA
66 GTTCATCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACGCGCTGAGGTA
1976358 TTTTCAATTTCTGTTTTTCAATTTCTGTTCGTC
131 TTTTCAATTTCTGTTTTTCAATTTCTGTTCGTC
* * *
1976391 AAGATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACGCGCTGAGGT-ATTTTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--GACACGCTGAGGTAATTTT-AATT
1976455 TCTGTT
63 TCTGTT
1976461 TTTCAATTTC
Statistics
Matches: 362, Mismatches: 25, Indels: 13
0.90 0.06 0.03
Matches are distributed among these distances:
159 6 0.02
160 37 0.10
161 15 0.04
162 96 0.27
163 183 0.51
164 5 0.01
165 20 0.06
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (163 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTAATTTCT
GTTCATCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACGCGCTGAGGTA
TTTTCAATTTCTGTTTTTCAATTTCTGTTCGTC
Found at i:1976334 original size:75 final size:76
Alignment explanation
Indices: 1976209--1976460 Score: 253
Period size: 88 Copynumber: 3.2 Consensus size: 76
1976199 CAATTTCTGT
* *
1976209 TTTTCAATTTCTGTTCGTC---AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG-GAC
1 TTTTCAATTTCTGTTCATCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCCAC
*
1976270 ACGTTGAGGTAA
66 ACGCTGAGGT-A
*
1976282 TTTT-AATTTCTGTTCATCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGCTCA
1 TTTTCAATTTCTGTTCATCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGC-CA
*
1976346 CGCGCTGAGGTA
65 CACGCTGAGGTA
*** *
1976358 TTTTCAATTTCTGTTTTTCAATTTCTGTTCGTCAAGATCAACTCATATTGCGAGAGGTGAGTTGA
1 TTTTCAATTTCTG---TTC-A-------TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
*
1976423 GCCTCAGCTCACGCGCTGAGGTA
55 GCCTCAGC-CACACGCTGAGGTA
1976446 TTTTCAATTTCTGTT
1 TTTTCAATTTCTGTT
1976461 TTTCAATTTC
Statistics
Matches: 152, Mismatches: 10, Indels: 22
0.83 0.05 0.12
Matches are distributed among these distances:
72 13 0.09
73 4 0.03
75 38 0.25
76 5 0.03
77 18 0.12
80 3 0.02
81 1 0.01
85 2 0.01
88 68 0.45
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (76 bp):
TTTTCAATTTCTGTTCATCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCCAC
ACGCTGAGGTA
Found at i:1976377 original size:14 final size:14
Alignment explanation
Indices: 1976358--1976386 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
1976348 CGCTGAGGTA
1976358 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
1976372 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
1976386 T
1 T
1976387 CGTCAAGATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.14, G:0.07, T:0.66
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:1976438 original size:88 final size:86
Alignment explanation
Indices: 1976305--1976508 Score: 347
Period size: 88 Copynumber: 2.3 Consensus size: 86
1976295 TCATCAAAAA
*
1976305 AATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGCTCACGCGCTGAGGTATTTTCAATTTCT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACGCGCTGAGGTATTTTCAATTTCT
1976370 GTTTTTCAATTTCTGTTCGTCAAG
66 GTTTTTCAATTTC--TT-GTCAAG
1976394 -ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACGCGCTGAGGTATTTTCAATTTCT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACGCGCTGAGGTATTTTCAATTTCT
1976458 GTTTTTCAATTTCTTGTCAAG
66 GTTTTTCAATTTCTTGTCAAG
* *
1976479 AATCAACTCACATTGCGAGAGGTGGGTTGA
1 AATCAACTCATATTGCGAGAGGTGAGTTGA
1976509 ACCTTTTAAT
Statistics
Matches: 111, Mismatches: 3, Indels: 5
0.93 0.03 0.04
Matches are distributed among these distances:
85 6 0.05
86 29 0.26
88 76 0.68
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.35
Consensus pattern (86 bp):
AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACGCGCTGAGGTATTTTCAATTTCT
GTTTTTCAATTTCTTGTCAAG
Found at i:1976824 original size:72 final size:73
Alignment explanation
Indices: 1976704--1976967 Score: 361
Period size: 73 Copynumber: 3.6 Consensus size: 73
1976694 TAAGCCTTTT
1976704 AATTTCTGTTATTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTG
1 AATTTCTGTT-TTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTG
1976769 AGGTAATTTC
64 AGGTAATTTC
* *
1976779 AATTTCTGTTTTC-AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGTCACACGCTGA
1 AATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG-GACACGCTGA
**
1976843 GGTGTTTTC
65 GGTAATTTC
* * ** *
1976852 AACTTCTGTCTTTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACACGATG
1 AATTTCTGT-TTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTG
1976917 AGGTAATTTC
64 AGGTAATTTC
* *
1976927 AATTTCTGTTTGTC-AAGAATCAACTCACATTGCGAGAGGTG
1 AATTTCTGTTT-TCAAAAAATCAACTCATATTGCGAGAGGTG
1976968 GGAGAACCTT
Statistics
Matches: 167, Mismatches: 17, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
72 39 0.23
73 48 0.29
74 9 0.05
75 35 0.21
76 36 0.22
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.30
Consensus pattern (73 bp):
AATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAG
GTAATTTC
Found at i:1977040 original size:464 final size:466
Alignment explanation
Indices: 1976228--1977426 Score: 1804
Period size: 464 Copynumber: 2.5 Consensus size: 466
1976218 TCTGTTCGTC
* * *
1976228 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGTTGAGGTAATTTTAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCT
* * * *
1976293 GTTCATCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGCTCACGCGCTGAGGTA
66 GTT-TTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCGCTGAGGTG
* * * *
1976358 TTTTCAATTTCTGTTTTTCAATTTCTGTTCGTCAAGATCAACTCATATTGCGAGAGGTGAGTTGA
128 TTTTCAACTTCTGTTTTTCAA-----------AAAAATCAACTCATATTGCAAGAGGTGAGTTGA
* *
1976423 GCCTC-AGCTCACGCGCTGAGGTATTTTCAATTTCTGTTTTTCAATTTCTTGTCAAGAATCAACT
182 GCCTCAAG---ACACGCTGAGGTAATTTCAATTTCTG----------T-TTGTCAAGAATCAACT
* * *
1976487 CACATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAGCTCATATTGTGAG
233 CACATTGCGAGAGGTGGGTAGAACCTTTTAATTTCTACTTTTTCAAAATCAACTCATATTGCGAG
1976552 AGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATCAACTCATAT
298 AGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATCAACTCATAT
*
1976617 TGCGAGAAGTGAGTTGAG-CCTCGGGGCAAGTTGAGGTACTTTTAGTTTTAAATTGACTCATGTT
363 TGCGAGAAGTGAGTTGAGCCCGCGGGGCAAGTTGAGGTACTTTTAGTTTTAAATTGACTCATGTT
1976681 GCGAGAGGTGAGTTAAGCCTTTTAATTTCTGTTATTCAAA
428 GCGAGAGGTGAGTTAAGCCTTTTAATTTCT-TTATTCAAA
1976721 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCT
* *
1976786 GTTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTC-GGTCACACGCTGAGGTGTTT
66 GTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCGCTGAGGTGTTT
* *
1976850 TCAACTTCTGTCTTTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACACGA
131 TCAACTTCTGTTTTTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACACGC
1976915 TGAGGTAATTTCAATTTCTGTTTGTCAAGAATCAACTCACATTGCGAGAGGTGGG-AGAACCTTT
196 TGAGGTAATTTCAATTTCTGTTTGTCAAGAATCAACTCACATTGCGAGAGGTGGGTAGAACCTTT
1976979 TAATTTCTACTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
261 TAATTTCTACTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
1977044 GGTAATTTCAATTTCTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCCGCGGGGC
326 GGTAATTTCAATTTCTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCCGCGGGGC
1977109 AAGTTGAGGTACTTTTAGTTTTAAATTGACTCATGTTGCGAGAGGTGAGTTAAGCCTTTTAATTT
391 AAGTTGAGGTACTTTTAGTTTTAAATTGACTCATGTTGCGAGAGGTGAGTTAAGCCTTTTAATTT
*
1977174 CTTTTTTCAAA
456 CTTTATTCAAA
*
1977185 AAAATCAACTCATATTGCGA-AGGTAAGTTGAGCCTCGGGACACGCTGAGGTAATTTTCAATTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAA-TTTCAATTTC
* *
1977249 TGTTTTCAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGGTCACGCGCTGAGGTGTT
65 TGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCGCTGAGGTGTT
1977314 TTCAACTTCTGTTTTTC--AAAAATCAACTCATATTGCGAA-AGGTGAGTTGAGCCTCAAGACAC
130 TTCAACTTCTGTTTTTCAAAAAAATCAACTCATATTGC-AAGAGGTGAGTTGAGCCTCAAGACAC
* *
1977376 GCTGAGGTAATTTCAATTTCTG-TTGTCAAAAAATCAACTCATATTGCGAGA
194 GCTGAGGTAATTTCAATTTCTGTTTGTC-AAGAATCAACTCACATTGCGAGA
1977427 AATGAGTTGA
Statistics
Matches: 670, Mismatches: 30, Indels: 42
0.90 0.04 0.06
Matches are distributed among these distances:
462 5 0.01
463 116 0.17
464 209 0.31
465 143 0.21
466 1 0.00
476 23 0.03
478 35 0.05
479 2 0.00
489 33 0.05
490 36 0.05
492 2 0.00
493 65 0.10
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (466 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCT
GTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCGCTGAGGTGTTT
TCAACTTCTGTTTTTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACACGC
TGAGGTAATTTCAATTTCTGTTTGTCAAGAATCAACTCACATTGCGAGAGGTGGGTAGAACCTTT
TAATTTCTACTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
GGTAATTTCAATTTCTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCCGCGGGGC
AAGTTGAGGTACTTTTAGTTTTAAATTGACTCATGTTGCGAGAGGTGAGTTAAGCCTTTTAATTT
CTTTATTCAAA
Found at i:1977295 original size:73 final size:73
Alignment explanation
Indices: 1977165--1978156 Score: 1159
Period size: 73 Copynumber: 13.2 Consensus size: 73
1977155 GAGTTAAGCC
* * *
1977165 TTTT-AATTTCTTTTTTCAAAAAAATCAACTCATATTGCGA-AGGTAAGTTGAGCCTCGGGACAC
1 TTTTCAATTTCTGTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
1977228 GCTGAGGTAA
65 GCTGAGGT-A
* * *
1977238 TTTTCAATTTCTGTTTTC-AAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGGTCACG
1 TTTTCAATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACA
*
1977302 CGCTGAGGTG
64 CGCTGAGGTA
* * *
1977312 TTTTCAACTTCTGTTTTTC-AAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAAGACAC
1 TTTTCAATTTCTG-TTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
1977376 GCTGAGGTA
65 GCTGAGGTA
* * ** * *
1977385 ATTTCAATTTCTGTTGTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATG
1 TTTTCAATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
1977450 CTGAGGTA
66 CTGAGGTA
* * * ** *
1977458 TTTTCAATTTCAGTTTTCAAAAAAATCAATTCATATTGTGAGAAATGAGTTGAGCCTCA-GACAT
1 TTTTCAATTTCTGTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
1977522 GCTGAGGTA
65 GCTGAGGTA
*
1977531 TTTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAT
1 TTTTCAATTTCTGTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
1977596 GCTGAGGTA
65 GCTGAGGTA
* * * *
1977605 ATTTCAATTTCTGTTGTCAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGGACATG
1 TTTTCAATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
1977670 CTGAGGTA
66 CTGAGGTA
* * * ** *
1977678 ATTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGTAAGAGGCGAGTTGAGCCTCAGGTCAC
1 TTTTCAATTTCTGTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--AC
*
1977743 ACGCCGAGGTA
63 ACGCTGAGGTA
*
1977754 TTTTCAATTTCTGTCTTTCAAAAAAAAAAACATCAACTCATATTGCGAGAGGTGAGTTGAGCTTC
1 TTTTCAATTTCTGT-TTTC------AAAAA-ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
* *
1977819 AGATCACACACTGAGGTA
58 AG--GACACGCTGAGGTA
* * * * *
1977837 TTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGTGAGATGTGAGTTGAGCCTCAGGA
1 --TTTTCAATTTCT-GTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
1977902 CACGCTGAGGTA
62 CACGCTGAGGTA
* * *
1977914 -TTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCGGGACAC
1 TTTTCAATTTCTGTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
1977978 GCTGAGGTA
65 GCTGAGGTA
* * *
1977987 TTGTCAATTTTCGTATGTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGA
1 TTTTCAA-TTTC---TGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
1978052 CACGCTGAGGTA
62 CACGCTGAGGTA
* ** * *
1978064 TTTTTAATTTCTGTTGTAAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCAC
1 TTTTCAATTTCTGTT-TTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--AC
*
1978129 ACGCCGAGGTA
63 ACGCTGAGGTA
*
1978140 TTTTCAATTTCCGTTTT
1 TTTTCAATTTCTGTTTT
1978157 TCAATTTCTG
Statistics
Matches: 809, Mismatches: 79, Indels: 60
0.85 0.08 0.06
Matches are distributed among these distances:
72 24 0.03
73 308 0.38
74 187 0.23
75 58 0.07
76 53 0.07
77 72 0.09
78 5 0.01
79 32 0.04
80 6 0.01
82 6 0.01
83 42 0.05
85 15 0.02
86 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (73 bp):
TTTTCAATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
CTGAGGTA
Found at i:1977516 original size:147 final size:148
Alignment explanation
Indices: 1977165--1978156 Score: 1189
Period size: 147 Copynumber: 6.6 Consensus size: 148
1977155 GAGTTAAGCC
* * *
1977165 TTTT-AATTTCTTTTTTCAAAAAAATCAACTCATATTGCGA-AGGTAAGTTGAGCCTCGGGACAC
1 TTTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
*
1977228 GCTGAGGTAATTTTCAATTTCTGTTTTC--AAAAATCAACTCATATTGTGAGAGGTGAGTTGAGC
66 GCTGAGGTAA-TTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
* * *
1977291 CTCGGGTCACGCGCTGAGGTG
130 CTCAGG--ACACGCTGAGGTA
* * *
1977312 TTTTCAACTTCTGTTTTTC--AAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAAGACA
1 TTTTCAATTTCTG-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
* **
1977375 CGCTGAGGTAATTTCAATTTCTGTTGTC-AAAAAATCAACTCATATTGCGAGAAATGAGTTGAGC
65 CGCTGAGGTAATTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
* *
1977439 CTCAAGACATGCTGAGGTA
130 CTCAGGACACGCTGAGGTA
* * * ** *
1977458 TTTTCAATTTCAGTTTTCAAAAAAATCAATTCATATTGTGAGAAATGAGTTGAGCCTCA-GACAT
1 TTTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
*
1977522 GCTGAGGTATTTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
66 GCTGAGGTAATTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
*
1977587 TCAGGACATGCTGAGGTA
131 TCAGGACACGCTGAGGTA
* * * *
1977605 ATTTCAATTTCTGTTGTC-AAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGGACAT
1 TTTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
* * ** *
1977669 GCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGTAAGAGGCGAGTTGAGCC
66 GCTGAGGTAATTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
*
1977734 TCAGGTCACACGCCGAGGTA
131 TCAGG--ACACGCTGAGGTA
*
1977754 TTTTCAATTTCTGTCTTTCAAAAAAAAAAACATCAACTCATATTGCGAGAGGTGAGTTGAGCTTC
1 TTTTCAATTTCTGT-TTTC-----AAAAAA-ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
* * * * * * * *
1977819 AGATCACACACTGAGGTATTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGTGAGAT
59 AG--GACACGCTGAGGTA--ATTTCAATTTCT-GTTTTCAAAAAAATCAACTCATATTGCGAGAG
1977884 GTGAGTTGAGCCTCAGGACACGCTGAGGTA
119 GTGAGTTGAGCCTCAGGACACGCTGAGGTA
* * *
1977914 -TTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCGGGACAC
1 TTTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
1977978 GCTGAGGT-ATTGTCAATTTTCGTATGTTTT-AAAAAAATCAACTCATATTGCGAGAGGTGAGTT
66 GCTGAGGTAATT-TCAA-TTTC---TGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
*
1978041 GAGCCTTAGGACACGCTGAGGTA
126 GAGCCTCAGGACACGCTGAGGTA
* * * * *
1978064 TTTTTAATTTCTGTTGTAAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCAC
1 TTTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--AC
* * *
1978129 ACGCCGAGGTATTTTCAATTTCCGTTTT
64 ACGCTGAGGTAATTTCAATTTCTGTTTT
1978157 TCAATTTCTG
Statistics
Matches: 733, Mismatches: 80, Indels: 62
0.84 0.09 0.07
Matches are distributed among these distances:
145 5 0.01
146 85 0.12
147 213 0.29
148 76 0.10
149 37 0.05
150 66 0.09
151 60 0.08
152 38 0.05
153 21 0.03
154 2 0.00
156 5 0.01
157 34 0.05
158 3 0.00
159 24 0.03
160 12 0.02
161 10 0.01
162 42 0.06
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (148 bp):
TTTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
GCTGAGGTAATTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
TCAGGACACGCTGAGGTA
Found at i:1977557 original size:220 final size:222
Alignment explanation
Indices: 1977169--1978825 Score: 1300
Period size: 220 Copynumber: 7.0 Consensus size: 222
1977159 TAAGCCTTTT
* * * *
1977169 AATTTCTTTTTTCAAAAAAATCAACTCATATTGCGA-AGGTAAGTTGAGCCTCGGGACACGCTGA
1 AATTTCTGTTGTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
*
1977233 GGTAATTTTCAATTTCTGTTTTC--AAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGG
65 GGT-ATTTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGA
* * * *
1977296 GTCACGCGCTGAGGTGTTTTCAACTTCTGTTTTTC--AAAAATCAACTCATATTGCGAAAGGTGA
129 G-CACACGCTGAGGTATTTTCAATTTCTG-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGA
1977359 GTTGAGCCTCAAGACACGCTGAGGTAATTTC
192 GTTGAGCCTCAAGACACGCTGAGGTAATTTC
** * *
1977390 AATTTCTGTTGTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAG
1 AATTTCTGTTGTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
* * **
1977455 GTATTTTCAATTTCAGTTTTCAAAAAAATCAATTCATATTGTGAGAAATGAGTTGAGCCTC-AG-
66 GTATTTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGAGC
*
1977518 ACATGCTGAGGTATTTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTG
131 ACACGCTGAGGTATTTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTG
* *
1977583 AGCCTCAGGACATGCTGAGGTAATTTC
196 AGCCTCAAGACACGCTGAGGTAATTTC
* *
1977610 AATTTCTGTTGTCAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAG
1 AATTTCTGTTGTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
* * * * *
1977675 GTAATTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGTAAGAGGCGAGTTGAGCCTC-AGG
66 GTATTTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGA-G
*
1977739 TCACACGCCGAGGTATTTTCAATTTCTGTCTTTCAAAAAAAAAAACATCAACTCATATTGCGAGA
130 -CACACGCTGAGGTATTTTCAATTTCTGT-TTTC-----AAAAAA-ATCAACTCATATTGCGAGA
* * * *
1977804 GGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTC
187 GGTGAGTTGAGCCTCA-A-GACACGCTGAGGTA--ATTTC
* * * * * *
1977844 AATTTATATTTTTCAAAAAAATCAACTCACATTGTGAGATGTGAGTTGAGCCTCAGGACACGCTG
1 AATTTCT-GTTGTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTG
* * *
1977909 AGGTA-TTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCG-
64 AGGTATTTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGA
* *
1977972 GGACACGCTGAGGTATTGTCAATTTTCGTATGTTTT-AAAAAAATCAACTCATATTGCGAGAGGT
129 GCACACGCTGAGGTATTTTCAA-TTTC---TGTTTTCAAAAAAATCAACTCATATTGCGAGAGGT
* * * *
1978036 GAGTTGAGCCTTAGGACACGCTGAGGTATTTTT
190 GAGTTGAGCCTCAAGACACGCTGAGGTAATTTC
* * * *
1978069 AATTTCTGTTGTAAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCC
1 AATTTCTGTTGT-CAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCT
* *
1978134 GAGGTATTTTCAATTTCCGTTTTTCAATTTCTGCCTTTCAAAAAAAAAATCAACTCATATTGCGA
63 GAGG-----T--A-------TTTTCAATTTCTG-TTTTC---AAAAAAATCAACTCATATTGTGA
* * *
1978199 GAGGTGAGTTGAGCCTC-AGGACACGCTGAGGTAATTTCAATTTCTGTTGTC-AAAAAATCAACT
110 GAGGTGAGTTGAGCCTCGAGCACACGCTGAGGTATTTTCAATTTCTGTTTTCAAAAAAATCAACT
* * * * *
1978262 CGTATTACGAGCA-GCGAGTTGAGCCTCAGGTTACACGCCGAGGTATTTTCAATTTCCGTTTTC
175 CATATTGCGAG-AGGTGAGTTGAGCCTCAAG--ACACGCTGAGG-----T-AA-------TTTC
* *
1978325 AATTTCTGCCTT-TCAAAAAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCTTCA-GACA
1 AATTTCTG--TTGTC-----AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
* * * * * *
1978388 CGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGCGGCGAGTTGAGC
59 CGCTGAGGTATTTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGC
* * *
1978453 CTCAAGTCACACG-TCAAGGTATTTTCAATTTCCGTTTTTCAATTTCTGCCTTTCAAAAAAAAAA
124 CTCGAG-CACACGCT-GAGG-----T--A-------TTTTCAATTTCTG-TTTTC----AAAAAA
* ** * * *
1978517 ATCGACTCATATTGCGAGAGGTGAGTTGAGCCTTGGC-TCACGCGCTGAGCTATTTTC
168 ATCAACTCATATTGCGAGAGGTGAGTTGAGCC-T--CAAGACACGCTGAGGTAATTTC
* * *
1978574 AATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACATGC
1 AATTTCTGT-TGTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--GACACGC
* * * *
1978639 CGAGGTATTTTCAATTTCCGTTTTTCAATTTCTGCCTTTCAAAAAAAAAATCGACTCATATTGCG
62 TGAGG-----T--A-------TTTTCAATTTCTG-TTTTC---AAAAAAATCAACTCATATTGTG
* * * *
1978704 AGAGGTGAGTTGAGCCTTG-GCTCACGCGCTGAGCTATTTTAAATTTCTGTTTTCAAAAAAATCA
109 AGAGGTGAGTTGAGCCTCGAG--CACACGCTGAGGTATTTTCAATTTCTGTTTTCAAAAAAATCA
* * *
1978768 ACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCCGAGGTATTTTC
172 ACTCATATTGCGAGAGGTGAGTTGAGCCTCA-A-GACACGCTGAGGTAATTTC
1978821 AATTT
1 AATTT
1978826 TCGTTTTTCA
Statistics
Matches: 1173, Mismatches: 135, Indels: 230
0.76 0.09 0.15
Matches are distributed among these distances:
218 5 0.00
219 22 0.02
220 210 0.18
221 38 0.03
222 35 0.03
223 25 0.02
224 44 0.04
225 10 0.01
226 10 0.01
227 12 0.01
229 39 0.03
230 40 0.03
231 1 0.00
232 11 0.01
233 19 0.02
234 15 0.01
235 58 0.05
236 53 0.05
237 3 0.00
240 37 0.03
241 56 0.05
242 12 0.01
243 13 0.01
244 17 0.01
245 98 0.08
246 1 0.00
247 60 0.05
248 11 0.01
249 16 0.01
251 5 0.00
252 12 0.01
253 2 0.00
255 1 0.00
256 24 0.02
257 5 0.00
258 12 0.01
259 1 0.00
260 1 0.00
261 38 0.03
262 51 0.04
263 4 0.00
265 2 0.00
266 43 0.04
267 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (222 bp):
AATTTCTGTTGTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
GTATTTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGAGC
ACACGCTGAGGTATTTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTG
AGCCTCAAGACACGCTGAGGTAATTTC
Found at i:1978281 original size:73 final size:74
Alignment explanation
Indices: 1978177--1978326 Score: 205
Period size: 73 Copynumber: 2.0 Consensus size: 74
1978167 CCTTTCAAAA
* * *
1978177 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACGCTGAGGTAATTTCAATT
1 AAAAAATCAACTCATATTACGAGAGGCGAGTTGAGCCTCAGGTACACGCCGAGGTAATTTCAATT
*
1978241 TCTGTTGTC
66 TCCGTTGTC
* *
1978250 AAAAAATCAACTCGTATTACGAGCA-GCGAGTTGAGCCTCAGGTTACACGCCGAGGTATTTTCAA
1 AAAAAATCAACTCATATTACGAG-AGGCGAGTTGAGCCTCAGG-TACACGCCGAGGTAATTTCAA
*
1978314 TTTCCGTTTTC
64 TTTCCGTTGTC
1978325 AA
1 AA
1978327 TTTCTGCCTT
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
73 37 0.55
74 1 0.01
75 29 0.43
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (74 bp):
AAAAAATCAACTCATATTACGAGAGGCGAGTTGAGCCTCAGGTACACGCCGAGGTAATTTCAATT
TCCGTTGTC
Found at i:1978347 original size:168 final size:167
Alignment explanation
Indices: 1978008--1978920 Score: 1302
Period size: 167 Copynumber: 5.4 Consensus size: 167
1977998 CGTATGTTTT
*
1978008 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGACACGCTGAGGTATTTTTAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TAGGACACGCTGAGGTATTTTCAATT
*
1978073 TCTGTTGTAAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGG
65 TCTGTTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGG
1978138 TATTTTCAATTTCCGTTTTTCAATTTCTGCCTTTCAAA
130 TATTTTCAATTTCCGTTTTTCAATTTCTGCCTTTCAAA
*
1978176 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-AGGACACGCTGAGGTATTTTCAATT
* *
1978241 TCTGTTGTC-AAAAAATCAACTCGTATTACGAGCA-GCGAGTTGAGCCTCAGGTTACACGCCGAG
65 TCTGTTGTCAAAAAAATCAACTCGTATTGCGAG-AGGCGAGTTGAGCCTCAGGTCACACGCCGAG
1978304 GTATTTTCAATTTCCG-TTTTCAATTTCTGCCTTTCAAAA
129 GTATTTTCAATTTCCGTTTTTCAATTTCTGCCTTTC-AAA
* * *
1978343 AAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCTTCA-GACACGCTGAGGTAATTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-AGGACACGCTGAGGTATTTTCAATT
* * * *
1978407 TCTGTTGTCAAAAAAATCAACTCGTATTGCGAGCGGCGAGTTGAGCCTCAAGTCACACGTCAAGG
65 TCTGTTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGG
1978472 TATTTTCAATTTCCGTTTTTCAATTTCTGCCTTTCAAAA
130 TATTTTCAATTTCCGTTTTTCAATTTCTGCCTTTC-AAA
* * * *
1978511 AAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGG---ACACGCTGAGGTATTTTCAA
* * * * *
1978576 TTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACATGCCG
63 TTTCTGT-TGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCG
1978641 AGGTATTTTCAATTTCCGTTTTTCAATTTCTGCCTTTCAAA
127 AGGTATTTTCAATTTCCGTTTTTCAATTTCTGCCTTTCAAA
* * * * *
1978682 AAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTAAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGG---ACACGCTGAGGTATTTTCAA
* * * *
1978747 TTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCCGA
63 TTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGA
* *
1978812 GGTATTTTCAATTTTCGTTTTTCAATTTCTGTCTTTC---
128 GGTATTTTCAATTTCCGTTTTTCAATTTCTGCCTTTCAAA
* * * *
1978849 -AAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGG---ACACGCTGAGGTATTTTCAA
1978913 TTTCTGTT
63 TTTCTGTT
1978921 TTTAATGTCT
Statistics
Matches: 699, Mismatches: 35, Indels: 24
0.92 0.05 0.03
Matches are distributed among these distances:
166 122 0.17
167 172 0.25
168 130 0.19
170 91 0.13
171 98 0.14
172 86 0.12
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (167 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGGACACGCTGAGGTATTTTCAATTT
CTGTTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGT
ATTTTCAATTTCCGTTTTTCAATTTCTGCCTTTCAAA
Found at i:1978484 original size:76 final size:73
Alignment explanation
Indices: 1978343--1978484 Score: 178
Period size: 73 Copynumber: 1.9 Consensus size: 73
1978333 CCTTTCAAAA
* * * *
1978343 AAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCTTCAGACACGCTGAGGTAATTTCAATTT
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGACACGCTAAGGTAATTTCAATTT
1978408 CTGTTGTC
66 CTGTTGTC
* * *
1978416 AAAAAAATCAACTCGTATTGCGAGCGGCGAGTTGAGCCTCAAGTCACACG-TCAAGGTATTTTCA
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTC-AG--ACACGCT-AAGGTAATTTCA
1978480 ATTTC
62 ATTTC
1978485 CGTTTTTCAA
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
73 35 0.60
74 2 0.03
75 1 0.02
76 20 0.34
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (73 bp):
AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGACACGCTAAGGTAATTTCAATTT
CTGTTGTC
Found at i:1978619 original size:77 final size:77
Alignment explanation
Indices: 1978488--1978666 Score: 232
Period size: 77 Copynumber: 2.3 Consensus size: 77
1978478 CAATTTCCGT
* * **
1978488 TTTTCAATTTCTGCCTTTCAAAAAAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTTGG
1 TTTTCAATTTCTGTCTTTC----AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
* *
1978553 CTCACGCGCTGAGCTA
62 CTCACACGCCGAGCTA
1978569 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCA
1 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCA
* *
1978634 CATGCCGAGGTA
66 CACGCCGAGCTA
* *
1978646 TTTTCAATTTCCGTTTTTCAA
1 TTTTCAATTTCTGTCTTTCAA
1978667 TTTCTGCCTT
Statistics
Matches: 88, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
77 70 0.80
81 18 0.20
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (77 bp):
TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCA
CACGCCGAGCTA
Found at i:1978727 original size:94 final size:91
Alignment explanation
Indices: 1978569--1978756 Score: 259
Period size: 94 Copynumber: 2.0 Consensus size: 91
1978559 CGCTGAGCTA
*
1978569 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCA
1 TTTTCAATTTCTGCCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCA
* * *
1978634 CATGCCGAGGTATTTTCAATTTCCGT
66 CACGCCGAGCTATTTTAAATTTCCGT
* **
1978660 TTTTCAATTTCTGCCTTTCAAAAAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTTGGC
1 TTTTCAATTTCTGCCTTTC---AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGC
* * *
1978725 TCACGCGCTGAGCTATTTTAAATTTCTGT
63 TCACACGCCGAGCTATTTTAAATTTCCGT
1978754 TTT
1 TTT
1978757 CAAAAAAATC
Statistics
Matches: 84, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
91 18 0.21
94 66 0.79
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (91 bp):
TTTTCAATTTCTGCCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCA
CACGCCGAGCTATTTTAAATTTCCGT
Found at i:1978832 original size:76 final size:76
Alignment explanation
Indices: 1978682--1978825 Score: 216
Period size: 76 Copynumber: 1.9 Consensus size: 76
1978672 GCCTTTCAAA
* ** * * *
1978682 AAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTAAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCCGAGCTATTTTAAA
1978747 TTTCTGTTTTC
66 TTTCTGTTTTC
* *
1978758 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCCGAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCCGAGCTATTTTAAA
1978823 TTT
66 TTT
1978826 TCGTTTTTCA
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
76 60 1.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.30
Consensus pattern (76 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCCGAGCTATTTTAAA
TTTCTGTTTTC
Found at i:1978908 original size:90 final size:89
Alignment explanation
Indices: 1978740--1978935 Score: 270
Period size: 90 Copynumber: 2.2 Consensus size: 89
1978730 CGCTGAGCTA
*
1978740 TTTTAAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCAC
1 TTTTTAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCAC
*
1978805 ACGCCGAGGTATTTTCAATTT-TCG
66 ACGCCGAGCTATTTTCAATTTCT-G
* ** *
1978829 TTTTTCAATTTCTGTCTTTC-AAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTC
1 TTTTT-AATTTCTGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATC
* *
1978893 ACGCGCTGAGCTATTTTCAATTTCTG
64 ACACGCCGAGCTATTTTCAATTTCTG
*
1978919 TTTTTAATGTCTGTTTT
1 TTTTTAATTTCTGTTTT
1978936 TAGAGAGTCA
Statistics
Matches: 95, Mismatches: 9, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
88 3 0.03
89 12 0.13
90 75 0.79
91 5 0.05
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.39
Consensus pattern (89 bp):
TTTTTAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCAC
ACGCCGAGCTATTTTCAATTTCTG
Found at i:1979619 original size:34 final size:35
Alignment explanation
Indices: 1979581--1979674 Score: 113
Period size: 40 Copynumber: 2.6 Consensus size: 35
1979571 AGCCCCCCAA
*
1979581 AAAAAACTAACCCAAAAAAAAAAAGAAG-AAAAAG
1 AAAAACCTAACCCAAAAAAAAAAAGAAGAAAAAAG
1979615 AAAAACCTAACCCAAACCCAAAAAAAAAAGAAGAAAAAAG
1 AAAAACCTAACCC--A---AAAAAAAAAAGAAGAAAAAAG
1979655 AAAAACCTAA--CAAAAAAAAA
1 AAAAACCTAACCCAAAAAAAAA
1979675 GAAACTAAAA
Statistics
Matches: 53, Mismatches: 1, Indels: 13
0.79 0.01 0.19
Matches are distributed among these distances:
33 8 0.15
34 12 0.23
36 2 0.04
38 1 0.02
39 14 0.26
40 16 0.30
ACGTcount: A:0.74, C:0.16, G:0.06, T:0.03
Consensus pattern (35 bp):
AAAAACCTAACCCAAAAAAAAAAAGAAGAAAAAAG
Found at i:1979649 original size:39 final size:41
Alignment explanation
Indices: 1979589--1979665 Score: 140
Period size: 40 Copynumber: 1.9 Consensus size: 41
1979579 AAAAAAAACT
1979589 AACCCAAAAAAAAAAAGAAG-AAAAAGAAAAACCTAACCCA
1 AACCCAAAAAAAAAAAGAAGAAAAAAGAAAAACCTAACCCA
1979629 AACCC-AAAAAAAAAAGAAGAAAAAAGAAAAACCTAAC
1 AACCCAAAAAAAAAAAGAAGAAAAAAGAAAAACCTAAC
1979666 AAAAAAAAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
39 14 0.39
40 22 0.61
ACGTcount: A:0.71, C:0.18, G:0.08, T:0.03
Consensus pattern (41 bp):
AACCCAAAAAAAAAAAGAAGAAAAAAGAAAAACCTAACCCA
Found at i:1980496 original size:3 final size:3
Alignment explanation
Indices: 1980443--1980482 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
1980433 TTTATTGTAG
1980443 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1980483 CATACTTTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:1986235 original size:3 final size:3
Alignment explanation
Indices: 1986227--1986345 Score: 238
Period size: 3 Copynumber: 39.7 Consensus size: 3
1986217 CCATAATCAA
1986227 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1986275 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1986323 CTT CTT CTT CTT CTT CTT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CT
1986346 ATATTGTTGT
Statistics
Matches: 116, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 116 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
CTT
Found at i:1990492 original size:64 final size:64
Alignment explanation
Indices: 1990419--1990629 Score: 151
Period size: 64 Copynumber: 3.2 Consensus size: 64
1990409 CTGAGCCAGA
*
1990419 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
* * * *** * ** *
1990483 GCCCATTTCAAAATAC-ATGCAACATCAGTAAACATATGCAAGCCC--ATTTGGGTAACAGTGGT
1 GCCCATTTCAGATTACAAT--AA-A-CTG-GGCCTTA-GC---CCCTTATTCAGATAACA---GT
* *
1990545 ACTGGGCCAGA-
54 A-TGGCCCATAG
*
1990556 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1990620 GCCCATTTCA
1 GCCCATTTCA
1990630 AAATACATGC
Statistics
Matches: 103, Mismatches: 27, Indels: 34
0.63 0.16 0.21
Matches are distributed among these distances:
63 9 0.09
64 25 0.24
65 5 0.05
66 1 0.01
67 11 0.11
68 5 0.05
69 5 0.05
70 11 0.11
71 1 0.01
72 5 0.05
73 16 0.16
74 9 0.09
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (64 bp):
GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
Found at i:1990631 original size:137 final size:137
Alignment explanation
Indices: 1990385--1990671 Score: 547
Period size: 137 Copynumber: 2.1 Consensus size: 137
1990375 TATTGGGCCT
**
1990385 AAGCCCATTCAGGTAACAGTGGTACTGAGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGAGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1990450 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
1990515 CATATGC
131 CATATGC
*
1990522 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGAGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1990587 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
1990652 CATATGC
131 CATATGC
1990659 AAGCCCATTTGGG
1 AAGCCCATTTGGG
1990672 GAGACTACTC
Statistics
Matches: 147, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
137 147 1.00
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGAGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
CATATGC
Found at i:1992548 original size:25 final size:26
Alignment explanation
Indices: 1992448--1992555 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
1992438 ACATGAATTC
1992448 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
1992474 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
1992500 TTATCATGGAACATTTACCT-ACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
1992525 TTATCATG-AACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
1992550 TTATCA
1 TTATCA
1992556 ATTTGTATCA
Statistics
Matches: 79, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
24 11 0.14
25 23 0.29
26 45 0.57
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:1996747 original size:25 final size:27
Alignment explanation
Indices: 1996710--1996763 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 27
1996700 TCAAACATGC
1996710 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
* **
1996736 ATTTCGGT-AATTTTGCACCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
1996762 AT
1 AT
1996764 AACAGTAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.37
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACACCTAGGGGT
Found at i:1996771 original size:26 final size:27
Alignment explanation
Indices: 1996727--1996802 Score: 82
Period size: 26 Copynumber: 2.8 Consensus size: 27
1996717 TCAATTTAAC
* * *
1996727 CCTAGGGGTATTTCGGTAATTTTGC-A
1 CCTAGGGGTATTACAGTAATTTTCCAA
*
1996753 CCTAGGGGTATAACAGTAATTTTCCATA
1 CCTAGGGGTATTACAGTAATTTTCCA-A
* *
1996781 CATAGGGGTATTATAGTAATTT
1 CCTAGGGGTATTACAGTAATTT
1996803 AGCTGCTTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 21 0.51
28 20 0.49
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (27 bp):
CCTAGGGGTATTACAGTAATTTTCCAA
Found at i:1998285 original size:26 final size:26
Alignment explanation
Indices: 1998249--1998358 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
1998239 CATGGAATTC
1998249 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
1998275 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
1998301 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
1998327 TTATCATTG-AACATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCCA
1998353 TTATCA
1 TTATCA
1998359 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
26 79 0.98
27 2 0.02
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:1999114 original size:23 final size:23
Alignment explanation
Indices: 1999050--1999114 Score: 55
Period size: 23 Copynumber: 2.9 Consensus size: 23
1999040 ATAATTAATA
* *
1999050 ATAAATATTATGTGA-TTTTATT
1 ATAAATATTATTTAATTTTTATT
* *
1999072 A-AAATTAGTA-TAAATATTTTATT
1 ATAAA-TATTATTTAAT-TTTTATT
1999095 ATAAATATTATTTAATTTTT
1 ATAAATATTATTTAATTTTT
1999115 GAATAAAGTT
Statistics
Matches: 32, Mismatches: 6, Indels: 9
0.68 0.13 0.19
Matches are distributed among these distances:
21 4 0.12
22 5 0.16
23 16 0.50
24 7 0.22
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.54
Consensus pattern (23 bp):
ATAAATATTATTTAATTTTTATT
Found at i:1999770 original size:26 final size:26
Alignment explanation
Indices: 1999737--1999793 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
1999727 AAAACTGTTA
* *
1999737 TTTTTTTATTATTTTCTTGCTCTTTT
1 TTTTTTTAATATTTTCTTGCTATTTT
* * *
1999763 TTTTTTTAATGTTTTGTTGTTATTTT
1 TTTTTTTAATATTTTCTTGCTATTTT
1999789 TTTTT
1 TTTTT
1999794 CACTATTATG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.09, C:0.05, G:0.07, T:0.79
Consensus pattern (26 bp):
TTTTTTTAATATTTTCTTGCTATTTT
Found at i:1999788 original size:25 final size:25
Alignment explanation
Indices: 1999760--1999811 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
1999750 TTCTTGCTCT
* * *
1999760 TTTTTTTTTTAATGTTTTGTTGTTA
1 TTTTTTTTTCAATATTATGTTGTTA
*
1999785 TTTTTTTTTCACTATTATGTTGTTA
1 TTTTTTTTTCAATATTATGTTGTTA
1999810 TT
1 TT
1999812 GTATAACTCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.13, C:0.04, G:0.10, T:0.73
Consensus pattern (25 bp):
TTTTTTTTTCAATATTATGTTGTTA
Found at i:2009157 original size:14 final size:14
Alignment explanation
Indices: 2009135--2009187 Score: 61
Period size: 14 Copynumber: 3.6 Consensus size: 14
2009125 GTACTTACTT
*
2009135 TTTATATTTTAAAA
1 TTTAAATTTTAAAA
2009149 TTTAAATTTAATAAAA
1 TTTAAATTT--TAAAA
* *
2009165 ATTATATTTTAAAA
1 TTTAAATTTTAAAA
2009179 TTTAAATTT
1 TTTAAATTT
2009188 AAATTTTATT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
14 20 0.62
16 12 0.38
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TTTAAATTTTAAAA
Found at i:2009214 original size:35 final size:36
Alignment explanation
Indices: 2009146--2009215 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 36
2009136 TTATATTTTA
*
2009146 AAATTTAAATTTAATAAAAATTATATTTTAAAATTT
1 AAATTTAAATTTAATAAAAATGATATTTTAAAATTT
* *
2009182 AAATTTAAATTTTAT-TAAATGATATTTTAAAATT
1 AAATTTAAATTTAATAAAAATGATATTTTAAAATT
2009216 AAAAAAAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
35 17 0.55
36 14 0.45
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (36 bp):
AAATTTAAATTTAATAAAAATGATATTTTAAAATTT
Found at i:2009666 original size:18 final size:18
Alignment explanation
Indices: 2009641--2009682 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
2009631 TTAATTTTTA
2009641 AAAAATTA-T-AAAT-AT
1 AAAAATTATTAAAATAAT
*
2009656 ATAAATTATTAAAATAAT
1 AAAAATTATTAAAATAAT
2009674 AAAAATTAT
1 AAAAATTAT
2009683 ATTTATATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 7 0.32
16 1 0.05
17 4 0.18
18 10 0.45
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
AAAAATTATTAAAATAAT
Found at i:2011898 original size:64 final size:63
Alignment explanation
Indices: 2011837--2011955 Score: 179
Period size: 63 Copynumber: 1.9 Consensus size: 63
2011827 ATTTTTTTTC
2011837 CCAAGTTAAACTCTGAACTTGGCAATTGTTC-CACATTGTGG-CTTGAACATTTTTTTCTTTTTG
1 CCAAGTTAAAC-CTGAACTTGGCAATTGTTCTCACATTG-GGACTTGAAC-TTTTTTTCTTTTTG
2011900 T
63 T
**
2011901 CCAAGTTAGGCCTGAACTTGGCAATTGTTCTCACATTGGGACTTGAACTTTTTTT
1 CCAAGTTAAACCTGAACTTGGCAATTGTTCTCACATTGGGACTTGAACTTTTTTT
2011956 GTCCAAGTTA
Statistics
Matches: 51, Mismatches: 2, Indels: 5
0.88 0.03 0.09
Matches are distributed among these distances:
63 28 0.55
64 23 0.45
ACGTcount: A:0.22, C:0.19, G:0.18, T:0.41
Consensus pattern (63 bp):
CCAAGTTAAACCTGAACTTGGCAATTGTTCTCACATTGGGACTTGAACTTTTTTTCTTTTTGT
Found at i:2017009 original size:27 final size:28
Alignment explanation
Indices: 2016961--2017119 Score: 181
Period size: 27 Copynumber: 5.9 Consensus size: 28
2016951 GCGAGACTGC
* * *
2016961 CAGAT-ATTGTGACAAAGTCACCAGATA
1 CAGATAATTGTGGCAGAGCCACCAGATA
*
2016988 CAGAT-TTTGTGGCAGAGCCACCAGA-A
1 CAGATAATTGTGGCAGAGCCACCAGATA
2017014 CAGAT-ATATGTGGCAGAGCCACCAGAT-
1 CAGATAAT-TGTGGCAGAGCCACCAGATA
* *
2017041 CAGATAATCGTGGCATAGCCACCAGA-A
1 CAGATAATTGTGGCAGAGCCACCAGATA
2017068 CAGAT-ATATGTGGCAGAGCCACCAGAT-
1 CAGATAAT-TGTGGCAGAGCCACCAGATA
*
2017095 CAGATAATTGTGGCATAGCCACCAG
1 CAGATAATTGTGGCAGAGCCACCAG
2017120 GACGCTTCCT
Statistics
Matches: 115, Mismatches: 10, Indels: 14
0.83 0.07 0.10
Matches are distributed among these distances:
26 9 0.08
27 102 0.89
28 4 0.03
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.19
Consensus pattern (28 bp):
CAGATAATTGTGGCAGAGCCACCAGATA
Found at i:2017054 original size:54 final size:54
Alignment explanation
Indices: 2016961--2017119 Score: 241
Period size: 54 Copynumber: 3.0 Consensus size: 54
2016951 GCGAGACTGC
* * * * *
2016961 CAGATAT-TGTGACAAAGTCACCAGATACAGAT-TTTGTGGCAGAGCCACCAGAA
1 CAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCACCAGAA
*
2017014 CAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCATAGCCACCAGAA
1 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGAA
2017068 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAG
2017120 GACGCTTCCT
Statistics
Matches: 97, Mismatches: 7, Indels: 3
0.91 0.07 0.03
Matches are distributed among these distances:
53 12 0.12
54 85 0.88
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.19
Consensus pattern (54 bp):
CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGAA
Found at i:2019893 original size:46 final size:46
Alignment explanation
Indices: 2019826--2020099 Score: 406
Period size: 46 Copynumber: 6.0 Consensus size: 46
2019816 AGTGTGCTCT
*
2019826 CTGATATGAAATATGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
2019872 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
2019918 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
2019964 CTGATATGAGATGTGTAAGGCCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * **
2020010 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
2020056 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
2020100 TCACGTCAAA
Statistics
Matches: 211, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 1 0.00
46 210 1.00
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:2021323 original size:25 final size:27
Alignment explanation
Indices: 2021286--2021338 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
2021276 TCAAACATGC
2021286 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
2021312 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
2021338 A
1 A
2021339 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:2022858 original size:26 final size:26
Alignment explanation
Indices: 2022822--2022955 Score: 218
Period size: 26 Copynumber: 5.2 Consensus size: 26
2022812 ACATGAATTC
2022822 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
2022848 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
2022874 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
2022900 TTATCATG-AACATTTACCTAA-CCA
1 TTATCATGAAACATTTACCTAACCCA
* *
2022924 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
2022950 TTATCA
1 TTATCA
2022956 ATTTGTATCA
Statistics
Matches: 102, Mismatches: 4, Indels: 4
0.93 0.04 0.04
Matches are distributed among these distances:
24 10 0.10
25 26 0.25
26 66 0.65
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:2022946 original size:50 final size:52
Alignment explanation
Indices: 2022822--2022955 Score: 236
Period size: 50 Copynumber: 2.6 Consensus size: 52
2022812 ACATGAATTC
* *
2022822 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
2022874 TTATCATGGAACATTTACCTAACCTATTATCATG-AACATTTACCTAA-CCA
1 TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
2022924 TTATCATGGAACATTTACCTAACCTATTATCA
1 TTATCATGGAACATTTACCTAACCTATTATCA
2022956 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
50 35 0.44
51 13 0.16
52 32 0.40
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.34
Consensus pattern (52 bp):
TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
Found at i:2023525 original size:23 final size:25
Alignment explanation
Indices: 2023480--2023526 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
2023470 AATAAATATA
*
2023480 CATAAAATATATGAAAATGATGAAG
1 CATAAAATATATGAAAATAATGAAG
*
2023505 CATAAAATAT-TG-ATATAATGAA
1 CATAAAATATATGAAAATAATGAA
2023527 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.55, C:0.04, G:0.13, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGAAAATAATGAAG
Found at i:2025494 original size:26 final size:26
Alignment explanation
Indices: 2025458--2025566 Score: 191
Period size: 26 Copynumber: 4.2 Consensus size: 26
2025448 ATGAAATGCC
*
2025458 TATCATGGAACATTTACCTAAACCAT
1 TATCATGGAACATTTACCTAACCCAT
2025484 TATCATGGAACATTTACCTAACCCAT
1 TATCATGGAACATTTACCTAACCCAT
* *
2025510 TATCATGGAATATTTACCTAATCCAT
1 TATCATGGAACATTTACCTAACCCAT
2025536 TATCATGGAACATTTACCTAACCCAT
1 TATCATGGAACATTTACCTAACCCAT
2025562 TATCA
1 TATCA
2025567 ATTTGTACCA
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.33
Consensus pattern (26 bp):
TATCATGGAACATTTACCTAACCCAT
Found at i:2026634 original size:9 final size:8
Alignment explanation
Indices: 2026619--2026652 Score: 50
Period size: 9 Copynumber: 4.0 Consensus size: 8
2026609 TATTATTTCA
2026619 TTTATTAT
1 TTTATTAT
2026627 TTTCATTAT
1 TTT-ATTAT
2026636 TGTTATTAT
1 T-TTATTAT
2026645 TTTATTAT
1 TTTATTAT
2026653 ATATGTATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
8 10 0.42
9 12 0.50
10 2 0.08
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.71
Consensus pattern (8 bp):
TTTATTAT
Found at i:2026663 original size:2 final size:2
Alignment explanation
Indices: 2026650--2026683 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
2026640 ATTATTTTAT
*
2026650 TA TA TA TG 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
2026684 GATGTTTCTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2028228 original size:19 final size:19
Alignment explanation
Indices: 2028206--2028262 Score: 56
Period size: 17 Copynumber: 3.3 Consensus size: 19
2028196 TATACCATGT
2028206 ATATATTCTTATAAATATC
1 ATATATTCTTATAAATATC
2028225 ATATA-TC-TAT--ATAT-
1 ATATATTCTTATAAATATC
2028239 ATAT-TTCTTA-AATATATC
1 ATATATTCTTATAA-ATATC
2028257 ATATAT
1 ATATAT
2028263 ACTGTGTACA
Statistics
Matches: 31, Mismatches: 0, Indels: 14
0.69 0.00 0.31
Matches are distributed among these distances:
14 6 0.19
15 6 0.19
17 7 0.23
18 6 0.19
19 6 0.19
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.49
Consensus pattern (19 bp):
ATATATTCTTATAAATATC
Found at i:2028529 original size:25 final size:25
Alignment explanation
Indices: 2028501--2028548 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
2028491 ACGTCACTTC
*
2028501 TATATTTTTATTTCTCA-TATTATCT
1 TATATTTATATTTC-CATTATTATCT
2028526 TATATTTATATTTCCATTATTAT
1 TATATTTATATTTCCATTATTAT
2028549 ACCATATCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 2 0.10
25 19 0.90
ACGTcount: A:0.27, C:0.10, G:0.00, T:0.62
Consensus pattern (25 bp):
TATATTTATATTTCCATTATTATCT
Found at i:2032409 original size:6 final size:6
Alignment explanation
Indices: 2032383--2032442 Score: 84
Period size: 6 Copynumber: 9.8 Consensus size: 6
2032373 AGTACCTAAT
* * *
2032383 CAGTAA TCAGTAA CGGTAG CAGTAG CAGTAA CAGTAA CAGTAA CAGTAA
1 CAGTAA -CAGTAA CAGTAA CAGTAA CAGTAA CAGTAA CAGTAA CAGTAA
2032432 CAGTAA CAGTA
1 CAGTAA CAGTA
2032443 TTCAACACAC
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
6 43 0.88
7 6 0.12
ACGTcount: A:0.43, C:0.17, G:0.22, T:0.18
Consensus pattern (6 bp):
CAGTAA
Found at i:2032483 original size:45 final size:45
Alignment explanation
Indices: 2032422--2032532 Score: 161
Period size: 45 Copynumber: 2.5 Consensus size: 45
2032412 AACAGTAACA
* *
2032422 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTG-CTGAATCT
1 GTAACAGTAACGGTAACAGTATTCAACACACAAAGTGTC-GAATCG
* * *
2032467 GTAATAGTAACGGTAACAATATTCGACACACAAAGTGTCGAATCG
1 GTAACAGTAACGGTAACAGTATTCAACACACAAAGTGTCGAATCG
2032512 GTAACAGTAACGGTAACAGTA
1 GTAACAGTAACGGTAACAGTA
2032533 ACAGTAGTCG
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
45 57 0.98
46 1 0.02
ACGTcount: A:0.41, C:0.18, G:0.19, T:0.22
Consensus pattern (45 bp):
GTAACAGTAACGGTAACAGTATTCAACACACAAAGTGTCGAATCG
Found at i:2032527 original size:12 final size:12
Alignment explanation
Indices: 2032510--2032534 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2032500 AGTGTCGAAT
2032510 CGGTAACAGTAA
1 CGGTAACAGTAA
2032522 CGGTAACAGTAA
1 CGGTAACAGTAA
2032534 C
1 C
2032535 AGTAGTCGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:2034050 original size:26 final size:26
Alignment explanation
Indices: 2034014--2034149 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
2034004 TGATACAAAT
2034014 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
2034040 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
2034066 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
2034092 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
2034118 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
2034144 TGATAA
1 TGATAA
2034150 GAATATCTTT
Statistics
Matches: 107, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 107 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:2036173 original size:137 final size:136
Alignment explanation
Indices: 2035928--2036213 Score: 518
Period size: 137 Copynumber: 2.1 Consensus size: 136
2035918 GAGTAGTCTC
*
2035928 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
*
2035993 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTTTGGCCCAGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
2036058 CTGTTA
131 CTGTTA
2036064 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATG-TTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
*
2036129 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTGATCTGAAAAGGGCTCTGGCCCAGTACC
65 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
2036194 ACTGTTA
130 ACTGTTA
**
2036201 CCTGAATGGGCTT
1 CCCAAATGGGCTT
2036214 AGGCCAATAG
Statistics
Matches: 144, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
136 20 0.14
137 124 0.86
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.32
Consensus pattern (136 bp):
CCCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
CTGTTA
Found at i:2037493 original size:2 final size:2
Alignment explanation
Indices: 2037486--2037534 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
2037476 GTATCTAGGA
2037486 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2037528 AT AT AT A
1 AT AT AT A
2037535 AGGTGATATG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2037843 original size:24 final size:22
Alignment explanation
Indices: 2037792--2037844 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
2037782 TAATAAAGAC
2037792 AAAAA-AATATATACATAAAAT
1 AAAAATAATATATACATAAAAT
** *
2037813 AGTAATAATATATATATAACTAAT
1 AAAAATAATATATACATAA--AAT
2037837 AAAAATAA
1 AAAAATAA
2037845 AAATAAAGAA
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
21 3 0.12
22 12 0.50
24 9 0.38
ACGTcount: A:0.66, C:0.04, G:0.02, T:0.28
Consensus pattern (22 bp):
AAAAATAATATATACATAAAAT
Found at i:2038282 original size:23 final size:21
Alignment explanation
Indices: 2038221--2038286 Score: 71
Period size: 23 Copynumber: 3.0 Consensus size: 21
2038211 ATAGATACAT
2038221 TATAAATA-ATATATACGTAATA
1 TATAAATATATAT-TA-GTAATA
* *
2038243 TATATATATATAGTAGTAACTA
1 TATAAATATATATTAGTAA-TA
2038265 TAATAAATATATATTAGTAATA
1 T-ATAAATATATATTAGTAATA
2038287 AATATAAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
21 4 0.11
22 14 0.38
23 19 0.51
ACGTcount: A:0.52, C:0.03, G:0.06, T:0.39
Consensus pattern (21 bp):
TATAAATATATATTAGTAATA
Found at i:2039682 original size:46 final size:46
Alignment explanation
Indices: 2039629--2039799 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
2039619 TATTTGGGCA
2039629 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
2039675 TCCGAACTC-----GTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
2039717 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
2039763 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
2039800 GCGGGTTACA
Statistics
Matches: 102, Mismatches: 11, Indels: 24
0.74 0.08 0.18
Matches are distributed among these distances:
38 4 0.04
40 2 0.02
41 17 0.17
42 11 0.11
46 45 0.44
47 17 0.17
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:2042732 original size:15 final size:15
Alignment explanation
Indices: 2042712--2042780 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
2042702 GTATCTTGGG
2042712 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
2042727 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
2042742 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
2042757 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
2042772 TTTCTTTAT
1 TTTCTTTAT
2042781 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:2042781 original size:30 final size:30
Alignment explanation
Indices: 2042703--2042790 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
2042693 CATAGTATCG
* * * *
2042703 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
2042733 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
2042763 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
2042791 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:2045229 original size:46 final size:46
Alignment explanation
Indices: 2045176--2045351 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
2045166 TATTTGGGCA
2045176 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
2045222 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
2045269 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
2045315 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
2045352 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:2045331 original size:93 final size:93
Alignment explanation
Indices: 2045172--2045343 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
2045162 GGGATATTTG
* *
2045172 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
2045237 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
2045265 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
2045330 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
2045344 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:2050599 original size:70 final size:70
Alignment explanation
Indices: 2050481--2050851 Score: 627
Period size: 70 Copynumber: 5.2 Consensus size: 70
2050471 CAAGTGACAG
*
2050481 AAAAT-AACTCACATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
2050545 GTTTC
66 GTTTC
2050550 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
2050615 GTTTC
66 GTTTC
*
2050620 AAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
2050685 GTTTC
66 GTTTC
*
2050690 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AA-TTTC
2050755 AATTTATGTTTC
59 AATTTATGTTTC
*
2050767 AAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
2050832 GTTTC
66 GTTTC
2050837 AAAAATCAACTCATA
1 -AAAATCAACTCATA
2050852 GGTGAGTTGA
Statistics
Matches: 287, Mismatches: 6, Indels: 16
0.93 0.02 0.05
Matches are distributed among these distances:
69 5 0.02
70 197 0.69
71 16 0.06
72 1 0.00
75 1 0.00
76 2 0.01
77 65 0.23
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (70 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
GTTTC
Found at i:2050766 original size:77 final size:77
Alignment explanation
Indices: 2050674--2050829 Score: 294
Period size: 77 Copynumber: 2.0 Consensus size: 77
2050664 GTTGAGGTAA
*
2050674 TTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGA
1 TTTCAATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGA
2050739 GGTAATTTCAAT
66 GGTAATTTCAAT
*
2050751 TTTCAATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGA
1 TTTCAATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGA
2050816 GGTAATTTCAAT
66 GGTAATTTCAAT
2050828 TT
1 TT
2050830 ATGTTTCAAA
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
77 77 1.00
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.34
Consensus pattern (77 bp):
TTTCAATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGA
GGTAATTTCAAT
Found at i:2050905 original size:147 final size:140
Alignment explanation
Indices: 2050481--2050952 Score: 557
Period size: 140 Copynumber: 3.3 Consensus size: 140
2050471 CAAGTGACAG
2050481 AAAAT-AACTCACATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
2050545 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG----T-AAT
66 GTTTCAAAATCAACTCA-ATT----GAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTCAAT
2050605 TTCAATTTATGTTTC
126 TTCAATTTATGTTTC
* *
2050620 AAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
*
2050685 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAA
66 GTTTCAAAATCAACTCA-ATT----GAGGTGAGTTGAGCCTCAAGACACGTTGAGGT-ATTTCAA
2050750 TTTTCAATTTATGTTTC
125 -TTTCAATTTATGTTTC
* *
2050767 AAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
** * *
2050832 GTTTCAAAAATCAACTC-A-T-AGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAGTCTC
66 GTTTC-AAAATCAACTCAATTGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA-TTTCA-----
* *
2050894 TACTTTCCAATTCCTGTTTTTC
124 -A-TTT-CAATT--TATGTTTC
2050916 AAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCT
1 -AAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCT
2050953 GTTAATTTCT
Statistics
Matches: 298, Mismatches: 15, Indels: 29
0.87 0.04 0.08
Matches are distributed among these distances:
139 6 0.02
140 143 0.48
145 2 0.01
146 7 0.02
147 89 0.30
148 11 0.04
149 6 0.02
150 34 0.11
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (140 bp):
AAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
GTTTCAAAATCAACTCAATTGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTCAATTTCAA
TTTATGTTTC
Found at i:2050994 original size:54 final size:52
Alignment explanation
Indices: 2050902--2051056 Score: 194
Period size: 54 Copynumber: 3.0 Consensus size: 52
2050892 TCTACTTTCC
* *
2050902 AATTCCTGTTTTTCAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTGTT
1 AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC--TT
* *
2050956 AATTTCTGTCTTTCAAAAAGCAACTCATATTGCGAGAGGTGAGTTGTA-CC-T
1 AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG-AGCCTT
**
2051007 --TTT-TGTTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTT
1 AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT
2051056 A
1 A
2051057 GGTCATATGT
Statistics
Matches: 89, Mismatches: 8, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
47 1 0.01
48 38 0.43
49 4 0.04
51 1 0.01
54 44 0.49
55 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.35
Consensus pattern (52 bp):
AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT
Found at i:2051809 original size:35 final size:35
Alignment explanation
Indices: 2051763--2051868 Score: 194
Period size: 35 Copynumber: 3.0 Consensus size: 35
2051753 CACTTGCCTC
2051763 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
2051798 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
* *
2051833 CTCCCACTCTCCCATGCTGTCTGCCGCCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
2051868 T
1 T
2051869 CACACACCCC
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
35 68 1.00
ACGTcount: A:0.16, C:0.49, G:0.12, T:0.23
Consensus pattern (35 bp):
TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
Found at i:2052309 original size:33 final size:32
Alignment explanation
Indices: 2052267--2052340 Score: 98
Period size: 33 Copynumber: 2.3 Consensus size: 32
2052257 AGAGGGGAAG
2052267 CAAAAAAAAAAATCCAGCAAAAAA-TTCCAGCA
1 CAAAAAAAAAAATCCAG-AAAAAATTTCCAGCA
**
2052299 CCAAAAAAAAATTTCCAGAAAAAATTTCCAGCA
1 -CAAAAAAAAAAATCCAGAAAAAATTTCCAGCA
2052332 -AAAAAAAAA
1 CAAAAAAAAA
2052341 CCAAAAAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
31 9 0.24
32 6 0.16
33 23 0.61
ACGTcount: A:0.64, C:0.19, G:0.05, T:0.12
Consensus pattern (32 bp):
CAAAAAAAAAAATCCAGAAAAAATTTCCAGCA
Found at i:2052322 original size:13 final size:14
Alignment explanation
Indices: 2052304--2052336 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
2052294 CAGCACCAAA
2052304 AAAAAATTTCCAG-
1 AAAAAATTTCCAGC
2052317 AAAAAATTTCCAGC
1 AAAAAATTTCCAGC
2052331 AAAAAA
1 AAAAAA
2052337 AAAACCAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 13 0.68
14 6 0.32
ACGTcount: A:0.61, C:0.15, G:0.06, T:0.18
Consensus pattern (14 bp):
AAAAAATTTCCAGC
Found at i:2052629 original size:11 final size:11
Alignment explanation
Indices: 2052600--2052649 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
2052590 CGACCGGATT
* *
2052600 TCCCTTCCCCC
1 TCCCTTCTCTC
2052611 TCCCTTCTCTC
1 TCCCTTCTCTC
2052622 TCCCTTCTCTC
1 TCCCTTCTCTC
2052633 TTCCC-TCTCTC
1 -TCCCTTCTCTC
*
2052644 TTCCTT
1 TCCCTT
2052650 TTTTTCTTTC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
10 3 0.09
11 27 0.79
12 4 0.12
ACGTcount: A:0.00, C:0.56, G:0.00, T:0.44
Consensus pattern (11 bp):
TCCCTTCTCTC
Found at i:2053198 original size:22 final size:21
Alignment explanation
Indices: 2053168--2053217 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 21
2053158 ATTTCTAATA
2053168 TGTATATATATATATATTATG
1 TGTATATATATATATATTATG
2053189 TGTATTATATATATATATTATG
1 TGTA-TATATATATATATTATG
*
2053211 TATATAT
1 TGTATAT
2053218 GCCATTAGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 7 0.26
22 20 0.74
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (21 bp):
TGTATATATATATATATTATG
Found at i:2054968 original size:33 final size:34
Alignment explanation
Indices: 2054931--2054996 Score: 80
Period size: 34 Copynumber: 2.0 Consensus size: 34
2054921 TAACAGTGGT
* *
2054931 ACTGGACCAGAG-CCCTTTTTCAGATTACAATAA
1 ACTGGACCAGAGCCCCTTATTCAGATAACAATAA
* **
2054964 ACTGGGCCTTAGCCCCTTATTCAGATAACAATA
1 ACTGGACCAGAGCCCCTTATTCAGATAACAATA
2054997 TGGCCCATAG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
33 9 0.33
34 18 0.67
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.27
Consensus pattern (34 bp):
ACTGGACCAGAGCCCCTTATTCAGATAACAATAA
Found at i:2056847 original size:26 final size:26
Alignment explanation
Indices: 2056811--2056920 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
2056801 CATGAAATTC
2056811 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
2056837 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
2056863 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
2056889 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
2056915 TTATCA
1 TTATCA
2056921 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:2056931 original size:10 final size:10
Alignment explanation
Indices: 2056916--2056947 Score: 64
Period size: 10 Copynumber: 3.2 Consensus size: 10
2056906 CCTAACCTAT
2056916 TATCAATTTG
1 TATCAATTTG
2056926 TATCAATTTG
1 TATCAATTTG
2056936 TATCAATTTG
1 TATCAATTTG
2056946 TA
1 TA
2056948 CCATAAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.31, C:0.09, G:0.09, T:0.50
Consensus pattern (10 bp):
TATCAATTTG
Found at i:2059744 original size:26 final size:26
Alignment explanation
Indices: 2059707--2059781 Score: 123
Period size: 26 Copynumber: 2.9 Consensus size: 26
2059697 TGATACAAAT
*
2059707 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
2059733 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
2059759 TAATAATGGGTTAGGTAAATGTT
1 TGATAATGGGTTAGGTAAATGTT
2059782 TTATGATGGA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 46 1.00
ACGTcount: A:0.33, C:0.04, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:2061298 original size:26 final size:26
Alignment explanation
Indices: 2061268--2061317 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
2061258 TTTAGTTTTA
2061268 CCCTAGGAGATAAATT-ACCGAAATAC
1 CCCTAGG-GATAAATTGACCGAAATAC
* *
2061294 CCCTAGGGTTAAATTGACCTAAAT
1 CCCTAGGGATAAATTGACCGAAAT
2061318 GCATGTTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.38, C:0.22, G:0.16, T:0.24
Consensus pattern (26 bp):
CCCTAGGGATAAATTGACCGAAATAC
Found at i:2062491 original size:40 final size:41
Alignment explanation
Indices: 2062446--2062555 Score: 197
Period size: 40 Copynumber: 2.7 Consensus size: 41
2062436 TTTGAAAATG
*
2062446 ATTTATCTGGATGAAGTATGTATTAACAGAAAA-CTATATA
1 ATTTATCCGGATGAAGTATGTATTAACAGAAAACCTATATA
2062486 ATTTATCCGGATGAAGTATGTATTAACA-AAAACCTATATA
1 ATTTATCCGGATGAAGTATGTATTAACAGAAAACCTATATA
2062526 ATTTATCCGGATGAAGTATGTATTAACAGA
1 ATTTATCCGGATGAAGTATGTATTAACAGA
2062556 TATACTTAAG
Statistics
Matches: 67, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
39 4 0.06
40 62 0.93
41 1 0.01
ACGTcount: A:0.41, C:0.10, G:0.15, T:0.34
Consensus pattern (41 bp):
ATTTATCCGGATGAAGTATGTATTAACAGAAAACCTATATA
Found at i:2062582 original size:18 final size:18
Alignment explanation
Indices: 2062559--2062593 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
2062549 TAACAGATAT
*
2062559 ACTTAAGATCTAGTTGGC
1 ACTTAAAATCTAGTTGGC
2062577 ACTTAAAATCTAGTTGG
1 ACTTAAAATCTAGTTGG
2062594 ACTGTCACGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.34
Consensus pattern (18 bp):
ACTTAAAATCTAGTTGGC
Found at i:2063410 original size:46 final size:44
Alignment explanation
Indices: 2063319--2063411 Score: 134
Period size: 44 Copynumber: 2.1 Consensus size: 44
2063309 TTACATCATT
*
2063319 ATTCCATTCAACCAAACATAAGAATACTATTACAGTTCTATTCC
1 ATTCCATTCAACCAAACATAAGAATACTATTACAGCTCTATTCC
*
2063363 ATTCCATTCAACCAAACAGT-TGAATTACTTATTACAGCTCTATTCC
1 ATTCCATTCAACCAAACA-TAAGAA-TAC-TATTACAGCTCTATTCC
2063409 ATT
1 ATT
2063412 ACAGCCCTAT
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
44 21 0.48
45 4 0.09
46 19 0.43
ACGTcount: A:0.35, C:0.25, G:0.05, T:0.34
Consensus pattern (44 bp):
ATTCCATTCAACCAAACATAAGAATACTATTACAGCTCTATTCC
Found at i:2063414 original size:16 final size:16
Alignment explanation
Indices: 2063393--2063431 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
2063383 TGAATTACTT
*
2063393 ATTACAGCTCTATTCC
1 ATTACAGCCCTATTCC
2063409 ATTACAGCCCTATTCC
1 ATTACAGCCCTATTCC
2063425 ATTACAG
1 ATTACAG
2063432 TGAACCAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.33
Consensus pattern (16 bp):
ATTACAGCCCTATTCC
Found at i:2066081 original size:35 final size:35
Alignment explanation
Indices: 2066017--2066084 Score: 86
Period size: 35 Copynumber: 1.9 Consensus size: 35
2066007 ACACAATATG
* *
2066017 GTATTTAAAATATATATATATATGTATATATAATA
1 GTATTTAAAATATATACATATATGAATATATAATA
2066052 GTATTTAAGAATATATACATA-A-GAAATATATAA
1 GTATTTAA-AATATATACATATATG-AATATATAA
2066085 CTAATGGCAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 1 0.03
35 17 0.59
36 11 0.38
ACGTcount: A:0.51, C:0.01, G:0.07, T:0.40
Consensus pattern (35 bp):
GTATTTAAAATATATACATATATGAATATATAATA
Found at i:2066120 original size:39 final size:37
Alignment explanation
Indices: 2066023--2066120 Score: 99
Period size: 39 Copynumber: 2.6 Consensus size: 37
2066013 TATGGTATTT
* * * *
2066023 AAAATATATATAT-ATATGTATATATAATAGTATTTA
1 AAAATATATACATAATATATATATATAATAGCATTAA
* * * *
2066059 AGAATATATACATAAGAAATATATAACTAATGGCATTAA
1 AAAATATATACATAATATATATAT-A-TAATAGCATTAA
2066098 AAAATATATACATAATATATATA
1 AAAATATATACATAATATATATA
2066121 AAATACCTAA
Statistics
Matches: 48, Mismatches: 11, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
36 11 0.23
37 7 0.15
38 1 0.02
39 29 0.60
ACGTcount: A:0.54, C:0.04, G:0.06, T:0.36
Consensus pattern (37 bp):
AAAATATATACATAATATATATATATAATAGCATTAA
Found at i:2069856 original size:12 final size:12
Alignment explanation
Indices: 2069834--2069869 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
2069824 TGGGATATGC
*
2069834 AATGAATGAATG
1 AATGCATGAATG
*
2069846 GATGCATGAATG
1 AATGCATGAATG
2069858 AATGCATGAATG
1 AATGCATGAATG
2069870 TCAAATGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.42, C:0.06, G:0.28, T:0.25
Consensus pattern (12 bp):
AATGCATGAATG
Found at i:2069856 original size:16 final size:17
Alignment explanation
Indices: 2069830--2069861 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
2069820 AGTATGGGAT
2069830 ATGCAATGAATGAATGG
1 ATGCAATGAATGAATGG
2069847 ATGC-ATGAATGAATG
1 ATGCAATGAATGAATG
2069862 CATGAATGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.41, C:0.06, G:0.28, T:0.25
Consensus pattern (17 bp):
ATGCAATGAATGAATGG
Found at i:2071936 original size:39 final size:39
Alignment explanation
Indices: 2071835--2071941 Score: 108
Period size: 39 Copynumber: 2.7 Consensus size: 39
2071825 TATGGTATTT
* * * * *
2071835 AAAATATATATATATATATATGTATATATAATAGTATTTA
1 AAAATATATACATA-ATATATATATAAATAATAGCATTAA
* * * * *
2071875 AGAATATATACATAAGAAATATATAACTAATGGCATTAA
1 AAAATATATACATAATATATATATAAATAATAGCATTAA
2071914 AAAATATATACATAATATATATA-AAATA
1 AAAATATATACATAATATATATATAAATA
2071942 CCTAAAAAAA
Statistics
Matches: 53, Mismatches: 14, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
38 4 0.08
39 37 0.70
40 12 0.23
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.36
Consensus pattern (39 bp):
AAAATATATACATAATATATATATAAATAATAGCATTAA
Found at i:2072468 original size:26 final size:25
Alignment explanation
Indices: 2072431--2072484 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 25
2072421 GGTTTCTTGG
2072431 TTTTTTTGGGGGGGTTAGGTTTTTCT
1 TTTTTTTGGGGGGGTTAGGTTTTT-T
*
2072457 TTTTTTTTGGGGGGTTAGGTTTTTT
1 TTTTTTTGGGGGGGTTAGGTTTTTT
2072482 TTT
1 TTT
2072485 GGGAAGGGGC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
25 4 0.15
26 23 0.85
ACGTcount: A:0.04, C:0.02, G:0.31, T:0.63
Consensus pattern (25 bp):
TTTTTTTGGGGGGGTTAGGTTTTTT
Found at i:2085130 original size:23 final size:25
Alignment explanation
Indices: 2085103--2085152 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
2085093 AAGCTAAGGA
*
2085103 TAATA-TTTATATTATTAAA-ATAT
1 TAATATTTTATACTATTAAATATAT
*
2085126 TAATATTTTGTACTATTAAATATAT
1 TAATATTTTATACTATTAAATATAT
2085151 TA
1 TA
2085153 TAATTATCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 5 0.22
24 12 0.52
25 6 0.26
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (25 bp):
TAATATTTTATACTATTAAATATAT
Found at i:2087509 original size:25 final size:26
Alignment explanation
Indices: 2087481--2087532 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
2087471 GTAAATTAGA
*
2087481 TTTTT-TTTAA-TGGTTATAAGATTT
1 TTTTTGTTTAATTGATTATAAGATTT
2087505 TTTTTGTTTAATTGATTATAAGATTT
1 TTTTTGTTTAATTGATTATAAGATTT
2087531 TT
1 TT
2087533 GAAATATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 5 0.20
25 5 0.20
26 15 0.60
ACGTcount: A:0.25, C:0.00, G:0.12, T:0.63
Consensus pattern (26 bp):
TTTTTGTTTAATTGATTATAAGATTT
Found at i:2087651 original size:21 final size:20
Alignment explanation
Indices: 2087614--2087652 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2087604 TATTATCTTT
*
2087614 TTATAATTTTTTTATAATTC
1 TTATAATTTTTTAATAATTC
2087634 TTATAATTTTTTAAATAAT
1 TTATAATTTTTT-AATAAT
2087653 ATTAAATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (20 bp):
TTATAATTTTTTAATAATTC
Found at i:2087828 original size:11 final size:11
Alignment explanation
Indices: 2087812--2087838 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
2087802 AAATTTATTA
2087812 TTATATCTTAT
1 TTATATCTTAT
2087823 TTATATCTTAT
1 TTATATCTTAT
2087834 TTATA
1 TTATA
2087839 AACACCAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (11 bp):
TTATATCTTAT
Found at i:2097505 original size:13 final size:13
Alignment explanation
Indices: 2097487--2097512 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2097477 AATATATTAT
2097487 TTTATTAATTTAA
1 TTTATTAATTTAA
2097500 TTTATTAATTTAA
1 TTTATTAATTTAA
2097513 GAGTAGAGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TTTATTAATTTAA
Found at i:2098552 original size:8 final size:8
Alignment explanation
Indices: 2098539--2098572 Score: 50
Period size: 8 Copynumber: 4.0 Consensus size: 8
2098529 ATACAATCTC
2098539 TTTTCTTT
1 TTTTCTTT
2098547 TTTTCTTTTT
1 TTTTC--TTT
2098557 TTTTCTTT
1 TTTTCTTT
2098565 TTTTCTTT
1 TTTTCTTT
2098573 ATACAATTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
8 16 0.67
10 8 0.33
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTCTTT
Found at i:2098559 original size:10 final size:10
Alignment explanation
Indices: 2098544--2098568 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
2098534 ATCTCTTTTC
2098544 TTTTTTTCTT
1 TTTTTTTCTT
2098554 TTTTTTTCTT
1 TTTTTTTCTT
2098564 TTTTT
1 TTTTT
2098569 CTTTATACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (10 bp):
TTTTTTTCTT
Found at i:2105501 original size:12 final size:12
Alignment explanation
Indices: 2105484--2105510 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
2105474 AGACCAGACC
2105484 AAACTCAACCTT
1 AAACTCAACCTT
2105496 AAACTCAACCTT
1 AAACTCAACCTT
2105508 AAA
1 AAA
2105511 TGTTCAAAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.30, G:0.00, T:0.22
Consensus pattern (12 bp):
AAACTCAACCTT
Found at i:2112975 original size:25 final size:25
Alignment explanation
Indices: 2112926--2112984 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
2112916 GAGCAGAATT
* *
2112926 GAACAAAACATAGTAGAATAGAACA
1 GAACAGAACATAGTAGAAGAGAACA
*
2112951 TAACAGAACATAGTAGAACGA-AACA
1 GAACAGAACATAGTAGAA-GAGAACA
*
2112976 GAGCAGAAC
1 GAACAGAAC
2112985 TGAACAGAAC
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
25 27 0.96
26 1 0.04
ACGTcount: A:0.56, C:0.15, G:0.19, T:0.10
Consensus pattern (25 bp):
GAACAGAACATAGTAGAAGAGAACA
Found at i:2114021 original size:35 final size:35
Alignment explanation
Indices: 2113974--2114045 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
2113964 ACACGGCCGT
*
2113974 GTGCCTCTAATTTTTTTTGAACAATGAGTTACATG
1 GTGCCTCCAATTTTTTTTGAACAATGAGTTACATG
2114009 GTGCCTCCAATTTTTTTTGAACAATGAGTTACATG
1 GTGCCTCCAATTTTTTTTGAACAATGAGTTACATG
2114044 GT
1 GT
2114046 CATGTGGCTC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.25, C:0.15, G:0.18, T:0.42
Consensus pattern (35 bp):
GTGCCTCCAATTTTTTTTGAACAATGAGTTACATG
Found at i:2116566 original size:15 final size:15
Alignment explanation
Indices: 2116546--2116575 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2116536 TTCCAATTCT
*
2116546 TTCTTTTTCTATTGA
1 TTCTTTTTCGATTGA
2116561 TTCTTTTTCGATTGA
1 TTCTTTTTCGATTGA
2116576 GATGTATGGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.13, G:0.10, T:0.63
Consensus pattern (15 bp):
TTCTTTTTCGATTGA
Found at i:2121782 original size:32 final size:32
Alignment explanation
Indices: 2121746--2121812 Score: 125
Period size: 32 Copynumber: 2.1 Consensus size: 32
2121736 ACCTTGAGGA
2121746 GAAAGAAACCAAAAAAATTAATTAAAGAAAAT
1 GAAAGAAACCAAAAAAATTAATTAAAGAAAAT
*
2121778 GAAAGAAACCAAAAAAATTAATTAAAGAAACT
1 GAAAGAAACCAAAAAAATTAATTAAAGAAAAT
2121810 GAA
1 GAA
2121813 GCCTTATGCT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.67, C:0.07, G:0.10, T:0.15
Consensus pattern (32 bp):
GAAAGAAACCAAAAAAATTAATTAAAGAAAAT
Found at i:2126164 original size:3 final size:3
Alignment explanation
Indices: 2126156--2126282 Score: 116
Period size: 3 Copynumber: 42.7 Consensus size: 3
2126146 AATATGATAG
* * * * * * * *
2126156 TAA TAA TAA CAA T-A TAG TAA TAG TAG TAG TAA TAG TGA TAG TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
2126203 AAA TAA TAG TAA TAA -AGA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
2126248 TAA TAA TAA TAA TAA TAA TTAA -AA TAA TCA TAA TA
1 TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TA
2126283 TAAAATTTGA
Statistics
Matches: 101, Mismatches: 18, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
2 5 0.05
3 92 0.91
4 4 0.04
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:2126178 original size:6 final size:6
Alignment explanation
Indices: 2126129--2126266 Score: 65
Period size: 6 Copynumber: 23.5 Consensus size: 6
2126119 AATAGATAAA
* * * *
2126129 AATAGT -ATAGT AAT-GAT AATA-T GATAGT AATAAT AACAAT -ATAGT
1 AATAGT AATAGT AATAG-T AATAGT AATAGT AATAGT AATAGT AATAGT
* * *
2126174 AATAGT AGTAGT AATAGT GATAGT AATA-- AA-AAT AATAGT AATAAAGAT
1 AATAGT AATAGT AATAGT AATAGT AATAGT AATAGT AATAGT AAT--AG-T
* * * * * * *
2126222 AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT AAT
1 AATAGT AATAGT AATAGT AATAGT AATAGT AATAGT AATAGT AAT
2126267 TAAAATAATC
Statistics
Matches: 109, Mismatches: 12, Indels: 22
0.76 0.08 0.15
Matches are distributed among these distances:
3 1 0.01
4 2 0.02
5 15 0.14
6 84 0.77
7 1 0.01
8 2 0.02
9 4 0.04
ACGTcount: A:0.57, C:0.01, G:0.10, T:0.32
Consensus pattern (6 bp):
AATAGT
Found at i:2126468 original size:3 final size:3
Alignment explanation
Indices: 2126447--2126591 Score: 64
Period size: 3 Copynumber: 47.3 Consensus size: 3
2126437 AAATAAAACA
** ** *
2126447 AAT AA- AAT AAT GGT AAT AAT AAT AAT AAAT GGT AAA ACAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT A-AT AAT AAT
* * ** *
2126493 AAT AAT -AT GAAT AAT AAT AAC GAT AAT AAAT AAT AGC AAG AAT AAT
1 AAT AAT AAT -AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT
* * * * *
2126539 AAT AGT ACT GAT AAT AGA- AGAT AAT AAT AGT ACT -AT AAT AAAT AAT
1 AAT AAT AAT AAT AAT A-AT A-AT AAT AAT AAT AAT AAT AAT -AAT AAT
2126585 AAT AAT A
1 AAT AAT A
2126592 GATTAAATTA
Statistics
Matches: 105, Mismatches: 27, Indels: 20
0.69 0.18 0.13
Matches are distributed among these distances:
2 5 0.05
3 85 0.81
4 15 0.14
ACGTcount: A:0.59, C:0.03, G:0.09, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:2126488 original size:20 final size:20
Alignment explanation
Indices: 2126440--2126494 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
2126430 GAAAATAAAA
*
2126440 TAAAACA-AATAAAATAATGG
1 TAAAACATAATAATA-AATGG
*
2126460 TAATA-ATAATAATAAATGG
1 TAAAACATAATAATAAATGG
2126479 TAAAACATAATAATAA
1 TAAAACATAATAATAA
2126495 TAATATGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 10 0.33
20 20 0.67
ACGTcount: A:0.64, C:0.04, G:0.07, T:0.25
Consensus pattern (20 bp):
TAAAACATAATAATAAATGG
Found at i:2126586 original size:24 final size:25
Alignment explanation
Indices: 2126522--2126592 Score: 92
Period size: 24 Copynumber: 2.8 Consensus size: 25
2126512 ACGATAATAA
2126522 ATAATAGCAAGAATAATAATAGTACTG
1 ATAATAG-AA-AATAATAATAGTACTG
*
2126549 ATAATAGAAGATAATAATAGTACT-
1 ATAATAGAAAATAATAATAGTACTG
2126573 ATAATA-AATAATAATAATAG
1 ATAATAGAA-AATAATAATAG
2126593 ATTAAATTAA
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
23 2 0.05
24 16 0.39
25 14 0.34
26 2 0.05
27 7 0.17
ACGTcount: A:0.56, C:0.04, G:0.11, T:0.28
Consensus pattern (25 bp):
ATAATAGAAAATAATAATAGTACTG
Found at i:2133764 original size:32 final size:32
Alignment explanation
Indices: 2133669--2133783 Score: 105
Period size: 32 Copynumber: 3.6 Consensus size: 32
2133659 TATGGGTTTT
* *
2133669 GGTGTTATATAT-ATAATATTTATGAGTG---G
1 GGTGTTATATATAAT-ATATATATGCGTGCATG
*
2133698 GGT-TTATAATATATATATATATATGCGTGTATG
1 GGTGTTAT-ATATA-ATATATATATGCGTGCATG
* *
2133731 GGTGTTATATATAATATATATTTGGGTGCATG
1 GGTGTTATATATAATATATATATGCGTGCATG
2133763 GGTGTTATATGTATAATATAT
1 GGTGTTATA--TATAATATAT
2133784 CTGCGTGGTT
Statistics
Matches: 72, Mismatches: 5, Indels: 13
0.80 0.06 0.14
Matches are distributed among these distances:
28 4 0.06
29 7 0.10
30 11 0.15
31 2 0.03
32 25 0.35
33 9 0.12
34 14 0.19
ACGTcount: A:0.31, C:0.02, G:0.22, T:0.45
Consensus pattern (32 bp):
GGTGTTATATATAATATATATATGCGTGCATG
Found at i:2134920 original size:17 final size:17
Alignment explanation
Indices: 2134830--2134920 Score: 60
Period size: 17 Copynumber: 5.4 Consensus size: 17
2134820 ATGATGAAGC
2134830 ATGAACTGTTA-TTCGGT
1 ATGAACTGTTATTTC-GT
* *
2134847 ATGAACTGATATTTCAT
1 ATGAACTGTTATTTCGT
* * * *
2134864 AGGAACTATTATTTTGC
1 ATGAACTGTTATTTCGT
* * *
2134881 ATGAGCTGTCATTTGGT
1 ATGAACTGTTATTTCGT
*
2134898 -TAGAACTGTTATTTCAT
1 AT-GAACTGTTATTTCGT
2134915 ATGAAC
1 ATGAAC
2134921 AGATGTTTGG
Statistics
Matches: 53, Mismatches: 18, Indels: 6
0.69 0.23 0.08
Matches are distributed among these distances:
16 1 0.02
17 48 0.91
18 4 0.08
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.41
Consensus pattern (17 bp):
ATGAACTGTTATTTCGT
Found at i:2136340 original size:68 final size:69
Alignment explanation
Indices: 2136268--2136399 Score: 167
Period size: 68 Copynumber: 1.9 Consensus size: 69
2136258 TTTAATAGTT
* * * * * * *
2136268 TTAATATTAAATTTAATTTACTACCTATCTTAAT-AGTGTTTTATTAATTTAATATTATAGTGAT
1 TTAATATTAAATATAATCTAATACCTACCTTAATAAGTATTATATTAATTTAATATTAAAGTGAT
2136332 TATC
66 TATC
** *
2136336 TTAATATTAAATATAATCTAATATTTACCTTGATAAGTATTATATTAATTTAATATTAAAGTGA
1 TTAATATTAAATATAATCTAATACCTACCTTAATAAGTATTATATTAATTTAATATTAAAGTGA
2136400 GTAAGTTTAA
Statistics
Matches: 53, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
68 27 0.51
69 26 0.49
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.48
Consensus pattern (69 bp):
TTAATATTAAATATAATCTAATACCTACCTTAATAAGTATTATATTAATTTAATATTAAAGTGAT
TATC
Found at i:2138508 original size:51 final size:50
Alignment explanation
Indices: 2138432--2138551 Score: 168
Period size: 51 Copynumber: 2.3 Consensus size: 50
2138422 CTCAAACTTA
*
2138432 CTTCATACTTCATCCGGAATTATTACCTTGTTGCTCTAACTTCAACAAGAG
1 CTTCATA-TTCATCCGGAATAATTACCTTGTTGCTCTAACTTCAACAAGAG
* * *
2138483 CTTCATATTGCATCCGGAATAATTACTTTGTTGCTCTAGCTTTAACAAGAG
1 CTTCATATT-CATCCGGAATAATTACCTTGTTGCTCTAACTTCAACAAGAG
*
2138534 CTTCATATTTTATCCGGA
1 CTTCATA-TTCATCCGGA
2138552 TAACTTAGTT
Statistics
Matches: 62, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
50 2 0.03
51 58 0.94
52 2 0.03
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.38
Consensus pattern (50 bp):
CTTCATATTCATCCGGAATAATTACCTTGTTGCTCTAACTTCAACAAGAG
Found at i:2144255 original size:17 final size:16
Alignment explanation
Indices: 2144235--2144275 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
2144225 TTTTCAAAGG
2144235 CCCAAATTAACCCTAAA
1 CCCAAATTAACCCT-AA
**
2144252 CCCAAACAAACCCTAA
1 CCCAAATTAACCCTAA
2144268 CCCAAATT
1 CCCAAATT
2144276 GGCCCAAAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
16 8 0.40
17 12 0.60
ACGTcount: A:0.46, C:0.39, G:0.00, T:0.15
Consensus pattern (16 bp):
CCCAAATTAACCCTAA
Done.