Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168159.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_4, whole genome shotgun sequence
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: 33012953
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 65000 characters in sequence are not A, C, G, or T
File 35 of 160
Found at i:8593369 original size:20 final size:21
Alignment explanation
Indices: 8593341--8593379 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
8593331 TATCTTAATA
8593341 TAAACTAAA-ATTTAAAAAGG
1 TAAACTAAATATTTAAAAAGG
* *
8593361 TAAATTAAATTTTTAAAAA
1 TAAACTAAATATTTAAAAA
8593380 AAAAATTCAC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.59, C:0.03, G:0.05, T:0.33
Consensus pattern (21 bp):
TAAACTAAATATTTAAAAAGG
Found at i:8594351 original size:2 final size:2
Alignment explanation
Indices: 8594346--8594380 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
8594336 ACACACACAG
*
8594346 AT AT AT AC 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 AT AT AT AT A
8594381 AATGAATTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:8594755 original size:27 final size:28
Alignment explanation
Indices: 8594696--8594757 Score: 76
Period size: 27 Copynumber: 2.2 Consensus size: 28
8594686 ATTGTTAAAT
*
8594696 TTAAAAATATTATTTTGATTCAAATGAG
1 TTAAAAATATTATTTTGATTCAAAAGAG
8594724 TTAAAAAT-TTAATTTTGA-TCAAAAGA-
1 TTAAAAATATT-ATTTTGATTCAAAAGAG
8594750 TCTAAAAA
1 T-TAAAAA
8594758 AGGTAAGAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
26 1 0.03
27 15 0.48
28 15 0.48
ACGTcount: A:0.48, C:0.05, G:0.08, T:0.39
Consensus pattern (28 bp):
TTAAAAATATTATTTTGATTCAAAAGAG
Found at i:8599030 original size:161 final size:160
Alignment explanation
Indices: 8598833--8600273 Score: 1351
Period size: 161 Copynumber: 8.9 Consensus size: 160
8598823 AAATTTAATA
* * * * * *
8598833 TTATCCAAACTATTAAAATAGAATAATAACAGTAAATTTGTATTTTTACCTTTTAACGACACAAA
1 TTATCCAAACTGTTAAAATAGAACAATAATAGCAAATTTGCATTTTTACCTTTTAACGACATAAA
* *
8598898 AAATCTTAAACAGCAGTAAACAATAACTTTTTCACACATATCAGCTGTGAAAACCAAGTTCAATC
66 AAGTCTTAAACAGCA-TAAACAATAACTTTTTCACACATATCAACTGTGAAAACCAAGTTCAATC
*
8598963 ATTCGAACAAGTTTAATATCATGTATTAAAG
130 ATTCGAACAAGTTTAATATCATGTATTGAAG
* * * * *
8598994 TTATCCAAATTGTTAAAACAGAACAATAATAGTAAATTTGTATTTTTACCTTTTAATGACATAAA
1 TTATCCAAACTGTTAAAATAGAACAATAATAGCAAATTTGCATTTTTACCTTTTAACGACATAAA
* * * *
8599059 AAATCTTAAACAAAG-GTAAACAGTAGC-TTTTCACACATATCAACTGTGAAAACCAAGTTCAAT
66 AAGTCTTAAAC--AGCATAAACAATAACTTTTTCACACATATCAACTGTGAAAACCAAGTTCAAT
* * *
8599122 CATTTGGACAAGTTTAATATCATATATTGAAG
129 CATTCGAACAAGTTTAATATCATGTATTGAAG
* * * * * *
8599154 TTATCCAAACTGTTAAAATAGCACAATAATAGCAATTTTGCAATTTTGCTTTTTAACGGCATAAA
1 TTATCCAAACTGTTAAAATAGAACAATAATAGCAAATTTGCATTTTTACCTTTTAACGACATAAA
* * ** * * * *
8599219 AAGTCTTAAATAGATATAAATGATAACTTTTTCACATATTTCAACTGTGGAAACTAAGTTCAATC
66 AAGTCTTAAACAG-CATAAACAATAACTTTTTCACACATATCAACTGTGAAAACCAAGTTCAATC
* *
8599284 ATTCGGACAAATTTAATATCATGTATTGAAG
130 ATTCGAACAAGTTTAATATCATGTATTGAAG
* * * * *
8599315 CTATCCAAATTATTAAAACAGAACAATAATAGCAAATTTGCATTTTTGCCTTTTAACGACATAAA
1 TTATCCAAACTGTTAAAATAGAACAATAATAGCAAATTTGCATTTTTACCTTTTAACGACAT---
* * * * * * *
8599380 AAAAAATCTTAAACAG-AGTCAGCAACAATTTTTTCACACATATGAACTATGAAAACCAAGTTCA
63 AAAAAGTCTTAAACAGCA-TAAACAATAACTTTTTCACACATATCAACTGTGAAAACCAAGTTCA
* * *
8599444 ATCATT-TAGACAACTTTAATATTATGTATTGAA-
127 ATCATTCGA-ACAAGTTTAATATCATGTATTGAAG
* * ** * * *
8599477 TCTATCCAAACTGTTAAAATAGCACAATAACAATAATTTTACATTTTTACCTTTTAACGACACAA
1 T-TATCCAAACTGTTAAAATAGAACAATAATAGCAAATTTGCATTTTTACCTTTTAACGACATAA
* * * * * *
8599542 AAAGTCTTAAACAAACATAAATAATAACTTTTTTATACATATCAA-TAGTGGAAACCAAGTTTAA
65 AAAGTCTTAAAC-AGCATAAACAATAACTTTTTCACACATATCAACT-GTGAAAACCAAGTTCAA
** * * *
8599606 TC-TTTTAGACAAATTTAATATCATGTATTAAAA
128 TCATTCGA-ACAAGTTTAATATCATGTATTGAAG
* * ** * *
8599639 TTATCAAAATTGTTAAAATAGAACAACGATAGCAAATTTGCATTTTTGCCTTTTAAC-AGCATTA
1 TTATCCAAACTGTTAAAATAGAACAATAATAGCAAATTTGCATTTTTACCTTTTAACGA-CATAA
* * * *
8599703 AAAGTCCTAAACAGACATAAACAATAACTTTTTCACACTTAACAATCATG-G-AAACCAAGTTTA
65 AAAGTCTTAAACAG-CATAAACAATAACTTTTTCACACATATCAA-C-TGTGAAAACCAAGTTCA
* * *
8599766 ATCATTTGGACAAGTTTAATATTATGTATTGAAG
127 ATCATTCGAACAAGTTTAATATCATGTATTGAAG
* * * * * * * *
8599800 CTATCCAAATTGTTAAAATAGCATAATAATAGCAATTTTGTATTTTTACCTTTTAACGGCACAAA
1 TTATCCAAACTGTTAAAATAGAACAATAATAGCAAATTTGCATTTTTACCTTTTAACGACATAAA
* *** ** *
8599865 AAGTCTTAAACAAACATAAATGGTAGTTTTTTCATACATATCAACTGTGAAAACCAAGTTCAATC
66 AAGTCTTAAAC-AGCATAAACAATAACTTTTTCACACATATCAACTGTGAAAACCAAGTTCAATC
* *
8599930 ATTCGAACAAATTTAATATTATGTATTGAAG
130 ATTCGAACAAGTTTAATATCATGTATTGAAG
* * * * * * * * **
8599961 TTATCTAAACTGTTAAAACAAAACAACAATAGCAAATTTGTAATTTTGCCTTTTAATGGTATAAA
1 TTATCCAAACTGTTAAAATAGAACAATAATAGCAAATTTGCATTTTTACCTTTTAACGACATAAA
* *
8600026 AAGTCCTAAACAGACATAAACAATAACTTTTTCACACATATCAATCATG-G-AAACCAAGTTTAA
66 AAGTCTTAAACAG-CATAAACAATAACTTTTTCACACATATCAA-C-TGTGAAAACCAAGTTCAA
* * ** * * *
8600089 TTATTTGGGCAATTTTAAAATCATGTATTGAAA
128 TCATTCGAACAAGTTTAATATCATGTATTGAAG
* * * * * * * * *
8600122 CTATCAAAACTGTTAAAATATAACAATAATTGTAAATTTACAATTTTACCTTTTAAAGGCATAAA
1 TTATCCAAACTGTTAAAATAGAACAATAATAGCAAATTTGCATTTTTACCTTTTAACGACATAAA
* *** * ** *
8600187 AATTCTTAAACAGACATAAATTGTAACTTTTTCACACATATAAACAATGAAAACCAAGTTCAATA
66 AAGTCTTAAACAG-CATAAACAATAACTTTTTCACACATATCAACTGTGAAAACCAAGTTCAATC
*
8600252 ATTC-AGATAAGTTTAATATCAT
130 ATTCGA-ACAAGTTTAATATCAT
8600274 AAACTTACTT
Statistics
Matches: 1042, Mismatches: 206, Indels: 64
0.79 0.16 0.05
Matches are distributed among these distances:
158 2 0.00
159 2 0.00
160 156 0.15
161 740 0.71
162 10 0.01
163 117 0.11
164 15 0.01
ACGTcount: A:0.43, C:0.15, G:0.09, T:0.33
Consensus pattern (160 bp):
TTATCCAAACTGTTAAAATAGAACAATAATAGCAAATTTGCATTTTTACCTTTTAACGACATAAA
AAGTCTTAAACAGCATAAACAATAACTTTTTCACACATATCAACTGTGAAAACCAAGTTCAATCA
TTCGAACAAGTTTAATATCATGTATTGAAG
Found at i:8599865 original size:322 final size:319
Alignment explanation
Indices: 8598834--8600273 Score: 1549
Period size: 322 Copynumber: 4.5 Consensus size: 319
8598824 AATTTAATAT
* * * * * * *
8598834 TATCCAAACTATTAAAATAGAATAATAACAGTAAATTTGTATTTTTACCTTTTAACGACACAAAA
1 TATCCAAACTGTTAAAATAGCACAATAATAGTAATTTTGCATTTTTACCTTTTAACGGCACAAAA
* * * *
8598899 AATCTTAAAC-AGCAGTAAACAATAACTTTTTCACACATATCAGCTGTGAAAACCAAGTTCAATC
66 AGTCTTAAACAAACA-TAAATAATAACTTTTTCACACATATCA-ATGTGAAAACCAAGTTCAATC
* * * * *
8598963 ATTCGAACAAGTTTAATATCATGTATTAAAGTTATCCAAATTGTTAAAACAGAACAATAATAGTA
129 TTTAG-ACAAATTTAATATCATGTATTAAAGTTATCCAAATTGTTAAAACAGAACAACAATAGCA
* * * * * ** * *
8599028 AATTTGTATTTTTACCTTTTAATGACATAAAAAATCTTAAACAAAGGTAAACAGTAGC-TTTTCA
193 AATTTGCATTTTTGCCTTTTAACGACATAAAAAATCCTAAACAGACATAAACAATAACTTTTTCA
* *
8599092 CACATATCAAC-TGTGAAAACCAAGTTCAATCATTTGGACAAGTTTAATATCATATATTGAAGT
258 CACATATCAACATG-G-AAACCAAGTTCAATCATTTGGACAAGTTTAATATCATGTATTGAAGC
* * * * *
8599155 TATCCAAACTGTTAAAATAGCACAATAATAGCAATTTTGCAATTTTGCTTTTTAACGGCATAAAA
1 TATCCAAACTGTTAAAATAGCACAATAATAGTAATTTTGCATTTTTACCTTTTAACGGCACAAAA
* * * * * * * *
8599220 AGTCTTAAATAGATATAAATGATAACTTTTTCACATATTTCAACTGTGGAAACTAAGTTCAATCA
66 AGTCTTAAACAAACATAAATAATAACTTTTTCACACATATCAA-TGTGAAAACCAAGTTCAATC-
** * * * *
8599285 TTCGGACAAATTTAATATCATGTATTGAAGCTATCCAAATTATTAAAACAGAACAATAATAGCAA
129 TTTAGACAAATTTAATATCATGTATTAAAGTTATCCAAATTGTTAAAACAGAACAACAATAGCAA
* * * * * *
8599350 ATTTGCATTTTTGCCTTTTAACGACATAAAAAAAAATCTTAAACAGA-GTCAGCAACAATTTTTT
194 ATTTGCATTTTTGCCTTTTAACGACAT---AAAAAATCCTAAACAGACATAAACAATAACTTTTT
* * * * * *
8599414 CACACATATGAACTATGAAAACCAAGTTCAATCATTTAGACAACTTTAATATTATGTATTGAATC
256 CACACATATCAAC-ATGGAAACCAAGTTCAATCATTTGGACAAGTTTAATATCATGTATTGAAGC
* * * *
8599479 TATCCAAACTGTTAAAATAGCACAATAACAATAATTTTACATTTTTACCTTTTAACGACACAAAA
1 TATCCAAACTGTTAAAATAGCACAATAATAGTAATTTTGCATTTTTACCTTTTAACGGCACAAAA
* * * *
8599544 AGTCTTAAACAAACATAAATAATAACTTTTTTATACATATCAATAGTGGAAACCAAGTTTAATCT
66 AGTCTTAAACAAACATAAATAATAACTTTTTCACACATATCAAT-GTGAAAACCAAGTTCAATC-
* * * *
8599609 TTTAGACAAATTTAATATCATGTATTAAAATTATCAAAATTGTTAAAATAGAACAACGATAGCAA
129 TTTAGACAAATTTAATATCATGTATTAAAGTTATCCAAATTGTTAAAACAGAACAACAATAGCAA
* *
8599674 ATTTGCATTTTTGCCTTTTAAC-AGCATTAAAAGTCCTAAACAGACATAAACAATAACTTTTTCA
194 ATTTGCATTTTTGCCTTTTAACGA-CATAAAAAATCCTAAACAGACATAAACAATAACTTTTTCA
* * * *
8599738 CACTTAACAATCATGGAAACCAAGTTTAATCATTTGGACAAGTTTAATATTATGTATTGAAGC
258 CACATATCAA-CATGGAAACCAAGTTCAATCATTTGGACAAGTTTAATATCATGTATTGAAGC
* * * *
8599801 TATCCAAATTGTTAAAATAGCATAATAATAGCAATTTTGTATTTTTACCTTTTAACGGCACAAAA
1 TATCCAAACTGTTAAAATAGCACAATAATAGTAATTTTGCATTTTTACCTTTTAACGGCACAAAA
** ** * *
8599866 AGTCTTAAACAAACATAAATGGTAGTTTTTTCATACATATCAACTGTGAAAACCAAGTTCAATCA
66 AGTCTTAAACAAACATAAATAATAACTTTTTCACACATATCAA-TGTGAAAACCAAGTTCAATCT
* * * * * *
8599931 TTCGAACAAATTTAATATTATGTATTGAAGTTATCTAAACTGTTAAAACAAAACAACAATAGCAA
130 TTAG-ACAAATTTAATATCATGTATTAAAGTTATCCAAATTGTTAAAACAGAACAACAATAGCAA
* * * ** *
8599996 ATTTGTAATTTTGCCTTTTAATGGTATAAAAAGTCCTAAACAGACATAAACAATAACTTTTTCAC
194 ATTTGCATTTTTGCCTTTTAACGACATAAAAAATCCTAAACAGACATAAACAATAACTTTTTCAC
* * * * * *
8600061 ACATATCAATCATGGAAACCAAGTTTAATTATTTGGGCAATTTTAAAATCATGTATTGAAAC
259 ACATATCAA-CATGGAAACCAAGTTCAATCATTTGGACAAGTTTAATATCATGTATTGAAGC
* ** * * * * * *
8600123 TATCAAAACTGTTAAAATATAACAATAATTGTAAATTTACAATTTTACCTTTTAAAGGCATAAAA
1 TATCCAAACTGTTAAAATAGCACAATAATAGTAATTTTGCATTTTTACCTTTTAACGGCACAAAA
* * ** * ** *
8600188 ATTCTTAAACAGACATAAATTGTAACTTTTTCACACATATAAACAATGAAAACCAAGTTCAATAA
66 AGTCTTAAACAAACATAAATAATAACTTTTTCACACATATCAA-TGTGAAAACCAAGTTCAAT-C
* * *
8600253 TTCAGATAAGTTTAATATCAT
129 TTTAGACAAATTTAATATCAT
8600274 AAACTTACTT
Statistics
Matches: 938, Mismatches: 164, Indels: 33
0.83 0.14 0.03
Matches are distributed among these distances:
321 198 0.21
322 465 0.50
323 12 0.01
324 261 0.28
326 2 0.00
ACGTcount: A:0.43, C:0.15, G:0.09, T:0.33
Consensus pattern (319 bp):
TATCCAAACTGTTAAAATAGCACAATAATAGTAATTTTGCATTTTTACCTTTTAACGGCACAAAA
AGTCTTAAACAAACATAAATAATAACTTTTTCACACATATCAATGTGAAAACCAAGTTCAATCTT
TAGACAAATTTAATATCATGTATTAAAGTTATCCAAATTGTTAAAACAGAACAACAATAGCAAAT
TTGCATTTTTGCCTTTTAACGACATAAAAAATCCTAAACAGACATAAACAATAACTTTTTCACAC
ATATCAACATGGAAACCAAGTTCAATCATTTGGACAAGTTTAATATCATGTATTGAAGC
Found at i:8606945 original size:18 final size:19
Alignment explanation
Indices: 8606908--8606947 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
8606898 AAGTGACCTA
8606908 AAATGAGCAGAAATAAAAG
1 AAATGAGCAGAAATAAAAG
* *
8606927 AAATGAGTAGAGA-AAAAG
1 AAATGAGCAGAAATAAAAG
8606945 AAA
1 AAA
8606948 GAAAAAATGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.65, C:0.03, G:0.23, T:0.10
Consensus pattern (19 bp):
AAATGAGCAGAAATAAAAG
Found at i:8608305 original size:116 final size:116
Alignment explanation
Indices: 8608172--8608400 Score: 377
Period size: 116 Copynumber: 2.0 Consensus size: 116
8608162 CAATCCCCCC
8608172 CACATAAGGGATCGATCACCTAGGGTAAGGGATCGATCCCCTCTTCAAAAGATCAATCGGTTGCT
1 CACATAAGGGATCGATCACCTAGGGTAAGGGATCGATCCCCTCTTCAAAAGATCAATCGGTTGCT
* *
8608237 CAAACAAAATGCTCTCCAAGTCTAAAAATCTAGAAAAAAGATCGATCCTCT
66 CAAACAAAACGCTCCCCAAGTCTAAAAATCTAGAAAAAAGATCGATCCTCT
* * * * *
8608288 CACATAAGGGATTGATCACCTAGGGTAAGGGATCGATCCCTTTTTTAAAGGATCAATCGGTTGCT
1 CACATAAGGGATCGATCACCTAGGGTAAGGGATCGATCCCCTCTTCAAAAGATCAATCGGTTGCT
* *
8608353 TAAACAAAACGTTCCCCAAGTCTAAAAATCTAGAAAAAAGATCGATCC
66 CAAACAAAACGCTCCCCAAGTCTAAAAATCTAGAAAAAAGATCGATCC
8608401 CCCCTACATA
Statistics
Matches: 104, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
116 104 1.00
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.24
Consensus pattern (116 bp):
CACATAAGGGATCGATCACCTAGGGTAAGGGATCGATCCCCTCTTCAAAAGATCAATCGGTTGCT
CAAACAAAACGCTCCCCAAGTCTAAAAATCTAGAAAAAAGATCGATCCTCT
Found at i:8608437 original size:116 final size:116
Alignment explanation
Indices: 8608167--8608445 Score: 362
Period size: 116 Copynumber: 2.4 Consensus size: 116
8608157 GGGATCAATC
* ** *
8608167 CCCCCCACATAAGGGATCGATCACCTAGGGTAAGGGATCGATCCCCTCTTCAAAAGATCAATCGG
1 CCCCCCACATAAGGGATGGATCACCTAAAGTAAGGGATCGATCCCTTCTTCAAAAGATCAATCGG
* *
8608232 TTGCTCAAACAAAATGCTCTCCAAGTCTAAAAATCTAGAAAAAAGATCGAT
66 TTGCTCAAACAAAACGCTCCCCAAGTCTAAAAATCTAGAAAAAAGATCGAT
* * * ** * * *
8608283 CCTCTCACATAAGGGATTGATCACCTAGGGTAAGGGATCGATCCCTTTTTTAAAGGATCAATCGG
1 CCCCCCACATAAGGGATGGATCACCTAAAGTAAGGGATCGATCCCTTCTTCAAAAGATCAATCGG
* *
8608348 TTGCTTAAACAAAACGTTCCCCAAGTCTAAAAATCTAGAAAAAAGATCGAT
66 TTGCTCAAACAAAACGCTCCCCAAGTCTAAAAATCTAGAAAAAAGATCGAT
* * * *
8608399 CCCCCCTACATAGGGGATGGGTCACTTAAAG-AATGGATCGATCCCTT
1 CCCCCC-ACATAAGGGATGGATCACCTAAAGTAAGGGATCGATCCCTT
8608446 AAATAAAGGG
Statistics
Matches: 142, Mismatches: 20, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
116 124 0.87
117 18 0.13
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (116 bp):
CCCCCCACATAAGGGATGGATCACCTAAAGTAAGGGATCGATCCCTTCTTCAAAAGATCAATCGG
TTGCTCAAACAAAACGCTCCCCAAGTCTAAAAATCTAGAAAAAAGATCGAT
Found at i:8614504 original size:20 final size:20
Alignment explanation
Indices: 8614489--8614535 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
8614479 TGCAAAATTG
8614489 ATTGATCCCTTTCAAAACCA
1 ATTGATCCCTTTCAAAACCA
8614509 ATTGATCCCTTTCAAAACCA
1 ATTGATCCCTTTCAAAACCA
8614529 ATTGATC
1 ATTGATC
8614536 GATTTCATGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.34, C:0.28, G:0.06, T:0.32
Consensus pattern (20 bp):
ATTGATCCCTTTCAAAACCA
Found at i:8614541 original size:20 final size:20
Alignment explanation
Indices: 8614489--8614542 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
8614479 TGCAAAATTG
*
8614489 ATTGATCCCTTTCAAAACCA
1 ATTGATCCATTTCAAAACCA
*
8614509 ATTGATCCCTTTCAAAACCA
1 ATTGATCCATTTCAAAACCA
*
8614529 ATTGATCGATTTCA
1 ATTGATCCATTTCA
8614543 TGCAAGACCC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.33, C:0.26, G:0.07, T:0.33
Consensus pattern (20 bp):
ATTGATCCATTTCAAAACCA
Found at i:8619728 original size:24 final size:24
Alignment explanation
Indices: 8619681--8619734 Score: 69
Period size: 23 Copynumber: 2.3 Consensus size: 24
8619671 CTATCTATAA
8619681 ATAT-AAAAGTGGTTTTTTTAATAT
1 ATATAAAAAGTGG-TTTTTTAATAT
8619705 ATATAAAAAGTGG-TTTTTAGATAT
1 ATATAAAAAGTGGTTTTTTA-ATAT
8619729 AT-TAAA
1 ATATAAA
8619735 TATATATCTA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
23 10 0.36
24 10 0.36
25 8 0.29
ACGTcount: A:0.43, C:0.00, G:0.13, T:0.44
Consensus pattern (24 bp):
ATATAAAAAGTGGTTTTTTAATAT
Found at i:8619749 original size:13 final size:12
Alignment explanation
Indices: 8619725--8619758 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
8619715 TGGTTTTTAG
8619725 ATATATTA-AAT
1 ATATATTATAAT
8619736 ATATATCTATAAT
1 ATATAT-TATAAT
8619749 ATATATTATA
1 ATATATTATA
8619759 TTGGCCAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 6 0.29
12 6 0.29
13 9 0.43
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (12 bp):
ATATATTATAAT
Found at i:8620699 original size:21 final size:23
Alignment explanation
Indices: 8620655--8620699 Score: 58
Period size: 21 Copynumber: 2.0 Consensus size: 23
8620645 TGGAGAGAGG
*
8620655 AATAAAGAGCAAAGAAATAAAGGT
1 AATAAAGA-CAAAGAAAAAAAGGT
8620679 AATAAAGA-AAA-AAAAAAAGGT
1 AATAAAGACAAAGAAAAAAAGGT
8620700 GGTCTATCGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 9 0.45
22 3 0.15
24 8 0.40
ACGTcount: A:0.69, C:0.02, G:0.18, T:0.11
Consensus pattern (23 bp):
AATAAAGACAAAGAAAAAAAGGT
Found at i:8629576 original size:23 final size:23
Alignment explanation
Indices: 8629548--8629591 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
8629538 ACCTAACCTA
8629548 ATTATTAGACTCTTAAGGTATTT
1 ATTATTAGACTCTTAAGGTATTT
* *
8629571 ATTATTAGATTTTTAAGGTAT
1 ATTATTAGACTCTTAAGGTAT
8629592 ATATCTAACC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.32, C:0.05, G:0.14, T:0.50
Consensus pattern (23 bp):
ATTATTAGACTCTTAAGGTATTT
Found at i:8634790 original size:21 final size:21
Alignment explanation
Indices: 8634761--8634804 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
8634751 TCCCAAAGTC
*
8634761 AATTATAGTCAAAATTACATAA
1 AATTATAGTCAAAA-TAAATAA
*
8634783 AATT-TAGTTAAAATAAATAA
1 AATTATAGTCAAAATAAATAA
8634803 AA
1 AA
8634805 CCGGGGGTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 8 0.40
21 8 0.40
22 4 0.20
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.32
Consensus pattern (21 bp):
AATTATAGTCAAAATAAATAA
Found at i:8637938 original size:16 final size:16
Alignment explanation
Indices: 8637914--8637947 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
8637904 AATCTGTTTT
8637914 TTTGGAAATAAATATA
1 TTTGGAAATAAATATA
* *
8637930 TTTGTAAATAATTATA
1 TTTGGAAATAAATATA
8637946 TT
1 TT
8637948 ATTACATGAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.09, T:0.47
Consensus pattern (16 bp):
TTTGGAAATAAATATA
Found at i:8638855 original size:15 final size:15
Alignment explanation
Indices: 8638837--8638868 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
8638827 CAATAACACC
8638837 AACAATAATAATAAT
1 AACAATAATAATAAT
*
8638852 AACAATGATAATAAT
1 AACAATAATAATAAT
8638867 AA
1 AA
8638869 AAGGGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.66, C:0.06, G:0.03, T:0.25
Consensus pattern (15 bp):
AACAATAATAATAAT
Found at i:8646238 original size:145 final size:145
Alignment explanation
Indices: 8646084--8646424 Score: 440
Period size: 145 Copynumber: 2.4 Consensus size: 145
8646074 TTTTTGAAAC
* *
8646084 CTTTC-AGATCTTAATTTTATAATATTTCATGATTTTTTATGTATTTGAAATCATAGCAGTACCT
1 CTTTCTAGATCTTAATTTTATAATATTTCATGATTTTTTGTGTATTTGAAATCATAACAGTACCT
** * * * * * *
8646148 CAAAAGGTGTGACATTACCAAAATATCTTTATAAGGGTATTTTCATAATTT-AGCCTTTCTGAA-
66 CAAAAAATGTGAAAATACCAAAATACCTCTATAAGGGTATTTTCATAATTTGA-CATTT-TCAAG
*
8646211 CTTAAATTTTCATGAAAA
129 CTCAAATTTTCAT-AAAA
* * * * *
8646229 -TTTTTAGATCTTAATTTCATAATATTTCATAATTTTTGGTATATTTGAAATCATAACAGTACCT
1 CTTTCTAGATCTTAATTTTATAATATTTCATGATTTTTTGTGTATTTGAAATCATAACAGTACCT
*
8646293 CAAAAAATGTGAAAATACTAAAATACCTCTATAAGGGTATTTTCATAATTTGACATTTTCAAGCT
66 CAAAAAATGTGAAAATACCAAAATACCTCTATAAGGGTATTTTCATAATTTGACATTTTCAAGCT
*
8646358 CGAATTTTCATAAAA
131 CAAATTTTCATAAAA
* *
8646373 CTTTCTAGATTTTAATTTTATAATATTTCATGATTTTTTGTGT-TTTAAAATC
1 CTTTCTAGATCTTAATTTTATAATATTTCATGATTTTTTGTGTATTTGAAATC
8646425 CCAAAAAATG
Statistics
Matches: 167, Mismatches: 25, Indels: 9
0.83 0.12 0.04
Matches are distributed among these distances:
144 18 0.11
145 148 0.89
146 1 0.01
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.44
Consensus pattern (145 bp):
CTTTCTAGATCTTAATTTTATAATATTTCATGATTTTTTGTGTATTTGAAATCATAACAGTACCT
CAAAAAATGTGAAAATACCAAAATACCTCTATAAGGGTATTTTCATAATTTGACATTTTCAAGCT
CAAATTTTCATAAAA
Found at i:8648474 original size:5 final size:6
Alignment explanation
Indices: 8648459--8648484 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
8648449 TTAGATTTTA
8648459 AAAAAT AAAAAT AAAAAT AAAAAT AA
1 AAAAAT AAAAAT AAAAAT AAAAAT AA
8648485 TTAAGTAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:8651322 original size:22 final size:21
Alignment explanation
Indices: 8651287--8651327 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 21
8651277 AACTGACTCC
8651287 CAAACCCAAATTAT-TTTTCT
1 CAAACCCAAATTATCTTTTCT
8651307 CAAACCCAAAAATTATCTTTT
1 CAAACCC--AAATTATCTTTT
8651328 TAATAAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
22 7 0.39
23 4 0.22
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (21 bp):
CAAACCCAAATTATCTTTTCT
Found at i:8656761 original size:37 final size:37
Alignment explanation
Indices: 8656711--8656785 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
8656701 TTAGATTCAT
*
8656711 ATATATTGAGTAGTATCAATATTTATGAATCAAATAC
1 ATATATTGAGTAGTATCAATATATATGAATCAAATAC
8656748 ATATATTGAGTAGTATCAATATATATGAATCAAATAC
1 ATATATTGAGTAGTATCAATATATATGAATCAAATAC
8656785 A
1 A
8656786 AATTATTCGT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.45, C:0.08, G:0.11, T:0.36
Consensus pattern (37 bp):
ATATATTGAGTAGTATCAATATATATGAATCAAATAC
Found at i:8656771 original size:18 final size:18
Alignment explanation
Indices: 8656711--8656771 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 18
8656701 TTAGATTCAT
8656711 ATATATTGAGTAGTATCA
1 ATATATTGAGTAGTATCA
* * *
8656729 ATATTTATGAATCA-AAT-A
1 ATATAT-TGAGT-AGTATCA
8656747 CATATATTGAGTAGTATCA
1 -ATATATTGAGTAGTATCA
8656766 ATATAT
1 ATATAT
8656772 ATGAATCAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 10
0.67 0.12 0.21
Matches are distributed among these distances:
17 1 0.03
18 18 0.56
19 12 0.38
20 1 0.03
ACGTcount: A:0.43, C:0.07, G:0.11, T:0.39
Consensus pattern (18 bp):
ATATATTGAGTAGTATCA
Found at i:8657323 original size:201 final size:202
Alignment explanation
Indices: 8656947--8657355 Score: 669
Period size: 201 Copynumber: 2.0 Consensus size: 202
8656937 TTTTGAATCA
** *
8656947 TTAAAAATTAAATTTTTATTTTTAGTTTCTGTATCAAATGTACGAACTAAATGAATTTATTGACG
1 TTAAAAATTAAAAATTTATTTTTAGTTTCTGTATCAAATGTACGAACTAAATGAATTTATTGACA
*
8657012 TTATGTACTATTTCATATTTTTTTTTATAAATTTTTCATTAAAAATTACAAATTACTCTTTTTAG
66 TTATGTACTATTTCA-ATTTTTTTTTATAAATTTTTCATTAAAAATTAAAAATTACTCTTTTTAG
*
8657077 GAGAGTATATACTATTTGTTTATAATAAAACTAACTTATTACTCGTGCGATACATGAATTATTTT
130 GAGAGTATATACTATTTGTTTATAATAAAACTAACTTATTACTCGTACGATACATGAATTATTTT
8657142 TATTTTAT
195 TATTTTAT
* * *
8657150 TTAAAAATTAAAAAATTT-TTTTTAGTTTGTGTATCAAATGTACTAACTAAATGAGTTTATTGAC
1 TTAAAAATT-AAAAATTTATTTTTAGTTTCTGTATCAAATGTACGAACTAAATGAATTTATTGAC
*
8657214 ATTATGTACTATTTC-ATTTTTTTTTATAAATTTTTCATTAAAAATTAAAAATTATTCTTTTTAG
65 ATTATGTACTATTTCAATTTTTTTTTATAAATTTTTCATTAAAAATTAAAAATTACTCTTTTTAG
* * * *
8657278 GAGAGTATATATTATTTGTTTATAATAAAATTAGCTTGTTACTCGTACGATACATGAATTATTTT
130 GAGAGTATATACTATTTGTTTATAATAAAACTAACTTATTACTCGTACGATACATGAATTATTTT
8657343 TATTTTAT
195 TATTTTAT
8657351 TTAAA
1 TTAAA
8657356 TTTAAATAAA
Statistics
Matches: 192, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
201 120 0.62
203 66 0.34
204 6 0.03
ACGTcount: A:0.35, C:0.08, G:0.09, T:0.49
Consensus pattern (202 bp):
TTAAAAATTAAAAATTTATTTTTAGTTTCTGTATCAAATGTACGAACTAAATGAATTTATTGACA
TTATGTACTATTTCAATTTTTTTTTATAAATTTTTCATTAAAAATTAAAAATTACTCTTTTTAGG
AGAGTATATACTATTTGTTTATAATAAAACTAACTTATTACTCGTACGATACATGAATTATTTTT
ATTTTAT
Found at i:8658909 original size:231 final size:232
Alignment explanation
Indices: 8658495--8658990 Score: 770
Period size: 231 Copynumber: 2.1 Consensus size: 232
8658485 TATAAGCTTT
*
8658495 ATGTATAGGAGAAACTTTTCTGAAGTTGTTTTGATATTTATTTATTTTTTCATATTTTCTTTCTA
1 ATGTATAGGAAAAACTTTTCTGAAGTTGTTTTGATATTTATTTATTTTTTCATATTTTCTTTCTA
* * ** *
8658560 AAATATATTTAAAAGTTGAAGTTAATGTAAGAATTATTTATAAAAACTATTAAAGATATTAAATA
66 AAATATATTTAAAAGCTAAAAATAATGTAAGAATTATTTATAAAAAATATTAAAGATATTAAATA
* *
8658625 ATATTTTTAAAAGTTATAATAAATTTAAATATTTATGTTAACTGCAAATAAATTAGAAAAA-AT-
131 ATATTTTTAAAAGTTATAATAAATTTAAATACTCATGTTAACTGCAAATAAATT-GAAAAAGATA
8658688 AAACTACTTTAAAATTAGTTTTAAATTGAGATGAGGTA
195 AAACTACTTTAAAATTAGTTTTAAATTGAGATGAGGTA
* * * *
8658726 ATGTATTGGATAAAC-TTTCTTGAAGTTGTTTTGGTATTTATATT-TTTTTTCATATTTTCTTTG
1 ATGTATAGGAAAAACTTTTC-TGAAGTTGTTTTGATATTTAT-TTATTTTTTCATATTTTCTTTC
8658789 TAAAATATATTTAAAAGCTAAAAATAATGTAATG-ATTATTTATAAAAAATATTAAAGATATTAA
64 TAAAATATATTTAAAAGCTAAAAATAATGTAA-GAATTATTTATAAAAAATATTAAAGATATTAA
* * *
8658853 ATAATATTTTTAAAAGTTGTAATAAATTTAAATACTCATGTTAATTTCAAATAAATTGAAAAAGA
128 ATAATATTTTTAAAAGTTATAATAAATTTAAATACTCATGTTAACTGCAAATAAATTGAAAAAGA
*
8658918 TAAAATTACTTTAAAATTAGTTTTAAATTGAGATGAGGTA
193 TAAAACTACTTTAAAATTAGTTTTAAATTGAGATGAGGTA
8658958 AT-TATAGGAAAAACTTTTCTGAAGTTGTTTTGA
1 ATGTATAGGAAAAACTTTTCTGAAGTTGTTTTGA
8658991 AAATTACTTT
Statistics
Matches: 241, Mismatches: 18, Indels: 12
0.89 0.07 0.04
Matches are distributed among these distances:
230 10 0.04
231 185 0.77
232 46 0.19
ACGTcount: A:0.42, C:0.04, G:0.11, T:0.43
Consensus pattern (232 bp):
ATGTATAGGAAAAACTTTTCTGAAGTTGTTTTGATATTTATTTATTTTTTCATATTTTCTTTCTA
AAATATATTTAAAAGCTAAAAATAATGTAAGAATTATTTATAAAAAATATTAAAGATATTAAATA
ATATTTTTAAAAGTTATAATAAATTTAAATACTCATGTTAACTGCAAATAAATTGAAAAAGATAA
AACTACTTTAAAATTAGTTTTAAATTGAGATGAGGTA
Found at i:8659698 original size:29 final size:30
Alignment explanation
Indices: 8659612--8659698 Score: 81
Period size: 29 Copynumber: 2.9 Consensus size: 30
8659602 TAAAGGGTTA
8659612 ATGTTATAA-ATGAT-TTTAAAATATAATAAT
1 ATGTT-TAATATGATATTTAAAATATAA-AAT
* * * *
8659642 ATGTTTAATATGGTACTTAAATTTTAAAA-
1 ATGTTTAATATGATATTTAAAATATAAAAT
* *
8659671 ATTTTTAATATGATATTTAAACTATAAA
1 ATGTTTAATATGATATTTAAAATATAAA
8659699 GTTATTAACT
Statistics
Matches: 46, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
29 26 0.57
30 11 0.24
31 9 0.20
ACGTcount: A:0.46, C:0.02, G:0.07, T:0.45
Consensus pattern (30 bp):
ATGTTTAATATGATATTTAAAATATAAAAT
Found at i:8659813 original size:27 final size:27
Alignment explanation
Indices: 8659783--8659855 Score: 69
Period size: 28 Copynumber: 2.7 Consensus size: 27
8659773 TAAATAGCAC
8659783 ATTA-ATT-AATATATTTATAACTCAAAT
1 ATTACATTAAATAT-TTTA-AACTCAAAT
* * *
8659810 ATTACATAAAAAAATTTTAAATTCAAAT
1 ATTACAT-TAAATATTTTAAACTCAAAT
*
8659838 ATTATATTAAATATTTTA
1 ATTACATTAAATATTTTA
8659856 TTATAATTTA
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
27 13 0.35
28 16 0.43
29 4 0.11
30 4 0.11
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (27 bp):
ATTACATTAAATATTTTAAACTCAAAT
Found at i:8663541 original size:3 final size:3
Alignment explanation
Indices: 8663533--8663590 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
8663523 CAAATTTTAA
8663533 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
8663581 TAT TAT TAT T
1 TAT TAT TAT T
8663591 TCTCTCCACA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:8666247 original size:4 final size:4
Alignment explanation
Indices: 8666230--8666259 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
8666220 AAGTCTCATC
*
8666230 TCTA TCTA TTTA TCTA TCTA TCTA TCTA TC
1 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TC
8666260 GATATATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.23, C:0.23, G:0.00, T:0.53
Consensus pattern (4 bp):
TCTA
Found at i:8666268 original size:2 final size:2
Alignment explanation
Indices: 8666261--8666292 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
8666251 CTATCTATCG
8666261 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8666293 AGAGACCAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8667628 original size:19 final size:19
Alignment explanation
Indices: 8667595--8667657 Score: 62
Period size: 19 Copynumber: 3.4 Consensus size: 19
8667585 ATCATATACA
8667595 AAATGAAAAAA-AAAAAACT
1 AAAT-AAAAAATAAAAAACT
*
8667614 AAATAAAACATAAAAAAC-
1 AAATAAAAAATAAAAAACT
8667632 AAAGTAAGAAAAT-AAAAA-T
1 AAA-TAA-AAAATAAAAAACT
8667651 AAATAAA
1 AAATAAA
8667658 TCTATCGGCT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
17 1 0.03
18 11 0.29
19 22 0.58
20 4 0.11
ACGTcount: A:0.78, C:0.05, G:0.05, T:0.13
Consensus pattern (19 bp):
AAATAAAAAATAAAAAACT
Found at i:8680493 original size:22 final size:22
Alignment explanation
Indices: 8680452--8680493 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
8680442 AATATATACA
* *
8680452 AATATTTAAAAATACTTAATTG
1 AATATATAAAAATACATAATTG
*
8680474 AATATATAAAAATTCATAAT
1 AATATATAAAAATACATAAT
8680494 AAAAAATTCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.38
Consensus pattern (22 bp):
AATATATAAAAATACATAATTG
Found at i:8684911 original size:77 final size:76
Alignment explanation
Indices: 8684712--8684984 Score: 392
Period size: 77 Copynumber: 3.6 Consensus size: 76
8684702 ATTGCACCAT
*
8684712 TTTTCTATATCACTCTGCAAAAACCAATAAGGATTAGGTTCAAATCCAACCAACAAACAGCTAAA
1 TTTTCTATATCACTCTGC-AAAACCAATAAGGATTAGGTTCAAATCCAACTAACAAACAGCTAAA
8684777 TTTTTCAAC--AA
65 -TTTTCAACAAAA
* *
8684788 TTTTTTATATCACTCTGCAAAACCAA-AATGGATCAGGTTCAAATCCAACTAACAAACAGCTAAA
1 TTTTCTATATCACTCTGCAAAACCAATAA-GGATTAGGTTCAAATCCAACTAACAAACAGCTAAA
8684852 TTATTCAACAAAA
65 TT-TTCAACAAAA
* * *
8684865 TTTTCTATATCACTCTGCAAAACCAATAAGAATTAGCTTCAAATCCAACTAACAAACAGATAAAA
1 TTTTCTATATCACTCTGCAAAACCAATAAGGATTAGGTTCAAATCCAACTAACAAACAGCT-AAA
8684930 TTTTCAACAAAA
65 TTTTCAACAAAA
* *
8684942 TTTTCTATATCACTCGGCAAATCCAATATA-GATTAGGTTCAAA
1 TTTTCTATATCACTCTGCAAAACCAATA-AGGATTAGGTTCAAA
8684985 CCCAGAATAA
Statistics
Matches: 178, Mismatches: 12, Indels: 13
0.88 0.06 0.06
Matches are distributed among these distances:
74 4 0.02
75 47 0.26
76 17 0.10
77 102 0.57
78 8 0.04
ACGTcount: A:0.43, C:0.21, G:0.08, T:0.29
Consensus pattern (76 bp):
TTTTCTATATCACTCTGCAAAACCAATAAGGATTAGGTTCAAATCCAACTAACAAACAGCTAAAT
TTTCAACAAAA
Found at i:8690897 original size:24 final size:24
Alignment explanation
Indices: 8690865--8690911 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
8690855 AAAAAATGAC
*
8690865 AGTTAATAATTGTAATGCTTAATT
1 AGTTAATAACTGTAATGCTTAATT
8690889 AGTTAATAACTGTAATGCTTAAT
1 AGTTAATAACTGTAATGCTTAAT
8690912 ATGACATGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.38, C:0.06, G:0.13, T:0.43
Consensus pattern (24 bp):
AGTTAATAACTGTAATGCTTAATT
Found at i:8691132 original size:19 final size:19
Alignment explanation
Indices: 8691108--8691144 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
8691098 TTATGTTTGT
8691108 TCACCAAGTGAAAAGTTAG
1 TCACCAAGTGAAAAGTTAG
*
8691127 TCACCAAGTGAAATGTTA
1 TCACCAAGTGAAAAGTTA
8691145 CATTTTAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.41, C:0.16, G:0.19, T:0.24
Consensus pattern (19 bp):
TCACCAAGTGAAAAGTTAG
Found at i:8696706 original size:176 final size:175
Alignment explanation
Indices: 8696400--8696746 Score: 490
Period size: 176 Copynumber: 2.0 Consensus size: 175
8696390 CTGTAGCATC
*
8696400 CAATGTTATAGGATTAATAAATCTACTGTTCTCTACCCTTTCTTATCACTTTTGAGTTTTATGGA
1 CAATGTTATAGGATTAATAAATCTACTGTTCTCTACCCTTTCTTATCACTTTTGAGTTTTATGAA
* * * * *
8696465 ATGATTCATTTTAACTGTTCATGGCTGATAAATTTTCATATGATATTGAATTGCATACCTGTTAA
66 ATGATTCATTTTAACTGTGCATCGCTGATAAATTTTCATATAATATTGAATTACATACATGTTAA
*
8696530 AGATGCATAATTTGATGATTGGTAACATCATTTTCCAGTCAGTTT
131 AGATGCATAATTTGATGATTGGTAACATCATATTCCAGTCAGTTT
* * *
8696575 CAATGTTGTAGGATTAATAATTCTCTACAGTGTT-T-TACCCTTTGTTATCACTTTTTG-GTTTT
1 CAATGTTATAGGATTAATAA--ATCTAC--TGTTCTCTACCCTTTCTTATCAC-TTTTGAGTTTT
*
8696637 -TAGAAATGATTC-TTTTAGCTGTGCATCGCTGAT-AATTCTTCATATAATATTGAATTACATAC
61 AT-GAAATGATTCATTTTAACTGTGCATCGCTGATAAATT-TTCATATAATATTGAATTACATAC
8696699 ATGTTAAAGATGCATAATTTGATGATTGGTAACATCATATTCCAGTCA
124 ATGTTAAAGATGCATAATTTGATGATTGGTAACATCATATTCCAGTCA
8696747 ATTTGCTATA
Statistics
Matches: 154, Mismatches: 11, Indels: 13
0.87 0.06 0.07
Matches are distributed among these distances:
175 23 0.15
176 87 0.56
177 34 0.22
178 6 0.04
179 4 0.03
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (175 bp):
CAATGTTATAGGATTAATAAATCTACTGTTCTCTACCCTTTCTTATCACTTTTGAGTTTTATGAA
ATGATTCATTTTAACTGTGCATCGCTGATAAATTTTCATATAATATTGAATTACATACATGTTAA
AGATGCATAATTTGATGATTGGTAACATCATATTCCAGTCAGTTT
Found at i:8705117 original size:144 final size:145
Alignment explanation
Indices: 8704902--8705303 Score: 458
Period size: 144 Copynumber: 2.8 Consensus size: 145
8704892 CAAAATTAGT
* * * **
8704902 AAAATGCCCTT-TAAAGTGTATTTTCATAATTTGACCTTCCCAAACTCTA-ATTTTTTTGAAACT
1 AAAATACCCTTAT-AAGGGTATTTTCATAATTTGACCTTCCTAAACTC-AGATTTTCATGAAACT
* * * **
8704965 TTTTAGATCTTAATTTCATAATATTTCATAATTTTTGATGTATTTGAAATCATAGTAGTACCTCA
64 TTTCAGATCTTAATTTCATAATATTTCATGATTTTTGGTGTATTTGAAATCATAACAGTACCTCA
** * *
8705030 AAAGGTGTGACATTACC
129 AAAAATATGAAATTACC
* *
8705047 AAAATACCCTTATAAGGGTATTTTCAT-ATTTGGCCTTCCTGAACTCAGATTTTCATGAAACTTT
1 AAAATACCCTTATAAGGGTATTTTCATAATTTGACCTTCCTAAACTCAGATTTTCATGAAACTTT
* ** *
8705111 TCAGATCTTAATGTCATAATATTTCATGATTTTTGGTACATTTGAAATCATAACAGTACCTTAAA
66 TCAGATCTTAATTTCATAATATTTCATGATTTTTGGTGTATTTGAAATCATAACAGTACCTCAAA
*
8705176 AAATATGAAATTACT
131 AAATATGAAATTACC
* ** *
8705191 AAAATA-CCTCTATAAGGGTATTTTCATAATTTGACATTTTTAAGCTC-GAATTTTCATGAAAC-
1 AAAATACCCT-TATAAGGGTATTTTCATAATTTGACCTTCCTAAACTCAG-ATTTTCATGAAACT
* * *
8705253 TTTCTAGATTTTAATTTTATAATATTTCATGATTTTTGGTGT-TTTAAAATC
64 TTTC-AGATCTTAATTTCATAATATTTCATGATTTTTGGTGTATTTGAAATC
8705304 CTAAAAAATG
Statistics
Matches: 218, Mismatches: 33, Indels: 13
0.83 0.12 0.05
Matches are distributed among these distances:
143 4 0.02
144 132 0.61
145 81 0.37
146 1 0.00
ACGTcount: A:0.33, C:0.14, G:0.11, T:0.42
Consensus pattern (145 bp):
AAAATACCCTTATAAGGGTATTTTCATAATTTGACCTTCCTAAACTCAGATTTTCATGAAACTTT
TCAGATCTTAATTTCATAATATTTCATGATTTTTGGTGTATTTGAAATCATAACAGTACCTCAAA
AAATATGAAATTACC
Found at i:8710232 original size:10 final size:10
Alignment explanation
Indices: 8710217--8710242 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
8710207 AAAATTATCT
8710217 TTTTAATAAA
1 TTTTAATAAA
8710227 TTTTAATAAA
1 TTTTAATAAA
8710237 TTTTAA
1 TTTTAA
8710243 AATTTTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (10 bp):
TTTTAATAAA
Found at i:8715608 original size:37 final size:37
Alignment explanation
Indices: 8715558--8715632 Score: 125
Period size: 37 Copynumber: 2.0 Consensus size: 37
8715548 TTAGATTCAT
8715558 ATATATTGAGTAGTATCAATAT-TTATGAATCAAATAC
1 ATATATTGAGTAGTATCAATATATT-TGAATCAAATAC
*
8715595 ATATATTGAGTAGTATCAATATATTTTAATCAAATAC
1 ATATATTGAGTAGTATCAATATATTTGAATCAAATAC
8715632 A
1 A
8715633 AATTATCCGT
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
37 34 0.94
38 2 0.06
ACGTcount: A:0.44, C:0.08, G:0.09, T:0.39
Consensus pattern (37 bp):
ATATATTGAGTAGTATCAATATATTTGAATCAAATAC
Found at i:8715618 original size:18 final size:18
Alignment explanation
Indices: 8715558--8715619 Score: 56
Period size: 18 Copynumber: 3.4 Consensus size: 18
8715548 TTAGATTCAT
8715558 ATATATTGAGTAGTATCA
1 ATATATTGAGTAGTATCA
* * *
8715576 ATATTTATGAATCA-AAT-A
1 ATATAT-TGAGT-AGTATCA
8715594 CATATATTGAGTAGTATCA
1 -ATATATTGAGTAGTATCA
8715613 ATATATT
1 ATATATT
8715620 TTAATCAAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 10
0.67 0.12 0.20
Matches are distributed among these distances:
17 1 0.03
18 19 0.58
19 12 0.36
20 1 0.03
ACGTcount: A:0.42, C:0.06, G:0.11, T:0.40
Consensus pattern (18 bp):
ATATATTGAGTAGTATCA
Found at i:8716167 original size:199 final size:200
Alignment explanation
Indices: 8715814--8716213 Score: 678
Period size: 199 Copynumber: 2.0 Consensus size: 200
8715804 AAATTTTTAT
*
8715814 TTTTAGTTTGTGTATCAAATGTACGAACTAAATGAATTTATTGACATTATGTACTATTTCATATT
1 TTTTAGTTTATGTATCAAATGTACGAACTAAATGAATTTATTGACATTATGTACTATTTCATATT
8715879 TTTTTTATAAATTTTTCATTAAAAATTACAAATTACTCTTTTTAGGAGAGTATATACTATTTGTT
66 TTTTTTATAAATTTTTCATTAAAAATTACAAATTACTCTTTTTAGGAGAGTATATACTATTTGTT
* *
8715944 TATAATAAAACTAACTTATTACTCGTGCGATGCATGAATTATTTTTATTTTATTTAAAAATTAAA
131 TATAATAAAACTAACTTATTACTCGTGCGATACATGAATTATTTTTATTTCATTT-AAAATTAAA
8716009 -AAAAA
195 TAAAAA
* *
8716014 TTTTAGTTTATGTATCAAATGTATGAACTAAATGAGTTTATTGACATTATGTACTATTTCATA-T
1 TTTTAGTTTATGTATCAAATGTACGAACTAAATGAATTTATTGACATTATGTACTATTTCATATT
* *
8716078 TTTTTTATAAATTTTTCATTAAAAATTACAAATTATTCTTTTTAGGAGAGTATATATTATTTGTT
66 TTTTTTATAAATTTTTCATTAAAAATTACAAATTACTCTTTTTAGGAGAGTATATACTATTTGTT
* * * *
8716143 TATAATAAAATTAGCTTGTTACTCGTGCGATACATGAATTATTTTTATTTCATTTAAATTTAAAT
131 TATAATAAAACTAACTTATTACTCGTGCGATACATGAATTATTTTTATTTCATTTAAAATTAAAT
8716208 AAAAA
196 AAAAA
8716213 T
1 T
8716214 AAAATTTAAT
Statistics
Matches: 188, Mismatches: 11, Indels: 3
0.93 0.05 0.01
Matches are distributed among these distances:
198 8 0.04
199 120 0.64
200 60 0.32
ACGTcount: A:0.36, C:0.08, G:0.09, T:0.47
Consensus pattern (200 bp):
TTTTAGTTTATGTATCAAATGTACGAACTAAATGAATTTATTGACATTATGTACTATTTCATATT
TTTTTTATAAATTTTTCATTAAAAATTACAAATTACTCTTTTTAGGAGAGTATATACTATTTGTT
TATAATAAAACTAACTTATTACTCGTGCGATACATGAATTATTTTTATTTCATTTAAAATTAAAT
AAAAA
Found at i:8716306 original size:18 final size:19
Alignment explanation
Indices: 8716272--8716307 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
8716262 AATAAATAAT
*
8716272 ATAATTAAAATATAAATTC
1 ATAATAAAAATATAAATTC
8716291 ATAATAAAAATA-AAATT
1 ATAATAAAAATATAAATT
8716308 TTCTTTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (19 bp):
ATAATAAAAATATAAATTC
Found at i:8716923 original size:43 final size:43
Alignment explanation
Indices: 8716876--8716959 Score: 123
Period size: 43 Copynumber: 2.0 Consensus size: 43
8716866 GAAAAAAAAA
* *
8716876 TCCTACCTAATAGAGTAAATAGTATGTTTAGTGAAATAGTATC
1 TCCTACCTAATAGAGTAAATAGTATATTTAATGAAATAGTATC
** *
8716919 TCCTACCTGCTCGAGTAAATAGTATATTTAATGAAATAGTA
1 TCCTACCTAATAGAGTAAATAGTATATTTAATGAAATAGTA
8716960 CCTATAAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (43 bp):
TCCTACCTAATAGAGTAAATAGTATATTTAATGAAATAGTATC
Found at i:8717392 original size:253 final size:236
Alignment explanation
Indices: 8717105--8717842 Score: 883
Period size: 233 Copynumber: 3.1 Consensus size: 236
8717095 AATGATGAGG
* * *
8717105 CTTTTCCT-AAGTTGTTTTGGTATTTATATTTTTTTTTTTCACATTTT-TTTGTGAAATATATTA
1 CTTTT-CTGAAGTTGTTTTGGTATTTATA-TTTTTTTTTTCATATTTTCTTTGTAAAATATATTT
* * *
8717168 AAAAGTTAAAGATAATATAAGAATTATTTATAAAAAATATTAAATATATTAAATAATATTTTAAA
64 AAAAGTTAAAGATAATGTAAGAATTATTTATAAAAAATATTAAAGATATTAAATAATATTTT-TA
* * * *
8717233 AAATTTGTGATAAATTTAAATAATTATGTTAACTGTAAATAAATTAAAAAAAATAAATATATTTT
128 AAAGTTGTAATAAATTTAAATACTTATGTTAA-TGTAAATAAATTAAAAAAAATAAAT-TACTTT
*
8717298 AAAGTT-GATTTTAAATTGAGATAAGGTGATGTATAAGATAAGCTTTATGTATAGGAGAAA
191 AAAATTAG-TTTTAAATTGAGAT-AGGTGA-G-----G-T-A-----ATGTATAGGAGAAA
* *
8717358 CTTTTCTGAAGTTGTTTTGATATTTATATTTTTTTTTTCATATTTTCTTTATAAAATATATTTAA
1 CTTTTCTGAAGTTGTTTTGGTATTTATATTTTTTTTTTCATATTTTCTTTGTAAAATATATTTAA
* * *
8717423 AAGTTGAAGCTAATGTAAGAATTATTTATAAAAACTATTAAAGATATTAAATAATATTTTTAAAA
66 AAGTTAAAGATAATGTAAGAATTATTTATAAAAAATATTAAAGATATTAAATAATATTTTTAAAA
* * * *
8717488 GTTATAATAAATTTAAATACTTATGTTAATTGCAAATAAATTAGAAAAAATAAACTACTTTAAAA
131 GTTGTAATAAATTTAAATACTTATGTTAA-TGTAAATAAATTAAAAAAAATAAATTACTTTAAAA
* *
8717553 TTAGTTTTAAATTGAG--A--TGAGGTAATGTATTGGATAAA
195 TTAGTTTTAAATTGAGATAGGTGAGGTAATGTATAGGAGAAA
*
8717591 C-TTTCTTGAAGTTGTTTTGGTGTTTATATTTTTTTTTTCATATTTTCTTTGTAAAATATATTTA
1 CTTTTC-TGAAGTTGTTTTGGTATTTATATTTTTTTTTTCATATTTTCTTTGTAAAATATATTTA
* *
8717655 AAAGCTAAAAATAATGTAATG-ATTATTTATAAAAAATATTAAAGATATTAAATAATATTTTTAA
65 AAAGTTAAAGATAATGTAA-GAATTATTTATAAAAAATATTAAAGATATTAAATAATATTTTTAA
* * * * *
8717719 AAGTTGTAATAAATTTAAATACTCATATTAATTTCAAATAAATTGAAAAAGATAAATTACTTTAA
129 AAGTTGTAATAAATTTAAATACTTATGTTAATGT-AAATAAATTAAAAAAAATAAATTACTTTAA
*
8717784 AATTAGTTTTAAATTGAG--A--TGAGGTAAT-TATAGGAAAAA
193 AATTAGTTTTAAATTGAGATAGGTGAGGTAATGTATAGGAGAAA
8717823 CTTTTCTGAAGTTGTTTTGG
1 CTTTTCTGAAGTTGTTTTGG
8717843 AAATTACTTT
Statistics
Matches: 436, Mismatches: 42, Indels: 35
0.85 0.08 0.07
Matches are distributed among these distances:
232 29 0.07
233 211 0.48
234 1 0.00
238 1 0.00
239 1 0.00
240 1 0.00
245 1 0.00
246 3 0.01
248 1 0.00
251 22 0.05
252 71 0.16
253 94 0.22
ACGTcount: A:0.42, C:0.04, G:0.11, T:0.44
Consensus pattern (236 bp):
CTTTTCTGAAGTTGTTTTGGTATTTATATTTTTTTTTTCATATTTTCTTTGTAAAATATATTTAA
AAGTTAAAGATAATGTAAGAATTATTTATAAAAAATATTAAAGATATTAAATAATATTTTTAAAA
GTTGTAATAAATTTAAATACTTATGTTAATGTAAATAAATTAAAAAAAATAAATTACTTTAAAAT
TAGTTTTAAATTGAGATAGGTGAGGTAATGTATAGGAGAAA
Found at i:8718390 original size:27 final size:27
Alignment explanation
Indices: 8718360--8718432 Score: 69
Period size: 28 Copynumber: 2.7 Consensus size: 27
8718350 TAAATAGCAC
8718360 ATTA-ATT-AATATATTTATAACTCAAAT
1 ATTACATTAAATAT-TTTA-AACTCAAAT
* * *
8718387 ATTACATAAAAAAATTTTAAATTCAAAT
1 ATTACAT-TAAATATTTTAAACTCAAAT
*
8718415 ATTATATTAAATATTTTA
1 ATTACATTAAATATTTTA
8718433 TTATAATTTA
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
27 13 0.35
28 16 0.43
29 4 0.11
30 4 0.11
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (27 bp):
ATTACATTAAATATTTTAAACTCAAAT
Found at i:8722125 original size:3 final size:3
Alignment explanation
Indices: 8722117--8722168 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
8722107 CAAATTTTAA
8722117 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
8722165 TAT T
1 TAT T
8722169 TCTCTCCACA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:8726197 original size:19 final size:19
Alignment explanation
Indices: 8726164--8726226 Score: 62
Period size: 19 Copynumber: 3.4 Consensus size: 19
8726154 ATCATATACA
8726164 AAATGAAAAAA-AAAAAACT
1 AAAT-AAAAAATAAAAAACT
*
8726183 AAATAAAACATAAAAAAC-
1 AAATAAAAAATAAAAAACT
8726201 AAAGTAAGAAAAT-AAAAA-T
1 AAA-TAA-AAAATAAAAAACT
8726220 AAATAAA
1 AAATAAA
8726227 TCTATCGGCT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
17 1 0.03
18 11 0.29
19 22 0.58
20 4 0.11
ACGTcount: A:0.78, C:0.05, G:0.05, T:0.13
Consensus pattern (19 bp):
AAATAAAAAATAAAAAACT
Found at i:8729392 original size:21 final size:21
Alignment explanation
Indices: 8729368--8729411 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
8729358 GTAGCATTTG
* *
8729368 TTTCGTGGATTCAAATTTTTT
1 TTTCGTGAAATCAAATTTTTT
* *
8729389 TTTCTTGAAATCTAATTTTTT
1 TTTCGTGAAATCAAATTTTTT
8729410 TT
1 TT
8729412 ATGTGACTTC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.20, C:0.09, G:0.09, T:0.61
Consensus pattern (21 bp):
TTTCGTGAAATCAAATTTTTT
Found at i:8731978 original size:35 final size:35
Alignment explanation
Indices: 8731939--8732008 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
8731929 TAGATTTAAG
* * *
8731939 GTAATCTTGTAGGATTTTCTTTTAACATGATTTTT
1 GTAATCTTATAGGATTTTATTTTAACATAATTTTT
8731974 GTAATCTTATAGGATTTTATTTTAACATAATTTTT
1 GTAATCTTATAGGATTTTATTTTAACATAATTTTT
8732009 ATTTAAATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.27, C:0.07, G:0.11, T:0.54
Consensus pattern (35 bp):
GTAATCTTATAGGATTTTATTTTAACATAATTTTT
Found at i:8742965 original size:75 final size:77
Alignment explanation
Indices: 8742845--8743118 Score: 398
Period size: 76 Copynumber: 3.6 Consensus size: 77
8742835 ATATTGCACC
*
8742845 ATTTTTCTATATCACTCTGCAAAAACCAATAAGGATTAGGTTCAAATCCAACCAACAAACAGCTA
1 ATTTTTCTATATCACTCTGC-AAAACCAATAAGGATTAGGTTCAAATCCAACTAACAAACAGCTA
8742910 AATTTTTCAAC-A
65 AATTTTTCAACAA
*
8742922 ATTTTT-TATATCACTCTGCAAAACCAA-AATGGATCAGGTTCAAATCCAACTAACAAACAGCTA
1 ATTTTTCTATATCACTCTGCAAAACCAATAA-GGATTAGGTTCAAATCCAACTAACAAACAGCTA
*
8742985 AATTATTCAACAA
65 AATTTTTCAACAA
* * *
8742998 AATTTTCTATATCACTCTGCAAAACCAATAAGAATTA-GTTCAAATCCAACTAACAAACAGATAA
1 ATTTTTCTATATCACTCTGCAAAACCAATAAGGATTAGGTTCAAATCCAACTAACAAACAGCTAA
*
8743062 AATTTTCAACAA
66 ATTTTTCAACAA
*
8743074 ATTTTTCTATATCACTC-GACAAATCCAATATA-GATTAGGTTCAAA
1 ATTTTTCTATATCACTCTG-CAAAACCAATA-AGGATTAGGTTCAAA
8743119 CCCAGAATAA
Statistics
Matches: 178, Mismatches: 12, Indels: 14
0.87 0.06 0.07
Matches are distributed among these distances:
74 2 0.01
75 50 0.28
76 85 0.48
77 39 0.22
78 2 0.01
ACGTcount: A:0.43, C:0.20, G:0.07, T:0.29
Consensus pattern (77 bp):
ATTTTTCTATATCACTCTGCAAAACCAATAAGGATTAGGTTCAAATCCAACTAACAAACAGCTAA
ATTTTTCAACAA
Found at i:8749040 original size:24 final size:24
Alignment explanation
Indices: 8749008--8749054 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
8748998 AAAAAATGAC
*
8749008 AGTTAATAATTGTAATGCTTAATT
1 AGTTAATAACTGTAATGCTTAATT
8749032 AGTTAATAACTGTAATGCTTAAT
1 AGTTAATAACTGTAATGCTTAAT
8749055 ATGACATGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.38, C:0.06, G:0.13, T:0.43
Consensus pattern (24 bp):
AGTTAATAACTGTAATGCTTAATT
Found at i:8749276 original size:19 final size:19
Alignment explanation
Indices: 8749252--8749288 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
8749242 TTATGTTTGT
8749252 TCACCAAGTGAAAAGTTAG
1 TCACCAAGTGAAAAGTTAG
*
8749271 TCACCAAGTGAAATGTTA
1 TCACCAAGTGAAAAGTTA
8749289 CATTTTAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.41, C:0.16, G:0.19, T:0.24
Consensus pattern (19 bp):
TCACCAAGTGAAAAGTTAG
Found at i:8754856 original size:176 final size:175
Alignment explanation
Indices: 8754550--8754896 Score: 490
Period size: 176 Copynumber: 2.0 Consensus size: 175
8754540 CTGTAGCATC
*
8754550 CAATGTTATAGGATTAATAAATCTACTGTTCTCTACCCTTTCTTATCACTTTTGAGTTTTATGGA
1 CAATGTTATAGGATTAATAAATCTACTGTTCTCTACCCTTTCTTATCACTTTTGAGTTTTATGAA
* * * * *
8754615 ATGATTCATTTTAACTGTTCATGGCTGATAAATTTTCATATGATATTGAATTGCATACCTGTTAA
66 ATGATTCATTTTAACTGTGCATCGCTGATAAATTTTCATATAATATTGAATTACATACATGTTAA
*
8754680 AGATGCATAATTTGATGATTGGTAACATCATTTTCCAGTCAGTTT
131 AGATGCATAATTTGATGATTGGTAACATCATATTCCAGTCAGTTT
* * *
8754725 CAATGTTGTAGGATTAATAATTCTCTACAGTGTT-T-TACCCTTTGTTATCACTTTTTG-GTTTT
1 CAATGTTATAGGATTAATAA--ATCTAC--TGTTCTCTACCCTTTCTTATCAC-TTTTGAGTTTT
*
8754787 -TAGAAATGATTC-TTTTAGCTGTGCATCGCTGAT-AATTCTTCATATAATATTGAATTACATAC
61 AT-GAAATGATTCATTTTAACTGTGCATCGCTGATAAATT-TTCATATAATATTGAATTACATAC
8754849 ATGTTAAAGATGCATAATTTGATGATTGGTAACATCATATTCCAGTCA
124 ATGTTAAAGATGCATAATTTGATGATTGGTAACATCATATTCCAGTCA
8754897 ATTTGCTATA
Statistics
Matches: 154, Mismatches: 11, Indels: 13
0.87 0.06 0.07
Matches are distributed among these distances:
175 23 0.15
176 87 0.56
177 34 0.22
178 6 0.04
179 4 0.03
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (175 bp):
CAATGTTATAGGATTAATAAATCTACTGTTCTCTACCCTTTCTTATCACTTTTGAGTTTTATGAA
ATGATTCATTTTAACTGTGCATCGCTGATAAATTTTCATATAATATTGAATTACATACATGTTAA
AGATGCATAATTTGATGATTGGTAACATCATATTCCAGTCAGTTT
Found at i:8758711 original size:19 final size:19
Alignment explanation
Indices: 8758687--8758738 Score: 52
Period size: 22 Copynumber: 2.6 Consensus size: 19
8758677 ATAAAGTGAT
8758687 ATAATTTAAAATTTTAATA
1 ATAATTTAAAATTTTAATA
*
8758706 ATAATTATATATAAATTTAATA
1 ATAATT-TA-A-AATTTTAATA
*
8758728 A-AATTAAAAAT
1 ATAATTTAAAAT
8758739 ATATATTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 7
0.73 0.08 0.19
Matches are distributed among these distances:
18 2 0.07
19 7 0.26
20 3 0.11
21 5 0.19
22 10 0.37
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
ATAATTTAAAATTTTAATA
Found at i:8758808 original size:20 final size:19
Alignment explanation
Indices: 8758785--8758854 Score: 53
Period size: 20 Copynumber: 3.9 Consensus size: 19
8758775 ATGTAATTTT
8758785 TATATAAAATATAATATAAA
1 TATAT-AAATATAATATAAA
8758805 TATATAAAT-T--T-T-AA
1 TATATAAATATAATATAAA
**
8758819 TAT-TTTATATAATATAAA
1 TATATAAATATAATATAAA
*
8758837 TATATAAAATATCATATA
1 TATAT-AAATATAATATA
8758855 TAAAAAATTG
Statistics
Matches: 38, Mismatches: 5, Indels: 14
0.67 0.09 0.25
Matches are distributed among these distances:
13 3 0.08
14 6 0.16
15 1 0.03
16 2 0.05
17 1 0.03
18 6 0.16
19 5 0.13
20 14 0.37
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (19 bp):
TATATAAATATAATATAAA
Found at i:8758815 original size:32 final size:32
Alignment explanation
Indices: 8758779--8758844 Score: 96
Period size: 32 Copynumber: 2.1 Consensus size: 32
8758769 TATGATATGT
*
8758779 AATTTTTATATAAAATATAATATAAATATATA
1 AATTTTAATATAAAATATAATATAAATATATA
***
8758811 AATTTTAATATTTTATATAATATAAATATATA
1 AATTTTAATATAAAATATAATATAAATATATA
8758843 AA
1 AA
8758845 ATATCATATA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (32 bp):
AATTTTAATATAAAATATAATATAAATATATA
Found at i:8758840 original size:6 final size:7
Alignment explanation
Indices: 8758785--8758857 Score: 57
Period size: 7 Copynumber: 11.0 Consensus size: 7
8758775 ATGTAATTTT
8758785 TATATAA
1 TATATAA
*
8758792 AATATAA
1 TATATAA
8758799 TATA-AA
1 TATATAA
8758805 TATATAA
1 TATATAA
*
8758812 -ATTTTAA
1 TA-TATAA
*
8758819 TAT-T-T
1 TATATAA
8758824 TATATAA
1 TATATAA
8758831 TATA-AA
1 TATATAA
8758837 TATATAA
1 TATATAA
* *
8758844 AATATCA
1 TATATAA
8758851 TATATAA
1 TATATAA
8758858 AAAATTGAAT
Statistics
Matches: 51, Mismatches: 9, Indels: 12
0.71 0.12 0.17
Matches are distributed among these distances:
5 3 0.06
6 15 0.29
7 32 0.63
8 1 0.02
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.42
Consensus pattern (7 bp):
TATATAA
Found at i:8762436 original size:15 final size:15
Alignment explanation
Indices: 8762416--8762444 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
8762406 TGTTATTTAC
8762416 TTATAATAAAAAATA
1 TTATAATAAAAAATA
8762431 TTATAATAAAAAAT
1 TTATAATAAAAAAT
8762445 TTTTATTATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
TTATAATAAAAAATA
Found at i:8778088 original size:27 final size:26
Alignment explanation
Indices: 8778030--8778089 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 26
8778020 TTGGGCTTTA
* *
8778030 ACCCGATTGAATCGAAATCAAGGCTT
1 ACCCAATTGAATCGAAATCAAGCCTT
*
8778056 AGCCCAATTGATTCGAAATCAAGCCTT
1 A-CCCAATTGAATCGAAATCAAGCCTT
8778083 GACCCAA
1 -ACCCAA
8778090 AAACTCGATA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 1 0.03
27 27 0.93
28 1 0.03
ACGTcount: A:0.35, C:0.27, G:0.17, T:0.22
Consensus pattern (26 bp):
ACCCAATTGAATCGAAATCAAGCCTT
Found at i:8778597 original size:54 final size:54
Alignment explanation
Indices: 8778404--8778714 Score: 257
Period size: 51 Copynumber: 5.9 Consensus size: 54
8778394 GAAGATAATC
* * * * *
8778404 TCATCTTGAAAAATACTCCTTTAGGTAAAGGCTCAACAACTTAAAAGAAAAGAATC
1 TCATCTTGAAAAATGCTCCTTTAGGTAGAGGCTCAACAACTTTAAA-AAAA-ATTT
* * *
8778460 TCATCTTAAAAAATGCTCCTCTAGGTAGAGGCTCAATAACTTT---AAAAATTCT
1 TCATCTTGAAAAATGCTCCTTTAGGTAGAGGCTCAACAACTTTAAAAAAAATT-T
* * * *
8778512 T-ATCTTGAAAAAGGTTCCTCTAGGTAAAGGCTCAACAACTTTAAAAAAAATTT
1 TCATCTTGAAAAATGCTCCTTTAGGTAGAGGCTCAACAACTTTAAAAAAAATTT
* * * *
8778565 TCATCTTGAAAAATGTTTCTTTAGATAGAGGCTCAACAAC-TTAAAAAATA-TT
1 TCATCTTGAAAAATGCTCCTTTAGGTAGAGGCTCAACAACTTTAAAAAAAATTT
* * * * *
8778617 T-AT-ATGAAAAAAAGCTTCTTTAGGTAGTGGCTCAACAACTTT--AAAAAATTC
1 TCATCTTG-AAAAATGCTCCTTTAGGTAGAGGCTCAACAACTTTAAAAAAAATTT
* * * * **
8778668 TCATCTAGGAAAATG-TCCTTTTAGGTAGAAGCTTAATGACTTTAAAA
1 TCATCTTGAAAAATGCTCC-TTTAGGTAGAGGCTCAACAACTTTAAAA
8778715 TTCTCATCTT
Statistics
Matches: 206, Mismatches: 36, Indels: 28
0.76 0.13 0.10
Matches are distributed among these distances:
50 7 0.03
51 72 0.35
52 36 0.17
53 12 0.06
54 42 0.20
56 37 0.18
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.31
Consensus pattern (54 bp):
TCATCTTGAAAAATGCTCCTTTAGGTAGAGGCTCAACAACTTTAAAAAAAATTT
Found at i:8778612 original size:105 final size:106
Alignment explanation
Indices: 8778406--8778664 Score: 292
Period size: 105 Copynumber: 2.4 Consensus size: 106
8778396 AGATAATCTC
* * *
8778406 ATCTTGAAAAATACTCCTTTAGGTAAAGGCTCAACAACTTAAAAGAAAAGAATCTCATCTTAAAA
1 ATCTTGAAAAAGATTCCTTTAGGTAAAGGCTCAACAACTTTAAA-AAAAGAATCTCATCTTAAAA
* * *
8778471 AATGCTCCTCTAGGTAGAGGCTCAATAACTTTAAAAAT-TCTT
65 AATGCTCCTCTAGATAGAGGCTCAACAACTTAAAAAATAT-TT
* * * * *
8778513 ATCTTGAAAAAGGTTCCTCTAGGTAAAGGCTCAACAACTTTAAAAAAA-ATTTTCATCTTGAAAA
1 ATCTTGAAAAAGATTCCTTTAGGTAAAGGCTCAACAACTTTAAAAAAAGAATCTCATCTTAAAAA
* * *
8778577 ATGTTTCTTTAGATAGAGGCTCAACAACTTAAAAAATATTT
66 ATGCTCCTCTAGATAGAGGCTCAACAACTTAAAAAATATTT
* * **
8778618 AT-ATGAAAAAAAGCTT-CTTTAGGTAGTGGCTCAACAACTTTAAAAAA
1 ATCTTG--AAAAAGATTCCTTTAGGTAAAGGCTCAACAACTTTAAAAAA
8778665 TTCTCATCTA
Statistics
Matches: 130, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
104 2 0.02
105 76 0.58
106 13 0.10
107 39 0.30
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.30
Consensus pattern (106 bp):
ATCTTGAAAAAGATTCCTTTAGGTAAAGGCTCAACAACTTTAAAAAAAGAATCTCATCTTAAAAA
ATGCTCCTCTAGATAGAGGCTCAACAACTTAAAAAATATTT
Found at i:8782848 original size:17 final size:17
Alignment explanation
Indices: 8782830--8782863 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
8782820 TTTATTATTA
8782830 TTATAAATAAATAAATAT
1 TTATAAATAAA-AAATAT
*
8782848 TTTTAAATAAAAAATA
1 TTATAAATAAAAAATA
8782864 AATAAGTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TTATAAATAAAAAATAT
Found at i:8782880 original size:21 final size:21
Alignment explanation
Indices: 8782838--8782882 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
8782828 TATTATAAAT
** * *
8782838 AAATAAATATTTTTAAATAAA
1 AAATAAATAAGTTAAAAAAAA
8782859 AAATAAATAAGTTAAAAAAAA
1 AAATAAATAAGTTAAAAAAAA
8782880 AAA
1 AAA
8782883 GGTTGGAAGG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (21 bp):
AAATAAATAAGTTAAAAAAAA
Found at i:8788550 original size:49 final size:50
Alignment explanation
Indices: 8788476--8788596 Score: 138
Period size: 50 Copynumber: 2.4 Consensus size: 50
8788466 AAACTATATA
* *
8788476 AAATAATTTTTAAATATTTAATAGC-AAAA-ATTATTTGATATAAAAATAGTTT
1 AAATAATTTTT--A-ATTTAATAGCAAAAATATTATTTAATAT-AAAATAATTT
* * *
8788528 TAGTAATTTTTAATTTATTAGCAAAAATATTATTTAATATAAAATAATTT
1 AAATAATTTTTAATTTAATAGCAAAAATATTATTTAATATAAAATAATTT
*
8788578 AAATAATTTTTAATATAAT
1 AAATAATTTTTAATTTAAT
8788597 TTTACAAATA
Statistics
Matches: 58, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
49 9 0.16
50 29 0.50
51 11 0.19
52 9 0.16
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (50 bp):
AAATAATTTTTAATTTAATAGCAAAAATATTATTTAATATAAAATAATTT
Found at i:8790457 original size:56 final size:56
Alignment explanation
Indices: 8790319--8790456 Score: 156
Period size: 55 Copynumber: 2.4 Consensus size: 56
8790309 TAAACCATCT
* *
8790319 ATATATCTCTTTTCAAATTTAAAAATATATATAATTTAGATATATCTCTACAATCTAG
1 ATATATCTATTTT-AAATTTAAAAA-ATATATAATTTAAATATATCTCTACAATCTAG
* * * *
8790377 ATATAT-GATTTCT--TTTTAAAAAAATATATAATTTAAATATATCTTTAATAATCTAG
1 ATATATCTATTT-TAAATTT-AAAAAATATATAATTTAAATATATCTCT-ACAATCTAG
8790433 ATATATCTATTTTAAATTTAAAAA
1 ATATATCTATTTTAAATTTAAAAA
8790457 TTTTAAATAT
Statistics
Matches: 66, Mismatches: 8, Indels: 13
0.76 0.09 0.15
Matches are distributed among these distances:
55 24 0.36
56 20 0.30
57 12 0.18
58 10 0.15
ACGTcount: A:0.44, C:0.08, G:0.03, T:0.45
Consensus pattern (56 bp):
ATATATCTATTTTAAATTTAAAAAATATATAATTTAAATATATCTCTACAATCTAG
Found at i:8793312 original size:24 final size:24
Alignment explanation
Indices: 8793266--8793314 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
8793256 GGTAGTTTCC
* *
8793266 AAGAAAATAGAGGAAATTGAAAAA
1 AAGAAAAAAGAGGAAATTCAAAAA
* *
8793290 AAGAAAAAAGATGAAGTTCAAAAA
1 AAGAAAAAAGAGGAAATTCAAAAA
8793314 A
1 A
8793315 TATAATTAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.67, C:0.02, G:0.18, T:0.12
Consensus pattern (24 bp):
AAGAAAAAAGAGGAAATTCAAAAA
Found at i:8797587 original size:16 final size:16
Alignment explanation
Indices: 8797558--8797592 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
8797548 CCATGTCAAG
* *
8797558 TTTTTGTTTGTTTTTT
1 TTTTTCTTTCTTTTTT
8797574 TTTTTCTTTCTTTTTT
1 TTTTTCTTTCTTTTTT
8797590 TTT
1 TTT
8797593 GTACTCAGGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.00, C:0.06, G:0.06, T:0.89
Consensus pattern (16 bp):
TTTTTCTTTCTTTTTT
Found at i:8808978 original size:18 final size:18
Alignment explanation
Indices: 8808957--8808992 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
8808947 AATTAATTTT
8808957 TTAAAATTATTATTATTA
1 TTAAAATTATTATTATTA
8808975 TTAAAATTATTATTATTA
1 TTAAAATTATTATTATTA
8808993 AATTGAAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTAAAATTATTATTATTA
Found at i:8808985 original size:15 final size:15
Alignment explanation
Indices: 8808965--8808994 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
8808955 TTTTAAAATT
8808965 ATTATTATTATTAAA
1 ATTATTATTATTAAA
8808980 ATTATTATTATTAAA
1 ATTATTATTATTAAA
8808995 TTGAAATGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
ATTATTATTATTAAA
Found at i:8811561 original size:24 final size:21
Alignment explanation
Indices: 8811516--8811555 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
8811506 ATTCCTAGCC
*
8811516 AATATATTAATAATTGACACT
1 AATAGATTAATAATTGACACT
8811537 AATAGATTAATAATTGACA
1 AATAGATTAATAATTGACA
8811556 TCACTATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.35
Consensus pattern (21 bp):
AATAGATTAATAATTGACACT
Found at i:8819209 original size:17 final size:18
Alignment explanation
Indices: 8819189--8819226 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
8819179 ATAAATAATT
*
8819189 AAATTTGTAATATAAA-A
1 AAATTAGTAATATAAATA
*
8819206 AAATTAGTATTATAAATA
1 AAATTAGTAATATAAATA
8819224 AAA
1 AAA
8819227 AATCCTACAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (18 bp):
AAATTAGTAATATAAATA
Found at i:8820413 original size:17 final size:19
Alignment explanation
Indices: 8820381--8820415 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
8820371 GTATTAATGT
8820381 AAAAATGTGAGAATAATTG
1 AAAAATGTGAGAATAATTG
8820400 AAAAAT-TG-GAATAATT
1 AAAAATGTGAGAATAATT
8820416 TAGTATCAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 2 0.12
19 6 0.38
ACGTcount: A:0.54, C:0.00, G:0.17, T:0.29
Consensus pattern (19 bp):
AAAAATGTGAGAATAATTG
Found at i:8821808 original size:11 final size:11
Alignment explanation
Indices: 8821734--8821809 Score: 59
Period size: 10 Copynumber: 6.6 Consensus size: 11
8821724 TAATTTAAGT
*
8821734 ATTTCTTTTTC
1 ATTTTTTTTTC
*
8821745 CTTTTTTTTTC
1 ATTTTTTTTTC
8821756 ATATTTTTCTCATTTC
1 --ATTTTT-T--TTTC
8821772 -TCTTTTTTTTC
1 AT-TTTTTTTTC
8821783 -TTTTTTTTTC
1 ATTTTTTTTTC
8821793 A-TTTTTTTTC
1 ATTTTTTTTTC
8821803 ATTTTTT
1 ATTTTTT
8821810 CATAGTTTTT
Statistics
Matches: 54, Mismatches: 3, Indels: 16
0.74 0.04 0.22
Matches are distributed among these distances:
10 19 0.35
11 19 0.35
13 7 0.13
14 5 0.09
16 4 0.07
ACGTcount: A:0.08, C:0.14, G:0.00, T:0.78
Consensus pattern (11 bp):
ATTTTTTTTTC
Found at i:8821818 original size:18 final size:18
Alignment explanation
Indices: 8821786--8821825 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
8821776 TTTTTTCTTT
**
8821786 TTTTTTCATTTTTTTTCA
1 TTTTTTCATAGTTTTTCA
*
8821804 TTTTTTCATAGTTTTTTA
1 TTTTTTCATAGTTTTTCA
8821822 TTTT
1 TTTT
8821826 CATTTCTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.12, C:0.07, G:0.03, T:0.78
Consensus pattern (18 bp):
TTTTTTCATAGTTTTTCA
Found at i:8826750 original size:56 final size:57
Alignment explanation
Indices: 8826639--8826774 Score: 197
Period size: 56 Copynumber: 2.4 Consensus size: 57
8826629 CTCAAAAGAT
*
8826639 TTTTTTGAAATATTTTTTATTTTTAAGAAAAATTGATACTTCAACTTTTCCTTAGACA
1 TTTTTTGGAATATTTTTTA-TTTTAAGAAAAATTGATACTTCAACTTTTCCTTAGACA
* *
8826697 TTTTTTGGAATATTTTTTATTTT-AGGAAAATTGATACGTT-AATTTTTCCTTAGACA
1 TTTTTTGGAATATTTTTTATTTTAAGAAAAATTGATAC-TTCAACTTTTCCTTAGACA
8826753 -TTTTTGGAAATATTTTTTATTT
1 TTTTTTGG-AATATTTTTTATTT
8826775 ATTTTTCTTC
Statistics
Matches: 73, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
55 7 0.10
56 42 0.58
57 6 0.08
58 18 0.25
ACGTcount: A:0.29, C:0.07, G:0.10, T:0.54
Consensus pattern (57 bp):
TTTTTTGGAATATTTTTTATTTTAAGAAAAATTGATACTTCAACTTTTCCTTAGACA
Found at i:8826960 original size:21 final size:22
Alignment explanation
Indices: 8826936--8826995 Score: 56
Period size: 21 Copynumber: 2.8 Consensus size: 22
8826926 AAATTCACTG
8826936 AAAAAATACATAAATAA-ATA-A
1 AAAAAATACATAAATAAGA-AGA
8826957 AAAAAACTA-ATAAA-AAGAAGA
1 AAAAAA-TACATAAATAAGAAGA
*
8826978 AAAAAATACCAAAAATAA
1 AAAAAATA-CATAAATAA
8826996 TCGCAGCTCG
Statistics
Matches: 32, Mismatches: 1, Indels: 10
0.74 0.02 0.23
Matches are distributed among these distances:
20 5 0.16
21 19 0.59
22 6 0.19
23 2 0.06
ACGTcount: A:0.77, C:0.07, G:0.03, T:0.13
Consensus pattern (22 bp):
AAAAAATACATAAATAAGAAGA
Found at i:8828039 original size:12 final size:13
Alignment explanation
Indices: 8828022--8828050 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
8828012 AATAAGCAAG
8828022 ATAAAATAAA-TA
1 ATAAAATAAATTA
8828034 ATAAAATAAATTA
1 ATAAAATAAATTA
8828047 ATAA
1 ATAA
8828051 TATATAGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
ATAAAATAAATTA
Found at i:8828589 original size:18 final size:18
Alignment explanation
Indices: 8828552--8828612 Score: 68
Period size: 19 Copynumber: 3.2 Consensus size: 18
8828542 TGGTAATGTA
*
8828552 AAAAAATTATTATTACAAAT
1 AAAAAATAATT-TTA-AAAT
8828572 AAAAAATAATTTTAAAAT
1 AAAAAATAATTTTAAAAT
* *
8828590 AAAAAATAAGATTTAACAT
1 AAAAAATAA-TTTTAAAAT
8828609 AAAA
1 AAAA
8828613 CGGTGAGAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
18 13 0.35
19 14 0.38
20 10 0.27
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.30
Consensus pattern (18 bp):
AAAAAATAATTTTAAAAT
Found at i:8828604 original size:19 final size:18
Alignment explanation
Indices: 8828568--8828612 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
8828558 TTATTATTAC
*
8828568 AAATAAAAAATAATTTTA
1 AAATAAAAAATAAATTTA
8828586 AAATAAAAAATAAGATTTA
1 AAATAAAAAATAA-ATTTA
*
8828605 ACATAAAA
1 AAATAAAA
8828613 CGGTGAGAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 13 0.54
19 11 0.46
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (18 bp):
AAATAAAAAATAAATTTA
Found at i:8828813 original size:216 final size:222
Alignment explanation
Indices: 8828457--8828883 Score: 510
Period size: 216 Copynumber: 1.9 Consensus size: 222
8828447 TAGAAGTGCC
* * * *
8828457 ATAAGAAAAAATTATAATAATCGTAAATGTAATGAAAGGTAATAACAAGTATAAAAAGATATTAT
1 ATAAGAAAAAATTATAATAATCGTAAATGTAATGAAAAGTAACAACAAGCATAAAAAGAGATTAT
* * **
8828522 TATAACGTAAATAATTAAGTTGGTAATGTAAAAAAATTATTATTACAAATAAAAAATAATTTTAA
66 TAAAACGTAAATAA-TAACTTGGTAATGTAAAAAAATTAGCATTACAAATAAAAAATAATTTTAA
* * *
8828587 AATAAAAAATAAG-ATTTAACATAAAACGGTGAGAATAATCATAAAATTAATATTATTTTACATA
130 AATAAAAAATAAGTA-TTAACATAAAAAGGTGAGAATAATCATAAAATTAATATAATTTAACATA
*
8828651 AAATG-GTTAAAAGTATTGTTACACCTTA
194 AAATGTATTAAAAGTATTGTTACACCTTA
** * *
8828679 ATAA-AAAAAATTATAATAATTTTAAATGTAATGAAAAGTAACAATAAGCATAAAAAGAGATTGT
1 ATAAGAAAAAATTATAATAATCGTAAATGTAATGAAAAGTAACAACAAGCATAAAAAGAGATTAT
* * * *
8828743 TAAAATGT-AAT-A-AACTT-GTAATGTAGAAAAATTAGCATTATAAATAAACAATAATTTTAAT
66 TAAAACGTAAATAATAACTTGGTAATGTAAAAAAATTAGCATTACAAATAAAAAATAATTTTAA-
** ** * * * * *
8828804 CCT-AAAAATAAGTATTAATGTAAAAATGTGATAATAATCGTCAAATTGATATAATTTAACATAA
130 AATAAAAAATAAGTATTAACATAAAAAGGTGAGAATAATCATAAAATTAATATAATTTAACATAA
8828868 AATGTATTAAAAGTAT
195 AATGTATTAAAAGTAT
8828884 CGTAACATAA
Statistics
Matches: 173, Mismatches: 29, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
216 91 0.53
217 16 0.09
219 1 0.01
220 3 0.02
221 58 0.34
222 4 0.02
ACGTcount: A:0.53, C:0.05, G:0.10, T:0.32
Consensus pattern (222 bp):
ATAAGAAAAAATTATAATAATCGTAAATGTAATGAAAAGTAACAACAAGCATAAAAAGAGATTAT
TAAAACGTAAATAATAACTTGGTAATGTAAAAAAATTAGCATTACAAATAAAAAATAATTTTAAA
ATAAAAAATAAGTATTAACATAAAAAGGTGAGAATAATCATAAAATTAATATAATTTAACATAAA
ATGTATTAAAAGTATTGTTACACCTTA
Found at i:8830038 original size:28 final size:27
Alignment explanation
Indices: 8829998--8830058 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 27
8829988 CACGTTAGGG
*
8829998 ATTATAT-ATTTTTTATTTTTAAATATAA
1 ATTATATAATTTTTTA-TTTT-AATAAAA
*
8830026 ATTATTTAATTTTTTATTTTAATAAAA
1 ATTATATAATTTTTTATTTTAATAAAA
8830053 ATTATA
1 ATTATA
8830059 ATTATCTATC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
27 11 0.38
28 10 0.34
29 8 0.28
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (27 bp):
ATTATATAATTTTTTATTTTAATAAAA
Found at i:8830510 original size:61 final size:60
Alignment explanation
Indices: 8830360--8830510 Score: 164
Period size: 61 Copynumber: 2.5 Consensus size: 60
8830350 AAAGGGGTAG
* * * * *
8830360 TATAGTAATTTTGACCAAATATGATATGAGGGCTATTTTGTAATTATAGTAAAATAGCAT
1 TATAATAATTTTGACTAATTATGATAAGAGGGCTATTTAGTAATTATAGTAAAATAGCAT
* * *
8830420 TATAACAATTTTG-GTCAATTAT-AGTAAGAGGAGC-ATTTAAGTAATTATTGTAAAATAGCAT
1 TATAATAATTTTGACT-AATTATGA-TAAGAGG-GCTATTT-AGTAATTATAGTAAAATAGCAT
*
8830481 TATAATAATTTTGACTAATTATGAAAAGAG
1 TATAATAATTTTGACTAATTATGATAAGAG
8830511 ATATATTTTC
Statistics
Matches: 74, Mismatches: 11, Indels: 11
0.77 0.11 0.11
Matches are distributed among these distances:
59 1 0.01
60 26 0.35
61 45 0.61
62 2 0.03
ACGTcount: A:0.41, C:0.06, G:0.16, T:0.37
Consensus pattern (60 bp):
TATAATAATTTTGACTAATTATGATAAGAGGGCTATTTAGTAATTATAGTAAAATAGCAT
Found at i:8830525 original size:61 final size:60
Alignment explanation
Indices: 8830393--8830546 Score: 145
Period size: 61 Copynumber: 2.5 Consensus size: 60
8830383 ATATGAGGGC
* * *
8830393 TATTTTGTAATTATAGTAAAATAGCATTATAACAATTTTGGTCAATTATAGTAAGAGGAG
1 TATTTTGTAATTATAGTAAAATAGCATTATAACAATTTTGCTCAATTATAGAAAGAGGAA
* * * *
8830453 CATTTAAGTAATTATTGTAAAATAGCATTATAATAATTTTGACT-AATTAT-GAAA-AGAGATA
1 TATTT-TGTAATTATAGTAAAATAGCATTATAACAATTTTG-CTCAATTATAGAAAGAG-GA-A
* *
8830514 TATTTTCGTAATTATGGTAGAAAT-GTATTATAA
1 TATTTT-GTAATTATAGTA-AAATAGCATTATAA
8830547 AAAATTTAGA
Statistics
Matches: 77, Mismatches: 11, Indels: 11
0.78 0.11 0.11
Matches are distributed among these distances:
59 2 0.03
60 9 0.12
61 61 0.79
62 5 0.06
ACGTcount: A:0.42, C:0.05, G:0.14, T:0.40
Consensus pattern (60 bp):
TATTTTGTAATTATAGTAAAATAGCATTATAACAATTTTGCTCAATTATAGAAAGAGGAA
Found at i:8830876 original size:130 final size:127
Alignment explanation
Indices: 8830632--8830932 Score: 395
Period size: 130 Copynumber: 2.3 Consensus size: 127
8830622 ATTTATGTTA
* * * * **
8830632 TTAACATTTAATAAGTAATTTAATAGGGATATTATAGTAAATTTCAAATAAAATTTCAAAATCAA
1 TTAAAATTTAATATGTAATTTAATAGAGATATTATAGTAATTTTCAAATAAAACGTCAAAATCAA
* * * * *
8830697 ATTTTTATGAAGCAATGGTAAGGTATTTTAGTAATTTAATATGTAGTTAATTTTATATTATG
66 AGTTTTATAAACCAATGGTAAAGTATTTTAATAATTTAATATGTAGTTAATTTTATATTATG
* * **
8830759 TTAAAATTTCATATGTAATTTAATAGAGATATTATAGTAATTTTTAAATAAAACGTCACATGTCA
1 TTAAAATTTAATATGTAATTTAATAGAGATATTATAGTAATTTTCAAATAAAACGTCA-AAATCA
* * *
8830824 AAGTTTTATAAAACCAATTGTAATAGTATTTTAATAATTTAATATGTGGTTAATTTTATATTTTG
65 AAGTTTTAT-AAACCAATGGTAA-AGTATTTTAATAATTTAATATGTAGTTAATTTTATATTATG
* *
8830889 TTAAATTTTAATATATAATTTAATAGAGATATTATAGTAATTTT
1 TTAAAATTTAATATGTAATTTAATAGAGATATTATAGTAATTTT
8830933 GAAGCAAAAT
Statistics
Matches: 150, Mismatches: 21, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
127 50 0.33
128 12 0.08
129 10 0.07
130 78 0.52
ACGTcount: A:0.41, C:0.04, G:0.10, T:0.45
Consensus pattern (127 bp):
TTAAAATTTAATATGTAATTTAATAGAGATATTATAGTAATTTTCAAATAAAACGTCAAAATCAA
AGTTTTATAAACCAATGGTAAAGTATTTTAATAATTTAATATGTAGTTAATTTTATATTATG
Found at i:8835432 original size:20 final size:21
Alignment explanation
Indices: 8835403--8835441 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
8835393 CTGACACAAG
8835403 TAAATGAATTTTT-CTAAGGT
1 TAAATGAATTTTTCCTAAGGT
*
8835423 TAAATTAATTTTTCCTAAG
1 TAAATGAATTTTTCCTAAG
8835442 TTTTTCCTTA
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:0.08, G:0.10, T:0.46
Consensus pattern (21 bp):
TAAATGAATTTTTCCTAAGGT
Found at i:8837206 original size:26 final size:26
Alignment explanation
Indices: 8837171--8837232 Score: 106
Period size: 26 Copynumber: 2.3 Consensus size: 26
8837161 GATAGTAATT
*
8837171 TCAAATACTATTACTTCTGGTATTTG
1 TCAAACACTATTACTTCTGGTATTTG
8837197 TCAAACACTATTACTTCTGGTATTTG
1 TCAAACACTATTACTTCTGGTATTTG
8837223 TCAACACACT
1 TCAA-ACACT
8837233 GGAAGGAACT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 29 0.85
27 5 0.15
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.40
Consensus pattern (26 bp):
TCAAACACTATTACTTCTGGTATTTG
Found at i:8846869 original size:15 final size:15
Alignment explanation
Indices: 8846846--8846879 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
8846836 AACGATCCAA
8846846 AAAAATGATAAAAAT
1 AAAAATGATAAAAAT
*
8846861 AAAAGTGATAAAAAT
1 AAAAATGATAAAAAT
8846876 AAAA
1 AAAA
8846880 TTTTGATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.09, T:0.18
Consensus pattern (15 bp):
AAAAATGATAAAAAT
Found at i:8848545 original size:35 final size:37
Alignment explanation
Indices: 8848506--8848607 Score: 145
Period size: 35 Copynumber: 2.8 Consensus size: 37
8848496 ATCTCATATA
8848506 CATCATTTTAAGAAAAGACATTTGCATCTCA-TG-AG
1 CATCATTTTAAGAAAAGACATTTGCATCTCATTGCAG
* *
8848541 CATCATTTTAAGAAAAGACATTTTGCATTTCATTTGCAT
1 CATCATTTTAAGAAAAGACA-TTTGCATCTCA-TTGCAG
*
8848580 CATCATTTTAAGAAAAGTCATTTGCATC
1 CATCATTTTAAGAAAAGACATTTGCATC
8848608 GTAATGGTGT
Statistics
Matches: 59, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
35 20 0.34
36 10 0.17
38 9 0.15
39 20 0.34
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.36
Consensus pattern (37 bp):
CATCATTTTAAGAAAAGACATTTGCATCTCATTGCAG
Found at i:8850009 original size:14 final size:14
Alignment explanation
Indices: 8849986--8850041 Score: 67
Period size: 14 Copynumber: 3.9 Consensus size: 14
8849976 ATATGGAAGG
*
8849986 TTTAGGGTTTTGAT
1 TTTAGGGTTTAGAT
*
8850000 TTTAGAGTTTGGAGAT
1 TTTAGGGTTT--AGAT
8850016 TTTAGGGTTTAGAT
1 TTTAGGGTTTAGAT
*
8850030 TTTAAGGTTTAG
1 TTTAGGGTTTAG
8850042 GGTTTTGATT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
14 24 0.67
16 12 0.33
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.50
Consensus pattern (14 bp):
TTTAGGGTTTAGAT
Found at i:8850041 original size:51 final size:50
Alignment explanation
Indices: 8849982--8850090 Score: 148
Period size: 51 Copynumber: 2.1 Consensus size: 50
8849972 TAGGATATGG
*
8849982 AAGGTTTAGGGTTTTGATTTTAGAGTTTGGAGATTTTAGGG-TTTAGATTTT
1 AAGGTTTAGGGTTTTGATTTAAGAGTTT--AGATTTTAGGGATTTAGATTTT
* *
8850033 AAGGTTTAGGGTTTTGATTTAAGGGTTTAGATTTTAGGGATTTTGGATTTT
1 AAGGTTTAGGGTTTTGATTTAAGAGTTTAGATTTTAGGGA-TTTAGATTTT
*
8850084 GAGGTTT
1 AAGGTTT
8850091 GGATTTAAGA
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
49 11 0.21
51 41 0.79
ACGTcount: A:0.21, C:0.00, G:0.30, T:0.49
Consensus pattern (50 bp):
AAGGTTTAGGGTTTTGATTTAAGAGTTTAGATTTTAGGGATTTAGATTTT
Found at i:8850042 original size:21 final size:21
Alignment explanation
Indices: 8850016--8850062 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
8850006 GTTTGGAGAT
8850016 TTTAGGGTTTAGATTTTAA-GG
1 TTTAGGGTTTAGA-TTTAAGGG
*
8850037 TTTAGGGTTTTGATTTAAGGG
1 TTTAGGGTTTAGATTTAAGGG
8850058 TTTAG
1 TTTAG
8850063 ATTTTAGGGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 5 0.21
21 19 0.79
ACGTcount: A:0.21, C:0.00, G:0.30, T:0.49
Consensus pattern (21 bp):
TTTAGGGTTTAGATTTAAGGG
Found at i:8850057 original size:14 final size:14
Alignment explanation
Indices: 8850040--8850104 Score: 51
Period size: 14 Copynumber: 4.5 Consensus size: 14
8850030 TTTAAGGTTT
8850040 AGGGTTTTGATTTA
1 AGGGTTTTGATTTA
* *
8850054 AGGGTTTAGATTTT
1 AGGGTTTTGATTTA
8850068 AGGGATTTTGGATTT-
1 AGGG-TTTT-GATTTA
* *
8850083 TGAGGTTTGGATTTA
1 AG-GGTTTTGATTTA
*
8850098 AGAGTTT
1 AGGGTTT
8850105 AAAGGTTTGG
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
14 25 0.62
15 8 0.20
16 7 0.17
ACGTcount: A:0.22, C:0.00, G:0.31, T:0.48
Consensus pattern (14 bp):
AGGGTTTTGATTTA
Found at i:8850090 original size:44 final size:44
Alignment explanation
Indices: 8850042--8850128 Score: 113
Period size: 44 Copynumber: 2.0 Consensus size: 44
8850032 TAAGGTTTAG
* * * * *
8850042 GGTTTTGATTTAAGGGTTTAGA-TTTTAGGGATTTTGGATTTTGA
1 GGTTTGGATTTAAGAGTTTAAAGGTTT-GGGATTTCGGATTTTGA
8850086 GGTTTGGATTTAAGAGTTTAAAGGTTTGGGATTTCGGATTTTG
1 GGTTTGGATTTAAGAGTTTAAAGGTTTGGGATTTCGGATTTTG
8850129 GGGGGTTTCG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
44 34 0.92
45 3 0.08
ACGTcount: A:0.21, C:0.01, G:0.31, T:0.47
Consensus pattern (44 bp):
GGTTTGGATTTAAGAGTTTAAAGGTTTGGGATTTCGGATTTTGA
Found at i:8850194 original size:16 final size:17
Alignment explanation
Indices: 8850153--8850195 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
8850143 TTAAGATTTT
*
8850153 AGATTTTGGATTTTAGG
1 AGATTTTAGATTTTAGG
8850170 AGATTTTAGATTTTAGG
1 AGATTTTAGATTTTAGG
*
8850187 -GGTTTTAGA
1 AGATTTTAGA
8850196 ATCCTAGGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 8 0.33
17 16 0.67
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.47
Consensus pattern (17 bp):
AGATTTTAGATTTTAGG
Found at i:8851680 original size:6 final size:7
Alignment explanation
Indices: 8851664--8851691 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
8851654 ACCACCCTAC
8851664 TTTTTAT
1 TTTTTAT
8851671 TTTTTAT
1 TTTTTAT
8851678 TTTTTAT
1 TTTTTAT
8851685 TTTTTAT
1 TTTTTAT
8851692 ATAATTAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTTTAT
Found at i:8851747 original size:15 final size:15
Alignment explanation
Indices: 8851707--8851754 Score: 62
Period size: 15 Copynumber: 3.2 Consensus size: 15
8851697 TAATAATTTT
8851707 TTAAAATTATTATTA
1 TTAAAATTATTATTA
*
8851722 ATAATAA-TATTATTA
1 TTAA-AATTATTATTA
*
8851737 TTAAAATTATTAATA
1 TTAAAATTATTATTA
8851752 TTA
1 TTA
8851755 TATTGAAATG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
14 2 0.07
15 24 0.86
16 2 0.07
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TTAAAATTATTATTA
Found at i:8852415 original size:99 final size:99
Alignment explanation
Indices: 8852243--8852895 Score: 633
Period size: 99 Copynumber: 6.6 Consensus size: 99
8852233 TTAAAAAATA
* * * * *
8852243 ATTTGCATTTT-TCGATAGTGA-ATTCAAGTTTCATTTGGTGGTGATATCCGAAA-TCATTTACA
1 ATTTGCATTTTCTCGATGGTGATATTCGAGTTTCCTTCGGTGGTGATATCC-AAAGTCATTTGCA
** * *
8852305 TATTCTCGGTGGTGATATCTAAGTTTTAAAAGTTG
65 TATTCTCGGTGGTGATATCCGAGTATTAAAAGTTC
* * ** *
8852340 ATTTGCATTTTCTCGATAGTGATGTTCGAGTTTCCTTCGGTGGTGATATCCAAAGTTGTTTGTAT
1 ATTTGCATTTTCTCGATGGTGATATTCGAGTTTCCTTCGGTGGTGATATCCAAAGTCATTTGCAT
* **
8852405 ATTCTCGGTGGTGATATCCGAGCATTAAAAAATC
66 ATTCTCGGTGGTGATATCCGAGTATTAAAAGTTC
* * *** * *
8852439 ATTTGCATTTTTTCGATGGAGATATTCGAGTTTCCTTTAATGGTGATATCCGAAGTCGTTTGCAT
1 ATTTGCATTTTCTCGATGGTGATATTCGAGTTTCCTTCGGTGGTGATATCCAAAGTCATTTGCAT
* * * *
8852504 ATTTTCAGTAGTGATATCCGAGTGTT-AAAGCTTC
66 ATTCTCGGTGGTGATATCCGAGTATTAAAAG-TTC
* * * * * *
8852538 AATTACATTTTCTCAATGGTGATATTCAAGTTTTCTTCGGTGATGATAAT--AGAAGTCATTTGC
1 ATTTGCATTTTCTCGATGGTGATATTCGAGTTTCCTTCGGTGGTGAT-ATCCA-AAGTCATTTGC
* *
8852601 ATATTCTCGATGGTGATATCCGAGTGTT-AAAGCTTC
64 ATATTCTCGGTGGTGATATCCGAGTATTAAAAG-TTC
* * * * *
8852637 AATTACATTTTCTCAATGGTGATATTCGAGTTTTCTTCGGTGATGATAAT--AGAAGTCATTTGC
1 ATTTGCATTTTCTCGATGGTGATATTCGAGTTTCCTTCGGTGGTGAT-ATCCA-AAGTCATTTGC
* * **
8852700 ATATTCTCGATGGTGATATCCGAGCATTAAAAAATC
64 ATATTCTCGGTGGTGATATCCGAGTATTAAAAGTTC
* * * *
8852736 ATTTGCATTTTCTCGATGGTGATATTCGAGTTTTCTTCGTTGGTGATGTCCGAAGTCATTTGCAT
1 ATTTGCATTTTCTCGATGGTGATATTCGAGTTTCCTTCGGTGGTGATATCCAAAGTCATTTGCAT
** * * *
8852801 ATTCTTAGTGGTAATATCCGAGT-TTCAAATGTTG
66 ATTCTCGGTGGTGATATCCGAGTATT-AAAAGTTC
* * * * *
8852835 ATTTGTATTTTCTAGATGGTGATATTCGAGTTTCCTTCGATGGTGATATTCAAAGTTATTT
1 ATTTGCATTTTCTCGATGGTGATATTCGAGTTTCCTTCGGTGGTGATATCCAAAGTCATTT
8852896 TTTGATAGTC
Statistics
Matches: 468, Mismatches: 78, Indels: 18
0.83 0.14 0.03
Matches are distributed among these distances:
97 11 0.02
98 19 0.04
99 433 0.93
100 5 0.01
ACGTcount: A:0.25, C:0.13, G:0.20, T:0.41
Consensus pattern (99 bp):
ATTTGCATTTTCTCGATGGTGATATTCGAGTTTCCTTCGGTGGTGATATCCAAAGTCATTTGCAT
ATTCTCGGTGGTGATATCCGAGTATTAAAAGTTC
Found at i:8852847 original size:297 final size:296
Alignment explanation
Indices: 8852296--8852882 Score: 745
Period size: 297 Copynumber: 2.0 Consensus size: 296
8852286 ATATCCGAAA
* * * * * * *
8852296 TCATTTACATATTCTCGGTGGTGATATCTAAGTTTTAAAAGTTGATTTGCATTTTCTCGATAGTG
1 TCATTTACATATTCTCGATGGTGATATCCAAGTGTTAAAAGTTCAATTACATTTTCTCAATAGTG
* * ** * *
8852361 ATGTTCGAGTTTCCTTCGGTGGTGATATCCAAAGTTGTTTGTATATTCTCGGTGGTGATATCCGA
66 ATATTCGAGTTTCCTTCGGTGATGATAT-CAAAGTCATTTGCATATTCTCGATGGTGATATCCGA
* *
8852426 GCATTAAAAAATCATTTGCATTTTTTCGATGGAGATATTCGAGTTTCCTTTAATGGTGATATCCG
130 GCATTAAAAAATCATTTGCATTTTCTCGATGGAGATATTCGAGTTTCCTTCAATGGTGATATCCG
* *
8852491 AAGTCGTTTGCATATTTTCAGTAGTGATATCCGAGTGTTAAAGCTTCAATTACATTTTCTCA-AT
195 AAGTCATTTGCATATTTTCAGTAGTAATATCCGAGTGTTAAAGCTTCAATTACATTTTCT-AGAT
* *
8852555 GGTGATATTCAAGTTTTCTTCGGTGATGATAATAGAAG
259 GGTGATATTCAAGTTTCCTTCGATGATGATAATAGAAG
* * *
8852593 TCATTTGCATATTCTCGATGGTGATATCCGAGTGTT-AAAGCTTCAATTACATTTTCTCAATGGT
1 TCATTTACATATTCTCGATGGTGATATCCAAGTGTTAAAAG-TTCAATTACATTTTCTCAATAGT
*
8852657 GATATTCGAGTTTTCTTCGGTGATGATAAT-AGAAGTCATTTGCATATTCTCGATGGTGATATCC
65 GATATTCGAGTTTCCTTCGGTGATGAT-ATCA-AAGTCATTTGCATATTCTCGATGGTGATATCC
* * ** *
8852721 GAGCATTAAAAAATCATTTGCATTTTCTCGATGGTGATATTCGAGTTTTCTTCGTTGGTGATGTC
128 GAGCATTAAAAAATCATTTGCATTTTCTCGATGGAGATATTCGAGTTTCCTTCAATGGTGATATC
* * * **
8852786 CGAAGTCATTTGCATATTCTT-AGTGGTAATATCCGAGT-TTCAAATG-TTGATTTGTATTTTCT
193 CGAAGTCATTTGCATATT-TTCAGTAGTAATATCCGAGTGTT-AAA-GCTTCAATTACATTTTCT
* *
8852848 AGATGGTGATATTCGAGTTTCCTTCGATGGTGATA
255 AGATGGTGATATTCAAGTTTCCTTCGATGATGATA
8852883 TTCAAAGTTA
Statistics
Matches: 248, Mismatches: 35, Indels: 14
0.84 0.12 0.05
Matches are distributed among these distances:
296 8 0.03
297 235 0.95
298 5 0.02
ACGTcount: A:0.25, C:0.14, G:0.21, T:0.41
Consensus pattern (296 bp):
TCATTTACATATTCTCGATGGTGATATCCAAGTGTTAAAAGTTCAATTACATTTTCTCAATAGTG
ATATTCGAGTTTCCTTCGGTGATGATATCAAAGTCATTTGCATATTCTCGATGGTGATATCCGAG
CATTAAAAAATCATTTGCATTTTCTCGATGGAGATATTCGAGTTTCCTTCAATGGTGATATCCGA
AGTCATTTGCATATTTTCAGTAGTAATATCCGAGTGTTAAAGCTTCAATTACATTTTCTAGATGG
TGATATTCAAGTTTCCTTCGATGATGATAATAGAAG
Found at i:8852907 original size:20 final size:20
Alignment explanation
Indices: 8852878--8852917 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
8852868 CCTTCGATGG
*
8852878 TGATATTCAAAGTTATTTTT
1 TGATAGTCAAAGTTATTTTT
*
8852898 TGATAGTCAAATTTATTTTT
1 TGATAGTCAAAGTTATTTTT
8852918 ATTGAACCTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.30, C:0.05, G:0.10, T:0.55
Consensus pattern (20 bp):
TGATAGTCAAAGTTATTTTT
Found at i:8852991 original size:50 final size:49
Alignment explanation
Indices: 8852937--8853098 Score: 150
Period size: 50 Copynumber: 3.2 Consensus size: 49
8852927 CTACCTATAT
8852937 GAGCCTTTTTTAATATAAAATTTTAAAAGTTATTGAGCCTCTGTTGAGAG
1 GAGCCTTTTTTAATATAAAATTTT-AAAGTTATTGAGCCTCTGTTGAGAG
* ** *
8852987 GAGCCTTTTTCAATATTAGCATTTTAAAGTTATTGAGCCTCTGCTT-AGAA
1 GAGCCTTTTTTAATA-TAAAATTTTAAAGTTATTGAGCCTCTG-TTGAGAG
* * * * *
8853037 GAG--TTTTTTCAAGATAAAAATTTCTTTAAAGTTGTTGAACCTCTATTGAAAG
1 GAGCCTTTTTT-AATAT-AAAA--T-TTTAAAGTTATTGAGCCTCTGTTGAGAG
8853089 GAGCCTTTTT
1 GAGCCTTTTT
8853099 CATATTTTAA
Statistics
Matches: 89, Mismatches: 13, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
48 6 0.07
49 5 0.06
50 38 0.43
51 12 0.13
52 23 0.26
54 5 0.06
ACGTcount: A:0.30, C:0.12, G:0.17, T:0.41
Consensus pattern (49 bp):
GAGCCTTTTTTAATATAAAATTTTAAAGTTATTGAGCCTCTGTTGAGAG
Found at i:8855059 original size:333 final size:335
Alignment explanation
Indices: 8854583--8855260 Score: 1279
Period size: 333 Copynumber: 2.0 Consensus size: 335
8854573 AAATTTTTAT
8854583 AATTTTGTTATTTTTTTAAATAAATTTTTTAAAAATTAAAAATAAACCTAATAATATTAAAAAAT
1 AATTTTGTTATTTTTTTAAATAAATTTTTTAAAAATTAAAAATAAACCTAATAATATTAAAAAAT
*
8854648 AATAAAAAAATTTTTATTCGACGATAAGACTCGTAGGTACTTTGAGTAGTGATACCTACGAAATC
66 AATAAAAAAATTTTTATCCGACGATAAGACTCGTAGGTACTTTGAGTAGTGATACCTACGAAATC
8854713 TTTAAGTAAGAAGATTTTTTTAATACTACCAGTATATTGGAGTATTTATAAAAAAGTTTTCAATA
131 TTTAAGTAAGAAGATTTTTTTAATACTACCAGTATATTGGAGTATTTATAAAAAAGTTTTCAATA
8854778 CAATAAAA-T-TTTTTTTTAAATCATAAAATAATAAAAAATTAACTAATAAATTAAAAATAAGTA
196 CAATAAAATTCTTTTTTTTAAATCATAAAATAATAAAAAATTAACTAATAAATTAAAAATAAGTA
8854841 ATAAGAAACCAGAAAAAAGAAAATTTTATCCAATGACGGGATTATAAAAATATTTCGAGTAGAGA
261 ATAAGAAACCAGAAAAAAGAAAATTTTATCCAATGACGGGATTATAAAAATATTTCGAGTAGAGA
8854906 TGCTTTAAGA
326 TGCTTTAAGA
8854916 AATTTTGTTATTTTTTTAAATAAATTTTTTAAAAATTAAAAATAAACCTAATAATATTAAAAAAT
1 AATTTTGTTATTTTTTTAAATAAATTTTTTAAAAATTAAAAATAAACCTAATAATATTAAAAAAT
8854981 AATAAAAAAATTTTTATCCGACGATAAGACTCGTAGGTACTTTGAGTAGTGATACCTACGAAATC
66 AATAAAAAAATTTTTATCCGACGATAAGACTCGTAGGTACTTTGAGTAGTGATACCTACGAAATC
*
8855046 TTTAAGTAAGAAGATTTTTTTAATACTACCAGTATATTTGAGTATTTATAAAAAAGTTTTCAATA
131 TTTAAGTAAGAAGATTTTTTTAATACTACCAGTATATTGGAGTATTTATAAAAAAGTTTTCAATA
8855111 CAATAAAATTTTTTTCTTTTTTTTAAATCATAAAATAATAAAAAATTAACTAATAAATTAAAAAT
196 CAATAAAA-----TTCTTTTTTTTAAATCATAAAATAATAAAAAATTAACTAATAAATTAAAAAT
8855176 AAGTAATAAGAAACCAGAAAAAAGAAAATTTTATCCAATGACGGGATTATAAAAATATTTCGAGT
256 AAGTAATAAGAAACCAGAAAAAAGAAAATTTTATCCAATGACGGGATTATAAAAATATTTCGAGT
8855241 AGAGATGCTTTAAGA
321 AGAGATGCTTTAAGA
8855256 AATTT
1 AATTT
8855261 CTAGGTGAGA
Statistics
Matches: 336, Mismatches: 2, Indels: 7
0.97 0.01 0.02
Matches are distributed among these distances:
333 201 0.60
339 1 0.00
340 134 0.40
ACGTcount: A:0.47, C:0.08, G:0.10, T:0.36
Consensus pattern (335 bp):
AATTTTGTTATTTTTTTAAATAAATTTTTTAAAAATTAAAAATAAACCTAATAATATTAAAAAAT
AATAAAAAAATTTTTATCCGACGATAAGACTCGTAGGTACTTTGAGTAGTGATACCTACGAAATC
TTTAAGTAAGAAGATTTTTTTAATACTACCAGTATATTGGAGTATTTATAAAAAAGTTTTCAATA
CAATAAAATTCTTTTTTTTAAATCATAAAATAATAAAAAATTAACTAATAAATTAAAAATAAGTA
ATAAGAAACCAGAAAAAAGAAAATTTTATCCAATGACGGGATTATAAAAATATTTCGAGTAGAGA
TGCTTTAAGA
Found at i:8856136 original size:25 final size:25
Alignment explanation
Indices: 8856084--8856151 Score: 66
Period size: 25 Copynumber: 2.7 Consensus size: 25
8856074 ATTTATTATC
*
8856084 AAAATAATTAATTAATAAAATGAGT
1 AAAATAATTAATTAATAAAATAAGT
* *
8856109 AAAATAA-TAATTTAATAGAATAATT
1 AAAATAATTAA-TTAATAAAATAAGT
* *
8856134 AAATATTATTTATTAATA
1 AAA-ATAATTAATTAATA
8856152 TTAAATACTA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
24 3 0.09
25 21 0.60
26 9 0.26
27 2 0.06
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.38
Consensus pattern (25 bp):
AAAATAATTAATTAATAAAATAAGT
Found at i:8856315 original size:30 final size:30
Alignment explanation
Indices: 8856250--8856361 Score: 86
Period size: 30 Copynumber: 3.7 Consensus size: 30
8856240 TTTTGTATAA
* * *
8856250 AATTTAATAATAGTCAATATTATTAACTATT
1 AATTTAATAATATTAAATATTAATAA-TATT
* *
8856281 -ATTTGATAATATTAAATTTTAATAATATT
1 AATTTAATAATATTAAATATTAATAATATT
** *
8856310 AATTTGTTCAAT-TTAAAAATGTTAA-AATATT
1 AATTTAAT-AATATT--AAATATTAATAATATT
*
8856341 AATTTAATGATATTAAATATT
1 AATTTAATAATATTAAATATT
8856362 TTCTTACTAT
Statistics
Matches: 65, Mismatches: 11, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
29 10 0.15
30 30 0.46
31 17 0.26
32 8 0.12
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (30 bp):
AATTTAATAATATTAAATATTAATAATATT
Found at i:8856388 original size:13 final size:13
Alignment explanation
Indices: 8856370--8856394 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8856360 TTTTCTTACT
8856370 ATTTTATTATTTA
1 ATTTTATTATTTA
8856383 ATTTTATTATTT
1 ATTTTATTATTT
8856395 CAAATTCTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
ATTTTATTATTTA
Found at i:8856536 original size:21 final size:22
Alignment explanation
Indices: 8856506--8856553 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
8856496 TAAAATAAAA
**
8856506 TATTAGTTTAAT-GCTATTTAT
1 TATTAGTTTAATAAATATTTAT
*
8856527 TATTATTTTAATAAATATTTAT
1 TATTAGTTTAATAAATATTTAT
8856549 TATTA
1 TATTA
8856554 CTAATAATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.58
Consensus pattern (22 bp):
TATTAGTTTAATAAATATTTAT
Found at i:8856832 original size:18 final size:17
Alignment explanation
Indices: 8856806--8856843 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
8856796 GTTAGTAATA
8856806 TTTAATATTTAATATTAT
1 TTTAATATTTAATA-TAT
*
8856824 TTTAGTATTTAATATAT
1 TTTAATATTTAATATAT
8856841 TTT
1 TTT
8856844 CTACAATTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (17 bp):
TTTAATATTTAATATAT
Found at i:8856902 original size:27 final size:26
Alignment explanation
Indices: 8856801--8856982 Score: 93
Period size: 27 Copynumber: 6.6 Consensus size: 26
8856791 ATTAAGTTAG
*
8856801 TAATATTTAATA-TTTAATATTATTT
1 TAATATTTAATATTTTAATAGTATTT
* ** **
8856826 TAGTATTTAATATATTTTCTACAATTT
1 TAATATTTAATAT-TTTAATAGTATTT
* *
8856853 GAATATTAAATATTATTTTAATAGTATTT
1 TAATATT---TAATATTTTAATAGTATTT
8856882 TAATATTTCAATATTTTAATAGTAATTGT
1 TAATATTT-AATATTTTAATAGT-ATT-T
*
8856911 AAAATATTTAATA-TTTAAT--TAATTT
1 -TAATATTTAATATTTTAATAGT-ATTT
* *
8856936 TATCATAGTTTATTATTATTTCAATATTATTT
1 TA--ATA-TTTA--A-TATTTTAATAGTATTT
*
8856968 AAATATTTAATATTT
1 TAATATTTAATATTT
8856983 ATTTAATATT
Statistics
Matches: 121, Mismatches: 18, Indels: 35
0.70 0.10 0.20
Matches are distributed among these distances:
24 1 0.01
25 12 0.10
26 14 0.12
27 32 0.26
28 9 0.07
29 25 0.21
30 17 0.14
31 5 0.04
32 5 0.04
33 1 0.01
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (26 bp):
TAATATTTAATATTTTAATAGTATTT
Found at i:8856965 original size:11 final size:10
Alignment explanation
Indices: 8856944--8857136 Score: 68
Period size: 11 Copynumber: 19.3 Consensus size: 10
8856934 TTTATCATAG
*
8856944 TTTATTATTA
1 TTTAATATTA
8856954 TTTCAATATTA
1 TTT-AATATTA
8856965 TTTAA-A-TA
1 TTTAATATTA
8856973 TTTAATATTTA
1 TTTAATA-TTA
8856984 TTTAATATTA
1 TTTAATATTA
8856994 TTT--TACTT-
1 TTTAATA-TTA
** *
8857002 TGAAATATGAA
1 TTTAATAT-TA
*
8857013 TTTAATAATA
1 TTTAATATTA
* *
8857023 TTTTATTTTAA
1 TTTAATATT-A
8857034 TATTAATA-TA
1 T-TTAATATTA
*
8857044 -ATAATATTTTA
1 TTTAATA--TTA
8857055 TTTAATTATTAA
1 TTTAA-TATT-A
8857067 TTTAATA--A
1 TTTAATATTA
*
8857075 TATAATA-T-
1 TTTAATATTA
8857083 TTTAATATTA
1 TTTAATATTA
*
8857093 TTTAAT-TAA
1 TTTAATATTA
* *
8857102 TTTAACGATAA
1 TTTAA-TATTA
**
8857113 TTTCAATAGAA
1 TTT-AATATTA
8857124 TTTAATATTA
1 TTTAATATTA
8857134 TTT
1 TTT
8857137 GATTAATTAT
Statistics
Matches: 137, Mismatches: 23, Indels: 46
0.67 0.11 0.22
Matches are distributed among these distances:
8 28 0.20
9 13 0.09
10 35 0.26
11 44 0.32
12 15 0.11
13 2 0.01
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (10 bp):
TTTAATATTA
Found at i:8856981 original size:18 final size:19
Alignment explanation
Indices: 8856913--8856992 Score: 71
Period size: 19 Copynumber: 4.3 Consensus size: 19
8856903 GTAATTGTAA
*
8856913 AATATTT-AATATTTAATT
1 AATATTTCAATATTTATTT
*
8856931 AATTTTATC-ATAGTTTA-TT
1 AATATT-TCAATA-TTTATTT
*
8856950 ATTATTTCAATA-TTATTT
1 AATATTTCAATATTTATTT
8856968 AAATATTT-AATATTTATTT
1 -AATATTTCAATATTTATTT
8856987 AATATT
1 AATATT
8856993 ATTTTACTTT
Statistics
Matches: 51, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
17 3 0.06
18 19 0.37
19 25 0.49
20 4 0.08
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.57
Consensus pattern (19 bp):
AATATTTCAATATTTATTT
Found at i:8857076 original size:35 final size:35
Alignment explanation
Indices: 8857030--8857106 Score: 99
Period size: 32 Copynumber: 2.3 Consensus size: 35
8857020 ATATTTTATT
8857030 TTAATATTAAT-ATAATAATATTTT-AT-TTAATT-A
1 TTAAT-TTAATAAT-ATAATATTTTAATATTAATTAA
*
8857063 TTAATTTAATAATATAATATTTTAATATTATTTAA
1 TTAATTTAATAATATAATATTTTAATATTAATTAA
8857098 TTAATTTAA
1 TTAATTTAA
8857107 CGATAATTTC
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
32 15 0.38
33 9 0.23
34 5 0.13
35 10 0.26
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (35 bp):
TTAATTTAATAATATAATATTTTAATATTAATTAA
Found at i:8857087 original size:54 final size:56
Alignment explanation
Indices: 8856969--8857092 Score: 164
Period size: 54 Copynumber: 2.3 Consensus size: 56
8856959 ATATTATTTA
* * *
8856969 AATA-TTTAATATTTATTTAATATTATTTTACTTTGAAATATGAATTTAATAATAT
1 AATATTTTAATATTAATATAATAATATTTTACTTTGAAATATGAATTTAATAATAT
** * *
8857024 TTTATTTTAATATTAATATAATAATATTTTA-TTT-AATTATTAATTTAATAATAT
1 AATATTTTAATATTAATATAATAATATTTTACTTTGAAATATGAATTTAATAATAT
8857078 AATATTTTAATATTA
1 AATATTTTAATATTA
8857093 TTTAATTAAT
Statistics
Matches: 59, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
54 31 0.53
55 5 0.08
56 23 0.39
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.55
Consensus pattern (56 bp):
AATATTTTAATATTAATATAATAATATTTTACTTTGAAATATGAATTTAATAATAT
Found at i:8857102 original size:27 final size:27
Alignment explanation
Indices: 8856973--8857098 Score: 148
Period size: 27 Copynumber: 4.6 Consensus size: 27
8856963 TATTTAAATA
* *
8856973 TTTAATATTTATTTAATATTATTTTACT
1 TTTAATATTAATTTAATAATATTTTA-T
* *
8857001 TTGAAATATGAATTTAATAATATTTTAT
1 TT-TAATATTAATTTAATAATATTTTAT
*
8857029 TTTAATATTAATATAATAATATTTTA-
1 TTTAATATTAATTTAATAATATTTTAT
**
8857055 TTTAATTATTAATTTAATAATATAATAT
1 TTTAA-TATTAATTTAATAATATTTTAT
8857083 TTTAATATT-ATTTAAT
1 TTTAATATTAATTTAAT
8857099 TAATTTAACG
Statistics
Matches: 85, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
26 12 0.14
27 43 0.51
28 10 0.12
29 20 0.24
ACGTcount: A:0.41, C:0.01, G:0.02, T:0.56
Consensus pattern (27 bp):
TTTAATATTAATTTAATAATATTTTAT
Found at i:8860016 original size:31 final size:32
Alignment explanation
Indices: 8859974--8860041 Score: 120
Period size: 31 Copynumber: 2.2 Consensus size: 32
8859964 ACAATGCAAC
8859974 ATAATAATGATAATTAAAACGAAAATAAAGTT
1 ATAATAATGATAATTAAAACGAAAATAAAGTT
*
8860006 ATAAT-ATGATAATTGAAACGAAAATAAAGTT
1 ATAATAATGATAATTAAAACGAAAATAAAGTT
8860037 ATAAT
1 ATAAT
8860042 GAAAGGAGTT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
31 30 0.86
32 5 0.14
ACGTcount: A:0.57, C:0.03, G:0.10, T:0.29
Consensus pattern (32 bp):
ATAATAATGATAATTAAAACGAAAATAAAGTT
Found at i:8863217 original size:15 final size:14
Alignment explanation
Indices: 8863192--8863222 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
8863182 ATGAATAACA
8863192 GTTTTTTTTTTTTT
1 GTTTTTTTTTTTTT
8863206 GTTTTTTGTTTTTTT
1 GTTTTTT-TTTTTTT
8863221 GT
1 GT
8863223 CATTCAAGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (14 bp):
GTTTTTTTTTTTTT
Found at i:8864381 original size:2 final size:2
Alignment explanation
Indices: 8864376--8864404 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
8864366 ACACACACAT
8864376 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8864405 CTTTTGAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8877512 original size:25 final size:27
Alignment explanation
Indices: 8877458--8877524 Score: 86
Period size: 29 Copynumber: 2.5 Consensus size: 27
8877448 ATTTAATATG
8877458 ATAAATTTTATTATATAATAAGCTCATAA
1 ATAAATTTTATTATATAATAA-C-CATAA
8877487 ATAAATTTTATTATATAATAA-C-TAA
1 ATAAATTTTATTATATAATAACCATAA
8877512 AT-AATTTGTATTA
1 ATAAATTT-TATTA
8877525 CTATTTTGAT
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
24 5 0.14
25 10 0.27
26 1 0.03
29 21 0.57
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (27 bp):
ATAAATTTTATTATATAATAACCATAA
Found at i:8880436 original size:19 final size:20
Alignment explanation
Indices: 8880409--8880448 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
8880399 ACCAAATTAT
8880409 AATTATAATATACTATAATA
1 AATTATAATATACTATAATA
**
8880429 AATT-TAATATTTTATAATA
1 AATTATAATATACTATAATA
8880448 A
1 A
8880449 TAAAATTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (20 bp):
AATTATAATATACTATAATA
Found at i:8880506 original size:19 final size:18
Alignment explanation
Indices: 8880475--8880515 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
8880465 ATCATCATAC
8880475 TAAA-TTAAATTAAAAATA
1 TAAATTTAAATTAAAAA-A
*
8880493 TAAATTTAAGTTAAAAAA
1 TAAATTTAAATTAAAAAA
8880511 TAAAT
1 TAAAT
8880516 ATAACAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (18 bp):
TAAATTTAAATTAAAAAA
Found at i:8880661 original size:17 final size:18
Alignment explanation
Indices: 8880630--8880663 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
8880620 TCTTCATTCT
8880630 TTTTTTAAAATATTTTTC
1 TTTTTTAAAATATTTTTC
8880648 TTTTTTAAAA-ATTTTT
1 TTTTTTAAAATATTTTT
8880664 TTGACTATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTTTTAAAATATTTTTC
Found at i:8880665 original size:19 final size:19
Alignment explanation
Indices: 8880626--8880664 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
8880616 ATCATCTTCA
*
8880626 TTCTTTTTTTAAAATATTT
1 TTCTTTTTTAAAAATATTT
8880645 TTCTTTTTTAAAAAT-TTT
1 TTCTTTTTTAAAAATATTT
8880663 TT
1 TT
8880665 TGACTATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (19 bp):
TTCTTTTTTAAAAATATTT
Found at i:8882516 original size:22 final size:22
Alignment explanation
Indices: 8882477--8882851 Score: 143
Period size: 22 Copynumber: 17.4 Consensus size: 22
8882467 AATTGACAAT
* * *
8882477 TAAGTCATTATTGATTTATTAC
1 TAAGTTATTAATGATTTACTAC
* * * *
8882499 TACGTTATTAATGGTTTATTAT
1 TAAGTTATTAATGATTTACTAC
* *
8882521 TAAATTATTAATGATTTACTAT
1 TAAGTTATTAATGATTTACTAC
*
8882543 TAAGTTATAAATGATTTACTAC
1 TAAGTTATTAATGATTTACTAC
* * *
8882565 TAAGTTATTGATAATTTAGTAC
1 TAAGTTATTAATGATTTACTAC
* * *
8882587 TAAGTTATTGATAATTTATTA-
1 TAAGTTATTAATGATTTACTAC
*
8882608 TAAGTTA-TAACTAATTTACTA-
1 TAAGTTATTAA-TGATTTACTAC
** * *
8882629 TGAAGTTATCGATAATTTACTCC
1 T-AAGTTATTAATGATTTACTAC
* * ** * *
8882652 AAAATTACCATTGATATA-TAAC
1 TAAGTTATTAATGATTTACT-AC
* * *
8882674 TAAGTTA-TAAGTGACTTATTAT
1 TAAGTTATTAA-TGATTTACTAC
* * * *
8882696 TACGTTATTAGTGATTTATTGC
1 TAAGTTATTAATGATTTACTAC
* * *
8882718 TAA-AT-TTAGTGATTTACTAT
1 TAAGTTATTAATGATTTACTAC
8882738 TATA-TTATT-ATGCA-TT--TAC
1 TA-AGTTATTAATG-ATTTACTAC
* * *
8882757 TAA-TTA-CATTGATTTATTAC
1 TAAGTTATTAATGATTTACTAC
* *
8882777 TAAGTT-TTCAAT-AGTTAGCTAT
1 TAAGTTATT-AATGATTTA-CTAC
* *
8882799 TAAGTTATCAATTATTTACTAC
1 TAAGTTATTAATGATTTACTAC
* * *
8882821 TAAATTATTATTGAATTACTAC
1 TAAGTTATTAATGATTTACTAC
8882843 TAAGTTATT
1 TAAGTTATT
8882852 TATGGTATAA
Statistics
Matches: 266, Mismatches: 66, Indels: 42
0.71 0.18 0.11
Matches are distributed among these distances:
17 1 0.00
18 8 0.03
19 4 0.02
20 22 0.08
21 32 0.12
22 190 0.71
23 9 0.03
ACGTcount: A:0.36, C:0.08, G:0.09, T:0.47
Consensus pattern (22 bp):
TAAGTTATTAATGATTTACTAC
Done.