Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168048.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_3, 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: 33276047
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 139000 characters in sequence are not A, C, G, or T
File 52 of 190
Found at i:8568060 original size:17 final size:18
Alignment explanation
Indices: 8568030--8568067 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
8568020 TCTTCCCCTC
* *
8568030 TTTGCTTT-TTTTTTTTT
1 TTTGCTTTGGTTTTTATT
8568047 TTTGCTTTGGTTTTTATT
1 TTTGCTTTGGTTTTTATT
8568065 TTT
1 TTT
8568068 AAAAAAAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.03, C:0.05, G:0.11, T:0.82
Consensus pattern (18 bp):
TTTGCTTTGGTTTTTATT
Found at i:8577048 original size:207 final size:207
Alignment explanation
Indices: 8576693--8577107 Score: 805
Period size: 207 Copynumber: 2.0 Consensus size: 207
8576683 GGCTGTTGTT
8576693 CTAGGACTTCAGCCTTGTCCCGTTGGGCTTCTGAGGTTGTTTCTTCCGATGAAACGGTTTGACGC
1 CTAGGACTTCAGCCTTGTCCCGTTGGGCTTCTGAGGTTGTTTCTTCCGATGAAACGGTTTGACGC
8576758 CGCAAGGCAAGTGAGATTTCTTCGGAGATGGCTAGAGAGAGAGGCTGGCGAAGCTTCTCAAGTTC
66 CGCAAGGCAAGTGAGATTTCTTCGGAGATGGCTAGAGAGAGAGGCTGGCGAAGCTTCTCAAGTTC
8576823 ATCGATGAGGGCGGAGACGGCGGGTTTGGAACGGAGGACTTCTTCTTGTTCTTTGTTCAAGAGTT
131 ATCGATGAGGGCGGAGACGGCGGGTTTGGAACGGAGGACTTCTTCTTGTTCTTTGTTCAAGAGTT
8576888 TGCCTTGGGAGA
196 TGCCTTGGGAGA
8576900 CTAGGACTTCAGCCTTGTCCCGTTGGGCTTCTGAGGTTGTTTCTTCCGATGAAACGGTTTGACGC
1 CTAGGACTTCAGCCTTGTCCCGTTGGGCTTCTGAGGTTGTTTCTTCCGATGAAACGGTTTGACGC
8576965 CGCAAGGCAAGTGAGATTTCTTCGGAGATGGCT-GAAGAGAGAGGCTGGCGAAGCTTCTCAAGTT
66 CGCAAGGCAAGTGAGATTTCTTCGGAGATGGCTAG-AGAGAGAGGCTGGCGAAGCTTCTCAAGTT
*
8577029 CATCGATGAGGGCGGAGACGGCGGGTTTGGAACGGAGGACTTCTTCTTGTTCTTTGTTCAAGGGT
130 CATCGATGAGGGCGGAGACGGCGGGTTTGGAACGGAGGACTTCTTCTTGTTCTTTGTTCAAGAGT
8577094 TTGCCTTGGGAGA
195 TTGCCTTGGGAGA
8577107 C
1 C
8577108 GGATTCTTCC
Statistics
Matches: 206, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
206 1 0.00
207 205 1.00
ACGTcount: A:0.19, C:0.20, G:0.33, T:0.28
Consensus pattern (207 bp):
CTAGGACTTCAGCCTTGTCCCGTTGGGCTTCTGAGGTTGTTTCTTCCGATGAAACGGTTTGACGC
CGCAAGGCAAGTGAGATTTCTTCGGAGATGGCTAGAGAGAGAGGCTGGCGAAGCTTCTCAAGTTC
ATCGATGAGGGCGGAGACGGCGGGTTTGGAACGGAGGACTTCTTCTTGTTCTTTGTTCAAGAGTT
TGCCTTGGGAGA
Found at i:8577771 original size:22 final size:21
Alignment explanation
Indices: 8577741--8577807 Score: 73
Period size: 22 Copynumber: 3.0 Consensus size: 21
8577731 TTATTTATAT
8577741 AATATTTATATGATTTTTAATTA
1 AATA-TTATAT-ATTTTTAATTA
*
8577764 TAA-ATTATATATATTTAATTA
1 -AATATTATATATTTTTAATTA
*
8577785 AATATTCAAATATTTTTAATTA
1 AATATT-ATATATTTTTAATTA
8577807 A
1 A
8577808 TTTATTTATT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
20 2 0.05
21 13 0.34
22 20 0.53
23 1 0.03
24 2 0.05
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (21 bp):
AATATTATATATTTTTAATTA
Found at i:8577933 original size:16 final size:15
Alignment explanation
Indices: 8577906--8577941 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
8577896 TAAGTTTACT
*
8577906 TATTTAATATATTTA
1 TATTTAATATATTAA
8577921 TATTTATATATATTAA
1 TATTTA-ATATATTAA
8577937 TATTT
1 TATTT
8577942 TTTTAATTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
TATTTAATATATTAA
Found at i:8579052 original size:15 final size:15
Alignment explanation
Indices: 8579032--8579064 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
8579022 AGATAAAAGA
*
8579032 TATATATATTTAAAT
1 TATATATATCTAAAT
8579047 TATATATATCTAAAT
1 TATATATATCTAAAT
8579062 TAT
1 TAT
8579065 TAGAAAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (15 bp):
TATATATATCTAAAT
Found at i:8579240 original size:137 final size:137
Alignment explanation
Indices: 8579070--8579321 Score: 377
Period size: 138 Copynumber: 1.8 Consensus size: 137
8579060 ATTATTAGAA
* *
8579070 AATTAATTTTAGATAACTAATAATTTGTTAATAC-TTTATTTATTTGATAAATACCATAAACTTA
1 AATTAATTTTAGATAACTAATAATTTGTTAATACTTTTATTTATTTGATAAATACCAGAAAATTA
*
8579134 TTAGTAAATTAATT-TTAGAAGATAAAAAAATATATATTTAAATTATATATAAATTATTAGAAAA
66 TTAGAAAATT-ATTCTTAGAAGATAAAAAAATATATA-TTAAATTATATATAAATTATTAGAAAA
8579198 TTACTTGAG
129 TTACTTGAG
*
8579207 AATTAATTTTGGATAACTTAA-AATTT-TTAAATACTTTTATTTATTTGATAAATACCAGAAAAT
1 AATTAATTTTAGATAAC-TAATAATTTGTT-AATACTTTTATTTATTTGATAAATACCAGAAAAT
* * *
8579270 TATTAGAAAATTATTCTTATATGATAAAAAGATATATATTAAATTATATATA
64 TATTAGAAAATTATTCTTAGAAGATAAAAAAATATATATTAAATTATATATA
8579322 TGTAAGTTAT
Statistics
Matches: 104, Mismatches: 7, Indels: 8
0.87 0.06 0.07
Matches are distributed among these distances:
136 2 0.02
137 43 0.41
138 59 0.57
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.43
Consensus pattern (137 bp):
AATTAATTTTAGATAACTAATAATTTGTTAATACTTTTATTTATTTGATAAATACCAGAAAATTA
TTAGAAAATTATTCTTAGAAGATAAAAAAATATATATTAAATTATATATAAATTATTAGAAAATT
ACTTGAG
Found at i:8581597 original size:21 final size:20
Alignment explanation
Indices: 8581573--8581615 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
8581563 AACTAAGGAA
8581573 TTATACAACAAAAAGTTAGAT
1 TTATA-AACAAAAAGTTAGAT
* *
8581594 TTATAGAGAAAAAGTTAGAT
1 TTATAAACAAAAAGTTAGAT
8581614 TT
1 TT
8581616 TGTGAACCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.49, C:0.05, G:0.14, T:0.33
Consensus pattern (20 bp):
TTATAAACAAAAAGTTAGAT
Found at i:8582008 original size:21 final size:20
Alignment explanation
Indices: 8581984--8582032 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
8581974 AATGGTTATT
*
8581984 TTTCATTGATAATAATAAAAA
1 TTTCATTGACAATAAT-AAAA
* *
8582005 TTTCATTGGCAATAGTAAAA
1 TTTCATTGACAATAATAAAA
8582025 TTTCATTG
1 TTTCATTG
8582033 GCAAATTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 12 0.48
21 13 0.52
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.41
Consensus pattern (20 bp):
TTTCATTGACAATAATAAAA
Found at i:8582208 original size:20 final size:20
Alignment explanation
Indices: 8582183--8582221 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
8582173 TATTTTAAAT
*
8582183 AAAAAAATCTATAATTATTC
1 AAAAAAACCTATAATTATTC
8582203 AAAAAAACCTATAATTATT
1 AAAAAAACCTATAATTATT
8582222 TTCGAACCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.56, C:0.10, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAAAAACCTATAATTATTC
Found at i:8585872 original size:21 final size:20
Alignment explanation
Indices: 8585827--8585873 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
8585817 AGGTATGAAA
* *
8585827 TTTTAAAAAAGAAAATTTTG
1 TTTTGAAAAAGAAAATTATG
*
8585847 ATTTGAAAAAGAAAATTGATG
1 TTTTGAAAAAGAAAATT-ATG
8585868 TTTTGA
1 TTTTGA
8585874 TGAATGAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.47, C:0.00, G:0.15, T:0.38
Consensus pattern (20 bp):
TTTTGAAAAAGAAAATTATG
Found at i:8587430 original size:2 final size:2
Alignment explanation
Indices: 8587423--8587455 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
8587413 CTAGCTTAAG
8587423 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8587456 TGCTAGTGGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8589468 original size:38 final size:38
Alignment explanation
Indices: 8589417--8589493 Score: 111
Period size: 38 Copynumber: 2.0 Consensus size: 38
8589407 TTAAGTTGTG
* *
8589417 TTGGATTATGATGCATAAATTAAGGAGG-AGTTTTGCCA
1 TTGGATTAGGATGCACAAATTAAGG-GGAAGTTTTGCCA
*
8589455 TTGGATTAGGATGCACAAATTGAGGGGAAGTTTTGCCA
1 TTGGATTAGGATGCACAAATTAAGGGGAAGTTTTGCCA
8589493 T
1 T
8589494 GCATTGTTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
37 2 0.06
38 33 0.94
ACGTcount: A:0.30, C:0.09, G:0.29, T:0.32
Consensus pattern (38 bp):
TTGGATTAGGATGCACAAATTAAGGGGAAGTTTTGCCA
Found at i:8593905 original size:25 final size:25
Alignment explanation
Indices: 8593873--8593938 Score: 123
Period size: 25 Copynumber: 2.6 Consensus size: 25
8593863 AAAATCCAAC
8593873 AAAAATATATAACCAACAAATTTCA
1 AAAAATATATAACCAACAAATTTCA
8593898 AAAAATATATAACCAACAAATTTCA
1 AAAAATATATAACCAACAAATTTCA
*
8593923 ACAAATATATAACCAA
1 AAAAATATATAACCAA
8593939 AGCCCAAACA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.61, C:0.17, G:0.00, T:0.23
Consensus pattern (25 bp):
AAAAATATATAACCAACAAATTTCA
Found at i:8593952 original size:58 final size:59
Alignment explanation
Indices: 8593887--8594012 Score: 157
Period size: 59 Copynumber: 2.2 Consensus size: 59
8593877 ATATATAACC
* ** *
8593887 AACAAATTTCAAAAAATATATAACCAAC-AAATTTCAACAAATATA-TAACCAAAGCCCA
1 AACAAATTTCAAAAAATAAATAACCAACAAAAACTCAACAAAT-TAGTAACCAAAACCCA
** * *
8593945 AACAAATTTCAACTAATAAATAACCAACAAAAACTCAACACATTAGTAACCAAAACCCG
1 AACAAATTTCAAAAAATAAATAACCAACAAAAACTCAACAAATTAGTAACCAAAACCCA
8594004 AACAAATTT
1 AACAAATTT
8594013 ATAACAAAAA
Statistics
Matches: 58, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
58 27 0.47
59 31 0.53
ACGTcount: A:0.56, C:0.22, G:0.02, T:0.20
Consensus pattern (59 bp):
AACAAATTTCAAAAAATAAATAACCAACAAAAACTCAACAAATTAGTAACCAAAACCCA
Found at i:8594512 original size:16 final size:16
Alignment explanation
Indices: 8594480--8594562 Score: 96
Period size: 16 Copynumber: 5.2 Consensus size: 16
8594470 AATCTATTCA
8594480 ATTTGAATTTAAATTG
1 ATTTGAATTTAAATTG
*
8594496 ATTT-AATTCTAAGTTG
1 ATTTGAATT-TAAATTG
* *
8594512 ATATGAATTTAGATTG
1 ATTTGAATTTAAATTG
* *
8594528 ATTTGAATTTACATTA
1 ATTTGAATTTAAATTG
*
8594544 ATTTGAATTTAAAATG
1 ATTTGAATTTAAATTG
8594560 ATT
1 ATT
8594563 CAAAATAAAA
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
15 4 0.07
16 47 0.85
17 4 0.07
ACGTcount: A:0.37, C:0.02, G:0.12, T:0.48
Consensus pattern (16 bp):
ATTTGAATTTAAATTG
Found at i:8596530 original size:14 final size:13
Alignment explanation
Indices: 8596504--8596537 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
8596494 TTGTATGAAA
8596504 TATTAATATAAAT
1 TATTAATATAAAT
8596517 TATTAATAATAAAT
1 TATTAAT-ATAAAT
*
8596531 TAATAAT
1 TATTAAT
8596538 TAGTGCATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TATTAATATAAAT
Found at i:8599231 original size:10 final size:10
Alignment explanation
Indices: 8599184--8599231 Score: 50
Period size: 10 Copynumber: 5.2 Consensus size: 10
8599174 TTTATAAGAA
8599184 TTCTT-TTTT
1 TTCTTCTTTT
8599193 TT-TTC-TTT
1 TTCTTCTTTT
*
8599201 TTCTTCCTTT
1 TTCTTCTTTT
*
8599211 TGC-TCTTTT
1 TTCTTCTTTT
8599220 TTCTTCTTTT
1 TTCTTCTTTT
8599230 TT
1 TT
8599232 TTTTGTCTTG
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
8 7 0.22
9 12 0.38
10 13 0.41
ACGTcount: A:0.00, C:0.19, G:0.02, T:0.79
Consensus pattern (10 bp):
TTCTTCTTTT
Found at i:8601959 original size:462 final size:462
Alignment explanation
Indices: 8601091--8603399 Score: 4181
Period size: 462 Copynumber: 5.0 Consensus size: 462
8601081 AAAATCATGA
*
8601091 AATATTATAAATTTAAGATTTGAAAAGTTTCATGAAAATTCGAGTTTGGGAAGGCCAAATTACAA
1 AATATTATAAATTTGAGATTTGAAAAGTTTCATGAAAATTCGAGTTTGGGAAGGCCAAATTACAA
* * *
8601156 AAATACCCTTATAAGGGTATTTAGGTAATTTTACACTTTTTAGGGTGCAATAAAAATTTTAG-GC
66 AAATACCCTTATAAGGGTATTTTGGTAATTTTGCACTTCTTAGGGTGCAATAAAAATTTTAGTGC
* *
8601220 TTTAAAAAATCCTCAAATTTAATTTTAAACTACATTGATTCTGATTAGGTTTTAAATTTTGAGAA
131 TTTAAAAAATCCTCAAATTTAATTTTAAACTACATTGATTCTAATTAGATTTTAAATTTTGAGAA
*
8601285 TTAACCTGGGATCTATCCATTTTAATTGAATTTTGTGTAATTTTGACGTTGTTTAACCAAATTTA
196 TTAACCTGGGATCTATCCATTTTGATTGAATTTTGTGTAATTTTGACGTTGTTTAACCAAATTTA
*
8601350 ACCCGAGTTTACTTTAAGTTTCTAAACGGACAGGTTTGTGGGCTCTTTATGGATTATAAATGGTC
261 ACCCGAGTTTACTTTAAGTTTCTAAACGGATAGGTTTGTGGGCTCTTTATGGATTATAAATGGTC
* *
8601415 CTCTTAAAAAGTCTCAGCCCGTGTTCACAAATAAGCCCTAGGTCAATCATGTTGAAAAATGTTCT
326 CTCCTAAAAAGTCTCGGCCCGTGTTCACAAATAAGCCCTAGGTCAATCATGTTGAAAAATGTTCT
* * *
8601480 GGATAAAATTTAGTGTTTCCACTGATGTGGCATTGATGATGCGGCGATGGTTAGATGTTTTCGAC
391 GGACAAAATTCAGTGTTTCCACTGATGTGGCATTGATGATGCGGCGATGGTTAGATGTTTTTGAC
8601545 ACATGTT
456 ACATGTT
8601552 AATATTATAAATTTGAGATTTGAAAAGTTTCATGAAAATTCGAGTTTGGGAAGGCCAAATTACAA
1 AATATTATAAATTTGAGATTTGAAAAGTTTCATGAAAATTCGAGTTTGGGAAGGCCAAATTACAA
8601617 AAATACCCTTATAAGGGTATTTTGGTAATTTTGCACTTCTTAGGGTGCAATAAAAATTTTAGTGC
66 AAATACCCTTATAAGGGTATTTTGGTAATTTTGCACTTCTTAGGGTGCAATAAAAATTTTAGTGC
* *
8601682 TTAAAAAAATCCTCAAATTTAATTTTAAACTAAATTGATTCTAATTAGATTTTAAATTTTGAGAA
131 TTTAAAAAATCCTCAAATTTAATTTTAAACTACATTGATTCTAATTAGATTTTAAATTTTGAGAA
8601747 TTAACCTGGGATCTATCCATTTTGATTGAATTTTGTGTAATTTTGACGTTGTTTAACCAAATTTA
196 TTAACCTGGGATCTATCCATTTTGATTGAATTTTGTGTAATTTTGACGTTGTTTAACCAAATTTA
8601812 ACCCGAGTTTACTTTAAGTTTCTAAACGGATAGGTTTGTGGGCTCTTTATGGATTATAAATGGTC
261 ACCCGAGTTTACTTTAAGTTTCTAAACGGATAGGTTTGTGGGCTCTTTATGGATTATAAATGGTC
8601877 CTCCTAAAAAGTCTCGGCCCGTGTTCACAAATAAGCCCTAGGTCAATCATGTTGAAAAATGTTCT
326 CTCCTAAAAAGTCTCGGCCCGTGTTCACAAATAAGCCCTAGGTCAATCATGTTGAAAAATGTTCT
* *
8601942 GGACAAAATTCAGTGTTTCCACTGATGTAGCATTGATGATGCGACGATGGTTAGATGTTTTTGAC
391 GGACAAAATTCAGTGTTTCCACTGATGTGGCATTGATGATGCGGCGATGGTTAGATGTTTTTGAC
8602007 ACATGTT
456 ACATGTT
8602014 AATATTATAAATTTGAGATTTGAAAAGTTTCATGAAAATTCGAGTTTGGGAAGGCCAAATTACAA
1 AATATTATAAATTTGAGATTTGAAAAGTTTCATGAAAATTCGAGTTTGGGAAGGCCAAATTACAA
8602079 AAATACCCTTATAAGGGTATTTTGGTAATTTTGCACTTCTTAGGGTGCAATAAAAATTTTAGTGC
66 AAATACCCTTATAAGGGTATTTTGGTAATTTTGCACTTCTTAGGGTGCAATAAAAATTTTAGTGC
* *
8602144 TTAAAAAAATCCTCAAATTTAATTTTAAACTAAATTGATTCTAATTAGATTTTAAATTTTGAGAA
131 TTTAAAAAATCCTCAAATTTAATTTTAAACTACATTGATTCTAATTAGATTTTAAATTTTGAGAA
* *
8602209 TTAACCTAGGATCTATCCATTTTGATTGAATTTTTTGTAATTTTGACGTTGTTTAACCAAATTTA
196 TTAACCTGGGATCTATCCATTTTGATTGAATTTTGTGTAATTTTGACGTTGTTTAACCAAATTTA
*
8602274 ACACGAGTTTACTTTAAGTTTCTAAACGGATAGGTTTGTGGGCTCTTTATGGATTATAAATGGTC
261 ACCCGAGTTTACTTTAAGTTTCTAAACGGATAGGTTTGTGGGCTCTTTATGGATTATAAATGGTC
8602339 CTCCTAAAAAGTCTCGGCCCGTGTTCACAAATAAGCCCTAGGTCAATCATGTTGAAAAATGTTCT
326 CTCCTAAAAAGTCTCGGCCCGTGTTCACAAATAAGCCCTAGGTCAATCATGTTGAAAAATGTTCT
*
8602404 GGACAAAATTCAGTGTTTCCACTGATGTGGCATTGATGATGCGACGATGGTTAGATGTTTTTGAC
391 GGACAAAATTCAGTGTTTCCACTGATGTGGCATTGATGATGCGGCGATGGTTAGATGTTTTTGAC
8602469 ACATGTT
456 ACATGTT
8602476 AATATTATAAATTTGAGATTTGAAAAGTTTCATGAAAATTCGAGTTTGGGAAGGCCAAATTACAA
1 AATATTATAAATTTGAGATTTGAAAAGTTTCATGAAAATTCGAGTTTGGGAAGGCCAAATTACAA
8602541 AAATACCCTTATAAGGGTATTTTGGTAATTTTGCACTTCTTAGGGTGCAATAAAAATTTTAGTGC
66 AAATACCCTTATAAGGGTATTTTGGTAATTTTGCACTTCTTAGGGTGCAATAAAAATTTTAGTGC
*
8602606 TTTAAAAAATCCTCAAATTTAATTTTAAACTACATTGATTCAAATTAGATTTTAAATTTTGAGAA
131 TTTAAAAAATCCTCAAATTTAATTTTAAACTACATTGATTCTAATTAGATTTTAAATTTTGAGAA
8602671 TTAACCTGGGATCTATCCATTTTGATTGAATTTTGTGTAATTTTGACGTTGTTTAACCAAATTTA
196 TTAACCTGGGATCTATCCATTTTGATTGAATTTTGTGTAATTTTGACGTTGTTTAACCAAATTTA
8602736 ACCCGAGTTTACTTTAAGTTTCTAAACGGATAGGTTTGTGGGCTCTTTATGGATTATAAATGGTC
261 ACCCGAGTTTACTTTAAGTTTCTAAACGGATAGGTTTGTGGGCTCTTTATGGATTATAAATGGTC
* * * * *
8602801 ATCCTAAAAAGTCTCGACCCATGTTCACAAATAAGCCCTAAGTCAATCATGTTGAAAAATGATCT
326 CTCCTAAAAAGTCTCGGCCCGTGTTCACAAATAAGCCCTAGGTCAATCATGTTGAAAAATGTTCT
* * * * *
8602866 GGACAAAATTCAGTGTTTCCACTAATATGACATTGATGATGCAGTGATGGTTAGATGTTTTTGAC
391 GGACAAAATTCAGTGTTTCCACTGATGTGGCATTGATGATGCGGCGATGGTTAGATGTTTTTGAC
8602931 ACATGTT
456 ACATGTT
* *
8602938 AATATTATAAATTTGAGATTTGAAAAGTTTCATGAAAATTCGAGTTTGGGAAGGTCAAATTAGAA
1 AATATTATAAATTTGAGATTTGAAAAGTTTCATGAAAATTCGAGTTTGGGAAGGCCAAATTACAA
* *
8603003 AAATACCCTTATAAAGGTATTTTGGTAATTTTGCACTTTTTAGGGTGCAATAAAAATTTTAGTGC
66 AAATACCCTTATAAGGGTATTTTGGTAATTTTGCACTTCTTAGGGTGCAATAAAAATTTTAGTGC
* *
8603068 TTTAAAAAATCCTCAAATTTAATTTTAAACTACATTGATTCTAATTAGGTTTTCAATTTTGAGAA
131 TTTAAAAAATCCTCAAATTTAATTTTAAACTACATTGATTCTAATTAGATTTTAAATTTTGAGAA
8603133 TTAACCTGGGATCTATCCATTTTGATTGAATTTTGTGTAATTTTGACGTTGTTTAACCAAATTTA
196 TTAACCTGGGATCTATCCATTTTGATTGAATTTTGTGTAATTTTGACGTTGTTTAACCAAATTTA
*
8603198 ACCCGAGTTTACTTTAAGTTTCTAAACGGATAGGTTTGTGGGCTTTTTATGGATTATAAATGGTC
261 ACCCGAGTTTACTTTAAGTTTCTAAACGGATAGGTTTGTGGGCTCTTTATGGATTATAAATGGTC
* * *
8603263 CTCCTAAAAAGTCTCGGTCCGTGTTCACAAATAAGCACTAGGTCAATCATGTTG-AAAATATTCT
326 CTCCTAAAAAGTCTCGGCCCGTGTTCACAAATAAGCCCTAGGTCAATCATGTTGAAAAATGTTCT
* * *
8603327 GGATAAAATTCAGTGTTTCCACTGATGTTGCATTGATGATGCAGCGATGGTTAGATGTTTTTGAC
391 GGACAAAATTCAGTGTTTCCACTGATGTGGCATTGATGATGCGGCGATGGTTAGATGTTTTTGAC
8603392 ACATGTT
456 ACATGTT
8603399 A
1 A
8603400 TAATTTTATT
Statistics
Matches: 1787, Mismatches: 60, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
461 198 0.11
462 1589 0.89
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.37
Consensus pattern (462 bp):
AATATTATAAATTTGAGATTTGAAAAGTTTCATGAAAATTCGAGTTTGGGAAGGCCAAATTACAA
AAATACCCTTATAAGGGTATTTTGGTAATTTTGCACTTCTTAGGGTGCAATAAAAATTTTAGTGC
TTTAAAAAATCCTCAAATTTAATTTTAAACTACATTGATTCTAATTAGATTTTAAATTTTGAGAA
TTAACCTGGGATCTATCCATTTTGATTGAATTTTGTGTAATTTTGACGTTGTTTAACCAAATTTA
ACCCGAGTTTACTTTAAGTTTCTAAACGGATAGGTTTGTGGGCTCTTTATGGATTATAAATGGTC
CTCCTAAAAAGTCTCGGCCCGTGTTCACAAATAAGCCCTAGGTCAATCATGTTGAAAAATGTTCT
GGACAAAATTCAGTGTTTCCACTGATGTGGCATTGATGATGCGGCGATGGTTAGATGTTTTTGAC
ACATGTT
Found at i:8614553 original size:16 final size:16
Alignment explanation
Indices: 8614528--8614562 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
8614518 TGTGATAACA
*
8614528 TATCCTTAACAATTGG
1 TATCCATAACAATTGG
8614544 TATCCATAACAATTGG
1 TATCCATAACAATTGG
8614560 TAT
1 TAT
8614563 GAGATTGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.34, C:0.17, G:0.11, T:0.37
Consensus pattern (16 bp):
TATCCATAACAATTGG
Found at i:8621071 original size:514 final size:506
Alignment explanation
Indices: 8620162--8621183 Score: 1927
Period size: 514 Copynumber: 2.0 Consensus size: 506
8620152 ATCATTGTCA
8620162 TTCTTCTATTTTTATTATTTCTCAATTTCTATTCATACAAATAATACATGCACACCTTGCAGCAT
1 TTCTTCTATTTTTATTATTTCTCAATTTCTATTCATACAAATAATACATGCACACCTTGCAGCAT
8620227 ACGCGTTTCCCACATTCACGCCATGAATTTTTTTTTTTTCACTTATAACCGTTGACAACTATTAT
66 ACGCGTTTCCCACATTCACGCCATGAATTTTTTTTTTTTCACTTATAACCGTTGACAACTATTAT
*
8620292 CAAAAAAGAGTAACGATGTTAAATTTAATCCAAATTTTTAAAAAATTTGGATTAAAATAAACTCC
131 AAAAAAAGAGTAACGATGTTAAATTTAATCCAAATTTTTAAAAAATTTGGATTAAAATAAACTCC
8620357 CATGCCTTCAGCCATTTATACAAGTTTAAGTTAAAATCAATATAACAATCGAATTTTTTCTTAAA
196 CATGCCTTCAGCCATTTATACAAGTTTAAGTTAAAATCAATATAACAATCGAATTTTTTCTTAAA
8620422 AAATCAAAATTCAAAATAAAATTCAAAGAAAAAACTGATTGGACTTTCCAAATCAAGGTAAAGAA
261 AAATCAAAATTCAAAATAAAATTCAAAGAAAAAACTGATTGGACTTTCCAAATCAAGGTAAAGAA
*
8620487 ACAATTTCAATTTCCTCGCATCCAAAAATCACCAATGCATGATTTGATACCTAATTTTATCTTGA
326 ACAATTTCAATTTCCTCGCATCCAAAAATCACCAATGCATGATTTGATACCTAATTTTATCTTAA
8620552 TACTTTCTAATCAATCTTGACACTCTTAAAATTGAAACCCAATTCAAATCCAACTTTTCTTTAGG
391 TACTTTCTAATCAATCTTGACACTCTTAAAATTGAAACCCAATTCAAATCCAACTTTTCTTTAGG
8620617 ATTCATGAGTTTTTAAAATTAAATTTTGAGCCAAAATGACCAAAATACCTC
456 ATTCATGAGTTTTTAAAATTAAATTTTGAGCCAAAATGACCAAAATACCTC
8620668 TTCTTCTATTTTTATTATTTCTCAATTTCTATTCATACAAATAATACATGCACACCTTGCAGCAT
1 TTCTTCTATTTTTATTATTTCTCAATTTCTATTCATACAAATAATACATGCACACCTTGCAGCAT
8620733 ACGCGTTTCCCACATTCACGCCATGAATTTTTTTTTTTTTTTCACTTATAACCTTAAGGTTGACA
66 ACGCGTTTCCCACATTCACGCCATGAA---TTTTTTTTTTTTCACTTATAACC-----GTTGACA
*
8620798 ACTATTATAAAAAAAGAGTAACGTTGTTAAATTTAATCCAAATTTTTAAAAAATTTGGATTAAAA
123 ACTATTATAAAAAAAGAGTAACGATGTTAAATTTAATCCAAATTTTTAAAAAATTTGGATTAAAA
*
8620863 TAAACTCCCATGCCTTCAGCCATTTATACAAGTTTAAGTTAGAATCAATATAACAATCGAATTTT
188 TAAACTCCCATGCCTTCAGCCATTTATACAAGTTTAAGTTAAAATCAATATAACAATCGAATTTT
*
8620928 TTCTTAAAAAATCAAAATTCAAAATAAAATTCAAAGAAAAAACTGATTGGATTTTCCAAATCAAG
253 TTCTTAAAAAATCAAAATTCAAAATAAAATTCAAAGAAAAAACTGATTGGACTTTCCAAATCAAG
8620993 GTAAAGAAACAATTTCAATTTCCTCGCATCCAAAAATCACCAATGCATGATTTGATACCTAATTT
318 GTAAAGAAACAATTTCAATTTCCTCGCATCCAAAAATCACCAATGCATGATTTGATACCTAATTT
8621058 TATCTTAATACTTTCTAATCAATCTTGACACTCTTAAAATTGAAACCCAATTCAAATCCAACTTT
383 TATCTTAATACTTTCTAATCAATCTTGACACTCTTAAAATTGAAACCCAATTCAAATCCAACTTT
8621123 TCTTTAGGATTCATGAGTTTTTAAAATTAAATTTTGAGCCAAAATGACCAAAATACCTC
448 TCTTTAGGATTCATGAGTTTTTAAAATTAAATTTTGAGCCAAAATGACCAAAATACCTC
8621182 TT
1 TT
8621184 GATCAAATTT
Statistics
Matches: 503, Mismatches: 5, Indels: 8
0.97 0.01 0.02
Matches are distributed among these distances:
506 92 0.18
509 23 0.05
514 388 0.77
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.36
Consensus pattern (506 bp):
TTCTTCTATTTTTATTATTTCTCAATTTCTATTCATACAAATAATACATGCACACCTTGCAGCAT
ACGCGTTTCCCACATTCACGCCATGAATTTTTTTTTTTTCACTTATAACCGTTGACAACTATTAT
AAAAAAAGAGTAACGATGTTAAATTTAATCCAAATTTTTAAAAAATTTGGATTAAAATAAACTCC
CATGCCTTCAGCCATTTATACAAGTTTAAGTTAAAATCAATATAACAATCGAATTTTTTCTTAAA
AAATCAAAATTCAAAATAAAATTCAAAGAAAAAACTGATTGGACTTTCCAAATCAAGGTAAAGAA
ACAATTTCAATTTCCTCGCATCCAAAAATCACCAATGCATGATTTGATACCTAATTTTATCTTAA
TACTTTCTAATCAATCTTGACACTCTTAAAATTGAAACCCAATTCAAATCCAACTTTTCTTTAGG
ATTCATGAGTTTTTAAAATTAAATTTTGAGCCAAAATGACCAAAATACCTC
Found at i:8621462 original size:89 final size:89
Alignment explanation
Indices: 8621363--8621532 Score: 250
Period size: 89 Copynumber: 1.9 Consensus size: 89
8621353 TTGAGGTTAG
* * * *
8621363 TTTTTGTGAAAAGCTCTAAATTATGTTTAAATATTACTTCATGAATTTGGATGCATTAAAAATCT
1 TTTTTGTGAAAAGCTCCAAATTAGGTTCAAATATTACTTCATAAATTTGGATGCATTAAAAATCT
8621428 TAATTGTACCTCAAAAAGGTTGGT
66 TAATTGTACCTCAAAAAGGTTGGT
* * * *
8621452 TTTTTGTGAAAAGCTCCAGATTAGGTTCAAATATTATTTCATAAATTTTGATGCATTGAAAATCT
1 TTTTTGTGAAAAGCTCCAAATTAGGTTCAAATATTACTTCATAAATTTGGATGCATTAAAAATCT
* *
8621517 TGATTTTACCTCAAAA
66 TAATTGTACCTCAAAA
8621533 GAATTGAAAT
Statistics
Matches: 71, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
89 71 1.00
ACGTcount: A:0.35, C:0.11, G:0.14, T:0.41
Consensus pattern (89 bp):
TTTTTGTGAAAAGCTCCAAATTAGGTTCAAATATTACTTCATAAATTTGGATGCATTAAAAATCT
TAATTGTACCTCAAAAAGGTTGGT
Found at i:8623401 original size:25 final size:25
Alignment explanation
Indices: 8623349--8623408 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
8623339 CACAAAGTCA
* **
8623349 AAACCTTAAAAACCAACCTTAATTC
1 AAACCTTAAAAACCAACCTCAACCC
* *
8623374 AAACCTTAAAATCTAACCTCAACCC
1 AAACCTTAAAAACCAACCTCAACCC
*
8623399 AAACCCTAAA
1 AAACCTTAAA
8623409 CCTTGGTTGA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.48, C:0.32, G:0.00, T:0.20
Consensus pattern (25 bp):
AAACCTTAAAAACCAACCTCAACCC
Found at i:8623501 original size:20 final size:20
Alignment explanation
Indices: 8623478--8623521 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
8623468 AATTCTAAAG
* *
8623478 TCAACCCCTAAATCTCAAAA
1 TCAACACCTAAACCTCAAAA
* *
8623498 TCAACACTTAAACCTTAAAA
1 TCAACACCTAAACCTCAAAA
8623518 TCAA
1 TCAA
8623522 GCTCTAAAGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.48, C:0.30, G:0.00, T:0.23
Consensus pattern (20 bp):
TCAACACCTAAACCTCAAAA
Found at i:8623580 original size:21 final size:21
Alignment explanation
Indices: 8623538--8623592 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
8623528 AAGTAAACCT
*
8623538 CCTTAAACCTTAAAAGTCAAA
1 CCTTAAACCTTAAAAGTAAAA
*
8623559 CCTTAAACCTTTAAA-TGAAAA
1 CCTTAAACCTTAAAAGT-AAAA
*
8623580 CC-TAAATCTTAAA
1 CCTTAAACCTTAAA
8623593 CTCCAAAGCC
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 10 0.34
21 19 0.66
ACGTcount: A:0.47, C:0.22, G:0.04, T:0.27
Consensus pattern (21 bp):
CCTTAAACCTTAAAAGTAAAA
Found at i:8623690 original size:28 final size:30
Alignment explanation
Indices: 8623637--8623696 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 30
8623627 TTAAATTTAG
* *
8623637 CCTAAACCCTACTTAAACCCTAAAACATAC
1 CCTAAACCCTACTCAAAACCTAAAACATAC
*
8623667 CCTAAA-CC-ACTCAAAACCTAAAACCTAC
1 CCTAAACCCTACTCAAAACCTAAAACATAC
8623695 CC
1 CC
8623697 ATTTCTTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 19 0.70
29 2 0.07
30 6 0.22
ACGTcount: A:0.43, C:0.40, G:0.00, T:0.17
Consensus pattern (30 bp):
CCTAAACCCTACTCAAAACCTAAAACATAC
Found at i:8631006 original size:23 final size:24
Alignment explanation
Indices: 8630969--8631014 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
8630959 GAACAAGTTC
8630969 ATTTTATATAATTTTCAAATATTA
1 ATTTTATATAATTTTCAAATATTA
* *
8630993 ATTTT-TATATTTTTCATATATT
1 ATTTTATATAATTTTCAAATATT
8631015 TTACTTTTCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (24 bp):
ATTTTATATAATTTTCAAATATTA
Found at i:8631043 original size:3 final size:3
Alignment explanation
Indices: 8631035--8631117 Score: 114
Period size: 3 Copynumber: 27.7 Consensus size: 3
8631025 ATTAAAAGCT
8631035 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
8631083 TTA TTA TCA TCA TTTA TTA AT- TTA TTT TTA TTA TT
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TT
8631118 TAATAATTTC
Statistics
Matches: 72, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
2 1 0.01
3 69 0.96
4 2 0.03
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:8631705 original size:64 final size:64
Alignment explanation
Indices: 8631628--8631748 Score: 197
Period size: 64 Copynumber: 1.9 Consensus size: 64
8631618 GGACCCTTAC
*
8631628 TATACTTGGACTTGGCACATGGAACAAGTAAAACAAAAGGTTCAGTTCCAACATGCACCATTAA
1 TATACTTGGACTTGGCACATGAAACAAGTAAAACAAAAGGTTCAGTTCCAACATGCACCATTAA
* * * *
8631692 TATACTTGGACTTGGCGCATGAAACAAGTAAAGCAAAAGGTTTAGTTTCAACATGCA
1 TATACTTGGACTTGGCACATGAAACAAGTAAAACAAAAGGTTCAGTTCCAACATGCA
8631749 GCATGGACTT
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 52 1.00
ACGTcount: A:0.38, C:0.18, G:0.19, T:0.25
Consensus pattern (64 bp):
TATACTTGGACTTGGCACATGAAACAAGTAAAACAAAAGGTTCAGTTCCAACATGCACCATTAA
Found at i:8632955 original size:20 final size:19
Alignment explanation
Indices: 8632932--8632976 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 19
8632922 TCATTTATCA
8632932 TTTTTATATTATATTATTATT
1 TTTTTATATT-T-TTATTATT
8632953 TTTATTATATTTTTATTATT
1 TTT-TTATATTTTTATTATT
8632973 TTTT
1 TTTT
8632977 ATTTAGTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 1 0.04
20 11 0.48
21 4 0.17
22 7 0.30
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTTATATTTTTATTATT
Found at i:8632960 original size:17 final size:18
Alignment explanation
Indices: 8632933--8632969 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
8632923 CATTTATCAT
8632933 TTTTATATTATATTATTA
1 TTTTATATTATATTATTA
*
8632951 TTTT-TATTATATTTTTA
1 TTTTATATTATATTATTA
8632968 TT
1 TT
8632970 ATTTTTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (18 bp):
TTTTATATTATATTATTA
Found at i:8632963 original size:11 final size:11
Alignment explanation
Indices: 8632943--8632979 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
8632933 TTTTATATTA
8632943 TATTATTATTTT
1 TATTA-TATTTT
8632955 TATTATATTTT
1 TATTATATTTT
8632966 TATTAT-TTTT
1 TATTATATTTT
8632976 TATT
1 TATT
8632980 TAGTTTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 8 0.32
11 12 0.48
12 5 0.20
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TATTATATTTT
Found at i:8632986 original size:11 final size:10
Alignment explanation
Indices: 8632903--8632987 Score: 54
Period size: 11 Copynumber: 8.4 Consensus size: 10
8632893 GGCCAAGCTC
8632903 TTTT-TTTAT
1 TTTTATTTAT
8632912 TATTTATTTAT
1 T-TTTATTTAT
* *
8632923 CATTTA-TCAT
1 -TTTTATTTAT
8632933 TTTTATATTA-
1 TTTTAT-TTAT
*
8632943 TATTA-TTAT
1 TTTTATTTAT
8632952 TTTTATTATAT
1 TTTTATT-TAT
8632963 TTTTA-TTATT
1 TTTTATTTA-T
8632973 TTTTATTTAGT
1 TTTTATTTA-T
8632984 TTTT
1 TTTT
8632988 TTTTTGTTTA
Statistics
Matches: 59, Mismatches: 7, Indels: 18
0.70 0.08 0.21
Matches are distributed among these distances:
8 3 0.05
9 11 0.19
10 18 0.31
11 27 0.46
ACGTcount: A:0.24, C:0.02, G:0.01, T:0.73
Consensus pattern (10 bp):
TTTTATTTAT
Found at i:8632986 original size:20 final size:18
Alignment explanation
Indices: 8632903--8632986 Score: 69
Period size: 21 Copynumber: 4.2 Consensus size: 18
8632893 GGCCAAGCTC
*
8632903 TTTTTTTATTATTTATTTA
1 TTTTATTATT-TTTATTTA
*
8632922 TCATTTATCATTTTTATATTA
1 T--TTTATTATTTTTAT-TTA
*
8632943 TATTATTATTTTTATTATA
1 TTTTATTATTTTTATT-TA
8632962 TTTTTATTATTTTTTATTTA
1 -TTTTATTA-TTTTTATTTA
8632982 GTTTT
1 -TTTT
8632987 TTTTTTGTTT
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
18 1 0.02
19 15 0.28
20 18 0.34
21 19 0.36
ACGTcount: A:0.24, C:0.02, G:0.01, T:0.73
Consensus pattern (18 bp):
TTTTATTATTTTTATTTA
Found at i:8633348 original size:14 final size:14
Alignment explanation
Indices: 8633317--8633363 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
8633307 TTAGAAATTT
8633317 TTTTGAATATTTGTT-
1 TTTTGAAT-TTT-TTG
*
8633332 TTTT-ATTTTTTTG
1 TTTTGAATTTTTTG
8633345 TTTTGAATTTTTTG
1 TTTTGAATTTTTTG
8633359 TTTTG
1 TTTTG
8633364 GTTTTGGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
12 2 0.07
13 7 0.25
14 15 0.54
15 4 0.14
ACGTcount: A:0.13, C:0.00, G:0.13, T:0.74
Consensus pattern (14 bp):
TTTTGAATTTTTTG
Found at i:8633349 original size:20 final size:19
Alignment explanation
Indices: 8633326--8633383 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
8633316 TTTTTGAATA
8633326 TTTGTTTTTTATTTTTTTGT
1 TTTGTTTTTT-TTTTTTTGT
* * *
8633346 TTTGAATTTTTTGTTTTGGT
1 TTTG-TTTTTTTTTTTTTGT
8633366 TTTGGTTTTTTTTTTTTT
1 TTT-GTTTTTTTTTTTTT
8633384 TCCTTAAGAC
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
20 24 0.80
21 6 0.20
ACGTcount: A:0.05, C:0.00, G:0.14, T:0.81
Consensus pattern (19 bp):
TTTGTTTTTTTTTTTTTGT
Found at i:8633709 original size:32 final size:32
Alignment explanation
Indices: 8633664--8633769 Score: 122
Period size: 32 Copynumber: 3.3 Consensus size: 32
8633654 ATTTGAGTGA
* *
8633664 TAGCTAAATTAGGTTTAAAACTTTATTGATGC
1 TAGCTAAACTAGGTTTAAAACTTTATTGATAC
*
8633696 TAGCTAAACTAGGTTTAAAATTTTATTGATAC
1 TAGCTAAACTAGGTTTAAAACTTTATTGATAC
* * * * * **
8633728 CAGCTAAATTAAGCTTAAAACTTCATTTTTAC
1 TAGCTAAACTAGGTTTAAAACTTTATTGATAC
8633760 TAGCTAAACT
1 TAGCTAAACT
8633770 GGACTTAAAT
Statistics
Matches: 61, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
32 61 1.00
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (32 bp):
TAGCTAAACTAGGTTTAAAACTTTATTGATAC
Found at i:8633778 original size:64 final size:59
Alignment explanation
Indices: 8633636--8633782 Score: 150
Period size: 64 Copynumber: 2.4 Consensus size: 59
8633626 GCTTGCATCT
* * * * *
8633636 TAGCTAAACTGGGCTTAAATTTGAGTGATAGCTAAATTAGGTTTAAAACTTTATTGATGC
1 TAGCTAAACT-GGCTTAAATTTTAGTGATAGCTAAATTAAGCTTAAAACTTCATTGATAC
* * **
8633696 TAGCTAAACTAGGTTTAAAATTTTATTGATACCAGCTAAATTAAGCTTAAAACTTCATTTTTAC
1 TAGCTAAACT-GGCTT-AAATTTTAGTGAT---AGCTAAATTAAGCTTAAAACTTCATTGATAC
8633760 TAGCTAAACTGGACTTAAATTTT
1 TAGCTAAACTGG-CTTAAATTTT
8633783 CATTAGGTGT
Statistics
Matches: 71, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
60 14 0.20
61 11 0.15
63 9 0.13
64 37 0.52
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.38
Consensus pattern (59 bp):
TAGCTAAACTGGCTTAAATTTTAGTGATAGCTAAATTAAGCTTAAAACTTCATTGATAC
Found at i:8635171 original size:29 final size:28
Alignment explanation
Indices: 8635129--8635200 Score: 83
Period size: 29 Copynumber: 2.5 Consensus size: 28
8635119 CACCTATTCA
**
8635129 TTTC-TTTCCTTTTTTTTTTCTTTCAGTT
1 TTTCTTTTCC-TTTTTCATTCTTTCAGTT
*
8635157 TTTCCTTTTCCTTTTTCATTCTTTTAGTT
1 TTT-CTTTTCCTTTTTCATTCTTTCAGTT
*
8635186 TTTTTTTTCCTTTTT
1 TTTCTTTTCCTTTTT
8635201 AAGTGGATGC
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
28 14 0.37
29 19 0.50
30 5 0.13
ACGTcount: A:0.04, C:0.18, G:0.03, T:0.75
Consensus pattern (28 bp):
TTTCTTTTCCTTTTTCATTCTTTCAGTT
Found at i:8636455 original size:10 final size:10
Alignment explanation
Indices: 8636429--8636466 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
8636419 AAAACATTCA
8636429 CTTTTTTTTT
1 CTTTTTTTTT
**
8636439 C-AATTTTTT
1 CTTTTTTTTT
8636448 CTTTTTTTTT
1 CTTTTTTTTT
8636458 CTTTTTTTT
1 CTTTTTTTT
8636467 AAGGCATTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
9 7 0.30
10 16 0.70
ACGTcount: A:0.05, C:0.11, G:0.00, T:0.84
Consensus pattern (10 bp):
CTTTTTTTTT
Found at i:8640253 original size:26 final size:27
Alignment explanation
Indices: 8640202--8640253 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
8640192 CAAATATATC
*
8640202 AATCAAAATAAAATAAATAAATAACAA
1 AATCAAAACAAAATAAATAAATAACAA
* *
8640229 AATCAAAACAAGAT-AATAATTAACA
1 AATCAAAACAAAATAAATAAATAACA
8640254 TGGAATTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 10 0.45
27 12 0.55
ACGTcount: A:0.69, C:0.10, G:0.02, T:0.19
Consensus pattern (27 bp):
AATCAAAACAAAATAAATAAATAACAA
Found at i:8646524 original size:21 final size:20
Alignment explanation
Indices: 8646500--8646557 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
8646490 ACAGTTTAGA
8646500 GTTTCACTTAGGGTTTTTGGG
1 GTTTCACTTAGGGTTTTT-GG
* * *
8646521 GTTTTACCTAGGGCTTTTGG
1 GTTTCACTTAGGGTTTTTGG
*
8646541 GTTTCATTTAGGGTTTT
1 GTTTCACTTAGGGTTTT
8646558 GGTTTCAAGT
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
20 15 0.50
21 15 0.50
ACGTcount: A:0.10, C:0.10, G:0.29, T:0.50
Consensus pattern (20 bp):
GTTTCACTTAGGGTTTTTGG
Found at i:8646570 original size:20 final size:19
Alignment explanation
Indices: 8646500--8646576 Score: 66
Period size: 20 Copynumber: 3.8 Consensus size: 19
8646490 ACAGTTTAGA
*
8646500 GTTTCACTTAGGGTTTTTGGG
1 GTTTCATTTAGGG-TTTT-GG
* **
8646521 GTTTTACCTAGGGCTTTTGG
1 GTTTCATTTAGGG-TTTTGG
8646541 GTTTCATTTAGGGTTTT-G
1 GTTTCATTTAGGGTTTTGG
8646559 GTTTCAAGTTTAGGGTTT
1 GTTTC-A-TTTAGGGTTT
8646577 CATTTTGGGT
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
18 6 0.12
19 5 0.10
20 22 0.46
21 15 0.31
ACGTcount: A:0.12, C:0.09, G:0.30, T:0.49
Consensus pattern (19 bp):
GTTTCATTTAGGGTTTTGG
Found at i:8646582 original size:25 final size:25
Alignment explanation
Indices: 8646554--8646614 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
8646544 TCATTTAGGG
*
8646554 TTTT-GGTTTCAAGTTTAGGGTTTCA
1 TTTTGGGTTTC-ACTTTAGGGTTTCA
*
8646579 TTTTGGGTTTCACTTTGGGGTTTCA
1 TTTTGGGTTTCACTTTAGGGTTTCA
*
8646604 TTGTAGGGTTT
1 TT-TTGGGTTT
8646615 TAGTTTAAGG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
25 18 0.58
26 13 0.42
ACGTcount: A:0.11, C:0.08, G:0.28, T:0.52
Consensus pattern (25 bp):
TTTTGGGTTTCACTTTAGGGTTTCA
Found at i:8646612 original size:13 final size:12
Alignment explanation
Indices: 8646567--8646614 Score: 60
Period size: 13 Copynumber: 3.8 Consensus size: 12
8646557 TGGTTTCAAG
8646567 TTTAGGGTTTCA
1 TTTAGGGTTTCA
*
8646579 TTTTGGGTTTCA
1 TTTAGGGTTTCA
*
8646591 CTTTGGGGTTTCA
1 -TTTAGGGTTTCA
8646604 TTGTAGGGTTT
1 TT-TAGGGTTT
8646615 TAGTTTAAGG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
12 13 0.42
13 18 0.58
ACGTcount: A:0.10, C:0.08, G:0.29, T:0.52
Consensus pattern (12 bp):
TTTAGGGTTTCA
Found at i:8646866 original size:20 final size:18
Alignment explanation
Indices: 8646837--8646886 Score: 64
Period size: 20 Copynumber: 2.6 Consensus size: 18
8646827 CTAATACTCT
*
8646837 AAAATCTTTTTTTTAAATCA
1 AAAAT-TTTTTTTGAAAT-A
8646857 AAAATATTTTTTTGAAATA
1 AAAAT-TTTTTTTGAAATA
8646876 AAAATTTTTTT
1 AAAATTTTTTT
8646887 ACTAAGATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 6 0.21
19 6 0.21
20 16 0.57
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (18 bp):
AAAATTTTTTTTGAAATA
Found at i:8647107 original size:3 final size:3
Alignment explanation
Indices: 8647099--8647143 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
8647089 TTAAAACTAG
8647099 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
8647144 GCAAAAACTA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:8651008 original size:73 final size:73
Alignment explanation
Indices: 8650888--8651066 Score: 182
Period size: 73 Copynumber: 2.5 Consensus size: 73
8650878 ATCACCCCCT
* * * * **
8650888 TGAACCAATCGATCTCCTCAAGGAAAGGATCGATCAAGTAGGTATTTTCAAGGGCATAATTGGTT
1 TGAACCAATCGATCCCCTCATGGAAAGGATCGATCAAGTAGGTATTTTCAAAGGCATAAATGGCA
8650953 CCAAAACA
66 CCAAAACA
* * * * * * **
8650961 TGAACCAATCAATCCCCTCATGGAAGGGATTGATCGAGTCATG-ATTTTTAAAGGTGTAAATGGC
1 TGAACCAATCGATCCCCTCATGGAAAGGATCGATCAAGT-AGGTATTTTCAAAGGCATAAATGGC
*
8651025 ACCTAAACA
65 ACCAAAACA
* *
8651034 TAAACCAATCGATCCCCTCAT-GAAAAGATCGAT
1 TGAACCAATCGATCCCCTCATGGAAAGGATCGAT
8651067 AAGATCTGGG
Statistics
Matches: 85, Mismatches: 20, Indels: 3
0.79 0.19 0.03
Matches are distributed among these distances:
72 9 0.11
73 74 0.87
74 2 0.02
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.25
Consensus pattern (73 bp):
TGAACCAATCGATCCCCTCATGGAAAGGATCGATCAAGTAGGTATTTTCAAAGGCATAAATGGCA
CCAAAACA
Found at i:8667760 original size:22 final size:23
Alignment explanation
Indices: 8667731--8667787 Score: 80
Period size: 22 Copynumber: 2.5 Consensus size: 23
8667721 CCTCATTTTC
8667731 AAGCTGAAACTTTAGGCC-AATG
1 AAGCTGAAACTTTAGGCCAAATG
* *
8667753 GAGCTGAAACTCTAGGCCAAATG
1 AAGCTGAAACTTTAGGCCAAATG
*
8667776 AAGCTAAAACTT
1 AAGCTGAAACTT
8667788 AAGCTAGTGG
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 16 0.55
23 13 0.45
ACGTcount: A:0.39, C:0.19, G:0.21, T:0.21
Consensus pattern (23 bp):
AAGCTGAAACTTTAGGCCAAATG
Found at i:8667950 original size:9 final size:9
Alignment explanation
Indices: 8667934--8667971 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
8667924 TTTACCTTAA
8667934 ATTTTTATT
1 ATTTTTATT
*
8667943 AATTTTA-T
1 ATTTTTATT
8667951 ATTATTTATT
1 ATT-TTTATT
8667961 ATTTTTATT
1 ATTTTTATT
8667970 AT
1 AT
8667972 CATTATGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
8 3 0.12
9 18 0.72
10 4 0.16
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (9 bp):
ATTTTTATT
Found at i:8667960 original size:18 final size:17
Alignment explanation
Indices: 8667937--8668003 Score: 59
Period size: 18 Copynumber: 3.9 Consensus size: 17
8667927 ACCTTAAATT
8667937 TTTATTAATTTTATATTA
1 TTTATT-ATTTTATATTA
8667955 TTTATTATTTT-TATTA
1 TTTATTATTTTATATTA
*
8667971 -TCATTATGTTTAT-TATA
1 TTTATTAT-TTTATAT-TA
*
8667988 TTTATTTAATTTATAT
1 TTTA-TTATTTTATAT
8668004 ATATACATAT
Statistics
Matches: 40, Mismatches: 3, Indels: 11
0.74 0.06 0.20
Matches are distributed among these distances:
15 6 0.15
16 9 0.22
17 8 0.20
18 13 0.32
19 4 0.10
ACGTcount: A:0.30, C:0.01, G:0.01, T:0.67
Consensus pattern (17 bp):
TTTATTATTTTATATTA
Found at i:8670703 original size:57 final size:57
Alignment explanation
Indices: 8670639--8670756 Score: 175
Period size: 57 Copynumber: 2.1 Consensus size: 57
8670629 CATTTTTACT
* *
8670639 TTTTGACTTACAGTTCAATGTCGGTCTATTTTTTAACTTGTAATTTCA-TCTCGATCA
1 TTTTGACTTACAGTTCAATGCCGGTCTATTTTTTAACTTGTAATTT-AGTCCCGATCA
* * *
8670696 TTTTGACTTACATTTCAATGCCGGTCTATTTTTTGACTTGTGATTTAGTCCCGATCA
1 TTTTGACTTACAGTTCAATGCCGGTCTATTTTTTAACTTGTAATTTAGTCCCGATCA
8670753 TTTT
1 TTTT
8670757 TATTTTCTGA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
56 1 0.02
57 54 0.98
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (57 bp):
TTTTGACTTACAGTTCAATGCCGGTCTATTTTTTAACTTGTAATTTAGTCCCGATCA
Found at i:8670730 original size:30 final size:30
Alignment explanation
Indices: 8670638--8670734 Score: 89
Period size: 30 Copynumber: 3.3 Consensus size: 30
8670628 TCATTTTTAC
* *
8670638 TTTTTGACTTACAGTTCAATGTCGGTCTAT
1 TTTTTGACTTACATTTCAATGCCGGTCTAT
* *
8670668 TTTTTAACTTGTA-ATTTC-AT-CTCGATC-A-
1 TTTTTGAC-T-TACATTTCAATGC-CGGTCTAT
8670696 -TTTTGACTTACATTTCAATGCCGGTCTAT
1 TTTTTGACTTACATTTCAATGCCGGTCTAT
8670725 TTTTTGACTT
1 TTTTTGACTT
8670735 GTGATTTAGT
Statistics
Matches: 52, Mismatches: 6, Indels: 18
0.68 0.08 0.24
Matches are distributed among these distances:
25 2 0.04
26 6 0.12
27 12 0.23
28 2 0.04
29 1 0.02
30 22 0.42
31 5 0.10
32 2 0.04
ACGTcount: A:0.21, C:0.18, G:0.12, T:0.49
Consensus pattern (30 bp):
TTTTTGACTTACATTTCAATGCCGGTCTAT
Found at i:8670768 original size:35 final size:35
Alignment explanation
Indices: 8670722--8670875 Score: 193
Period size: 35 Copynumber: 4.4 Consensus size: 35
8670712 AATGCCGGTC
*
8670722 TATTTTTTGACTTGTGATTTAGTCCCGATCATTTT
1 TATTTTTTGACTTATGATTTAGTCCCGATCATTTT
* *
8670757 TATTTTCTGACTTATGATTTAGTCCAGATCATTTT
1 TATTTTTTGACTTATGATTTAGTCCCGATCATTTT
* * *
8670792 TATTTTTCTAACTTATGATTTAGTCTCAATCATTTT
1 TATTTTT-TGACTTATGATTTAGTCCCGATCATTTT
* * * *
8670828 AATTTTTTGATTTATGATTCA-ACCTCGATCATTTT
1 TATTTTTTGACTTATGATTTAGTCC-CGATCATTTT
8670863 TATTTTTTGACTT
1 TATTTTTTGACTT
8670876 GTGGTACAAT
Statistics
Matches: 100, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
34 1 0.01
35 69 0.69
36 30 0.30
ACGTcount: A:0.22, C:0.14, G:0.10, T:0.55
Consensus pattern (35 bp):
TATTTTTTGACTTATGATTTAGTCCCGATCATTTT
Found at i:8670813 original size:71 final size:70
Alignment explanation
Indices: 8670722--8670875 Score: 184
Period size: 71 Copynumber: 2.2 Consensus size: 70
8670712 AATGCCGGTC
* * * * * *
8670722 TATTTTTTGACTTGTGATTTAGTCCCGATCATTTTTATTTTCTGACTTATGATTTAGTCC-AGAT
1 TATTTTTTAACTTATGATTTAGTCCCAATCATTTTAATTTTCTGACTTATGATTCA-ACCTAGAT
8670786 CATTTT
65 CATTTT
* * * *
8670792 TATTTTTCTAACTTATGATTTAGTCTCAATCATTTTAATTTTTTGATTTATGATTCAACCTCGAT
1 TATTTTT-TAACTTATGATTTAGTCCCAATCATTTTAATTTTCTGACTTATGATTCAACCTAGAT
8670857 CATTTT
65 CATTTT
*
8670863 TATTTTTTGACTT
1 TATTTTTTAACTT
8670876 GTGGTACAAT
Statistics
Matches: 71, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
70 14 0.20
71 57 0.80
ACGTcount: A:0.22, C:0.14, G:0.10, T:0.55
Consensus pattern (70 bp):
TATTTTTTAACTTATGATTTAGTCCCAATCATTTTAATTTTCTGACTTATGATTCAACCTAGATC
ATTTT
Found at i:8671670 original size:142 final size:145
Alignment explanation
Indices: 8671474--8671790 Score: 374
Period size: 142 Copynumber: 2.2 Consensus size: 145
8671464 AAAACTCTTC
* * * * * *
8671474 ATCATGTTTAAATATTAGTTCATGAATTTTGATGCATCAAAAATTTTGATTGTACCTTAAAAGGA
1 ATCATGTTTAAATATTATTTCATGAATTTTGATGCATCAAAAATCTTAACTGTACCTCAAAAGAA
* * * *
8671539 GTGAAATTATTAAAATG-CCTTTTAAGGA-TGTTTTTATAATTTAGCC-TTTT-AAGGACAATTT
66 GTGAAATTACTAAAA-GACCATTT-AGGAGTATTTTTATAATTTAACCTTTTTCAAGGACAATTT
* *
8671600 TTTATGAAAAGCACCAT
129 TTCATGAAAAGCACCAG
* *
8671617 ATCA-GTTTAAATATTATTTCATGAATTTTGATGCATTAAAAATCTTAACTGTACCTCAAAATAA
1 ATCATGTTTAAATATTATTTCATGAATTTTGATGCATCAAAAATCTTAACTGTACCTCAAAAGAA
* * * * * *
8671681 GTGGAATTACTAAAAGATCATTTAGGAGTATTTTTGTAATTTAACCTTTTTCGAGGTCGATTTTT
66 GTGAAATTACTAAAAGACCATTTAGGAGTATTTTTATAATTTAACCTTTTTCAAGGACAATTTTT
* *
8671746 CATGAAAAGCTCTAG
131 CATGAAAAGCACCAG
*
8671761 ATCATATTTAAATATTATTTCATGAATTTT
1 ATCATGTTTAAATATTATTTCATGAATTTT
8671791 AAAGTATGGA
Statistics
Matches: 146, Mismatches: 23, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
141 5 0.03
142 84 0.58
143 8 0.05
144 25 0.17
145 24 0.16
ACGTcount: A:0.35, C:0.10, G:0.13, T:0.41
Consensus pattern (145 bp):
ATCATGTTTAAATATTATTTCATGAATTTTGATGCATCAAAAATCTTAACTGTACCTCAAAAGAA
GTGAAATTACTAAAAGACCATTTAGGAGTATTTTTATAATTTAACCTTTTTCAAGGACAATTTTT
CATGAAAAGCACCAG
Found at i:8673830 original size:21 final size:20
Alignment explanation
Indices: 8673790--8673836 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
8673780 CATGGTAAAT
8673790 CCTAAATCCCAAAACAAAAC
1 CCTAAATCCCAAAACAAAAC
*
8673810 CTTAAAT-CCAAAAGCCAAAAC
1 CCTAAATCCCAAAA--CAAAAC
8673831 CCTAAA
1 CCTAAA
8673837 AAACAACCCT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 6 0.26
20 6 0.26
21 11 0.48
ACGTcount: A:0.53, C:0.32, G:0.02, T:0.13
Consensus pattern (20 bp):
CCTAAATCCCAAAACAAAAC
Found at i:8676776 original size:15 final size:16
Alignment explanation
Indices: 8676743--8676780 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
8676733 TTTTCTTTTA
8676743 ATTGAATAAATTCAAT
1 ATTGAATAAATTCAAT
8676759 ATTGAA-AAATT-AAGT
1 ATTGAATAAATTCAA-T
8676774 ATTGAAT
1 ATTGAAT
8676781 TTTTAGTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 2 0.10
15 12 0.60
16 6 0.30
ACGTcount: A:0.50, C:0.03, G:0.11, T:0.37
Consensus pattern (16 bp):
ATTGAATAAATTCAAT
Found at i:8677163 original size:2 final size:2
Alignment explanation
Indices: 8677156--8677181 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
8677146 CAAAGAAGTT
8677156 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
8677182 GGGGATCAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8681458 original size:29 final size:29
Alignment explanation
Indices: 8681411--8681540 Score: 108
Period size: 30 Copynumber: 4.4 Consensus size: 29
8681401 AAGATTCGAA
* *
8681411 TTTTAAGGG-TTTGGATTTAAGTTTTAAGGG
1 TTTT-AGGGTTTTGGTTTTAAGTTTGAA-GG
*
8681441 TTTTAGGG-TTTGGTTTTAAGGTATGAAAGG
1 TTTTAGGGTTTTGGTTTTAA-GTTTG-AAGG
* *
8681471 -TTTAGGGTTTTGATTTTAGAGTTTGAAGA
1 TTTTAGGGTTTTGGTTTTA-AGTTTGAAGG
*
8681500 TTTTAGGGTTTTGGTTTTAAAATTTG-AGG
1 TTTTAGGGTTTTGGTTTT-AAGTTTGAAGG
*
8681529 -TTTGGGGTTTTG
1 TTTTAGGGTTTTG
8681541 ATTTAAGGAT
Statistics
Matches: 84, Mismatches: 10, Indels: 14
0.78 0.09 0.13
Matches are distributed among these distances:
28 11 0.13
29 26 0.31
30 43 0.51
31 4 0.05
ACGTcount: A:0.21, C:0.00, G:0.31, T:0.48
Consensus pattern (29 bp):
TTTTAGGGTTTTGGTTTTAAGTTTGAAGG
Found at i:8681473 original size:30 final size:31
Alignment explanation
Indices: 8681411--8681589 Score: 107
Period size: 30 Copynumber: 6.1 Consensus size: 31
8681401 AAGATTCGAA
* * *
8681411 TTTTAAGGG-TTTGGATTTAA-GTTTTAAGGG
1 TTTT-AGGGTTTTGGTTTTAAGGTTTGAAAGG
*
8681441 TTTTAGGG-TTTGGTTTTAAGGTATGAAAGG
1 TTTTAGGGTTTTGGTTTTAAGGTTTGAAAGG
* *
8681471 -TTTAGGGTTTTGATTTT-AGAGTTTG-AAGA
1 TTTTAGGGTTTTGGTTTTAAG-GTTTGAAAGG
**
8681500 TTTTAGGGTTTTGGTTTTAAAATTTG--AGG
1 TTTTAGGGTTTTGGTTTTAAGGTTTGAAAGG
* * *
8681529 -TTTGGGGTTTT-GATTTAAGGATTT---AGA
1 TTTTAGGGTTTTGGTTTTAAGG-TTTGAAAGG
* *
8681556 TTTTAGGGGTTTGGATTTAAGAGTTT-AAAGG
1 TTTTAGGGTTTTGGTTTTAAG-GTTTGAAAGG
8681587 TTT
1 TTT
8681590 GGGATTTCGG
Statistics
Matches: 119, Mismatches: 19, Indels: 21
0.75 0.12 0.13
Matches are distributed among these distances:
27 8 0.07
28 22 0.18
29 39 0.33
30 44 0.37
31 6 0.05
ACGTcount: A:0.23, C:0.00, G:0.30, T:0.47
Consensus pattern (31 bp):
TTTTAGGGTTTTGGTTTTAAGGTTTGAAAGG
Found at i:8681480 original size:58 final size:56
Alignment explanation
Indices: 8681416--8681603 Score: 159
Period size: 58 Copynumber: 3.2 Consensus size: 56
8681406 TCGAATTTTA
*
8681416 AGGGTTTGGATTTAAGTTTTAAGGGTTTTAGGGTTTGGTTTTAAGGTATGAAAGGTTT
1 AGGGTTTGGATTTAAGTTTTAA-GATTTTAGGGTTTGGTTTTAAGGT-TGAAAGGTTT
* * **
8681474 AGGGTTTTGATTTTAGAGTTTGAAGATTTTAGGGTTTTGGTTTTAAAATTTG--AGGTTT
1 AGGGTTTGGA-TTTA-AGTTTTAAGATTTTAGGG-TTTGGTTTT-AAGGTTGAAAGGTTT
* * * * *
8681532 GGGGTTTTGATTTAAGGATTT-AGATTTTAGGGGTTTGGATTTAAGAGTTTAAAGGTTT
1 AGGGTTTGGATTTAA-GTTTTAAGATTTTA-GGGTTTGGTTTTAAG-GTTGAAAGGTTT
8681590 -GGGATTTCGGATTT
1 AGGG-TTT-GGATTT
8681604 TAGGGGGTTT
Statistics
Matches: 106, Mismatches: 13, Indels: 21
0.76 0.09 0.15
Matches are distributed among these distances:
55 2 0.02
56 19 0.18
57 13 0.12
58 33 0.31
59 18 0.17
60 18 0.17
61 3 0.03
ACGTcount: A:0.22, C:0.01, G:0.31, T:0.46
Consensus pattern (56 bp):
AGGGTTTGGATTTAAGTTTTAAGATTTTAGGGTTTGGTTTTAAGGTTGAAAGGTTT
Found at i:8681494 original size:14 final size:14
Alignment explanation
Indices: 8681471--8681677 Score: 58
Period size: 15 Copynumber: 13.8 Consensus size: 14
8681461 GTATGAAAGG
8681471 TTTAGGGTTTTGAT
1 TTTAGGGTTTTGAT
* *
8681485 TTTAGAGTTTGAAGAT
1 TTTAGGGTTT--TGAT
*
8681501 TTTAGGGTTTTGGT
1 TTTAGGGTTTTGAT
*** *
8681515 TTTA-AAATTTGAGG
1 TTTAGGGTTTTGA-T
*
8681529 TTTGGGGTTTTGAT
1 TTTAGGGTTTTGAT
* * *
8681543 TTAAGGATTTAGAT
1 TTTAGGGTTTTGAT
*
8681557 TTTAGGGGTTTGGAT
1 TTTA-GGGTTTTGAT
* * ** *
8681572 TTAAGAGTTTAAAGG
1 TTTAGGGTTTTGA-T
*
8681587 TTT-GGGATTTCGGAT
1 TTTAGGG-TTT-TGAT
8681602 TTTAGGGGGTTTTGGAT
1 TTTA--GGGTTTT-GAT
*
8681619 TTTAGGATTTTGGAT
1 TTTAGGGTTTT-GAT
* *
8681634 TTTAAGATTTTAGATT
1 TTTAGGGTTTT-GA-T
*
8681650 TTTGGGGATTTTGGAT
1 TTTAGGG-TTTT-GAT
8681666 TTTAAGGGTTTT
1 TTT-AGGGTTTT
8681678 AAAAACCTAT
Statistics
Matches: 137, Mismatches: 41, Indels: 28
0.67 0.20 0.14
Matches are distributed among these distances:
13 4 0.03
14 39 0.28
15 46 0.34
16 26 0.19
17 19 0.14
18 3 0.02
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.49
Consensus pattern (14 bp):
TTTAGGGTTTTGAT
Found at i:8681572 original size:29 final size:29
Alignment explanation
Indices: 8681471--8681582 Score: 88
Period size: 29 Copynumber: 3.9 Consensus size: 29
8681461 GTATGAAAGG
* * *
8681471 TTTA-GGGTTTTGATTTTAGAGTTTGAAGAT
1 TTTAGGGGTTTGGATTTAAGAATTT--AGAT
* * *
8681501 TTTAGGGTTTTGGTTTTAA-AATTT-GAGG
1 TTTAGGGGTTTGGATTTAAGAATTTAGA-T
* *
8681529 TTT-GGGGTTTTGATTTAAGGATTTAGAT
1 TTTAGGGGTTTGGATTTAAGAATTTAGAT
*
8681557 TTTAGGGGTTTGGATTTAAGAGTTTA
1 TTTAGGGGTTTGGATTTAAGAATTTA
8681583 AAGGTTTGGG
Statistics
Matches: 63, Mismatches: 14, Indels: 11
0.72 0.16 0.12
Matches are distributed among these distances:
27 14 0.22
28 10 0.16
29 21 0.33
30 8 0.13
31 10 0.16
ACGTcount: A:0.22, C:0.00, G:0.29, T:0.49
Consensus pattern (29 bp):
TTTAGGGGTTTGGATTTAAGAATTTAGAT
Found at i:8681628 original size:8 final size:8
Alignment explanation
Indices: 8681611--8681669 Score: 54
Period size: 7 Copynumber: 7.6 Consensus size: 8
8681601 TTTTAGGGGG
8681611 TTTT-GGA
1 TTTTAGGA
8681618 TTTTAGGA
1 TTTTAGGA
8681626 TTTT-GGA
1 TTTTAGGA
*
8681633 TTTTAAGA
1 TTTTAGGA
8681641 TTTTA-GA
1 TTTTAGGA
*
8681648 TTTTTGGGGA
1 -TTTT-AGGA
8681658 TTTT-GGA
1 TTTTAGGA
8681665 TTTTA
1 TTTTA
8681670 AGGGTTTTAA
Statistics
Matches: 44, Mismatches: 2, Indels: 11
0.77 0.04 0.19
Matches are distributed among these distances:
7 20 0.45
8 18 0.41
9 4 0.09
10 2 0.05
ACGTcount: A:0.20, C:0.00, G:0.24, T:0.56
Consensus pattern (8 bp):
TTTTAGGA
Found at i:8682092 original size:17 final size:17
Alignment explanation
Indices: 8682052--8682098 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
8682042 ATCATGCATG
*
8682052 AATATAAAAAAATACTC
1 AATATAAAAAAATAATC
*
8682069 AAAATAACAAAAATAAT-
1 AATATAA-AAAAATAATC
8682086 AATATAAAAAAAT
1 AATATAAAAAAAT
8682099 TAAAAAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
16 6 0.23
17 12 0.46
18 8 0.31
ACGTcount: A:0.72, C:0.06, G:0.00, T:0.21
Consensus pattern (17 bp):
AATATAAAAAAATAATC
Found at i:8682786 original size:18 final size:17
Alignment explanation
Indices: 8682743--8682785 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
8682733 ACTATGTTTG
8682743 TCTTTTTTTCTTTTGTT
1 TCTTTTTTTCTTTTGTT
*
8682760 TCTGTTTTTCTGTTTGTT
1 TCTTTTTTTCT-TTTGTT
8682778 T-TTTTTTT
1 TCTTTTTTT
8682786 TTGTGGTTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 16 0.70
18 7 0.30
ACGTcount: A:0.00, C:0.09, G:0.09, T:0.81
Consensus pattern (17 bp):
TCTTTTTTTCTTTTGTT
Found at i:8683131 original size:21 final size:21
Alignment explanation
Indices: 8683088--8683140 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
8683078 TTTTATTATT
* *
8683088 ATTATT-ATATT-TTTTTTAA
1 ATTATTAATATTATTATTAAA
8683107 ATTATTAATATTATTATTAAA
1 ATTATTAATATTATTATTAAA
8683128 ATTATTAATATTA
1 ATTATTAATATTA
8683141 AATGAAATGA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 6 0.20
20 5 0.17
21 19 0.63
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
ATTATTAATATTATTATTAAA
Found at i:8683515 original size:87 final size:88
Alignment explanation
Indices: 8683396--8683562 Score: 246
Period size: 88 Copynumber: 1.9 Consensus size: 88
8683386 CATGTTCGAA
* * *
8683396 GGTCTTACAGAATCGACCAAGATAACACCACAAGT-AAAAAATAATGAATCGATCGGGACAACAC
1 GGTCTTACAAAATCGACCAAGACAACACCACAAGTCAAAAAATAAAGAATCGATCGGGACAACAC
8683460 CGCGAATCAAATTTACGCCTGGT
66 CGCGAATCAAATTTACGCCTGGT
*** * *
8683483 GGTCTTACAAAATCGACTGGGACAACATCACAAGTCAAAAAATAAAGAATCGATTGGGACAACAC
1 GGTCTTACAAAATCGACCAAGACAACACCACAAGTCAAAAAATAAAGAATCGATCGGGACAACAC
*
8683548 CGCGAATCGAATTTA
66 CGCGAATCAAATTTA
8683563 TGCCCGGACG
Statistics
Matches: 70, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
87 29 0.41
88 41 0.59
ACGTcount: A:0.41, C:0.22, G:0.19, T:0.19
Consensus pattern (88 bp):
GGTCTTACAAAATCGACCAAGACAACACCACAAGTCAAAAAATAAAGAATCGATCGGGACAACAC
CGCGAATCAAATTTACGCCTGGT
Found at i:8683634 original size:110 final size:110
Alignment explanation
Indices: 8683484--8683797 Score: 364
Period size: 110 Copynumber: 2.9 Consensus size: 110
8683474 ACGCCTGGTG
* * *
8683484 GTCTTACAAAATCGACTGGGACAACATCACAAGTCAAAAAATAAAGAATCGATTGGGACAACACC
1 GTCTTACAGAATCGACTGGGACAACATCGCAAGTCAAAAAATAAAGAATCGATTGGGATAACACC
* * * *
8683549 GCGAATCGAATTTATGCCCGGACGTCTTAGAAATCATGCCT-GAAA
66 ACGAATCGAATTTATGCACGGAGGTCTTAGAAATAATG-CTAGAAA
** * *
8683594 GTCTTACAGAATCGACTGGGACAACATCGCAAGTTGAAAAATAAGGAATCGATTGGGATAACACT
1 GTCTTACAGAATCGACTGGGACAACATCGCAAGTCAAAAAATAAAGAATCGATTGGGATAACACC
** * ** * *
8683659 ATAAATCAAATTTATGCTTGGAGGTCTTAGAAATAATGCTAGGAG
66 ACGAATCGAATTTATGCACGGAGGTCTTAGAAATAATGCTAGAAA
* * * * * *
8683704 GTCTTACAGAATCGTCTGAGATAACA-CTGTAAGTCAAAAAATCAAGAATCGATCT-TGATAACA
1 GTCTTACAGAATCGACTGGGACAACATC-GCAAGTCAAAAAATAAAGAATCGAT-TGGGATAACA
8683767 CCACGAATCGAATTTATGCACGGAGGTCTTA
64 CCACGAATCGAATTTATGCACGGAGGTCTTA
8683798 TAGAATCGAC
Statistics
Matches: 169, Mismatches: 32, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
109 3 0.02
110 165 0.98
111 1 0.01
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.24
Consensus pattern (110 bp):
GTCTTACAGAATCGACTGGGACAACATCGCAAGTCAAAAAATAAAGAATCGATTGGGATAACACC
ACGAATCGAATTTATGCACGGAGGTCTTAGAAATAATGCTAGAAA
Found at i:8683805 original size:198 final size:198
Alignment explanation
Indices: 8683594--8684050 Score: 501
Period size: 198 Copynumber: 2.3 Consensus size: 198
8683584 ATGCCTGAAA
* * * * *
8683594 GTCTTACAGAATCGACTGGGACAACATCGCAAGTTGAAAAATAAGGAATCGATTGGGATAACA-C
1 GTCTTACAGAATCGACTGGGATAACATCGTAAGTTAAAAAATAAAGAATCGATCGGGATAACATC
* * * * * * *
8683658 TATAAATCAAATTTATG-CTTGGAGGTCTTAGAAATAATGCTAGGAGGTCTTACAGAATCGTCTG
66 -ATAAACCAAAATTATGTC-CGAAGGTCTTAAAAATAATGCCAGGAGGTCTTACAGAATCGACTG
*** ** *
8683722 AGATAACACTGTAAGTCAAAAAATCAA-GAATCGATCTTGATAACACCACGAATCGAATTTATGC
129 AGATAACACAACAAGTCAAAAAAT-AAGGAATCGATCGAGATAACACCACGAATCGAAATTATGC
*
8683786 ACGGAG
193 ACAGAG
*
8683792 GTCTTATAGAATCGACTGGGATAACATCGTAA-TTCAAAAGAA-AAAGAATCGATCGGGATAACA
1 GTCTTACAGAATCGACTGGGATAACATCGTAAGTT-AAAA-AATAAAGAATCGATCGGGATAACA
* * * * *
8683855 TCGTGAACCAAAATTATGTCCGAATGTCTTAAAAATCATGCCCGGAGGTCTTACAGAATCGACTG
64 TCATAAACCAAAATTATGTCCGAAGGTCTTAAAAATAATGCCAGGAGGTCTTACAGAATCGACTG
* * * * *** *
8683920 GGATAACACAACAAGTCGAAAGATAAGGAATTGATCGAGATAACATTGCGAATCGAAATTATGCT
129 AGATAACACAACAAGTCAAAAAATAAGGAATCGATCGAGATAACACCACGAATCGAAATTATGCA
8683985 CAGAG
194 CAGAG
* * * *
8683990 GTCTTACAGAATCGACTAGGATAAAACCGTAAGTCAAAAAATAAAGAATCGATCGGGATAA
1 GTCTTACAGAATCGACTGGGATAACATCGTAAGTTAAAAAATAAAGAATCGATCGGGATAA
8684051 AATCGCGAAT
Statistics
Matches: 214, Mismatches: 38, Indels: 14
0.80 0.14 0.05
Matches are distributed among these distances:
197 6 0.03
198 203 0.95
199 5 0.02
ACGTcount: A:0.40, C:0.16, G:0.21, T:0.23
Consensus pattern (198 bp):
GTCTTACAGAATCGACTGGGATAACATCGTAAGTTAAAAAATAAAGAATCGATCGGGATAACATC
ATAAACCAAAATTATGTCCGAAGGTCTTAAAAATAATGCCAGGAGGTCTTACAGAATCGACTGAG
ATAACACAACAAGTCAAAAAATAAGGAATCGATCGAGATAACACCACGAATCGAAATTATGCACA
GAG
Found at i:8683872 original size:88 final size:88
Alignment explanation
Indices: 8683700--8683872 Score: 197
Period size: 88 Copynumber: 2.0 Consensus size: 88
8683690 AATAATGCTA
* * **
8683700 GGAGGTCTTACAGAATCGTCTGAGATAACACTGTAAGTCAAAAAATCAAGAATCGATCTTGATAA
1 GGAGGTCTTACAGAATCGACTGAGATAACACTGTAAGTCAAAAAATAAAGAATCGATCGGGATAA
* * *
8683765 CACCACGAATCGAATTTATGCAC
66 CACCACGAACCAAAATTATGCAC
* * *
8683788 GGAGGTCTTATAGAATCGACTGGGATAACA-TCGTAATTCAAAAGAA-AAAGAATCGATCGGGAT
1 GGAGGTCTTACAGAATCGACTGAGATAACACT-GTAAGTCAAAA-AATAAAGAATCGATCGGGAT
* **
8683851 AACATCGTGAACCAAAATTATG
64 AACACCACGAACCAAAATTATG
8683873 TCCGAATGTC
Statistics
Matches: 70, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
87 1 0.01
88 67 0.96
89 2 0.03
ACGTcount: A:0.40, C:0.17, G:0.20, T:0.23
Consensus pattern (88 bp):
GGAGGTCTTACAGAATCGACTGAGATAACACTGTAAGTCAAAAAATAAAGAATCGATCGGGATAA
CACCACGAACCAAAATTATGCAC
Found at i:8683980 original size:110 final size:110
Alignment explanation
Indices: 8683782--8683982 Score: 260
Period size: 110 Copynumber: 1.8 Consensus size: 110
8683772 AATCGAATTT
* ** *
8683782 ATGCACGGAGGTCTTATAGAATCGACTGGGATAACATCGTAATTCAAAAGAAAAAGAATCGATCG
1 ATGCACGGAGGTCTTACAGAATCGACTGGGATAACATCACAAGTCAAAAGAAAAAGAATCGATCG
* *
8683847 GGATAACATCGTGAACCAAAATTATGTCCGAATGTCTTAAAAATC
66 AGATAACATCGCGAACCAAAATTATGTCCGAATGTCTTAAAAATC
* * * * *
8683892 ATGCCCGGAGGTCTTACAGAATCGACTGGGATAACA-CAACAAGTCGAAAGATAAGGAATTGATC
1 ATGCACGGAGGTCTTACAGAATCGACTGGGATAACATC-ACAAGTCAAAAGAAAAAGAATCGATC
* * *
8683956 GAGATAACATTGCGAATCGAAATTATG
65 GAGATAACATCGCGAACCAAAATTATG
8683983 CTCAGAGGTC
Statistics
Matches: 76, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
109 1 0.01
110 75 0.99
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.22
Consensus pattern (110 bp):
ATGCACGGAGGTCTTACAGAATCGACTGGGATAACATCACAAGTCAAAAGAAAAAGAATCGATCG
AGATAACATCGCGAACCAAAATTATGTCCGAATGTCTTAAAAATC
Found at i:8683984 original size:308 final size:307
Alignment explanation
Indices: 8683316--8683995 Score: 760
Period size: 308 Copynumber: 2.2 Consensus size: 307
8683306 GATGACACCG
** * * *
8683316 CAAGTCGAAAAATAATAAATCGATCGAGATAACACCGCGAATCGAATTTATG-TTCGGAGGTCCT
1 CAAGTCGAAAAATAAGGAATCGATCGAGATAACACTGCGAATCGAAATTATGCTT-GGAGGTCTT
* * *
8683380 AGAAATCATGTTCGAAGGTCTTACAGAATCGACCAAGATAACACCACAAGTAAAAAATAATGAAT
65 AGAAATAATGCTAGAAGGTCTTACAGAATCGACCAAGATAACACCACAAGTAAAAAATAATGAAT
* *
8683445 CGATCGGGACAACACCGCGAATCAAATTTACGCCTGGTGGTCTTACAAAATCGACTGGGACAACA
130 CGATCGGGACAACACCACGAATCAAATTTACGCCTGGAGGTCTTACAAAATCGACTGGGACAACA
* * * * *
8683510 TCACAAGTCAAAAAATAAAGAATCGATTGGGACAACACCGCGAATCGAATTTATGCCCGGACGTC
195 TCACAAGTCAAAAAATAAAGAATCGATCGGGACAACACCGCGAACCAAAATTATGCCCGAACGTC
* * *
8683575 TTAGAAATCATGCCTGAAAGTCTTACAGAATCGACTGGGACAACATCG
260 TTAAAAATCATGCCCGAAAGTCTTACAGAATCGACTGGGACAACATCA
* * * ***
8683623 CAAGTTGAAAAATAAGGAATCGATTGGGATAACACTATAAATC-AAATTTATGCTTGGAGGTCTT
1 CAAGTCGAAAAATAAGGAATCGATCGAGATAACACTGCGAATCGAAA-TTATGCTTGGAGGTCTT
* * ** ***
8683687 AGAAATAATGCTAGGAGGTCTTACAGAATCGTCTGAGATAACACTGTAAGTCAAAAAATCAA-GA
65 AGAAATAATGCTAGAAGGTCTTACAGAATCGACCAAGATAACACCACAAGT-AAAAAAT-AATGA
** * * * * * *
8683751 ATCGATCTTGATAACACCACGAATCGAATTTATGCAC-GGAGGTCTTATAGAATCGACTGGGATA
128 ATCGATCGGGACAACACCACGAATCAAATTTACGC-CTGGAGGTCTTACAAAATCGACTGGGACA
** * * * * *
8683815 ACATCGTAATTCAAAAGAA-AAAGAATCGATCGGGATAACATCGTGAACCAAAATTATGTCCGAA
192 ACATCACAAGTCAAAA-AATAAAGAATCGATCGGGACAACACCGCGAACCAAAATTATGCCCGAA
* * * *
8683879 TGTCTTAAAAATCATGCCCGGAGGTCTTACAGAATCGACTGGGATAACA-CAA
256 CGTCTTAAAAATCATGCCCGAAAGTCTTACAGAATCGACTGGGACAACATC-A
* * * **
8683931 CAAGTCGAAAGATAAGGAATTGATCGAGATAACATTGCGAATCGAAATTATGCTCAGAGGTCTTA
1 CAAGTCGAAAAATAAGGAATCGATCGAGATAACACTGCGAATCGAAATTATGCTTGGAGGTCTTA
8683996 CAGAATCGAC
Statistics
Matches: 304, Mismatches: 61, Indels: 15
0.80 0.16 0.04
Matches are distributed among these distances:
306 2 0.01
307 89 0.29
308 205 0.67
309 8 0.03
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.23
Consensus pattern (307 bp):
CAAGTCGAAAAATAAGGAATCGATCGAGATAACACTGCGAATCGAAATTATGCTTGGAGGTCTTA
GAAATAATGCTAGAAGGTCTTACAGAATCGACCAAGATAACACCACAAGTAAAAAATAATGAATC
GATCGGGACAACACCACGAATCAAATTTACGCCTGGAGGTCTTACAAAATCGACTGGGACAACAT
CACAAGTCAAAAAATAAAGAATCGATCGGGACAACACCGCGAACCAAAATTATGCCCGAACGTCT
TAAAAATCATGCCCGAAAGTCTTACAGAATCGACTGGGACAACATCA
Found at i:8684012 original size:88 final size:88
Alignment explanation
Indices: 8683899--8684255 Score: 373
Period size: 88 Copynumber: 4.1 Consensus size: 88
8683889 ATCATGCCCG
* * * * * * *
8683899 GAGGTCTTACAGAATCGACTGGGATAACACAACAAGTCGAAAGATAAGGAATTGATCGAGATAAC
1 GAGGTCTTACAGAATCGACTAGGATAACACCATAAGTCAAAAAATAAGAAATCGATCGAGATAAC
*
8683964 ATTGCGAATCGAAATTATGCTCA
66 ATCGCGAATCGAAATTATGCTCA
* * *
8683987 GAGGTCTTACAGAATCGACTAGGATAAAACCGTAAGTCAAAAAATAA-AGAATCGATCGGGATAA
1 GAGGTCTTACAGAATCGACTAGGATAACACCATAAGTCAAAAAATAAGA-AATCGATCGAGATAA
* * * *
8684051 AATCGCGAATCGAATTTATGCCCG
65 CATCGCGAATCGAAATTATGCTCA
* * * * * **
8684075 GAGATCTTA-AGAATTGACTGGGATAACACCATAAGTC-AAAGAGAAGAAATTAATCG-GAATAA
1 GAGGTCTTACAGAATCGACTAGGATAACACCATAAGTCAAAAAATAAGAAATCGATCGAG-ATAA
* *
8684137 CATCGCGAATCAAAATTATGC-CT
65 CATCGCGAATCGAAATTATGCTCA
* * *
8684160 GAAGGTCTTACAGAATCGACTAGGATAACATCGTAAGTCAAAAAATAAGAAATCGATCAAGATAA
1 G-AGGTCTTACAGAATCGACTAGGATAACACCATAAGTCAAAAAATAAGAAATCGATCGAGATAA
* * * *
8684225 TACCGTGAATTGAAATTATGCTCA
65 CATCGCGAATCGAAATTATGCTCA
8684249 GAGGTCT
1 GAGGTCT
8684256 CAGAAATCAT
Statistics
Matches: 217, Mismatches: 44, Indels: 16
0.78 0.16 0.06
Matches are distributed among these distances:
85 3 0.01
86 42 0.19
87 49 0.23
88 120 0.55
89 3 0.01
ACGTcount: A:0.41, C:0.16, G:0.21, T:0.22
Consensus pattern (88 bp):
GAGGTCTTACAGAATCGACTAGGATAACACCATAAGTCAAAAAATAAGAAATCGATCGAGATAAC
ATCGCGAATCGAAATTATGCTCA
Found at i:8684400 original size:22 final size:22
Alignment explanation
Indices: 8684369--8684412 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
8684359 ATCACTAATC
*
8684369 AAAATTATGCCCGAAGGTCTTA
1 AAAATCATGCCCGAAGGTCTTA
8684391 AAAATCATGCCCGAAGGTCTTA
1 AAAATCATGCCCGAAGGTCTTA
8684413 CAGAATCGAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.25
Consensus pattern (22 bp):
AAAATCATGCCCGAAGGTCTTA
Found at i:8684412 original size:133 final size:133
Alignment explanation
Indices: 8684162--8684419 Score: 351
Period size: 133 Copynumber: 1.9 Consensus size: 133
8684152 TTATGCCTGA
* * *
8684162 AGGTCTTACAGAATCGACTAGGATAACATCGTAAGTCAAAAAATAAGAAATCGATCAAGATAATA
1 AGGTCTTACAGAATCGACTAGGATAACATCGCAAGTCAAAAAATAAGAAATCGATCAAAATAACA
** * * *
8684227 CCGTGAATTGAAATTATGCTCAGAGGTCTCAGAAATCATACCCGGAGATCTTACAGAATCATGAT
66 CCGTGAATCAAAATTATGCCCAGAGGTCTCAAAAATCATACCCGAAGATCTTACAGAATCATGAT
8684292 TGG
131 TGG
* *
8684295 AGGTCTTACAGAATCGACTGGGATAACATCGCAAGTCAAAAGATAAGAAATCGATCAAAATAACA
1 AGGTCTTACAGAATCGACTAGGATAACATCGCAAGTCAAAAAATAAGAAATCGATCAAAATAACA
* * *
8684360 TCAC-T-AATCAAAATTATGCCC-GAAGGTCTTAAAAATCATGCCCGAAGGTCTTACAGAATC
66 -C-CGTGAATCAAAATTATGCCCAG-AGGTCTCAAAAATCATACCCGAAGATCTTACAGAATC
8684420 GACTGGGACT
Statistics
Matches: 109, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
132 1 0.01
133 105 0.96
134 2 0.02
135 1 0.01
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.23
Consensus pattern (133 bp):
AGGTCTTACAGAATCGACTAGGATAACATCGCAAGTCAAAAAATAAGAAATCGATCAAAATAACA
CCGTGAATCAAAATTATGCCCAGAGGTCTCAAAAATCATACCCGAAGATCTTACAGAATCATGAT
TGG
Found at i:8684426 original size:110 final size:110
Alignment explanation
Indices: 8684295--8684749 Score: 542
Period size: 110 Copynumber: 4.1 Consensus size: 110
8684285 TCATGATTGG
* ***
8684295 AGGTCTTACAGAATCGACTGGGATAACATCGCAAGTCAAAAGATAAGAAATCGATCAAAATAACA
1 AGGTCTTACAGAATCGACTGGGATAACATCGCAAGTCAAAAAATAAGAAATCGATCGGGATAACA
* * *
8684360 TCACTAATCAAAATTATGCCCGAAGGTCTTAAAAATCATGCCCGA
66 TCGCGAATCAAAATTATGCCCGAAGGTCTTAGAAATCATGCCCGA
* * *
8684405 AGGTCTTACAGAATCGACTGGGACT-ACATCGTAAGTTAAAAAAATAA-AGAATCGATTGGGATA
1 AGGTCTTACAGAATCGACTGGGA-TAACATCGCAAG-TCAAAAAATAAGA-AATCGATCGGGATA
* * * * *
8684468 ACACCGCGAATCAAATTTATG-CCTAGAGGTCTTAGAAATCATTCCTGA
63 ACATCGCGAATCAAAATTATGCCCGA-AGGTCTTAGAAATCATGCCCGA
* * * *
8684516 AGGTCTTACAGAATCGACTAGGATAACA-C-CACAGTCGAAAGATAAGGAATCGATCGGGATAAC
1 AGGTCTTACAGAATCGACTGGGATAACATCGCA-AGTCAAAAAATAAGAAATCGATCGGGATAAC
* ** ** *
8684579 ACCGTAAATCAAAATTATGCTTGAAGGTCTTAGAAATCATGCCCGG
65 ATCGCGAATCAAAATTATGCCCGAAGGTCTTAGAAATCATGCCCGA
* ** * *
8684625 AGGTCTTACAGAATCGACTGAGATAACATTACAAGTTAAAAAATAAGAAATTGATCGGGATAACA
1 AGGTCTTACAGAATCGACTGGGATAACATCGCAAGTCAAAAAATAAGAAATCGATCGGGATAACA
* *
8684690 TCGCGAATCAAATTTATGCCCGGAGGTCTTAGAAATCATGCCCGA
66 TCGCGAATCAAAATTATGCCCGAAGGTCTTAGAAATCATGCCCGA
8684735 AGGTCTTACAGAATC
1 AGGTCTTACAGAATC
8684750 ATGCCCAGAG
Statistics
Matches: 288, Mismatches: 47, Indels: 20
0.81 0.13 0.06
Matches are distributed among these distances:
109 85 0.30
110 120 0.42
111 83 0.29
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.23
Consensus pattern (110 bp):
AGGTCTTACAGAATCGACTGGGATAACATCGCAAGTCAAAAAATAAGAAATCGATCGGGATAACA
TCGCGAATCAAAATTATGCCCGAAGGTCTTAGAAATCATGCCCGA
Found at i:8684607 original size:220 final size:220
Alignment explanation
Indices: 8684295--8684749 Score: 625
Period size: 220 Copynumber: 2.1 Consensus size: 220
8684285 TCATGATTGG
*
8684295 AGGTCTTACAGAATCGACTGGGATAACATCGCAAGTCAAAAGATAAGAAATCGATCAAAATAACA
1 AGGTCTTACAGAATCGACTAGGATAACATCGCAAGTCAAAAGATAAGAAATCGATCAAAATAACA
8684360 TCACTAATCAAAATTATGCCCGAAGGTCTTAAAAATCATGCCCGAAGGTCTTACAGAATCGACTG
66 TCACTAATCAAAATTATGCCCGAAGGTCTTAAAAATCATGCCCGAAGGTCTTACAGAATCGACTG
* ** *
8684425 GGACT-ACATCGTAAGTTAAAAAAATAA-AGAATCGATTGGGATAACACCGCGAATCAAATTTAT
131 AGA-TAACATCACAAGTT-AAAAAATAAGA-AATCGATCGGGATAACACCGCGAATCAAATTTAT
* * *
8684488 GCCTAGAGGTCTTAGAAATCATTCCTGA
193 GCCCAGAGGTCTTAGAAATCATGCCCGA
* * ***
8684516 AGGTCTTACAGAATCGACTAGGATAACA-C-CACAGTCGAAAGATAAGGAATCGATCGGGATAAC
1 AGGTCTTACAGAATCGACTAGGATAACATCGCA-AGTCAAAAGATAAGAAATCGATCAAAATAAC
** * *
8684579 A-C-CGTAAATCAAAATTATGCTTGAAGGTCTTAGAAATCATGCCCGGAGGTCTTACAGAATCGA
65 ATCAC-T-AATCAAAATTATGCCCGAAGGTCTTAAAAATCATGCCCGAAGGTCTTACAGAATCGA
* * *
8684642 CTGAGATAACATTACAAGTTAAAAAATAAGAAATTGATCGGGATAACATCGCGAATCAAATTTAT
128 CTGAGATAACATCACAAGTTAAAAAATAAGAAATCGATCGGGATAACACCGCGAATCAAATTTAT
*
8684707 GCCCGGAGGTCTTAGAAATCATGCCCGA
193 GCCCAGAGGTCTTAGAAATCATGCCCGA
8684735 AGGTCTTACAGAATC
1 AGGTCTTACAGAATC
8684750 ATGCCCAGAG
Statistics
Matches: 208, Mismatches: 21, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
218 1 0.00
219 84 0.40
220 96 0.46
221 27 0.13
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.23
Consensus pattern (220 bp):
AGGTCTTACAGAATCGACTAGGATAACATCGCAAGTCAAAAGATAAGAAATCGATCAAAATAACA
TCACTAATCAAAATTATGCCCGAAGGTCTTAAAAATCATGCCCGAAGGTCTTACAGAATCGACTG
AGATAACATCACAAGTTAAAAAATAAGAAATCGATCGGGATAACACCGCGAATCAAATTTATGCC
CAGAGGTCTTAGAAATCATGCCCGA
Found at i:8684730 original size:22 final size:23
Alignment explanation
Indices: 8684705--8684772 Score: 93
Period size: 23 Copynumber: 3.0 Consensus size: 23
8684695 AATCAAATTT
*
8684705 ATGCCCGGAGGTCTTAGA-AATC
1 ATGCCCGGAGGTCTTACAGAATC
*
8684727 ATGCCCGAAGGTCTTACAGAATC
1 ATGCCCGGAGGTCTTACAGAATC
* *
8684750 ATGCCCAGAGGTCTTAAAGAATC
1 ATGCCCGGAGGTCTTACAGAATC
8684773 GACTGGGATA
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
22 16 0.40
23 24 0.60
ACGTcount: A:0.31, C:0.24, G:0.24, T:0.22
Consensus pattern (23 bp):
ATGCCCGGAGGTCTTACAGAATC
Found at i:8684776 original size:133 final size:133
Alignment explanation
Indices: 8684601--8684882 Score: 431
Period size: 133 Copynumber: 2.1 Consensus size: 133
8684591 AATTATGCTT
* * * *
8684601 GAAGGTCTTAGA-AATCATGCCCGGAGGTCTTACAGAATCGACTGAGATAACATTACAAGTTAAA
1 GAAGGTCTTACAGAATCATGCCCAGAGGTCTTAAAGAATCGACTGAGATAACATTACAAGTCAAA
* * * *
8684665 AAATAAGAAATTGATCGGGATAACATCGCGAATCAAATTTATGCCCGGAGGTCTTAGAAATCATG
66 AAATAAGAAATTGATCGGGATAACATCGCGAATCAAAATTATGCCCGAAGGTCTTAAAAATCATA
8684730 CCC
131 CCC
* *
8684733 GAAGGTCTTACAGAATCATGCCCAGAGGTCTTAAAGAATCGACTGGGATAACATTGCAAGTCAAA
1 GAAGGTCTTACAGAATCATGCCCAGAGGTCTTAAAGAATCGACTGAGATAACATTACAAGTCAAA
*
8684798 AGATAAGAAATTGATCGGGATAACATCGCGAATCAAAATTATGCCCGAAGGTCTTAAAAATCATA
66 AAATAAGAAATTGATCGGGATAACATCGCGAATCAAAATTATGCCCGAAGGTCTTAAAAATCATA
*
8684863 CTC
131 CCC
* *
8684866 GGAGGTCTTATAGAATC
1 GAAGGTCTTACAGAATC
8684883 GACTGGGATA
Statistics
Matches: 135, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
132 11 0.08
133 124 0.92
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.23
Consensus pattern (133 bp):
GAAGGTCTTACAGAATCATGCCCAGAGGTCTTAAAGAATCGACTGAGATAACATTACAAGTCAAA
AAATAAGAAATTGATCGGGATAACATCGCGAATCAAAATTATGCCCGAAGGTCTTAAAAATCATA
CCC
Found at i:8684850 original size:243 final size:242
Alignment explanation
Indices: 8684516--8684992 Score: 643
Period size: 243 Copynumber: 2.0 Consensus size: 242
8684506 TCATTCCTGA
* * *
8684516 AGGTCTTACAGAATCGACTAGGATAACACCACAGTCGAAAGATAAGGAATCGATCGGGATAACAC
1 AGGTCTTAAAGAATCGACTAGGATAACACCACAGTCAAAAGATAAGAAATCGATCGGGATAACAC
* ** * *
8684581 CGTAAATCAAAATTATGCTTGAAGGTCTTAGAAATCATGCCCGGAGGTCTTACAGAATCGACTGA
66 CGCAAATCAAAATTATGCCCGAAGGTCTTAAAAATCATACCCGGAGGTCTTACAGAATCGACTGA
** * * * *
8684646 GATAACATTACAAGTTAAAAAATAAGA-AATTGATCGGGATAACATCGCGAATCAAATTTATGCC
131 GATAACACCACAAGTCAAAAAATAA-ATAATCGATCGGGATAACATCACGAATCAAAATTATGCC
* *
8684710 CGGAGGTCTTAGAAATCATGCCCGAAGGTCTTACAGAATCATGCCCAG
195 CGGAGCTCTTAGAAATCATGCCCGAAAGTCTTACAGAATCATGCCCAG
* * *
8684758 AGGTCTTAAAGAATCGACTGGGATAACATTGCA-AGTCAAAAGATAAGAAATTGATCGGGATAAC
1 AGGTCTTAAAGAATCGACTAGGATAACA--CCACAGTCAAAAGATAAGAAATCGATCGGGATAAC
* * * *
8684822 ATCGCGAATCAAAATTATGCCCGAAGGTCTTAAAAATCATACTCGGAGGTCTTATAGAATCGACT
64 ACCGCAAATCAAAATTATGCCCGAAGGTCTTAAAAATCATACCCGGAGGTCTTACAGAATCGACT
* * * * * *
8684887 GGGATAACCCCATAAGTCGAAAGATAAATAATCGATTGGGATAACATCACGAATCAAAATTATGC
129 GAGATAACACCACAAGTCAAAAAATAAATAATCGATCGGGATAACATCACGAATCAAAATTATGC
*
8684952 CCGGAGCTCTTAGAAATCATGTCCGAAAGTCTTACAGAATC
194 CCGGAGCTCTTAGAAATCATGCCCGAAAGTCTTACAGAATC
8684993 GACGGGATAA
Statistics
Matches: 202, Mismatches: 30, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
242 27 0.13
243 173 0.86
244 2 0.01
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.23
Consensus pattern (242 bp):
AGGTCTTAAAGAATCGACTAGGATAACACCACAGTCAAAAGATAAGAAATCGATCGGGATAACAC
CGCAAATCAAAATTATGCCCGAAGGTCTTAAAAATCATACCCGGAGGTCTTACAGAATCGACTGA
GATAACACCACAAGTCAAAAAATAAATAATCGATCGGGATAACATCACGAATCAAAATTATGCCC
GGAGCTCTTAGAAATCATGCCCGAAAGTCTTACAGAATCATGCCCAG
Found at i:8685057 original size:218 final size:219
Alignment explanation
Indices: 8684760--8685190 Score: 557
Period size: 218 Copynumber: 2.0 Consensus size: 219
8684750 ATGCCCAGAG
* * *
8684760 GTCTTAAAGAATCGACTGGGATAACATTGCAAGTCAAAAGATAAGAAATTGATCGGGATAACATC
1 GTCTTAAAGAATCGACTGGGATAACA-TCCAAGTCAAAAGATAAGAAATCGATCGGGATAACACC
* *
8684825 GCGAATCAAAATTATGCCC-GAAGGTCTTAAAAATCATACT-CGGAGGTCTTATAGAATCGACTG
65 GCGAATCAAAATTATGCCCGGAA-GTCTTAAAAATCAT-CTCCAGAGGTCTTACAGAATCGACTG
* * * * * * *
8684888 GGATAACCCCATAAGTCGAAAGATAAATAATCGATTGGGATAACATCACGAATCAAAATTATGCC
128 AGATAACACCACAAGTCAAAAAATAAAAAATCGATTGGGATAACACCACGAATCAAAATTATGCC
* *
8684953 CG-GAGCTCTTAGAAATCATGTCCGAAA
193 CGAAAG-TCCTAGAAATCATGTCCGAAA
* * *
8684980 GTCTTACAGAATCGAC-GGGATAACA-CCACAGTCAAATGATAAGGAATCGATCGGGATAACACC
1 GTCTTAAAGAATCGACTGGGATAACATCCA-AGTCAAAAGATAAGAAATCGATCGGGATAACACC
* ** * *
8685043 GTGAATTGAAATTATGCCCGGAAGTCTTAGAAATCATGTCCAGAGGTCTTACAGAATCGACTGAG
65 GCGAATCAAAATTATGCCCGGAAGTCTTAAAAATCATCTCCAGAGGTCTTACAGAATCGACTGAG
* * *
8685108 ATAACACCGCAAGTCAAAAAATAAAAAATCGATTGGGATAACACCGCGAATCGAAATTATGCCCG
130 ATAACACCACAAGTCAAAAAATAAAAAATCGATTGGGATAACACCACGAATCAAAATTATGCCCG
8685173 AAAGTCCTAGAAATCATG
195 AAAGTCCTAGAAATCATG
8685191 AAAATCTTTG
Statistics
Matches: 182, Mismatches: 25, Indels: 10
0.84 0.12 0.05
Matches are distributed among these distances:
217 3 0.02
218 150 0.82
219 14 0.08
220 15 0.08
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.22
Consensus pattern (219 bp):
GTCTTAAAGAATCGACTGGGATAACATCCAAGTCAAAAGATAAGAAATCGATCGGGATAACACCG
CGAATCAAAATTATGCCCGGAAGTCTTAAAAATCATCTCCAGAGGTCTTACAGAATCGACTGAGA
TAACACCACAAGTCAAAAAATAAAAAATCGATTGGGATAACACCACGAATCAAAATTATGCCCGA
AAGTCCTAGAAATCATGTCCGAAA
Found at i:8685190 original size:110 final size:110
Alignment explanation
Indices: 8684721--8685190 Score: 527
Period size: 110 Copynumber: 4.3 Consensus size: 110
8684711 GGAGGTCTTA
* * * * *
8684721 GAAATCATGCCCGAAGGTCTTACAGAATCATGCCCAGAGGTCTTAAAGAATCGACTGGGATAACA
1 GAAATTATGCCCGAAAGTCTTAGA-AATCATGTCCAGAGGTCTTACAGAATCGACTGGGATAACA
*** * * *
8684786 TTGCAAGTCAAAAGATAAGAAATTGATCGGGATAACATCGCGAATC
65 CCACAAGTCAAAAGATAAAAAATCGATCGGGATAACACCGCGAATC
* * * * * * *
8684832 AAAATTATGCCCGAAGGTCTTAAAAATCAT-ACTCGGAGGTCTTATAGAATCGACTGGGATAACC
1 GAAATTATGCCCGAAAGTCTTAGAAATCATGTC-CAGAGGTCTTACAGAATCGACTGGGATAACA
* * * * * *
8684896 CCATAAGTCGAAAGATAAATAATCGATTGGGATAACATCACGAATC
65 CCACAAGTCAAAAGATAAAAAATCGATCGGGATAACACCGCGAATC
* * *
8684942 AAAATTATGCCCG-GAGCTCTTAGAAATCATGTCC-GAAAGTCTTACAGAATCGAC-GGGATAAC
1 GAAATTATGCCCGAAAG-TCTTAGAAATCATGTCCAG-AGGTCTTACAGAATCGACTGGGATAAC
* ** * *
8685004 ACCAC-AGTCAAATGATAAGGAATCGATCGGGATAACACCGTGAATT
64 ACCACAAGTCAAAAGATAAAAAATCGATCGGGATAACACCGCGAATC
* *
8685050 GAAATTATGCCCGGAAGTCTTAGAAATCATGTCCAGAGGTCTTACAGAATCGACTGAGATAACAC
1 GAAATTATGCCCGAAAGTCTTAGAAATCATGTCCAGAGGTCTTACAGAATCGACTGGGATAACAC
* * *
8685115 CGCAAGTCAAAAAATAAAAAATCGATTGGGATAACACCGCGAATC
66 CACAAGTCAAAAGATAAAAAATCGATCGGGATAACACCGCGAATC
*
8685160 GAAATTATGCCCGAAAGTCCTAGAAATCATG
1 GAAATTATGCCCGAAAGTCTTAGAAATCATG
8685191 AAAATCTTTG
Statistics
Matches: 303, Mismatches: 48, Indels: 17
0.82 0.13 0.05
Matches are distributed among these distances:
108 78 0.26
109 28 0.09
110 175 0.58
111 22 0.07
ACGTcount: A:0.39, C:0.19, G:0.21, T:0.21
Consensus pattern (110 bp):
GAAATTATGCCCGAAAGTCTTAGAAATCATGTCCAGAGGTCTTACAGAATCGACTGGGATAACAC
CACAAGTCAAAAGATAAAAAATCGATCGGGATAACACCGCGAATC
Found at i:8686813 original size:15 final size:16
Alignment explanation
Indices: 8686793--8686825 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
8686783 ATTTTCTCTT
8686793 TTTTTTATTTTTT-AA
1 TTTTTTATTTTTTGAA
8686808 TTTTTTATTTTTTGAA
1 TTTTTTATTTTTTGAA
8686824 TT
1 TT
8686826 CTGATTAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (16 bp):
TTTTTTATTTTTTGAA
Found at i:8689564 original size:21 final size:22
Alignment explanation
Indices: 8689539--8689579 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
8689529 TCCTTTTGTC
*
8689539 AATTCCACTA-TTATTTGTTTT
1 AATTCCACTAGTTATCTGTTTT
*
8689560 AATTCTACTAGTTATCTGTT
1 AATTCCACTAGTTATCTGTT
8689580 CATGTTCTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.24, C:0.15, G:0.07, T:0.54
Consensus pattern (22 bp):
AATTCCACTAGTTATCTGTTTT
Found at i:8693907 original size:58 final size:56
Alignment explanation
Indices: 8693843--8694000 Score: 142
Period size: 58 Copynumber: 2.7 Consensus size: 56
8693833 TCGGATTTTA
* * * * * *
8693843 AGGGTTTGGATTTAAGTTTTAAGGGTTTTTGGGTTT-GGTTTTAAGATATGACAGGTTT
1 AGGGTTTTGATTTAAGTTTGAA-GATTTTAGGGTTTCGATTTTAAAATATG--AGGTTT
*
8693901 AGGGTTTTGATTTTAGAGTTTGAAGATTTTAGGGTTTCGATTTTAAAATTTGAGGTTT
1 AGGGTTTTGA-TTTA-AGTTTGAAGATTTTAGGGTTTCGATTTTAAAATATGAGGTTT
* *
8693959 GGGGTTTTGATTTAAGGGTTTG--GATTTTAGGGGTTTGGATTT
1 AGGGTTTTGATTTAA--GTTTGAAGATTTTA-GGGTTTCGATTT
8694001 AAGAGTTTAA
Statistics
Matches: 85, Mismatches: 9, Indels: 13
0.79 0.08 0.12
Matches are distributed among these distances:
56 8 0.09
57 15 0.18
58 29 0.34
59 15 0.18
60 18 0.21
ACGTcount: A:0.20, C:0.01, G:0.31, T:0.47
Consensus pattern (56 bp):
AGGGTTTTGATTTAAGTTTGAAGATTTTAGGGTTTCGATTTTAAAATATGAGGTTT
Found at i:8693915 original size:30 final size:29
Alignment explanation
Indices: 8693843--8693971 Score: 97
Period size: 30 Copynumber: 4.4 Consensus size: 29
8693833 TCGGATTTTA
* *
8693843 AGGGTTTGGA-TTTAAG-TTTTAAGGGTTTT
1 AGGGTTTTGATTTTAAGATTTGAA-GG-TTT
* * *
8693872 TGGG-TTTGGTTTTAAGATATGACAGGTTT
1 AGGGTTTTGATTTTAAGATTTGA-AGGTTT
*
8693901 AGGGTTTTGATTTT-AGAGTTTGAAGATTTT
1 AGGGTTTTGATTTTAAGA-TTTGAAG-GTTT
* *
8693931 AGGGTTTCGATTTTAAAATTTG-AGGTTT
1 AGGGTTTTGATTTTAAGATTTGAAGGTTT
*
8693959 GGGGTTTTGATTT
1 AGGGTTTTGATTT
8693972 AAGGGTTTGG
Statistics
Matches: 79, Mismatches: 14, Indels: 15
0.73 0.13 0.14
Matches are distributed among these distances:
28 17 0.22
29 22 0.28
30 37 0.47
31 3 0.04
ACGTcount: A:0.21, C:0.02, G:0.29, T:0.48
Consensus pattern (29 bp):
AGGGTTTTGATTTTAAGATTTGAAGGTTT
Found at i:8693921 original size:14 final size:14
Alignment explanation
Indices: 8693898--8694168 Score: 69
Period size: 16 Copynumber: 17.8 Consensus size: 14
8693888 ATATGACAGG
8693898 TTTAGGGTTTTGAT
1 TTTAGGGTTTTGAT
* *
8693912 TTTAGAGTTTGAAGAT
1 TTTAGGGTTT--TGAT
*
8693928 TTTAGGGTTTCGAT
1 TTTAGGGTTTTGAT
*** *
8693942 TTTA-AAATTTGAGG
1 TTTAGGGTTTTGA-T
*
8693956 TTTGGGGTTTTGAT
1 TTTAGGGTTTTGAT
* *
8693970 TTAAGGGTTTGGAT
1 TTTAGGGTTTTGAT
*
8693984 TTTAGGGGTTTGGAT
1 TTTA-GGGTTTTGAT
* * ** *
8693999 TTAAGAGTTTAAAGG
1 TTTAGGGTTTTGA-T
**
8694014 TTT-GGGATTTCAAAT
1 TTTAGGG-TTT-TGAT
*
8694029 TTTATGGGGTTTTGGGT
1 TTTA--GGGTTTT-GAT
*
8694046 TTTAGGGGTTTCAGAT
1 TTTA-GGGTTT-TGAT
*
8694062 TTTAGGGGGTTTGGAT
1 TTTA--GGGTTTTGAT
*
8694078 TTAAGGGATTTTGGAT
1 TTTAGGG-TTTT-GAT
*
8694094 TTTATGGGTTTCGGAT
1 TTTA-GGGTTT-TGAT
*
8694110 TTTAGGATTTTGGAT
1 TTTAGGGTTTT-GAT
* *
8694125 TTTAAGATTTTGGATT
1 TTTAGGGTTTT-GA-T
*
8694141 TTTTGGGATTTTGGAT
1 TTTAGGG-TTTT-GAT
8694157 TTTAGGGGTTTT
1 TTTA-GGGTTTT
8694169 AGAAACCTAG
Statistics
Matches: 192, Mismatches: 43, Indels: 42
0.69 0.16 0.15
Matches are distributed among these distances:
13 4 0.02
14 44 0.23
15 50 0.26
16 63 0.33
17 28 0.15
18 3 0.02
ACGTcount: A:0.19, C:0.01, G:0.31, T:0.49
Consensus pattern (14 bp):
TTTAGGGTTTTGAT
Found at i:8693987 original size:15 final size:15
Alignment explanation
Indices: 8693960--8694167 Score: 77
Period size: 15 Copynumber: 13.4 Consensus size: 15
8693950 TTGAGGTTTG
*
8693960 GGGTTTTGA-TTTAA
1 GGGTTTGGATTTTAA
*
8693974 GGGTTTGGATTTTAG
1 GGGTTTGGATTTTAA
8693989 GGGTTTGGA-TTTAA
1 GGGTTTGGATTTTAA
* ** *
8694003 GAGTTTAAAGGTTT--
1 GGGTTTGGA-TTTTAA
** *
8694017 GGGATTTCAAATTTTATG
1 GGG-TTT-GGATTTTA-A
* *
8694035 GGGTTTTGGGTTTTAG
1 GGG-TTTGGATTTTAA
* *
8694051 GGGTTTCAGATTTTAGG
1 GGGTTT-GGATTTTA-A
8694068 GGGTTTGGA-TTTAA
1 GGGTTTGGATTTTAA
*
8694082 GGGATTTTGGATTTTAT
1 GGG--TTTGGATTTTAA
8694099 GGGTTTCGGATTTT-A
1 GGGTTT-GGATTTTAA
*
8694114 GGATTTTGGATTTTAA
1 GG-GTTTGGATTTTAA
** **
8694130 GATTTTGGATTTTTT
1 GGGTTTGGATTTTAA
*
8694145 GGGATTTTGGATTTTAG
1 GGG--TTTGGATTTTAA
8694162 GGGTTT
1 GGGTTT
8694168 TAGAAACCTA
Statistics
Matches: 150, Mismatches: 26, Indels: 35
0.71 0.12 0.17
Matches are distributed among these distances:
14 23 0.15
15 53 0.35
16 36 0.24
17 32 0.21
18 6 0.04
ACGTcount: A:0.18, C:0.01, G:0.32, T:0.48
Consensus pattern (15 bp):
GGGTTTGGATTTTAA
Found at i:8694015 original size:58 final size:57
Alignment explanation
Indices: 8693868--8694019 Score: 155
Period size: 58 Copynumber: 2.6 Consensus size: 57
8693858 GTTTTAAGGG
* * * * * *
8693868 TTTTTGGGTTTGGTTTTAAGATATGACAGGTTTAGGGTTTTGATTTTAGAGTTTGAAGA
1 TTTTAGGGTTTGGATTTAAGAT-TTAAAGGTTTGGGGTTTTGATTTAAGAGTTTG-AGA
* * * *
8693927 TTTTAGGGTTTCGATTTTAAAATTT-GAGGTTTGGGGTTTTGATTTAAGGGTTTG-GA
1 TTTTAGGGTTTGGA-TTTAAGATTTAAAGGTTTGGGGTTTTGATTTAAGAGTTTGAGA
8693983 TTTTAGGGGTTTGGATTTAAGAGTTTAAAGGTTTGGG
1 TTTTA-GGGTTTGGATTTAAGA-TTTAAAGGTTTGGG
8694020 ATTTCAAATT
Statistics
Matches: 77, Mismatches: 12, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
56 13 0.17
57 11 0.14
58 34 0.44
59 12 0.16
60 7 0.09
ACGTcount: A:0.21, C:0.01, G:0.31, T:0.47
Consensus pattern (57 bp):
TTTTAGGGTTTGGATTTAAGATTTAAAGGTTTGGGGTTTTGATTTAAGAGTTTGAGA
Found at i:8694055 original size:16 final size:16
Alignment explanation
Indices: 8694027--8694168 Score: 135
Period size: 16 Copynumber: 8.9 Consensus size: 16
8694017 GGGATTTCAA
8694027 ATTTTATGGGGTTTTGG
1 ATTTTA-GGGGTTTTGG
* **
8694044 GTTTTAGGGGTTTCAG
1 ATTTTAGGGGTTTTGG
*
8694060 ATTTTAGGGGGTTTGG
1 ATTTTAGGGGTTTTGG
* *
8694076 ATTTAAGGGATTTTGG
1 ATTTTAGGGGTTTTGG
* *
8694092 ATTTTATGGGTTTCGG
1 ATTTTAGGGGTTTTGG
*
8694108 ATTTTA-GGATTTTGG
1 ATTTTAGGGGTTTTGG
* *
8694123 ATTTTA-AGATTTTGG
1 ATTTTAGGGGTTTTGG
* *
8694138 ATTTTTTGGGATTTTGG
1 A-TTTTAGGGGTTTTGG
8694155 ATTTTAGGGGTTTT
1 ATTTTAGGGGTTTT
8694169 AGAAACCTAG
Statistics
Matches: 102, Mismatches: 21, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
15 22 0.22
16 66 0.65
17 14 0.14
ACGTcount: A:0.16, C:0.01, G:0.32, T:0.51
Consensus pattern (16 bp):
ATTTTAGGGGTTTTGG
Found at i:8694119 original size:8 final size:7
Alignment explanation
Indices: 8694083--8694159 Score: 64
Period size: 7 Copynumber: 10.0 Consensus size: 7
8694073 TGGATTTAAG
8694083 GGATTTT
1 GGATTTT
8694090 GGATTTTAT
1 GGA-TTT-T
* *
8694099 GGGTTTC
1 GGATTTT
8694106 GGATTTT
1 GGATTTT
8694113 AGGATTTT
1 -GGATTTT
8694121 GGATTTT
1 GGATTTT
*
8694128 AAGATTTT
1 -GGATTTT
8694136 GGATTTTTT
1 GGA--TTTT
8694145 GGGATTTT
1 -GGATTTT
8694153 GGATTTT
1 GGATTTT
8694160 AGGGGTTTTA
Statistics
Matches: 57, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
7 24 0.42
8 23 0.40
9 7 0.12
10 3 0.05
ACGTcount: A:0.17, C:0.01, G:0.27, T:0.55
Consensus pattern (7 bp):
GGATTTT
Found at i:8694591 original size:17 final size:17
Alignment explanation
Indices: 8694551--8694597 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
8694541 ATCATGTATG
*
8694551 AATATAAAAAAATACTC
1 AATATAAAAAAATAATC
*
8694568 AAAATAACAAAAATAAT-
1 AATATAA-AAAAATAATC
8694585 AATATAAAAAAAT
1 AATATAAAAAAAT
8694598 TTAGAAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
16 6 0.23
17 12 0.46
18 8 0.31
ACGTcount: A:0.72, C:0.06, G:0.00, T:0.21
Consensus pattern (17 bp):
AATATAAAAAAATAATC
Found at i:8695270 original size:18 final size:17
Alignment explanation
Indices: 8695227--8695269 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
8695217 ACTGTGTTTG
8695227 TCTTTTTTTCTTTTGTT
1 TCTTTTTTTCTTTTGTT
8695244 TCTATTTTTT-TGTTTGTT
1 TCT-TTTTTTCT-TTTGTT
8695262 T-TTTTTTT
1 TCTTTTTTT
8695270 TATGGTTGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 6 0.25
17 5 0.21
18 13 0.54
ACGTcount: A:0.02, C:0.07, G:0.07, T:0.84
Consensus pattern (17 bp):
TCTTTTTTTCTTTTGTT
Found at i:8695583 original size:15 final size:16
Alignment explanation
Indices: 8695563--8695608 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 16
8695553 CTTTTTCCCT
8695563 TTTTTTATTATTA-TA
1 TTTTTTATTATTATTA
**
8695578 TTTTTTAAAATTATTA
1 TTTTTTATTATTATTA
*
8695594 -TTATTATTATTATTA
1 TTTTTTATTATTATTA
8695609 AAATTATTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
15 23 0.92
16 2 0.08
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTTTTATTATTATTA
Found at i:8695594 original size:24 final size:24
Alignment explanation
Indices: 8695567--8695623 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
8695557 TTCCCTTTTT
8695567 TTATTATTA-TATT-TT-TTAAAA
1 TTATTATTATTATTATTATTAAAA
8695588 TTATTATTATTATTATTATTAAAA
1 TTATTATTATTATTATTATTAAAA
*
8695612 TTATTAATATTA
1 TTATTATTATTA
8695624 AACTGAAATG
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
21 9 0.28
22 4 0.12
23 2 0.06
24 17 0.53
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (24 bp):
TTATTATTATTATTATTATTAAAA
Found at i:8695614 original size:15 final size:15
Alignment explanation
Indices: 8695596--8695625 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
8695586 AATTATTATT
*
8695596 ATTATTATTATTAAA
1 ATTATTAATATTAAA
8695611 ATTATTAATATTAAA
1 ATTATTAATATTAAA
8695626 CTGAAATGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATTATTAATATTAAA
Found at i:8698361 original size:20 final size:19
Alignment explanation
Indices: 8698336--8698383 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
8698326 TTCTTCTCAT
*
8698336 TTTTATTACTTATATTTTTA
1 TTTTATTACTCA-ATTTTTA
*
8698356 TTTTATTAATCAATTTTTA
1 TTTTATTACTCAATTTTTA
8698375 -TTTATTACT
1 TTTTATTACT
8698384 ATTTTATAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 8 0.32
19 7 0.28
20 10 0.40
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTTATTACTCAATTTTTA
Found at i:8699768 original size:49 final size:48
Alignment explanation
Indices: 8699683--8700196 Score: 660
Period size: 49 Copynumber: 10.5 Consensus size: 48
8699673 TGGCAGTAGT
* *
8699683 GCAGAGGCTCAACAACTTTAAAATTTCATCTTGAAAATGGCTCTTCTCA
1 GCAGAGGCTCAACAACTTTAAAA-TTCATCTTGAAAAAGGCTCCTCTCA
* * *
8699732 ACAGAGGCTCAACAACTTTAAAATCTTAT-TTGGAAAAGGACTCCTCTCA
1 GCAGAGGCTCAACAACTTTAAAAT-TCATCTTGAAAAAGG-CTCCTCTCA
* **
8699781 GTAGAGGCTCAATGACTTTAAAATTCATCTTGAAAAAGGCTCCTCTCA
1 GCAGAGGCTCAACAACTTTAAAATTCATCTTGAAAAAGGCTCCTCTCA
* *
8699829 GCAGAGGCTCAACAACCTTAAAAATCTCATCTTGAAAAAAGCTCCTCTCA
1 GCAGAGGCTCAACAA-CTTTAAAAT-TCATCTTGAAAAAGGCTCCTCTCA
* *
8699879 ACAGAGGCCCAACAACTTTAAAAATTTTCATCTTGAAAAA-GCTCCTCTCA
1 GCAGAGGCTCAACAACTTT-AAAA--TTCATCTTGAAAAAGGCTCCTCTCA
*
8699929 ACAGAGGCTCAACAACTTTAAAATTTCATCTT-AAAAAGGGCTCCTCTCA
1 GCAGAGGCTCAACAACTTTAAAA-TTCATCTTGAAAAA-GGCTCCTCTCA
* *
8699978 GCAGAGGCTCAACGACTTTAAAATTCATCTTGGAAAAGGGCTCCTCTCA
1 GCAGAGGCTCAACAACTTTAAAATTCATCTT-GAAAAAGGCTCCTCTCA
8700027 GCAGAGGCTCAACAACTTTAAAAATTCATCTTGAAAAAGGCTCCTCTCA
1 GCAGAGGCTCAACAACTTT-AAAATTCATCTTGAAAAAGGCTCCTCTCA
*
8700076 GCAGAGGCTCAACAACTTTAAAATCTCATCTTG-AAAA-GCTCCTTTCA
1 GCAGAGGCTCAACAACTTTAAAAT-TCATCTTGAAAAAGGCTCCTCTCA
* * * *
8700123 GTAGAGGCTTAACAACTTTAAAAATTCTTATCTTGAAAAAGGCTCATTTCA
1 GCAGAGGCTCAACAACTTT-AAAATTC--ATCTTGAAAAAGGCTCCTCTCA
*
8700174 GCAGAGGCTCAACAACTTAAAAA
1 GCAGAGGCTCAACAACTTTAAAA
8700197 AATTCTCATC
Statistics
Matches: 414, Mismatches: 32, Indels: 37
0.86 0.07 0.08
Matches are distributed among these distances:
47 33 0.08
48 64 0.15
49 186 0.45
50 92 0.22
51 38 0.09
52 1 0.00
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.26
Consensus pattern (48 bp):
GCAGAGGCTCAACAACTTTAAAATTCATCTTGAAAAAGGCTCCTCTCA
Found at i:8704283 original size:11 final size:11
Alignment explanation
Indices: 8704267--8704292 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
8704257 AGGAAAAATT
8704267 TTTTAATTTGA
1 TTTTAATTTGA
8704278 TTTTAATTTGA
1 TTTTAATTTGA
8704289 TTTT
1 TTTT
8704293 TATCTTTCGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (11 bp):
TTTTAATTTGA
Found at i:8704293 original size:12 final size:12
Alignment explanation
Indices: 8704266--8704294 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
8704256 GAGGAAAAAT
8704266 TTTTTAATTTGA
1 TTTTTAATTTGA
8704278 -TTTTAATTTGA
1 TTTTTAATTTGA
8704289 TTTTTA
1 TTTTTA
8704295 TCTTTCGCGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (12 bp):
TTTTTAATTTGA
Found at i:8705321 original size:4 final size:4
Alignment explanation
Indices: 8705312--8705336 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
8705302 TGTGTTTATT
8705312 ATTA ATTA ATTA ATTA ATTA ATTA A
1 ATTA ATTA ATTA ATTA ATTA ATTA A
8705337 ATTTAAAAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
ATTA
Found at i:8705433 original size:19 final size:21
Alignment explanation
Indices: 8705409--8705447 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
8705399 TATAGTTTTG
8705409 CATGAT-TATTA-ATTAATTA
1 CATGATATATTATATTAATTA
*
8705428 CATGATATTTTATATTAATT
1 CATGATATATTATATTAATT
8705448 TCATTATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 4 0.24
21 7 0.41
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.51
Consensus pattern (21 bp):
CATGATATATTATATTAATTA
Found at i:8705446 original size:21 final size:23
Alignment explanation
Indices: 8705420--8705472 Score: 65
Period size: 21 Copynumber: 2.3 Consensus size: 23
8705410 ATGATTATTA
8705420 ATTAATTACATGAT-ATTT-TAT
1 ATTAATTACATGATAATTTATAT
* *
8705441 ATTAATTTCATTATAATTTATAT
1 ATTAATTACATGATAATTTATAT
8705464 ATTATATTA
1 ATTA-ATTA
8705473 TTTTTGCATG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 12 0.46
22 4 0.15
23 7 0.27
24 3 0.12
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.55
Consensus pattern (23 bp):
ATTAATTACATGATAATTTATAT
Found at i:8705489 original size:18 final size:18
Alignment explanation
Indices: 8705466--8705504 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
8705456 ATTTATATAT
* *
8705466 TATATTATTTTTGCATGA
1 TATATTATTATTACATGA
8705484 TATATTATTATTACATGA
1 TATATTATTATTACATGA
8705502 TAT
1 TAT
8705505 TATTTACATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.33, C:0.05, G:0.08, T:0.54
Consensus pattern (18 bp):
TATATTATTATTACATGA
Found at i:8705507 original size:13 final size:14
Alignment explanation
Indices: 8705489--8705517 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
8705479 CATGATATAT
8705489 TATTA-TTACATGA
1 TATTATTTACATGA
8705502 TATTATTTACATGA
1 TATTATTTACATGA
8705516 TA
1 TA
8705518 ATTTTTGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.33
14 10 0.67
ACGTcount: A:0.38, C:0.07, G:0.07, T:0.48
Consensus pattern (14 bp):
TATTATTTACATGA
Found at i:8713086 original size:8 final size:8
Alignment explanation
Indices: 8713073--8713135 Score: 69
Period size: 8 Copynumber: 7.9 Consensus size: 8
8713063 GGTGAATGAA
8713073 AAAAAATG
1 AAAAAATG
8713081 AAAAAATG
1 AAAAAATG
8713089 AAAAAAATG
1 -AAAAAATG
*
8713098 AAAAGATG
1 AAAAAATG
8713106 --AAAATG
1 AAAAAATG
8713112 AAAAAAAT-
1 -AAAAAATG
8713120 ATAAAAATG
1 A-AAAAATG
8713129 AAAAAAT
1 AAAAAAT
8713136 TATGTTTGAA
Statistics
Matches: 47, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
6 5 0.11
7 1 0.02
8 27 0.57
9 14 0.30
ACGTcount: A:0.75, C:0.00, G:0.11, T:0.14
Consensus pattern (8 bp):
AAAAAATG
Found at i:8713094 original size:17 final size:17
Alignment explanation
Indices: 8713067--8713135 Score: 74
Period size: 17 Copynumber: 4.2 Consensus size: 17
8713057 TAACATGGTG
8713067 AATGAAAAAAAATGAAAA
1 AATG-AAAAAAATGAAAA
8713085 AATGAAAAAAATGAAAA
1 AATGAAAAAAATGAAAA
*
8713102 GATG---AAAATGAAAAA
1 AATGAAAAAAATG-AAAA
*
8713117 AAT-ATAAAAATGAAAA
1 AATGAAAAAAATGAAAA
8713133 AAT
1 AAT
8713136 TATGTTTGAA
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
14 6 0.13
15 6 0.13
16 7 0.16
17 22 0.49
18 4 0.09
ACGTcount: A:0.74, C:0.00, G:0.12, T:0.14
Consensus pattern (17 bp):
AATGAAAAAAATGAAAA
Found at i:8713109 original size:23 final size:23
Alignment explanation
Indices: 8713074--8713132 Score: 75
Period size: 23 Copynumber: 2.5 Consensus size: 23
8713064 GTGAATGAAA
8713074 AAAAATGAAAAAATGAAAAAAATGA-
1 AAAAATG--AAAATGAAAAAAAT-AT
*
8713099 AAAGATGAAAATGAAAAAAATAT
1 AAAAATGAAAATGAAAAAAATAT
8713122 AAAAATGAAAA
1 AAAAATGAAAA
8713133 AATTATGTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
22 1 0.03
23 24 0.77
25 6 0.19
ACGTcount: A:0.75, C:0.00, G:0.12, T:0.14
Consensus pattern (23 bp):
AAAAATGAAAATGAAAAAAATAT
Found at i:8713739 original size:51 final size:51
Alignment explanation
Indices: 8713678--8713782 Score: 165
Period size: 51 Copynumber: 2.1 Consensus size: 51
8713668 CAAACATTTT
* * **
8713678 TTTTTTCAAAATGAGATTTTTAAAGTTCCTTAGCCTATTTTTATTGGAGCC
1 TTTTTTCAAAATGAGATTTTAAAAATTCCTTAGCCTATTTTTATAAGAGCC
*
8713729 TTTTTTCAAAATGAGATTTTAAAAATTCTTTAGCCTATTTTTATAAGAGCC
1 TTTTTTCAAAATGAGATTTTAAAAATTCCTTAGCCTATTTTTATAAGAGCC
8713780 TTT
1 TTT
8713783 CTAATTGGGA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.29, C:0.12, G:0.11, T:0.48
Consensus pattern (51 bp):
TTTTTTCAAAATGAGATTTTAAAAATTCCTTAGCCTATTTTTATAAGAGCC
Found at i:8726402 original size:21 final size:21
Alignment explanation
Indices: 8726367--8726407 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
8726357 AAGTCATGAT
* *
8726367 TATAAGACTTATCTTGATAAA
1 TATAAGAATTATCTTCATAAA
*
8726388 TATAAGAATTTTCTTCATAA
1 TATAAGAATTATCTTCATAA
8726408 GTTTTCACGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.41, C:0.10, G:0.07, T:0.41
Consensus pattern (21 bp):
TATAAGAATTATCTTCATAAA
Found at i:8729433 original size:7 final size:6
Alignment explanation
Indices: 8729423--8729640 Score: 77
Period size: 7 Copynumber: 33.5 Consensus size: 6
8729413 TCCCAAATCC
* * *
8729423 AAACCGT AAACCA AAACCTT TAACCC AAACCCT AAACCT AAACCTT AAACCCT
1 AAACC-T AAACCT AAACC-T AAACCT AAA-CCT AAACCT AAACC-T AAA-CCT
* * * * **
8729476 TAACCC AAATCTT AAACCTT AAACCCT AAACCCC AAACC- AAAAAT CAAACCCT
1 AAACCT AAA-CCT AAACC-T AAA-CCT AAA-CCT AAACCT AAACCT -AAA-CCT
* * *
8729529 AAACCCT AAGCTT AAACCCT AAACCT -AACCTT AAACCTT AAAACCA AAACCCT
1 AAA-CCT AAACCT AAA-CCT AAACCT AAACC-T AAACC-T -AAACCT AAA-CCT
* *
8729582 AAA-CT AAACCCT AAAACCA AAACCCT AAACC- AAACCCT AAACC- AACCCT
1 AAACCT AAA-CCT -AAACCT AAA-CCT AAACCT AAA-CCT AAACCT AAACCT
8729631 AAACCCT AAA
1 AAA-CCT AAA
8729641 ACCAACAATC
Statistics
Matches: 161, Mismatches: 27, Indels: 46
0.69 0.12 0.20
Matches are distributed among these distances:
5 19 0.12
6 44 0.27
7 85 0.53
8 13 0.08
ACGTcount: A:0.48, C:0.36, G:0.01, T:0.16
Consensus pattern (6 bp):
AAACCT
Found at i:8729439 original size:13 final size:13
Alignment explanation
Indices: 8729423--8729626 Score: 68
Period size: 13 Copynumber: 16.1 Consensus size: 13
8729413 TCCCAAATCC
*
8729423 AAACCGTAAACCA
1 AAACCTTAAACCA
* *
8729436 AAACCTTTAACCC
1 AAACCTTAAACCA
* *
8729449 AAACCCTAAACCT
1 AAACCTTAAACCA
8729462 AAACCTTAAA-C-
1 AAACCTTAAACCA
*
8729473 ---CCTT-AACCC
1 AAACCTTAAACCA
* *
8729482 AAATCTTAAACCTT
1 AAACCTTAAACC-A
* *
8729496 AAACCCTAAACCCC
1 AAACCTTAAA-CCA
** *
8729510 AAACCAAAAATC-
1 AAACCTTAAACCA
* *
8729522 AAACCCTAAACCC
1 AAACCTTAAACCA
* * *
8729535 TAAGCTTAAACCCT
1 AAACCTTAAA-CCA
*
8729549 AAACC-T-AACCTT
1 AAACCTTAAACC-A
8729561 AAACCTTAAAACCA
1 AAACCTT-AAACCA
* *
8729575 AAACCCTAAACTA
1 AAACCTTAAACCA
* *
8729588 AACCCTAAAACCA
1 AAACCTTAAACCA
*
8729601 AAACCCTAAACC-
1 AAACCTTAAACCA
*
8729613 AAACCCTAAACCA
1 AAACCTTAAACCA
8729626 A
1 A
8729627 CCCTAAACCC
Statistics
Matches: 142, Mismatches: 34, Indels: 30
0.69 0.17 0.15
Matches are distributed among these distances:
7 2 0.01
8 5 0.04
11 2 0.01
12 33 0.23
13 67 0.47
14 27 0.19
15 6 0.04
ACGTcount: A:0.48, C:0.35, G:0.01, T:0.16
Consensus pattern (13 bp):
AAACCTTAAACCA
Found at i:8729473 original size:33 final size:33
Alignment explanation
Indices: 8729414--8729637 Score: 105
Period size: 33 Copynumber: 6.9 Consensus size: 33
8729404 AAATCCAAAT
* * *
8729414 CCCAAATCC-AAACCGTAAACC-AAAACCTTTAA
1 CCCAAACCCTAAACC-TAAACCTTAAACCCTTAA
8729446 CCCAAACCCTAAACCTAAACCTTAAACCCTTAA
1 CCCAAACCCTAAACCTAAACCTTAAACCCTTAA
* * * **
8729479 CCCAAATCTTAAACCTTAAACCCTAAACCCCAAA
1 CCCAAACCCTAAACC-TAAACCTTAAACCCTTAA
* ** * *
8729513 CCAAAAATC-AAACCCTAAACCCT-AA-GCTTAAA
1 CCCAAACCCTAAA-CCTAAACCTTAAACCCTT-AA
* **
8729545 CCCTAAA-CCT-AACCTTAAACCTTAAAACCAAAA
1 CCC-AAACCCTAAACC-TAAACCTTAAACCCTTAA
*
8729578 CCCTAAA--CTAAACCCTAAAACC-AAAACCC-TAA
1 CCC-AAACCCTAAA-CCT-AAACCTTAAACCCTTAA
* *
8729610 ACCAAACCCTAAACC--AACCCTAAACCCT
1 CCCAAACCCTAAACCTAAACCTTAAACCCT
8729638 AAAACCAACA
Statistics
Matches: 149, Mismatches: 26, Indels: 35
0.71 0.12 0.17
Matches are distributed among these distances:
29 4 0.03
30 6 0.04
31 6 0.04
32 38 0.26
33 65 0.44
34 30 0.20
ACGTcount: A:0.46, C:0.37, G:0.01, T:0.16
Consensus pattern (33 bp):
CCCAAACCCTAAACCTAAACCTTAAACCCTTAA
Found at i:8729491 original size:27 final size:27
Alignment explanation
Indices: 8729423--8729640 Score: 149
Period size: 26 Copynumber: 8.4 Consensus size: 27
8729413 TCCCAAATCC
* * *
8729423 AAACCGTAAACCAAAACCTTTAACCC-
1 AAACCCTAAACCTAAACCTTAAACCCT
8729449 AAACCCTAAACCTAAACCTTAAACCCT
1 AAACCCTAAACCTAAACCTTAAACCCT
* *
8729476 TAACCC-AAATCTTAAACCTTAAACCCT
1 AAACCCTAAA-CCTAAACCTTAAACCCT
* ** *
8729503 AAACCCCAAACC-AAAAATCAAACCCT
1 AAACCCTAAACCTAAACCTTAAACCCT
* * *
8729529 AAACCCTAAGCTTAAACCCTAAA-CCT
1 AAACCCTAAACCTAAACCTTAAACCCT
* *
8729555 -AACCTTAAACCTTAAAACC-AAAACCCT
1 AAACCCTAAACC-T-AAACCTTAAACCCT
*
8729582 AAA--CTAAACCCTAAAACC-AAAACCCT
1 AAACCCTAAA-CCT-AAACCTTAAACCCT
8729608 AAA-CC-AAACCCTAAACC---AACCCT
1 AAACCCTAAA-CCTAAACCTTAAACCCT
8729631 AAACCCTAAA
1 AAACCCTAAA
8729641 ACCAACAATC
Statistics
Matches: 158, Mismatches: 22, Indels: 25
0.77 0.11 0.12
Matches are distributed among these distances:
23 9 0.06
24 2 0.01
25 16 0.10
26 82 0.52
27 44 0.28
28 5 0.03
ACGTcount: A:0.48, C:0.36, G:0.01, T:0.16
Consensus pattern (27 bp):
AAACCCTAAACCTAAACCTTAAACCCT
Found at i:8729563 original size:12 final size:12
Alignment explanation
Indices: 8729543--8729635 Score: 63
Period size: 12 Copynumber: 7.9 Consensus size: 12
8729533 CCTAAGCTTA
8729543 AACCCTAAACCT
1 AACCCTAAACCT
*
8729555 AACCTTAAACCT
1 AACCCTAAACCT
* *
8729567 TA----AAACCAA
1 AACCCTAAACC-T
8729576 AACCCTAAA-CT
1 AACCCTAAACCT
*
8729587 AAACCCTAAAACCAA
1 -AACCCT-AAACC-T
*
8729602 AACCCTAAACCA
1 AACCCTAAACCT
8729614 AACCCTAAACC-
1 AACCCTAAACCT
8729625 AACCCTAAACC
1 AACCCTAAACC
8729636 CTAAAACCAA
Statistics
Matches: 66, Mismatches: 6, Indels: 19
0.73 0.07 0.21
Matches are distributed among these distances:
8 5 0.08
9 1 0.02
11 11 0.17
12 31 0.47
13 11 0.17
14 7 0.11
ACGTcount: A:0.49, C:0.38, G:0.00, T:0.13
Consensus pattern (12 bp):
AACCCTAAACCT
Found at i:8729642 original size:19 final size:19
Alignment explanation
Indices: 8729522--8729646 Score: 63
Period size: 19 Copynumber: 6.8 Consensus size: 19
8729512 ACCAAAAATC
* * *
8729522 AAACCCTAAACCCTAAGCTT
1 AAACCCTAAAACC-AACCCT
*
8729542 AAACCCT-AAACCTAACCTT
1 AAACCCTAAAACC-AACCCT
*
8729561 AAACCTTAAAACC-A----
1 AAACCCTAAAACCAACCCT
*
8729575 AAACCCT-AAACTAAACCCT
1 AAACCCTAAAAC-CAACCCT
* *
8729594 AAAACC-AAAACCCTAAACC-
1 AAACCCTAAAA-CC-AACCCT
8729613 AAACCCT-AAACCAACCCT
1 AAACCCTAAAACCAACCCT
8729631 AAACCCTAAAACCAAC
1 AAACCCTAAAACCAAC
8729647 AATCCCATTC
Statistics
Matches: 82, Mismatches: 10, Indels: 27
0.69 0.08 0.23
Matches are distributed among these distances:
13 4 0.05
14 6 0.07
15 1 0.01
17 4 0.05
18 10 0.12
19 40 0.49
20 17 0.21
ACGTcount: A:0.49, C:0.37, G:0.01, T:0.14
Consensus pattern (19 bp):
AAACCCTAAAACCAACCCT
Found at i:8740587 original size:21 final size:22
Alignment explanation
Indices: 8740563--8740612 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 22
8740553 TACTCGGTTT
*
8740563 CTCTTTTTCTTTATTTTTA-AG
1 CTCTTTTTCTTTATATTTAGAG
*
8740584 CTC-TTTGCTTTATATTTAGAG
1 CTCTTTTTCTTTATATTTAGAG
*
8740605 TTCTTTTT
1 CTCTTTTT
8740613 TATTTTGTCA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
20 13 0.57
21 7 0.30
22 3 0.13
ACGTcount: A:0.14, C:0.14, G:0.08, T:0.64
Consensus pattern (22 bp):
CTCTTTTTCTTTATATTTAGAG
Found at i:8740596 original size:20 final size:20
Alignment explanation
Indices: 8740568--8740618 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
8740558 GGTTTCTCTT
8740568 TTTCTTTATTTTTA-AGCTC
1 TTTCTTTATTTTTAGAGCTC
* *
8740587 TTTGCTTTATATTTAGAGTTC
1 TTT-CTTTATTTTTAGAGCTC
8740608 TTT-TTTATTTT
1 TTTCTTTATTTT
8740619 GTCAACTGGT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 10 0.37
20 10 0.37
21 7 0.26
ACGTcount: A:0.16, C:0.10, G:0.08, T:0.67
Consensus pattern (20 bp):
TTTCTTTATTTTTAGAGCTC
Found at i:8743011 original size:15 final size:15
Alignment explanation
Indices: 8742983--8743015 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
8742973 TGCATTAGAA
8742983 AAATAGAAATAAAAT
1 AAATAGAAATAAAAT
8742998 AAATA-AAATAAAAAT
1 AAATAGAAAT-AAAAT
8743013 AAA
1 AAA
8743016 AATCTTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (15 bp):
AAATAGAAATAAAAT
Done.