Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167904.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_17, 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: 21107920
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Warning! 100000 characters in sequence are not A, C, G, or T
File 33 of 121
Found at i:5900922 original size:160 final size:161
Alignment explanation
Indices: 5900655--5901017 Score: 390
Period size: 160 Copynumber: 2.3 Consensus size: 161
5900645 CAAATTTGCA
* * ** * *
5900655 TTTTACCTTTTAACGGCATAAAAAGTCCTAAACATATGTAAACATTAGCTTTTTCATACATATCA
1 TTTTACCTATTAACGGCATAAAAAGTCCTAAACAGACATAAACAATAACTTTTTCATACATATCA
* * * *
5900720 ACTGTGGATACCAAGTTCAATTATTCCAACAAGTTTAATATCATGTATTGAAGCTATGC-AAACT
66 ACTGTGGAAACCAAGTTCAATAATTCCAACAAGTTAAATATCATGTATTGAAACTAT-CAAAACT
* *
5900784 GTTAAAATAAAATAATAACAACAAAATTGTAT
130 ATTAAAATAAAACAATAACAACAAAATTGTAT
* *
5900816 TTTTACCTATTAACGGTAT-AAAAGTCCTAAATAGACATAAACAATAACTTTTTCATACATATCA
1 TTTTACCTATTAACGGCATAAAAAGTCCTAAACAGACATAAACAATAACTTTTTCATACATATCA
* *** * *
5900880 ACCT-TGGAAACTAAGTTCAATAATTTGGATAGGTTAAATATCATGTATTGAAACTATCAAAACT
66 A-CTGTGGAAACCAAGTTCAATAATTCCAACAAGTTAAATATCATGTATTGAAACTATCAAAACT
* ***** * *
5900944 ATTAAAATAGAACAATAATTGTTAATTTGCAT
130 ATTAAAATAAAACAATAACAACAAAATTGTAT
* * * **
5900976 TTTTATCTTTTAACAGCATAAAAAGTTGTAAACAGACATAAA
1 TTTTACCTATTAACGGCATAAAAAGTCCTAAACAGACATAAA
5901018 TTGCGAATTA
Statistics
Matches: 164, Mismatches: 35, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
159 1 0.01
160 125 0.76
161 38 0.23
ACGTcount: A:0.42, C:0.14, G:0.10, T:0.34
Consensus pattern (161 bp):
TTTTACCTATTAACGGCATAAAAAGTCCTAAACAGACATAAACAATAACTTTTTCATACATATCA
ACTGTGGAAACCAAGTTCAATAATTCCAACAAGTTAAATATCATGTATTGAAACTATCAAAACTA
TTAAAATAAAACAATAACAACAAAATTGTAT
Found at i:5904654 original size:17 final size:18
Alignment explanation
Indices: 5904632--5904674 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
5904622 TTTATCAAAA
5904632 TGGTAATCTAAAATC-AC-
1 TGGTAATCT-AAATCAACT
5904649 TGGTAATC-AAATCAACT
1 TGGTAATCTAAATCAACT
5904666 TGGTAATCT
1 TGGTAATCT
5904675 TATTACCATG
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 5 0.22
16 2 0.09
17 16 0.70
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (18 bp):
TGGTAATCTAAATCAACT
Found at i:5907212 original size:22 final size:22
Alignment explanation
Indices: 5907187--5907354 Score: 115
Period size: 22 Copynumber: 7.6 Consensus size: 22
5907177 CCAATTAATA
* * *
5907187 ACTAAGTTGTCACTGATTTATT
1 ACTAAGTTATCAATAATTTATT
*
5907209 ACTAAGTTATCAGTAATTTATT
1 ACTAAGTTATCAATAATTTATT
* * * *
5907231 ATTAAATTATCAATGATTTACT
1 ACTAAGTTATCAATAATTTATT
* *
5907253 ATTAAGTTATAAATAATTTATT
1 ACTAAGTTATCAATAATTTATT
* **
5907275 ACTAAGCTATTGATAATTTATT
1 ACTAAGTTATCAATAATTTATT
* *
5907297 ACAAAGTTAT-ATCTAATTT-TCT
1 ACTAAGTTATCA-ATAATTTAT-T
* * * *
5907319 ACGAAGTTATTAATGATTTACT
1 ACTAAGTTATCAATAATTTATT
* *
5907341 ACAAAATTATCAAT
1 ACTAAGTTATCAAT
5907355 GATTAACTAA
Statistics
Matches: 115, Mismatches: 27, Indels: 8
0.77 0.18 0.05
Matches are distributed among these distances:
21 1 0.01
22 113 0.98
23 1 0.01
ACGTcount: A:0.39, C:0.10, G:0.08, T:0.44
Consensus pattern (22 bp):
ACTAAGTTATCAATAATTTATT
Found at i:5907551 original size:22 final size:22
Alignment explanation
Indices: 5907525--5907597 Score: 74
Period size: 22 Copynumber: 3.3 Consensus size: 22
5907515 AGCTATTAAC
5907525 TTATCAATTATTTACTACTAAG
1 TTATCAATTATTTACTACTAAG
* *
5907547 TTATCAATTGAATTACTGCTAAG
1 TTATCAATT-ATTTACTACTAAG
** * * *
5907570 TTATTTATGATTTACTATTAAT
1 TTATCAATTATTTACTACTAAG
5907592 TTATCA
1 TTATCA
5907598 GTAAATTATA
Statistics
Matches: 39, Mismatches: 11, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
22 22 0.56
23 17 0.44
ACGTcount: A:0.34, C:0.11, G:0.07, T:0.48
Consensus pattern (22 bp):
TTATCAATTATTTACTACTAAG
Found at i:5907568 original size:23 final size:22
Alignment explanation
Indices: 5907510--5907573 Score: 74
Period size: 23 Copynumber: 2.8 Consensus size: 22
5907500 AACATTTTAA
* *
5907510 TAATTAGCTATTAACTTATCAAT
1 TAATTA-CTACTAAGTTATCAAT
*
5907533 TATTTACTACTAAGTTATCAAT
1 TAATTACTACTAAGTTATCAAT
*
5907555 TGAATTACTGCTAAGTTAT
1 T-AATTACTACTAAGTTAT
5907574 TTATGATTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
22 15 0.43
23 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.08, T:0.44
Consensus pattern (22 bp):
TAATTACTACTAAGTTATCAAT
Found at i:5907864 original size:22 final size:22
Alignment explanation
Indices: 5907839--5908030 Score: 110
Period size: 22 Copynumber: 8.8 Consensus size: 22
5907829 TATTACTATC
* *
5907839 TTATCACTAATTTACTACTAAA
1 TTATCAATAATTTACTACTAAG
5907861 TTATC-ATCAATTTA-TCACTAAG
1 TTATCAAT-AATTTACT-ACTAAG
* *
5907883 TTA-CAAATGATTTACTATTAAG
1 TTATC-AATAATTTACTACTAAG
* * * *
5907905 TGATAAATGATTTACTTCTAAG
1 TTATCAATAATTTACTACTAAG
* *
5907927 TTATTAATAATTTACTATTAAG
1 TTATCAATAATTTACTACTAAG
* *
5907949 TTAT-AGATAATTTATTA-TAAA
1 TTATCA-ATAATTTACTACTAAG
* *
5907970 TTATTACTAATTTACTA-TGAAG
1 TTATCAATAATTTACTACT-AAG
** *
5907992 TTATTGATGATTTACTA-TGAAG
1 TTATCAATAATTTACTACT-AAG
* *
5908014 TTATTAATAATTAACTA
1 TTATCAATAATTTACTA
5908031 ATTTACAATT
Statistics
Matches: 137, Mismatches: 24, Indels: 18
0.77 0.13 0.10
Matches are distributed among these distances:
21 21 0.15
22 113 0.82
23 3 0.02
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.44
Consensus pattern (22 bp):
TTATCAATAATTTACTACTAAG
Found at i:5908173 original size:19 final size:21
Alignment explanation
Indices: 5908029--5908166 Score: 96
Period size: 22 Copynumber: 6.3 Consensus size: 21
5908019 AATAATTAAC
* * *
5908029 TAATTTACAATTAAATAATCAT
1 TAATTTA-TATTAAATTATCAA
* *
5908051 TAATTTATAACTAAATTATCAC
1 TAATTTAT-ATTAAATTATCAA
* * *
5908073 TAATTTACAGCTAAGTTATCAA
1 TAATTTATA-TTAAATTATCAA
* ** * *
5908095 TAATTTATAATGATGTTATTAG
1 TAATTTAT-ATTAAATTATCAA
*
5908117 TGATTTACTATTAAATTATCAA
1 TAATTTA-TATTAAATTATCAA
5908139 TAATTTACTATTAAATTATCAA
1 TAATTTA-TATTAAATTATCAA
5908161 TAATTT
1 TAATTT
5908167 GTTAAATACT
Statistics
Matches: 92, Mismatches: 20, Indels: 8
0.77 0.17 0.07
Matches are distributed among these distances:
21 1 0.01
22 89 0.97
23 2 0.02
ACGTcount: A:0.43, C:0.09, G:0.04, T:0.44
Consensus pattern (21 bp):
TAATTTATATTAAATTATCAA
Found at i:5908259 original size:22 final size:22
Alignment explanation
Indices: 5908117--5908649 Score: 128
Period size: 22 Copynumber: 24.4 Consensus size: 22
5908107 ATGTTATTAG
* *
5908117 TGATTTACTATTAAATTATCAA
1 TGATTTACTACTAAATTATCAT
* * *
5908139 TAATTTACTATTAAATTATCAA
1 TGATTTACTACTAAATTATCAT
* *
5908161 TAATTT-GT--TAAA-TA-CTAT
1 TGATTTACTACTAAATTATC-AT
*
5908179 ATGCATTTGCTACTATATATTATCAT
1 -TG-ATTTACTACTA-A-ATTATCAT
* * * *
5908205 TGATTTACTACTGAGTT-TTAG
1 TGATTTACTACTAAATTATCAT
*
5908226 TGATTAACTACTAAATTATCAT
1 TGATTTACTACTAAATTATCAT
* * *
5908248 TGATTTATTACTAAGTTAT-TT
1 TGATTTACTACTAAATTATCAT
* * * *
5908269 ATGATTTATTGCTAAGTTTATAAT
1 -TGATTTACTACTAA-ATTATCAT
* * * * * ** *
5908293 TTAATTATTATTAAACTAAAAC
1 TGATTTACTACTAAATTATCAT
** * * * *
5908315 AAATTTACTATTAAGTTATGAG
1 TGATTTACTACTAAATTATCAT
* * * * *
5908337 TAACTTATTACTAAGTTTTCAT
1 TGATTTACTACTAAATTATCAT
*
5908359 TGATTTACTACTAAATTATCAA
1 TGATTTACTACTAAATTATCAT
* * * *
5908381 TAATTAACTATTAAGTTATCAT
1 TGATTTACTACTAAATTATCAT
** *
5908403 T--TTTTTTATTAAGA-TATCAT
1 TGATTTACTACTAA-ATTATCAT
*** *
5908423 TGATTTACTACTATGCTATTA-
1 TGATTTACTACTAAATTATCAT
* * * *
5908444 TGTATTTACAATTATATTATAAT
1 TG-ATTTACTACTAAATTATCAT
* *
5908467 TGATTTACTA-TAAGTTATTA-
1 TGATTTACTACTAAATTATCAT
* * *
5908487 TGCATTTACTATTATATTATTAT
1 TG-ATTTACTACTAAATTATCAT
* *
5908510 TGATTTACTACTAAGTTATAAAT
1 TGATTTACTACTAAATTAT-CAT
* *
5908533 T-ATTTA-TCATTAAATTATTAT
1 TGATTTACT-ACTAAATTATCAT
* * * *
5908554 TGATATACTATTAAGTTATCAC
1 TGATTTACTACTAAATTATCAT
* * *
5908576 TAATTTACTATATTAAATTATTAT
1 TGATTTAC--TACTAAATTATCAT
* * * * *
5908600 TAATTAACTATTAATTTATCAA
1 TGATTTACTACTAAATTATCAT
*
5908622 TGA-TTACTACTAAGTTAT-AT
1 TGATTTACTACTAAATTATCAT
5908642 TGATTTAC
1 TGATTTAC
5908650 ATTTAATTTT
Statistics
Matches: 378, Mismatches: 103, Indels: 61
0.70 0.19 0.11
Matches are distributed among these distances:
17 1 0.00
18 3 0.01
19 5 0.01
20 25 0.07
21 56 0.15
22 226 0.60
23 25 0.07
24 29 0.08
25 3 0.01
26 4 0.01
27 1 0.00
ACGTcount: A:0.37, C:0.09, G:0.06, T:0.48
Consensus pattern (22 bp):
TGATTTACTACTAAATTATCAT
Found at i:5908550 original size:44 final size:44
Alignment explanation
Indices: 5908421--5908649 Score: 175
Period size: 44 Copynumber: 5.2 Consensus size: 44
5908411 TTAAGATATC
* * * * *
5908421 ATTGATTTACTACTATGCTATTATGTATTTACAATTATATTATA
1 ATTGATTTACTACTAAGTTATAATGTATTTACAATTAAATTATT
* * * *
5908465 ATTGATTTACTA-TAAGTTATTATGCATTTACTATTATATTATT
1 ATTGATTTACTACTAAGTTATAATGTATTTACAATTAAATTATT
5908508 ATTGATTTACTACTAAGTTATAAAT-TATTTATC-ATTAAATTATT
1 ATTGATTTACTACTAAGTTAT-AATGTATTTA-CAATTAAATTATT
* * * *
5908552 ATTGATATACTATTAAGTTATCACT-AATTTACTATATTAAATTATT
1 ATTGATTTACTACTAAGTTAT-AATGTATTTAC-A-ATTAAATTATT
* * * * * * *
5908598 ATTAATTAACTATTAATTTATCAATG-A-TTACTACTAAGTTA-T
1 ATTGATTTACTACTAAGTTAT-AATGTATTTACAATTAAATTATT
5908640 ATTGATTTAC
1 ATTGATTTAC
5908650 ATTTAATTTT
Statistics
Matches: 155, Mismatches: 23, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
42 9 0.06
43 46 0.30
44 61 0.39
45 7 0.05
46 32 0.21
ACGTcount: A:0.37, C:0.08, G:0.06, T:0.49
Consensus pattern (44 bp):
ATTGATTTACTACTAAGTTATAATGTATTTACAATTAAATTATT
Found at i:5908597 original size:87 final size:87
Alignment explanation
Indices: 5908421--5908586 Score: 194
Period size: 87 Copynumber: 1.9 Consensus size: 87
5908411 TTAAGATATC
* * * * *
5908421 ATTGATTTACTACTATGCTATTATGTATTTACAATTATATTATAATTGATTTACTATAAGTTATT
1 ATTGATTTACTACTAAGCTATAATGTATTTACAATTAAATTATAATTGATATACTATAAGTTATC
* *
5908486 ATGCATTTACTATTATATTATT
66 ATGAATTTACTATTATATAATT
* *
5908508 ATTGATTTACTACTAAGTTATAAAT-TATTTATC-ATTAAATTATTATTGATATACTATTAAGTT
1 ATTGATTTACTACTAAGCTAT-AATGTATTTA-CAATTAAATTATAATTGATATACTA-TAAGTT
5908571 ATCACT-AATTTACTAT
63 ATCA-TGAATTTACTAT
5908587 ATTAAATTAT
Statistics
Matches: 67, Mismatches: 8, Indels: 7
0.82 0.10 0.09
Matches are distributed among these distances:
87 45 0.67
88 21 0.31
89 1 0.01
ACGTcount: A:0.36, C:0.08, G:0.06, T:0.50
Consensus pattern (87 bp):
ATTGATTTACTACTAAGCTATAATGTATTTACAATTAAATTATAATTGATATACTATAAGTTATC
ATGAATTTACTATTATATAATT
Found at i:5908633 original size:24 final size:24
Alignment explanation
Indices: 5908559--5908633 Score: 66
Period size: 24 Copynumber: 3.2 Consensus size: 24
5908549 ATTATTGATA
* *
5908559 TACTATTAAGTTATCACTAATTTAC
1 TACTATTAAATTATCAATAA-TTAC
* *
5908584 TA-TATTAAATTATTATTAATTA-
1 TACTATTAAATTATCAATAATTAC
* *
5908606 -ACTATTAATTTATCAATGATTAC
1 TACTATTAAATTATCAATAATTAC
5908629 TACTA
1 TACTA
5908634 AGTTATATTG
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
21 1 0.03
22 16 0.40
23 3 0.08
24 18 0.45
25 2 0.05
ACGTcount: A:0.40, C:0.11, G:0.03, T:0.47
Consensus pattern (24 bp):
TACTATTAAATTATCAATAATTAC
Found at i:5909050 original size:22 final size:22
Alignment explanation
Indices: 5909025--5909209 Score: 71
Period size: 22 Copynumber: 8.5 Consensus size: 22
5909015 ACTGAATCTT
5909025 ATTTACTATTAAATTATTATTA
1 ATTTACTATTAAATTATTATTA
* * * * *
5909047 ATTTATTACTAAGTTATCATTT
1 ATTTACTATTAAATTATTATTA
* *
5909069 ATTTACTATTAAGTTATCACTT-
1 ATTTACTATTAAATTATTA-TTA
*
5909091 ATTT-TTATTAAATTATCT-TTA
1 ATTTACTATTAAATTAT-TATTA
** * * *
5909112 GCTTACTACTATATTTTTATGT-
1 ATTTACTATTAAATTATTAT-TA
* * * *
5909134 ATTTACAATTATA-TA-TAGATG
1 ATTTACTATTAAATTATTA-TTA
*
5909155 ATTTACTATTAAATTATT-TGTT
1 ATTTACTATTAAATTATTAT-TA
* *
5909177 ATTTACTACTATATTATTA-TA
1 ATTTACTATTAAATTATTATTA
*
5909198 TATTTATTATTA
1 -ATTTACTATTA
5909210 TGTTATCATT
Statistics
Matches: 119, Mismatches: 31, Indels: 26
0.68 0.18 0.15
Matches are distributed among these distances:
20 5 0.04
21 26 0.22
22 84 0.71
23 4 0.03
ACGTcount: A:0.34, C:0.08, G:0.04, T:0.55
Consensus pattern (22 bp):
ATTTACTATTAAATTATTATTA
Found at i:5909101 original size:21 final size:22
Alignment explanation
Indices: 5909022--5909107 Score: 86
Period size: 22 Copynumber: 4.0 Consensus size: 22
5909012 TAAACTGAAT
* * *
5909022 CTTATTTACTATTAAATTATTA
1 CTTATTTATTATTAAGTTATCA
*
5909044 -TTAATTTATTACTAAGTTATCA
1 CTT-ATTTATTATTAAGTTATCA
* *
5909066 TTTATTTACTATTAAGTTATCA
1 CTTATTTATTATTAAGTTATCA
*
5909088 CTTATTT-TTATTAAATTATC
1 CTTATTTATTATTAAGTTATC
5909108 TTTAGCTTAC
Statistics
Matches: 53, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
21 13 0.25
22 38 0.72
23 2 0.04
ACGTcount: A:0.34, C:0.09, G:0.02, T:0.55
Consensus pattern (22 bp):
CTTATTTATTATTAAGTTATCA
Found at i:5909137 original size:65 final size:67
Alignment explanation
Indices: 5909025--5909217 Score: 159
Period size: 65 Copynumber: 2.9 Consensus size: 67
5909015 ACTGAATCTT
* * * * *
5909025 ATTTACTATTAAATTAT-TATTAATTTATTACTA-AGTTATCATTTATTTACTATTAAGTTATCA
1 ATTTACTATTAAATTATCTGTT-ACTTACTACTATA-TTATTATATATTTACTATTAAGTTATCA
* *
5909088 -CTT
64 GATG
* * * *
5909091 ATTT-TTATTAAATTATCT-TTAGCTTACTACTATATTTTTATGTATTTACAATT-A-TATAT-A
1 ATTTACTATTAAATTATCTGTTA-CTTACTACTATATTATTATATATTTACTATTAAGT-TATCA
5909151 GATG
64 GATG
* * * *
5909155 ATTTACTATTAAATTATTTGTTATTTACTACTATATTATTATATATTTATTATTATGTTATCA
1 ATTTACTATTAAATTATCTGTTACTTACTACTATATTATTATATATTTACTATTAAGTTATCA
5909218 TTGGCATACA
Statistics
Matches: 100, Mismatches: 17, Indels: 19
0.74 0.12 0.14
Matches are distributed among these distances:
63 2 0.02
64 10 0.10
65 74 0.74
66 12 0.12
67 2 0.02
ACGTcount: A:0.34, C:0.08, G:0.04, T:0.54
Consensus pattern (67 bp):
ATTTACTATTAAATTATCTGTTACTTACTACTATATTATTATATATTTACTATTAAGTTATCAGA
TG
Found at i:5909281 original size:22 final size:22
Alignment explanation
Indices: 5909256--5909303 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
5909246 TAGTACTAAA
*
5909256 TTATTATTT-ATTTACCATTATG
1 TTATT-TTTAATTTACCATTAAG
*
5909278 TTATTTTTAATTTACTATTAAG
1 TTATTTTTAATTTACCATTAAG
5909300 TTAT
1 TTAT
5909304 CCATAATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 3 0.13
22 20 0.87
ACGTcount: A:0.29, C:0.06, G:0.04, T:0.60
Consensus pattern (22 bp):
TTATTTTTAATTTACCATTAAG
Found at i:5909323 original size:22 final size:21
Alignment explanation
Indices: 5909284--5909346 Score: 58
Period size: 22 Copynumber: 2.9 Consensus size: 21
5909274 TATGTTATTT
*
5909284 TTAATTTACTATTAAGTTATCCA
1 TTAATTTAATA-TAAGTTAT-CA
*
5909307 -TAATTTAATATACAGTTGTCA
1 TTAATTTAATATA-AGTTATCA
5909328 TTAA-TTAATATAAAGTTAT
1 TTAATTTAATAT-AAGTTAT
5909347 TAATGGTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
21 16 0.47
22 18 0.53
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.46
Consensus pattern (21 bp):
TTAATTTAATATAAGTTATCA
Found at i:5910422 original size:132 final size:132
Alignment explanation
Indices: 5910185--5910451 Score: 500
Period size: 132 Copynumber: 2.0 Consensus size: 132
5910175 GTTATCATCC
*
5910185 ATAATCTAATACTTTTTTATTATCATTTTCATATATATTATGATACATTGACCAATTGAGTAATA
1 ATAATCTAATACTTTTTTATTATCATTTTCATATATATTATGACACATTGACCAATTGAGTAATA
5910250 AAAAGACTAATTTACTAATCTTGGGATCTATATGAAATATTAATTAATTCATTTATCTTT-TTTT
66 AAAAGACTAATTTACTAATCTTGGGATCTATATGAAATATTAATTAATTCATTTAT-TTTGTTTT
5910314 TGT
130 TGT
*
5910317 ATAATCTAATGCTTTTTTATTATCATTTTCATATATATTATGACACATTGACCAATTGAGTAATA
1 ATAATCTAATACTTTTTTATTATCATTTTCATATATATTATGACACATTGACCAATTGAGTAATA
5910382 AAAAGACTAATTTACTAATCTTGGGATCTATATGAAATATTAATTAATTCATTTATTTTGTTTTT
66 AAAAGACTAATTTACTAATCTTGGGATCTATATGAAATATTAATTAATTCATTTATTTTGTTTTT
5910447 GT
131 GT
5910449 ATA
1 ATA
5910452 TATATAATTT
Statistics
Matches: 132, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
131 3 0.02
132 129 0.98
ACGTcount: A:0.36, C:0.10, G:0.08, T:0.46
Consensus pattern (132 bp):
ATAATCTAATACTTTTTTATTATCATTTTCATATATATTATGACACATTGACCAATTGAGTAATA
AAAAGACTAATTTACTAATCTTGGGATCTATATGAAATATTAATTAATTCATTTATTTTGTTTTT
GT
Found at i:5911960 original size:12 final size:11
Alignment explanation
Indices: 5911943--5911981 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
5911933 GTATATTACT
5911943 TTTTTTTAATAA
1 TTTTTTT-ATAA
5911955 TTTTTTTATAA
1 TTTTTTTATAA
*
5911966 TTTAATTTATAA
1 TTT-TTTTATAA
5911978 TTTT
1 TTTT
5911982 GTGTGAACTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 7 0.29
12 17 0.71
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
TTTTTTTATAA
Found at i:5912662 original size:152 final size:153
Alignment explanation
Indices: 5912450--5912738 Score: 433
Period size: 152 Copynumber: 1.9 Consensus size: 153
5912440 ATTTTTAATT
5912450 GATTTAAATTTAAATAACTAATGAAAAAAATCTATATATTTAATGACAAATAATTATTATTAAAT
1 GATTTAAATTTAAATAACTAATGAAAAAAATCTATATATTTAATGACAAATAATTATTATTAAAT
* * *
5912515 AAATAAATAATGCTA-GAAGTTAAAATATAAATTTATTATCTTTTAAAATTTATAAGGCTATTTA
66 AAATAAAAAATACTATGAA-TTAAAAGATAAATTTATTATCTTTTAAAATTTATAAGGCTATTTA
*
5912579 TGTTATTCCCTTTAAAAACTTTTA
130 TGTCATTCCCTTTAAAAACTTTTA
5912603 GATTTAAATTTAAATAACTAAT-AATAAAAA-CTATATATTTAATGACAAATAATCT-TTATTAA
1 GATTTAAATTTAAATAACTAATGAA-AAAAATCTATATATTTAATGACAAATAAT-TATTATTAA
* * * * * *
5912665 ATAAATAAAAAATACTATGAATTTAAAGGTAAATTTGTTATTTTTTTAAATTTATAAGGGTATTT
64 ATAAATAAAAAATACTATGAATTAAAAGATAAATTTATTATCTTTTAAAATTTATAAGGCTATTT
5912730 ATGTCATTC
129 ATGTCATTC
5912739 AATTTTAATA
Statistics
Matches: 123, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
152 92 0.75
153 31 0.25
ACGTcount: A:0.46, C:0.06, G:0.07, T:0.42
Consensus pattern (153 bp):
GATTTAAATTTAAATAACTAATGAAAAAAATCTATATATTTAATGACAAATAATTATTATTAAAT
AAATAAAAAATACTATGAATTAAAAGATAAATTTATTATCTTTTAAAATTTATAAGGCTATTTAT
GTCATTCCCTTTAAAAACTTTTA
Found at i:5921683 original size:33 final size:35
Alignment explanation
Indices: 5921638--5921712 Score: 127
Period size: 35 Copynumber: 2.2 Consensus size: 35
5921628 TATGTTTATA
5921638 GCATTCAACCATAG-AAAAAAAAA-AAAAAAAATG
1 GCATTCAACCATAGAAAAAAAAAAGAAAAAAAATG
*
5921671 GCATTCAGCCATAGAAAAAAAAAAGAAAAAAAATG
1 GCATTCAACCATAGAAAAAAAAAAGAAAAAAAATG
5921706 GCATTCA
1 GCATTCA
5921713 TTCATATATA
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
33 13 0.33
34 9 0.23
35 17 0.44
ACGTcount: A:0.61, C:0.13, G:0.12, T:0.13
Consensus pattern (35 bp):
GCATTCAACCATAGAAAAAAAAAAGAAAAAAAATG
Found at i:5923278 original size:31 final size:27
Alignment explanation
Indices: 5923208--5923279 Score: 72
Period size: 27 Copynumber: 2.5 Consensus size: 27
5923198 ATAATGGTTG
*
5923208 CTTTGTGAATTTCAATCAACTATTATA
1 CTTTGTGAATTTCAATCAACTATTACA
* * *
5923235 TTTTATGAATTTCAATCAGCTTGAAATTACA
1 CTTTGTGAATTTCAATCAAC-T---ATTACA
5923266 CTTTGTGAATTTCA
1 CTTTGTGAATTTCA
5923280 CATTTTTCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
27 17 0.49
28 1 0.03
31 17 0.49
ACGTcount: A:0.32, C:0.14, G:0.10, T:0.44
Consensus pattern (27 bp):
CTTTGTGAATTTCAATCAACTATTACA
Found at i:5925163 original size:21 final size:21
Alignment explanation
Indices: 5925129--5925171 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
5925119 ATTACTATGG
* *
5925129 AGATTTTTTGCAAAAAATAAC
1 AGATTCTTTCCAAAAAATAAC
*
5925150 AGATTCTTTCCAAAAAGTAAC
1 AGATTCTTTCCAAAAAATAAC
5925171 A
1 A
5925172 AATCAAGGCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.47, C:0.14, G:0.09, T:0.30
Consensus pattern (21 bp):
AGATTCTTTCCAAAAAATAAC
Found at i:5926164 original size:15 final size:15
Alignment explanation
Indices: 5926144--5926183 Score: 80
Period size: 15 Copynumber: 2.7 Consensus size: 15
5926134 AAAATAAAAA
5926144 TAAAAATATTCATTT
1 TAAAAATATTCATTT
5926159 TAAAAATATTCATTT
1 TAAAAATATTCATTT
5926174 TAAAAATATT
1 TAAAAATATT
5926184 TAATGTAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (15 bp):
TAAAAATATTCATTT
Found at i:5929252 original size:20 final size:20
Alignment explanation
Indices: 5929229--5929299 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
5929219 AGGAAAAAGT
5929229 ATAAAAAATATTATTATAAC
1 ATAAAAAATATTATTATAAC
* **
5929249 ATAAATAATATT-TTGGCAAC
1 ATAAAAAATATTATT-ATAAC
5929269 ATAAAAGAATTATTATTATAA-
1 ATAAAA-AA-TATTATTATAAC
5929290 ATAAAAAATA
1 ATAAAAAATA
5929300 ATTCTAAAAC
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
19 4 0.10
20 21 0.51
21 8 0.20
22 6 0.15
23 2 0.05
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.34
Consensus pattern (20 bp):
ATAAAAAATATTATTATAAC
Found at i:5929742 original size:16 final size:17
Alignment explanation
Indices: 5929721--5929766 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 17
5929711 ATTATTATTA
5929721 TAAATAAAAATAATT-T
1 TAAATAAAAATAATTGT
5929737 TAAATAAAAAATAATTGT
1 TAAAT-AAAAATAATTGT
5929755 TAAAGTAAAAAT
1 TAAA-TAAAAAT
5929767 GTGAGAATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
16 5 0.19
17 10 0.37
18 11 0.41
19 1 0.04
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (17 bp):
TAAATAAAAATAATTGT
Found at i:5929747 original size:18 final size:19
Alignment explanation
Indices: 5929704--5929765 Score: 58
Period size: 17 Copynumber: 3.3 Consensus size: 19
5929694 ATTTGTAACG
*
5929704 TAAAAAAATTATTATTATAA
1 TAAAAAAATAATTATTA-AA
*
5929724 -ATAAAAATAATT-TTAAA
1 TAAAAAAATAATTATTAAA
*
5929741 T-AAAAAATAATTGTTAAA
1 TAAAAAAATAATTATTAAA
5929759 GTAAAAA
1 -TAAAAA
5929766 TGTGAGAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
17 12 0.34
18 8 0.23
19 11 0.31
20 4 0.11
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (19 bp):
TAAAAAAATAATTATTAAA
Found at i:5929748 original size:17 final size:18
Alignment explanation
Indices: 5929721--5929765 Score: 67
Period size: 17 Copynumber: 2.6 Consensus size: 18
5929711 ATTATTATTA
5929721 TAAAT-AAAAATAATT-T
1 TAAATAAAAAATAATTGT
5929737 TAAATAAAAAATAATTGT
1 TAAATAAAAAATAATTGT
5929755 TAAAGTAAAAA
1 TAAA-TAAAAA
5929766 TGTGAGAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
16 5 0.19
17 10 0.38
18 5 0.19
19 6 0.23
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.31
Consensus pattern (18 bp):
TAAATAAAAAATAATTGT
Found at i:5929927 original size:215 final size:214
Alignment explanation
Indices: 5929160--5930041 Score: 726
Period size: 217 Copynumber: 4.1 Consensus size: 214
5929150 GTAAATTAGA
* * * * * *
5929160 TTAGAAGTGTAGTAACACCTTAATAAAAAATTATGATAATTCTAAATATAATAAAAAGTAGGAA-
1 TTAGAAGTATTGTAATACCTTTA-AAAAAATTATGATAATTCT-AATATAATGAAAAGTAAGAAC
* ** * *
5929224 AAAGTATAAAAAATATTATTATAACATAAATAATATTTTGGCAACATAAAAGAATTATTATTATA
64 AAA-TGTAAAAAATATTATTATAACATAAATAATAAATTGACAACATAAAA-AATTATTATTACA
* * * *
5929289 AATAAAAAATAATTCTAAAACAAAAAATAAGTGTTAATATAAAAAAGTAAGAATAATTGTAAAAT
127 AATAAAAAATAATT-TTAAACAAAAAATAAGTGTTAACATAAAAATGTGAGAATAATTGTAAAAT
* *
5929354 TGATATAATTCAATAT-ACA-ATG
191 TGATATAATTTAATATAAAATATG
* * *
5929376 ATTAGAAGTATTGTAATACCTTTAAGAAAAAATTATGATACTTCTAAAAGTAATGAAAGGT-AGC
1 -TTAGAAGTATTGTAATACCTTT-A-AAAAAATTATGATAATTCTAATA-TAATGAAAAGTAAG-
* * * * * *
5929440 AACGAGTGTAAAAATATATTATTATAACGTAAATAATTAAGTTGATAATATAAACAAATTATTAT
61 AACAAATGTAAAAA-ATATTATTATAACATAAATAA-TAAATTGACAACATAAA-AAATTATTAT
5929505 TACAAAT-AAAAATAA-TTTAAACAAAAAATAA-TGGTTAACATAAAACA-GTGAGAATAATTGT
123 TACAAATAAAAAATAATTTTAAACAAAAAATAAGT-GTTAACATAAAA-ATGTGAGAATAATTGT
* * * * *
5929566 AAAATTGGTATTATTTTACATAAAAT-TA
186 AAAATTGATATAATTTAATATAAAATATG
* * * * * * *
5929594 TTAGAAATATTGTTACACCTTAATAAAAAAAATT-TGTAATATTTTTTATCGTAATGAAAAGTAA
1 TTAGAAGTATTGTAATACCTT--T-AAAAAAATTATG--ATAATTCTAAT-ATAATGAAAAGTAA
* * * *
5929658 CAACAAATGTAAAAAGATATTATTA-AA-AT--GTAATAAATTTG-TAACGTAAAAAAATTATTA
60 GAACAAATGTAAAAA-ATATTATTATAACATAAATAATAAA-TTGACAACAT-AAAAAATTATTA
* * *
5929718 TTATAAAT-AAAAATAATTTTAAATAAAAAATAATTGTTAA-AGTAAAAATGTGAGAATAATTGT
122 TTACAAATAAAAAATAATTTTAAACAAAAAATAAGTGTTAACA-TAAAAATGTGAGAATAATTGT
* ** *
5929781 AAAATTAATATAATTTGGTGTAAAATATG
186 AAAATTGATATAATTTAATATAAAATATG
* * *
5929810 TTTGAAGTGTTGTAATA-C-TTACAAAAAAGTTGTGATAATTCTGAATATAAT--AAAGTATAAG
1 TTAGAAGTATTGTAATACCTTTA-AAAAAA-TTATGATAATTCT-AATATAATGAAAAG--TAAG
* *
5929871 AACAAATGTAATAAATTTTATTATAACATAAATAATTAAATTGACAACATAAAAAATTATTATTA
61 AACAAATGTAAAAAATATTATTATAACATAAATAA-TAAATTGACAACATAAAAAATTATTATTA
* * * ** * * *
5929936 CAAATAAAAAATAATTCTAAATCTAAAAATAAGTATTAATGTAAAAATGTGAGAATGATCGCAAA
125 CAAATAAAAAATAATTTTAAA-CAAAAAATAAGTGTTAACATAAAAATGTGAGAATAATTGTAAA
* * *
5930001 ATTGATATAATTTAATGTAAAATGTA
189 ATTGATATAATTTAATATAAAATATG
* *
5930027 TTAAAAGTATCGTAA
1 TTAGAAGTATTGTAA
5930042 ATAAATATGT
Statistics
Matches: 534, Mismatches: 92, Indels: 78
0.76 0.13 0.11
Matches are distributed among these distances:
210 4 0.01
211 9 0.02
212 35 0.07
213 6 0.01
214 36 0.07
215 93 0.17
216 37 0.07
217 163 0.31
218 52 0.10
219 70 0.13
220 28 0.05
221 1 0.00
ACGTcount: A:0.52, C:0.05, G:0.10, T:0.33
Consensus pattern (214 bp):
TTAGAAGTATTGTAATACCTTTAAAAAAATTATGATAATTCTAATATAATGAAAAGTAAGAACAA
ATGTAAAAAATATTATTATAACATAAATAATAAATTGACAACATAAAAAATTATTATTACAAATA
AAAAATAATTTTAAACAAAAAATAAGTGTTAACATAAAAATGTGAGAATAATTGTAAAATTGATA
TAATTTAATATAAAATATG
Found at i:5929944 original size:20 final size:21
Alignment explanation
Indices: 5929883--5929947 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
5929873 CAAATGTAAT
*
5929883 AAATT-TTATTATAACATAAA
1 AAATTATTATTACAACATAAA
* *
5929903 TAATTA-AATTGACAACATAAA
1 AAATTATTATT-ACAACATAAA
5929924 AAATTATTATTACAA-ATAAA
1 AAATTATTATTACAACATAAA
5929944 AAAT
1 AAAT
5929948 AATTCTAAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
20 16 0.43
21 18 0.49
22 3 0.08
ACGTcount: A:0.58, C:0.06, G:0.02, T:0.34
Consensus pattern (21 bp):
AAATTATTATTACAACATAAA
Found at i:5930097 original size:66 final size:66
Alignment explanation
Indices: 5929977--5930103 Score: 150
Period size: 66 Copynumber: 1.9 Consensus size: 66
5929967 AGTATTAATG
* * *
5929977 TAAAAATGTGAGAATGATCGCAAAATTGATATAATTTAATGTAAAATGTATTAAAAGTATCGTAA
1 TAAAAATGTGAGAATGATCGCAAAATTAATATAATTTAATGTAAAATGAATTAAAACTATCGTAA
5930042 A
66 A
* * * **
5930043 TAAATATGTGAGAAT-AGTCGTAAAATTAATATCATTTGGTGTAAAAT-AAGTTAAAACTATC
1 TAAAAATGTGAGAATGA-TCGCAAAATTAATATAATTTAATGTAAAATGAA-TTAAAACTATC
5930104 ATAATACCTT
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
65 2 0.04
66 49 0.96
ACGTcount: A:0.46, C:0.06, G:0.15, T:0.33
Consensus pattern (66 bp):
TAAAAATGTGAGAATGATCGCAAAATTAATATAATTTAATGTAAAATGAATTAAAACTATCGTAA
A
Found at i:5930440 original size:21 final size:21
Alignment explanation
Indices: 5930390--5930440 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 21
5930380 TAAAAATATG
5930390 TTATTATAATGTAAATAATTA
1 TTATTATAATGTAAATAATTA
* *
5930411 -AACTGATAATGTAAGA-AATTA
1 TTA-TTATAATGTAA-ATAATTA
5930432 TTATTATAA
1 TTATTATAA
5930441 ACAAAAAGTA
Statistics
Matches: 23, Mismatches: 4, Indels: 6
0.70 0.12 0.18
Matches are distributed among these distances:
20 1 0.04
21 20 0.87
22 2 0.09
ACGTcount: A:0.49, C:0.02, G:0.08, T:0.41
Consensus pattern (21 bp):
TTATTATAATGTAAATAATTA
Found at i:5933546 original size:16 final size:17
Alignment explanation
Indices: 5933514--5933548 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
5933504 TTTTTTTATT
5933514 TTTTTTAAATAATAAAA
1 TTTTTTAAATAATAAAA
5933531 TTTTTTAAATAA-AAAA
1 TTTTTTAAATAATAAAA
5933547 TT
1 TT
5933549 AAAGACAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TTTTTTAAATAATAAAA
Found at i:5942571 original size:25 final size:25
Alignment explanation
Indices: 5942535--5942601 Score: 82
Period size: 25 Copynumber: 2.7 Consensus size: 25
5942525 TAATGTGTTC
* *
5942535 AAACACCTTTCAGCAAACCACT-CAG
1 AAACACCATTCAGCAAACCA-TGCAA
*
5942560 AAACACCATTCAGCAAGCCATGCAA
1 AAACACCATTCAGCAAACCATGCAA
*
5942585 AAACACCATTCAACAAA
1 AAACACCATTCAGCAAA
5942602 TGATTCAGCA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
24 1 0.03
25 35 0.97
ACGTcount: A:0.46, C:0.33, G:0.07, T:0.13
Consensus pattern (25 bp):
AAACACCATTCAGCAAACCATGCAA
Found at i:5942636 original size:28 final size:28
Alignment explanation
Indices: 5942604--5942657 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
5942594 TCAACAAATG
* * *
5942604 ATTCAGCATACCAATATCATACAATACC
1 ATTCAGCAAAACAATATCACACAATACC
*
5942632 ATTCAGCAAAACAATATTACACAATA
1 ATTCAGCAAAACAATATCACACAATA
5942658 AGGTTCAACA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.48, C:0.24, G:0.04, T:0.24
Consensus pattern (28 bp):
ATTCAGCAAAACAATATCACACAATACC
Found at i:5942992 original size:160 final size:160
Alignment explanation
Indices: 5942728--5943028 Score: 584
Period size: 160 Copynumber: 1.9 Consensus size: 160
5942718 AGTTGCTTGG
5942728 ACAACTATGCTTACGGTGAAATTAATAAAAATATATATCTATATGTAAATAGTAAGGAACAAGAA
1 ACAACTATGCTTACGGTGAAATTAATAAAAATATATATCTATATGTAAATAGTAAGGAACAAGAA
*
5942793 AAAATAGCTTTATCGAATAATATAAATAATATAGTAAATAAAAATTATAAAGACGTACTAGTAAA
66 AAAATAGCTTTATCGAATAATATAAATAATATAGTAAATAAAAATTATAAAGACATACTAGTAAA
5942858 CAAAAAGGTACTAGTAAATAGTAAATAAAA
131 CAAAAAGGTACTAGTAAATAGTAAATAAAA
5942888 ACAACTATGCTTACGGTGAAATTAATAAAAATATATATCTATATGTAAATAGTAAGGAACAAGAA
1 ACAACTATGCTTACGGTGAAATTAATAAAAATATATATCTATATGTAAATAGTAAGGAACAAGAA
5942953 AAAATAGCTTTATCGAATAATATAAATAATATAGTAAATAAAAATTATAAAGACATACTAGTAAA
66 AAAATAGCTTTATCGAATAATATAAATAATATAGTAAATAAAAATTATAAAGACATACTAGTAAA
*
5943018 CAAAGAGGTAC
131 CAAAAAGGTAC
5943029 ATACTGTTGA
Statistics
Matches: 139, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
160 139 1.00
ACGTcount: A:0.53, C:0.08, G:0.12, T:0.27
Consensus pattern (160 bp):
ACAACTATGCTTACGGTGAAATTAATAAAAATATATATCTATATGTAAATAGTAAGGAACAAGAA
AAAATAGCTTTATCGAATAATATAAATAATATAGTAAATAAAAATTATAAAGACATACTAGTAAA
CAAAAAGGTACTAGTAAATAGTAAATAAAA
Found at i:5944837 original size:568 final size:555
Alignment explanation
Indices: 5943299--5945028 Score: 2329
Period size: 568 Copynumber: 3.1 Consensus size: 555
5943289 AATTATGTAT
* * ** * ** *
5943299 AAATTTTAAGAGGAAATTATTAAAGGGGTTTATTCTAAAAAAACACATTCAATAATTATGTACGT
1 AAATTTTAAGAGAAAATTATTGAAGGCATTTGTTCTAAAAAAATGCCTTCAATAATTATGTACGT
* * * *
5943364 AAATTAGAAGGAATTAGTGAAGGTATTTTTCTAGAATAAAGACATTCACTAACCGTCTCAAAATA
66 AAATTAGAAGGAATTAGTGAAGGCATTTTTCTAGAATAAACACATTCACTAACCGTCTTAAAATT
* * *
5943429 GGAGTTGTGAAAAATTGAAGGTGTTTTTCACTAGAAAACACCTTTAATAATCCAAAAAATTTTAA
131 TGAGTTGTGGAAAATTGAAGGTGTTTTTCACTGGAAAACACCTTTAATAATCCAAAAAATTTTAA
*
5943494 GAAAAAATTAGTGAAGGCGTTTGTTCTTAAAAAATACCTTCAATAATTATGTACATAAATTAGAA
196 GAAAAAATTATTGAAGGCGTTTGTTCTTAAAAAATACCTTCAATAATTATGTACATAAATTAGAA
* * *
5943559 GGAACTAGTGAAGGCATTTTTCTATAATAAATGCCTTCACTAACCGTCTTAAAATTTGAGTTAT-
261 GGAATTAGTGAAGGCATTTTTCTAGAATAAATGCCTTCACTAACCGTCTTAAAATTTGAGTTGTG
* * * *
5943623 AGAAAATTAAAGGC-GTTTTCACTGGAAGATGCCTTTAATAATCCCAAAACTTTTAAGAGGAAAT
326 A-AAAATTGAAGGCATTTTTCACTGGAAGATGCCTTTAATAATCCCAAAAATTTTAA-AAGAAAT
* * * *
5943687 TATTGAAGGCGTTTGTTCTCAAAGAATGCCTTTAATAATTATGTACATAAATTAAAAGGAATTAG
389 TATTGAAGGCATTTGTTCTCAAAAAATGCCTTAAATAATTATGTACATAAATTAGAAGGAATTAG
*
5943752 TGAAGGCATTTTTCTAGAATAAACATCTTCACTAACCGTCTTAAAATTTAAGTTGTGGAAAATTA
454 TGAAGGCATTTTTCTAGAATAAACA-CTTCACTAACCGTCTTAAAATTTAAGTTGTGGAAAATTG
**
5943817 AAGGTGTTTTTCATTGGAAGACGCCTTTAATAATTCCAA
518 AAGGCATTTTTCATTGGAAGACGCCTTTAATAA-TCCAA
* * * *
5943856 AAATTTTAAGA-AGAAATTAATGCAGGCATTTGTTCT-CAAAAATG-CTTCAATAACTATGTACG
1 AAATTTTAAGAGA-AAATTATTGAAGGCATTTGTTCTAAAAAAATGCCTTCAATAATTATGTACG
* * *
5943918 TAAATTAGAAAGAATTAGTGAAGGCATTTTTCTAGAATAAACGCCTTCACTAACCGTCTTAAAAT
65 TAAATTAGAAGGAATTAGTGAAGGCATTTTTCTAGAATAAACACATTCACTAACCGTCTTAAAAT
* *
5943983 TTGAGTTGT-GACAAATTGAAGGTGTTTTTCACTGGAAAACACATTTAATAATCCTAAAAATTTT
130 TTGAGTTGTGGA-AAATTGAAGGTGTTTTTCACTGGAAAACACCTTTAATAATCCAAAAAATTTT
* * * * *
5944047 AAGAAAAACTTATTGAAGGTGTTTATTTTTAAAAAATACCTTCAATAATTATGTACATAAATTAA
194 AAGAAAAAATTATTGAAGGCGTTTGTTCTTAAAAAATACCTTCAATAATTATGTACATAAATTAG
* *** *
5944112 AATGAATTAGTGAAGGCATTTTTCTAGAATAAACATCTTCACTAACCATCTTAAAATTTGAGTTG
259 AAGGAATTAGTGAAGGCATTTTTCTAGAATAAATGCCTTCACTAACCGTCTTAAAATTTGAGTTG
* * * *
5944177 TGAAAAATTGAAGGCATTTTTCATTGAAAGGTGCCTTTAATAATCCCAAAAATTTTAAGAGAAAA
324 TGAAAAATTGAAGGCATTTTTCACTGGAAGATGCCTTTAATAATCCCAAAAATTTTAAAAG-AAA
* * * * * *
5944242 TTAGTGAAGGCATTTGTTCTAAAAAAATGCATTCAATAATTATGTACGTAAATTAGAAGTAATTA
388 TTATTGAAGGCATTTGTTCTCAAAAAATGCCTTAAATAATTATGTACATAAATTAGAAGGAATTA
* * * * *
5944307 GTGAAGGTATTTTTCTAGAATAAACGCATTCACTAACCGTCTTAAAATTTTAGTTATGGCAAATT
453 GTGAAGGCATTTTTCTAGAATAAACAC-TTCACTAACCGTCTTAAAATTTAAGTTGTGGAAAATT
* * * *
5944372 GAATGCATCTTTCATTGGAAAACACCTTTAATAATCCTAA
517 GAAGGCATTTTTCATTGGAAGACGCCTTTAATAATCC-AA
* ** *
5944412 ATATTTTAAGAGAAAATTATTGAAGGCATTTGTTCTCGAAAAATGCCTTCAATAATTATGTACGC
1 AAATTTTAAGAGAAAATTATTGAAGGCATTTGTTCTAAAAAAATGCCTTCAATAATTATGTACGT
* *
5944477 AAATTAGAAGGAATTAGTGAAGGCATTTTTCTAGAATAAACACATTCACTAACCATTTTAAAATT
66 AAATTAGAAGGAATTAGTGAAGGCATTTTTCTAGAATAAACACATTCACTAACCGTCTTAAAATT
* * ** * *
5944542 TGAGTTATGGAAAATTGAAGGTATTTTTCACTGGAAAATGCCTTTAATAGTCCCAAAAATTTTAA
131 TGAGTTGTGGAAAATTGAAGGTGTTTTTCACTGGAAAACACCTTTAATAATCCAAAAAATTTT-A
* * * *
5944607 GAGGAAATTATTGAAATTATTGAAGGCATTTGTTCTTAAAAAAACACCTTCAATAATTATGCACG
195 -A-G-AA--A---AAATTATTGAAGGCGTTTGTTCTT-AAAAAATACCTTCAATAATTATGTACA
*
5944672 TAAATTAGAAGGAATTAGTGAAGGCATTTTTCTAGCATAAATGCCTTCACTAACCGTCTTAAAAT
251 TAAATTAGAAGGAATTAGTGAAGGCATTTTTCTAGAATAAATGCCTTCACTAACCGTCTTAAAAT
* * *
5944737 TTGCGTTGTGAAAAATTGAAGTCATTTTTCACTGGAAGACGCCTTTAATAATCCCAAAAATTTTA
316 TTGAGTTGTGAAAAATTGAAGGCATTTTTCACTGGAAGATGCCTTTAATAATCCCAAAAATTTTA
*
5944802 ACAAGAAATTATTGAAGGCATTTATTCTCAAAAAATGCCTTAAATAATTATGTACATAAATTAGA
381 A-AAGAAATTATTGAAGGCATTTGTTCTCAAAAAATGCCTTAAATAATTATGTACATAAATTAGA
* * *
5944867 AGGAATTAGTGAAGGCATTTTTCTAGAATAAATACCTTCACTAACCATCTTAAAATTTGAGTTGT
445 AGGAATTAGTGAAGGCATTTTTCTAGAATAAACA-CTTCACTAACCGTCTTAAAATTTAAGTTGT
* * *
5944932 GGAAAATTGAAGGCATTTTTCAGTAGAAGATGCCTTTAATAATCCCAA
509 GGAAAATTGAAGGCATTTTTCATTGGAAGACGCCTTTAATAAT-CCAA
* * * *
5944980 AAATTTTTAGAAAAAATTATTGAATGCATTTGTTTTAAAAAAATGCCTT
1 AAATTTTAAGAGAAAATTATTGAAGGCATTTGTTCTAAAAAAATGCCTT
5945029 ACTAATCATC
Statistics
Matches: 1014, Mismatches: 135, Indels: 37
0.85 0.11 0.03
Matches are distributed among these distances:
554 1 0.00
555 264 0.26
556 220 0.22
557 36 0.04
558 130 0.13
559 3 0.00
560 1 0.00
561 1 0.00
562 2 0.00
564 1 0.00
567 19 0.02
568 331 0.33
569 5 0.00
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.34
Consensus pattern (555 bp):
AAATTTTAAGAGAAAATTATTGAAGGCATTTGTTCTAAAAAAATGCCTTCAATAATTATGTACGT
AAATTAGAAGGAATTAGTGAAGGCATTTTTCTAGAATAAACACATTCACTAACCGTCTTAAAATT
TGAGTTGTGGAAAATTGAAGGTGTTTTTCACTGGAAAACACCTTTAATAATCCAAAAAATTTTAA
GAAAAAATTATTGAAGGCGTTTGTTCTTAAAAAATACCTTCAATAATTATGTACATAAATTAGAA
GGAATTAGTGAAGGCATTTTTCTAGAATAAATGCCTTCACTAACCGTCTTAAAATTTGAGTTGTG
AAAAATTGAAGGCATTTTTCACTGGAAGATGCCTTTAATAATCCCAAAAATTTTAAAAGAAATTA
TTGAAGGCATTTGTTCTCAAAAAATGCCTTAAATAATTATGTACATAAATTAGAAGGAATTAGTG
AAGGCATTTTTCTAGAATAAACACTTCACTAACCGTCTTAAAATTTAAGTTGTGGAAAATTGAAG
GCATTTTTCATTGGAAGACGCCTTTAATAATCCAA
Found at i:5944883 original size:754 final size:740
Alignment explanation
Indices: 5943299--5945025 Score: 2361
Period size: 754 Copynumber: 2.3 Consensus size: 740
5943289 AATTATGTAT
* * * * * *
5943299 AAATTTTAAGAGGAAATTATTAAAGGGGTTTATTCTAAAAAAACACATTCAATAATTATGTACGT
1 AAATTTTAAGAAGAAATTATTGAAGGCGTTTATTCTAAAAAAATACCTTCAATAATTATGTACAT
* * * * *
5943364 AAATTAGAAGGAATTAGTGAAGGTATTTTTCTAGAATAAAGACATTCACTAACCGTCTCAAAATA
66 AAATTAGAAGGAATTAGTGAAGGCATTTTTCTAGAATAAACAC-TTCACTAACCATCTTAAAATT
* ** * ** *
5943429 GGAGTTGTGAAAAATTGAAGGTGTTTTTCACTAGAAA-ACACCTTTAATAATCCAAAAAATTTTA
130 TGAGTTGTGAAAAATTGAAGGCATTTTTCA-TTGAAAGATGCCTTTAATAATCCCAAAAATTTTA
* * * *
5943493 AGAAAAAATTAGTGAAGGCGTTTGTTCTTAAAAAATACCTTCAATAATTATGTACATAAATTAGA
194 AGAAAAAATTAGTGAAGGCATTTGTTCTAAAAAAATGCATTCAATAATTATGTACATAAATTAGA
* * *
5943558 AGGAACTAGTGAAGGCATTTTTCTATAATAAATGCCTTCACTAACCGTCTTAAAATTTGAGTTAT
259 AGGAACTAGTGAAGGCATTTTTCTAGAATAAACGCATTCACTAACCGTCTTAAAATTTGAGTTAT
* * ** *
5943623 AGAAAATTAAAGGCGTTTTCACTGGAAGATGCCTTTAATAATCCCAAAACTTTTAAGAGGAAATT
324 AGAAAATTAAAGGCATTTTCACTGGAAAACACCTTTAATAATCCCAAAACTTTTAAGAGAAAATT
* * *
5943688 ATTGAAGGCGTTTGTTCTCAAAGAATGCCTTTAATAATTATGTACATAAATTAAAAGGAATTAGT
389 ATTGAAGGCATTTGTTCTCAAAGAATGCCTTCAATAATTATGTACACAAATTAAAAGGAATTAGT
* *
5943753 GAAGGCATTTTTCTAGAATAAACATCTTCACTAACCGTCTTAAAATTTAAGTTGTGGAAAATTAA
454 GAAGGCATTTTTCTAGAATAAACATCTTCACTAACCATCTTAAAATTTAAGTTATGGAAAATTAA
* * * * *
5943818 AGGTGTTTTTCATTGGAAGACGCCTTTAATAATTCCAAAAATTTTAAGAAGAAATTAATGCAGGC
519 AGGTATTTTTCACTGGAAAACGCCTTTAATAATCCCAAAAATTTTAAGAAGAAATTAATGAAGGC
* ** *
5943883 ATTTGTTCTCAAAAATGCTTCAATAACTATGTACGTAAATTAGAAAGAATTAGTGAAGGCATTTT
584 ATTTGTTCTAAAAAAACCTTCAATAACTATGCACGTAAATTAGAAAGAATTAGTGAAGGCATTTT
* *
5943948 TCTAGAATAAACGCCTTCACTAACCGTCTTAAAATTTGAGTTGTGACAAATTGAAGGTGTTTTTC
649 TCTAGAATAAACGCCTTCACTAACCGTCTTAAAATTTGAGTTGTGAAAAATTGAAGGTATTTTTC
*
5944013 ACTGGAAAACACATTTAATAATCCTAA
714 ACTGGAAAACACATTTAATAATCCCAA
* * *
5944040 AAATTTTAAGAA-AAACTTATTGAAGGTGTTTATTTTTAAAAAATACCTTCAATAATTATGTACA
1 AAATTTTAAGAAGAAA-TTATTGAAGGCGTTTATTCTAAAAAAATACCTTCAATAATTATGTACA
* *
5944104 TAAATTAAAATGAATTAGTGAAGGCATTTTTCTAGAATAAACATCTTCACTAACCATCTTAAAAT
65 TAAATTAGAAGGAATTAGTGAAGGCATTTTTCTAGAATAAACA-CTTCACTAACCATCTTAAAAT
*
5944169 TTGAGTTGTGAAAAATTGAAGGCATTTTTCATTGAAAGGTGCCTTTAATAATCCCAAAAATTTTA
129 TTGAGTTGTGAAAAATTGAAGGCATTTTTCATTGAAAGATGCCTTTAATAATCCCAAAAATTTTA
* *
5944234 AGAGAAAATTAGTGAAGGCATTTGTTCTAAAAAAATGCATTCAATAATTATGTACGTAAATTAGA
194 AGAAAAAATTAGTGAAGGCATTTGTTCTAAAAAAATGCATTCAATAATTATGTACATAAATTAGA
* * * *
5944299 AGTAATTAGTGAAGGTATTTTTCTAGAATAAACGCATTCACTAACCGTCTTAAAATTTTAGTTAT
259 AGGAACTAGTGAAGGCATTTTTCTAGAATAAACGCATTCACTAACCGTCTTAAAATTTGAGTTAT
* * * * * *
5944364 GGCAAATTGAATGCATCTTTCATTGGAAAACACCTTTAATAATCCTAAATA-TTTTAAGAGAAAA
324 AGAAAATTAAAGGCAT-TTTCACTGGAAAACACCTTTAATAATCCCAAA-ACTTTTAAGAGAAAA
* *
5944428 TTATTGAAGGCATTTGTTCTCGAAA-AATGCCTTCAATAATTATGTACGCAAATTAGAAGGAATT
387 TTATTGAAGGCATTTGTTCTC-AAAGAATGCCTTCAATAATTATGTACACAAATTAAAAGGAATT
* *
5944492 AGTGAAGGCATTTTTCTAGAATAAACA-CATTCACTAACCATTTTAAAATTTGAGTTATGGAAAA
451 AGTGAAGGCATTTTTCTAGAATAAACATC-TTCACTAACCATCTTAAAATTTAAGTTATGGAAAA
* * *
5944556 TTGAAGGTATTTTTCACTGGAAAATGCCTTTAATAGTCCCAAAAATTTTAAGAGGAAATTATTGA
515 TTAAAGGTATTTTTCACTGGAAAACGCCTTTAATAATCCCAAAAATTTT-A-A-G--A--A--GA
* * *
5944621 AATTATTGAAGGCATTTGTTCTTAAAAAAACACCTTCAATAATTATGCACGTAAATTAGAAGGAA
571 AATTAATGAAGGCATTTGTTC-T-AAAAAA-ACCTTCAATAACTATGCACGTAAATTAGAAAGAA
* * *
5944686 TTAGTGAAGGCATTTTTCTAGCATAAATGCCTTCACTAACCGTCTTAAAATTTGCGTTGTGAAAA
633 TTAGTGAAGGCATTTTTCTAGAATAAACGCCTTCACTAACCGTCTTAAAATTTGAGTTGTGAAAA
* * *
5944751 ATTGAA-GTCATTTTTCACTGGAAGACGCCTTTAATAATCCCAA
698 ATTGAAGGT-ATTTTTCACTGGAAAACACATTTAATAATCCCAA
* * * * *
5944794 AAATTTTAACAAGAAATTATTGAAGGCATTTATTCTCAAAAAATGCCTTAAATAATTATGTACAT
1 AAATTTTAAGAAGAAATTATTGAAGGCGTTTATTCTAAAAAAATACCTTCAATAATTATGTACAT
*
5944859 AAATTAGAAGGAATTAGTGAAGGCATTTTTCTAGAATAAATACCTTCACTAACCATCTTAAAATT
66 AAATTAGAAGGAATTAGTGAAGGCATTTTTCTAGAATAAACA-CTTCACTAACCATCTTAAAATT
* * *
5944924 TGAGTTGTGGAAAATTGAAGGCATTTTTCAGT-AGAAGATGCCTTTAATAATCCCAAAAATTTTT
130 TGAGTTGTGAAAAATTGAAGGCATTTTTCATTGA-AAGATGCCTTTAATAATCCCAAAAATTTTA
* * *
5944988 AGAAAAAATTATTGAATGCATTTGTTTTAAAAAAATGC
194 AGAAAAAATTAGTGAAGGCATTTGTTCTAAAAAAATGC
5945026 CTTACTAATC
Statistics
Matches: 865, Mismatches: 99, Indels: 31
0.87 0.10 0.03
Matches are distributed among these distances:
740 8 0.01
741 288 0.33
742 195 0.23
743 5 0.01
744 1 0.00
745 1 0.00
747 1 0.00
749 1 0.00
751 21 0.02
752 1 0.00
753 8 0.01
754 332 0.38
755 3 0.00
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.34
Consensus pattern (740 bp):
AAATTTTAAGAAGAAATTATTGAAGGCGTTTATTCTAAAAAAATACCTTCAATAATTATGTACAT
AAATTAGAAGGAATTAGTGAAGGCATTTTTCTAGAATAAACACTTCACTAACCATCTTAAAATTT
GAGTTGTGAAAAATTGAAGGCATTTTTCATTGAAAGATGCCTTTAATAATCCCAAAAATTTTAAG
AAAAAATTAGTGAAGGCATTTGTTCTAAAAAAATGCATTCAATAATTATGTACATAAATTAGAAG
GAACTAGTGAAGGCATTTTTCTAGAATAAACGCATTCACTAACCGTCTTAAAATTTGAGTTATAG
AAAATTAAAGGCATTTTCACTGGAAAACACCTTTAATAATCCCAAAACTTTTAAGAGAAAATTAT
TGAAGGCATTTGTTCTCAAAGAATGCCTTCAATAATTATGTACACAAATTAAAAGGAATTAGTGA
AGGCATTTTTCTAGAATAAACATCTTCACTAACCATCTTAAAATTTAAGTTATGGAAAATTAAAG
GTATTTTTCACTGGAAAACGCCTTTAATAATCCCAAAAATTTTAAGAAGAAATTAATGAAGGCAT
TTGTTCTAAAAAAACCTTCAATAACTATGCACGTAAATTAGAAAGAATTAGTGAAGGCATTTTTC
TAGAATAAACGCCTTCACTAACCGTCTTAAAATTTGAGTTGTGAAAAATTGAAGGTATTTTTCAC
TGGAAAACACATTTAATAATCCCAA
Found at i:5945029 original size:186 final size:186
Alignment explanation
Indices: 5943299--5945028 Score: 2127
Period size: 186 Copynumber: 9.3 Consensus size: 186
5943289 AATTATGTAT
** * ** * ** *
5943299 AAATTTTAAGAGGAAATTATTAAAGGGGTTTATTCTAAAAAAACACATTCAATAATTATGTACGT
1 AAATTTTAAGAAAAAATTATTGAAGGCATTTGTTCTAAAAAAATGCCTTCAATAATTATGTACGT
* * * * *
5943364 AAATTAGAAGGAATTAGTGAAGGTATTTTTCTAGAATAAAGACATTCACTAACCGTCTCAAAATA
66 AAATTAGAAGGAATTAGTGAAGGCATTTTTCTAGAATAAACACCTTCACTAACCGTCTTAAAATT
* * ** * * * *
5943429 GGAGTTGTGAAAAATTGAAGGTGTTTTTCACTAGAAAACACCTTTAATAATCCAAA
131 TGAGTTGTGGAAAATTGAAGGCATTTTTCACTGGAAGACGCCTTTAATAATCCCAA
* * * * *
5943485 AAATTTTAAGAAAAAATTAGTGAAGGCGTTTGTTCTTAAAAAATACCTTCAATAATTATGTACAT
1 AAATTTTAAGAAAAAATTATTGAAGGCATTTGTTCTAAAAAAATGCCTTCAATAATTATGTACGT
* * **
5943550 AAATTAGAAGGAACTAGTGAAGGCATTTTTCTATAATAAATGCCTTCACTAACCGTCTTAAAATT
66 AAATTAGAAGGAATTAGTGAAGGCATTTTTCTAGAATAAACACCTTCACTAACCGTCTTAAAATT
* * * * *
5943615 TGAGTTATAGAAAATTAAAGGC-GTTTTCACTGGAAGATGCCTTTAATAATCCCAA
131 TGAGTTGTGGAAAATTGAAGGCATTTTTCACTGGAAGACGCCTTTAATAATCCCAA
* ** * * * * *
5943670 AACTTTTAAGAGGAAATTATTGAAGGCGTTTGTTCTCAAAGAATGCCTTTAATAATTATGTACAT
1 AAATTTTAAGAAAAAATTATTGAAGGCATTTGTTCTAAAAAAATGCCTTCAATAATTATGTACGT
* *
5943735 AAATTAAAAGGAATTAGTGAAGGCATTTTTCTAGAATAAACATCTTCACTAACCGTCTTAAAATT
66 AAATTAGAAGGAATTAGTGAAGGCATTTTTCTAGAATAAACACCTTCACTAACCGTCTTAAAATT
* * ** * *
5943800 TAAGTTGTGGAAAATTAAAGGTGTTTTTCATTGGAAGACGCCTTTAATAATTCCAA
131 TGAGTTGTGGAAAATTGAAGGCATTTTTCACTGGAAGACGCCTTTAATAATCCCAA
* * * * *
5943856 AAATTTTAAGAAGAAATTAATGCAGGCATTTGTTCT-CAAAAATG-CTTCAATAACTATGTACGT
1 AAATTTTAAGAAAAAATTATTGAAGGCATTTGTTCTAAAAAAATGCCTTCAATAATTATGTACGT
* *
5943919 AAATTAGAAAGAATTAGTGAAGGCATTTTTCTAGAATAAACGCCTTCACTAACCGTCTTAAAATT
66 AAATTAGAAGGAATTAGTGAAGGCATTTTTCTAGAATAAACACCTTCACTAACCGTCTTAAAATT
** * * * *
5943984 TGAGTTGT-GACAAATTGAAGGTGTTTTTCACTGGAAAACACATTTAATAATCCTAA
131 TGAGTTGTGGA-AAATTGAAGGCATTTTTCACTGGAAGACGCCTTTAATAATCCCAA
* ** * * * * *
5944040 AAATTTTAAGAAAAACTTATTGAAGGTGTTTATTTTTAAAAAATACCTTCAATAATTATGTACAT
1 AAATTTTAAGAAAAAATTATTGAAGGCATTTGTTCTAAAAAAATGCCTTCAATAATTATGTACGT
* * * *
5944105 AAATTAAAATGAATTAGTGAAGGCATTTTTCTAGAATAAACATCTTCACTAACCATCTTAAAATT
66 AAATTAGAAGGAATTAGTGAAGGCATTTTTCTAGAATAAACACCTTCACTAACCGTCTTAAAATT
* * * **
5944170 TGAGTTGTGAAAAATTGAAGGCATTTTTCATTGAAAGGTGCCTTTAATAATCCCAA
131 TGAGTTGTGGAAAATTGAAGGCATTTTTCACTGGAAGACGCCTTTAATAATCCCAA
* * *
5944226 AAATTTTAAGAGAAAATTAGTGAAGGCATTTGTTCTAAAAAAATGCATTCAATAATTATGTACGT
1 AAATTTTAAGAAAAAATTATTGAAGGCATTTGTTCTAAAAAAATGCCTTCAATAATTATGTACGT
* * * *
5944291 AAATTAGAAGTAATTAGTGAAGGTATTTTTCTAGAATAAACGCATTCACTAACCGTCTTAAAATT
66 AAATTAGAAGGAATTAGTGAAGGCATTTTTCTAGAATAAACACCTTCACTAACCGTCTTAAAATT
* * * * * * * * *
5944356 TTAGTTATGGCAAATTGAATGCATCTTTCATTGGAAAACACCTTTAATAATCCTAA
131 TGAGTTGTGGAAAATTGAAGGCATTTTTCACTGGAAGACGCCTTTAATAATCCCAA
* * ** *
5944412 ATATTTTAAGAGAAAATTATTGAAGGCATTTGTTCTCGAAAAATGCCTTCAATAATTATGTACGC
1 AAATTTTAAGAAAAAATTATTGAAGGCATTTGTTCTAAAAAAATGCCTTCAATAATTATGTACGT
* * *
5944477 AAATTAGAAGGAATTAGTGAAGGCATTTTTCTAGAATAAACACATTCACTAACCATTTTAAAATT
66 AAATTAGAAGGAATTAGTGAAGGCATTTTTCTAGAATAAACACCTTCACTAACCGTCTTAAAATT
* * * * *
5944542 TGAGTTATGGAAAATTGAAGGTATTTTTCACTGGAAAATGCCTTTAATAGTCCCAA
131 TGAGTTGTGGAAAATTGAAGGCATTTTTCACTGGAAGACGCCTTTAATAATCCCAA
**
5944598 AAATTTTAAGAGGAAATTATTGAAATTATTGAAGGCATTTGTTCTTAAAAAAACACCTTCAATAA
1 AAATTTT-A-A-G-AA--A---AAATTATTGAAGGCATTTGTTC-TAAAAAAATGCCTTCAATAA
* * **
5944663 TTATGCACGTAAATTAGAAGGAATTAGTGAAGGCATTTTTCTAGCATAAATGCCTTCACTAACCG
56 TTATGTACGTAAATTAGAAGGAATTAGTGAAGGCATTTTTCTAGAATAAACACCTTCACTAACCG
* * *
5944728 TCTTAAAATTTGCGTTGTGAAAAATTGAAGTCATTTTTCACTGGAAGACGCCTTTAATAATCCCA
121 TCTTAAAATTTGAGTTGTGGAAAATTGAAGGCATTTTTCACTGGAAGACGCCTTTAATAATCCCA
5944793 A
186 A
* * * * * *
5944794 AAATTTTAACAAGAAATTATTGAAGGCATTTATTCTCAAAAAATGCCTTAAATAATTATGTACAT
1 AAATTTTAAGAAAAAATTATTGAAGGCATTTGTTCTAAAAAAATGCCTTCAATAATTATGTACGT
* *
5944859 AAATTAGAAGGAATTAGTGAAGGCATTTTTCTAGAATAAATACCTTCACTAACCATCTTAAAATT
66 AAATTAGAAGGAATTAGTGAAGGCATTTTTCTAGAATAAACACCTTCACTAACCGTCTTAAAATT
* * *
5944924 TGAGTTGTGGAAAATTGAAGGCATTTTTCAGTAGAAGATGCCTTTAATAATCCCAA
131 TGAGTTGTGGAAAATTGAAGGCATTTTTCACTGGAAGACGCCTTTAATAATCCCAA
* * *
5944980 AAATTTTTAGAAAAAATTATTGAATGCATTTGTTTTAAAAAAATGCCTT
1 AAATTTTAAGAAAAAATTATTGAAGGCATTTGTTCTAAAAAAATGCCTT
5945029 ACTAATCATC
Statistics
Matches: 1328, Mismatches: 201, Indels: 30
0.85 0.13 0.02
Matches are distributed among these distances:
183 2 0.00
184 150 0.11
185 173 0.13
186 812 0.61
187 23 0.02
188 1 0.00
189 1 0.00
190 1 0.00
192 3 0.00
194 1 0.00
195 23 0.02
196 138 0.10
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.34
Consensus pattern (186 bp):
AAATTTTAAGAAAAAATTATTGAAGGCATTTGTTCTAAAAAAATGCCTTCAATAATTATGTACGT
AAATTAGAAGGAATTAGTGAAGGCATTTTTCTAGAATAAACACCTTCACTAACCGTCTTAAAATT
TGAGTTGTGGAAAATTGAAGGCATTTTTCACTGGAAGACGCCTTTAATAATCCCAA
Found at i:5945096 original size:123 final size:124
Alignment explanation
Indices: 5944870--5945096 Score: 287
Period size: 123 Copynumber: 1.8 Consensus size: 124
5944860 AATTAGAAGG
* * *
5944870 AATTAGTGAAGGCATTTTTCTAGAATAAATACCTTCACTAACCATCTTAAAATTTGAGTTGTGGA
1 AATTAGTGAAGGCATTTTTCTAGAAAAAATACCTTCACTAACCATCCTAAAATTTGAGTAGTGGA
* * ** *
5944935 AAATTGAAGGCATTTTTCAGTAGAAGATGCCTTTAATAATCCCAAAAATTTTTAGAAAA
66 AAATTGAAGGCATTTTTCACTAGAAAACACCTTCAATAATCCCAAAAATTTTTAGAAAA
* * * * * *
5944994 AATTATTGAATGCATTTGTTTTA-AAAAAATGCCTT-ACTAATCATCCTAAAGTTTGAGTAGTGG
1 AATTAGTGAAGGCATTT-TTCTAGAAAAAATACCTTCACTAACCATCCTAAAATTTGAGTAGTGG
* *
5945057 AACATTGAATGCATTTTTCACTAGAAAACACCTTCAATAA
65 AAAATTGAAGGCATTTTTCACTAGAAAACACCTTCAATAA
5945097 ATTCCTTCAA
Statistics
Matches: 86, Mismatches: 16, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
123 57 0.66
124 25 0.29
125 4 0.05
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (124 bp):
AATTAGTGAAGGCATTTTTCTAGAAAAAATACCTTCACTAACCATCCTAAAATTTGAGTAGTGGA
AAATTGAAGGCATTTTTCACTAGAAAACACCTTCAATAATCCCAAAAATTTTTAGAAAA
Found at i:5954643 original size:17 final size:17
Alignment explanation
Indices: 5954617--5954649 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
5954607 TTTTTTAATT
5954617 TTTTTAAAATAGTAAAAA
1 TTTTTAAAATAG-AAAAA
5954635 TTTTT-AAATAGAAAA
1 TTTTTAAAATAGAAAA
5954650 TTAAAGTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 6 0.40
18 5 0.33
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (17 bp):
TTTTTAAAATAGAAAAA
Found at i:5955352 original size:63 final size:64
Alignment explanation
Indices: 5955212--5955394 Score: 189
Period size: 63 Copynumber: 2.9 Consensus size: 64
5955202 TTTATCGATT
* * * *
5955212 AAAATGCCTTGAATAATCCTGTCTTAAAAATTTG--AGTGAA-TATTAAAGGTATTTTTAGCAA
1 AAAATGCCTTGAATAATCCTGTATAAAAAAATTGATAGTGAATTATTAAAGGCATTTTTAGCAA
* * * * *
5955273 AAAACGACTTGAATAATCCTGT-TAAAAAAATTGATAGGGAATTATTAAAGGCATTTTTGGCAG
1 AAAATGCCTTGAATAATCCTGTATAAAAAAATTGATAGTGAATTATTAAAGGCATTTTTAGCAA
* * *
5955336 ATAATGCCTTCAATAATCCCTTTATAAAAAAATAT-ATATGTG-ATTATTAAAGGCATTTT
1 AAAATGCCTTGAATAAT-CCTGTATAAAAAAAT-TGATA-GTGAATTATTAAAGGCATTTT
5955395 CAACAAGAAG
Statistics
Matches: 101, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
60 9 0.09
61 20 0.20
62 5 0.05
63 31 0.31
64 4 0.04
65 29 0.29
66 3 0.03
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.35
Consensus pattern (64 bp):
AAAATGCCTTGAATAATCCTGTATAAAAAAATTGATAGTGAATTATTAAAGGCATTTTTAGCAA
Found at i:5957123 original size:20 final size:21
Alignment explanation
Indices: 5957074--5957125 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
5957064 CCTAAATTGA
5957074 AAAGAAA-AAAATTACTTAAT
1 AAAGAAATAAAATTACTTAAT
* *
5957094 ATATAAATAAAATTACTT-AT
1 AAAGAAATAAAATTACTTAAT
5957114 AAAGAAATAAAA
1 AAAGAAATAAAA
5957126 GATATATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 17 0.63
21 10 0.37
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.27
Consensus pattern (21 bp):
AAAGAAATAAAATTACTTAAT
Found at i:5957913 original size:31 final size:31
Alignment explanation
Indices: 5957875--5957938 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
5957865 CAATAAATAT
5957875 AATAAACAAATTAATATTAAACTTATAAACA
1 AATAAACAAATTAATATTAAACTTATAAACA
5957906 AATAAACAAATTAATATTAAACTTATAAACA
1 AATAAACAAATTAATATTAAACTTATAAACA
5957937 AA
1 AA
5957939 ATCATACTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.28
Consensus pattern (31 bp):
AATAAACAAATTAATATTAAACTTATAAACA
Found at i:5959584 original size:12 final size:12
Alignment explanation
Indices: 5959551--5959584 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
5959541 CATCCTTTAG
5959551 CAAACCATTCAA
1 CAAACCATTCAA
*
5959563 AAACACCATTCAA
1 CAA-ACCATTCAA
5959576 CAAACCATT
1 CAAACCATT
5959585 TAGCATACGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
12 8 0.42
13 11 0.58
ACGTcount: A:0.50, C:0.32, G:0.00, T:0.18
Consensus pattern (12 bp):
CAAACCATTCAA
Found at i:5960229 original size:47 final size:47
Alignment explanation
Indices: 5960168--5960267 Score: 191
Period size: 47 Copynumber: 2.1 Consensus size: 47
5960158 TTTTTCCTCA
5960168 AAAAATGGCTTTGATAATTATAAAAAATTATTGAAGGCGTTTTAAGT
1 AAAAATGGCTTTGATAATTATAAAAAATTATTGAAGGCGTTTTAAGT
5960215 AAAAATGGCTTTGATAATTATAAAAAATTATTGAAGGCGTTTTAAGT
1 AAAAATGGCTTTGATAATTATAAAAAATTATTGAAGGCGTTTTAAGT
5960262 AGAAAA
1 A-AAAA
5960268 CCACATTCAC
Statistics
Matches: 52, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
47 48 0.92
48 4 0.08
ACGTcount: A:0.45, C:0.04, G:0.17, T:0.34
Consensus pattern (47 bp):
AAAAATGGCTTTGATAATTATAAAAAATTATTGAAGGCGTTTTAAGT
Found at i:5960763 original size:189 final size:188
Alignment explanation
Indices: 5960451--5960885 Score: 526
Period size: 189 Copynumber: 2.3 Consensus size: 188
5960441 CGTTTGTTCT
**
5960451 AAAAAATCACCTTCAATAATTATGTAC-AAATATTAAAATG-AATT-TGTAAAGGTA--TTTTCC
1 AAAAAAT-ACCTTCAATAATTATGTACAAAAT-TTAAAA-GAAATTAT-TAAAGGTATTTTTTTT
* ** * * *
5960511 TAGAATAAATGCCTTCACTAACCATTTTAAAATTTGAGTACTGGTATATTGAAGGCATTTTTCAG
62 TGGAATAAACACCTTCACTAACCATCTTAAAATCTGAGTACTGGTATATTAAAGGCATTTTTCA-
*
5960576 C-AGAAGATGCCTTTAATAATCTC-AAAATTTTTTAAAAGAAAATTATTAAAGG-CATTGCTTAA
126 CTAGAAGACGCCTTTAATAATCTCAAAAATTTTTTAAAA-AAAATTATT-AAGGTCATTG-TTAA
5960638 C
188 C
* * *
5960639 AAAAAATGCCTTTAATAATTATGTATAAAATTTAAAAGAAATTATTAAAGGTATTTTTTTTTGGA
1 AAAAAATACCTTCAATAATTATGTACAAAATTTAAAAGAAATTATTAAAGGTATTTTTTTTTGGA
* * *
5960704 ATAAACACCTTCACTAACCGTCTTAAAATCTGAGTATTGGTATATTAAAGGCGTTTTTCACTAGA
66 ATAAACACCTTCACTAACCATCTTAAAATCTGAGTACTGGTATATTAAAGGCATTTTTCACTAGA
* ** *
5960769 AGACGCCTTTAATAATCTCAAAAATTTTTTAAAAAAAATTATTGAGGTTGTTTGTTATC
131 AGACGCCTTTAATAATCTCAAAAATTTTTTAAAAAAAATTATTAAGG-TCATTGTTAAC
* * * *
5960828 AAAAAATACCTTCAATATTTATGTACAAAATTTAAAAGGAATTATTGAAGGTGTTTTT
1 AAAAAATACCTTCAATAATTATGTACAAAATTTAAAAGAAATTATTAAAGGTATTTTT
5960886 CAGTAGAAAA
Statistics
Matches: 212, Mismatches: 26, Indels: 17
0.83 0.10 0.07
Matches are distributed among these distances:
186 1 0.00
187 34 0.16
188 16 0.08
189 144 0.68
190 17 0.08
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.37
Consensus pattern (188 bp):
AAAAAATACCTTCAATAATTATGTACAAAATTTAAAAGAAATTATTAAAGGTATTTTTTTTTGGA
ATAAACACCTTCACTAACCATCTTAAAATCTGAGTACTGGTATATTAAAGGCATTTTTCACTAGA
AGACGCCTTTAATAATCTCAAAAATTTTTTAAAAAAAATTATTAAGGTCATTGTTAAC
Found at i:5960903 original size:124 final size:124
Alignment explanation
Indices: 5960746--5961011 Score: 374
Period size: 124 Copynumber: 2.1 Consensus size: 124
5960736 AGTATTGGTA
* *
5960746 TATTAAAGGCGTTTTTCACTAGAAGACGCCTTTAATAATCTCAAAAATTTTTTAAAA-AAAATTA
1 TATTAAAGGCGTTTTTCACTAGAAAACGCCTTTAATAATC-CAAAAAGTTTTTAAAAGAAAATTA
* ** *
5960810 TTG-AGGTTGTTTGTTATCAAAAAATACCTTCAATATTTATGTACAAAATTTAAAAGGAAT
65 TTGAAGG-TGTTTGTTATCAAAAAACACCTTCAATAACTATGTACAAAACTTAAAAGGAAT
* * * * *
5960870 TATTGAAGGTGTTTTTCAGTAGAAAATGCCTTTAATAATCCTAAAAGTTTTTAAAAGAAAATTAT
1 TATTAAAGGCGTTTTTCACTAGAAAACGCCTTTAATAATCCAAAAAGTTTTTAAAAGAAAATTAT
* *
5960935 TGAAGGTGTTTGTTATCAAAAAACACCTTCAATAACTATTTACTAAACTTAAAAGGAAT
66 TGAAGGTGTTTGTTATCAAAAAACACCTTCAATAACTATGTACAAAACTTAAAAGGAAT
*
5960994 TATTAAAGGCATTTTTCA
1 TATTAAAGGCGTTTTTCA
5961012 AGAATAAATG
Statistics
Matches: 124, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
123 14 0.11
124 107 0.86
125 3 0.02
ACGTcount: A:0.41, C:0.11, G:0.12, T:0.37
Consensus pattern (124 bp):
TATTAAAGGCGTTTTTCACTAGAAAACGCCTTTAATAATCCAAAAAGTTTTTAAAAGAAAATTAT
TGAAGGTGTTTGTTATCAAAAAACACCTTCAATAACTATGTACAAAACTTAAAAGGAAT
Found at i:5960969 original size:62 final size:61
Alignment explanation
Indices: 5960774--5960969 Score: 172
Period size: 62 Copynumber: 3.2 Consensus size: 61
5960764 CTAGAAGACG
* *
5960774 CCTTTAATAATCTCAAAAATTTTTTAAAA-AAAATTATTG-AGGTTGTTTGTTATCAAAAAATA
1 CCTTCAATAATC-CTAAAA-TTTTTAAAAGAAAATTATTGAAGG-TGTTTGTTATCAAAAAATA
* * * *
5960836 CCTTCAATATTTAT-GTACAAA-ATTTAAAAG-GAATTATTGAAGGTGTTT-TTCAGT-AGAAAA
1 CCTTCAATA---ATCCTA-AAATTTTTAAAAGAAAATTATTGAAGGTGTTTGTT-A-TCAAAAAA
*
5960896 TG
60 TA
* *
5960898 CCTTTAATAATCCTAAAAGTTTTTAAAAGAAAATTATTGAAGGTGTTTGTTATCAAAAAACA
1 CCTTCAATAATCCTAAAA-TTTTTAAAAGAAAATTATTGAAGGTGTTTGTTATCAAAAAATA
5960960 CCTTCAATAA
1 CCTTCAATAA
5960970 CTATTTACTA
Statistics
Matches: 105, Mismatches: 15, Indels: 28
0.71 0.10 0.19
Matches are distributed among these distances:
59 5 0.05
60 2 0.02
61 11 0.10
62 75 0.71
63 7 0.07
64 3 0.03
65 2 0.02
ACGTcount: A:0.42, C:0.10, G:0.11, T:0.37
Consensus pattern (61 bp):
CCTTCAATAATCCTAAAATTTTTAAAAGAAAATTATTGAAGGTGTTTGTTATCAAAAAATA
Found at i:5960995 original size:62 final size:60
Alignment explanation
Indices: 5960796--5961002 Score: 163
Period size: 62 Copynumber: 3.4 Consensus size: 60
5960786 TCAAAAATTT
** * *
5960796 TTTAAAAAAAATTATTG-AGGTTGTTTGTTATCAAAAAATACCTTCAATATTTATGTACAAAA
1 TTTAAAAGGAATTATTGAAGG-TGTTTGTTATCAAAAAATACCTTCAATA-ATATCTAC-AAA
* * * *
5960858 TTTAAAAGGAATTATTGAAGGTGTTT-TTCAGT-AGAAAATGCCTTTAATAAT-CCTA-AAA
1 TTTAAAAGGAATTATTGAAGGTGTTTGTT-A-TCAAAAAATACCTTCAATAATATCTACAAA
* * *
5960916 GTTTTTAAAAGAAAATTATTGAAGGTGTTTGTTATCAAAAAACACCTTCAATAACTATTTACTAA
1 ---TTTAAAAG-GAATTATTGAAGGTGTTTGTTATCAAAAAATACCTTCAATAA-TATCTAC-AA
5960981 A
60 A
* *
5960982 CTTAAAAGGAATTATTAAAGG
1 TTTAAAAGGAATTATTGAAGG
5961003 CATTTTTCAA
Statistics
Matches: 114, Mismatches: 18, Indels: 26
0.72 0.11 0.16
Matches are distributed among these distances:
58 3 0.03
60 2 0.02
61 12 0.11
62 78 0.68
63 14 0.12
64 2 0.02
66 3 0.03
ACGTcount: A:0.43, C:0.09, G:0.13, T:0.36
Consensus pattern (60 bp):
TTTAAAAGGAATTATTGAAGGTGTTTGTTATCAAAAAATACCTTCAATAATATCTACAAA
Found at i:5961206 original size:187 final size:187
Alignment explanation
Indices: 5960870--5961289 Score: 576
Period size: 187 Copynumber: 2.2 Consensus size: 187
5960860 TAAAAGGAAT
* * * * *
5960870 TATTGAAGGTGTTTTTCAGTAGAAAATGCCTTTAATAATCCTAAAAGTTTTTAAAAGAAAATTAT
1 TATTGAAGGCGTTTTTCAGTATAAAATACCTTTAATAATCCCAAAAGTTTTTAAAACAAAATTAT
** * * *
5960935 TGAAGGTGTTTGTTATCAAAAAACACCTTCAATAACTATTTACTAAACTTAAAAGGAATTATTAA
66 TGAAGGCATTTGTTATCAAAAAAAACCTTCAATAACTATGTACGAAACTTAAAAGGAATTATTAA
* * * *
5961000 AGGCATTTTTCAAGAATAAATGCCTTTT-CTAATCGTTTTAAATTTTGAGTACTGGTA
131 AGGCATTTTTCAAGAATAAACG-CTTTTACTAATCGTCTTAAAATTTGAGTACTGGCA
* * *
5961057 TATTGAAGGCGTTTTTCAATATAAAATACTTTTAATAATCCCAAAATTTTTTAAAACAAAATTAT
1 TATTGAAGGCGTTTTTCAGTATAAAATACCTTTAATAATCCCAAAAGTTTTTAAAACAAAATTAT
* *
5961122 TGAAGGCATTTGTTAT-AAAAAAAATGCCTTCAATAATTATGTACGAAATTTAAAAGGAATTATT
66 TGAAGGCATTTGTTATCAAAAAAAA--CCTTCAATAACTATGTACGAAACTTAAAAGGAATTATT
**
5961186 AAAGGCATTTTT-TGGAATAAACGCTTTTACTAATCGTCTTAAAATTTGAGTACTGGCA
129 AAAGGCATTTTTCAAGAATAAACGCTTTTACTAATCGTCTTAAAATTTGAGTACTGGCA
* * *
5961244 TATTGAAGGCATTTTTCAGTATAAGACACCTTTAATAATCCCAAAA
1 TATTGAAGGCGTTTTTCAGTATAAAATACCTTTAATAATCCCAAAA
5961290 AGATAATTAT
Statistics
Matches: 204, Mismatches: 26, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
186 12 0.06
187 146 0.72
188 46 0.23
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (187 bp):
TATTGAAGGCGTTTTTCAGTATAAAATACCTTTAATAATCCCAAAAGTTTTTAAAACAAAATTAT
TGAAGGCATTTGTTATCAAAAAAAACCTTCAATAACTATGTACGAAACTTAAAAGGAATTATTAA
AGGCATTTTTCAAGAATAAACGCTTTTACTAATCGTCTTAAAATTTGAGTACTGGCA
Found at i:5961668 original size:125 final size:121
Alignment explanation
Indices: 5961519--5961858 Score: 392
Period size: 121 Copynumber: 2.8 Consensus size: 121
5961509 TTATGTGCAT
* * * ** * * *
5961519 AAATTAAAAAGAATTAGTAAAGGCATTTTTCTACAATAAATGCCTTCACTAATCATCTTAAAACT
1 AAATT-AAATGAATTAGTCAAGGCATTTTTTTGGAATAAAAGCCTTCAATAA-CACCTTAAAACT
* *
5961584 TGAGTACTGAAATATTAAAGGCGTTTTACACTAAAAGACACCTTCAATAAATTTCTTCAAA
64 TGAGTACTGAAATATTAAAGGCATTTT---CTAAAAGACACCTTCAATAAATTCCTTCAAA
* * * *
5961645 AAATTAAATGAATTAGGCAAGGCATTTTTTTGGAATAAAAGCCTTCAATAACCCCTTAAAATTTT
1 AAATTAAATGAATTAGTCAAGGCATTTTTTTGGAATAAAAGCCTTCAATAACACCTTAAAACTTG
** * * *
5961710 AGTTGTGTAATATTAAAGGCATTTTCTAGAAGACGCCTTCAATAAATTCCTTCAAA
66 AGTACTGAAATATTAAAGGCATTTTCTAAAAGACACCTTCAATAAATTCCTTCAAA
* * * *
5961766 AAATTAAATGAATTAGTCAAGGTATTTTTTTGGAATAAAAGCCTTCAATAACCCCTTAAAATTTC
1 AAATTAAATGAATTAGTCAAGGCATTTTTTTGGAATAAAAGCCTTCAATAACACCTTAAAACTTG
** * *
5961831 AGTTGTGTAATATTAAAGACATTTTCTA
66 AGTACTGAAATATTAAAGGCATTTTCTA
5961859 TAGAAGATGC
Statistics
Matches: 191, Mismatches: 23, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
121 117 0.61
124 31 0.16
125 38 0.20
126 5 0.03
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.34
Consensus pattern (121 bp):
AAATTAAATGAATTAGTCAAGGCATTTTTTTGGAATAAAAGCCTTCAATAACACCTTAAAACTTG
AGTACTGAAATATTAAAGGCATTTTCTAAAAGACACCTTCAATAAATTCCTTCAAA
Found at i:5961690 original size:62 final size:62
Alignment explanation
Indices: 5961624--5961816 Score: 182
Period size: 62 Copynumber: 3.2 Consensus size: 62
5961614 CTAAAAGACA
* *
5961624 CCTTCAATAAATTTCTTCAAAAAATTAAATGAATTAGGCAAGGCATTTTTTTGGAATAAAAG
1 CCTTCAATAAATTCCTTCAAAAAATTAAATGAATTAGTCAAGGCATTTTTTTGGAATAAAAG
** ** ** * * * * * *
5961686 CCTTCAAT-AACCCCTT-AAAATTTTAGTTGTGTAA-TATTAAAGGCA-TTTTCTAG-A-AGACG
1 CCTTCAATAAATTCCTTCAAAAAATTA--AATG-AATTAGTCAAGGCATTTTTTTGGAATAAAAG
*
5961745 CCTTCAATAAATTCCTTCAAAAAATTAAATGAATTAGTCAAGGTATTTTTTTGGAATAAAAG
1 CCTTCAATAAATTCCTTCAAAAAATTAAATGAATTAGTCAAGGCATTTTTTTGGAATAAAAG
5961807 CCTTCAATAA
1 CCTTCAATAA
5961817 CCCCTTAAAA
Statistics
Matches: 95, Mismatches: 27, Indels: 18
0.68 0.19 0.13
Matches are distributed among these distances:
58 2 0.02
59 21 0.22
60 20 0.21
61 19 0.20
62 31 0.33
63 2 0.02
ACGTcount: A:0.39, C:0.14, G:0.12, T:0.35
Consensus pattern (62 bp):
CCTTCAATAAATTCCTTCAAAAAATTAAATGAATTAGTCAAGGCATTTTTTTGGAATAAAAG
Found at i:5961771 original size:121 final size:121
Alignment explanation
Indices: 5961594--5961877 Score: 433
Period size: 121 Copynumber: 2.3 Consensus size: 121
5961584 TGAGTACTGA
* * * *
5961594 AATATTAAAGGCGTTTTACACTAAAAGACACCTTCAATAAATTTCTTCAAAAAATTAAATGAATT
1 AATATTAAAGGCATTTT---CTAGAAGACGCCTTCAATAAATTCCTTCAAAAAATTAAATGAATT
*
5961659 AGGCAAGGCATTTTTTTGGAATAAAAGCCTTCAATAACCCCTTAAAATTTTAGTTGTGT
63 AGGCAAGGCATTTTTTTGGAATAAAAGCCTTCAATAACCCCTTAAAATTTCAGTTGTGT
*
5961718 AATATTAAAGGCATTTTCTAGAAGACGCCTTCAATAAATTCCTTCAAAAAATTAAATGAATTAGT
1 AATATTAAAGGCATTTTCTAGAAGACGCCTTCAATAAATTCCTTCAAAAAATTAAATGAATTAGG
*
5961783 CAAGGTATTTTTTTGGAATAAAAGCCTTCAATAACCCCTTAAAATTTCAGTTGTGT
66 CAAGGCATTTTTTTGGAATAAAAGCCTTCAATAACCCCTTAAAATTTCAGTTGTGT
* * *
5961839 AATATTAAAGACATTTTCTATAGAAGATGCCTTTAATAA
1 AATATTAAAGGCATTTTC--TAGAAGACGCCTTCAATAA
5961878 TAAATGCCTT
Statistics
Matches: 148, Mismatches: 10, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
121 115 0.78
123 17 0.11
124 16 0.11
ACGTcount: A:0.39, C:0.14, G:0.12, T:0.35
Consensus pattern (121 bp):
AATATTAAAGGCATTTTCTAGAAGACGCCTTCAATAAATTCCTTCAAAAAATTAAATGAATTAGG
CAAGGCATTTTTTTGGAATAAAAGCCTTCAATAACCCCTTAAAATTTCAGTTGTGT
Found at i:5961855 original size:62 final size:61
Alignment explanation
Indices: 5961663--5961855 Score: 173
Period size: 62 Copynumber: 3.2 Consensus size: 61
5961653 TGAATTAGGC
5961663 AAGGCATTTTTTTGGAATAAAAGCCTTCAATAACCCCTTAAAATTTTAGTTGTGTAATATTA
1 AAGGCATTTTTTTGGAATAAAAGCCTTCAATAACCCCTTAAAA-TTTAGTTGTGTAATATTA
* * * * ** * ** * *
5961725 AAGGCA-TTTTCTAG-A-AGACGCCTTCAATAAATTCCTTCAAAAAATTA--AATG-AATTAGTC
1 AAGGCATTTTTTTGGAATAAAAGCCTTCAAT-AACCCCTT--AAAATTTAGTTGTGTAA-TATTA
*
5961784 AAGGTATTTTTTTGGAATAAAAGCCTTCAATAACCCCTTAAAATTTCAGTTGTGTAATATTA
1 AAGGCATTTTTTTGGAATAAAAGCCTTCAATAACCCCTTAAAATTT-AGTTGTGTAATATTA
*
5961846 AAGACATTTT
1 AAGGCATTTT
5961856 CTATAGAAGA
Statistics
Matches: 95, Mismatches: 25, Indels: 22
0.67 0.18 0.15
Matches are distributed among these distances:
58 2 0.02
59 27 0.28
60 14 0.15
61 16 0.17
62 34 0.36
63 2 0.02
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.36
Consensus pattern (61 bp):
AAGGCATTTTTTTGGAATAAAAGCCTTCAATAACCCCTTAAAATTTAGTTGTGTAATATTA
Found at i:5968025 original size:27 final size:27
Alignment explanation
Indices: 5967987--5968040 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
5967977 TGTTATGGGG
*
5967987 CCAAAATATAAATACATGATATTAAAA
1 CCAAAATATAAATACATAATATTAAAA
5968014 CCAAAATATAAATACATAATATTAAAA
1 CCAAAATATAAATACATAATATTAAAA
5968041 TTATTCAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.61, C:0.11, G:0.02, T:0.26
Consensus pattern (27 bp):
CCAAAATATAAATACATAATATTAAAA
Found at i:5968672 original size:21 final size:21
Alignment explanation
Indices: 5968621--5968679 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 21
5968611 AGAAAGAGAA
5968621 CAAGAGCATGCCAAAATTGAG
1 CAAGAGCATGCCAAAATTGAG
* * * * *
5968642 GAAAAACATGCTAGAATTGAG
1 CAAGAGCATGCCAAAATTGAG
5968663 CAAGAGCATG-CAAAATT
1 CAAGAGCATGCCAAAATT
5968680 TCAATAGTTG
Statistics
Matches: 28, Mismatches: 10, Indels: 1
0.72 0.26 0.03
Matches are distributed among these distances:
20 5 0.18
21 23 0.82
ACGTcount: A:0.46, C:0.15, G:0.22, T:0.17
Consensus pattern (21 bp):
CAAGAGCATGCCAAAATTGAG
Found at i:5972996 original size:31 final size:32
Alignment explanation
Indices: 5972950--5973014 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 32
5972940 ACAGTTAGTT
5972950 TTTTCATAATGGGACAA-AGCT-ATTTGCTTTA
1 TTTTCATAATGGGACAAGA-CTCATTTGCTTTA
*
5972981 TTTTCTATAAT-GGACAAGACTCATTTGTTTTA
1 TTTTC-ATAATGGGACAAGACTCATTTGCTTTA
5973013 TT
1 TT
5973015 GCTTACAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
31 13 0.43
32 17 0.57
ACGTcount: A:0.28, C:0.12, G:0.14, T:0.46
Consensus pattern (32 bp):
TTTTCATAATGGGACAAGACTCATTTGCTTTA
Found at i:5978631 original size:19 final size:18
Alignment explanation
Indices: 5978596--5978630 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
5978586 GGAACTAACC
5978596 TCAAGAGATGTAGAAAAG
1 TCAAGAGATGTAGAAAAG
5978614 TCAATGAGATG-AGAAAA
1 TCAA-GAGATGTAGAAAA
5978631 AATCCAAGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.51, C:0.06, G:0.26, T:0.17
Consensus pattern (18 bp):
TCAAGAGATGTAGAAAAG
Found at i:5979365 original size:21 final size:21
Alignment explanation
Indices: 5979339--5979380 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
5979329 GAAAAATCAC
*
5979339 AATGAATTAATTTAAGAACAT
1 AATGAATTAATTCAAGAACAT
5979360 AATGAATTAATTCAAGAACAT
1 AATGAATTAATTCAAGAACAT
5979381 TAGAAGTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.52, C:0.07, G:0.10, T:0.31
Consensus pattern (21 bp):
AATGAATTAATTCAAGAACAT
Found at i:5981637 original size:54 final size:52
Alignment explanation
Indices: 5981469--5981639 Score: 168
Period size: 54 Copynumber: 3.2 Consensus size: 52
5981459 ATTTGGTCTT
5981469 ATTTAGAAA-TTTTTTTTATTTTTTATCTCTAAATTTTTCACCATTTGGATCA
1 ATTTAGAAATTTTTTTTTATTTTTTATCTCTAAATTTTTCACCATTTGGAT-A
* * ** * * *
5981521 ATTTAGGAAAATATTTTCTTT-TGTTGAATTTCTAAATTTTTTACCATTTAGACCT-
1 ATTTA-G-AAAT-TTTTTTTTATTTTTTATCTCTAAATTTTTCACCATTTGGA--TA
* *
5981576 ATGTAGAAATTTTTTTTTTATTTTTTATCTCTAAATTTTCCACCATTTGGGATA
1 ATTTAGAAA-TTTTTTTTTATTTTTTATCTCTAAATTTTTCACCATTT-GGATA
5981630 ATTTAGAAAT
1 ATTTAGAAAT
5981640 ATTATCTTTT
Statistics
Matches: 92, Mismatches: 17, Indels: 19
0.72 0.13 0.15
Matches are distributed among these distances:
52 5 0.05
53 13 0.14
54 35 0.38
55 31 0.34
56 7 0.08
57 1 0.01
ACGTcount: A:0.29, C:0.11, G:0.08, T:0.53
Consensus pattern (52 bp):
ATTTAGAAATTTTTTTTTATTTTTTATCTCTAAATTTTTCACCATTTGGATA
Found at i:5981685 original size:108 final size:110
Alignment explanation
Indices: 5981478--5981703 Score: 329
Period size: 109 Copynumber: 2.1 Consensus size: 110
5981468 TATTTAGAAA
* *
5981478 TTTTTTTTATTTTTTATCTCTAAATTTTTCACCATTTGGATCAATTTAGGAAAATATTTTCTTTT
1 TTTTTTTTATTTTTTATCTCTAAATTTTCCACCATTTGGATCAATTTAGGAAAATATTATCTTTT
* *
5981543 GTTGAATTTCTAAATTTTTTACCATTTAGACCTATGTAGAAATT-
66 GTTAAATTTCTAAATTTTTCACCATTTAGACCTATGTAGAAATTC
5981587 TTTTTTTTATTTTTTATCTCTAAATTTTCCACCATTTGGGAT-AATTTA-G-AAATATTATCTTT
1 TTTTTTTTATTTTTTATCTCTAAATTTTCCACCATTT-GGATCAATTTAGGAAAATATTATCTTT
*
5981649 T-TTCAAAATTTCTAAATTTTTCACCATTTTAG-CCTATTTAGAAATTC
65 TGTT--AAATTTCTAAATTTTTCACCA-TTTAGACCTATGTAGAAATTC
5981696 TTTTTTTT
1 TTTTTTTT
5981704 TTCTTGGAAA
Statistics
Matches: 107, Mismatches: 5, Indels: 10
0.88 0.04 0.08
Matches are distributed among these distances:
106 2 0.02
107 13 0.12
108 33 0.31
109 55 0.51
110 4 0.04
ACGTcount: A:0.27, C:0.12, G:0.07, T:0.54
Consensus pattern (110 bp):
TTTTTTTTATTTTTTATCTCTAAATTTTCCACCATTTGGATCAATTTAGGAAAATATTATCTTTT
GTTAAATTTCTAAATTTTTCACCATTTAGACCTATGTAGAAATTC
Found at i:5981688 original size:54 final size:53
Alignment explanation
Indices: 5981496--5981693 Score: 154
Period size: 54 Copynumber: 3.7 Consensus size: 53
5981486 ATTTTTTATC
* * * * *
5981496 TCTAAATTTTTCACCATTTGGATCAATTTAGGAAAATATTTTCTTTTGTTGAATT
1 TCTAAATTTTTCACCATTTAGACCTATTTA-G-AAATATTTTCTTTTATTAAATT
* * * ** *
5981551 TCTAAATTTTTTACCATTTAGACCTATGTAGAAAT-TTTTTTTTTATTTTTTATC
1 TCTAAATTTTTCACCATTTAGACCTATTTAGAAATATTTTCTTTTA--TTAAATT
* * *
5981605 TCTAAATTTTCCACCATTTGGGA--TAATTTAGAAATATTATCTTTT-TTCAAAATT
1 TCTAAATTTTTCACCATTT-AGACCT-ATTTAGAAATATTTTCTTTTATT--AAATT
5981659 TCTAAATTTTTCACCATTTTAG-CCTATTTAGAAAT
1 TCTAAATTTTTCACCA-TTTAGACCTATTTAGAAAT
5981694 TCTTTTTTTT
Statistics
Matches: 112, Mismatches: 21, Indels: 21
0.73 0.14 0.14
Matches are distributed among these distances:
52 10 0.09
53 5 0.04
54 59 0.53
55 38 0.34
ACGTcount: A:0.30, C:0.13, G:0.08, T:0.50
Consensus pattern (53 bp):
TCTAAATTTTTCACCATTTAGACCTATTTAGAAATATTTTCTTTTATTAAATT
Found at i:5981704 original size:54 final size:52
Alignment explanation
Indices: 5981468--5981706 Score: 153
Period size: 54 Copynumber: 4.4 Consensus size: 52
5981458 AATTTGGTCT
** * * *
5981468 TATTTAGAAATTTTTTTTATTTT--TTATCTCTAAATTTTTCACCATTTGGATC
1 TATTTAGAAATTTTTTTT-TTTTCAAAATTTCTAAATTTTTCACCATTTAG-CC
* * * *
5981520 AATTTAGGAAAATATTTTCTTTTGTT--GAATTTCTAAATTTTTTACCATTTAGACC
1 TATTTA-G-AAAT-TTTT-TTTTTTTCAAAATTTCTAAATTTTTCACCATTTAG-CC
* **** * * * **
5981575 TATGTAGAAATTTTTTTTTTATTTTTTATCTCTAAATTTTCCACCATTTGGGA
1 TATTTAGAAATTTTTTTTTT-TTCAAAATTTCTAAATTTTTCACCATTTAGCC
* *
5981628 TAATTTAGAAATATTATCTTTTTTCAAAATTTCTAAATTTTTCACCATTTTAGCC
1 T-ATTTAGAAAT-TTTTTTTTTTTCAAAATTTCTAAATTTTTCACCA-TTTAGCC
5981683 TATTTAGAAATTCTTTTTTTTTTC
1 TATTTAGAAATT-TTTTTTTTTTC
5981707 TTGGAAAGAA
Statistics
Matches: 143, Mismatches: 33, Indels: 20
0.73 0.17 0.10
Matches are distributed among these distances:
51 4 0.03
52 11 0.08
53 7 0.05
54 72 0.50
55 46 0.32
56 3 0.02
ACGTcount: A:0.28, C:0.12, G:0.07, T:0.54
Consensus pattern (52 bp):
TATTTAGAAATTTTTTTTTTTTCAAAATTTCTAAATTTTTCACCATTTAGCC
Found at i:5982333 original size:17 final size:17
Alignment explanation
Indices: 5982311--5982345 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
5982301 ATAAATAAAC
*
5982311 AAATAAACACATAAAAT
1 AAATAAACAAATAAAAT
*
5982328 AAATAAATAAATAAAAT
1 AAATAAACAAATAAAAT
5982345 A
1 A
5982346 CCAAAAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.74, C:0.06, G:0.00, T:0.20
Consensus pattern (17 bp):
AAATAAACAAATAAAAT
Found at i:5983071 original size:9 final size:9
Alignment explanation
Indices: 5983039--5983096 Score: 55
Period size: 9 Copynumber: 6.6 Consensus size: 9
5983029 ACTCTTCCTA
5983039 TTTTTTCAT
1 TTTTTTCAT
* *
5983048 TTTTTCCAA
1 TTTTTTCAT
**
5983057 CCTTTTCAT
1 TTTTTTCAT
5983066 TTTTTTCAT
1 TTTTTTCAT
* *
5983075 TTTTTTAAA
1 TTTTTTCAT
5983084 TTTTTTC-T
1 TTTTTTCAT
5983092 TTTTT
1 TTTTT
5983097 ACAAAAATCA
Statistics
Matches: 37, Mismatches: 12, Indels: 1
0.74 0.24 0.02
Matches are distributed among these distances:
8 5 0.14
9 32 0.86
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.72
Consensus pattern (9 bp):
TTTTTTCAT
Found at i:5983089 original size:27 final size:26
Alignment explanation
Indices: 5983039--5983096 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 26
5983029 ACTCTTCCTA
*
5983039 TTTTTTCATTTTTTCCAACCTTTTCAT
1 TTTTTTCATTTTTTCAAACCTTTTC-T
* **
5983066 TTTTTTCATTTTTTTAAATTTTTTCT
1 TTTTTTCATTTTTTCAAACCTTTTCT
5983092 TTTTT
1 TTTTT
5983097 ACAAAAATCA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
26 6 0.22
27 21 0.78
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.72
Consensus pattern (26 bp):
TTTTTTCATTTTTTCAAACCTTTTCT
Found at i:5983320 original size:42 final size:42
Alignment explanation
Indices: 5983274--5983772 Score: 329
Period size: 42 Copynumber: 11.9 Consensus size: 42
5983264 ACAAAACTCC
* *
5983274 TCTAAACAAAAGGCTCAACGACTTT-AAAAAATAAAATGCTCT
1 TCTAAAC-AAAGGCACAACAACTTTGAAAAAATAAAATGCTCT
* *
5983316 TCTAAACAAAGGCACCACAACTTTGAAAAAATAAATTGCTCT
1 TCTAAACAAAGGCACAACAACTTTGAAAAAATAAAATGCTCT
* * * * * *
5983358 TTTAAATAGAGACACCACAACTTTGGAAAAATAAAATAAAATGCTCC
1 TCTAAACAAAGGCACAACAACTTT-G---AA-AAAATAAAATGCTCT
* * *
5983405 TCTAAATAGATGTGC-C-ACAACTTTGAAAAAATAAAATGCTCC
1 TCTAAACA-AAG-GCACAACAACTTTGAAAAAATAAAATGCTCT
* * * * * *
5983447 TCTAAACAGAGGCACCATAACGTTGGAAAAATAAATTGCTCT
1 TCTAAACAAAGGCACAACAACTTTGAAAAAATAAAATGCTCT
* * * ** * ** *
5983489 TCTAAATAGAGGCTCCGCAACTTTGAGAAAATAACTTGCTCC
1 TCTAAACAAAGGCACAACAACTTTGAAAAAATAAAATGCTCT
* * ** * * *
5983531 TCTAAACAGAGGCTCCGCAACTTTGAGAAAATAAATTGCTCC
1 TCTAAACAAAGGCACAACAACTTTGAAAAAATAAAATGCTCT
* * ** * *
5983573 TCTAAA-AAGAGGCACTACAGCTTTGGGAAAATAAATTGCTCC
1 TCTAAACAA-AGGCACAACAACTTTGAAAAAATAAAATGCTCT
* * * * * * *
5983615 TCTAAATAGAGGCACCACAACTTTGGAAAAACAAATTGCTCC
1 TCTAAACAAAGGCACAACAACTTTGAAAAAATAAAATGCTCT
* * * *
5983657 TCT----AAAGGCACCACAACTTTGAGAAAATAAATTGCTCC
1 TCTAAACAAAGGCACAACAACTTTGAAAAAATAAAATGCTCT
* *
5983695 TCTAAACAAAGGC-CCACAA--TTGAAAAAAT-AAATGACTCC
1 TCTAAACAAAGGCACAACAACTTTGAAAAAATAAAATG-CTCT
*
5983734 TCTAAACAAAGGCACCACAACTTTGAAAAAATAAAATGC
1 TCTAAACAAAGGCACAACAACTTTGAAAAAATAAAATGC
5983773 ATATTGACAA
Statistics
Matches: 386, Mismatches: 50, Indels: 42
0.81 0.10 0.09
Matches are distributed among these distances:
38 38 0.10
39 26 0.07
40 8 0.02
41 23 0.06
42 248 0.64
43 9 0.02
46 3 0.01
47 28 0.07
48 2 0.01
49 1 0.00
ACGTcount: A:0.43, C:0.21, G:0.13, T:0.23
Consensus pattern (42 bp):
TCTAAACAAAGGCACAACAACTTTGAAAAAATAAAATGCTCT
Found at i:5983394 original size:84 final size:83
Alignment explanation
Indices: 5983300--5983768 Score: 486
Period size: 84 Copynumber: 5.6 Consensus size: 83
5983290 AACGACTTTA
* * * *
5983300 AAAAATAAAATGCTCTTCTAAACAAAGGCACCACAACTTTGAAAAAATAAATTGCTCTTTTAAAT
1 AAAAATAAAATGCTCCTCTAAA-AAAGGCACCACAACTTTGAAAAAATAAATTGCTCCTCTAAAC
*
5983365 AGAGACACCACAACTTTGG
65 AGAGGCACCACAACTTTGG
* * ** *
5983384 AAAAATAAAATAAAATGCTCCTCTAAATAGATGTGCCACAACTTTGAAAAAATAAAATGCTCCTC
1 ----A-AAAATAAAATGCTCCTCTAAA-AAAGGCACCACAACTTTGAAAAAATAAATTGCTCCTC
* *
5983449 TAAACAGAGGCACCATAACGTTGG
60 TAAACAGAGGCACCACAACTTTGG
* * * * * * *
5983473 AAAAATAAATTGCTCTTCTAAATAGAGGCTCCGCAACTTTGAGAAAATAACTTGCTCCTCTAAAC
1 AAAAATAAAATGCTCCTCTAAA-AAAGGCACCACAACTTTGAAAAAATAAATTGCTCCTCTAAAC
* *
5983538 AGAGGCTCCGCAACTTT-G
65 AGAGGCACCACAACTTTGG
* * * **
5983556 AGAAAATAAATTGCTCCTCTAAAAAGAGGCACTACAGCTTTGGGAAAATAAATTGCTCCTCTAAA
1 A-AAAATAAAATGCTCCTCTAAAAA-AGGCACCACAACTTTGAAAAAATAAATTGCTCCTCTAAA
*
5983621 TAGAGGCACCACAACTTTGG
64 CAGAGGCACCACAACTTTGG
* * *
5983641 AAAAACAAATTGCTCCTCT---AAAGGCACCACAACTTTGAGAAAATAAATTGCTCCTCTAAACA
1 AAAAATAAAATGCTCCTCTAAAAAAGGCACCACAACTTTGAAAAAATAAATTGCTCCTCTAAACA
* *
5983703 AAGGC-CCACAA--TTGA
66 GAGGCACCACAACTTTGG
5983718 AAAAAT-AAATGACTCCTCTAAACAAAGGCACCACAACTTTGAAAAAATAAA
1 AAAAATAAAATG-CTCCTCTAAA-AAAGGCACCACAACTTTGAAAAAATAAA
5983769 ATGCATATTG
Statistics
Matches: 325, Mismatches: 47, Indels: 25
0.82 0.12 0.06
Matches are distributed among these distances:
76 4 0.01
77 15 0.05
79 6 0.02
80 41 0.13
81 29 0.09
83 3 0.01
84 153 0.47
85 3 0.01
88 1 0.00
89 70 0.22
ACGTcount: A:0.43, C:0.21, G:0.13, T:0.23
Consensus pattern (83 bp):
AAAAATAAAATGCTCCTCTAAAAAAGGCACCACAACTTTGAAAAAATAAATTGCTCCTCTAAACA
GAGGCACCACAACTTTGG
Found at i:5983585 original size:126 final size:126
Alignment explanation
Indices: 5983270--5983768 Score: 545
Period size: 126 Copynumber: 4.0 Consensus size: 126
5983260 GTAAACAAAA
* * * *
5983270 CTCCTCTAAACAAAAGGCTCAACGACTTT-AAAAAATAAAATGCTCTTCTAAACAAAGGCACCAC
1 CTCCTCTAAAC-AGAGGCTCCACAACTTTGAAAAAATAAAATGCTCCTCTAAACAAAGGCACCAC
* * *
5983334 AACTTTGAAAAAATAAATTGCTCTTTTAAATAGAGACACCACAACTTTGGAAAAATAAAATAAAA
65 AACTTTGAAAAAATAAATTGCTCCTCTAAATAGAGGCACCACAACTTTGGAAAAAT-AAAT----
5983399 TG
125 TG
* * * *
5983401 CTCCTCTAAATAGATG-TGCCACAACTTTGAAAAAATAAAATGCTCCTCTAAACAGAGGCACCAT
1 CTCCTCTAAACAGAGGCT-CCACAACTTTGAAAAAATAAAATGCTCCTCTAAACAAAGGCACCAC
* * * * * *
5983465 AACGTTGGAAAAATAAATTGCTCTTCTAAATAGAGGCTCCGCAACTTT-GAGAAAATAACTTG
65 AACTTTGAAAAAATAAATTGCTCCTCTAAATAGAGGCACCACAACTTTGGA-AAAATAAATTG
* * * *
5983527 CTCCTCTAAACAGAGGCTCCGCAACTTTGAGAAAATAAATTGCTCCTCTAAA-AAGAGGCACTAC
1 CTCCTCTAAACAGAGGCTCCACAACTTTGAAAAAATAAAATGCTCCTCTAAACAA-AGGCACCAC
* ** *
5983591 AGCTTTGGGAAAATAAATTGCTCCTCTAAATAGAGGCACCACAACTTTGGAAAAACAAATTG
65 AACTTTGAAAAAATAAATTGCTCCTCTAAATAGAGGCACCACAACTTTGGAAAAATAAATTG
* * *
5983653 CTCCTCT--A-A-AGGCACCACAACTTTGAGAAAATAAATTGCTCCTCTAAACAAAGGC-CCACA
1 CTCCTCTAAACAGAGGCTCCACAACTTTGAAAAAATAAAATGCTCCTCTAAACAAAGGCACCACA
* * *
5983713 A--TTGAAAAAATAAA-TGACTCCTCTAAACAAAGGCACCACAACTTTGAAAAAATAAA
66 ACTTTGAAAAAATAAATTG-CTCCTCTAAATAGAGGCACCACAACTTTGGAAAAATAAA
5983769 ATGCATATTG
Statistics
Matches: 319, Mismatches: 41, Indels: 28
0.82 0.11 0.07
Matches are distributed among these distances:
118 2 0.01
119 46 0.14
121 4 0.01
122 41 0.13
123 3 0.01
124 1 0.00
125 1 0.00
126 112 0.35
127 3 0.01
129 1 0.00
130 16 0.05
131 89 0.28
ACGTcount: A:0.42, C:0.21, G:0.13, T:0.23
Consensus pattern (126 bp):
CTCCTCTAAACAGAGGCTCCACAACTTTGAAAAAATAAAATGCTCCTCTAAACAAAGGCACCACA
ACTTTGAAAAAATAAATTGCTCCTCTAAATAGAGGCACCACAACTTTGGAAAAATAAATTG
Found at i:5984225 original size:21 final size:21
Alignment explanation
Indices: 5984199--5984245 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
5984189 CAAAGTTTTT
*
5984199 ATTTGAAATTCAAAGATTCTC
1 ATTTGAAATTCAAAGATTCAC
* *
5984220 ATTTG-AGTTCGAAGATTCAC
1 ATTTGAAATTCAAAGATTCAC
5984240 ATTTGA
1 ATTTGA
5984246 CCAATTTTGG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 17 0.77
21 5 0.23
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.38
Consensus pattern (21 bp):
ATTTGAAATTCAAAGATTCAC
Found at i:5984282 original size:58 final size:58
Alignment explanation
Indices: 5984210--5984340 Score: 192
Period size: 58 Copynumber: 2.3 Consensus size: 58
5984200 TTTGAAATTC
* * *
5984210 AAAGATTCTCATTTGAGTTCGAAGATTCACATTTGACCAATTTTGGGTTTCACACCTT
1 AAAGATTCTCATTTGAGTTCAAAGATTCACATTCGACAAATTTTGGGTTTCACACCTT
* * * *
5984268 AAAGATTCTTATTTGAGTTCAAAGATTCACATTCGATAAATTTTGGGTTTTATACCTT
1 AAAGATTCTCATTTGAGTTCAAAGATTCACATTCGACAAATTTTGGGTTTCACACCTT
5984326 AAA-ATTCTCATTTGA
1 AAAGATTCTCATTTGA
5984341 AATTTAGAGA
Statistics
Matches: 65, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
57 11 0.17
58 54 0.83
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.40
Consensus pattern (58 bp):
AAAGATTCTCATTTGAGTTCAAAGATTCACATTCGACAAATTTTGGGTTTCACACCTT
Found at i:5984289 original size:78 final size:78
Alignment explanation
Indices: 5984047--5984300 Score: 251
Period size: 78 Copynumber: 3.2 Consensus size: 78
5984037 CATCCACAAG
* * * ** * * *
5984047 TTCAAAGCTTCTCATTCGAGTCCAAAGGCTCACATTTGACAAATTTTAGGGTTTTAATACCTCAA
1 TTCAAAGATTCTCATTTGAGTTCAAAGATTCACATTTGACAAATTTT-GGG-TTTCACACCTTAA
* **
5984112 AGATTCTCACTTAAAA
64 AGATTCTTA-TTTGAA
* * * **
5984128 TTCAAAAATTCTCATTTGAGTTTCAAATATCCACATTCAACAAATTTTGGGTTTCACA-CTTCAA
1 TTCAAAGATTCTCATTTGAG-TTCAAAGATTCACATTTGACAAATTTTGGGTTTCACACCTT-AA
*
5984192 AG-TTTTTATTTGAAA
64 AGATTCTTATTTG-AA
* *
5984207 TTCAAAGATTCTCATTTGAGTTCGAAGATTCACATTTGACCAATTTTGGGTTTCACACCTTAAAG
1 TTCAAAGATTCTCATTTGAGTTCAAAGATTCACATTTGACAAATTTTGGGTTTCACACCTTAAAG
*
5984272 ATTCTTATTTGAG
66 ATTCTTATTTGAA
*
5984285 TTCAAAGATTCACATT
1 TTCAAAGATTCTCATT
5984301 CGATAAATTT
Statistics
Matches: 141, Mismatches: 27, Indels: 13
0.78 0.15 0.07
Matches are distributed among these distances:
78 53 0.38
79 39 0.28
80 9 0.06
81 20 0.14
82 20 0.14
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.38
Consensus pattern (78 bp):
TTCAAAGATTCTCATTTGAGTTCAAAGATTCACATTTGACAAATTTTGGGTTTCACACCTTAAAG
ATTCTTATTTGAA
Found at i:5984378 original size:22 final size:21
Alignment explanation
Indices: 5984326--5984379 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
5984316 TTTATACCTT
* *
5984326 AAAATTCTCATTTGAAATTTA
1 AAAATTCTCATTTGAAACTCA
* *
5984347 GAGATTCTCATTTGAGAACTCA
1 AAAATTCTCATTTGA-AACTCA
5984369 AAAATTCTCAT
1 AAAATTCTCAT
5984380 CAAAAGATTT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
21 13 0.50
22 13 0.50
ACGTcount: A:0.39, C:0.15, G:0.09, T:0.37
Consensus pattern (21 bp):
AAAATTCTCATTTGAAACTCA
Found at i:5984737 original size:23 final size:23
Alignment explanation
Indices: 5984711--5984754 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
5984701 TTGGAACAAG
*
5984711 TTTCATCAAC-TGATCATCATTAT
1 TTTCATC-ACTTGATCACCATTAT
5984734 TTTCATCACTTGATCACCATT
1 TTTCATCACTTGATCACCATT
5984755 CATAGGCTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.27, C:0.25, G:0.05, T:0.43
Consensus pattern (23 bp):
TTTCATCACTTGATCACCATTAT
Found at i:5985613 original size:11 final size:11
Alignment explanation
Indices: 5985599--5985630 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
5985589 TTTTTTTCTT
5985599 TCATTTTCATC
1 TCATTTTCATC
5985610 TCATTTTCATC
1 TCATTTTCATC
5985621 TCATTTTCAT
1 TCATTTTCAT
5985631 TCTTTCATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.19, C:0.25, G:0.00, T:0.56
Consensus pattern (11 bp):
TCATTTTCATC
Found at i:5985665 original size:18 final size:19
Alignment explanation
Indices: 5985641--5985704 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 19
5985631 TCTTTCATTT
5985641 TTTTATTTCTTTTTTTCTC
1 TTTTATTTCTTTTTTTCTC
5985660 -TTTA-TT-TTTTTTTCATC
1 TTTTATTTCTTTTTTTC-TC
5985677 TTTTATTTCTTTTATTTCT-
1 TTTTATTTCTTTT-TTTCTC
5985696 TTTTCATTT
1 TTTT-ATTT
5985705 TTTCTTTTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
16 8 0.21
17 4 0.10
18 8 0.21
19 6 0.15
20 9 0.23
21 4 0.10
ACGTcount: A:0.09, C:0.12, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTTATTTCTTTTTTTCTC
Found at i:5985671 original size:27 final size:26
Alignment explanation
Indices: 5985630--5985716 Score: 74
Period size: 27 Copynumber: 3.3 Consensus size: 26
5985620 CTCATTTTCA
*
5985630 TTCTTTCA-TTTTTTTATTTCTTTTT
1 TTCTTTTATTTTTTTTATTTCTTTTT
*
5985655 TTCTCTTTATTTTTTTT-TCATCTTTTAT
1 TTCT-TTTATTTTTTTTAT-TTCTTTT-T
5985683 TTCTTTTATTTCTTTTTCATTT-TTTCTT
1 TTCTTTTATTT-TTTTT-ATTTCTTT-TT
5985711 TT-TTTT
1 TTCTTTT
5985717 CATCTTTTCC
Statistics
Matches: 51, Mismatches: 3, Indels: 14
0.75 0.04 0.21
Matches are distributed among these distances:
25 4 0.08
26 4 0.08
27 24 0.47
28 16 0.31
29 2 0.04
30 1 0.02
ACGTcount: A:0.08, C:0.13, G:0.00, T:0.79
Consensus pattern (26 bp):
TTCTTTTATTTTTTTTATTTCTTTTT
Found at i:5985687 original size:9 final size:9
Alignment explanation
Indices: 5985630--5985698 Score: 74
Period size: 9 Copynumber: 7.8 Consensus size: 9
5985620 CTCATTTTCA
*
5985630 TTCTTTCAT
1 TTCTTTTAT
5985639 TT-TTTTAT
1 TTCTTTTAT
5985647 TTCTTTT-T
1 TTCTTTTAT
5985655 TTCTCTTTAT
1 TTCT-TTTAT
5985665 TT-TTTT-T
1 TTCTTTTAT
5985672 TCATCTTTTAT
1 T--TCTTTTAT
5985683 TTCTTTTAT
1 TTCTTTTAT
5985692 TTCTTTT
1 TTCTTTT
5985699 TCATTTTTTC
Statistics
Matches: 52, Mismatches: 1, Indels: 14
0.78 0.01 0.21
Matches are distributed among these distances:
7 2 0.04
8 15 0.29
9 26 0.50
10 7 0.13
11 2 0.04
ACGTcount: A:0.09, C:0.13, G:0.00, T:0.78
Consensus pattern (9 bp):
TTCTTTTAT
Found at i:5985713 original size:44 final size:44
Alignment explanation
Indices: 5985624--5985724 Score: 127
Period size: 44 Copynumber: 2.3 Consensus size: 44
5985614 TTTCATCTCA
* *
5985624 TTTTCATTCTTTCATTTTTTTATTTCTTTTTTTCTCTTTATTTTT
1 TTTTCA-TCTTTTATTTTTTTATTTCTTTTTTTCTCTTTACTTTT
5985669 TTTTCATCTTTTATTTCTTTTATTTCTTTTTCATT-T-TTT-CTTTT
1 TTTTCATCTTTTATTT-TTTTATTTCTTTTT--TTCTCTTTACTTTT
5985713 TTTTCATCTTTT
1 TTTTCATCTTTT
5985725 CCCATCCATT
Statistics
Matches: 51, Mismatches: 2, Indels: 7
0.85 0.03 0.12
Matches are distributed among these distances:
44 25 0.49
45 23 0.45
46 1 0.02
47 2 0.04
ACGTcount: A:0.09, C:0.14, G:0.00, T:0.77
Consensus pattern (44 bp):
TTTTCATCTTTTATTTTTTTATTTCTTTTTTTCTCTTTACTTTT
Found at i:5988676 original size:17 final size:17
Alignment explanation
Indices: 5988634--5988677 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 17
5988624 ATAATCATGA
* *
5988634 AAATGATGCATAGAATG
1 AAATGATGTATAAAATG
5988651 AAATGATGTATAAAATG
1 AAATGATGTATAAAATG
5988668 AAATGATGTA
1 AAATGATGTA
5988678 GATGCACAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.50, C:0.02, G:0.20, T:0.27
Consensus pattern (17 bp):
AAATGATGTATAAAATG
Found at i:5989889 original size:50 final size:51
Alignment explanation
Indices: 5989832--5989938 Score: 144
Period size: 50 Copynumber: 2.1 Consensus size: 51
5989822 ATATTTTCTC
* * *
5989832 TTTTTAAATTTTCCATCACTTGGGTCAATTTAGAAATT-TTTTTTTTTTAA
1 TTTTTAAATTTTCCACCACTTGGGCCAATTTAGAAATTCTTTTTTTATTAA
* * * *
5989882 TTTTTAAATTTTCTACCATTTGGGCCTATTTAGAAATTCTTTTTTTATTAT
1 TTTTTAAATTTTCCACCACTTGGGCCAATTTAGAAATTCTTTTTTTATTAA
5989933 TTTTTA
1 TTTTTA
5989939 TCTTTAAATT
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
50 33 0.67
51 16 0.33
ACGTcount: A:0.24, C:0.10, G:0.07, T:0.58
Consensus pattern (51 bp):
TTTTTAAATTTTCCACCACTTGGGCCAATTTAGAAATTCTTTTTTTATTAA
Found at i:5990026 original size:111 final size:108
Alignment explanation
Indices: 5989834--5990039 Score: 297
Period size: 111 Copynumber: 1.9 Consensus size: 108
5989824 ATTTTCTCTT
* * *
5989834 TTTAAATTTTCCATCACTTGGGTCAATTTAGAAATTTTTTTTTTTTAATTTTTAAATTTTCTACC
1 TTTAAATTTTCCACCACTTAGGTCAATTTAGAAATTTTTTTTTTTAAATTTTTAAATTTTCTACC
* *
5989899 ATTTGGGCCTATTTAGAAATTCT-TTTTTTATTATTTTTTATC
66 ATTTAGGCATATTTAGAAATTCTCTTTTTTATTATTTTTTATC
* * *
5989941 TTTAAATTTTTCACCATTTAGGTCAATTTAGAAATATTTTCTTTTTTCAAAATTTTTAAATTTTT
1 TTTAAATTTTCCACCACTTAGGTCAATTTAGAAAT-TTTT-TTTTTT--AAATTTTTAAATTTTC
5990006 TACCATTTAGGCATATTTAGAAATTCTCTTTTTT
62 TACCATTTAGGCATATTTAGAAATTCTCTTTTTT
5990040 CTTGGAAAGA
Statistics
Matches: 86, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
107 31 0.36
108 4 0.05
109 6 0.07
111 39 0.45
112 6 0.07
ACGTcount: A:0.27, C:0.11, G:0.07, T:0.55
Consensus pattern (108 bp):
TTTAAATTTTCCACCACTTAGGTCAATTTAGAAATTTTTTTTTTTAAATTTTTAAATTTTCTACC
ATTTAGGCATATTTAGAAATTCTCTTTTTTATTATTTTTTATC
Found at i:5990423 original size:8 final size:8
Alignment explanation
Indices: 5990377--5990424 Score: 53
Period size: 8 Copynumber: 6.0 Consensus size: 8
5990367 TAATTCCAAA
*
5990377 ATTTTTAT
1 ATTTTTTT
*
5990385 ATTTTTAT
1 ATTTTTTT
5990393 ATTTTTTT
1 ATTTTTTT
*
5990401 GTTTTTCTT
1 ATTTTT-TT
5990410 -TTTTTTT
1 ATTTTTTT
5990417 ATTTTTTT
1 ATTTTTTT
5990425 TTGTTTGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
7 2 0.06
8 32 0.89
9 2 0.06
ACGTcount: A:0.12, C:0.02, G:0.02, T:0.83
Consensus pattern (8 bp):
ATTTTTTT
Found at i:5990644 original size:4 final size:4
Alignment explanation
Indices: 5990635--5990676 Score: 57
Period size: 4 Copynumber: 10.2 Consensus size: 4
5990625 ATTAAAAAAG
* *
5990635 ATAA ATAA ATAA ATAA ACAC ATAAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA AT-AA ATAA ATAA ATAA ATAA A
5990677 AATACCAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
4 30 0.91
5 3 0.09
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (4 bp):
ATAA
Found at i:5992798 original size:62 final size:63
Alignment explanation
Indices: 5992697--5992839 Score: 157
Period size: 62 Copynumber: 2.3 Consensus size: 63
5992687 NNNNNNNAGT
* * *
5992697 GAATATTAAAGGTATTTTTAGCAAAAAACGACTTGAATAAT-CCTGT-TAAAAAAAT-TGATAGG
1 GAATATTAAAGGCATTTTTAGCAAAAAACGACTTCAATAATCCCT-TATAAAAAAATATAAT-GG
* * * * * *
5992759 GAATATTAAAGGCATTTTTGGCAGATAATGCCTTCAATAATCCCTTATAAAAAAATATAATGT
1 GAATATTAAAGGCATTTTTAGCAAAAAACGACTTCAATAATCCCTTATAAAAAAATATAATGG
*
5992822 GATTATTAAAGGCATTTT
1 GAATATTAAAGGCATTTT
5992840 CAACAAGAAG
Statistics
Matches: 68, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
62 35 0.51
63 30 0.44
64 3 0.04
ACGTcount: A:0.42, C:0.10, G:0.15, T:0.34
Consensus pattern (63 bp):
GAATATTAAAGGCATTTTTAGCAAAAAACGACTTCAATAATCCCTTATAAAAAAATATAATGG
Found at i:5994567 original size:20 final size:21
Alignment explanation
Indices: 5994518--5994569 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
5994508 CCTAAATTGA
5994518 AAAGAAA-AAAATTACTTAAT
1 AAAGAAATAAAATTACTTAAT
* *
5994538 ATATAAATAAAATTACTT-AT
1 AAAGAAATAAAATTACTTAAT
5994558 AAAGAAATAAAA
1 AAAGAAATAAAA
5994570 GATATATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 17 0.63
21 10 0.37
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.27
Consensus pattern (21 bp):
AAAGAAATAAAATTACTTAAT
Found at i:5995357 original size:31 final size:31
Alignment explanation
Indices: 5995319--5995382 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
5995309 CAATAAATAT
5995319 AATAAACAAATTAATATTAAACTTATAAACA
1 AATAAACAAATTAATATTAAACTTATAAACA
5995350 AATAAACAAATTAATATTAAACTTATAAACA
1 AATAAACAAATTAATATTAAACTTATAAACA
5995381 AA
1 AA
5995383 ATCATACTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.28
Consensus pattern (31 bp):
AATAAACAAATTAATATTAAACTTATAAACA
Found at i:5998142 original size:190 final size:188
Alignment explanation
Indices: 5997783--5998256 Score: 645
Period size: 190 Copynumber: 2.5 Consensus size: 188
5997773 AAAAATAAGA
* * *
5997783 AAAAAATTTTAAAAGAAAATT-TTGAAGGCGTTTGTTATA-AAAAATCACCTTCAATAATTATGT
1 AAAAATTTTTAAAAAAAAATTATTGAAGGCGTTTGTTA-ACAAAAAACACCTTCAATAATTATGT
* *
5997846 AC-AAATATTAAAATGAATTAGTAAAGGTA--TTTTCCTAGAATAAATGCCTTCACTAACCATCT
65 ACAAAAT-TTAAAA-GAATTATTAAAGGTATTTTTTCCTAGAATAAACGCCTTCACTAACCATCT
* * *
5997908 TAAAATTTGAGTACTGGTATATTGAAGGCATTTTTCAATAGAAGATGCCTTTAATAATCTC
128 TAAAATCTGAGTACTGGTATATTAAAGGCATTTTTCAATAGAAGACGCCTTTAATAATCTC
* * *
5997969 -AAAATTTTTAAAAAAAAAATTATTAAAGGCATTTGTTAACAAAAAACGCCTTCAATAATTATGT
1 AAAAATTTTT-AAAAAAAAATTATTGAAGGCGTTTGTTAACAAAAAACACCTTCAATAATTATGT
** * *
5998033 ACAAAATTTAAAAGAAATTATTAAAGGTATTTTTTTTTTGAAATAAACGCCTTCACTAACCGTCT
65 ACAAAATTTAAAAG-AATTATTAAAGGTATTTTTTCCTAG-AATAAACGCCTTCACTAACCATCT
* *
5998098 TAAAATCTGAGTACTGGTATATTAAAGGCGTTTTTCACTAGAAGACGCCTTTAATAATCTC
128 TAAAATCTGAGTACTGGTATATTAAAGGCATTTTTCAATAGAAGACGCCTTTAATAATCTC
* * * *
5998159 AAAAATTTTTAAAAAAAAATTATTGAGGGTGTTTGTTATCAAAAAACACCTTCAATATTTATGTA
1 AAAAATTTTTAAAAAAAAATTATTGAAGGCGTTTGTTAACAAAAAACACCTTCAATAATTATGTA
*
5998224 CAAAATTTAAAAGGAATTATTGAAGGTATTTTT
66 CAAAATTTAAAA-GAATTATTAAAGGTATTTTT
5998257 CAGTAGAAAA
Statistics
Matches: 253, Mismatches: 25, Indels: 16
0.86 0.09 0.05
Matches are distributed among these distances:
185 8 0.03
186 12 0.05
187 57 0.23
188 4 0.02
189 6 0.02
190 156 0.62
191 10 0.04
ACGTcount: A:0.42, C:0.11, G:0.12, T:0.35
Consensus pattern (188 bp):
AAAAATTTTTAAAAAAAAATTATTGAAGGCGTTTGTTAACAAAAAACACCTTCAATAATTATGTA
CAAAATTTAAAAGAATTATTAAAGGTATTTTTTCCTAGAATAAACGCCTTCACTAACCATCTTAA
AATCTGAGTACTGGTATATTAAAGGCATTTTTCAATAGAAGACGCCTTTAATAATCTC
Found at i:5998403 original size:123 final size:124
Alignment explanation
Indices: 5998117--5998381 Score: 388
Period size: 123 Copynumber: 2.1 Consensus size: 124
5998107 AGTACTGGTA
* * * *
5998117 TATTAAAGGCGTTTTTCACTAGAAGACGCCTTTAATAATCTCAAAAATTTTTAAAAAAAAATTAT
1 TATTAAAGGCATTTTTCAGTAGAAAATGCCTTTAATAATCTCAAAAATTTTTAAAAAAAAATTAT
* * ** *
5998182 TGAGGGTGTTTGTTATCAAAAAACACCTTCAATATTTATGTACAAAATTTAAAAGGAAT
66 TGAAGGTGTTTGATATCAAAAAACACCTTCAATAACTATGTACAAAACTTAAAAGGAAT
* * * *
5998241 TATTGAAGGTATTTTTCAGTAGAAAATGCCTTTAATAATCTTAAAAGTTTTTAAAAAAAAA-TAT
1 TATTAAAGGCATTTTTCAGTAGAAAATGCCTTTAATAATCTCAAAAATTTTTAAAAAAAAATTAT
* *
5998305 TGAAGGTGTTTGATATCAAAAAACACCTTCAATAACTATTTACTAAACTTAAAAGGAAT
66 TGAAGGTGTTTGATATCAAAAAACACCTTCAATAACTATGTACAAAACTTAAAAGGAAT
5998364 TATTAAAGGCATTTTTCA
1 TATTAAAGGCATTTTTCA
5998382 AGAATAAATG
Statistics
Matches: 124, Mismatches: 17, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
123 71 0.57
124 53 0.43
ACGTcount: A:0.42, C:0.11, G:0.12, T:0.35
Consensus pattern (124 bp):
TATTAAAGGCATTTTTCAGTAGAAAATGCCTTTAATAATCTCAAAAATTTTTAAAAAAAAATTAT
TGAAGGTGTTTGATATCAAAAAACACCTTCAATAACTATGTACAAAACTTAAAAGGAAT
Found at i:5998493 original size:310 final size:313
Alignment explanation
Indices: 5997927--5998567 Score: 815
Period size: 310 Copynumber: 2.1 Consensus size: 313
5997917 AGTACTGGTA
*
5997927 TATTGAAGGCATTTTTCAATAGAAGATGCCTTTAATAATCTCAAAATTTTTAAAAAAAAAATTAT
1 TATTGAAGGCATTTTTCAATAGAAAATGCCTTTAATAATCTCAAAATTTTTAAAAAAAAAATTAT
* * * *
5997992 TAAAGGCATTTGTTAACAAAAAACGCCTTCAATAATTATGTACAAAATTTAAAAGAAATTATTAA
66 TAAAGGCATTTGATAACAAAAAACACCTTCAATAACTATGTACAAAACTTAAAAGAAATTATTAA
* *** *
5998057 AGGTATTTTTTTTTTGAAATAAACGCCTTCACTAACCGTCTTAAAATCTGAGTACTGGTATATTA
131 AGGCA-TTTTTTCAAGAAATAAACGCCTTCACTAACCATCTTAAAATCTGAGTACTGGTATATTA
* * *
5998122 AAGGCGTTTTTCACTAGAAGACGCCTTTAATAATCTCAAAAATTTTTAAAAAAAAATTATTGAGG
195 AAGGCGTTTTTCACTAGAAGACACCTTTAATAATCCCAAAAATTTTTAAAAAAAAATTATTGAAG
** * * *
5998187 GTGTTTGTTATCAAAAAACA-CCTTCAATATTTATGTACAAAATTTAAAAGGAAT
260 GCATTTGTTAT-AAAAAAAAGCATTCAATAATTATGTACAAAATTTAAAAGGAAT
* * *
5998241 TATTGAAGGTATTTTTCAGTAGAAAATGCCTTTAATAATCTTAAAAGTTTTT-AAAAAAAAA-TA
1 TATTGAAGGCATTTTTCAATAGAAAATGCCTTTAATAATCTCAAAA-TTTTTAAAAAAAAAATTA
* ** * * * *
5998304 TTGAAGGTGTTTGATATCAAAAAACACCTTCAATAACTATTTACTAAACTTAAAAGGAATTATTA
65 TTAAAGGCATTTGATAACAAAAAACACCTTCAATAACTATGTACAAAACTTAAAAGAAATTATTA
* ** * * * * *
5998369 AAGGCA-TTTTTCAAG-AATAAATGCCTTTTCTAATCATTTTAAATTTTGAGTACTGGTATATTG
130 AAGGCATTTTTTCAAGAAATAAACGCCTTCACTAACCATCTTAAAATCTGAGTACTGGTATATTA
* * * * * *
5998432 AAGGTGTTTTTCAGTATAAGACACTTTTAATAATCCCAAAATTTTTTAAAACAAAATTATTGAAG
195 AAGGCGTTTTTCACTAGAAGACACCTTTAATAATCCCAAAAATTTTTAAAAAAAAATTATTGAAG
*
5998497 GCATTTGTTATAAAAAAAATGCATTCAATAATTATGTACAAAATTTACAAGGAAT
260 GCATTTGTTATAAAAAAAA-GCATTCAATAATTATGTACAAAATTTAAAAGGAAT
*
5998552 TATTAAAGGCATTTTT
1 TATTGAAGGCATTTTT
5998568 TGGAATAAAC
Statistics
Matches: 279, Mismatches: 45, Indels: 9
0.84 0.14 0.03
Matches are distributed among these distances:
309 7 0.03
310 104 0.37
311 51 0.18
313 61 0.22
314 51 0.18
315 5 0.02
ACGTcount: A:0.41, C:0.11, G:0.12, T:0.36
Consensus pattern (313 bp):
TATTGAAGGCATTTTTCAATAGAAAATGCCTTTAATAATCTCAAAATTTTTAAAAAAAAAATTAT
TAAAGGCATTTGATAACAAAAAACACCTTCAATAACTATGTACAAAACTTAAAAGAAATTATTAA
AGGCATTTTTTCAAGAAATAAACGCCTTCACTAACCATCTTAAAATCTGAGTACTGGTATATTAA
AGGCGTTTTTCACTAGAAGACACCTTTAATAATCCCAAAAATTTTTAAAAAAAAATTATTGAAGG
CATTTGTTATAAAAAAAAGCATTCAATAATTATGTACAAAATTTAAAAGGAAT
Found at i:5998622 original size:187 final size:186
Alignment explanation
Indices: 5998241--5998659 Score: 520
Period size: 187 Copynumber: 2.2 Consensus size: 186
5998231 TAAAAGGAAT
* * ** **
5998241 TATTGAAGGTATTTTTCAGTAGAAAATGCCTTTAATAATCTTAAAAGTTTTTAAAAAAAAATATT
1 TATTGAAGGTATTTTTCAGTATAAGACACCTTTAATAATCCCAAAAGTTTTTAAAAAAAAATATT
** * * * *
5998306 GAAGGTGTTTGATATCAAAAAACACCTTCAATAACTATTTACTAAACTTAAAAGGAATTATTAAA
66 GAAGGCATTTGATATCAAAAAAAACATTCAATAACTATGTACAAAACTTAAAAGGAATTATTAAA
* * * * **
5998371 GGCATTTTTCAAGAATAAATGCCTTTTCTAATCATTTTAAATTTTGAGTACTGGTA
131 GGCATTTTTCAAGAATAAACGCCTTTACTAATCATCTTAAAATTTGAGTACTGACA
* * * *
5998427 TATTGAAGGTGTTTTTCAGTATAAGACACTTTTAATAATCCCAAAATTTTTTAAAACAAAATTAT
1 TATTGAAGGTATTTTTCAGTATAAGACACCTTTAATAATCCCAAAAGTTTTTAAAA-AAAAATAT
* * * *
5998492 TGAAGGCATTTGTTAT-AAAAAAAATGCATTCAATAATTATGTACAAAATTTACAAGGAATTATT
65 TGAAGGCATTTGATATCAAAAAAAA--CATTCAATAACTATGTACAAAACTTAAAAGGAATTATT
** *
5998556 AAAGGCATTTTT-TGGAATAAACG-CTTTCACTAATCGTCTTAAAATTTGAGTACTGACA
128 AAAGGCATTTTTCAAGAATAAACGCCTTT-ACTAATCATCTTAAAATTTGAGTACTGACA
5998614 TATTGAAGGTATTTTTCAGTATAAGACACCTTTAATAATCCCAAAA
1 TATTGAAGGTATTTTTCAGTATAAGACACCTTTAATAATCCCAAAA
5998660 AGATAATTAT
Statistics
Matches: 198, Mismatches: 31, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
186 58 0.29
187 96 0.48
188 44 0.22
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.37
Consensus pattern (186 bp):
TATTGAAGGTATTTTTCAGTATAAGACACCTTTAATAATCCCAAAAGTTTTTAAAAAAAAATATT
GAAGGCATTTGATATCAAAAAAAACATTCAATAACTATGTACAAAACTTAAAAGGAATTATTAAA
GGCATTTTTCAAGAATAAACGCCTTTACTAATCATCTTAAAATTTGAGTACTGACA
Found at i:5999027 original size:125 final size:121
Alignment explanation
Indices: 5998898--5999227 Score: 318
Period size: 121 Copynumber: 2.7 Consensus size: 121
5998888 AACTTAAAAA
* * * * **
5998898 GAATTAGTAAAGGCATTTTTCTACTATAAATGCCTTCACTAATCGTCTTAAAATTTGAGTACTGA
1 GAATTAGTCAAGGCATTTTTCTACAATAAAAGCCTTCAATAA-CCCCTTAAAATTTGAGTACTGA
* * * * **
5998963 AAAATTGAAGGCGTTTTACACTAAAAGACGCCTTCAATAATTTTTTTCAAAAAATTAAAT
65 AAAATTAAAGGCATTTT---CTAAAAGACGCCATCAATAAATTCCTTCAAAAAATTAAAT
* * ** * ** *
5999023 GAATTAGGCAAGGCATTTTTTTGGAATAAAAGCCTTCAATAACCCCTTAAAATTTTAGTTGTGTA
1 GAATTAGTCAAGGCATTTTTCTACAATAAAAGCCTTCAATAACCCCTTAAAATTTGAGTACTGAA
* * *
5999088 ATATTAAAGGCATTTTCTAGAAGATGCCATCAATAAATTCCTTCAAAAAATTAAAT
66 AAATTAAAGGCATTTTCTAAAAGACGCCATCAATAAATTCCTTCAAAAAATTAAAT
* * ** * * ** *
5999144 GAATTAGTCAAGGTATTTTTTTGGAATAAAAGCCTTCAATAACCCCTTAAACTTTTAGTTGTGTA
1 GAATTAGTCAAGGCATTTTTCTACAATAAAAGCCTTCAATAACCCCTTAAAATTTGAGTACTGAA
* *
5999209 ATATTAGAGGCATTTTCTA
66 AAATTAAAGGCATTTTCTA
5999228 CAGAAGATGC
Statistics
Matches: 178, Mismatches: 27, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
121 114 0.64
124 30 0.17
125 34 0.19
ACGTcount: A:0.37, C:0.14, G:0.13, T:0.36
Consensus pattern (121 bp):
GAATTAGTCAAGGCATTTTTCTACAATAAAAGCCTTCAATAACCCCTTAAAATTTGAGTACTGAA
AAATTAAAGGCATTTTCTAAAAGACGCCATCAATAAATTCCTTCAAAAAATTAAAT
Found at i:5999098 original size:62 final size:62
Alignment explanation
Indices: 5999032--5999224 Score: 173
Period size: 62 Copynumber: 3.2 Consensus size: 62
5999022 TGAATTAGGC
5999032 AAGGCATTTTTTTGGAATAAAAGCCTTCAATAACCCCTTAAAATTTTAGTTGTGTAATATTA
1 AAGGCATTTTTTTGGAATAAAAGCCTTCAATAACCCCTTAAAATTTTAGTTGTGTAATATTA
* * * * * ** ** ** * *
5999094 AAGGCA-TTTTCTAG-A-AGATGCCATCAATAAATTCCTTCAAAAAATTA--AATG-AATTAGTC
1 AAGGCATTTTTTTGGAATAAAAGCCTTCAAT-AACCCCTT-AAAATTTTAGTTGTGTAA-TATTA
* *
5999153 AAGGTATTTTTTTGGAATAAAAGCCTTCAATAACCCCTTAAACTTTTAGTTGTGTAATATTA
1 AAGGCATTTTTTTGGAATAAAAGCCTTCAATAACCCCTTAAAATTTTAGTTGTGTAATATTA
*
5999215 GAGGCATTTT
1 AAGGCATTTT
5999225 CTACAGAAGA
Statistics
Matches: 92, Mismatches: 30, Indels: 18
0.66 0.21 0.13
Matches are distributed among these distances:
58 2 0.02
59 20 0.22
60 19 0.21
61 20 0.22
62 29 0.32
63 2 0.02
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.37
Consensus pattern (62 bp):
AAGGCATTTTTTTGGAATAAAAGCCTTCAATAACCCCTTAAAATTTTAGTTGTGTAATATTA
Found at i:5999156 original size:121 final size:122
Alignment explanation
Indices: 5999008--5999238 Score: 410
Period size: 121 Copynumber: 1.9 Consensus size: 122
5998998 AATAATTTTT
5999008 TTCAAAAAATTAAATGAATTAGGCAAGGCATTTTTTTGGAATAAAAGCCTTCAATAACCCCTTAA
1 TTCAAAAAATTAAATGAATTAGGCAAGGCATTTTTTTGGAATAAAAGCCTTCAATAACCCCTTAA
5999073 AATTTTAGTTGTGTAATATTAAAGGCATTTTCT-AGAAGATGCCATCAATAAATTCC
66 AATTTTAGTTGTGTAATATTAAAGGCATTTTCTAAGAAGATGCCATCAATAAATTCC
* *
5999129 TTCAAAAAATTAAATGAATTAGTCAAGGTATTTTTTTGGAATAAAAGCCTTCAATAACCCCTTAA
1 TTCAAAAAATTAAATGAATTAGGCAAGGCATTTTTTTGGAATAAAAGCCTTCAATAACCCCTTAA
* *
5999194 ACTTTTAGTTGTGTAATATTAGAGGCATTTTCTACAGAAGATGCC
66 AATTTTAGTTGTGTAATATTAAAGGCATTTTCTA-AGAAGATGCC
5999239 TTTAATAATA
Statistics
Matches: 104, Mismatches: 4, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
121 94 0.90
123 10 0.10
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.35
Consensus pattern (122 bp):
TTCAAAAAATTAAATGAATTAGGCAAGGCATTTTTTTGGAATAAAAGCCTTCAATAACCCCTTAA
AATTTTAGTTGTGTAATATTAAAGGCATTTTCTAAGAAGATGCCATCAATAAATTCC
Found at i:6005381 original size:27 final size:27
Alignment explanation
Indices: 6005343--6005396 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
6005333 TGTTATGGGG
*
6005343 CCAAAATATAAATACATGATATTAAAA
1 CCAAAATATAAATACATAATATTAAAA
6005370 CCAAAATATAAATACATAATATTAAAA
1 CCAAAATATAAATACATAATATTAAAA
6005397 TTATTCAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.61, C:0.11, G:0.02, T:0.26
Consensus pattern (27 bp):
CCAAAATATAAATACATAATATTAAAA
Found at i:6006028 original size:21 final size:21
Alignment explanation
Indices: 6005977--6006035 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 21
6005967 AGAAAGAGAA
6005977 CAAGAGCATGCCAAAATTGAG
1 CAAGAGCATGCCAAAATTGAG
* * * * *
6005998 GAAAAACATGCTAGAATTGAG
1 CAAGAGCATGCCAAAATTGAG
6006019 CAAGAGCATG-CAAAATT
1 CAAGAGCATGCCAAAATT
6006036 TCAGTAGTTG
Statistics
Matches: 28, Mismatches: 10, Indels: 1
0.72 0.26 0.03
Matches are distributed among these distances:
20 5 0.18
21 23 0.82
ACGTcount: A:0.46, C:0.15, G:0.22, T:0.17
Consensus pattern (21 bp):
CAAGAGCATGCCAAAATTGAG
Found at i:6010365 original size:31 final size:32
Alignment explanation
Indices: 6010319--6010383 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 32
6010309 CCAGTTAGTT
6010319 TTTTCATAATGGGACAA-AGCT-ATTTGCTTTA
1 TTTTCATAATGGGACAAGA-CTCATTTGCTTTA
*
6010350 TTTTCTATAAT-GGACAAGACTCATTTGTTTTA
1 TTTTC-ATAATGGGACAAGACTCATTTGCTTTA
6010382 TT
1 TT
6010384 GCTTACAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
31 13 0.43
32 17 0.57
ACGTcount: A:0.28, C:0.12, G:0.14, T:0.46
Consensus pattern (32 bp):
TTTTCATAATGGGACAAGACTCATTTGCTTTA
Found at i:6016619 original size:21 final size:22
Alignment explanation
Indices: 6016588--6016629 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 22
6016578 GATGGCCCCG
6016588 AAAAATCATAATGAATTAATTT
1 AAAAATCATAATGAATTAATTT
6016610 AAAAAT-ATAATGAATTAATT
1 AAAAATCATAATGAATTAATT
6016630 CAAGAACATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.36
Consensus pattern (22 bp):
AAAAATCATAATGAATTAATTT
Found at i:6018817 original size:54 final size:54
Alignment explanation
Indices: 6018665--6018850 Score: 187
Period size: 54 Copynumber: 3.4 Consensus size: 54
6018655 ACAATTTGGG
* * *
6018665 CCTATTTAAAAATTTTTTTTTTATTATTTTTTGTCTCTAAATTTTTTACCATTTGGA
1 CCTATTTAGAAA-TTTTTTTTTA--ATTTTTTATCTCTAAATTTTTTACCATTTAGA
* * * * ** *
6018722 TCAATTTAGAAATATTTTCTTT--TGTTGAATTTCTAAATTTTTTACCATTTAGA
1 CCTATTTAGAAAT-TTTTTTTTAATTTTTTATCTCTAAATTTTTTACCATTTAGA
* * * *
6018775 CCTATGTAGAAATTTTTTTTTAATTTTTTATCTCTAAATTTTTCACCATTTTGG
1 CCTATTTAGAAATTTTTTTTTAATTTTTTATCTCTAAATTTTTTACCATTTAGA
6018829 CCTATTTAGAAATTCTTTTTTT
1 CCTATTTAGAAATT-TTTTTTT
6018851 TTCTTGGAAA
Statistics
Matches: 103, Mismatches: 22, Indels: 10
0.76 0.16 0.07
Matches are distributed among these distances:
52 7 0.07
53 35 0.34
54 37 0.36
55 7 0.07
56 1 0.01
57 16 0.16
ACGTcount: A:0.26, C:0.11, G:0.06, T:0.56
Consensus pattern (54 bp):
CCTATTTAGAAATTTTTTTTTAATTTTTTATCTCTAAATTTTTTACCATTTAGA
Found at i:6019461 original size:8 final size:8
Alignment explanation
Indices: 6019448--6019498 Score: 50
Period size: 8 Copynumber: 6.4 Consensus size: 8
6019438 TAAACAAGAT
6019448 AAATAAAC
1 AAATAAAC
6019456 AAATAAAC
1 AAATAAAC
* *
6019464 ACATAAAAT
1 AAAT-AAAC
*
6019473 AAATAAAT
1 AAATAAAC
*
6019481 AAATAAAT
1 AAATAAAC
6019489 AAA-AAAC
1 AAATAAAC
6019496 AAA
1 AAA
6019499 GAATGGCTCG
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
7 6 0.16
8 26 0.68
9 6 0.16
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (8 bp):
AAATAAAC
Found at i:6019463 original size:21 final size:20
Alignment explanation
Indices: 6019438--6019498 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 20
6019428 GCAAAAATAT
6019438 TAAACAAGATAAATAAACAAA
1 TAAACAA-ATAAATAAACAAA
* *
6019459 TAAACACATAAAATAAATAAA
1 TAAACAAAT-AAATAAACAAA
*
6019480 TAAATAAATAAA-AAACAAA
1 TAAACAAATAAATAAACAAA
6019499 GAATGGCTCG
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
19 6 0.18
20 5 0.15
21 23 0.68
ACGTcount: A:0.74, C:0.08, G:0.02, T:0.16
Consensus pattern (20 bp):
TAAACAAATAAATAAACAAA
Found at i:6019478 original size:4 final size:4
Alignment explanation
Indices: 6019446--6019491 Score: 56
Period size: 4 Copynumber: 11.2 Consensus size: 4
6019436 ATTAAACAAG
* * *
6019446 ATAA ATAA ACAA ATAA ACAC ATAAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA AT-AA ATAA ATAA ATAA ATAA ATAA A
6019492 AAACAAAGAA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
4 32 0.91
5 3 0.09
ACGTcount: A:0.74, C:0.07, G:0.00, T:0.20
Consensus pattern (4 bp):
ATAA
Found at i:6020186 original size:9 final size:9
Alignment explanation
Indices: 6020172--6020212 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
6020162 ACTCTTCCTA
6020172 TTTTTTCAT
1 TTTTTTCAT
*
6020181 TTTTTTCAG
1 TTTTTTCAT
**
6020190 CCTTTTCAT
1 TTTTTTCAT
6020199 TTTTTTCAT
1 TTTTTTCAT
6020208 TTTTT
1 TTTTT
6020213 AAAATTTTTT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.10, C:0.15, G:0.02, T:0.73
Consensus pattern (9 bp):
TTTTTTCAT
Found at i:6020670 original size:45 final size:42
Alignment explanation
Indices: 6020403--6021071 Score: 701
Period size: 42 Copynumber: 15.9 Consensus size: 42
6020393 TAAACAAAGA
* * * *
6020403 TCCTCTAAACAAAAGGCTCAACGACTTT-AAAAAATAAAATGC
1 TCCTCTAAAC-AAAGGCACCACAACTTTGAAAAAATAAATTGC
* *
6020445 TCTTCTAAATAAAGGCACCACAACTTTGAAAAAATAAATTGC
1 TCCTCTAAACAAAGGCACCACAACTTTGAAAAAATAAATTGC
* * * * * *
6020487 TCTTTTAAATAGAGACACCACAACTTTGGAAAAATAAAATAAAATGC
1 TCCTCTAAACAAAGGCACCACAACTTT-G---AA-AAAATAAATTGC
* * * ** *
6020534 TCCTCTAAATAGATGTGCCACAACTTTGAAAAAATAAAATGC
1 TCCTCTAAACAAAGGCACCACAACTTTGAAAAAATAAATTGC
* * * * * *
6020576 TCCTCTAAACAGAGGCACTATAACGTTGGAAAAATAAATTAC
1 TCCTCTAAACAAAGGCACCACAACTTTGAAAAAATAAATTGC
* * *
6020618 TCCTCTAAGCAAAGGCACCATAACTTTAAAAAAAAAATAAATTGC
1 TCCTCTAAACAAAGGCACCACAACTTT---GAAAAAATAAATTGC
* * *
6020663 TCATCTAAGCAAAGGCACCATAACTTTGAAAAAATAAATTGC
1 TCCTCTAAACAAAGGCACCACAACTTTGAAAAAATAAATTGC
* *
6020705 TCCTTTAAACAAAGACACCACAACTTTGAAAAAATAAATTGC
1 TCCTCTAAACAAAGGCACCACAACTTTGAAAAAATAAATTGC
*
6020747 TCCTCTAAACAGAA-GCACCACAACTTTGAGAAAATAAATTGC
1 TCCTCTAAACA-AAGGCACCACAACTTTGAAAAAATAAATTGC
* * * * *
6020789 TCTTCTAAACAGAGGC-TCGCAACTTTGAGAAAATAAATTGC
1 TCCTCTAAACAAAGGCACCACAACTTTGAAAAAATAAATTGC
* ** **
6020830 TCCTCTAAACAGAGGCTTCGTAACTTTGAAAAAATAAATTGC
1 TCCTCTAAACAAAGGCACCACAACTTTGAAAAAATAAATTGC
* * *
6020872 TCCTCTAAACAGAGGCACTACAACTTTGGAAAAATAAATTGC
1 TCCTCTAAACAAAGGCACCACAACTTTGAAAAAATAAATTGC
* * * * *
6020914 TCCTCTAAATAGAGCCACCACAACTTTGGAAAAACAAATTGC
1 TCCTCTAAACAAAGGCACCACAACTTTGAAAAAATAAATTGC
*
6020956 TCCTCT----AAAGGCACCACAACTTTGAGAAAATAAATTGC
1 TCCTCTAAACAAAGGCACCACAACTTTGAAAAAATAAATTGC
6020994 TCCTCTAAACAAAGGCACCACAA--TTGAAAAAATAAA-TGAC
1 TCCTCTAAACAAAGGCACCACAACTTTGAAAAAATAAATTG-C
6021034 TCCTCTAAACAAAGGCACCACAACTTTGAAAAAATAAA
1 TCCTCTAAACAAAGGCACCACAACTTTGAAAAAATAAA
6021072 ATGCATATTG
Statistics
Matches: 542, Mismatches: 66, Indels: 38
0.84 0.10 0.06
Matches are distributed among these distances:
38 33 0.06
39 2 0.00
40 36 0.07
41 53 0.10
42 340 0.63
43 5 0.01
45 38 0.07
46 3 0.01
47 32 0.06
ACGTcount: A:0.44, C:0.21, G:0.12, T:0.23
Consensus pattern (42 bp):
TCCTCTAAACAAAGGCACCACAACTTTGAAAAAATAAATTGC
Found at i:6020897 original size:167 final size:165
Alignment explanation
Indices: 6020432--6021071 Score: 666
Period size: 167 Copynumber: 3.8 Consensus size: 165
6020422 AACGACTTTA
* * * * * * *
6020432 AAAAATAAAATGCTCTTCTAAATAAAGGCACCACAACTTTGAAAAAATAAATTGCTCTTTTAAAT
1 AAAAATAAATTGCTCCTCTAAA-CAAGGCA-C-CAACTTTGAGAAAATAAATTGCTCCTCTAAAC
* * * * * * * **
6020497 AGAGACACCACAACTTTGGAAAAATAAAATAAAATGCTCCTCTAAATAGATGTGCCACAACTTTG
63 AAAGGCACCATAACTTT-G---AA-AAAATAAATTGCTCCTCTAAACAAAGGCACCACAACTTTG
* * * * *
6020562 AAAAAATAAAATGCTCCTCTAAACAGAGGCACTATAACGTTGG
123 AAAAAATAAATTGCTCCTCTAAACAGAAGCACCACAACTTTGG
* * * * *
6020605 AAAAATAAATTACTCCTCTAAGCAAAGGCACCATAACTTTAAAAAAAAAATAAATTGCTCATCTA
1 AAAAATAAATTGCTCCTCTAAAC-AAGGCACC--AACTTT---GAGAAAATAAATTGCTCCTCTA
* * *
6020670 AGCAAAGGCACCATAACTTTGAAAAAATAAATTGCTCCTTTAAACAAAGACACCACAACTTTGAA
60 AACAAAGGCACCATAACTTTGAAAAAATAAATTGCTCCTCTAAACAAAGGCACCACAACTTTGAA
6020735 AAAATAAATTGCTCCTCTAAACAGAAGCACCACAACTTT-G
125 AAAATAAATTGCTCCTCTAAACAGAAGCACCACAACTTTGG
* *
6020775 AGAAAATAAATTGCTCTTCTAAACAGAGGCTCGCAACTTTGAGAAAATAAATTGCTCCTCTAAAC
1 A-AAAATAAATTGCTCCTCTAAACA-AGGCAC-CAACTTTGAGAAAATAAATTGCTCCTCTAAAC
* ** * * * *
6020840 AGAGGCTTCGTAACTTTGAAAAAATAAATTGCTCCTCTAAACAGAGGCACTACAACTTTGGAAAA
63 AAAGGCACCATAACTTTGAAAAAATAAATTGCTCCTCTAAACAAAGGCACCACAACTTTGAAAAA
*
6020905 ATAAATTGCTCCTCTAAATAG-AGCCACCACAACTTTGG
128 ATAAATTGCTCCTCTAAACAGAAG-CACCACAACTTTGG
*
6020943 AAAAACAAATTGCTCCTCT--A-AAGGCACCACAACTTTGAGAAAATAAATTGCTCCTCTAAACA
1 AAAAATAAATTGCTCCTCTAAACAAGGCA-C-CAACTTTGAGAAAATAAATTGCTCCTCTAAACA
*
6021005 AAGGCACCACAA--TTGAAAAAATAAA-TGACTCCTCTAAACAAAGGCACCACAACTTTGAAAAA
64 AAGGCACCATAACTTTGAAAAAATAAATTG-CTCCTCTAAACAAAGGCACCACAACTTTGAAAAA
6021067 ATAAA
128 ATAAA
6021072 ATGCATATTG
Statistics
Matches: 398, Mismatches: 56, Indels: 37
0.81 0.11 0.08
Matches are distributed among these distances:
161 2 0.01
162 49 0.12
163 4 0.01
164 42 0.11
165 1 0.00
166 2 0.01
167 125 0.31
168 2 0.01
170 9 0.02
171 93 0.23
172 4 0.01
173 30 0.08
175 1 0.00
176 34 0.09
ACGTcount: A:0.45, C:0.20, G:0.12, T:0.23
Consensus pattern (165 bp):
AAAAATAAATTGCTCCTCTAAACAAGGCACCAACTTTGAGAAAATAAATTGCTCCTCTAAACAAA
GGCACCATAACTTTGAAAAAATAAATTGCTCCTCTAAACAAAGGCACCACAACTTTGAAAAAATA
AATTGCTCCTCTAAACAGAAGCACCACAACTTTGG
Found at i:6021526 original size:21 final size:21
Alignment explanation
Indices: 6021502--6021548 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
6021492 AAAGTTTTTT
*
6021502 ATTTGAAATTCAAAGATTCTC
1 ATTTGAAATTCAAAGATTCAC
* *
6021523 ATTTG-AGTTCGAAGATTCAC
1 ATTTGAAATTCAAAGATTCAC
6021543 ATTTGA
1 ATTTGA
6021549 CCAATTTTGG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 17 0.77
21 5 0.23
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.38
Consensus pattern (21 bp):
ATTTGAAATTCAAAGATTCAC
Found at i:6021583 original size:79 final size:79
Alignment explanation
Indices: 6021349--6021603 Score: 262
Period size: 79 Copynumber: 3.2 Consensus size: 79
6021339 CATCCACAAG
* * * ** * * *
6021349 TTCAAAGCTTCTCATTCGAGTCCAAAGGCTCACATTTGACAAATTTTAGGGTTTTAATACCTCAA
1 TTCAAAGATTCTCATTTGAGTTCAAAGATTCACATTTGACAAATTTT-GGG-TTTCACACCTTAA
* * *
6021414 AGATTCTCACTTAAAA
64 AGATTCTTATTTGAAA
* * * **
6021430 TTCAAAAATTCTCATTTGAGTTTCAAATATCCACATTCAACAAATTTTGGGTTTCACA-CTTCAA
1 TTCAAAGATTCTCATTTGAG-TTCAAAGATTCACATTTGACAAATTTTGGGTTTCACACCTT-AA
* *
6021494 AGTTTTTTATTTGAAA
64 AGATTCTTATTTGAAA
* *
6021510 TTCAAAGATTCTCATTTGAGTTCGAAGATTCACATTTGACCAATTTTGGGTTTCACACCTTAAAG
1 TTCAAAGATTCTCATTTGAGTTCAAAGATTCACATTTGACAAATTTTGGGTTTCACACCTTAAAG
*
6021575 ATTCTTATTTG-AG
66 ATTCTTATTTGAAA
*
6021588 TTCAAAGATTCACATT
1 TTCAAAGATTCTCATT
6021604 CGATAAATTT
Statistics
Matches: 142, Mismatches: 29, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
78 16 0.11
79 46 0.32
80 40 0.28
81 20 0.14
82 20 0.14
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.38
Consensus pattern (79 bp):
TTCAAAGATTCTCATTTGAGTTCAAAGATTCACATTTGACAAATTTTGGGTTTCACACCTTAAAG
ATTCTTATTTGAAA
Found at i:6021585 original size:58 final size:58
Alignment explanation
Indices: 6021513--6021643 Score: 192
Period size: 58 Copynumber: 2.3 Consensus size: 58
6021503 TTTGAAATTC
* * *
6021513 AAAGATTCTCATTTGAGTTCGAAGATTCACATTTGACCAATTTTGGGTTTCACACCTT
1 AAAGATTCTCATTTGAGTTCAAAGATTCACATTCGACAAATTTTGGGTTTCACACCTT
* * * *
6021571 AAAGATTCTTATTTGAGTTCAAAGATTCACATTCGATAAATTTTGGGTTTTATACCTT
1 AAAGATTCTCATTTGAGTTCAAAGATTCACATTCGACAAATTTTGGGTTTCACACCTT
6021629 AAA-ATTCTCATTTGA
1 AAAGATTCTCATTTGA
6021644 AATTTAGAGA
Statistics
Matches: 65, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
57 11 0.17
58 54 0.83
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.40
Consensus pattern (58 bp):
AAAGATTCTCATTTGAGTTCAAAGATTCACATTCGACAAATTTTGGGTTTCACACCTT
Found at i:6021681 original size:22 final size:21
Alignment explanation
Indices: 6021629--6021682 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
6021619 TTTATACCTT
* *
6021629 AAAATTCTCATTTGAAATTTA
1 AAAATTCTCATTTGAAACTCA
* *
6021650 GAGATTCTCATTTGAGAACTCA
1 AAAATTCTCATTTGA-AACTCA
6021672 AAAATTCTCAT
1 AAAATTCTCAT
6021683 CAAAAGATTT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
21 13 0.50
22 13 0.50
ACGTcount: A:0.39, C:0.15, G:0.09, T:0.37
Consensus pattern (21 bp):
AAAATTCTCATTTGAAACTCA
Found at i:6022043 original size:23 final size:23
Alignment explanation
Indices: 6022017--6022060 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
6022007 TTGGAACAAG
*
6022017 TTTCATCAAC-TGATCATCATTAT
1 TTTCATC-ACTTGATCACCATTAT
6022040 TTTCATCACTTGATCACCATT
1 TTTCATCACTTGATCACCATT
6022061 CATAGGCTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.27, C:0.25, G:0.05, T:0.43
Consensus pattern (23 bp):
TTTCATCACTTGATCACCATTAT
Found at i:6022956 original size:27 final size:27
Alignment explanation
Indices: 6022915--6023009 Score: 76
Period size: 27 Copynumber: 3.7 Consensus size: 27
6022905 TTTTCTCTCA
* *
6022915 TTTTTATCTCATTTTCATTATTTCATT
1 TTTTTATTTCTTTTTCATTATTTCATT
*
6022942 TTTTTATTTC-TTTT--TT-TCTC-TT
1 TTTTTATTTCTTTTTCATTATTTCATT
* * * *
6022964 TATTTCTTTTTTTTTCA-TATTTTATT
1 TTTTTATTTCTTTTTCATTATTTCATT
6022990 TCTTTTATTTCTTTTTCATT
1 T-TTTTATTTCTTTTTCATT
6023010 TTTTTTCTTT
Statistics
Matches: 51, Mismatches: 10, Indels: 13
0.69 0.14 0.18
Matches are distributed among these distances:
22 9 0.18
23 7 0.14
24 3 0.06
25 2 0.04
26 7 0.14
27 22 0.43
28 1 0.02
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.75
Consensus pattern (27 bp):
TTTTTATTTCTTTTTCATTATTTCATT
Found at i:6022975 original size:31 final size:30
Alignment explanation
Indices: 6022932--6023005 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 30
6022922 CTCATTTTCA
* * *
6022932 TTATTTCATTTTTTT-ATTTCTTTTTTTCTCT
1 TTATTTCTTTTTTTTCATAT-TTTATTTCT-T
6022963 TTATTTCTTTTTTTTTCATATTTTATTTCTT
1 TTATTTC-TTTTTTTTCATATTTTATTTCTT
6022994 TTATTTCTTTTT
1 TTATTTCTTTTT
6023006 CATTTTTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
30 5 0.13
31 15 0.39
32 15 0.39
33 3 0.08
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.78
Consensus pattern (30 bp):
TTATTTCTTTTTTTTCATATTTTATTTCTT
Found at i:6023016 original size:16 final size:16
Alignment explanation
Indices: 6022988--6023029 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
6022978 TCATATTTTA
*
6022988 TTTC-TTTTATTTCTT
1 TTTCATTTTTTTTCTT
6023003 TTTCATTTTTTTTCTT
1 TTTCATTTTTTTTCTT
6023019 TTTCATCTTTT
1 TTTCAT-TTTT
6023030 CCCATCCATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 4 0.17
16 16 0.67
17 4 0.17
ACGTcount: A:0.07, C:0.14, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTCATTTTTTTTCTT
Found at i:6023020 original size:9 final size:9
Alignment explanation
Indices: 6022942--6023021 Score: 51
Period size: 10 Copynumber: 8.6 Consensus size: 9
6022932 TTATTTCATT
6022942 TTTTTATTTC
1 TTTTT-TTTC
6022952 -TTTTTTTC
1 TTTTTTTTC
*
6022960 TCTTTATTTC
1 T-TTTTTTTC
6022970 TTTTTTTTTC
1 -TTTTTTTTC
6022980 ATATTTTATTTC
1 -T-TTTT-TTTC
*
6022992 TTTTATTTC
1 TTTTTTTTC
6023001 ---TTTTTC
1 TTTTTTTTC
6023007 ATTTTTTTTC
1 -TTTTTTTTC
6023017 TTTTT
1 TTTTT
6023022 CATCTTTTCC
Statistics
Matches: 56, Mismatches: 5, Indels: 19
0.70 0.06 0.24
Matches are distributed among these distances:
6 5 0.09
8 4 0.07
9 13 0.23
10 24 0.43
11 6 0.11
12 4 0.07
ACGTcount: A:0.09, C:0.11, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:6023027 original size:25 final size:27
Alignment explanation
Indices: 6022974--6023029 Score: 73
Period size: 25 Copynumber: 2.1 Consensus size: 27
6022964 TATTTCTTTT
*
6022974 TTTTTCATATTTTATTTCTTTTATTTC
1 TTTTTCATATTTTATTTCTTTTATATC
6023001 TTTTTCAT-TTTT-TTTCTTTT-TCATC
1 TTTTTCATATTTTATTTCTTTTAT-ATC
6023026 TTTT
1 TTTT
6023030 CCCATCCATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 1 0.04
25 14 0.52
26 4 0.15
27 8 0.30
ACGTcount: A:0.11, C:0.12, G:0.00, T:0.77
Consensus pattern (27 bp):
TTTTTCATATTTTATTTCTTTTATATC
Found at i:6025953 original size:17 final size:17
Alignment explanation
Indices: 6025931--6025974 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 17
6025921 ATGATCATAA
*
6025931 AAATGATGCATAGAATG
1 AAATGATGCATAAAATG
*
6025948 AAATGATGTATAAAATG
1 AAATGATGCATAAAATG
6025965 AAATGATGCA
1 AAATGATGCA
6025975 GATGCACAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.50, C:0.05, G:0.20, T:0.25
Consensus pattern (17 bp):
AAATGATGCATAAAATG
Found at i:6027227 original size:53 final size:53
Alignment explanation
Indices: 6027118--6027227 Score: 150
Period size: 53 Copynumber: 2.1 Consensus size: 53
6027108 GCCAAATTAA
* *
6027118 AAATATTTTCTCTTTTTAAATTTTTAAATTTTCCACCACTTGGGTCAATTTGG
1 AAATATTTTCTCTTTTTAAATTTTTAAATTTTCCACCACTTAGGTCAATTTAG
* * * *
6027171 AAATATTTTCTTTTTTTGAATTTTTAAATTTTCTACCATTTAGG-CATATTTAG
1 AAATATTTTCTCTTTTTAAATTTTTAAATTTTCCACCACTTAGGTCA-ATTTAG
6027224 AAAT
1 AAAT
6027228 TCTCTTTTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
52 2 0.04
53 48 0.96
ACGTcount: A:0.29, C:0.12, G:0.08, T:0.51
Consensus pattern (53 bp):
AAATATTTTCTCTTTTTAAATTTTTAAATTTTCCACCACTTAGGTCAATTTAG
Found at i:6027595 original size:15 final size:15
Alignment explanation
Indices: 6027575--6027618 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
6027565 TAATTCCAAA
6027575 ATTTTTATATTTTTAT
1 ATTTTT-TATTTTTAT
* *
6027591 ATTTTTTGTTTTTCT
1 ATTTTTTATTTTTAT
*
6027606 TTTTTTTATTTTT
1 ATTTTTTATTTTT
6027619 TTTGTTTGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
15 18 0.75
16 6 0.25
ACGTcount: A:0.14, C:0.02, G:0.02, T:0.82
Consensus pattern (15 bp):
ATTTTTTATTTTTAT
Found at i:6027839 original size:4 final size:4
Alignment explanation
Indices: 6027830--6027873 Score: 54
Period size: 4 Copynumber: 11.0 Consensus size: 4
6027820 ATTAAAAAAG
* *
6027830 ATAA ATAA ATAA ATAA ACAC ATAA A-ATA ATAA ATAA ATAA ATAA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATA-A ATAA ATAA ATAA ATAA
6027874 TACCAAAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
3 1 0.03
4 32 0.94
5 1 0.03
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.23
Consensus pattern (4 bp):
ATAA
Found at i:6031454 original size:34 final size:35
Alignment explanation
Indices: 6031384--6031456 Score: 87
Period size: 34 Copynumber: 2.1 Consensus size: 35
6031374 AAAATCATTT
*
6031384 AAAAAGTTATATAATTTTTCAAATATTTATTATTG
1 AAAAAGTTATATAATTTTTCAAATATATATTATTG
* * *
6031419 AAAAA-TTTTATAATTTTTTGAAAT-TATATTTTTG
1 AAAAAGTTATATAA-TTTTTCAAATATATATTATTG
6031453 AAAA
1 AAAA
6031457 TTTGTAAGGA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
34 19 0.58
35 14 0.42
ACGTcount: A:0.44, C:0.01, G:0.05, T:0.49
Consensus pattern (35 bp):
AAAAAGTTATATAATTTTTCAAATATATATTATTG
Done.