Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167938.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_20, 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: 19866354
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 74000 characters in sequence are not A, C, G, or T
File 54 of 100
Found at i:12915379 original size:16 final size:16
Alignment explanation
Indices: 12915358--12915394 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
12915348 ACATGAATTA
12915358 AGTTTATATTAATTTC
1 AGTTTATATTAATTTC
12915374 AGTTTATATTAATTTC
1 AGTTTATATTAATTTC
12915390 AGTTT
1 AGTTT
12915395 TTGAATTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.30, C:0.05, G:0.08, T:0.57
Consensus pattern (16 bp):
AGTTTATATTAATTTC
Found at i:12918006 original size:3 final size:3
Alignment explanation
Indices: 12917998--12918031 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
12917988 TTTGTTTCGT
12917998 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
12918032 CTTTGAAAGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:12918717 original size:2 final size:2
Alignment explanation
Indices: 12918712--12918740 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
12918702 ATATTATTTT
12918712 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
12918741 AAGGTACATC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:12920049 original size:3 final size:3
Alignment explanation
Indices: 12920041--12920071 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
12920031 TAAAAGAATT
12920041 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
12920072 TACTATATTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:12921204 original size:24 final size:24
Alignment explanation
Indices: 12921177--12921223 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
12921167 TTAAATCATA
12921177 AAAAAATATTGAAATAACTTAAGT
1 AAAAAATATTGAAATAACTTAAGT
*
12921201 AAAAAATATTGAAATATCTTAAG
1 AAAAAATATTGAAATAACTTAAG
12921224 AAAGAATTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.57, C:0.04, G:0.09, T:0.30
Consensus pattern (24 bp):
AAAAAATATTGAAATAACTTAAGT
Found at i:12921831 original size:19 final size:19
Alignment explanation
Indices: 12921807--12921844 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
12921797 ATGTAAAAAT
12921807 TATGGAGTACGTGCATGGA
1 TATGGAGTACGTGCATGGA
12921826 TATGGAGTACGTGCATGGA
1 TATGGAGTACGTGCATGGA
12921845 GATATGTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.11, G:0.37, T:0.26
Consensus pattern (19 bp):
TATGGAGTACGTGCATGGA
Found at i:12924595 original size:31 final size:29
Alignment explanation
Indices: 12924536--12924597 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 29
12924526 GGTATGTTAA
*
12924536 TTTTCTTTAAAATTGATAAATATTTTATG
1 TTTTCTTTAAAATTGATAAAAATTTTATG
12924565 TTTTCTTTAAAATTGATAAAAAAATTTTATG
1 TTTTCTTTAAAATTGAT--AAAAATTTTATG
12924596 TT
1 TT
12924598 CCATAATTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 17 0.57
31 13 0.43
ACGTcount: A:0.37, C:0.03, G:0.06, T:0.53
Consensus pattern (29 bp):
TTTTCTTTAAAATTGATAAAAATTTTATG
Found at i:12925493 original size:23 final size:22
Alignment explanation
Indices: 12925458--12925514 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 22
12925448 TTTATGCTTT
*
12925458 CATAATATAAATTATATAATATG
1 CATAATAT-AATTACATAATATG
*
12925481 CATACATATAATTACATGATATG
1 CATA-ATATAATTACATAATATG
*
12925504 TATAAATATAA
1 CAT-AATATAA
12925515 AAATATATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
23 24 0.83
24 5 0.17
ACGTcount: A:0.51, C:0.07, G:0.05, T:0.37
Consensus pattern (22 bp):
CATAATATAATTACATAATATG
Found at i:12926018 original size:42 final size:42
Alignment explanation
Indices: 12925971--12926056 Score: 154
Period size: 42 Copynumber: 2.0 Consensus size: 42
12925961 AAAGAGAACA
*
12925971 ATATTGATTTACCCGTGATTCACGGTGATATTTTGTTTTTGT
1 ATATTGATCTACCCGTGATTCACGGTGATATTTTGTTTTTGT
*
12926013 ATATTGATCTATCCGTGATTCACGGTGATATTTTGTTTTTGT
1 ATATTGATCTACCCGTGATTCACGGTGATATTTTGTTTTTGT
12926055 AT
1 AT
12926057 TATTATAATG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.20, C:0.12, G:0.19, T:0.50
Consensus pattern (42 bp):
ATATTGATCTACCCGTGATTCACGGTGATATTTTGTTTTTGT
Found at i:12926186 original size:2 final size:2
Alignment explanation
Indices: 12926179--12926203 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
12926169 TCATTAATTA
12926179 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
12926204 AAGTTTTGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:12927506 original size:47 final size:47
Alignment explanation
Indices: 12927440--12927534 Score: 147
Period size: 47 Copynumber: 2.0 Consensus size: 47
12927430 AGAATAAGAG
* *
12927440 ATATATTTTGAGTATTGAATAGAAATGGT-AGTAAAAATTGAAGTTAT
1 ATATATTTTGAGTATTGAATAAAAAT-GTAAGTAAAAATTAAAGTTAT
*
12927487 ATATATTTTGAGTATTGAATAAAAATGTAAGTAAAAGTTAAAGTTAT
1 ATATATTTTGAGTATTGAATAAAAATGTAAGTAAAAATTAAAGTTAT
12927534 A
1 A
12927535 AGAGTGTTAA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
46 2 0.05
47 42 0.95
ACGTcount: A:0.45, C:0.00, G:0.17, T:0.38
Consensus pattern (47 bp):
ATATATTTTGAGTATTGAATAAAAATGTAAGTAAAAATTAAAGTTAT
Found at i:12931994 original size:31 final size:31
Alignment explanation
Indices: 12931959--12932018 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
12931949 AAACTTATTT
12931959 ATTAATGAGACAGCATCA-TCTGATTCACTTA
1 ATTAATGAGACAGCATCATTC-GATTCACTTA
* *
12931990 ATTAATGAGATATCATCATTCGATTCACT
1 ATTAATGAGACAGCATCATTCGATTCACT
12932019 AATAATATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 24 0.92
32 2 0.08
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (31 bp):
ATTAATGAGACAGCATCATTCGATTCACTTA
Found at i:12932585 original size:3 final size:3
Alignment explanation
Indices: 12932579--12932613 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
12932569 CACCATTATT
12932579 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
12932614 AAATTTTAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:12933218 original size:21 final size:19
Alignment explanation
Indices: 12933194--12933336 Score: 61
Period size: 19 Copynumber: 7.4 Consensus size: 19
12933184 CAATAAAACA
12933194 AATCATGCAATTAATATTAAT
1 AATCATGCAA-TAATA-TAAT
12933215 AATCATG---TAATA-AAT
1 AATCATGCAATAATATAAT
* *
12933230 ATTCATACAACT-ATATTAAT
1 AATCATGCAA-TAATA-TAAT
*
12933250 AATCATGCAAGTAA-ACAAT
1 AATCATGCAA-TAATATAAT
12933269 AATCATGCAA-AATAATAATAT
1 AATCATGCAATAAT-AT-A-AT
**
12933290 AATCACACAAATAATA-AAT
1 AATCATGC-AATAATATAAT
**
12933309 AATCGGGCTAATAATA-ATAT
1 AATCATGC-AATAATATA-AT
12933329 AATCATGC
1 AATCATGC
12933337 GAACATTAAA
Statistics
Matches: 93, Mismatches: 15, Indels: 29
0.68 0.11 0.21
Matches are distributed among these distances:
15 8 0.09
17 7 0.08
18 3 0.03
19 30 0.32
20 23 0.25
21 16 0.17
22 3 0.03
23 3 0.03
ACGTcount: A:0.51, C:0.13, G:0.06, T:0.30
Consensus pattern (19 bp):
AATCATGCAATAATATAAT
Found at i:12933292 original size:40 final size:39
Alignment explanation
Indices: 12933248--12933352 Score: 104
Period size: 39 Copynumber: 2.7 Consensus size: 39
12933238 AACTATATTA
* *
12933248 ATAATCATGCAAGTAA-ACAATAATCATGCAAAATAATAAT
1 ATAATCATGCAAATAATA-AATAATCAGGC-AAATAATAAT
** * *
12933288 ATAATCACACAAATAATAAATAATCGGGCTAATAATAAT
1 ATAATCATGCAAATAATAAATAATCAGGCAAATAATAAT
* * *
12933327 ATAATCATGCGAACATTAAATAATCA
1 ATAATCATGCAAATAATAAATAATCA
12933353 TATTTTACCT
Statistics
Matches: 52, Mismatches: 12, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
39 29 0.56
40 22 0.42
41 1 0.02
ACGTcount: A:0.53, C:0.13, G:0.08, T:0.26
Consensus pattern (39 bp):
ATAATCATGCAAATAATAAATAATCAGGCAAATAATAAT
Found at i:12933303 original size:20 final size:20
Alignment explanation
Indices: 12933278--12933333 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 20
12933268 TAATCATGCA
12933278 AAATAATAATATAATCACAC
1 AAATAATAATATAATCACAC
***
12933298 AAATAATAA-ATAATCGGGC
1 AAATAATAATATAATCACAC
*
12933317 TAATAATAATATAATCA
1 AAATAATAATATAATCA
12933334 TGCGAACATT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.57, C:0.11, G:0.05, T:0.27
Consensus pattern (20 bp):
AAATAATAATATAATCACAC
Found at i:12934617 original size:6 final size:6
Alignment explanation
Indices: 12934608--12934689 Score: 74
Period size: 6 Copynumber: 13.7 Consensus size: 6
12934598 AAATCAAACC
* * * **
12934608 AAAATT AAAATT AAAACT AGAATT AAAGTT AAAATT AAAATT AAAGCT
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
* * * * *
12934656 AGAATT AAAGTT AAACTT AAAATC AAAATC AAAA
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAA
12934690 CCTTTTGGAT
Statistics
Matches: 60, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
6 60 1.00
ACGTcount: A:0.61, C:0.06, G:0.06, T:0.27
Consensus pattern (6 bp):
AAAATT
Found at i:12934631 original size:18 final size:18
Alignment explanation
Indices: 12934588--12934652 Score: 69
Period size: 18 Copynumber: 3.7 Consensus size: 18
12934578 GACTTTTTTG
* *
12934588 ACTAAAAGTAAAA-TCAA
1 ACTAAAATTAAAATTAAA
*
12934605 ACCAAAATTAAAATTAAA
1 ACTAAAATTAAAATTAAA
* *
12934623 ACTAGAATTAAAGTTAAA
1 ACTAAAATTAAAATTAAA
*
12934641 ATTAAAATTAAA
1 ACTAAAATTAAA
12934653 GCTAGAATTA
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
17 11 0.28
18 28 0.72
ACGTcount: A:0.63, C:0.08, G:0.05, T:0.25
Consensus pattern (18 bp):
ACTAAAATTAAAATTAAA
Found at i:12934642 original size:30 final size:30
Alignment explanation
Indices: 12934608--12934683 Score: 125
Period size: 30 Copynumber: 2.5 Consensus size: 30
12934598 AAATCAAACC
12934608 AAAATTAAAATTAAAACTAGAATTAAAGTT
1 AAAATTAAAATTAAAACTAGAATTAAAGTT
*
12934638 AAAATTAAAATTAAAGCTAGAATTAAAGTT
1 AAAATTAAAATTAAAACTAGAATTAAAGTT
* *
12934668 AAACTTAAAATCAAAA
1 AAAATTAAAATTAAAA
12934684 TCAAAACCTT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.61, C:0.05, G:0.07, T:0.28
Consensus pattern (30 bp):
AAAATTAAAATTAAAACTAGAATTAAAGTT
Found at i:12934653 original size:18 final size:18
Alignment explanation
Indices: 12934608--12934684 Score: 82
Period size: 18 Copynumber: 4.3 Consensus size: 18
12934598 AAATCAAACC
* *
12934608 AAAATTAAAATTAAAACT
1 AAAATTAAAGTTAAAATT
*
12934626 AGAATTAAAGTTAAAATT
1 AAAATTAAAGTTAAAATT
* *
12934644 AAAATTAAAGCTAGAATT
1 AAAATTAAAGTTAAAATT
* * *
12934662 AAAGTTAAACTTAAAATC
1 AAAATTAAAGTTAAAATT
12934680 AAAAT
1 AAAAT
12934685 CAAAACCTTT
Statistics
Matches: 47, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 47 1.00
ACGTcount: A:0.60, C:0.05, G:0.06, T:0.29
Consensus pattern (18 bp):
AAAATTAAAGTTAAAATT
Found at i:12938293 original size:39 final size:38
Alignment explanation
Indices: 12938250--12938418 Score: 142
Period size: 39 Copynumber: 4.3 Consensus size: 38
12938240 TAAGTCATGC
* *
12938250 AATAAATATTCATGCAAATATATTAATAATCATGCAATT
1 AATAAATAATCATGCAAATA-ATAAATAATCATGCAATT
* *
12938289 AATAAATAATCATGCAACTAGA-CAATAATCATGCAATT
1 AATAAATAATCATGCAAATA-ATAAATAATCATGCAATT
* * * ** *
12938327 ATATTATTAGTCATGCAAATAATAATATAATCATATAAAT
1 A-ATAAATAATCATGCAAATAATAA-ATAATCATGCAATT
* * * **
12938367 AATTAATAATCATGCAAATAATAATATTATCATTCAAAC
1 AATAAATAATCATGCAAATAATAA-ATAATCATGCAATT
*
12938406 ATTAAATAATCAT
1 AATAAATAATCAT
12938419 ATTTTACTAG
Statistics
Matches: 107, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
38 17 0.16
39 78 0.73
40 12 0.11
ACGTcount: A:0.50, C:0.11, G:0.05, T:0.34
Consensus pattern (38 bp):
AATAAATAATCATGCAAATAATAAATAATCATGCAATT
Found at i:12938298 original size:19 final size:19
Alignment explanation
Indices: 12938250--12938418 Score: 142
Period size: 19 Copynumber: 8.7 Consensus size: 19
12938240 TAAGTCATGC
*
12938250 AATAAATATTCATGCAAAT
1 AATAAATAATCATGCAAAT
* *
12938269 ATATTAATAATCATGCAATT
1 A-ATAAATAATCATGCAAAT
*
12938289 AATAAATAATCATGCAACT
1 AATAAATAATCATGCAAAT
* *
12938308 AGA-CAATAATCATGCAATT
1 A-ATAAATAATCATGCAAAT
* * *
12938327 ATATTATTAGTCATGCAAAT
1 A-ATAAATAATCATGCAAAT
**
12938347 AATAATATAATCATATAAAT
1 AATAA-ATAATCATGCAAAT
*
12938367 AATTAATAATCATGCAAAT
1 AATAAATAATCATGCAAAT
* * *
12938386 AATAATATTATCATTCAAAC
1 AATAA-ATAATCATGCAAAT
*
12938406 ATTAAATAATCAT
1 AATAAATAATCAT
12938419 ATTTTACTAG
Statistics
Matches: 119, Mismatches: 26, Indels: 10
0.77 0.17 0.06
Matches are distributed among these distances:
19 60 0.50
20 59 0.50
ACGTcount: A:0.50, C:0.11, G:0.05, T:0.34
Consensus pattern (19 bp):
AATAAATAATCATGCAAAT
Found at i:12938404 original size:20 final size:20
Alignment explanation
Indices: 12938259--12938404 Score: 101
Period size: 20 Copynumber: 7.5 Consensus size: 20
12938249 CAATAAATAT
12938259 TCATGCAAATATATTAATA--A
1 TCATGCAAATA-A-TAATATTA
* *
12938279 TCATGCAATTAATAA-ATAA
1 TCATGCAAATAATAATATTA
* *
12938298 TCATGCAACTAGACAATA--A
1 TCATGCAAATA-ATAATATTA
* *
12938317 TCATGC-AATTATATTATTA
1 TCATGCAAATAATAATATTA
*
12938336 GTCATGCAAATAATAATATAA
1 -TCATGCAAATAATAATATTA
**
12938357 TCATATAAATAATTAATA--A
1 TCATGCAAATAA-TAATATTA
12938376 TCATGCAAATAATAATATTA
1 TCATGCAAATAATAATATTA
*
12938396 TCATTCAAA
1 TCATGCAAA
12938405 CATTAAATAA
Statistics
Matches: 100, Mismatches: 15, Indels: 22
0.73 0.11 0.16
Matches are distributed among these distances:
17 5 0.05
18 10 0.10
19 31 0.31
20 38 0.38
21 16 0.16
ACGTcount: A:0.49, C:0.12, G:0.05, T:0.34
Consensus pattern (20 bp):
TCATGCAAATAATAATATTA
Found at i:12938550 original size:32 final size:31
Alignment explanation
Indices: 12938473--12938558 Score: 84
Period size: 32 Copynumber: 2.6 Consensus size: 31
12938463 TTTAATTAAC
* * *
12938473 AAATAAATAAATAAATAAAATAAATAAGAGAA
1 AAATAAATAAA-AAAAAAAATAAATAAAACAA
*
12938505 AAATTGAAA-AAAAAAAAAAATCAATAAAACAA
1 AAA-T-AAATAAAAAAAAAAATAAATAAAACAA
12938537 AAATAAAATAAAAAAGAAAAAT
1 AAAT-AAATAAAAAA-AAAAAT
12938559 GAAAACCTGC
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
31 4 0.09
32 28 0.62
33 10 0.22
34 3 0.07
ACGTcount: A:0.78, C:0.02, G:0.05, T:0.15
Consensus pattern (31 bp):
AAATAAATAAAAAAAAAAATAAATAAAACAA
Found at i:12945141 original size:22 final size:23
Alignment explanation
Indices: 12945116--12945162 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
12945106 GGCTTTTGTG
12945116 TATTTATT-TTT-TTAAGATTATT
1 TATTTATTCTTTATTAAGATT-TT
*
12945138 TATTTATTCTTTATTAGGATTTT
1 TATTTATTCTTTATTAAGATTTT
12945161 TA
1 TA
12945163 AGATTAATTG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 8 0.36
23 7 0.32
24 7 0.32
ACGTcount: A:0.26, C:0.02, G:0.06, T:0.66
Consensus pattern (23 bp):
TATTTATTCTTTATTAAGATTTT
Found at i:12951222 original size:81 final size:81
Alignment explanation
Indices: 12950873--12951754 Score: 389
Period size: 81 Copynumber: 10.8 Consensus size: 81
12950863 CAAAAATTGT
* * *
12950873 GATGAAGCAGAGGAAAAGACTTCTTCTCCATCATCTTACATTGCACGCCTTGAAAGCAAATATAA
1 GATGAAACTGAGGAAAAGAGTTCTTCTCCATCATCTTACATTGCACGCCTTGAAAGCAAATATAA
*
12950938 ACCA-GGTTATATCGTG
66 A-CATGGTTATGTCGTG
* * * * * * * * *
12950954 GATGAAGA-TGAGGGAAAGAGTTCTTTTCCGTCGTCTTATATGGCACGCCTGGAAAGTAAATACA
1 GATGAA-ACTGAGGAAAAGAGTTCTTCTCCATCATCTTACATTGCACGCCTTGAAAGCAAATATA
* *
12951018 AACCTGGTTATGTGGTG
65 AACATGGTTATGTCGTG
* * * * * * *
12951035 GATGAAGCTGATGAGCAAAAGGGTTCTTCTCCTTTATCTCACATCGCA-GACCTTGAAAGAAAAT
1 GATGAAACTGA-G-G-AAAAGAGTTCTTCTCCATCATCTTACATTGCACG-CCTTGAAAGCAAAT
* * * **
12951099 ATCAACCTGATTATGGGGTG
62 ATAAACATGGTTATGTCGTG
* * * *
12951119 GTTGAAGA-TG-GCGAAAAAAGTTCTTCTCCCTCATCTTACATTGTACGCCTTGAAAGCAAATAT
1 GATGAA-ACTGAG-GAAAAGAGTTCTTCTCCATCATCTTACATTGCACGCCTTGAAAGCAAATAT
*
12951182 AAACAGGGTTATGTCGTG
64 AAACATGGTTATGTCGTG
* * * * * * * *
12951200 GATGAAACTGAGGAAAATAG----T-T-CGTC-T-TT-CATCGCAGGGCTCGAGAGCAAACATAA
1 GATGAAACTGAGGAAAAGAGTTCTTCTCCATCATCTTACATTGCACGCCTTGAAAGCAAATATAA
*
12951256 ACCTGGTTA--T-GT-
66 ACATGGTTATGTCGTG
* * * *
12951268 -A-G---TTGAGGAAAGGAGTTCTT-TCCCGTCATCTTACGCCATTGCACGCCTCGAAAGCAAAT
1 GATGAAACTGAGGAAAAGAGTTCTTCT-CCATCATCTTA---CATTGCACGCCTTGAAAGCAAAT
* ** *
12951327 ATAGACCCGGTTATGTGGTG
62 ATAAACATGGTTATGTCGTG
* * * * * *
12951347 GATGAAGCTGAGGAAAAG-GATTCATCTCCTTCTTCTTACATTGCACGCCTTGAAACCAAATATC
1 GATGAAACTGAGGAAAAGAG-TTCTTCTCCATCATCTTACATTGCACGCCTTGAAAGCAAATATA
* * *
12951411 AGCCTGGTTATGGTGCTTATG
65 AACATGGTTAT-GT-C--GTG
* * * ** *
12951432 GAGTGATTGAAGCTGACGAGGAAAAAACTTCTTCTCCATCGTCTTACATTGCACGGGTTGAAAGT
1 GA-TGA---AA-CT---GAGGAAAAGAGTTCTTCTCCATCATCTTACATTGCACGCCTTGAAAGC
* ** * *
12951497 AAGTATAAACCCGGTTATGTAGTA
58 AAATATAAACATGGTTATGTCGTG
* * * * *
12951521 GATGAAGCTGAGGAAAAGAATTCATCTCC-T--TCTTACATTGCACGTCTTGAAAGCAAATATCA
1 GATGAAACTGAGGAAAAGAGTTCTTCTCCATCATCTTACATTGCACGCCTTGAAAGCAAATATAA
* * *
12951583 GCCTGGTTATGGCGCTTATG
66 ACATGGTTATGTCG----TG
* * * ** *
12951603 GAGTGACTGAAGCTGACGAGAAAAAAACTTCTTCTCCATCGTCTTACATTGCACGGGTTGAAAGT
1 GA-TGA---AA-CTGA-G-G-AAAAGAGTTCTTCTCCATCATCTTACATTGCACGCCTTGAAAGC
* ** * *
12951668 AAGTATAAACCCGGTTATGTAGTA
58 AAATATAAACATGGTTATGTCGTG
* * * * * *
12951692 GATGAAGCTGAGGAAAAGAATTCATCTCCTTCTTCTTACATTGCACGTCTTGAAAGCAAATAT
1 GATGAAACTGAGGAAAAGAGTTCTTCTCCATCATCTTACATTGCACGCCTTGAAAGCAAATAT
12951755 CAGCCCGGTT
Statistics
Matches: 601, Mismatches: 138, Indels: 124
0.70 0.16 0.14
Matches are distributed among these distances:
63 10 0.02
66 1 0.00
67 3 0.00
69 6 0.01
70 2 0.00
71 2 0.00
72 27 0.04
73 2 0.00
74 1 0.00
75 32 0.05
76 1 0.00
77 2 0.00
78 39 0.06
80 4 0.01
81 228 0.38
82 11 0.02
83 7 0.01
84 86 0.14
85 7 0.01
86 4 0.01
87 4 0.01
88 7 0.01
89 8 0.01
90 15 0.02
91 1 0.00
92 2 0.00
93 89 0.15
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (81 bp):
GATGAAACTGAGGAAAAGAGTTCTTCTCCATCATCTTACATTGCACGCCTTGAAAGCAAATATAA
ACATGGTTATGTCGTG
Found at i:12951468 original size:93 final size:91
Alignment explanation
Indices: 12951347--12951830 Score: 414
Period size: 93 Copynumber: 5.5 Consensus size: 91
12951337 TTATGTGGTG
* * * * * *
12951347 GATGAAGCT--GAGGAAAAGGA-TTCATCTCCTTCTTCTTACATTGCACGCCTTGAAACCAAATA
1 GATGAAGCTGAGAGGAAAA-AACTTCTTCTCCATCGTCTTACATTGCACGGCTTGAAAGCAAATA
*
12951409 TCAGCCTGGTTATGGTGCTTATGGAGT
65 TCAGCCCGGTTATGGTGCTTATGGAGT
* * *
12951436 GATTGAAGCTGACGAGGAAAAAACTTCTTCTCCATCGTCTTACATTGCACGGGTTGAAAGTAAGT
1 GA-TGAAGCTGA-GAGGAAAAAACTTCTTCTCCATCGTCTTACATTGCACGGCTTGAAAGCAAAT
* * *
12951501 ATAAACCCGGTTA---TG--TA-GTA--
64 ATCAGCCCGGTTATGGTGCTTATGGAGT
* *
12951521 GATGAAGCT--GAGGAAAAGAA-TTCATCTCC-T--TCTTACATTGCACGTCTTGAAAGCAAATA
1 GATGAAGCTGAGAGGAAAA-AACTTCTTCTCCATCGTCTTACATTGCACGGCTTGAAAGCAAATA
* *
12951580 TCAGCCTGGTTATGGCGCTTATGGAGT
65 TCAGCCCGGTTATGGTGCTTATGGAGT
* * * *
12951607 GACTGAAGCTGACGAGAAAAAAACTTCTTCTCCATCGTCTTACATTGCACGGGTTGAAAGTAAGT
1 GA-TGAAGCTGA-GAGGAAAAAACTTCTTCTCCATCGTCTTACATTGCACGGCTTGAAAGCAAAT
* * *
12951672 ATAAACCCGGTTA---TG--TA-GTA--
64 ATCAGCCCGGTTATGGTGCTTATGGAGT
* * * *
12951692 GATGAAGCT--GAGGAAAAGAA-TTCATCTCCTTCTTCTTACATTGCACGTCTTGAAAGCAAATA
1 GATGAAGCTGAGAGGAAAA-AACTTCTTCTCCATCGTCTTACATTGCACGGCTTGAAAGCAAATA
12951754 TCAGCCCGGTTATGGTGCTTATGGAGT
65 TCAGCCCGGTTATGGTGCTTATGGAGT
*
12951781 GATTGAAGCTGATGA-GAAAAAGGCTTCTTCTCCATCGTCTTACATTGCAC
1 GA-TGAAGCTGA-GAGGAAAAA-ACTTCTTCTCCATCGTCTTACATTGCAC
12951831 ATGTAGAAAG
Statistics
Matches: 309, Mismatches: 49, Indels: 70
0.72 0.11 0.16
Matches are distributed among these distances:
78 34 0.11
80 1 0.00
81 69 0.22
82 4 0.01
83 2 0.01
84 18 0.06
85 4 0.01
86 4 0.01
87 13 0.04
88 4 0.01
89 6 0.02
90 32 0.10
91 2 0.01
92 6 0.02
93 110 0.36
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (91 bp):
GATGAAGCTGAGAGGAAAAAACTTCTTCTCCATCGTCTTACATTGCACGGCTTGAAAGCAAATAT
CAGCCCGGTTATGGTGCTTATGGAGT
Found at i:12951830 original size:174 final size:173
Alignment explanation
Indices: 12951317--12951872 Score: 902
Period size: 174 Copynumber: 3.2 Consensus size: 173
12951307 TGCACGCCTC
* * * * * *
12951317 GAAAGCAAATATAGACCCGGTTATGTGGTGGATGAAGCTGAGGAAAAGGATTCATCTCCTTCTTC
1 GAAAGTAAGTATAAACCCGGTTATGTAGTAGATGAAGCTGAGGAAAAGAATTCATCTCCTTCTTC
* *
12951382 TTACATTGCACGCCTTGAAACCAAATATCAGCCTGGTTATGGTGCTTATGGAGTGATTGAAGCTG
66 TTACATTGCACGTCTTGAAAGCAAATATCAGCCTGGTTATGGTGCTTATGGAGTGATTGAAGCTG
12951447 ACGAGGAAAAAACTTCTTCTCCATCGTCTTACATTGCACGGGTT
131 ACGA-GAAAAAACTTCTTCTCCATCGTCTTACATTGCACGGGTT
12951491 GAAAGTAAGTATAAACCCGGTTATGTAGTAGATGAAGCTGAGGAAAAGAATTCATCT-C--CTTC
1 GAAAGTAAGTATAAACCCGGTTATGTAGTAGATGAAGCTGAGGAAAAGAATTCATCTCCTTCTTC
* *
12951553 TTACATTGCACGTCTTGAAAGCAAATATCAGCCTGGTTATGGCGCTTATGGAGTGACTGAAGCTG
66 TTACATTGCACGTCTTGAAAGCAAATATCAGCCTGGTTATGGTGCTTATGGAGTGATTGAAGCTG
12951618 ACGAGAAAAAAACTTCTTCTCCATCGTCTTACATTGCACGGGTT
131 ACGAG-AAAAAACTTCTTCTCCATCGTCTTACATTGCACGGGTT
12951662 GAAAGTAAGTATAAACCCGGTTATGTAGTAGATGAAGCTGAGGAAAAGAATTCATCTCCTTCTTC
1 GAAAGTAAGTATAAACCCGGTTATGTAGTAGATGAAGCTGAGGAAAAGAATTCATCTCCTTCTTC
*
12951727 TTACATTGCACGTCTTGAAAGCAAATATCAGCCCGGTTATGGTGCTTATGGAGTGATTGAAGCTG
66 TTACATTGCACGTCTTGAAAGCAAATATCAGCCTGGTTATGGTGCTTATGGAGTGATTGAAGCTG
* * ** *
12951792 ATGAGAAAAAGGCTTCTTCTCCATCGTCTTACATTGCACATGTA
131 ACGAGAAAAA-ACTTCTTCTCCATCGTCTTACATTGCACGGGTT
* *
12951836 GAAAGTAAGTATAAACCCGGTTATGCAGTCGATGAAG
1 GAAAGTAAGTATAAACCCGGTTATGTAGTAGATGAAG
12951873 ATGTGAATGG
Statistics
Matches: 357, Mismatches: 20, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
170 1 0.00
171 164 0.46
172 1 0.00
173 6 0.02
174 185 0.52
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.28
Consensus pattern (173 bp):
GAAAGTAAGTATAAACCCGGTTATGTAGTAGATGAAGCTGAGGAAAAGAATTCATCTCCTTCTTC
TTACATTGCACGTCTTGAAAGCAAATATCAGCCTGGTTATGGTGCTTATGGAGTGATTGAAGCTG
ACGAGAAAAAACTTCTTCTCCATCGTCTTACATTGCACGGGTT
Found at i:12953457 original size:23 final size:24
Alignment explanation
Indices: 12953416--12953463 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 24
12953406 AAAATTTTTA
12953416 TAAAGTTTTTTAAGT-AAAATTAT
1 TAAAGTTTTTTAAGTAAAAATTAT
*
12953439 TAAAGTTTTTT-ATTAAAAAATTAT
1 TAAAGTTTTTTAAGT-AAAAATTAT
12953463 T
1 T
12953464 TAATAAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 2 0.09
23 11 0.50
24 9 0.41
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (24 bp):
TAAAGTTTTTTAAGTAAAAATTAT
Found at i:12955778 original size:17 final size:17
Alignment explanation
Indices: 12955756--12955789 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
12955746 CGTGAAATAC
12955756 AATAATCAATTAAGAAT
1 AATAATCAATTAAGAAT
12955773 AATAATCAATTAAGAAT
1 AATAATCAATTAAGAAT
12955790 TGAATATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.06, G:0.06, T:0.29
Consensus pattern (17 bp):
AATAATCAATTAAGAAT
Found at i:12956049 original size:27 final size:27
Alignment explanation
Indices: 12955997--12956051 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
12955987 AATTCGATAT
* * *
12955997 TTTAATTTAAAATTTTTTTATATAATA
1 TTTAAATTAAAATTTATTAATATAATA
12956024 TTTAAATTATAAATTTATTAAT-TAATA
1 TTTAAATTA-AAATTTATTAATATAATA
12956051 T
1 T
12956052 GATATTTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 14 0.58
28 10 0.42
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (27 bp):
TTTAAATTAAAATTTATTAATATAATA
Found at i:12963943 original size:91 final size:91
Alignment explanation
Indices: 12963797--12963975 Score: 349
Period size: 91 Copynumber: 2.0 Consensus size: 91
12963787 AAAATATATC
*
12963797 TCTTTTGGGCAAATAAATTCCCTAGGTTTATATATATTTTCACTTAATAAAAATGTTTCACAATT
1 TCTTTTAGGCAAATAAATTCCCTAGGTTTATATATATTTTCACTTAATAAAAATGTTTCACAATT
12963862 ATCTCTAAATTAAAAACATATAAAAA
66 ATCTCTAAATTAAAAACATATAAAAA
12963888 TCTTTTAGGCAAATAAATTCCCTAGGTTTATATATATTTTCACTTAATAAAAATGTTTCACAATT
1 TCTTTTAGGCAAATAAATTCCCTAGGTTTATATATATTTTCACTTAATAAAAATGTTTCACAATT
12963953 ATCTCTAAATTAAAAACATATAA
66 ATCTCTAAATTAAAAACATATAA
12963976 TCACCCCTTT
Statistics
Matches: 87, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
91 87 1.00
ACGTcount: A:0.41, C:0.13, G:0.06, T:0.39
Consensus pattern (91 bp):
TCTTTTAGGCAAATAAATTCCCTAGGTTTATATATATTTTCACTTAATAAAAATGTTTCACAATT
ATCTCTAAATTAAAAACATATAAAAA
Found at i:12972593 original size:16 final size:16
Alignment explanation
Indices: 12972572--12972605 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
12972562 CAAAGTCCCC
12972572 TTGCCTTATGTGAAAA
1 TTGCCTTATGTGAAAA
12972588 TTGCCTTATGTGAAAA
1 TTGCCTTATGTGAAAA
12972604 TT
1 TT
12972606 ATGAGGGTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.41
Consensus pattern (16 bp):
TTGCCTTATGTGAAAA
Found at i:12973178 original size:27 final size:25
Alignment explanation
Indices: 12973139--12973199 Score: 70
Period size: 27 Copynumber: 2.4 Consensus size: 25
12973129 GTGAAAAAAA
* *
12973139 AATGAA-ATAAATTGAAAAGGATCC
1 AATGAATATAAATTAAAAAAGATCC
12973163 ATATGAATATGAAATTAAAAAAGATCC
1 A-ATGAATAT-AAATTAAAAAAGATCC
12973190 AAGTGAATAT
1 AA-TGAATAT
12973200 CAACTTGAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
24 1 0.03
25 5 0.16
26 3 0.10
27 22 0.71
ACGTcount: A:0.54, C:0.07, G:0.15, T:0.25
Consensus pattern (25 bp):
AATGAATATAAATTAAAAAAGATCC
Found at i:12973553 original size:42 final size:42
Alignment explanation
Indices: 12973507--12973590 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
12973497 TTAAGTTTAG
12973507 CTAAAAAGAAAAATAAGATGATGGATGTTAAGAAGTATGAAA
1 CTAAAAAGAAAAATAAGATGATGGATGTTAAGAAGTATGAAA
12973549 CTAAAAAGAAAAATAAGATGATGGATGTTAAGAAGTATGAAA
1 CTAAAAAGAAAAATAAGATGATGGATGTTAAGAAGTATGAAA
12973591 AGCAATAAAG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.55, C:0.02, G:0.21, T:0.21
Consensus pattern (42 bp):
CTAAAAAGAAAAATAAGATGATGGATGTTAAGAAGTATGAAA
Found at i:12976524 original size:18 final size:18
Alignment explanation
Indices: 12976503--12976548 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
12976493 TTAGTTTAAT
*
12976503 AGTTTTCTTTTTTTTTTA
1 AGTTTTCTTTTATTTTTA
*
12976521 AGTTTT-TATTATTTTTA
1 AGTTTTCTTTTATTTTTA
12976538 AGCTTTTCTTT
1 AG-TTTTCTTT
12976549 ATTGCAATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
17 11 0.48
18 10 0.43
19 2 0.09
ACGTcount: A:0.15, C:0.07, G:0.07, T:0.72
Consensus pattern (18 bp):
AGTTTTCTTTTATTTTTA
Found at i:12976550 original size:18 final size:17
Alignment explanation
Indices: 12976503--12976551 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
12976493 TTAGTTTAAT
*
12976503 AGTTTTCTTTTTTTTTTA
1 AGTTTTC-TTTATTTTTA
12976521 AGTTTT-TATTATTTTTA
1 AGTTTTCT-TTATTTTTA
12976538 AGCTTTTCTTTATT
1 AG-TTTTCTTTATT
12976552 GCAATTTAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 1 0.04
17 10 0.37
18 15 0.56
19 1 0.04
ACGTcount: A:0.16, C:0.06, G:0.06, T:0.71
Consensus pattern (17 bp):
AGTTTTCTTTATTTTTA
Found at i:12976976 original size:27 final size:26
Alignment explanation
Indices: 12976926--12976980 Score: 74
Period size: 27 Copynumber: 2.1 Consensus size: 26
12976916 GTTGTTAAAG
*
12976926 TATTTTTGCATGACTATATGTTTAGTT
1 TATTTTTGCATGACTAAATGTTTA-TT
* *
12976953 TATTTTTGCATGATTAAATTTTTATT
1 TATTTTTGCATGACTAAATGTTTATT
12976979 TA
1 TA
12976981 CATTGTTGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
26 4 0.16
27 21 0.84
ACGTcount: A:0.25, C:0.05, G:0.11, T:0.58
Consensus pattern (26 bp):
TATTTTTGCATGACTAAATGTTTATT
Found at i:12979932 original size:21 final size:21
Alignment explanation
Indices: 12979908--12979958 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
12979898 CATGAAATTA
12979908 ATAAAATATTATTTTTAAAAT
1 ATAAAATATTATTTTTAAAAT
*
12979929 ATAAAATATTATTTTTTAAAT
1 ATAAAATATTATTTTTAAAAT
12979950 AT-AAATATT
1 ATAAAATATT
12979959 TAAAAATATC
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 7 0.24
21 22 0.76
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
ATAAAATATTATTTTTAAAAT
Found at i:12979966 original size:30 final size:30
Alignment explanation
Indices: 12979931--12979987 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
12979921 TTTAAAATAT
* * *
12979931 AAAATATTATTTTTTAAATATAAATATTTA
1 AAAATATCATTATATAAATATAAATATTTA
*
12979961 AAAATATCATTATATAAATATATATAT
1 AAAATATCATTATATAAATATAAATAT
12979988 AAATAAAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (30 bp):
AAAATATCATTATATAAATATAAATATTTA
Found at i:12981329 original size:18 final size:18
Alignment explanation
Indices: 12981287--12981329 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
12981277 CATTATTATT
*
12981287 TTGTCATACATTCCTAAA
1 TTGTCATACATTCATAAA
*
12981305 TTATCATACATTCATATAA
1 TTGTCATACATTCATA-AA
12981324 -TGTCAT
1 TTGTCAT
12981330 TCATGCATTC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 19 0.90
19 2 0.10
ACGTcount: A:0.35, C:0.19, G:0.05, T:0.42
Consensus pattern (18 bp):
TTGTCATACATTCATAAA
Found at i:12986200 original size:19 final size:20
Alignment explanation
Indices: 12986171--12986224 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
12986161 AGTGCACTTC
*
12986171 CAAACCAAAGTAGGAATTTT
1 CAAATCAAAGTAGGAATTTT
* *
12986191 -AAGTCAAAGT-GGGATTTT
1 CAAATCAAAGTAGGAATTTT
12986209 CAAATCAAAGTAGGAA
1 CAAATCAAAGTAGGAA
12986225 AAGCCTTCTT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
18 7 0.26
19 17 0.63
20 3 0.11
ACGTcount: A:0.44, C:0.11, G:0.20, T:0.24
Consensus pattern (20 bp):
CAAATCAAAGTAGGAATTTT
Found at i:12991493 original size:23 final size:23
Alignment explanation
Indices: 12991461--12991527 Score: 71
Period size: 23 Copynumber: 2.9 Consensus size: 23
12991451 AAAATATAAG
*
12991461 AGATTCACATTTAAAATTTTCAA
1 AGATTAACATTTAAAATTTTCAA
* * *
12991484 AGATTTACATCTAAAATTCTCAA
1 AGATTAACATTTAAAATTTTCAA
* *
12991507 AAATTAAAATTTAAAAATTTT
1 AGATTAACATTT-AAAATTTT
12991528 TAGAAATTCA
Statistics
Matches: 35, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
23 28 0.80
24 7 0.20
ACGTcount: A:0.48, C:0.10, G:0.03, T:0.39
Consensus pattern (23 bp):
AGATTAACATTTAAAATTTTCAA
Found at i:12991717 original size:21 final size:21
Alignment explanation
Indices: 12991650--12991814 Score: 72
Period size: 21 Copynumber: 7.7 Consensus size: 21
12991640 ACATTTGTAG
*
12991650 AGATTCACATATAAAAATTTAA
1 AGATTCACATCTAAAAA-TTAA
* **
12991672 ATATTCACAT-T-TGAA--AA
1 AGATTCACATCTAAAAATTAA
12991689 A-ATTCACATCTAAAAATTAA
1 AGATTCACATCTAAAAATTAA
* * *
12991709 AGTTTCACATTTGAAAATTTTTAA
1 AGATTCACATCT-AAAA--ATTAA
* * *
12991733 AAATTCATATCTAAAAATCAA
1 AGATTCACATCTAAAAATTAA
12991754 AGATTCACAT-TAAAAAAAATTTAAA
1 AGATTCACATCT---AAAAA-TT-AA
* *
12991779 ACGATTCATATCTAAAAATAAA
1 A-GATTCACATCTAAAAATTAA
* *
12991801 AAATTCATATCTAA
1 AGATTCACATCTAA
12991815 CAAAAGTCAA
Statistics
Matches: 108, Mismatches: 20, Indels: 31
0.68 0.13 0.19
Matches are distributed among these distances:
16 8 0.07
17 4 0.04
18 2 0.02
20 6 0.06
21 32 0.30
22 16 0.15
23 10 0.09
24 18 0.17
25 3 0.03
26 8 0.07
27 1 0.01
ACGTcount: A:0.52, C:0.12, G:0.04, T:0.33
Consensus pattern (21 bp):
AGATTCACATCTAAAAATTAA
Found at i:12991718 original size:37 final size:38
Alignment explanation
Indices: 12991636--12991725 Score: 121
Period size: 38 Copynumber: 2.4 Consensus size: 38
12991626 AAAGTAAAAA
* * *
12991636 ATTCACATTTGTAGAGATTCACATATAAAAATTTAAAT
1 ATTCACATTTGAAAAAATTCACATATAAAAATTTAAAT
*
12991674 ATTCACATTTGAAAAAATTCACATCTAAAAA-TTAAAGT
1 ATTCACATTTGAAAAAATTCACATATAAAAATTTAAA-T
12991712 -TTCACATTTGAAAA
1 ATTCACATTTGAAAA
12991726 TTTTTAAAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
37 19 0.40
38 28 0.60
ACGTcount: A:0.47, C:0.12, G:0.07, T:0.34
Consensus pattern (38 bp):
ATTCACATTTGAAAAAATTCACATATAAAAATTTAAAT
Found at i:12991791 original size:47 final size:45
Alignment explanation
Indices: 12991686--12991807 Score: 145
Period size: 45 Copynumber: 2.7 Consensus size: 45
12991676 TCACATTTGA
* * * ** **
12991686 AAAAATTCACATCTAAAAATTAAAGTTTCACATTTGAAAATTTTT
1 AAAAATTCATATCTAAAAATAAAAGATTCACATTAAAAAAAATTT
*
12991731 AAAAATTCATATCTAAAAATCAAAGATTCACATTAAAAAAAATTT
1 AAAAATTCATATCTAAAAATAAAAGATTCACATTAAAAAAAATTT
*
12991776 AAAACGATTCATATCTAAAAATAAAAAATTCA
1 AAAA--ATTCATATCTAAAAATAAAAGATTCA
12991808 TATCTAACAA
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
45 42 0.64
47 24 0.36
ACGTcount: A:0.54, C:0.11, G:0.03, T:0.31
Consensus pattern (45 bp):
AAAAATTCATATCTAAAAATAAAAGATTCACATTAAAAAAAATTT
Found at i:12991830 original size:24 final size:21
Alignment explanation
Indices: 12991730--12991814 Score: 75
Period size: 21 Copynumber: 3.9 Consensus size: 21
12991720 TGAAAATTTT
12991730 TAAAA-ATTCATATCTAAAAA
1 TAAAAGATTCATATCTAAAAA
* *
12991750 TCAAAGATTCACAT-TAAAAAAAA
1 TAAAAGATTCATATCT---AAAAA
12991773 TTTAAAACGATTCATATCTAAAAA
1 --TAAAA-GATTCATATCTAAAAA
*
12991797 TAAAAAATTCATATCTAA
1 TAAAAGATTCATATCTAA
12991815 CAAAAGTCAA
Statistics
Matches: 52, Mismatches: 5, Indels: 15
0.72 0.07 0.21
Matches are distributed among these distances:
20 5 0.10
21 19 0.37
22 5 0.10
23 5 0.10
24 5 0.10
25 4 0.08
26 8 0.15
27 1 0.02
ACGTcount: A:0.56, C:0.12, G:0.02, T:0.29
Consensus pattern (21 bp):
TAAAAGATTCATATCTAAAAA
Found at i:12991842 original size:71 final size:66
Alignment explanation
Indices: 12991731--12991860 Score: 161
Period size: 68 Copynumber: 1.9 Consensus size: 66
12991721 GAAAATTTTT
12991731 AAAAATTCATATCTAAAAATCAAAGATTCACATTAAAAAAAATTTAAAACGATTCATATCTAAAA
1 AAAAATTCATATCTAAAAATCAAAGATTCACATT-AAAAAAATTTAAAA-GATTCATATCTAAAA
12991796 ATA
64 ATA
** ** * *
12991799 AAAAATTCATATCTAACAAAAGTCAAAGATTCTTATTTGAAAAATTTTAGAGATTCATATCT
1 AAAAATTCATATCT-A-AAAA-TCAAAGATTCACATTAAAAAAATTTAAAAGATTCATATCT
12991861 TAGAAACCAA
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
68 14 0.26
69 12 0.23
70 14 0.26
71 13 0.25
ACGTcount: A:0.52, C:0.12, G:0.05, T:0.32
Consensus pattern (66 bp):
AAAAATTCATATCTAAAAATCAAAGATTCACATTAAAAAAATTTAAAAGATTCATATCTAAAAAT
A
Found at i:12992064 original size:45 final size:44
Alignment explanation
Indices: 12991991--12992132 Score: 140
Period size: 45 Copynumber: 3.2 Consensus size: 44
12991981 AAAATATTTT
* ** * * ** *
12991991 CATTTGAAAAGTTTAAGACATTCACATCTAAAGCTCAAAGTTTCT
1 CATTTGAAAATTTTAA-ATGTTTACATCTAAAGATCAAAAATTCA
* * *
12992036 TATTTGAAAGTTTTCAAATGTTTGCATCTAAAGATCAAAAATTCA
1 CATTTGAAAATTTT-AAATGTTTACATCTAAAGATCAAAAATTCA
* *
12992081 CATTTGAAAATTTTAAATGTTTACATCTAAAAATCAAATATTCA
1 CATTTGAAAATTTTAAATGTTTACATCTAAAGATCAAAAATTCA
*
12992125 CACTTGAA
1 CATTTGAA
12992133 GGGATTCACA
Statistics
Matches: 79, Mismatches: 17, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
44 34 0.43
45 43 0.54
46 2 0.03
ACGTcount: A:0.41, C:0.14, G:0.09, T:0.36
Consensus pattern (44 bp):
CATTTGAAAATTTTAAATGTTTACATCTAAAGATCAAAAATTCA
Found at i:12992117 original size:44 final size:45
Alignment explanation
Indices: 12992037--12992132 Score: 140
Period size: 44 Copynumber: 2.2 Consensus size: 45
12992027 AAAGTTTCTT
* * *
12992037 ATTTGAAAGTTTTCAAATGTTTGCATCTAAAGATCAAAAATTCAC
1 ATTTGAAAATTTTCAAATGTTTACATCTAAAAATCAAAAATTCAC
*
12992082 ATTTGAAAATTTT-AAATGTTTACATCTAAAAATCAAATATTCAC
1 ATTTGAAAATTTTCAAATGTTTACATCTAAAAATCAAAAATTCAC
*
12992126 ACTTGAA
1 ATTTGAA
12992133 GGGATTCACA
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 34 0.74
45 12 0.26
ACGTcount: A:0.43, C:0.12, G:0.08, T:0.36
Consensus pattern (45 bp):
ATTTGAAAATTTTCAAATGTTTACATCTAAAAATCAAAAATTCAC
Found at i:12992182 original size:21 final size:21
Alignment explanation
Indices: 12992156--12992245 Score: 83
Period size: 21 Copynumber: 4.3 Consensus size: 21
12992146 TCATATTAAG
*
12992156 ATTCACATTAAAGAGTTCGAC
1 ATTCACATTGAAGAGTTCGAC
* * *
12992177 ATTCACATCGAAGAGTTCCAAG
1 ATTCACATTGAAGAGTT-CGAC
* *
12992199 ACTCACATTG-AGGGTTCGAC
1 ATTCACATTGAAGAGTTCGAC
* * *
12992219 ATTCACATTGTAGAGTTTGAG
1 ATTCACATTGAAGAGTTCGAC
12992240 ATTCAC
1 ATTCAC
12992246 GTTAGGTATT
Statistics
Matches: 54, Mismatches: 13, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
20 11 0.20
21 33 0.61
22 10 0.19
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (21 bp):
ATTCACATTGAAGAGTTCGAC
Found at i:12992340 original size:20 final size:20
Alignment explanation
Indices: 12992317--12992382 Score: 96
Period size: 20 Copynumber: 3.3 Consensus size: 20
12992307 TTGAGCGCTT
12992317 GAGATTCACATCAAGTATTC
1 GAGATTCACATCAAGTATTC
* *
12992337 GAGATTCACATCGAGCATTC
1 GAGATTCACATCAAGTATTC
*
12992357 GAGATTCACATTAAGTATTC
1 GAGATTCACATCAAGTATTC
*
12992377 AAGATT
1 GAGATT
12992383 TGCGTTAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (20 bp):
GAGATTCACATCAAGTATTC
Found at i:12992344 original size:40 final size:40
Alignment explanation
Indices: 12992300--12992428 Score: 118
Period size: 40 Copynumber: 3.2 Consensus size: 40
12992290 GGTGTTCAAA
*
12992300 ATTCACATTGAGCGCTTGAGATTCACATCAAGTATTCGAG
1 ATTCACATTGAGCGATTGAGATTCACATCAAGTATTCGAG
* * *
12992340 ATTCACATCGAGC-ATTCGAGATTCACATTAAGTATTCAAG
1 ATTCACATTGAGCGATT-GAGATTCACATCAAGTATTCGAG
** * * * * * *
12992380 ATTTGCGTT-AGGTGTTTGAGATTCACATCAAATGTTTGAG
1 ATTCACATTGA-GCGATTGAGATTCACATCAAGTATTCGAG
12992420 ATTCACATT
1 ATTCACATT
12992429 AGGTGTTTGA
Statistics
Matches: 68, Mismatches: 18, Indels: 6
0.74 0.20 0.07
Matches are distributed among these distances:
39 3 0.04
40 63 0.93
41 2 0.03
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (40 bp):
ATTCACATTGAGCGATTGAGATTCACATCAAGTATTCGAG
Found at i:12992448 original size:20 final size:20
Alignment explanation
Indices: 12992387--12992448 Score: 88
Period size: 20 Copynumber: 3.1 Consensus size: 20
12992377 AAGATTTGCG
12992387 TTAGGTGTTTGAGATTCACA
1 TTAGGTGTTTGAGATTCACA
* **
12992407 TCAAATGTTTGAGATTCACA
1 TTAGGTGTTTGAGATTCACA
*
12992427 TTAGGTGTTTGAGATTCGCA
1 TTAGGTGTTTGAGATTCACA
12992447 TT
1 TT
12992449 TTATGTTCAA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.26, C:0.11, G:0.23, T:0.40
Consensus pattern (20 bp):
TTAGGTGTTTGAGATTCACA
Found at i:12992462 original size:40 final size:40
Alignment explanation
Indices: 12992292--12992468 Score: 115
Period size: 40 Copynumber: 4.4 Consensus size: 40
12992282 TTGCATTGGG
* * * *
12992292 TGTTCAAAATTCACATT-GAGCGCTTGAGATTCACATCAAG
1 TGTTCAAGATTCACATTAG-GTGTTTGAGATTCACATCAAA
* * * ** * * *
12992332 TATTCGAGATTCACA-TCGAGCATTCGAGATTCACATTAAG
1 TGTTCAAGATTCACATTAG-GTGTTTGAGATTCACATCAAA
* ** *
12992372 TATTCAAGATTTGCGTTAGGTGTTTGAGATTCACATCAAA
1 TGTTCAAGATTCACATTAGGTGTTTGAGATTCACATCAAA
** * ***
12992412 TGTTTGAGATTCACATTAGGTGTTTGAGATTCGCATTTTA
1 TGTTCAAGATTCACATTAGGTGTTTGAGATTCACATCAAA
*
12992452 TGTTCAAGATTTACATT
1 TGTTCAAGATTCACATT
12992469 GAGTATTCAA
Statistics
Matches: 105, Mismatches: 30, Indels: 4
0.76 0.22 0.03
Matches are distributed among these distances:
39 1 0.01
40 102 0.97
41 2 0.02
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.37
Consensus pattern (40 bp):
TGTTCAAGATTCACATTAGGTGTTTGAGATTCACATCAAA
Found at i:12995600 original size:18 final size:18
Alignment explanation
Indices: 12995574--12995608 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
12995564 TATCTTAAGC
*
12995574 CCAAAAAATAATTTTAAA
1 CCAAAAAATAATATTAAA
*
12995592 CCAATAAATAATATTAA
1 CCAAAAAATAATATTAA
12995609 CATAAAAATG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.60, C:0.11, G:0.00, T:0.29
Consensus pattern (18 bp):
CCAAAAAATAATATTAAA
Found at i:12996592 original size:34 final size:33
Alignment explanation
Indices: 12996553--12996617 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
12996543 TAAATTAACT
** *
12996553 AGTTAATTAAAAATTTTAAAAATAAATAATAAGA
1 AGTTAATTAAAAA-TGAAAAAATAAAAAATAAGA
*
12996587 AGTTAATTTAAAATGAAAAAATAAAAAATAA
1 AGTTAATTAAAAATGAAAAAATAAAAAATAA
12996618 AAAAACTGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
33 15 0.56
34 12 0.44
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (33 bp):
AGTTAATTAAAAATGAAAAAATAAAAAATAAGA
Found at i:12997041 original size:13 final size:13
Alignment explanation
Indices: 12997023--12997064 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
12997013 CACATGAAAC
12997023 AAAATAACATAAA
1 AAAATAACATAAA
* *
12997036 AAAAT-AGA-AAC
1 AAAATAACATAAA
12997047 AAAATAACATAAA
1 AAAATAACATAAA
12997060 AAAAT
1 AAAAT
12997065 CCTCATTCTG
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
11 7 0.30
12 4 0.17
13 12 0.52
ACGTcount: A:0.76, C:0.07, G:0.02, T:0.14
Consensus pattern (13 bp):
AAAATAACATAAA
Found at i:12997050 original size:24 final size:24
Alignment explanation
Indices: 12997018--12997064 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
12997008 ACGGTCACAT
12997018 GAAACAAAATAACATAAAAAAATA
1 GAAACAAAATAACATAAAAAAATA
12997042 GAAACAAAATAACATAAAAAAAT
1 GAAACAAAATAACATAAAAAAAT
12997065 CCTCATTCTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.74, C:0.09, G:0.04, T:0.13
Consensus pattern (24 bp):
GAAACAAAATAACATAAAAAAATA
Found at i:12999490 original size:136 final size:136
Alignment explanation
Indices: 12999237--12999501 Score: 313
Period size: 137 Copynumber: 1.9 Consensus size: 136
12999227 AAATGACATT
* * * *
12999237 AATTTTACAATTATTTTCATATTTTTACGTTAATGTTATTAATTGGTTTAGAATTATTCTTTTGG
1 AATTTTACAATGATTTTCATATTTTTACGTTAATGTTATTAATTGATTTAAAATTATTCTTTGGG
* * * *
12999302 TTTAAGGTAATAATTCTTTTATATTATCAATTTAAATCTTTTCATTACAATAATATCTTTTTATG
66 TTTAAGGCAATAATTCTTTTACATTATCAATTTAAATATTTTCAGTACAATAATATCTTTTTATG
12999367 CTTATC
131 CTTATC
* * *
12999373 AATTTTACAATGATTTTTACT-TTTTTATGTTAACAT-TTATTTATTGATTTAAAATTATTCTTT
1 AATTTTACAATGATTTTCA-TATTTTTACGTT-A-ATGTTATTAATTGATTTAAAATTATTCTTT
* * * ** *
12999436 GGGTTTAAGGCAATAGTTTTTTTACATTGTCAA-TTAGTTATTTAT-AGTATAATAATATCTTTT
63 GGGTTTAAGGCAATAATTCTTTTACATTATCAATTTAAATATTT-TCAGTACAATAATATCTTTT
12999499 TAT
127 TAT
12999502 ATTTGTTTTT
Statistics
Matches: 108, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
136 52 0.48
137 54 0.50
138 2 0.02
ACGTcount: A:0.30, C:0.08, G:0.08, T:0.54
Consensus pattern (136 bp):
AATTTTACAATGATTTTCATATTTTTACGTTAATGTTATTAATTGATTTAAAATTATTCTTTGGG
TTTAAGGCAATAATTCTTTTACATTATCAATTTAAATATTTTCAGTACAATAATATCTTTTTATG
CTTATC
Found at i:13002719 original size:17 final size:17
Alignment explanation
Indices: 13002697--13002730 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
13002687 CCATCTCTAC
*
13002697 CATCACTACCACCAATT
1 CATCACTACAACCAATT
13002714 CATCACTACAACCAATT
1 CATCACTACAACCAATT
13002731 TACCATTGCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.24
Consensus pattern (17 bp):
CATCACTACAACCAATT
Found at i:13003565 original size:18 final size:20
Alignment explanation
Indices: 13003530--13003566 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
13003520 TTTTTAGGGT
*
13003530 GAGAGAGAGTATATGAAAGG
1 GAGAGAGAGTAGATGAAAGG
13003550 GAGAGAGAG-AGA-GAAAG
1 GAGAGAGAGTAGATGAAAG
13003567 TAGTAAGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 5 0.31
19 2 0.12
20 9 0.56
ACGTcount: A:0.49, C:0.00, G:0.43, T:0.08
Consensus pattern (20 bp):
GAGAGAGAGTAGATGAAAGG
Found at i:13003971 original size:25 final size:24
Alignment explanation
Indices: 13003918--13003975 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 24
13003908 GATATGTTAA
*
13003918 AATAAATATAATATTGATAAAAAAT
1 AATAAATATAAAATT-ATAAAAAAT
*
13003943 AATAAATATAAAATT-TACAATAAT
1 AATAAATATAAAATTATA-AAAAAT
13003967 GAATAAATA
1 -AATAAATA
13003976 ACAATAAACA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 2 0.07
24 5 0.17
25 22 0.76
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (24 bp):
AATAAATATAAAATTATAAAAAAT
Found at i:13003996 original size:20 final size:21
Alignment explanation
Indices: 13003964--13004003 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
13003954 AATTTACAAT
*
13003964 AATGAATAAATAACAATAAAC
1 AATGAATAAATAAAAATAAAC
13003985 AATGAA-AAATAAAAATAAA
1 AATGAATAAATAAAAATAAA
13004004 ATTTTTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.72, C:0.05, G:0.05, T:0.17
Consensus pattern (21 bp):
AATGAATAAATAAAAATAAAC
Found at i:13004204 original size:26 final size:24
Alignment explanation
Indices: 13004154--13004234 Score: 76
Period size: 24 Copynumber: 3.3 Consensus size: 24
13004144 AGTAAAGAAG
13004154 AATAATAATAAAAATAAATAAATA
1 AATAATAATAAAAATAAATAAATA
*
13004178 AATAA-AATAAAACATATATATATATA
1 AATAATAATAAAA-ATA-A-ATAAATA
* *
13004204 AATGATAATGAAAATAGAAT-AATA
1 AATAATAATAAAAATA-AATAAATA
*
13004228 AAAAATA
1 AATAATA
13004235 TTTTTTTCCT
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
23 7 0.15
24 16 0.35
25 3 0.07
26 14 0.30
27 6 0.13
ACGTcount: A:0.69, C:0.01, G:0.04, T:0.26
Consensus pattern (24 bp):
AATAATAATAAAAATAAATAAATA
Found at i:13004609 original size:87 final size:85
Alignment explanation
Indices: 13004504--13004694 Score: 199
Period size: 87 Copynumber: 2.2 Consensus size: 85
13004494 AAAATCCTAA
* * **
13004504 AAAAC-CTCAAATCCTAAAACTTCAAAACCTT-AAACCCCAAAATTTTAAAAATCTAAAATGGAA
1 AAAACTCTCAAATCCTAAAA-GTCAAAACCTTGAAACCCCAAAATTTCAAAAATCTAAAATCAAA
* *
13004567 ACC-CTAAATCTCTAAAACCCT
65 ACCAC-AAAACTCCAAAACCCT
* ** * *
13004588 CAAAACTCTCAAATCCTTAAAAGTCCAAATTTTGAAACTCCAAAATTTCAAAACTCTAAAATCAA
1 -AAAACTCTCAAATCC-TAAAAGTCAAAACCTTGAAACCCCAAAATTTCAAAAATCTAAAATCAA
*
13004653 AACCACAAAACTCCAAAATCCT
64 AACCACAAAACTCCAAAACCCT
*
13004675 AAAACTCTCATAAACCTAAA
1 AAAACTCTCA-AATCCTAAA
13004695 TCTTAAAACC
Statistics
Matches: 88, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
85 5 0.06
86 30 0.34
87 52 0.59
88 1 0.01
ACGTcount: A:0.49, C:0.26, G:0.02, T:0.23
Consensus pattern (85 bp):
AAAACTCTCAAATCCTAAAAGTCAAAACCTTGAAACCCCAAAATTTCAAAAATCTAAAATCAAAA
CCACAAAACTCCAAAACCCT
Found at i:13007145 original size:18 final size:18
Alignment explanation
Indices: 13007109--13007147 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
13007099 AATTTCCTTT
*
13007109 AAAAATAAAAATAATTTA
1 AAAAATAAAAATAAGTTA
13007127 AAAAATAAAGAA-AAGTTA
1 AAAAATAAA-AATAAGTTA
13007145 AAA
1 AAA
13007148 TATTGAAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 17 0.89
19 2 0.11
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (18 bp):
AAAAATAAAAATAAGTTA
Found at i:13011418 original size:26 final size:25
Alignment explanation
Indices: 13011389--13011456 Score: 95
Period size: 25 Copynumber: 2.7 Consensus size: 25
13011379 TTTTTTTTAA
13011389 TTTTTATTTATTT-TCTTT-TTTTGGT
1 TTTTTATTTATTTAT-TTTGTTTT-GT
13011414 TTTTTATTTATTTATTTTGTTTTGT
1 TTTTTATTTATTTATTTTGTTTTGT
13011439 TTTATTATTTATTTATTT
1 TTT-TTATTTATTTATTT
13011457 ATTTTTAAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
25 21 0.52
26 19 0.47
ACGTcount: A:0.13, C:0.01, G:0.06, T:0.79
Consensus pattern (25 bp):
TTTTTATTTATTTATTTTGTTTTGT
Found at i:13011462 original size:26 final size:25
Alignment explanation
Indices: 13011389--13011462 Score: 98
Period size: 26 Copynumber: 2.9 Consensus size: 25
13011379 TTTTTTTTAA
13011389 TTTTTATTTATTT-TCTTTTTTTGGT
1 TTTTTATTTATTTAT-TTTTTTTGGT
13011414 TTTTTATTTATTTATTTTGTTTT-GT
1 TTTTTATTTATTTATTTT-TTTTGGT
13011439 TTTATTATTTATTTATTTATTTTT
1 TTT-TTATTTATTTATTT-TTTTT
13011463 AAAATAATTT
Statistics
Matches: 45, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
25 21 0.47
26 23 0.51
27 1 0.02
ACGTcount: A:0.14, C:0.01, G:0.05, T:0.80
Consensus pattern (25 bp):
TTTTTATTTATTTATTTTTTTTGGT
Found at i:13011817 original size:12 final size:12
Alignment explanation
Indices: 13011800--13011841 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
13011790 TCAAATAGTC
13011800 AATTTTTTAAGA
1 AATTTTTTAAGA
13011812 AA-TTTTTAAGTGA
1 AATTTTTTAA--GA
*
13011825 AATTTTTTAAAA
1 AATTTTTTAAGA
13011837 AATTT
1 AATTT
13011842 AACTCAAATG
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
11 7 0.27
12 8 0.31
13 4 0.15
14 7 0.27
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (12 bp):
AATTTTTTAAGA
Found at i:13016561 original size:17 final size:18
Alignment explanation
Indices: 13016539--13016576 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
13016529 AAAATTATTT
*
13016539 TTTAAA-AATTTATATAA
1 TTTAAATAATTGATATAA
*
13016556 TTTAAATTATTGATATAA
1 TTTAAATAATTGATATAA
13016574 TTT
1 TTT
13016577 TTAAATGTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (18 bp):
TTTAAATAATTGATATAA
Found at i:13018979 original size:95 final size:95
Alignment explanation
Indices: 13018816--13018992 Score: 327
Period size: 95 Copynumber: 1.9 Consensus size: 95
13018806 CGAAGATATT
*
13018816 AAATTTGTTGAGCACGTGACCGTGATAGGAGTTCAACCTATTGGTTTTTAAAAATCTCATGGATA
1 AAATTTGTTGAGCACGTGACCGTGATAGGAGTTCAACCTATTGGCTTTTAAAAATCTCATGGATA
13018881 AAAGTGTAATCGAGTTCGAAAAAAATGAAA
66 AAAGTGTAATCGAGTTCGAAAAAAATGAAA
*
13018911 AAATTTGTTGAGCACGTGACCGTGATAGGAGTTCAACCTATTGGCTTTTAAAATTCTCATGGATA
1 AAATTTGTTGAGCACGTGACCGTGATAGGAGTTCAACCTATTGGCTTTTAAAAATCTCATGGATA
*
13018976 AAAGTGTAATCGGGTTC
66 AAAGTGTAATCGAGTTC
13018993 TAAACAATAA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
95 79 1.00
ACGTcount: A:0.34, C:0.13, G:0.22, T:0.31
Consensus pattern (95 bp):
AAATTTGTTGAGCACGTGACCGTGATAGGAGTTCAACCTATTGGCTTTTAAAAATCTCATGGATA
AAAGTGTAATCGAGTTCGAAAAAAATGAAA
Found at i:13019081 original size:19 final size:19
Alignment explanation
Indices: 13019057--13019094 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
13019047 TTAATGCGAA
13019057 TTAAA-TTAAATTTTAATTT
1 TTAAATTTAAA-TTTAATTT
13019076 TTAAATTTAAATTTAATTT
1 TTAAATTTAAATTTAATTT
13019095 AAAATAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TTAAATTTAAATTTAATTT
Found at i:13019280 original size:20 final size:19
Alignment explanation
Indices: 13019245--13019290 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
13019235 ATAATTTTTA
13019245 AATTAAAATAATAAAATAT
1 AATTAAAATAATAAAATAT
*
13019264 ATATTAAAAT-ATAAAAATTT
1 A-ATTAAAATAAT-AAAATAT
13019284 AATTAAA
1 AATTAAA
13019291 TTTGTGAGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 9 0.38
20 15 0.62
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (19 bp):
AATTAAAATAATAAAATAT
Found at i:13019280 original size:28 final size:27
Alignment explanation
Indices: 13019217--13019281 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 27
13019207 AATTTAAATT
* *
13019217 AATATATAAAATAAAATAATAATTTTTA
1 AATATA-AAAATAAAATAATAATATTAA
13019245 AAT-T-AAAATAATAA-AATATATATTAA
1 AATATAAAAATAA-AATAATA-ATATTAA
13019271 AATATAAAAAT
1 AATATAAAAAT
13019282 TTAATTAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
25 11 0.35
26 10 0.32
27 2 0.06
28 8 0.26
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (27 bp):
AATATAAAAATAAAATAATAATATTAA
Found at i:13028907 original size:13 final size:13
Alignment explanation
Indices: 13028891--13028915 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13028881 AAAACCATAT
13028891 CCCAAAAATTCCA
1 CCCAAAAATTCCA
13028904 CCCAAAAATTCC
1 CCCAAAAATTCC
13028916 TCAATTTGGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.40, G:0.00, T:0.16
Consensus pattern (13 bp):
CCCAAAAATTCCA
Found at i:13031346 original size:15 final size:14
Alignment explanation
Indices: 13031321--13031360 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
13031311 ATTTTTAATA
13031321 ATTATTTTTATCTC
1 ATTATTTTTATCTC
*
13031335 ATTATATTTTATCTT
1 ATTAT-TTTTATCTC
*
13031350 ATTATTATTAT
1 ATTATTTTTAT
13031361 TACGTTTGCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 10 0.43
15 13 0.57
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (14 bp):
ATTATTTTTATCTC
Found at i:13039012 original size:12 final size:12
Alignment explanation
Indices: 13038991--13039050 Score: 59
Period size: 12 Copynumber: 4.8 Consensus size: 12
13038981 TTATGAACAA
*
13038991 AAAATAAAAAAT
1 AAAATAAAATAT
*
13039003 AAAATGAAAAT-G
1 AAAAT-AAAATAT
13039015 AAAATAAAATAT
1 AAAATAAAATAT
13039027 AAAATATAAAATAT
1 -AAA-ATAAAATAT
*
13039041 AAAATCAAAT
1 AAAATAAAAT
13039051 CAAATCAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
11 5 0.12
12 16 0.40
13 10 0.25
14 9 0.22
ACGTcount: A:0.73, C:0.02, G:0.03, T:0.22
Consensus pattern (12 bp):
AAAATAAAATAT
Found at i:13039045 original size:7 final size:7
Alignment explanation
Indices: 13039018--13039045 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
13039008 GAAAATGAAA
13039018 ATAAAAT
1 ATAAAAT
13039025 ATAAAAT
1 ATAAAAT
13039032 ATAAAAT
1 ATAAAAT
13039039 ATAAAAT
1 ATAAAAT
13039046 CAAATCAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
ATAAAAT
Found at i:13039070 original size:37 final size:38
Alignment explanation
Indices: 13038989--13039092 Score: 101
Period size: 37 Copynumber: 2.8 Consensus size: 38
13038979 AATTATGAAC
* *
13038989 AAAAAATAAAAAATAAAATGAAAATGAAAATAAAATAT
1 AAAATATAAAAAATAAAATGAAAATGAAAATAAAATAG
* * *
13039027 AAAATATAAAATATAAAAT-CAAAT-CAAATCAAAATAG
1 AAAATATAAAAAATAAAATGAAAATGAAAAT-AAAATAG
**
13039064 AAAATATAATGAA-AAAA-GAAAA-GAAAATA
1 AAAATATAAAAAATAAAATGAAAATGAAAATA
13039093 CGTACGAGTG
Statistics
Matches: 53, Mismatches: 10, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
35 1 0.02
36 15 0.28
37 20 0.38
38 17 0.32
ACGTcount: A:0.73, C:0.03, G:0.06, T:0.18
Consensus pattern (38 bp):
AAAATATAAAAAATAAAATGAAAATGAAAATAAAATAG
Found at i:13046602 original size:18 final size:19
Alignment explanation
Indices: 13046581--13046620 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
13046571 TAAACAAAAT
13046581 AAAATAAA-T-AAAATAAGA
1 AAAATAAAGTCAAAAT-AGA
13046599 AAAATAAAGTCAAAATAGA
1 AAAATAAAGTCAAAATAGA
13046618 AAA
1 AAA
13046621 TCGAATGGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 8 0.40
19 7 0.35
20 5 0.25
ACGTcount: A:0.75, C:0.03, G:0.07, T:0.15
Consensus pattern (19 bp):
AAAATAAAGTCAAAATAGA
Found at i:13046603 original size:14 final size:14
Alignment explanation
Indices: 13046562--13046606 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
13046552 TAGTAAGAGT
*
13046562 AAATAAAAATAAACA
1 AAAT-AAAATAAATA
13046577 AAATAAAATAAATA
1 AAATAAAATAAATA
13046591 AAATAAGAA-AAATA
1 AAATAA-AATAAATA
13046605 AA
1 AA
13046607 GTCAAAATAG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
14 22 0.79
15 6 0.21
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.16
Consensus pattern (14 bp):
AAATAAAATAAATA
Found at i:13046621 original size:18 final size:16
Alignment explanation
Indices: 13046562--13046621 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 16
13046552 TAGTAAGAGT
13046562 AAATAAAAATAAA-CA
1 AAATAAAAATAAATCA
13046577 AAAT-AAAATAAAT-A
1 AAATAAAAATAAATCA
13046591 AAATAAGAAAAATAAAGTCA
1 AAAT---AAAAATAAA-TCA
13046611 AAATAGAAAAT
1 AAATA-AAAAT
13046622 CGAATGGAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 13
0.74 0.00 0.26
Matches are distributed among these distances:
14 13 0.35
15 4 0.11
17 1 0.03
18 13 0.35
19 1 0.03
20 5 0.14
ACGTcount: A:0.75, C:0.03, G:0.05, T:0.17
Consensus pattern (16 bp):
AAATAAAAATAAATCA
Found at i:13047262 original size:52 final size:51
Alignment explanation
Indices: 13047171--13047276 Score: 124
Period size: 52 Copynumber: 2.1 Consensus size: 51
13047161 ATCTAAAAAT
* * * *
13047171 TCTCTCCCTATCATTTTAATGTCAATTGATTTTGGAATTAAATCCCAACAA
1 TCTCTCCCTATCATTTTAATGCCAATTAATTCTAGAATTAAATCCCAACAA
* * *
13047222 TCTCTCCAC-ATCATTTTTAATGCCAATTAATTCTATAATTAAATCCTAAGAA
1 TCTCTCC-CTATCA-TTTTAATGCCAATTAATTCTAGAATTAAATCCCAACAA
13047274 TCT
1 TCT
13047277 TTCAATTATG
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
51 11 0.24
52 35 0.76
ACGTcount: A:0.33, C:0.22, G:0.06, T:0.40
Consensus pattern (51 bp):
TCTCTCCCTATCATTTTAATGCCAATTAATTCTAGAATTAAATCCCAACAA
Found at i:13053999 original size:18 final size:17
Alignment explanation
Indices: 13053978--13054036 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 17
13053968 ATAATAATAA
13053978 AAAAATCTAAAATAAAAT
1 AAAAA-CTAAAATAAAAT
13053996 AAAAA-TACAAATAAAAT
1 AAAAACTA-AAATAAAAT
* *
13054013 CAAAACAAAAAATAAAAT
1 AAAAAC-TAAAATAAAAT
13054031 GAAAAA
1 -AAAAA
13054037 AGAAAAAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
16 2 0.06
17 13 0.38
18 14 0.41
19 5 0.15
ACGTcount: A:0.76, C:0.07, G:0.02, T:0.15
Consensus pattern (17 bp):
AAAAACTAAAATAAAAT
Found at i:13054007 original size:12 final size:11
Alignment explanation
Indices: 13053965--13054036 Score: 51
Period size: 12 Copynumber: 6.4 Consensus size: 11
13053955 TAATTATGAC
13053965 AAAATAATAATA
1 AAAATAA-AATA
**
13053977 AAAA-AATCT-
1 AAAATAAAATA
13053986 AAAATAAAATA
1 AAAATAAAATA
13053997 AAAATACAAAT-
1 AAAATA-AAATA
*
13054008 AAAATCAAAACAA
1 AAAAT-AAAA-TA
13054021 AAAATAAAATGA
1 AAAATAAAAT-A
13054033 AAAA
1 AAAA
13054037 AGAAAAAAAT
Statistics
Matches: 47, Mismatches: 6, Indels: 14
0.70 0.09 0.21
Matches are distributed among these distances:
9 4 0.09
10 4 0.09
11 16 0.34
12 18 0.38
13 5 0.11
ACGTcount: A:0.76, C:0.06, G:0.01, T:0.17
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:13054042 original size:18 final size:16
Alignment explanation
Indices: 13053986--13054047 Score: 63
Period size: 18 Copynumber: 3.7 Consensus size: 16
13053976 AAAAAAATCT
13053986 AAAATAAAATAAAAATA
1 AAAATAAAATAAAAA-A
*
13054003 CAAATAAAATCAAAACAA
1 AAAATAAAAT-AAAA-AA
13054021 AAAATAAAATGAAAAAA
1 AAAATAAAAT-AAAAAA
*
13054038 GAAA-AAAATA
1 AAAATAAAATA
13054048 CTTGCAATCA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
15 1 0.03
16 5 0.13
17 14 0.36
18 18 0.46
19 1 0.03
ACGTcount: A:0.79, C:0.05, G:0.03, T:0.13
Consensus pattern (16 bp):
AAAATAAAATAAAAAA
Found at i:13062118 original size:21 final size:21
Alignment explanation
Indices: 13062094--13062133 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
13062084 GTATTTCTTT
* *
13062094 TTTTTTTTCTTTCATTTTTCC
1 TTTTTTTTCATGCATTTTTCC
13062115 TTTTTTTTCATGCATTTTT
1 TTTTTTTTCATGCATTTTT
13062134 GGGTAAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.07, C:0.15, G:0.03, T:0.75
Consensus pattern (21 bp):
TTTTTTTTCATGCATTTTTCC
Found at i:13064151 original size:16 final size:16
Alignment explanation
Indices: 13064132--13064183 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
13064122 TCCGAGTTCG
*
13064132 AAATAAATTGAATTTA
1 AAATAATTTGAATTTA
* * *
13064148 AAATTATTTAAATTCA
1 AAATAATTTGAATTTA
*
13064164 AGATAATTTGAATTTA
1 AAATAATTTGAATTTA
13064180 AAAT
1 AAAT
13064184 GATTCAAATG
Statistics
Matches: 27, Mismatches: 9, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.52, C:0.02, G:0.06, T:0.40
Consensus pattern (16 bp):
AAATAATTTGAATTTA
Found at i:13065139 original size:3 final size:3
Alignment explanation
Indices: 13065131--13065176 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
13065121 TCGAATTCAG
13065131 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
13065177 GAGCACAATC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:13070655 original size:31 final size:30
Alignment explanation
Indices: 13070618--13070691 Score: 130
Period size: 31 Copynumber: 2.4 Consensus size: 30
13070608 AGTTTAGTTG
13070618 GTGTTTAGGGTTTGTATAAGGGTTAGCATTT
1 GTGTTTAGGGTTTGTATAAGGGTTAGCA-TT
13070649 GTGTTTAGGGTTTGTATAAGGGTTAGCATT
1 GTGTTTAGGGTTTGTATAAGGGTTAGCATT
*
13070679 GTGTTTAAGGTTT
1 GTGTTTAGGGTTT
13070692 AGGGTTCGCA
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
30 14 0.33
31 28 0.67
ACGTcount: A:0.19, C:0.03, G:0.32, T:0.46
Consensus pattern (30 bp):
GTGTTTAGGGTTTGTATAAGGGTTAGCATT
Found at i:13070728 original size:20 final size:20
Alignment explanation
Indices: 13070705--13070750 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
13070695 GTTCGCATAG
*
13070705 GGGTTTAGGGGTTTGGTTTA
1 GGGTTTAAGGGTTTGGTTTA
13070725 GGGTTTAAGGGTTTGGTTTA
1 GGGTTTAAGGGTTTGGTTTA
13070745 GGGTTT
1 GGGTTT
13070751 GCATGAGGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.11, C:0.00, G:0.43, T:0.46
Consensus pattern (20 bp):
GGGTTTAAGGGTTTGGTTTA
Found at i:13072453 original size:143 final size:144
Alignment explanation
Indices: 13072227--13072499 Score: 401
Period size: 144 Copynumber: 1.9 Consensus size: 144
13072217 AGCTTTTTGT
* * *
13072227 GAAAAATCACCTTAAGAAAGTCAAATTACAAAAATACCTTTAAAAAGGTATTTTGGTAATTTCAA
1 GAAAAATAACCTTAAGAAAGTCAAATTACAAAAATACCCTTAAAAAGGTATTTTAGTAATTTCAA
** * * *
13072292 CTCTTTTGAGGTGTGATCA-GGTTTTCAATGCATCAAGAATCATGAAATAATATCAAAACATGAT
66 CTCTTTCAAAGTGCGATCAGGGTTTTCAATGCATCAAAAATCATGAAATAATATCAAAACATGAT
13072356 TTAAAGCTTTTCAC
131 TTAAAGCTTTTCAC
* *
13072370 GAAAAATTAACCTTAA-AAAGGTCAAATTATAAAAATACCCTT-AAAAGTTATTTTAGTAATTTC
1 GAAAAA-TAACCTTAAGAAA-GTCAAATTACAAAAATACCCTTAAAAAGGTATTTTAGTAATTTC
13072433 AACAT-TTTCAAAGTGCGATCAGGGTTTTCAATGCATCAAAAATCATGAAATAATATCAAAACAT
64 AAC-TCTTTCAAAGTGCGATCAGGGTTTTCAATGCATCAAAAATCATGAAATAATATCAAAACAT
13072497 GAT
128 GAT
13072500 ATTGATATTT
Statistics
Matches: 116, Mismatches: 10, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
143 43 0.37
144 73 0.63
ACGTcount: A:0.43, C:0.14, G:0.12, T:0.32
Consensus pattern (144 bp):
GAAAAATAACCTTAAGAAAGTCAAATTACAAAAATACCCTTAAAAAGGTATTTTAGTAATTTCAA
CTCTTTCAAAGTGCGATCAGGGTTTTCAATGCATCAAAAATCATGAAATAATATCAAAACATGAT
TTAAAGCTTTTCAC
Found at i:13072511 original size:144 final size:143
Alignment explanation
Indices: 13072227--13072558 Score: 395
Period size: 144 Copynumber: 2.3 Consensus size: 143
13072217 AGCTTTTTGT
* * *
13072227 GAAAAA-TCACCTTAAGAAAGTCAAATTACAAAAATACCTTTAAAAAGGTATTTTGGTAATTTCA
1 GAAAAATTAACCTTAAGAAAGTCAAATTACAAAAATACCCTTAAAAAGGTATTTTAGTAATTTCA
** * * *
13072291 ACTCTTTTGAGGTGTGATCAGGTTTTCAATGCATCAAGAATCATGAAATAATATCAAAACATGAT
66 ACTCTTTCAAAGTGCGATCAGGTTTTCAATGCATCAAAAATCATGAAATAATATCAAAACATGAT
13072356 TTAAAGCTTTTCAC
131 TTAAA-CTTTTCAC
* *
13072370 GAAAAATTAACCTTAA-AAAGGTCAAATTATAAAAATACCCTT-AAAAGTTATTTTAGTAATTTC
1 GAAAAATTAACCTTAAGAAA-GTCAAATTACAAAAATACCCTTAAAAAGGTATTTTAGTAATTTC
13072433 AACAT-TTTCAAAGTGCGATCAGGGTTTTCAATGCATCAAAAATCATGAAATAATATCAAAACAT
65 AAC-TCTTTCAAAGTGCGATCA-GGTTTTCAATGCATCAAAAATCATGAAATAATATCAAAACAT
* *
13072497 GATATTGATA-TTTTCAT
128 GAT-TT-AAACTTTTCAC
* * * ** * * *
13072514 GAAAAATTGATCTTGAGAGGGTCAGATTACAAAAATTCCCCTAAA
1 GAAAAATTAACCTTAAGAAAGTCAAATTACAAAAATACCCTTAAA
13072559 TGACATTTTG
Statistics
Matches: 160, Mismatches: 21, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
143 43 0.27
144 110 0.69
145 5 0.03
146 2 0.01
ACGTcount: A:0.42, C:0.14, G:0.13, T:0.32
Consensus pattern (143 bp):
GAAAAATTAACCTTAAGAAAGTCAAATTACAAAAATACCCTTAAAAAGGTATTTTAGTAATTTCA
ACTCTTTCAAAGTGCGATCAGGTTTTCAATGCATCAAAAATCATGAAATAATATCAAAACATGAT
TTAAACTTTTCAC
Found at i:13072597 original size:144 final size:142
Alignment explanation
Indices: 13072227--13072597 Score: 381
Period size: 144 Copynumber: 2.6 Consensus size: 142
13072217 AGCTTTTTGT
* ** **
13072227 GAAAAA-TCACCTTAAGAAA-GTCAAATTACAAAAATACCTTTAAAAAGGTATTTTGGTAATTTC
1 GAAAAATTAACCTTAA-AAAGGTCAAATTACAAAAATACCCCT-AAAAGACATTTTGGTAATTTC
* * *
13072290 AACTCTTTTGAGGTGTGATCAGGTTTTCAATGCATCAAGAATCATGAAATAATATCAAAACATGA
64 AACCCTTTTGAGGTGAGATCAGGTTTTCAATGCATCAAAAATCATGAAATAATATCAAAACATGA
13072355 TTTAAAGCTTTTCAC
129 TTTAAA-CTTTTCAC
* * ** *
13072370 GAAAAATTAACCTTAAAAAGGTCAAATTATAAAAATACCCTTAAAAGTTATTTTAGTAATTTCAA
1 GAAAAATTAACCTTAAAAAGGTCAAATTACAAAAATACCCCTAAAAGACATTTTGGTAATTTCAA
* * * *
13072435 -CATTTTCAAAGTGCGATCAGGGTTTTCAATGCATCAAAAATCATGAAATAATATCAAAACATGA
66 CCCTTTT-GAGGTGAGATCA-GGTTTTCAATGCATCAAAAATCATGAAATAATATCAAAACATGA
* *
13072499 TATTGATA-TTTTCAT
129 T-TT-AAACTTTTCAC
* * * * * * * *
13072514 GAAAAATTGATCTTGAGAGGGTCAGATTACAAAAATTCCCCTAAATGACATTTTGGTAATTTCAA
1 GAAAAATTAACCTTAAAAAGGTCAAATTACAAAAATACCCCTAAAAGACATTTTGGTAATTTCAA
* * *
13072579 CCCTTATGGGGTAAGATCA
66 CCCTTTTGAGGTGAGATCA
13072598 TGGCATTGCA
Statistics
Matches: 188, Mismatches: 33, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
142 4 0.02
143 39 0.21
144 137 0.73
145 6 0.03
146 2 0.01
ACGTcount: A:0.41, C:0.14, G:0.13, T:0.32
Consensus pattern (142 bp):
GAAAAATTAACCTTAAAAAGGTCAAATTACAAAAATACCCCTAAAAGACATTTTGGTAATTTCAA
CCCTTTTGAGGTGAGATCAGGTTTTCAATGCATCAAAAATCATGAAATAATATCAAAACATGATT
TAAACTTTTCAC
Found at i:13075782 original size:46 final size:46
Alignment explanation
Indices: 13075705--13075794 Score: 108
Period size: 46 Copynumber: 2.0 Consensus size: 46
13075695 CAAATAAGAA
* * * * * * *
13075705 ATATTTCATTTTTTATTCCATTCATTCTCTTTTCTTTTTAATGCGT
1 ATATTTCATTTTTCACTACATTCACTATCTTTTCCTTTCAATGCGT
*
13075751 ATATTTCATTTTTCACTACATTCCCTATCTTTTCCTTTCAATGC
1 ATATTTCATTTTTCACTACATTCACTATCTTTTCCTTTCAATGC
13075795 CTTGTAATGA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
46 36 1.00
ACGTcount: A:0.19, C:0.22, G:0.03, T:0.56
Consensus pattern (46 bp):
ATATTTCATTTTTCACTACATTCACTATCTTTTCCTTTCAATGCGT
Found at i:13077180 original size:52 final size:51
Alignment explanation
Indices: 13077055--13077199 Score: 164
Period size: 51 Copynumber: 2.8 Consensus size: 51
13077045 TGATTTTCAA
* * ** ***
13077055 TTTAATGAGAATTGATTTTGAAATCAAATCTAAAAAATCTCTCTTTATCAT
1 TTTAATGAGAATTGATTTTGGAATTAAATCCCAAAAATCTCTCGACATCAT
* * *
13077106 TTTAATGTGAATTGATTATGGAATTAAATCCCAACAATCTCTCGACATCATT
1 TTTAATGAGAATTGATTTTGGAATTAAATCCCAAAAATCTCTCGACATCA-T
** *
13077158 TTTAATGCCAATTGATTTTGGAATTAAATTCCAAAAATCTCT
1 TTTAATGAGAATTGATTTTGGAATTAAATCCCAAAAATCTCT
13077200 TAATTATAGT
Statistics
Matches: 78, Mismatches: 15, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
51 40 0.51
52 38 0.49
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.39
Consensus pattern (51 bp):
TTTAATGAGAATTGATTTTGGAATTAAATCCCAAAAATCTCTCGACATCAT
Found at i:13077742 original size:122 final size:121
Alignment explanation
Indices: 13077616--13077870 Score: 309
Period size: 122 Copynumber: 2.1 Consensus size: 121
13077606 TGATCAACAC
* * * *
13077616 GAAACCACGAGTCATAAGAAATGATCTGGA-TTAAGCTAAAATCGAGTGACCAAAATGAAACCAT
1 GAAACCACGAGTCATAAGAAATGATATGGACTGAA-CCAAAATCGAGTGACCAAAATAAAACCAT
* * *
13077680 GAGTCAAAAAAATAAAGTGACCAAAA-CTGAGTCGAGGTAAAAAATAAATGACC-GAGAT
65 GAGTC-AAAAAATAAAGTGACCAAAATC-AAGTCAAAGTAAAAAATAAATGACCAG-GAT
* * * ***
13077738 GAAACCATGATTCATAAGAAATGATATGGACTGAACCAAAATTGAGTGACCGGGATAAAACCATG
1 GAAACCACGAGTCATAAGAAATGATATGGACTGAACCAAAATCGAGTGACCAAAATAAAACCATG
* * *
13077803 AGTCAAAAAATGAAGTGACCAAGATCAAGTCAAAGTAAAAAATAAATGATCAGGAT
66 AGTCAAAAAATAAAGTGACCAAAATCAAGTCAAAGTAAAAAATAAATGACCAGGAT
13077859 GAAACCACGAGT
1 GAAACCACGAGT
13077871 GAAAAAATGA
Statistics
Matches: 112, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
121 52 0.46
122 57 0.51
123 3 0.03
ACGTcount: A:0.48, C:0.15, G:0.20, T:0.18
Consensus pattern (121 bp):
GAAACCACGAGTCATAAGAAATGATATGGACTGAACCAAAATCGAGTGACCAAAATAAAACCATG
AGTCAAAAAATAAAGTGACCAAAATCAAGTCAAAGTAAAAAATAAATGACCAGGAT
Found at i:13077820 original size:34 final size:32
Alignment explanation
Indices: 13077782--13077888 Score: 90
Period size: 34 Copynumber: 3.2 Consensus size: 32
13077772 ACCAAAATTG
*
13077782 AGTGACCGGGATAAAACCATGAGTCAAAAAATGA
1 AGTGACCAGGATAAAACCA-GAGT-AAAAAATGA
* * ** *
13077816 AGTGACCAAGATCAAGTCAAAGTAAAAAAT-A
1 AGTGACCAGGATAAAACCAGAGTAAAAAATGA
* * *
13077847 AATGATCAGGATGAAACCACGAGTGAAAAAATGA
1 AGTGACCAGGATAAAACCA-GAGT-AAAAAATGA
13077881 AGTGACCA
1 AGTGACCA
13077889 AGACTGAATC
Statistics
Matches: 55, Mismatches: 15, Indels: 6
0.72 0.20 0.08
Matches are distributed among these distances:
31 14 0.25
32 10 0.18
33 10 0.18
34 21 0.38
ACGTcount: A:0.50, C:0.14, G:0.21, T:0.15
Consensus pattern (32 bp):
AGTGACCAGGATAAAACCAGAGTAAAAAATGA
Found at i:13077880 original size:65 final size:65
Alignment explanation
Indices: 13077790--13077947 Score: 185
Period size: 65 Copynumber: 2.4 Consensus size: 65
13077780 TGAGTGACCG
* *
13077790 GGATAAAACCATGAGTCAAAAAATGAAGTGACCAAGA-TCAAGTCAAAGTAAAAAATAAATGA-T
1 GGATGAAACCACGAGTCAAAAAATGAAGTGACCAAGACTCAA-TCAAAGTAAAAAATAAATGACT
13077853 CA
65 -A
* * * ** *
13077855 GGATGAAACCACGAGTGAAAAAATGAAGTGACCAAGACTGAATCAAGGTTGAAAATAAATGACTG
1 GGATGAAACCACGAGTCAAAAAATGAAGTGACCAAGACTCAATCAAAGTAAAAAATAAATGACTA
*
13077920 GGATGAAACCACAAGTCATAAGAAATGA
1 GGATGAAACCACGAGTCA-AA-AAATGA
13077948 CCTAGACTGA
Statistics
Matches: 79, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
65 67 0.85
66 6 0.08
67 6 0.08
ACGTcount: A:0.50, C:0.13, G:0.21, T:0.16
Consensus pattern (65 bp):
GGATGAAACCACGAGTCAAAAAATGAAGTGACCAAGACTCAATCAAAGTAAAAAATAAATGACTA
Found at i:13078031 original size:186 final size:187
Alignment explanation
Indices: 13077670--13078006 Score: 426
Period size: 186 Copynumber: 1.8 Consensus size: 187
13077660 AGTGACCAAA
* * *
13077670 ATGAAACCATGAGTCAAAAAAATAAAGTGACCAAAACTGAGTCGAGGTAAAAAATAAATGACCGA
1 ATGAAACCACGAGTCAAAAAAATAAAGTGACCAAAACTGAATCAAGGTAAAAAATAAATGACCGA
** * * * * *
13077735 GATGAAACCATGATTCATAAGAAATGATATGGACTGAACCAAAATTGAGTGACCGGGATAAAACC
66 GATGAAACCACAAGTCATAAGAAATGACATAGACTGAACCAAAATTGAGCGACCGAGATAAAACC
* **
13077800 ATGAGTCAAAAAATGAAGTGACCAAGATCAAGTCAAAGTAAAAAATAAATGATCAGG
131 ATGAGTCAAAAAATAAAGCAACCAAGATCAAGTCAAAGTAAAAAATAAATGATCAGG
* * * ** * *
13077857 ATGAAACCACGAGT-GAAAAAATGAAGTGACCAAGACTGAATCAAGGTTGAAAATAAATGACTGG
1 ATGAAACCACGAGTCAAAAAAATAAAGTGACCAAAACTGAATCAAGGTAAAAAATAAATGACCGA
* * * * *
13077921 GATGAAACCACAAGTCATAAGAAATGACCTAGACTGAGCCAAGATT-AGGCGACTGAGATTAAAC
66 GATGAAACCACAAGTCATAAGAAATGACATAGACTGAACCAAAATTGA-GCGACCGAGATAAAAC
13077985 CATGAGTCAAAAAATAAAGCAA
130 CATGAGTCAAAAAATAAAGCAA
13078007 TTAAGATTGA
Statistics
Matches: 124, Mismatches: 25, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
185 1 0.01
186 110 0.89
187 13 0.10
ACGTcount: A:0.48, C:0.14, G:0.20, T:0.17
Consensus pattern (187 bp):
ATGAAACCACGAGTCAAAAAAATAAAGTGACCAAAACTGAATCAAGGTAAAAAATAAATGACCGA
GATGAAACCACAAGTCATAAGAAATGACATAGACTGAACCAAAATTGAGCGACCGAGATAAAACC
ATGAGTCAAAAAATAAAGCAACCAAGATCAAGTCAAAGTAAAAAATAAATGATCAGG
Found at i:13078215 original size:65 final size:64
Alignment explanation
Indices: 13078098--13078221 Score: 178
Period size: 65 Copynumber: 1.9 Consensus size: 64
13078088 GGATGATCAA
* *
13078098 GATAAAACTATGAGTCAAAAATGAAGTGACCAGGATCGAGTCGAGGTAAAAAATAAATGCGAAG
1 GATAAAACCATGAGTCAAAAATGAAATGACCAGGATCGAGTCGAGGTAAAAAATAAATGCGAAG
* * *
13078162 GATAGAACCATGAGTCAAAAAATGAAATGACTAGGAT-GAAGTCGAGGTCAAAAATAAATG
1 GATAAAACCATGAGTC-AAAAATGAAATGACCAGGATCG-AGTCGAGGTAAAAAATAAATG
13078222 ATCGAGATGA
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
64 15 0.28
65 38 0.72
ACGTcount: A:0.48, C:0.10, G:0.24, T:0.18
Consensus pattern (64 bp):
GATAAAACCATGAGTCAAAAATGAAATGACCAGGATCGAGTCGAGGTAAAAAATAAATGCGAAG
Found at i:13079410 original size:11 final size:11
Alignment explanation
Indices: 13079394--13079440 Score: 69
Period size: 11 Copynumber: 4.3 Consensus size: 11
13079384 GCCTAATCAA
13079394 TTTTTTCTTTT
1 TTTTTTCTTTT
13079405 TTTTTTCTTTT
1 TTTTTTCTTTT
*
13079416 CTTTTTACTTTT
1 -TTTTTTCTTTT
13079428 TTTTTT-TTTT
1 TTTTTTCTTTT
13079438 TTT
1 TTT
13079441 GTGGAGCACA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
10 7 0.21
11 16 0.48
12 10 0.30
ACGTcount: A:0.02, C:0.09, G:0.00, T:0.89
Consensus pattern (11 bp):
TTTTTTCTTTT
Found at i:13079420 original size:23 final size:23
Alignment explanation
Indices: 13079394--13079438 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
13079384 GCCTAATCAA
*
13079394 TTTTTTCTTTTTTTTTTCTTTTC
1 TTTTTACTTTTTTTTTTCTTTTC
*
13079417 TTTTTACTTTTTTTTTTTTTTT
1 TTTTTACTTTTTTTTTTCTTTT
13079439 TTGTGGAGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.02, C:0.09, G:0.00, T:0.89
Consensus pattern (23 bp):
TTTTTACTTTTTTTTTTCTTTTC
Found at i:13079428 original size:74 final size:75
Alignment explanation
Indices: 13079300--13079499 Score: 216
Period size: 77 Copynumber: 2.6 Consensus size: 75
13079290 GTACGGCATT
* *
13079300 TTGATATTTTGCCCTATCAA--TTTTCTTTTCCTTCTTCTTTTTCTTTTT--TGTTTTTTTTTTT
1 TTGATATTTTG-CCTATCAATTTTTTCTTTT-TTTTTTC-TTTTCTTTTTACT-TTTTTTTTTTT
13079361 TTTT-TGAAGCACA
62 TTTTGTGAAGCACA
*
13079374 TTGAAATTTTGCCTAATCAATTTTTTCTTTTTTTTTTCTTTTCTTTTTACTTTTTTTTTTTTTTT
1 TTGATATTTTGCCT-ATCAATTTTTTCTTTTTTTTTTCTTTTCTTTTTAC-TTTTTTTTTTTTTT
*
13079439 TTGTGGAGCACA
64 TTGTGAAGCACA
* *
13079451 TTGGTATTTTGCTTCATCAATTTTTTTCTTTTTTCTTTT-TTTT-TTTTTA
1 TTGATATTTTGCCT-ATCAA-TTTTTTCTTTTTT-TTTTCTTTTCTTTTTA
13079500 AAAAAAGGCT
Statistics
Matches: 109, Mismatches: 8, Indels: 15
0.83 0.06 0.11
Matches are distributed among these distances:
73 3 0.03
74 25 0.23
75 5 0.05
76 24 0.22
77 31 0.28
78 17 0.16
79 4 0.04
ACGTcount: A:0.12, C:0.13, G:0.07, T:0.68
Consensus pattern (75 bp):
TTGATATTTTGCCTATCAATTTTTTCTTTTTTTTTTCTTTTCTTTTTACTTTTTTTTTTTTTTTT
GTGAAGCACA
Found at i:13083171 original size:51 final size:52
Alignment explanation
Indices: 13083102--13083221 Score: 145
Period size: 52 Copynumber: 2.3 Consensus size: 52
13083092 TTCTGAAATC
* * ** *
13083102 AAATTCCAAAAATCTCTCC-CTATCA-TTTTAATGTGAATTGATTATAGAATT
1 AAATCCCAAAAATTTCTCCAC-ATCATTTTTAATGCCAATTAATTATAGAATT
* * *
13083153 AAATCCCGACAATTTCTCCACATCATTTTTAATGCCAATTAATTATGGAATT
1 AAATCCCAAAAATTTCTCCACATCATTTTTAATGCCAATTAATTATAGAATT
13083205 AAATCCCAAAAATTTCT
1 AAATCCCAAAAATTTCT
13083222 TAATTACGAT
Statistics
Matches: 57, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
51 19 0.33
52 38 0.67
ACGTcount: A:0.38, C:0.19, G:0.07, T:0.37
Consensus pattern (52 bp):
AAATCCCAAAAATTTCTCCACATCATTTTTAATGCCAATTAATTATAGAATT
Found at i:13083450 original size:41 final size:41
Alignment explanation
Indices: 13083394--13083496 Score: 136
Period size: 41 Copynumber: 2.5 Consensus size: 41
13083384 ATCTTCCTTA
*
13083394 TTTTTTTAAAGTTGTGTGCCTTCGTTTAAAAGAACTTT-GT
1 TTTTTTTAAAGTTGTGTGCCTTCATTTAAAAGAACTTTAGT
* * * *
13083434 TTTTTTTAAAATTTGTGTGCCTTCATTTGAAAGAGCTTTATTT
1 TTTTTTT-AAAGTTGTGTGCCTTCATTTAAAAGAACTTTA-GT
13083477 TTTTTTTAAAGTTGTGTGCC
1 TTTTTTTAAAGTTGTGTGCC
13083497 CTAGGAGCCT
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
40 7 0.13
41 27 0.50
42 12 0.22
43 8 0.15
ACGTcount: A:0.21, C:0.10, G:0.17, T:0.52
Consensus pattern (41 bp):
TTTTTTTAAAGTTGTGTGCCTTCATTTAAAAGAACTTTAGT
Found at i:13083478 original size:40 final size:40
Alignment explanation
Indices: 13083391--13083683 Score: 168
Period size: 40 Copynumber: 7.5 Consensus size: 40
13083381 GGAATCTTCC
* * *
13083391 TTATTTTTTT-AAAGTTGTGTGCCTTCGTTTAAAAGAACT
1 TTATTTTTTTAAAAGTTGTGTGCCTTCATTTGAAAGAGCT
* *
13083430 TTGTTTTTTTTAAAATTTGTGTGCCTTCATTTGAAAGAGCT
1 TT-ATTTTTTTAAAAGTTGTGTGCCTTCATTTGAAAGAGCT
* * *
13083471 TTATTTTTTTTTTAAAGTTGTGTGCC--C---T--AGGAGCC
1 TTA--TTTTTTTAAAAGTTGTGTGCCTTCATTTGAAAGAGCT
** * * *
13083506 TT-TCATTTTAAAAGTTGTGTACCTTCATTTTGAAAGACCC
1 TTATTTTTTTAAAAGTTGTGTGCCTTCA-TTTGAAAGAGCT
* * * ** *
13083546 TTAATTTTTTAAAA-TAGTTATGCCTTTGTTTG-AAGTAGTT
1 TTATTTTTTTAAAAGTTG-TGTGCCTTCATTTGAAAG-AGCT
* * * *
13083586 TTATTTTTTAAAAAGTTGTATGCCCTCATTTGAATA-AG-A
1 TTATTTTTTTAAAAGTTGTGTGCCTTCATTTGAA-AGAGCT
* * *
13083625 TT-TTTCTTT-AAAGTTGTATGCCTTCATTTGAAGGAGCT
1 TTATTTTTTTAAAAGTTGTGTGCCTTCATTTGAAAGAGCT
13083663 TTA-TTTTTTAAGAAGTTGTGT
1 TTATTTTTTTAA-AAGTTGTGT
13083684 ATTTTCATTT
Statistics
Matches: 190, Mismatches: 41, Indels: 45
0.69 0.15 0.16
Matches are distributed among these distances:
32 17 0.09
34 1 0.01
35 7 0.04
37 25 0.13
38 13 0.07
39 8 0.04
40 55 0.29
41 44 0.23
42 20 0.11
ACGTcount: A:0.25, C:0.11, G:0.16, T:0.48
Consensus pattern (40 bp):
TTATTTTTTTAAAAGTTGTGTGCCTTCATTTGAAAGAGCT
Found at i:13083890 original size:12 final size:12
Alignment explanation
Indices: 13083873--13083908 Score: 72
Period size: 12 Copynumber: 3.0 Consensus size: 12
13083863 GTCCATGGCC
13083873 CAAACCAATTGA
1 CAAACCAATTGA
13083885 CAAACCAATTGA
1 CAAACCAATTGA
13083897 CAAACCAATTGA
1 CAAACCAATTGA
13083909 GCACAAACTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.50, C:0.25, G:0.08, T:0.17
Consensus pattern (12 bp):
CAAACCAATTGA
Found at i:13083953 original size:3 final size:3
Alignment explanation
Indices: 13083947--13083981 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
13083937 GAATTTTTTT
*
13083947 TTA TTA TTT TTGA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA T
13083982 AATATTTGCA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 27 0.93
4 2 0.07
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:13085008 original size:15 final size:16
Alignment explanation
Indices: 13084976--13085011 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
13084966 TTTATGCAAA
*
13084976 TTTTATTTAAATTAAT
1 TTTTATTTAAAATAAT
13084992 TTTTATTTAAAAT-AT
1 TTTTATTTAAAATAAT
13085007 TTTTA
1 TTTTA
13085012 AATAAATCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TTTTATTTAAAATAAT
Found at i:13089379 original size:17 final size:17
Alignment explanation
Indices: 13089330--13089387 Score: 55
Period size: 17 Copynumber: 3.3 Consensus size: 17
13089320 TATTATCATG
* *
13089330 ATAAATAAATCATCACTA
1 ATAATTAAATCATTA-TA
13089348 A-AATTAATCATCATTATA
1 ATAATTAA--ATCATTATA
*
13089366 ATAATTAAATCATTACA
1 ATAATTAAATCATTATA
13089383 ATAAT
1 ATAAT
13089388 CTTAAAAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
17 18 0.53
18 4 0.12
19 12 0.35
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.34
Consensus pattern (17 bp):
ATAATTAAATCATTATA
Found at i:13090692 original size:24 final size:24
Alignment explanation
Indices: 13090648--13090693 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
13090638 TTAAATTTAA
13090648 TTTTAAAATATATTAATATAATTT
1 TTTTAAAATATATTAATATAATTT
*
13090672 TTTTAATAATATTTTAA-ATAAT
1 TTTTAA-AATATATTAATATAAT
13090694 AACTGACCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (24 bp):
TTTTAAAATATATTAATATAATTT
Found at i:13104534 original size:44 final size:44
Alignment explanation
Indices: 13104420--13104748 Score: 387
Period size: 44 Copynumber: 7.5 Consensus size: 44
13104410 TCAATAAACC
* *
13104420 TTATTTATTTTTTAAAAGTTGTTGAGCCTCTGATTAGAAGAGCC
1 TTATTTATTTTTTCAAAGTTGTTGAGCCTCTGATTAGAAGAGCT
* * *
13104464 TTAATTA-TTTTTCAAAGTTATTGAGCCTCTGATTAGAGGAGCT
1 TTATTTATTTTTTCAAAGTTGTTGAGCCTCTGATTAGAAGAGCT
* * *
13104507 TTATTTATTTTTTCAAAGTTGTTGAGCCT-TTATTTAGAGGAGCC
1 TTATTTATTTTTTCAAAGTTGTTGAGCCTCTGA-TTAGAAGAGCT
* *
13104551 TTATTTA-TTTTTCAAAGTTGTTAAGCCTCT-ATTTAGAGGAGCT
1 TTATTTATTTTTTCAAAGTTGTTGAGCCTCTGA-TTAGAAGAGCT
* * *
13104594 TTATTTATTTTTCCAAAGTTGTTGAGCCTCTAATTAGATGAGCT
1 TTATTTATTTTTTCAAAGTTGTTGAGCCTCTGATTAGAAGAGCT
* * *
13104638 TTATTTATTTTTTCAAAGTTGTTAAACCTCTTATTAGAAGAGCT
1 TTATTTATTTTTTCAAAGTTGTTGAGCCTCTGATTAGAAGAGCT
* * ** * * *
13104682 TTATTTACTTTTCCAAAGTCATTGAGCATTTGTTTAGAAGAGCT
1 TTATTTATTTTTTCAAAGTTGTTGAGCCTCTGATTAGAAGAGCT
*
13104726 GTATTTATTTTTTCAAAAGTTGT
1 TTATTTATTTTTTC-AAAGTTGT
13104749 AAGCCTTTGC
Statistics
Matches: 245, Mismatches: 34, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
43 79 0.32
44 159 0.65
45 7 0.03
ACGTcount: A:0.26, C:0.12, G:0.16, T:0.46
Consensus pattern (44 bp):
TTATTTATTTTTTCAAAGTTGTTGAGCCTCTGATTAGAAGAGCT
Found at i:13104565 original size:87 final size:87
Alignment explanation
Indices: 13104420--13104754 Score: 410
Period size: 87 Copynumber: 3.8 Consensus size: 87
13104410 TCAATAAACC
** * *
13104420 TTATTTATTTTTTAAAAGTTGTTGAGCCTCTGA-TTAGAAGAGCCTTAATTA-TTTTTCAAAGTT
1 TTATTTATTTTTCCAAAGTTGTTGAGCCT-TTATTTAGAAGAGCCTTATTTATTTTTTCAAAGTT
* *
13104483 ATTGAGCCTCTGATTAGAGGAGCT
65 GTTAAGCCTCT-ATTAGAGGAGCT
* *
13104507 TTATTTATTTTTTCAAAGTTGTTGAGCCTTTATTTAGAGGAGCCTTATTTA-TTTTTCAAAGTTG
1 TTATTTATTTTTCCAAAGTTGTTGAGCCTTTATTTAGAAGAGCCTTATTTATTTTTTCAAAGTTG
13104571 TTAAGCCTCTATTTAGAGGAGCT
66 TTAAGCCTCTA-TTAGAGGAGCT
* * * *
13104594 TTATTTATTTTTCCAAAGTTGTTGAGCCTCTAATTAGATGAGCTTTATTTATTTTTTCAAAGTTG
1 TTATTTATTTTTCCAAAGTTGTTGAGCCTTTATTTAGAAGAGCCTTATTTATTTTTTCAAAGTTG
* *
13104659 TTAAACCTCTTATTAGAAGAGCT
66 TTAAGCCTC-TATTAGAGGAGCT
* ** * *
13104682 TTATTTACTTTTCCAAAGTCATTGAGCATTTGTTTAGAAGAG-CTGTATTTATTTTTTCAAAAGT
1 TTATTTATTTTTCCAAAGTTGTTGAGCCTTTATTTAGAAGAGCCT-TATTTATTTTTTC-AAAGT
13104746 TG-TAAGCCT
64 TGTTAAGCCT
13104755 TTGCTTGGGG
Statistics
Matches: 219, Mismatches: 23, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
86 3 0.01
87 123 0.56
88 84 0.38
89 9 0.04
ACGTcount: A:0.27, C:0.12, G:0.16, T:0.45
Consensus pattern (87 bp):
TTATTTATTTTTCCAAAGTTGTTGAGCCTTTATTTAGAAGAGCCTTATTTATTTTTTCAAAGTTG
TTAAGCCTCTATTAGAGGAGCT
Found at i:13104997 original size:10 final size:10
Alignment explanation
Indices: 13104982--13105015 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
13104972 ATTTTGTTTA
13104982 TTTATTTATT
1 TTTATTTATT
13104992 TTTATTTATT
1 TTTATTTATT
*
13105002 TGTTATTTCTT
1 T-TTATTTATT
13105013 TTT
1 TTT
13105016 TTTTTCAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.79
Consensus pattern (10 bp):
TTTATTTATT
Found at i:13106341 original size:185 final size:186
Alignment explanation
Indices: 13106027--13106380 Score: 438
Period size: 186 Copynumber: 1.9 Consensus size: 186
13106017 TTAATTTAGG
* * * * *
13106027 AAAAATAAAAAATAAAAAAATATTTTTGAGAACAAATAATAATTATCCAATGATAAAATTTTTAG
1 AAAAATAAAAAATAAAAAAATATTTTTGAGAAAAAATAATAATTACCCAAAGATAAAATTCTTAA
* *
13106092 AAATTTCAAATAGTAAATTTCTATAAAATTCCTAGGTGAGAAATTTTACCTAAATTTGTCCCAAA
66 AAATTTCAAATAGTAAATTTCTATAAAATTCCTAGGTGAAAAATTTTA-CTAAATTTATCCCAAA
*
13106157 TGGTGGAATAATTTAGATAAAATTTCAATAACAA-TAATTAATATTTATTTTCAAACA
130 TGGTGGAATAATTTAGATAAAATTTAAATAA-AAGTAATTAATATTTATTTTCAAACA
* * *
13106214 AAAAATAAAAAATATTAATAAA-A-TTTTGA-AAAAAATACTAATTACCCAAAGATAAGATTCTT
1 AAAAATAAAAAATA--AAAAAATATTTTTGAGAAAAAATAATAATTACCCAAAGATAAAATTCTT
*
13106276 AAAAATTTTAAAT-GATAAATTTCTA-AGAAA-T-CTATGGGTGAAAAATTTCT-CTAAATTTAT
64 AAAAATTTCAAATAG-TAAATTTCTATA-AAATTCCTA--GGTGAAAAATTT-TACTAAATTTAT
* *
13106336 CCCAAATGGTGGAATGATTTAGATGAAATTTAAATAAAAGTAATT
124 CCCAAATGGTGGAATAATTTAGATAAAATTTAAATAAAAGTAATT
13106381 GTATTATTTT
Statistics
Matches: 145, Mismatches: 14, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
184 5 0.03
185 51 0.35
186 62 0.43
187 21 0.14
188 1 0.01
189 5 0.03
ACGTcount: A:0.49, C:0.08, G:0.09, T:0.34
Consensus pattern (186 bp):
AAAAATAAAAAATAAAAAAATATTTTTGAGAAAAAATAATAATTACCCAAAGATAAAATTCTTAA
AAATTTCAAATAGTAAATTTCTATAAAATTCCTAGGTGAAAAATTTTACTAAATTTATCCCAAAT
GGTGGAATAATTTAGATAAAATTTAAATAAAAGTAATTAATATTTATTTTCAAACA
Found at i:13108271 original size:34 final size:34
Alignment explanation
Indices: 13108228--13108293 Score: 123
Period size: 34 Copynumber: 1.9 Consensus size: 34
13108218 TTTTTTATAT
*
13108228 TAATGAGATTGTATTTTGGCTGAGAAAAATAAGG
1 TAATGAGATTATATTTTGGCTGAGAAAAATAAGG
13108262 TAATGAGATTATATTTTGGCTGAGAAAAATAA
1 TAATGAGATTATATTTTGGCTGAGAAAAATAA
13108294 AGGTCATTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.41, C:0.03, G:0.23, T:0.33
Consensus pattern (34 bp):
TAATGAGATTATATTTTGGCTGAGAAAAATAAGG
Found at i:13114414 original size:11 final size:10
Alignment explanation
Indices: 13114387--13114513 Score: 71
Period size: 10 Copynumber: 12.5 Consensus size: 10
13114377 TGTTAGCATA
13114387 AAAAAATTTT
1 AAAAAATTTT
13114397 AAAAAATTGTT
1 AAAAAATT-TT
* *
13114408 TAAAAATTCT
1 AAAAAATTTT
*
13114418 AAAAAATATT
1 AAAAAATTTT
*
13114428 -AAGAATTTT
1 AAAAAATTTT
* *
13114437 TACAAATTTT
1 AAAAAATTTT
**
13114447 ATAAATTTTTT
1 A-AAAAATTTT
*
13114458 TAAAAATTTT
1 AAAAAATTTT
*
13114468 -AAAATTTTCT
1 AAAAAATTT-T
*
13114478 AACAAATTTTT
1 AA-AAAATTTT
**
13114489 AAAAACA-TCA
1 AAAAA-ATTTT
13114499 AAAAAATTTT
1 AAAAAATTTT
13114509 AAAAA
1 AAAAA
13114514 CCTAAAAAAA
Statistics
Matches: 87, Mismatches: 22, Indels: 16
0.70 0.18 0.13
Matches are distributed among these distances:
9 15 0.17
10 46 0.53
11 19 0.22
12 7 0.08
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.40
Consensus pattern (10 bp):
AAAAAATTTT
Found at i:13114492 original size:21 final size:20
Alignment explanation
Indices: 13114389--13114492 Score: 81
Period size: 20 Copynumber: 5.2 Consensus size: 20
13114379 TTAGCATAAA
*
13114389 AAAATTTT-AAAAAATTGTTT
1 AAAATTTTCTAAAAATT-TTT
* * *
13114409 AAAA-ATTCTAAAAAATATT
1 AAAATTTTCTAAAAATTTTT
*
13114428 AAGAATTTT-TACAAATTTTAT
1 AA-AATTTTCTAAAAATTTT-T
* *
13114449 AAATTTTTTTAAAAA-TTTT
1 AAAATTTTCTAAAAATTTTT
13114468 AAAATTTTCTAACAAATTTTT
1 AAAATTTTCTAA-AAATTTTT
13114489 AAAA
1 AAAA
13114493 ACATCAAAAA
Statistics
Matches: 65, Mismatches: 12, Indels: 13
0.72 0.13 0.14
Matches are distributed among these distances:
19 17 0.26
20 30 0.46
21 18 0.28
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (20 bp):
AAAATTTTCTAAAAATTTTT
Done.