Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 105 of 279
Found at i:33385350 original size:22 final size:21
Alignment explanation
Indices: 33385325--33385366 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
33385315 ATTATTAACG
33385325 TAATGAATTTTAATTAATTTTA
1 TAATGAATTTTAATT-ATTTTA
* *
33385347 TAATTAATTTTGATTATTTT
1 TAATGAATTTTAATTATTTT
33385367 CGACAGATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.60
Consensus pattern (21 bp):
TAATGAATTTTAATTATTTTA
Found at i:33385518 original size:22 final size:22
Alignment explanation
Indices: 33385492--33385536 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
33385482 ATTATGTGTA
33385492 TTAATTCATAATATAA-TTAATT
1 TTAATTCAT-ATATAATTTAATT
* *
33385514 TTAATTTATATCTAATTTAATT
1 TTAATTCATATATAATTTAATT
33385536 T
1 T
33385537 GGGTTAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (22 bp):
TTAATTCATATATAATTTAATT
Found at i:33387620 original size:20 final size:23
Alignment explanation
Indices: 33387570--33387625 Score: 73
Period size: 21 Copynumber: 2.5 Consensus size: 23
33387560 AAAGTGAATG
33387570 GAATTATATTGAATTGAAAATATA
1 GAATTA-ATTGAATTGAAAATATA
*
33387594 TAATTAATT-AATT-AAAATAT-
1 GAATTAATTGAATTGAAAATATA
33387614 GAATTAATTGAA
1 GAATTAATTGAA
33387626 AACTGAAAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
20 8 0.28
21 9 0.31
22 4 0.14
23 3 0.10
24 5 0.17
ACGTcount: A:0.52, C:0.00, G:0.09, T:0.39
Consensus pattern (23 bp):
GAATTAATTGAATTGAAAATATA
Found at i:33388000 original size:18 final size:18
Alignment explanation
Indices: 33387947--33388014 Score: 73
Period size: 18 Copynumber: 3.7 Consensus size: 18
33387937 AAAGATCGAC
*
33387947 TGTTACTGAATAATTTAAT
1 TGTTACTGAATAA-TTGAT
* *
33387966 TGTTACTGTATATTTGAT
1 TGTTACTGAATAATTGAT
* *
33387984 TTTTACTGAATAATTGAC
1 TGTTACTGAATAATTGAT
*
33388002 TGTTACTGGATAA
1 TGTTACTGAATAA
33388015 CCGATCAACA
Statistics
Matches: 40, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
18 29 0.73
19 11 0.28
ACGTcount: A:0.31, C:0.07, G:0.15, T:0.47
Consensus pattern (18 bp):
TGTTACTGAATAATTGAT
Found at i:33388556 original size:56 final size:56
Alignment explanation
Indices: 33388487--33388604 Score: 195
Period size: 56 Copynumber: 2.1 Consensus size: 56
33388477 AATTTTACAA
* *
33388487 TTGTTTTTATTGTGTTTTAAAGTTTAGA-TTGTAATTTTATTTTGTAGTTATTAATT
1 TTGTTTTTATTGTGTTTTAAAGTTTAAAGTT-TAATTTTATTTTATAGTTATTAATT
33388543 TTGTTTTTATTGTGTTTTAAAGTTTAAAGTTTAATTTTATTTTATAGTTATTAATT
1 TTGTTTTTATTGTGTTTTAAAGTTTAAAGTTTAATTTTATTTTATAGTTATTAATT
33388599 TT-TTTT
1 TTGTTTT
33388605 ATCTTTTAAG
Statistics
Matches: 59, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
55 4 0.07
56 53 0.90
57 2 0.03
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (56 bp):
TTGTTTTTATTGTGTTTTAAAGTTTAAAGTTTAATTTTATTTTATAGTTATTAATT
Found at i:33391126 original size:18 final size:19
Alignment explanation
Indices: 33391105--33391151 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
33391095 TTACTTATTA
*
33391105 AATTATTTTTCTTT-AATT
1 AATTATTTTTCTTTAAAGT
33391123 AATT-TTTATT-TTTAAAGT
1 AATTATTT-TTCTTTAAAGT
33391141 AATTATTTTTC
1 AATTATTTTTC
33391152 ATTATCTCGA
Statistics
Matches: 24, Mismatches: 1, Indels: 7
0.75 0.03 0.22
Matches are distributed among these distances:
17 6 0.25
18 15 0.62
19 3 0.12
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (19 bp):
AATTATTTTTCTTTAAAGT
Found at i:33391273 original size:18 final size:18
Alignment explanation
Indices: 33391204--33391318 Score: 88
Period size: 18 Copynumber: 6.3 Consensus size: 18
33391194 GCCGATCAAT
*
33391204 TGATTGATACTGAATAAC
1 TGATTGTTACTGAATAAC
* * *
33391222 TGATTATTATTGAATAAT
1 TGATTGTTACTGAATAAC
**
33391240 TGATTGTTACCAAATAAC
1 TGATTGTTACTGAATAAC
* *
33391258 TGACTGTTACTGAATAAA
1 TGATTGTTACTGAATAAC
* * * *
33391276 TAATTATT-CTGATTGAC
1 TGATTGTTACTGAATAAC
*
33391293 TGATTGTTAATGAATATTAC
1 TGATTGTTACTGAATA--AC
33391313 TGATTG
1 TGATTG
33391319 ATTAATTGCT
Statistics
Matches: 70, Mismatches: 24, Indels: 4
0.71 0.24 0.04
Matches are distributed among these distances:
17 12 0.17
18 50 0.71
20 8 0.11
ACGTcount: A:0.36, C:0.09, G:0.15, T:0.41
Consensus pattern (18 bp):
TGATTGTTACTGAATAAC
Found at i:33391334 original size:28 final size:27
Alignment explanation
Indices: 33391280--33391334 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
33391270 AATAAATAAT
* *
33391280 TATTCTGATTGACTGATTGTTAATGAA
1 TATTCTGATTGACTAATTGCTAATGAA
* *
33391307 TATTACTGATTGATTAATTGCTATTGAA
1 TATT-CTGATTGACTAATTGCTAATGAA
33391335 AAATAATAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
27 4 0.17
28 19 0.83
ACGTcount: A:0.31, C:0.07, G:0.16, T:0.45
Consensus pattern (27 bp):
TATTCTGATTGACTAATTGCTAATGAA
Found at i:33392344 original size:16 final size:15
Alignment explanation
Indices: 33392319--33392366 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 15
33392309 CTATTTTAAG
33392319 TTTATTTTAATTTTA
1 TTTATTTTAATTTTA
33392334 TTTATTTTTAATTATTA
1 TTTA-TTTTAATT-TTA
33392351 -TTATTTTAGATTTTA
1 TTTATTTTA-ATTTTA
33392366 T
1 T
33392367 ATTAATTTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
15 12 0.41
16 14 0.48
17 3 0.10
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (15 bp):
TTTATTTTAATTTTA
Found at i:33398962 original size:15 final size:16
Alignment explanation
Indices: 33398942--33398971 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
33398932 GCAACCCAAA
33398942 TTTATTTTT-ATTTAT
1 TTTATTTTTAATTTAT
33398957 TTTATTTTTAATTTA
1 TTTATTTTTAATTTA
33398972 AGTATATTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTATTTTTAATTTAT
Found at i:33399249 original size:15 final size:15
Alignment explanation
Indices: 33399231--33399259 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
33399221 CCAACTACCC
33399231 ATCCATCAACCCAAT
1 ATCCATCAACCCAAT
33399246 ATCCATCAACCCAA
1 ATCCATCAACCCAA
33399260 ACCCAATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.41, G:0.00, T:0.17
Consensus pattern (15 bp):
ATCCATCAACCCAAT
Found at i:33399444 original size:21 final size:21
Alignment explanation
Indices: 33399392--33399445 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 21
33399382 TGACCCAAAG
33399392 AAACAAAAAAAGGAAAATAAA
1 AAACAAAAAAAGGAAAATAAA
*
33399413 AAAGAAGAAAAA-GAAAATTAAA
1 AAACAA-AAAAAGGAAAA-TAAA
*
33399435 ACACAAAAAAA
1 AAACAAAAAAA
33399446 ACAAAATCCC
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
21 15 0.54
22 13 0.46
ACGTcount: A:0.80, C:0.06, G:0.09, T:0.06
Consensus pattern (21 bp):
AAACAAAAAAAGGAAAATAAA
Found at i:33399445 original size:22 final size:22
Alignment explanation
Indices: 33399392--33399452 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
33399382 TGACCCAAAG
*
33399392 AAACAAAAAAAGGAAAA-TAAA
1 AAACAAAAAAAAGAAAATTAAA
* *
33399413 AAAGAAGAAAAAGAAAATTAAA
1 AAACAAAAAAAAGAAAATTAAA
* *
33399435 ACACAAAAAAAACAAAAT
1 AAACAAAAAAAAGAAAAT
33399453 CCCTAATTTC
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 14 0.44
22 18 0.56
ACGTcount: A:0.79, C:0.07, G:0.08, T:0.07
Consensus pattern (22 bp):
AAACAAAAAAAAGAAAATTAAA
Found at i:33402660 original size:55 final size:56
Alignment explanation
Indices: 33402595--33402709 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
33402585 AGCATGGCTG
* * *
33402595 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * *
33402651 CCAGA-ACAGATATACGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
33402706 CCAG
1 CCAG
33402710 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.57
56 21 0.41
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (56 bp):
CCAGATACAGATAAACGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:33402706 original size:28 final size:27
Alignment explanation
Indices: 33402620--33402709 Score: 101
Period size: 27 Copynumber: 3.2 Consensus size: 27
33402610 GTGACAGAGT
*
33402620 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
** *
33402649 CACCAGAACAGAT-ATACGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
33402676 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
33402704 CACCAG
1 CACCAG
33402710 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.44
28 22 0.42
29 7 0.13
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.19
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:33402865 original size:28 final size:28
Alignment explanation
Indices: 33402816--33402879 Score: 83
Period size: 28 Copynumber: 2.3 Consensus size: 28
33402806 AATTAACCCT
* *
33402816 AGGGGTATAAAGGTCATTTTGCATACAG
1 AGGGGTATAAAGGTAATATTGCATACAG
* * *
33402844 AGGGTTATAATGGTAATATTGCATACAT
1 AGGGGTATAAAGGTAATATTGCATACAG
33402872 AGGGGTAT
1 AGGGGTAT
33402880 TCTAGTAAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.33, C:0.08, G:0.28, T:0.31
Consensus pattern (28 bp):
AGGGGTATAAAGGTAATATTGCATACAG
Found at i:33403826 original size:12 final size:13
Alignment explanation
Indices: 33403807--33403839 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
33403797 GGGTTCGACT
33403807 ATGGAGAAGGAAG
1 ATGGAGAAGGAAG
*
33403820 A-GGAGAAGGTAG
1 ATGGAGAAGGAAG
33403832 ATGGAGAA
1 ATGGAGAA
33403840 AAATAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.45, C:0.00, G:0.45, T:0.09
Consensus pattern (13 bp):
ATGGAGAAGGAAG
Found at i:33415488 original size:14 final size:14
Alignment explanation
Indices: 33415465--33415495 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
33415455 TATTGCGTTC
*
33415465 TTAGTTAATTTAGA
1 TTAGTAAATTTAGA
33415479 TTAGTAAATTTAGA
1 TTAGTAAATTTAGA
33415493 TTA
1 TTA
33415496 AAAAAAACTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.48
Consensus pattern (14 bp):
TTAGTAAATTTAGA
Found at i:33416733 original size:53 final size:53
Alignment explanation
Indices: 33416673--33416780 Score: 216
Period size: 53 Copynumber: 2.0 Consensus size: 53
33416663 TTATAAAGTT
33416673 CAACTAAAACATATAACAACCGACCACTATCAAATAAAAGGGTAATTTTGCTA
1 CAACTAAAACATATAACAACCGACCACTATCAAATAAAAGGGTAATTTTGCTA
33416726 CAACTAAAACATATAACAACCGACCACTATCAAATAAAAGGGTAATTTTGCTA
1 CAACTAAAACATATAACAACCGACCACTATCAAATAAAAGGGTAATTTTGCTA
33416779 CA
1 CA
33416781 TAAAACCCTT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 55 1.00
ACGTcount: A:0.47, C:0.21, G:0.09, T:0.22
Consensus pattern (53 bp):
CAACTAAAACATATAACAACCGACCACTATCAAATAAAAGGGTAATTTTGCTA
Found at i:33419366 original size:21 final size:22
Alignment explanation
Indices: 33419318--33419369 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
33419308 AATTAGCATA
33419318 TTATTTTATTCTATTATTTACT
1 TTATTTTATTCTATTATTTACT
33419340 TT-TTTTATT-T-TTCATTATA-T
1 TTATTTTATTCTATT-ATT-TACT
33419360 TTATTTTATT
1 TTATTTTATT
33419370 AATCCATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
19 2 0.07
20 7 0.26
21 16 0.59
22 2 0.07
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.73
Consensus pattern (22 bp):
TTATTTTATTCTATTATTTACT
Found at i:33428803 original size:27 final size:29
Alignment explanation
Indices: 33428748--33428805 Score: 77
Period size: 30 Copynumber: 2.1 Consensus size: 29
33428738 GTATGTAATT
*
33428748 AAATAATTATTAAAATACTTGACATTTAA
1 AAATAATTACTAAAATACTTGACATTTAA
33428777 AAATAAATTACTAAAATA-TTGA-A-TTAA
1 AAAT-AATTACTAAAATACTTGACATTTAA
33428804 AA
1 AA
33428806 TATCAAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
27 6 0.22
28 1 0.04
29 8 0.30
30 12 0.44
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.34
Consensus pattern (29 bp):
AAATAATTACTAAAATACTTGACATTTAA
Found at i:33433390 original size:18 final size:18
Alignment explanation
Indices: 33433363--33433455 Score: 150
Period size: 18 Copynumber: 5.2 Consensus size: 18
33433353 TACGACCGTT
33433363 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
33433381 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
*
33433399 TACAGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
33433417 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
*
33433435 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
33433453 TAC
1 TAC
33433456 AGTAGTTGGG
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 68 1.00
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:33438208 original size:15 final size:15
Alignment explanation
Indices: 33438188--33438227 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
33438178 TCACTTAGTG
33438188 GTGGTGGAGGAGGAA
1 GTGGTGGAGGAGGAA
* *
33438203 GTGGTGGAGGTGGAG
1 GTGGTGGAGGAGGAA
*
33438218 GTGGCGGAGG
1 GTGGTGGAGG
33438228 GGGTGGTGCC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.17, C:0.03, G:0.65, T:0.15
Consensus pattern (15 bp):
GTGGTGGAGGAGGAA
Found at i:33438217 original size:18 final size:18
Alignment explanation
Indices: 33438184--33438218 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
33438174 TAGGTCACTT
*
33438184 AGTGGTGGTGGAGGAGGA
1 AGTGGTGGAGGAGGAGGA
*
33438202 AGTGGTGGAGGTGGAGG
1 AGTGGTGGAGGAGGAGG
33438219 TGGCGGAGGG
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:0.20, C:0.00, G:0.63, T:0.17
Consensus pattern (18 bp):
AGTGGTGGAGGAGGAGGA
Found at i:33438422 original size:36 final size:36
Alignment explanation
Indices: 33438382--33438497 Score: 133
Period size: 36 Copynumber: 3.1 Consensus size: 36
33438372 TGAAGGATCA
33438382 GGGTATGGGTCAGGATCCGGATCGGGGTATGGGTCT
1 GGGTATGGGTCAGGATCCGGATCGGGGTATGGGTCT
** *
33438418 GGGTATGGGTCAGGATCTAGATCAGGGTATGGGTCT
1 GGGTATGGGTCAGGATCCGGATCGGGGTATGGGTCT
* *
33438454 GGGTATAGGTATAGGTCAGGATCGGGATCGTGGTATGGGTCT
1 GGGTAT--G----GGTCAGGATCCGGATCGGGGTATGGGTCT
33438496 GG
1 GG
33438498 TGGTGGCATA
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
36 39 0.58
38 1 0.01
42 27 0.40
ACGTcount: A:0.17, C:0.11, G:0.45, T:0.27
Consensus pattern (36 bp):
GGGTATGGGTCAGGATCCGGATCGGGGTATGGGTCT
Found at i:33438423 original size:12 final size:12
Alignment explanation
Indices: 33438379--33438459 Score: 63
Period size: 12 Copynumber: 6.8 Consensus size: 12
33438369 GGGTGAAGGA
33438379 TCAGGGTATGGG
1 TCAGGGTATGGG
* ** *
33438391 TCAGGATCCGGA
1 TCAGGGTATGGG
*
33438403 TCGGGGTATGGG
1 TCAGGGTATGGG
*
33438415 TCTGGGTATGGG
1 TCAGGGTATGGG
* * * *
33438427 TCAGGATCTAGA
1 TCAGGGTATGGG
33438439 TCAGGGTATGGG
1 TCAGGGTATGGG
*
33438451 TCTGGGTAT
1 TCAGGGTAT
33438460 AGGTATAGGT
Statistics
Matches: 49, Mismatches: 20, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
12 49 1.00
ACGTcount: A:0.17, C:0.12, G:0.43, T:0.27
Consensus pattern (12 bp):
TCAGGGTATGGG
Found at i:33438606 original size:24 final size:24
Alignment explanation
Indices: 33438574--33438623 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
33438564 CAGTGGAGAA
* *
33438574 GGGTCTGGATCTGGATATGAAAGT
1 GGGTCTGGATCCGGATACGAAAGT
*
33438598 GGGTCTGGATCCGGATACGGAAGT
1 GGGTCTGGATCCGGATACGAAAGT
33438622 GG
1 GG
33438624 AGTTGGTGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.22, C:0.12, G:0.42, T:0.24
Consensus pattern (24 bp):
GGGTCTGGATCCGGATACGAAAGT
Found at i:33447014 original size:4 final size:4
Alignment explanation
Indices: 33447005--33447040 Score: 54
Period size: 4 Copynumber: 9.0 Consensus size: 4
33446995 TTAATAGTTG
* *
33447005 CATA CATA CATA CATA CATG CATA CATA CACA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA
33447041 TATATGAACA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.47, C:0.28, G:0.03, T:0.22
Consensus pattern (4 bp):
CATA
Found at i:33455733 original size:54 final size:54
Alignment explanation
Indices: 33455648--33455753 Score: 176
Period size: 54 Copynumber: 2.0 Consensus size: 54
33455638 TGTTGACGTT
* *
33455648 GTTGATCTCCTGAAATGGAGTTTCCTGGAACTGGGATTCTTGGACACGTCCACC
1 GTTGATCTCCTGAAACGGAGTTTCCTGGAACTGGGATTCTTGGAAACGTCCACC
* *
33455702 GTTGATCTCCTGAAACGGAGTTTCGTTGAACTGGGATTCTTGGAAACGTCCA
1 GTTGATCTCCTGAAACGGAGTTTCCTGGAACTGGGATTCTTGGAAACGTCCA
33455754 GTTTCTTCAT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 48 1.00
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.30
Consensus pattern (54 bp):
GTTGATCTCCTGAAACGGAGTTTCCTGGAACTGGGATTCTTGGAAACGTCCACC
Found at i:33465968 original size:15 final size:14
Alignment explanation
Indices: 33465948--33465986 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
33465938 TCATAAATAT
*
33465948 ATATACATACTAAAA
1 ATATACATAAT-AAA
*
33465963 ATATACATAATAAT
1 ATATACATAATAAA
33465977 ATATACATAA
1 ATATACATAA
33465987 AAAGTACACT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 12 0.55
15 10 0.45
ACGTcount: A:0.59, C:0.10, G:0.00, T:0.31
Consensus pattern (14 bp):
ATATACATAATAAA
Found at i:33465999 original size:26 final size:28
Alignment explanation
Indices: 33465946--33466000 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
33465936 CTTCATAAAT
*
33465946 ATATATACATACTAAAAATATACATAATA
1 ATATATACATAC-AAAAATACACATAATA
*
33465975 ATATATACATA-AAAAGTACAC-TAATA
1 ATATATACATACAAAAATACACATAATA
33466001 TTTATAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 5 0.21
27 8 0.33
29 11 0.46
ACGTcount: A:0.58, C:0.11, G:0.02, T:0.29
Consensus pattern (28 bp):
ATATATACATACAAAAATACACATAATA
Found at i:33466028 original size:15 final size:15
Alignment explanation
Indices: 33466008--33466050 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
33465998 ATATTTATAA
33466008 ATAATAATAGTAAAT
1 ATAATAATAGTAAAT
*
33466023 ATAATAATATTAAAT
1 ATAATAATAGTAAAT
*
33466038 AGAATTAATAGTA
1 ATAA-TAATAGTA
33466051 CAAATTTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
15 17 0.71
16 7 0.29
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.35
Consensus pattern (15 bp):
ATAATAATAGTAAAT
Found at i:33468007 original size:89 final size:86
Alignment explanation
Indices: 33467872--33468778 Score: 338
Period size: 84 Copynumber: 10.8 Consensus size: 86
33467862 ATAAACTAAA
* * *
33467872 AAACAGAA-ATTGAAAATAGCTCAGTGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAACAGAATA-TGAAAATACCTCAGT--GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGT
*
33467936 TGATTTTTTTG-AAACT-TAATTT
63 TGATTTTTTTGAAAACTATAAATT
* * *
33467958 GAAA-AGTAGGTTTTGAAAATACCTC-GTCATGTGACCCGAGGCTCAACTCACTTCTCGCAATAT
1 -AAACAG-A--ATATGAAAATACCTCAG---TGTGACCCGAGGCTCAACTCACCTCTCGCAATAT
*
33468021 GAGTTGA--TTTTTGAAAAGTATAAATT
59 GAGTTGATTTTTTTGAAAACTATAAATT
* *
33468047 AAACAGAATATGAAAATACCTCAGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 AAACAGAATATGAAAATACCTCAGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
*
33468112 --TTTTTGACAAAC-AGAAA-T
66 TTTTTTTGA-AAACTATAAATT
** ** * *
33468130 --------T-T-AAAATACCTCAACGTATCCTGAGGCTCAACTCACATCTCGCAATATGAGTTGA
1 AAACAGAATATGAAAATACCTCAGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
* * *
33468185 ----TTT-AAAAC-AGACA-G
66 TTTTTTTGAAAACTATAAATT
** * ** ** * * * * * * *
33468199 AAATTGAAAAT--AGCT-CAGCA-CGTAAGCCAAGGCTCAACTCACTTCTTGCAATATGAGTTGG
1 AAACAGAATATGAAAATACCTCAGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
*
33468260 TCTTTTTTG-AAACT-TAATTT
66 T-TTTTTTGAAAACTATAAATT
* * * *
33468280 GAAA-AGTAGCTTTTGAAAATACCTC-GTCATGTAACCCGAGGCTCAACTCACTTCTCGCAATAT
1 -AAACAG-A--ATATGAAAATACCTCAG---TGTGACCCGAGGCTCAACTCACCTCTCGCAATAT
* * *
33468343 AAATTGA--TTTTTGAAAAGTATAAATT
59 GAGTTGATTTTTTTGAAAACTATAAATT
* * * * *
33468369 AAATAGAATTTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 AAACAGAATATGAAAATACCTCAGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
33468434 --TTTTTG-AAAC--------
66 TTTTTTTGAAAACTATAAATT
* * ** * * * *
33468444 AGACAGAA-ATCGAAAATAGCTCAACACGTGAGCCAAGGCTCAACTCACTTCTAGCAATATGAGT
1 AAACAGAATAT-GAAAATACCTC-A-GTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGT
* *
33468508 TGGTCTTTTTTG-AAACT-TAATTT
63 TGAT-TTTTTTGAAAACTATAAATT
* * * *
33468531 AAAAAGTAGCTTTTGAAAATACCTC-GTCATGCAACCCGAGGCTCAACTCACCTCTCGCAATATG
1 AAACAG-A--ATATGAAAATACCTCAGT-GTG--ACCCGAGGCTCAACTCACCTCTCGCAATATG
*
33468595 AGTTGA--TTTTTGAAAAGTATAAATT
60 AGTTGATTTTTTTGAAAACTATAAATT
* * * * *
33468620 GAAATA-AATAAAAACTGAAAATACCTCGACATGTGAGCCAAGGTTCAACTCACCTCTCGCAATA
1 -AAACAGAAT----A-TGAAAATACCTC-A-GTGTGACCCGAGGCTCAACTCACCTCTCGCAATA
*
33468684 TGAGTTGATTTTTTTTGAAAAGC-----A-G
58 TGAGTTGA-TTTTTTTGAAAA-CTATAAATT
* * * * * * *
33468709 AAACAGAA-ATTGAAATTACCTCAGCGTGTCCTGAGGCTCAAATCAGCTCTCACAATATGAGTTG
1 AAACAGAATA-TGAAAATACCTCAGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
33468773 ATTTTT
65 ATTTTT
33468779 GAAAACAGAA
Statistics
Matches: 627, Mismatches: 113, Indels: 166
0.69 0.12 0.18
Matches are distributed among these distances:
69 8 0.01
70 1 0.00
71 3 0.00
73 49 0.08
74 2 0.00
75 51 0.08
76 4 0.01
77 36 0.06
78 1 0.00
80 18 0.03
81 6 0.01
82 36 0.06
83 5 0.01
84 102 0.16
85 3 0.00
86 32 0.05
87 30 0.05
88 29 0.05
89 69 0.11
90 81 0.13
91 48 0.08
93 2 0.00
94 11 0.02
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (86 bp):
AAACAGAATATGAAAATACCTCAGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
TTTTTTTGAAAACTATAAATT
Found at i:33468171 original size:73 final size:73
Alignment explanation
Indices: 33468047--33468258 Score: 248
Period size: 73 Copynumber: 2.9 Consensus size: 73
33468037 AGTATAAATT
** * *
33468047 AAACAG-AATATGAAAATACCTCAGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAACAGAAAT-TGAAAATACCTCAACGTATCCTGAGGCTCAACTCACATCTCGCAATATGAGTTG
***
33468111 ATTTTTGAC
65 ATTTAAAAC
*
33468120 AAACAGAAATTTAAAATACCTCAACGTATCCTGAGGCTCAACTCACATCTCGCAATATGAGTTGA
1 AAACAGAAATTGAAAATACCTCAACGTATCCTGAGGCTCAACTCACATCTCGCAATATGAGTTGA
33468185 TTTAAAAC
66 TTTAAAAC
* * * * * *
33468193 AGACAGAAATTGAAAATAGCTCAGCACGTAAGCC-AAGGCTCAACTCACTTCTTGCAATATGAGT
1 AAACAGAAATTGAAAATACCTCA--ACGT-ATCCTGAGGCTCAACTCACATCTCGCAATATGAGT
33468257 TG
63 TG
33468259 GTCTTTTTTG
Statistics
Matches: 120, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
73 81 0.68
74 3 0.03
75 33 0.28
76 3 0.03
ACGTcount: A:0.36, C:0.22, G:0.17, T:0.26
Consensus pattern (73 bp):
AAACAGAAATTGAAAATACCTCAACGTATCCTGAGGCTCAACTCACATCTCGCAATATGAGTTGA
TTTAAAAC
Found at i:33468573 original size:251 final size:251
Alignment explanation
Indices: 33468126--33468696 Score: 857
Period size: 251 Copynumber: 2.3 Consensus size: 251
33468116 TGACAAACAG
* * *
33468126 AAATTT-AAAATACCTCAACGTATCCTGAGGCTCAACTCACATCTCGCAATATGAGTTGA--TTT
1 AAATTTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
* * *
33468188 AAAACAGACAGAAATTGAAAATAGCTCAGCACGTAAGCCAAGGCTCAACTCACTTCTTGCAATAT
66 AAAACAGACAGAAATCGAAAATAGCTCAACACGTAAGCCAAGGCTCAACTCACTTCTAGCAATAT
* *
33468253 GAGTTGGTCTTTTTTGAAACTTAATTTGAAAAGTAGCTTTTGAAAATACCTCGTCATGTAACCCG
131 GAGTTGGTCTTTTTTGAAACTTAATTTAAAAAGTAGCTTTTGAAAATACCTCGTCATGCAACCCG
*
33468318 AGGCTCAACTCACTTCTCGCAATATAAATTGATTTTTGAAAAGTATAAATT-AAAT
196 AGGCTCAACTCACCTCTCGCAATATAAATTGATTTTTGAAAAGTATAAATTGAAAT
33468373 AGAATTTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 A-AATTTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
* *
33468438 TGAAACAGACAGAAATCGAAAATAGCTCAACACGTGAGCCAAGGCTCAACTCACTTCTAGCAATA
65 TAAAACAGACAGAAATCGAAAATAGCTCAACACGTAAGCCAAGGCTCAACTCACTTCTAGCAATA
33468503 TGAGTTGGTCTTTTTTGAAACTTAATTTAAAAAGTAGCTTTTGAAAATACCTCGTCATGCAACCC
130 TGAGTTGGTCTTTTTTGAAACTTAATTTAAAAAGTAGCTTTTGAAAATACCTCGTCATGCAACCC
* *
33468568 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGTATAAATTGAAAT
195 GAGGCTCAACTCACCTCTCGCAATATAAATTGATTTTTGAAAAGTATAAATTGAAAT
* * * *
33468625 AAATAAAAACTGAAAATACCTC-GACATGTGAGCC-AAGGTTCAACTCACCTCTCGCAATATGAG
1 AAAT-----TTGAAAATACCTCAG-C--GTG-TCCTGAGGCTCAACTCACCTCTCGCAATATGAG
33468688 TTGATTTTT
57 TTGATTTTT
33468697 TTTGAAAAGC
Statistics
Matches: 293, Mismatches: 17, Indels: 17
0.90 0.05 0.05
Matches are distributed among these distances:
247 1 0.00
248 5 0.02
249 50 0.17
251 177 0.60
252 5 0.02
255 1 0.00
256 13 0.04
258 39 0.13
259 2 0.01
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (251 bp):
AAATTTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
AAAACAGACAGAAATCGAAAATAGCTCAACACGTAAGCCAAGGCTCAACTCACTTCTAGCAATAT
GAGTTGGTCTTTTTTGAAACTTAATTTAAAAAGTAGCTTTTGAAAATACCTCGTCATGCAACCCG
AGGCTCAACTCACCTCTCGCAATATAAATTGATTTTTGAAAAGTATAAATTGAAAT
Found at i:33475490 original size:93 final size:93
Alignment explanation
Indices: 33475378--33475549 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
33475368 GCCCATAAGT
* *
33475378 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
33475443 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
33475471 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
33475536 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
33475550 CAAACATCCT
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:33475545 original size:46 final size:46
Alignment explanation
Indices: 33475370--33475545 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
33475360 TGTAACCCGC
* *
33475370 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
33475416 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
33475462 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
33475509 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
33475546 TGCCCAAACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 70 0.63
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:33479901 original size:39 final size:40
Alignment explanation
Indices: 33479858--33479966 Score: 107
Period size: 38 Copynumber: 2.8 Consensus size: 40
33479848 GATAGTTTGT
*
33479858 AGTAATAGTTGACACCCAGTGTCTCATCG-GCCTAGCCGA
1 AGTAATAGTTGACACCCAGTGTCTCATCGAACCTAGCCGA
** ** * *
33479897 AGTAA-AGTTGGTACCCAGTACCTCATCGAATCTATCCGA
1 AGTAATAGTTGACACCCAGTGTCTCATCGAACCTAGCCGA
*
33479936 AGAAATA-TAGTGACACCCAGTGTCTCATCGA
1 AGTAATAGT--TGACACCCAGTGTCTCATCGA
33479967 CTCGAGGTCG
Statistics
Matches: 54, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
38 19 0.35
39 17 0.31
40 1 0.02
41 17 0.31
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (40 bp):
AGTAATAGTTGACACCCAGTGTCTCATCGAACCTAGCCGA
Found at i:33488508 original size:17 final size:17
Alignment explanation
Indices: 33488488--33488536 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 17
33488478 TAATACTTCA
33488488 TAAATATATATACATAC
1 TAAATATATATACATAC
*
33488505 TAAA-A-ATATACATAA
1 TAAATATATATACATAC
33488520 T-AATAATATATACATAC
1 TAAAT-ATATATACATAC
33488537 AAAGTACAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
14 2 0.07
15 10 0.37
16 2 0.07
17 13 0.48
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (17 bp):
TAAATATATATACATAC
Found at i:33488515 original size:15 final size:17
Alignment explanation
Indices: 33488493--33488536 Score: 65
Period size: 15 Copynumber: 2.7 Consensus size: 17
33488483 CTTCATAAAT
33488493 ATATATACATACTAA-A
1 ATATATACATACTAATA
*
33488509 A-ATATACATAATAATA
1 ATATATACATACTAATA
33488525 ATATATACATAC
1 ATATATACATAC
33488537 AAAGTACAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 12 0.50
16 3 0.12
17 9 0.38
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (17 bp):
ATATATACATACTAATA
Found at i:33488580 original size:15 final size:15
Alignment explanation
Indices: 33488560--33488597 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
33488550 ATTTATAAAT
33488560 AATAATAGTAAATAG
1 AATAATAGTAAATAG
*
33488575 AATAATATTAAATAG
1 AATAATAGTAAATAG
33488590 AATTAATA
1 AA-TAATA
33488598 TTACAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 16 0.76
16 5 0.24
ACGTcount: A:0.61, C:0.00, G:0.08, T:0.32
Consensus pattern (15 bp):
AATAATAGTAAATAG
Found at i:33491687 original size:3 final size:3
Alignment explanation
Indices: 33491679--33491715 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
33491669 GTTCTAAGCA
33491679 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
33491716 CAACTCCTAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:33492725 original size:25 final size:25
Alignment explanation
Indices: 33492682--33492730 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
33492672 ATTTAATTAA
* * *
33492682 TTTTTTAAATTTTTTAAAATTTATT
1 TTTTTTAAATTATTCAAAAATTATT
*
33492707 TTTTTTGAATTATTCAAAAATTAT
1 TTTTTTAAATTATTCAAAAATTAT
33492731 AAAAATATTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (25 bp):
TTTTTTAAATTATTCAAAAATTATT
Found at i:33496858 original size:21 final size:20
Alignment explanation
Indices: 33496812--33496874 Score: 62
Period size: 23 Copynumber: 3.2 Consensus size: 20
33496802 ATAATACTAC
33496812 ATAAA-TATATACATATATGTA
1 ATAAACTATATACATATA--TA
*
33496833 TTAAAGCTATATACATATATA
1 ATAAA-CTATATACATATATA
33496854 ATAAAC-ATATAC-TA-ATA
1 ATAAACTATATACATATATA
33496871 ATAA
1 ATAA
33496875 TTATTATTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
17 7 0.18
18 2 0.05
19 6 0.16
20 1 0.03
21 10 0.26
23 12 0.32
ACGTcount: A:0.54, C:0.08, G:0.03, T:0.35
Consensus pattern (20 bp):
ATAAACTATATACATATATA
Found at i:33497358 original size:38 final size:35
Alignment explanation
Indices: 33497290--33497375 Score: 100
Period size: 38 Copynumber: 2.3 Consensus size: 35
33497280 AAAAAAAAAT
* *
33497290 ATATAAATAATATAGTATTAAAGATGTATACATAAC
1 ATATAAA-AATATAATATTAAAGATATATACATAAC
* *
33497326 ATATAAAAATATAATATTAAAAGATATATATACGTAAT
1 ATATAAAAATATAATATT-AAAG--ATATATACATAAC
33497364 ATATAAAAATAT
1 ATATAAAAATAT
33497376 GTATACATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
35 10 0.23
36 11 0.26
38 22 0.51
ACGTcount: A:0.57, C:0.03, G:0.06, T:0.34
Consensus pattern (35 bp):
ATATAAAAATATAATATTAAAGATATATACATAAC
Found at i:33497367 original size:25 final size:23
Alignment explanation
Indices: 33497336--33497416 Score: 74
Period size: 23 Copynumber: 3.4 Consensus size: 23
33497326 ATATAAAAAT
33497336 ATAATAT-TAAAAGATATATATAC
1 ATAATATATAAAA-ATATATATAC
* *
33497359 GTAATATATAAAAATATGTATAC
1 ATAATATATAAAAATATATATAC
* * *
33497382 ATAATATAATATTAAAGATATTTAC
1 ATAATAT-ATA-AAAATATATATAC
*
33497407 ATAGTATATA
1 ATAATATATA
33497417 CATATTAGAA
Statistics
Matches: 47, Mismatches: 8, Indels: 5
0.78 0.13 0.08
Matches are distributed among these distances:
23 21 0.45
24 11 0.23
25 15 0.32
ACGTcount: A:0.53, C:0.04, G:0.06, T:0.37
Consensus pattern (23 bp):
ATAATATATAAAAATATATATAC
Found at i:33497954 original size:3 final size:3
Alignment explanation
Indices: 33497948--33498022 Score: 53
Period size: 3 Copynumber: 24.0 Consensus size: 3
33497938 AAAATAATTC
* * **
33497948 TAA TAA TAG TAAA TATA TAC TAA TAA TAA TAA TAA TAA TAA CGA TAA
1 TAA TAA TAA T-AA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
**
33497995 TGG TAA -ATA TAA TAA TAA TAAA TAA TAA
1 TAA TAA TA-A TAA TAA TAA T-AA TAA TAA
33498023 AAATGGTAAA
Statistics
Matches: 55, Mismatches: 12, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
2 1 0.02
3 45 0.82
4 9 0.16
ACGTcount: A:0.60, C:0.03, G:0.05, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:33500054 original size:75 final size:75
Alignment explanation
Indices: 33499931--33500231 Score: 392
Period size: 75 Copynumber: 4.0 Consensus size: 75
33499921 AAAAACAAAA
* * * * *
33499931 TTTGAAAAACAGAAACTGAAAATGCCTCAGCATGTCCCGAAGTTCAACTCACCTTTCGCAATATG
1 TTTGAAAAACAGAAATTGAAAATACCTCAGCATGTCCCGAGGCTCAACTCACCTCTCGCAATATG
33499996 AGCTTGA-TTT
66 AG-TTGATTTT
* * * *
33500006 TTTGAAAAACAAAAATTGAAAATACCTCAGCATATCCCGAGGTTCAACTCACCTCTTGCAATATG
1 TTTGAAAAACAGAAATTGAAAATACCTCAGCATGTCCCGAGGCTCAACTCACCTCTCGCAATATG
33500071 AGTTGATTTT
66 AGTTGATTTT
* *
33500081 TTTGCAAAACAGAAATTGAAAATACCTCAGC--GTCCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTTGAAAAACAGAAATTGAAAATACCTCAGCATGTCCCGAGGCTCAACTCACCTCTCGCAATATG
33500144 AGTTGATTTTTT
66 AGTTGA--TTTT
* * * * **
33500156 TTTGAAAGATAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
1 TTTGAAAAACAGAAATTGAAAATACCTCAGCATGTCCCGAGGCTCAACTCACCTCTCGCAATATG
*
33500221 AATTGATTTT
66 AGTTGATTTT
33500231 T
1 T
33500232 GTAACAGAAA
Statistics
Matches: 202, Mismatches: 19, Indels: 10
0.87 0.08 0.04
Matches are distributed among these distances:
73 34 0.17
74 4 0.02
75 128 0.63
77 36 0.18
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (75 bp):
TTTGAAAAACAGAAATTGAAAATACCTCAGCATGTCCCGAGGCTCAACTCACCTCTCGCAATATG
AGTTGATTTT
Found at i:33508542 original size:4 final size:4
Alignment explanation
Indices: 33508533--33508589 Score: 66
Period size: 4 Copynumber: 15.0 Consensus size: 4
33508523 ATGTACATGC
* * *
33508533 AATG AATG AATG AATG AATG AATG -ATA AATG AATG -TTG AATA AATG
1 AATG AATG AATG AATG AATG AATG AATG AATG AATG AATG AATG AATG
33508579 -ATG AATG AATG
1 AATG AATG AATG
33508590 TAGTCATGAA
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
3 7 0.16
4 37 0.84
ACGTcount: A:0.49, C:0.00, G:0.23, T:0.28
Consensus pattern (4 bp):
AATG
Found at i:33508565 original size:11 final size:11
Alignment explanation
Indices: 33508534--33508589 Score: 76
Period size: 11 Copynumber: 5.0 Consensus size: 11
33508524 TGTACATGCA
33508534 ATGAATGAATG
1 ATGAATGAATG
33508545 AATGAATGAATG
1 -ATGAATGAATG
*
33508557 ATAAATGAATG
1 ATGAATGAATG
* *
33508568 TTGAATAAATG
1 ATGAATGAATG
33508579 ATGAATGAATG
1 ATGAATGAATG
33508590 TAGTCATGAA
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
11 27 0.71
12 11 0.29
ACGTcount: A:0.48, C:0.00, G:0.23, T:0.29
Consensus pattern (11 bp):
ATGAATGAATG
Found at i:33508565 original size:15 final size:16
Alignment explanation
Indices: 33508533--33508588 Score: 73
Period size: 15 Copynumber: 3.7 Consensus size: 16
33508523 ATGTACATGC
*
33508533 AATGAATGAATGAATG
1 AATGAATGAATAAATG
33508549 AATGAATG-ATAAATG
1 AATGAATGAATAAATG
*
33508564 AATG-TTGAATAAATG
1 AATGAATGAATAAATG
33508579 -ATGAATGAAT
1 AATGAATGAAT
33508589 GTAGTCATGA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
14 5 0.14
15 22 0.63
16 8 0.23
ACGTcount: A:0.50, C:0.00, G:0.21, T:0.29
Consensus pattern (16 bp):
AATGAATGAATAAATG
Found at i:33512415 original size:13 final size:13
Alignment explanation
Indices: 33512379--33512439 Score: 67
Period size: 13 Copynumber: 4.9 Consensus size: 13
33512369 GAGAAGTGTC
33512379 TACATAATA-ATA
1 TACATAATATATA
*
33512391 CTAAAT-ATATATA
1 -TACATAATATATA
*
33512404 TACATGATATATA
1 TACATAATATATA
33512417 TACATAATATATA
1 TACATAATATATA
33512430 TA-A-AATATAT
1 TACATAATATAT
33512440 TAGAAATACT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
11 7 0.16
12 8 0.19
13 28 0.65
ACGTcount: A:0.54, C:0.07, G:0.02, T:0.38
Consensus pattern (13 bp):
TACATAATATATA
Found at i:33512446 original size:11 final size:11
Alignment explanation
Indices: 33512410--33512498 Score: 53
Period size: 13 Copynumber: 7.8 Consensus size: 11
33512400 TATATACATG
33512410 ATATATATACATA
1 ATATATATA-A-A
33512423 ATATATATAAA
1 ATATATATAAA
33512434 ATATAT-TAGAA
1 ATATATATA-AA
*
33512445 ATACTA-ATAAC
1 ATA-TATATAAA
33512456 ATA-A-A-AAA
1 ATATATATAAA
33512464 ATATATATTAATA
1 ATATATA-TAA-A
*
33512477 ATACTACATAAA
1 ATA-TATATAAA
33512489 TATATATATA
1 -ATATATATA
33512499 TGTATTAAAG
Statistics
Matches: 62, Mismatches: 4, Indels: 21
0.71 0.05 0.24
Matches are distributed among these distances:
8 5 0.08
9 3 0.05
10 3 0.05
11 16 0.26
12 13 0.21
13 19 0.31
14 3 0.05
ACGTcount: A:0.58, C:0.06, G:0.01, T:0.35
Consensus pattern (11 bp):
ATATATATAAA
Found at i:33512528 original size:21 final size:20
Alignment explanation
Indices: 33512484--33512544 Score: 58
Period size: 21 Copynumber: 3.2 Consensus size: 20
33512474 ATAATACTAC
* *
33512484 ATAAA-TATATATATATGTA
1 ATAAACTATATACATATATA
*
33512503 TTAAAGCTATATACATATATA
1 ATAAA-CTATATACATATATA
33512524 ATAAAC-ATATAC-TA-ATA
1 ATAAACTATATACATATATA
33512541 ATAA
1 ATAA
33512545 TTATTATAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
17 7 0.19
18 2 0.06
19 10 0.28
20 1 0.03
21 16 0.44
ACGTcount: A:0.54, C:0.07, G:0.03, T:0.36
Consensus pattern (20 bp):
ATAAACTATATACATATATA
Found at i:33512825 original size:25 final size:26
Alignment explanation
Indices: 33512768--33512825 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 26
33512758 TAATAATAAC
* * *
33512768 ATGTACATAATACGGTATTTTAAAAT
1 ATGTATATAATACAGTATTTTAAAAA
* *
33512794 ATATATATAATATAGTA-TTTAAAAA
1 ATGTATATAATACAGTATTTTAAAAA
33512819 ATGTATA
1 ATGTATA
33512826 CATACTAGGA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
25 13 0.50
26 13 0.50
ACGTcount: A:0.48, C:0.03, G:0.09, T:0.40
Consensus pattern (26 bp):
ATGTATATAATACAGTATTTTAAAAA
Found at i:33513015 original size:36 final size:36
Alignment explanation
Indices: 33512956--33513040 Score: 91
Period size: 38 Copynumber: 2.3 Consensus size: 36
33512946 ATAAAAAAAT
* * *
33512956 ATATAAATAATATAGTATTAAAG-ATGTATACATAAC
1 ATATAAA-AATACAATATTAAAGAATATATACATAAC
* *
33512992 ATATAAAAATACAATATTAAAAGATATATATACGTAAT
1 ATATAAAAATACAATATT-AAAGA-ATATATACATAAC
33513030 ATATAAAAATA
1 ATATAAAAATA
33513041 TGTATGCATA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
35 9 0.22
36 11 0.27
38 21 0.51
ACGTcount: A:0.58, C:0.05, G:0.06, T:0.32
Consensus pattern (36 bp):
ATATAAAAATACAATATTAAAGAATATATACATAAC
Found at i:33513052 original size:23 final size:24
Alignment explanation
Indices: 33513004--33513082 Score: 67
Period size: 23 Copynumber: 3.3 Consensus size: 24
33512994 ATAAAAATAC
*
33513004 AATAT-TAAAAGATATATATACGT
1 AATATATAAAAGATATATATACAT
* *
33513027 AATATATAAAA-ATATGTATGCAT
1 AATATATAAAAGATATATATACAT
33513050 AATATAATATTAAAGATAT-T-TACAT
1 AATAT-ATA--AAAGATATATATACAT
*
33513075 AGTATATA
1 AATATATA
33513083 CATATTAGAA
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
23 19 0.41
24 11 0.24
25 8 0.17
26 4 0.09
27 4 0.09
ACGTcount: A:0.52, C:0.04, G:0.08, T:0.37
Consensus pattern (24 bp):
AATATATAAAAGATATATATACAT
Found at i:33513363 original size:228 final size:228
Alignment explanation
Indices: 33513084--33513599 Score: 980
Period size: 228 Copynumber: 2.3 Consensus size: 228
33513074 TAGTATATAC
* * * *
33513084 ATATTAGAAGTAATAATAATGTT-TAAAAAACAACTATTAATAATATTACATAAATATATACATA
1 ATATTAGAAATGATAATAATGTTAAAAAAAACAATTATTAATAATATTACATAAATATATACATA
33513148 TATTCATTAAAGATATATACATATAATAAAACACATGCTAATAATAATAATGATAATAAGGATAA
66 TATTCATTAAAGATATATACATATAATAAAACACATGCTAATAATAATAATGATAATAAGGATAA
33513213 TATAAAAATATGTACATGAAATAGGATAAAAAAACATATAACTAATAATACTAACGATATATACA
131 TATAAAAATATGTACATGAAATAGGATAAAAAAACATATAACTAATAATACTAACGATATATACA
33513278 TAATATATATAAAAGCATATACGATACACATAT
196 TAATATATATAAAAGCATATACGATACACATAT
33513311 ATATTAGAAATGATAATAATGTTAAAAAAAACAATTATTAATAATATTACATAAATATATACATA
1 ATATTAGAAATGATAATAATGTTAAAAAAAACAATTATTAATAATATTACATAAATATATACATA
33513376 TATTCATTAAAGATATATACATATAATAAAACACATGCTAATAATAATAATGATAATAAGGATAA
66 TATTCATTAAAGATATATACATATAATAAAACACATGCTAATAATAATAATGATAATAAGGATAA
*
33513441 TATAAAAATATGTACATGAAATAGGATAAAAAAACATATAATTAATAATACTAACGATATATACA
131 TATAAAAATATGTACATGAAATAGGATAAAAAAACATATAACTAATAATACTAACGATATATACA
33513506 TAATATATATAAAAGCATATACGATACACATAT
196 TAATATATATAAAAGCATATACGATACACATAT
33513539 ATATTAGAAATGATAATAATGTTAAAAAAAACAATTATTAATAATATTACATAAATATATA
1 ATATTAGAAATGATAATAATGTTAAAAAAAACAATTATTAATAATATTACATAAATATATA
33513600 TATTAAAGAT
Statistics
Matches: 283, Mismatches: 5, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
227 21 0.07
228 262 0.93
ACGTcount: A:0.55, C:0.07, G:0.06, T:0.31
Consensus pattern (228 bp):
ATATTAGAAATGATAATAATGTTAAAAAAAACAATTATTAATAATATTACATAAATATATACATA
TATTCATTAAAGATATATACATATAATAAAACACATGCTAATAATAATAATGATAATAAGGATAA
TATAAAAATATGTACATGAAATAGGATAAAAAAACATATAACTAATAATACTAACGATATATACA
TAATATATATAAAAGCATATACGATACACATAT
Found at i:33513849 original size:3 final size:3
Alignment explanation
Indices: 33513843--33513914 Score: 53
Period size: 3 Copynumber: 25.0 Consensus size: 3
33513833 AAAATAATTC
* * * * **
33513843 TAA TAA TAG TAA AAA T-A TAC TAA TAA TAA TAA TAA TAA CAA TAA TGG
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
33513890 TAA -ATA TAA TAA TAA -AA -AA TAA TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA
33513915 AAATGGTAAA
Statistics
Matches: 53, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
2 7 0.13
3 45 0.85
4 1 0.02
ACGTcount: A:0.64, C:0.03, G:0.04, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:33513859 original size:12 final size:12
Alignment explanation
Indices: 33513844--33513918 Score: 64
Period size: 12 Copynumber: 6.2 Consensus size: 12
33513834 AAATAATTCT
*
33513844 AATAATAGTAAA
1 AATAATAATAAA
*
33513856 AATATACTAATAAT
1 AATA-A-TAATAAA
*
33513870 AATAATAATAAC
1 AATAATAATAAA
**
33513882 AATAATGGTAAA
1 AATAATAATAAA
*
33513894 TATAATAAT-AA
1 AATAATAATAAA
33513905 AA-AATAATAAA
1 AATAATAATAAA
33513916 AAT
1 AAT
33513919 GGTAAAAGTA
Statistics
Matches: 49, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
10 6 0.12
11 7 0.14
12 25 0.51
13 2 0.04
14 9 0.18
ACGTcount: A:0.65, C:0.03, G:0.04, T:0.28
Consensus pattern (12 bp):
AATAATAATAAA
Found at i:33515666 original size:3 final size:3
Alignment explanation
Indices: 33515658--33515689 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
33515648 ACAGAGAAGG
*
33515658 GAA GAA GAA GAA GAA GAA GAA GAA GTA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
33515690 GAAAAAATGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.62, C:0.00, G:0.34, T:0.03
Consensus pattern (3 bp):
GAA
Found at i:33516794 original size:27 final size:24
Alignment explanation
Indices: 33516734--33516809 Score: 64
Period size: 25 Copynumber: 3.0 Consensus size: 24
33516724 AATTTATTTT
* *
33516734 ATATATTATAATAAT-TAAAGATAAA
1 ATATATTAT-ATAATATTAATA-AAA
* *
33516759 ATATGTTATCTCAATTATTAAGTAAAA
1 ATATATTATAT-AA-TATTAA-TAAAA
33516786 ATATATTATATAATATTAATAAAA
1 ATATATTATATAATATTAATAAAA
33516810 CAAATAGGTA
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
24 6 0.15
25 16 0.39
26 3 0.07
27 15 0.37
28 1 0.02
ACGTcount: A:0.54, C:0.03, G:0.04, T:0.39
Consensus pattern (24 bp):
ATATATTATATAATATTAATAAAA
Found at i:33516880 original size:13 final size:14
Alignment explanation
Indices: 33516853--33516881 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
33516843 CAAAATTTAG
33516853 AAAGAAAGAAAGAA
1 AAAGAAAGAAAGAA
33516867 AAAGAAAG-AAGAA
1 AAAGAAAGAAAGAA
33516880 AA
1 AA
33516882 GAAGGAGACG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (14 bp):
AAAGAAAGAAAGAA
Found at i:33523148 original size:11 final size:11
Alignment explanation
Indices: 33523132--33523160 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
33523122 TATAGAAATT
33523132 TATAAAATTTA
1 TATAAAATTTA
33523143 TATAAAATTTA
1 TATAAAATTTA
33523154 T-TAAAAT
1 TATAAAAT
33523161 AGTTAAAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.33
11 12 0.67
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (11 bp):
TATAAAATTTA
Found at i:33525610 original size:31 final size:31
Alignment explanation
Indices: 33525575--33525634 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
33525565 AAAATAATGG
33525575 ATAAATTATATTAGTAGTCATCT-AATTATTA
1 ATAAATTATATTAGTAGTCA-CTAAATTATTA
* **
33525606 ATAAATTTTATTTTTAGTCACTAAATTAT
1 ATAAATTATATTAGTAGTCACTAAATTAT
33525635 GAAAAGTTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 2 0.08
31 23 0.92
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.48
Consensus pattern (31 bp):
ATAAATTATATTAGTAGTCACTAAATTATTA
Found at i:33527000 original size:39 final size:39
Alignment explanation
Indices: 33526946--33527034 Score: 151
Period size: 39 Copynumber: 2.3 Consensus size: 39
33526936 GAAATGTAAA
33526946 TTTGAAAAATGAGCAAAATGTTGGATTTCTTTGTATAAG
1 TTTGAAAAATGAGCAAAATGTTGGATTTCTTTGTATAAG
*
33526985 TTTGAAAAATGAGCAAAATGTTGGATTTCTTTGTATCAG
1 TTTGAAAAATGAGCAAAATGTTGGATTTCTTTGTATAAG
*
33527024 TTGAGAAAAAT
1 TT-TGAAAAAT
33527035 TACTAATTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
39 40 0.85
40 7 0.15
ACGTcount: A:0.37, C:0.06, G:0.20, T:0.37
Consensus pattern (39 bp):
TTTGAAAAATGAGCAAAATGTTGGATTTCTTTGTATAAG
Found at i:33530406 original size:45 final size:45
Alignment explanation
Indices: 33530306--33530432 Score: 147
Period size: 45 Copynumber: 2.9 Consensus size: 45
33530296 TTTTCTCAAA
* *
33530306 TCACCGGCATT-TCGCCTGTTAGGCTCG-AGGCCCG-ATATCAGT
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATATCAGT
33530348 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGT-A-T
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATA-TCAGT
** * *
33530392 CTCACCGGCATTATAGTTTGCTAAGCTCAAAGGCCCGAATA
1 -TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATA
33530433 ATCAAGTCAA
Statistics
Matches: 74, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
42 11 0.15
43 14 0.19
44 8 0.11
45 40 0.54
46 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATATCAGT
Found at i:33530810 original size:43 final size:43
Alignment explanation
Indices: 33530749--33530980 Score: 396
Period size: 43 Copynumber: 5.4 Consensus size: 43
33530739 ACATATCATT
* *
33530749 TCACCGGCATTACGCCTGCTAGGCACGAAGGCCCGAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
33530792 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
*
33530835 TCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
33530878 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
*
33530921 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATATA-A
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
* *
33530963 T-ACCAGCACTAGGCCTGC
1 TCACCGGCACTAAGCCTGC
33530981 GGGATTTATC
Statistics
Matches: 182, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
41 15 0.08
42 2 0.01
43 165 0.91
ACGTcount: A:0.29, C:0.34, G:0.24, T:0.12
Consensus pattern (43 bp):
TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
Found at i:33542801 original size:19 final size:19
Alignment explanation
Indices: 33542760--33542802 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
33542750 TGTAATTCTG
* *
33542760 TTGGGCTTGTCCTTTGTAC
1 TTGGGCTTGTCATTTGTAA
33542779 TTGGGCTTGT-ATTTGTAAA
1 TTGGGCTTGTCATTTGT-AA
33542798 TTGGG
1 TTGGG
33542803 TTTGGCATTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.12, C:0.12, G:0.30, T:0.47
Consensus pattern (19 bp):
TTGGGCTTGTCATTTGTAA
Found at i:33543133 original size:44 final size:44
Alignment explanation
Indices: 33543085--33543230 Score: 159
Period size: 44 Copynumber: 3.3 Consensus size: 44
33543075 AAGGTATATA
* * * *
33543085 ATTTGTCGCTTTAACCTGCTCTACTGCAACTTCAAGTAGATAAG
1 ATTTGTAGCTTTAACCTGCTCCACTGCATCTTCAAGAAGATAAG
* ** * *
33543129 ATTTGTAGCCTTAATTTGCTCCACTGTATCTTCAAGGAGATAAG
1 ATTTGTAGCTTTAACCTGCTCCACTGCATCTTCAAGAAGATAAG
* * *
33543173 ATTAGTAACTTTATCCTGCTCCACTGCATCTTCAAGAAGATAA-
1 ATTTGTAGCTTTAACCTGCTCCACTGCATCTTCAAGAAGATAAG
*
33543216 AGTTTATAGCTTTAA
1 A-TTTGTAGCTTTAA
33543231 TCTATTCTAC
Statistics
Matches: 81, Mismatches: 20, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
43 1 0.01
44 80 0.99
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.36
Consensus pattern (44 bp):
ATTTGTAGCTTTAACCTGCTCCACTGCATCTTCAAGAAGATAAG
Found at i:33543301 original size:50 final size:50
Alignment explanation
Indices: 33543247--33543403 Score: 166
Period size: 50 Copynumber: 3.3 Consensus size: 50
33543237 CTACTATTAT
* *
33543247 TTCAGGGATATAAGATTCGCTTTAATGATTTTAATCCATCCCACTGCAAC
1 TTCAGGGAGATAAGATTCGCTTTAATGATTTCAATCCATCCCACTGCAAC
* ** *
33543297 TTCAGGGAGATAAGA-----TTT-ATGGTTTCAATCTGTTCCACTGCAAC
1 TTCAGGGAGATAAGATTCGCTTTAATGATTTCAATCCATCCCACTGCAAC
* * * *
33543341 TTCAAGGAGATAAGATTCGCCTTAATAATTTCAATCCATCCCACTACAAC
1 TTCAGGGAGATAAGATTCGCTTTAATGATTTCAATCCATCCCACTGCAAC
*
33543391 TT-TGGGAGATAAG
1 TTCAGGGAGATAAG
33543404 TTTTGTGGTT
Statistics
Matches: 85, Mismatches: 16, Indels: 13
0.75 0.14 0.11
Matches are distributed among these distances:
44 35 0.41
45 3 0.04
49 11 0.13
50 36 0.42
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (50 bp):
TTCAGGGAGATAAGATTCGCTTTAATGATTTCAATCCATCCCACTGCAAC
Found at i:33543316 original size:94 final size:95
Alignment explanation
Indices: 33543193--33543450 Score: 256
Period size: 94 Copynumber: 2.8 Consensus size: 95
33543183 TTATCCTGCT
* * * * ** * * *
33543193 CCACTGCATCTTCAAGAAGATAA-AGTTTATAGCTTT-AATCTATTCTACTATTATTTCAGGGAT
1 CCACTGCAACTTCAGGGAGATAAGAGTTTAT-GCTTTCAATCTATTCCACTACAACTTCAAGGAG
* * *
33543256 ATAAGATTCGCTTTAATGATTTTAATCCATC
65 ATAAGATTCGCCTTAATAATTTCAATCCATC
* * *
33543287 CCACTGCAACTTCAGGGAGATAAGA-TTTATGGTTTCAATCTGTTCCACTGCAACTTCAAGGAGA
1 CCACTGCAACTTCAGGGAGATAAGAGTTTATGCTTTCAATCTATTCCACTACAACTTCAAGGAGA
33543351 TAAGATTCGCCTTAATAATTTCAATCCATC
66 TAAGATTCGCCTTAATAATTTCAATCCATC
* * * * * ** * *
33543381 CCACTACAACTT-TGGGAGATAAG-TTTTGTGGTTTCAATCTGCTCCACTGCAACTCCAAGGAGA
1 CCACTGCAACTTCAGGGAGATAAGAGTTTATGCTTTCAATCTATTCCACTACAACTTCAAGGAGA
33543444 TAAGATT
66 TAAGATT
33543451 TGCTGTGATA
Statistics
Matches: 141, Mismatches: 20, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
93 57 0.40
94 83 0.59
95 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.34
Consensus pattern (95 bp):
CCACTGCAACTTCAGGGAGATAAGAGTTTATGCTTTCAATCTATTCCACTACAACTTCAAGGAGA
TAAGATTCGCCTTAATAATTTCAATCCATC
Found at i:33543350 original size:44 final size:44
Alignment explanation
Indices: 33543287--33543682 Score: 255
Period size: 44 Copynumber: 8.6 Consensus size: 44
33543277 TTAATCCATC
*
33543287 CCACTGCAACTTCAGGGAGATAAGATTTATGGTTTCAATCTGTT
1 CCACTGCAACTTCAGGGAGATAAGATTTATGGTTTCAATCTGCT
* **
33543331 CCACTGCAACTTCAAGGAGATAAGATTCGCCTTAATAATTTCAATC--CAT
1 CCACTGCAACTTCAGGGAGATAAGA-T----TT-ATGGTTTCAATCTGC-T
* * * *
33543380 CCCACTACAACTT-TGGGAGATAAGTTTTGTGGTTTCAATCTGCT
1 -CCACTGCAACTTCAGGGAGATAAGATTTATGGTTTCAATCTGCT
* * * *
33543424 CCACTGCAACTCCAAGGAGATAAGATTTGCTGTGATAACTTCAATCAGCT
1 CCACTGCAACTTCAGGGAGATAAGATTT-ATG-G-T---TTCAATCTGCT
* * ** * * * *
33543474 CTATTATAACTTTAGGGAGATAAGATTTGTGGCTTCAATTTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTATGGTTTCAATCTGCT
* * * *
33543518 CCATTGCAACTTCAGGGAGATAAGATTTGTGGCTTT-AACCTACT
1 CCACTGCAACTTCAGGGAGATAAGATTTATGG-TTTCAATCTGCT
** * * *
33543562 CCACTGCAACTTCAAAGAGATAAGATTCACCATGATAACTTCAATCTACT
1 CCACTGCAACTTCAGGGAGATAAGATT---TATGGT---TTCAATCTGCT
* *
33543612 CCACTGCAACTTCAGGGAGATGAGA-TTAGTGGCTTT-AATATGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTA-TGG-TTTCAATCTGCT
*
33543656 CCAATGCAACTTCAGGGAGATAAGATT
1 CCACTGCAACTTCAGGGAGATAAGATT
33543683 CGCCATGATA
Statistics
Matches: 271, Mismatches: 53, Indels: 55
0.72 0.14 0.15
Matches are distributed among these distances:
43 19 0.07
44 134 0.49
45 9 0.03
46 3 0.01
47 5 0.02
48 3 0.01
49 17 0.06
50 81 0.30
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.31
Consensus pattern (44 bp):
CCACTGCAACTTCAGGGAGATAAGATTTATGGTTTCAATCTGCT
Found at i:33543527 original size:94 final size:94
Alignment explanation
Indices: 33543247--33543546 Score: 336
Period size: 94 Copynumber: 3.2 Consensus size: 94
33543237 CTACTATTAT
* * * * * * * * * *
33543247 TTCAGGGATATAAGATTCGCTTTAATGATTTTAATCCATCCCACTGCAACTTCAGGGAGATAAGA
1 TTCAAGGAGATAAGATTTGCCTTAATAACTTCAATCCAGCCCACTACAACTTTAGGGAGATAAGA
* *
33543312 TTTATGGTTTCAATCTGTTCCACTGCAAC
66 TTTGTGGTTTCAATCTGCTCCACTGCAAC
* * * *
33543341 TTCAAGGAGATAAGATTCGCCTTAATAATTTCAATCCATCCCACTACAACTTT-GGGAGATAAGT
1 TTCAAGGAGATAAGATTTGCCTTAATAACTTCAATCCAGCCCACTACAACTTTAGGGAGATAAGA
33543405 TTTGTGGTTTCAATCTGCTCCACTGCAAC
66 TTTGTGGTTTCAATCTGCTCCACTGCAAC
* * * * *
33543434 TCCAAGGAGATAAGATTTG-CTGTGATAACTTCAAT-CAGCTCTATTATAACTTTAGGGAGATAA
1 TTCAAGGAGATAAGATTTGCCT-TAATAACTTCAATCCAGC-CCACTACAACTTTAGGGAGATAA
* * *
33543497 GATTTGTGGCTTCAATTTGCTCCATTGCAAC
64 GATTTGTGGTTTCAATCTGCTCCACTGCAAC
*
33543528 TTCAGGGAGATAAGATTTG
1 TTCAAGGAGATAAGATTTG
33543547 TGGCTTTAAC
Statistics
Matches: 179, Mismatches: 24, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
92 5 0.03
93 75 0.42
94 99 0.55
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.33
Consensus pattern (94 bp):
TTCAAGGAGATAAGATTTGCCTTAATAACTTCAATCCAGCCCACTACAACTTTAGGGAGATAAGA
TTTGTGGTTTCAATCTGCTCCACTGCAAC
Found at i:33543571 original size:138 final size:138
Alignment explanation
Indices: 33543394--33543682 Score: 375
Period size: 138 Copynumber: 2.1 Consensus size: 138
33543384 CTACAACTTT
* * * * ** **
33543394 GGGAGATAAGTTTTGTGGTTTCAATCTGCTCCACTGCAACTCCAAGGAGATAAGATTTGCTGTGA
1 GGGAGATAAGATTTGTGGTTTCAACCTACTCCACTGCAACTCCAAAGAGATAAGATTCACCATGA
* * * * * * *
33543459 TAACTTCAATC-AGCTCTATTATAACTTTAGGGAGATAAGATTTGTGGCTTCAATTTGCTCCATT
66 TAACTTCAATCTA-CTCCACTACAACTTCAGGGAGATAAGATTAGTGGCTTCAATATGCTCCAAT
33543523 GCAACTTCA
130 GCAACTTCA
*
33543532 GGGAGATAAGATTTGTGGCTTT-AACCTACTCCACTGCAACTTCAAAGAGATAAGATTCACCATG
1 GGGAGATAAGATTTGTGG-TTTCAACCTACTCCACTGCAACTCCAAAGAGATAAGATTCACCATG
* * *
33543596 ATAACTTCAATCTACTCCACTGCAACTTCAGGGAGATGAGATTAGTGGCTTTAATATGCTCCAAT
65 ATAACTTCAATCTACTCCACTACAACTTCAGGGAGATAAGATTAGTGGCTTCAATATGCTCCAAT
33543661 GCAACTTCA
130 GCAACTTCA
33543670 GGGAGATAAGATT
1 GGGAGATAAGATT
33543683 CGCCATGATA
Statistics
Matches: 130, Mismatches: 19, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
138 126 0.97
139 4 0.03
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (138 bp):
GGGAGATAAGATTTGTGGTTTCAACCTACTCCACTGCAACTCCAAAGAGATAAGATTCACCATGA
TAACTTCAATCTACTCCACTACAACTTCAGGGAGATAAGATTAGTGGCTTCAATATGCTCCAATG
CAACTTCA
Found at i:33543604 original size:94 final size:94
Alignment explanation
Indices: 33543506--33543734 Score: 314
Period size: 94 Copynumber: 2.4 Consensus size: 94
33543496 AGATTTGTGG
* * * *
33543506 CTTCAATTTGCTCCATTGCAACTTCAGGGAGATAAGATTTGTGGCTTTAACCTACTCCACTGCAA
1 CTTCAATATGCTCCACTGCAACTTCAGGGAGATAAGATTTGTGGCTTTAACATACTCCAATGCAA
33543571 CTTCAAAGAGATAAGATTCACCATGATAA
66 CTTCAAAGAGATAAGATTCACCATGATAA
* * * * * *
33543600 CTTCAATCTACTCCACTGCAACTTCAGGGAGATGAGATTAGTGGCTTTAATATGCTCCAATGCAA
1 CTTCAATATGCTCCACTGCAACTTCAGGGAGATAAGATTTGTGGCTTTAACATACTCCAATGCAA
** *
33543665 CTTCAGGGAGATAAGATTCGCCATGATAA
66 CTTCAAAGAGATAAGATTCACCATGATAA
* * *
33543694 CTTCAATATGCTCTACTACAACTTTAGGGAGATAAGATTTG
1 CTTCAATATGCTCCACTGCAACTTCAGGGAGATAAGATTTG
33543735 CCATTATAAC
Statistics
Matches: 116, Mismatches: 19, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
94 116 1.00
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (94 bp):
CTTCAATATGCTCCACTGCAACTTCAGGGAGATAAGATTTGTGGCTTTAACATACTCCAATGCAA
CTTCAAAGAGATAAGATTCACCATGATAA
Found at i:33543762 original size:50 final size:50
Alignment explanation
Indices: 33543560--33543772 Score: 147
Period size: 50 Copynumber: 4.4 Consensus size: 50
33543550 CTTTAACCTA
* * ** * *
33543560 CTCCACTGCAACTTCAAAGAGATAAGATTCACCATGATAACTTCAAT-CTA
1 CTCCACTACAACTTTAGGGAGATAAGATTCGCCATGATAACTTCAATAC-G
* * * ** * *
33543610 CTCCACTGCAACTTCAGGGAGATGAGATT----A-G-TGGCTTTAATATG
1 CTCCACTACAACTTTAGGGAGATAAGATTCGCCATGATAACTTCAATACG
* * * *
33543654 CTCCAATGCAACTTCAGGGAGATAAGATTCGCCATGATAACTTCAATATG
1 CTCCACTACAACTTTAGGGAGATAAGATTCGCCATGATAACTTCAATACG
* * * *
33543704 CTCTACTACAACTTTAGGGAGATAAGATTTGCCATTATAACTTCAATCCG
1 CTCCACTACAACTTTAGGGAGATAAGATTCGCCATGATAACTTCAATACG
33543754 -TCCCACTACAA-TTTCAGGG
1 CT-CCACTACAACTTT-AGGG
33543773 GTACAAGATT
Statistics
Matches: 132, Mismatches: 22, Indels: 18
0.77 0.13 0.10
Matches are distributed among these distances:
44 34 0.26
45 1 0.01
46 1 0.01
48 1 0.01
49 5 0.04
50 90 0.68
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.28
Consensus pattern (50 bp):
CTCCACTACAACTTTAGGGAGATAAGATTCGCCATGATAACTTCAATACG
Found at i:33549244 original size:47 final size:47
Alignment explanation
Indices: 33549185--33549287 Score: 170
Period size: 47 Copynumber: 2.2 Consensus size: 47
33549175 GATGTACAAG
* * * *
33549185 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATATGATGAATGTGAAA
33549232 GTGTATATATGTGATAAGGCCGAATGGCCAATATGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATATGATGAATGTGAAA
33549279 GTGTATATA
1 GTGTATATA
33549288 NNNNNNNNNN
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 52 1.00
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
GTGTATATATGTGATAAGGCCGAATGGCCAATATGATGAATGTGAAA
Found at i:33557943 original size:8 final size:8
Alignment explanation
Indices: 33557928--33557960 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
33557918 TGAAAAGTTG
33557928 AAAA-TAA
1 AAAATTAA
33557935 AAAATTAA
1 AAAATTAA
33557943 AAAATTAA
1 AAAATTAA
*
33557951 AAAAATAA
1 AAAATTAA
33557959 AA
1 AA
33557961 TAAAAAACAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
7 4 0.17
8 20 0.83
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (8 bp):
AAAATTAA
Found at i:33558101 original size:3 final size:3
Alignment explanation
Indices: 33558095--33558141 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
33558085 GTCAATAATA
33558095 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
33558142 AATAATAATA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.34, C:0.00, G:0.32, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:33564949 original size:31 final size:32
Alignment explanation
Indices: 33564898--33564965 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 32
33564888 CCTAAATTTT
* *
33564898 TTTTTGTCTTATTTGGTACCTAAACTTGACAA
1 TTTTTGTCTAATTTGATACCTAAACTTGACAA
*
33564930 TTTTT-TCTAATTTGATACCTAAACTTGACAC
1 TTTTTGTCTAATTTGATACCTAAACTTGACAA
33564961 TTTTT
1 TTTTT
33564966 CTTAAGTTGG
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
31 28 0.85
32 5 0.15
ACGTcount: A:0.25, C:0.16, G:0.09, T:0.50
Consensus pattern (32 bp):
TTTTTGTCTAATTTGATACCTAAACTTGACAA
Found at i:33564984 original size:31 final size:31
Alignment explanation
Indices: 33564910--33564986 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 31
33564900 TTTGTCTTAT
33564910 TTGG-TACCTAAACTTGACAATTTTTTCTAA
1 TTGGATACCTAAACTTGACAATTTTTTCTAA
* *
33564940 TTTGATACCTAAACTTGAC-ACTTTTTCTTAA
1 TTGGATACCTAAACTTGACAATTTTTTC-TAA
*
33564971 GTTGGA-ACTTAAACTT
1 -TTGGATACCTAAACTT
33564987 TTTTGGGGTC
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
30 10 0.25
31 26 0.65
32 4 0.10
ACGTcount: A:0.30, C:0.17, G:0.10, T:0.43
Consensus pattern (31 bp):
TTGGATACCTAAACTTGACAATTTTTTCTAA
Found at i:33570661 original size:16 final size:15
Alignment explanation
Indices: 33570640--33570682 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
33570630 CATTTTTAAG
33570640 CCCCCTCTTCTTCCTT
1 CCCCCTCTTCTT-CTT
33570656 CCCCCTCTTCATTCTT
1 CCCCCTCTTC-TTCTT
*
33570672 CTCCCT-TTCTT
1 CCCCCTCTTCTT
33570683 ACAACTTTCG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 2 0.08
15 3 0.12
16 18 0.72
17 2 0.08
ACGTcount: A:0.02, C:0.51, G:0.00, T:0.47
Consensus pattern (15 bp):
CCCCCTCTTCTTCTT
Found at i:33577409 original size:19 final size:21
Alignment explanation
Indices: 33577362--33577419 Score: 66
Period size: 19 Copynumber: 2.8 Consensus size: 21
33577352 AAATCAAATC
*
33577362 TCTAAGATTACAAAATCCTATAT
1 TCTAAGATTAC-ATAT-CTATAT
33577385 TCTAAGATTACATATC-ATA-
1 TCTAAGATTACATATCTATAT
*
33577404 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
33577420 CTCGAAGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.45
20 3 0.09
21 1 0.03
22 3 0.09
23 11 0.33
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
TCTAAGATTACATATCTATAT
Found at i:33582768 original size:25 final size:26
Alignment explanation
Indices: 33582726--33582792 Score: 66
Period size: 26 Copynumber: 2.6 Consensus size: 26
33582716 ATCCGTTGTT
* *
33582726 ATTT-TTTATATAAAATTT-CTTTTAA
1 ATTTATTTATAT-ATATTTCCTTTCAA
33582751 ATTTATTTATATATATTTCCTTTCAA
1 ATTTATTTATATATATTTCCTTTCAA
* *
33582777 ATCTATTATGTATATA
1 ATTTATT-TATATATA
33582793 GTTTATTCTT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
25 9 0.26
26 19 0.54
27 7 0.20
ACGTcount: A:0.34, C:0.07, G:0.01, T:0.57
Consensus pattern (26 bp):
ATTTATTTATATATATTTCCTTTCAA
Found at i:33592572 original size:9 final size:10
Alignment explanation
Indices: 33592548--33592572 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
33592538 CAAAACATAC
33592548 TAAAAATAAT
1 TAAAAATAAT
33592558 TAAAAATAAT
1 TAAAAATAAT
33592568 TAAAA
1 TAAAA
33592573 CGGCCTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (10 bp):
TAAAAATAAT
Found at i:33592941 original size:61 final size:62
Alignment explanation
Indices: 33592799--33592941 Score: 170
Period size: 60 Copynumber: 2.3 Consensus size: 62
33592789 TCAAGCTTTA
*
33592799 CTGGGCCTAAGCCCTATT-CAGAAATCAGAGTTAACTGGGCCTTAGCCCATATCAATATTAAT
1 CTGGGCCT-AGCCCTATTACAGAAATCAGAGTTAACTGGGCCTTAGCCCATATCAATATCAAT
* * * *
33592861 CTGGGCCATAGCCC-CTTACAG-TATCAGAG-TATACTGGGCC-TAGCCCATGTCATTATCAAT
1 CTGGGCC-TAGCCCTATTACAGAAATCAGAGTTA-ACTGGGCCTTAGCCCATATCAATATCAAT
33592921 CTGGGCCGTAGCCCTATTACA
1 CTGGGCC-TAGCCCTATTACA
33592942 AGTCGAGATA
Statistics
Matches: 70, Mismatches: 7, Indels: 9
0.81 0.08 0.10
Matches are distributed among these distances:
60 32 0.46
61 22 0.31
62 15 0.21
63 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (62 bp):
CTGGGCCTAGCCCTATTACAGAAATCAGAGTTAACTGGGCCTTAGCCCATATCAATATCAAT
Found at i:33598429 original size:18 final size:19
Alignment explanation
Indices: 33598382--33598430 Score: 50
Period size: 18 Copynumber: 2.7 Consensus size: 19
33598372 ATTTTTAACA
* *
33598382 ATAAATGTTAA-ATTTTTT
1 ATAATTGTTAATATATTTT
*
33598400 ATAATT-TGAATATATTTT
1 ATAATTGTTAATATATTTT
33598418 AT-ATTGTTAATAT
1 ATAATTGTTAATAT
33598431 TATAGAGATT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
17 6 0.24
18 19 0.76
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (19 bp):
ATAATTGTTAATATATTTT
Found at i:33600950 original size:22 final size:22
Alignment explanation
Indices: 33600910--33600951 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
33600900 TTATGATACC
*
33600910 AAATTTAAAAATAGTAATCTTA
1 AAATTTAAAAATAGAAATCTTA
33600932 AAATTTAAAATATA-AAATCT
1 AAATTTAAAA-ATAGAAATCT
33600952 AGAATATAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (22 bp):
AAATTTAAAAATAGAAATCTTA
Found at i:33606652 original size:19 final size:19
Alignment explanation
Indices: 33606628--33606665 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
33606618 AAGAAGAAAT
33606628 CATTTTCTAAGGCTGATAA
1 CATTTTCTAAGGCTGATAA
*
33606647 CATTTTCTTAGGCTGATAA
1 CATTTTCTAAGGCTGATAA
33606666 TAAAGAAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (19 bp):
CATTTTCTAAGGCTGATAA
Found at i:33612249 original size:46 final size:46
Alignment explanation
Indices: 33612133--33612304 Score: 163
Period size: 46 Copynumber: 3.7 Consensus size: 46
33612123 TTATTGTGAC
* * * *
33612133 CTAGTGTAAGACATGTCTGGGACATGGCATCAGCATTGAGACGAGAG
1 CTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCGAGATGAGAG
* * *
33612180 CTAGTGTAAGGCATATCTGGGACATGCATTGGCCTCGAGATGTA-AG
1 CTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATG-AGAG
* *
33612226 CTAGTGTAAGACGTGTCTTGGACATGCATCGG-CTACGAGAT--GAG
1 CTAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGAGAG
* * *
33612270 CCAGTTTAAGACCATGTCTAGGACATGGCATCGGC
1 CTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
33612305 ATCCTACCTC
Statistics
Matches: 103, Mismatches: 16, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
44 11 0.11
45 14 0.14
46 54 0.52
47 24 0.23
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (46 bp):
CTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGAGAG
Found at i:33615311 original size:26 final size:26
Alignment explanation
Indices: 33615282--33615334 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
33615272 CAAGCTTGTC
33615282 AGCAAAGAACAAATGTGTTATAAACG
1 AGCAAAGAACAAATGTGTTATAAACG
33615308 AGCAAAGAACAAATGTGTTATAAACG
1 AGCAAAGAACAAATGTGTTATAAACG
33615334 A
1 A
33615335 ACCATGTTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.51, C:0.11, G:0.19, T:0.19
Consensus pattern (26 bp):
AGCAAAGAACAAATGTGTTATAAACG
Found at i:33632510 original size:40 final size:40
Alignment explanation
Indices: 33632450--33632583 Score: 171
Period size: 40 Copynumber: 3.4 Consensus size: 40
33632440 ATCTCAGTCT
** *
33632450 CGCACACTAAGTGCCATATATAGCTGAAGCTAT-TCCGATT
1 CGCACACTAAGTGCTTTATATAGCTGAAGCTATCT-CGATA
*
33632490 CGCACACTAAGTGCTTTATATAGCTGCAGCTATCTCGATA
1 CGCACACTAAGTGCTTTATATAGCTGAAGCTATCTCGATA
* * * * *
33632530 CGTACATTAAGTGCTTTATATAGCCGAAGTTATCTCAATA
1 CGCACACTAAGTGCTTTATATAGCTGAAGCTATCTCGATA
33632570 CGCACACTAAGTGC
1 CGCACACTAAGTGC
33632584 CAAACATAAT
Statistics
Matches: 81, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
40 80 0.99
41 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (40 bp):
CGCACACTAAGTGCTTTATATAGCTGAAGCTATCTCGATA
Found at i:33633042 original size:29 final size:30
Alignment explanation
Indices: 33632986--33633043 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
33632976 CCCCTAGCAG
*
33632986 CCCATATTTCACATTTATTCACACTTTAAC
1 CCCATATTTCACATTTATTCACAATTTAAC
*
33633016 CCCATATTT-TCATCTT-TTCACAATTTAA
1 CCCATATTTCACAT-TTATTCACAATTTAA
33633044 TCCCTAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 14 0.56
30 11 0.44
ACGTcount: A:0.29, C:0.28, G:0.00, T:0.43
Consensus pattern (30 bp):
CCCATATTTCACATTTATTCACAATTTAAC
Found at i:33635950 original size:28 final size:27
Alignment explanation
Indices: 33635895--33636007 Score: 115
Period size: 27 Copynumber: 4.1 Consensus size: 27
33635885 AGCATGGCTG
* *
33635895 CCAGA-ACAGATAATGTGACAGAGTCA
1 CCAGATACAGATAATGTGGCAGAGCCA
* *
33635921 CCAGATAGAGATAATCGTGGCAGAACCA
1 CCAGATACAGATAAT-GTGGCAGAGCCA
*
33635949 CCAGA-ACAGGTATATGTGGCAGAGCCA
1 CCAGATACAGATA-ATGTGGCAGAGCCA
*
33635976 CCAGAT-CAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAA--TGTGGCAGAGCCA
33636004 CCAG
1 CCAG
33636008 GACGCTTCCT
Statistics
Matches: 72, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
26 6 0.08
27 34 0.47
28 32 0.44
ACGTcount: A:0.36, C:0.22, G:0.25, T:0.17
Consensus pattern (27 bp):
CCAGATACAGATAATGTGGCAGAGCCA
Found at i:33635978 original size:55 final size:54
Alignment explanation
Indices: 33635895--33636007 Score: 138
Period size: 55 Copynumber: 2.1 Consensus size: 54
33635885 AGCATGGCTG
* *
33635895 CCAGAACAGATAATGTGACAGAGTCACCAGATAGAGATAA-TCGTGGCAGAACCA
1 CCAGAACAGATAATGTGACAGAGCCACCAGAT-CAGATAATTCGTGGCAGAACCA
* * * * *
33635949 CCAGAACAGGTATATGTGGCAGAGCCACCAGATCAGATAATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCACCAGATCAGATAATTCGTGGCAGAACCA
33636004 CCAG
1 CCAG
33636008 GACGCTTCCT
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
54 17 0.34
55 33 0.66
ACGTcount: A:0.36, C:0.22, G:0.25, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATAATGTGACAGAGCCACCAGATCAGATAATTCGTGGCAGAACCA
Found at i:33637453 original size:24 final size:24
Alignment explanation
Indices: 33637426--33637472 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
33637416 CTAGATTTCC
**
33637426 TCCCTTATCTGCTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
33637450 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
33637473 CTCCTGACAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.23, C:0.38, G:0.02, T:0.36
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:33645707 original size:11 final size:11
Alignment explanation
Indices: 33645684--33645717 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
33645674 ATGTCAAATC
*
33645684 ATCAAGAATAA
1 ATCAAGAACAA
*
33645695 ATTAAGAACAA
1 ATCAAGAACAA
33645706 ATCAAGAACAA
1 ATCAAGAACAA
33645717 A
1 A
33645718 ACTAGATGCG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.65, C:0.12, G:0.09, T:0.15
Consensus pattern (11 bp):
ATCAAGAACAA
Found at i:33647147 original size:25 final size:23
Alignment explanation
Indices: 33647101--33647154 Score: 56
Period size: 25 Copynumber: 2.3 Consensus size: 23
33647091 AAAAATACTA
33647101 AAAACATT-AAAATAAATGTTTTCT
1 AAAA-ATTGAAAATAAATGTTTT-T
* *
33647125 AACAAATTGAAAATAATTTTTTTT
1 AA-AAATTGAAAATAAATGTTTTT
33647149 AAAAAT
1 AAAAAT
33647155 ATGTATACTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 4 0.15
24 8 0.31
25 14 0.54
ACGTcount: A:0.52, C:0.06, G:0.04, T:0.39
Consensus pattern (23 bp):
AAAAATTGAAAATAAATGTTTTT
Found at i:33647768 original size:21 final size:21
Alignment explanation
Indices: 33647744--33647783 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
33647734 AGGATATAAT
*
33647744 TAAA-ATATTTAAATATTTTAC
1 TAAATATAATTAAA-ATTTTAC
33647765 TAAATATAATTAAAATTTT
1 TAAATATAATTAAAATTTT
33647784 TAAAGGCATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (21 bp):
TAAATATAATTAAAATTTTAC
Found at i:33656071 original size:31 final size:29
Alignment explanation
Indices: 33656036--33656094 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
33656026 AGATTAAAAC
*
33656036 TGATCAAGTCGAAAAGTACAAGAACTAAATT
1 TGATCAAAT-GAAAAG-ACAAGAACTAAATT
* *
33656067 TGATCAAATTAAAAGACAGGAACTAAAT
1 TGATCAAATGAAAAGACAAGAACTAAAT
33656095 CCATAATTGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 12 0.48
30 5 0.20
31 8 0.32
ACGTcount: A:0.51, C:0.12, G:0.15, T:0.22
Consensus pattern (29 bp):
TGATCAAATGAAAAGACAAGAACTAAATT
Found at i:33671923 original size:2 final size:2
Alignment explanation
Indices: 33671918--33671955 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
33671908 TACCTTTATT
33671918 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
33671956 GATAGCTTCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:33672123 original size:15 final size:16
Alignment explanation
Indices: 33672103--33672143 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 16
33672093 GTAATTTTTT
33672103 TAAAAAAATAACA-AG
1 TAAAAAAATAACATAG
* *
33672118 T-AAAAAATAATATAT
1 TAAAAAAATAACATAG
33672133 TAAAAAAATAA
1 TAAAAAAATAA
33672144 TATATCAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
14 10 0.45
15 3 0.14
16 9 0.41
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.22
Consensus pattern (16 bp):
TAAAAAAATAACATAG
Found at i:33672138 original size:16 final size:16
Alignment explanation
Indices: 33672102--33672148 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 16
33672092 AGTAATTTTT
*
33672102 TTAAAAAAATAACA-A
1 TTAAAAAAATAATATA
*
33672117 GT-AAAAAATAATATA
1 TTAAAAAAATAATATA
33672132 TTAAAAAAATAATATA
1 TTAAAAAAATAATATA
33672148 T
1 T
33672149 CAAATTAAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 10 0.37
15 3 0.11
16 14 0.52
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (16 bp):
TTAAAAAAATAATATA
Found at i:33672183 original size:21 final size:21
Alignment explanation
Indices: 33672159--33672199 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
33672149 CAAATTAAAG
*
33672159 TATTGTAAGAAACAAAGTTTC
1 TATTGTAAGAAAAAAAGTTTC
* *
33672180 TATTTTAATAAAAAAAGTTT
1 TATTGTAAGAAAAAAAGTTT
33672200 GAAGAAATTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.46, C:0.05, G:0.10, T:0.39
Consensus pattern (21 bp):
TATTGTAAGAAAAAAAGTTTC
Found at i:33679530 original size:28 final size:28
Alignment explanation
Indices: 33679499--33679559 Score: 122
Period size: 28 Copynumber: 2.2 Consensus size: 28
33679489 TCCAGTTTAC
33679499 ATTTATTTTTAATAGTAGTCAATCGTTT
1 ATTTATTTTTAATAGTAGTCAATCGTTT
33679527 ATTTATTTTTAATAGTAGTCAATCGTTT
1 ATTTATTTTTAATAGTAGTCAATCGTTT
33679555 ATTTA
1 ATTTA
33679560 AGCTGACTAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.30, C:0.07, G:0.10, T:0.54
Consensus pattern (28 bp):
ATTTATTTTTAATAGTAGTCAATCGTTT
Found at i:33681177 original size:39 final size:39
Alignment explanation
Indices: 33681121--33681202 Score: 137
Period size: 39 Copynumber: 2.1 Consensus size: 39
33681111 ATAATTCATA
*
33681121 GATATAATTCCAGCACATAGCATGCGGACCCTAAGTCCG
1 GATATAATTCCAACACATAGCATGCGGACCCTAAGTCCG
* *
33681160 GATATAATTCCAACACATAGCCTGCGGACTCTAAGTCCG
1 GATATAATTCCAACACATAGCATGCGGACCCTAAGTCCG
33681199 GATA
1 GATA
33681203 CACATCAAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.22
Consensus pattern (39 bp):
GATATAATTCCAACACATAGCATGCGGACCCTAAGTCCG
Found at i:33683795 original size:47 final size:47
Alignment explanation
Indices: 33683726--33683821 Score: 165
Period size: 47 Copynumber: 2.0 Consensus size: 47
33683716 ATTATTTTTA
33683726 TAACTCGGTTTTGTAGTCCCGAAACCACTTCCCGAATAGGGTCAAAT
1 TAACTCGGTTTTGTAGTCCCGAAACCACTTCCCGAATAGGGTCAAAT
* * *
33683773 TAACTTGGTTTTGTGGTCCCGAAATCACTTCCCGAATAGGGTCAAAT
1 TAACTCGGTTTTGTAGTCCCGAAACCACTTCCCGAATAGGGTCAAAT
33683820 TA
1 TA
33683822 GGGCTGTCAC
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (47 bp):
TAACTCGGTTTTGTAGTCCCGAAACCACTTCCCGAATAGGGTCAAAT
Found at i:33684110 original size:2 final size:2
Alignment explanation
Indices: 33684103--33684133 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
33684093 TAGTTCATTA
*
33684103 TC TC TC TC TC TC TT TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
33684134 ATATATATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (2 bp):
TC
Found at i:33684230 original size:42 final size:42
Alignment explanation
Indices: 33684183--33684270 Score: 176
Period size: 42 Copynumber: 2.1 Consensus size: 42
33684173 ACCTATTTAA
33684183 CAATATTTATATATGTTCAATTTTAACTTGTTCACTAATTAT
1 CAATATTTATATATGTTCAATTTTAACTTGTTCACTAATTAT
33684225 CAATATTTATATATGTTCAATTTTAACTTGTTCACTAATTAT
1 CAATATTTATATATGTTCAATTTTAACTTGTTCACTAATTAT
33684267 CAAT
1 CAAT
33684271 CATACAATAC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.34, C:0.12, G:0.05, T:0.49
Consensus pattern (42 bp):
CAATATTTATATATGTTCAATTTTAACTTGTTCACTAATTAT
Found at i:33686934 original size:59 final size:54
Alignment explanation
Indices: 33686861--33686995 Score: 180
Period size: 54 Copynumber: 2.4 Consensus size: 54
33686851 TAGGGTCTGA
* *
33686861 ATTTAGCCTGGACTGGTAATTCAGATCCAAGCTCATTAGAGTAATTGTCGTTGCAGGGG
1 ATTTAGCCTGGACTGGTAATCCAGA--CAA--T-ACTAGAGTAATTGTCGTTGCAGGGG
* * *
33686920 ATTTAGCCTGGACTGGTAATCCTGACAATACTCGAGTAATTGTTGTTGCAGGGG
1 ATTTAGCCTGGACTGGTAATCCAGACAATACTAGAGTAATTGTCGTTGCAGGGG
33686974 ATTTAGCCTGGACTGGTAATCC
1 ATTTAGCCTGGACTGGTAATCC
33686996 CGCTGCAAGG
Statistics
Matches: 71, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
54 44 0.62
55 1 0.01
57 3 0.04
59 23 0.32
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (54 bp):
ATTTAGCCTGGACTGGTAATCCAGACAATACTAGAGTAATTGTCGTTGCAGGGG
Found at i:33688707 original size:33 final size:33
Alignment explanation
Indices: 33688664--33688732 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
33688654 TTTTCCTATA
*
33688664 CCCAACAAGTGATTCCAACACCCAGTCTGAGCT
1 CCCAACAAGTGATTCCAACACCCAGTCTGAGAT
* * *
33688697 CCCAAGAAGTGATTCCAACATCCGGTCTGAGAT
1 CCCAACAAGTGATTCCAACACCCAGTCTGAGAT
33688730 CCC
1 CCC
33688733 TGACTCATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.29, C:0.35, G:0.17, T:0.19
Consensus pattern (33 bp):
CCCAACAAGTGATTCCAACACCCAGTCTGAGAT
Found at i:33692109 original size:29 final size:31
Alignment explanation
Indices: 33692041--33692109 Score: 79
Period size: 29 Copynumber: 2.2 Consensus size: 31
33692031 AAATAAAACT
*
33692041 TAATATTTTATTTTAAAAATAGATAGATATATG
1 TAAT-TTTTATTTTAAAAATAGA-AGATAAATG
*
33692074 TAATTTTTATTTTAAATAT-G-AGATAAATG
1 TAATTTTTATTTTAAAAATAGAAGATAAATG
*
33692103 TAGTTTT
1 TAATTTT
33692110 AAGTAAATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 14 0.42
31 1 0.03
32 14 0.42
33 4 0.12
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (31 bp):
TAATTTTTATTTTAAAAATAGAAGATAAATG
Found at i:33694682 original size:17 final size:16
Alignment explanation
Indices: 33694660--33694702 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
33694650 TCATTATAAA
33694660 TAAAATTAGATTTTAAT
1 TAAAATTA-ATTTTAAT
*
33694677 TAAAATTTAATTTTTAT
1 TAAAA-TTAATTTTAAT
*
33694694 AAAAATTAA
1 TAAAATTAA
33694703 AACTTAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 4 0.17
17 16 0.70
18 3 0.13
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (16 bp):
TAAAATTAATTTTAAT
Found at i:33694702 original size:16 final size:17
Alignment explanation
Indices: 33694661--33694702 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
33694651 CATTATAAAT
33694661 AAAATTAGATTTTAATTA
1 AAAATTA-ATTTTAATTA
* *
33694679 AAATTTAATTTTTA-TA
1 AAAATTAATTTTAATTA
33694695 AAAATTAA
1 AAAATTAA
33694703 AACTTAAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 9 0.43
17 6 0.29
18 6 0.29
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (17 bp):
AAAATTAATTTTAATTA
Found at i:33702119 original size:6 final size:6
Alignment explanation
Indices: 33702097--33702133 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
33702087 TTTTTTAAAA
*
33702097 TATATT T-TATA TATATT TATATT TATATT TATATT TA
1 TATATT TATATT TATATT TATATT TATATT TATATT TA
33702134 ATGTTTAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 4 0.14
6 24 0.86
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (6 bp):
TATATT
Found at i:33704731 original size:22 final size:21
Alignment explanation
Indices: 33704705--33704745 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
33704695 CTAAATTATA
33704705 ATAAATAGAAAAAAATAAAAGC
1 ATAAATA-AAAAAAATAAAAGC
*
33704727 ATAAATAAATAAAATAAAA
1 ATAAATAAAAAAAATAAAA
33704746 TATAATAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.76, C:0.02, G:0.05, T:0.17
Consensus pattern (21 bp):
ATAAATAAAAAAAATAAAAGC
Found at i:33704758 original size:19 final size:21
Alignment explanation
Indices: 33704705--33704762 Score: 66
Period size: 19 Copynumber: 2.8 Consensus size: 21
33704695 CTAAATTATA
*
33704705 ATAAATAGAAAAAAATAAAAGC
1 ATAAATA-AATAAAATAAAAGC
*
33704727 ATAAATAAATAAAATAAAA-T
1 ATAAATAAATAAAATAAAAGC
*
33704747 AT-AATAATTAAAATAA
1 ATAAATAAATAAAATAA
33704763 TTAATTATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
19 13 0.39
20 2 0.06
21 11 0.33
22 7 0.21
ACGTcount: A:0.72, C:0.02, G:0.03, T:0.22
Consensus pattern (21 bp):
ATAAATAAATAAAATAAAAGC
Found at i:33705143 original size:23 final size:24
Alignment explanation
Indices: 33705091--33705152 Score: 65
Period size: 23 Copynumber: 2.6 Consensus size: 24
33705081 TTATTAATTT
* *
33705091 TTTAAATATATTGTTATGATTTTA
1 TTTAAAAATATTATTATGATTTTA
* *
33705115 -TCAAAAATATTATTAT-TTTTTA
1 TTTAAAAATATTATTATGATTTTA
33705137 TTTAAAAATTATTATT
1 TTTAAAAA-TATTATT
33705153 CAAATATTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
22 5 0.16
23 19 0.61
24 7 0.23
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.56
Consensus pattern (24 bp):
TTTAAAAATATTATTATGATTTTA
Found at i:33719699 original size:61 final size:61
Alignment explanation
Indices: 33719625--33719746 Score: 244
Period size: 61 Copynumber: 2.0 Consensus size: 61
33719615 TAAGGATTCC
33719625 AAGAATATAAAATACACCACCTAATTATTTTTGTACAATTTATGGTAAATTTCTAAAGTTG
1 AAGAATATAAAATACACCACCTAATTATTTTTGTACAATTTATGGTAAATTTCTAAAGTTG
33719686 AAGAATATAAAATACACCACCTAATTATTTTTGTACAATTTATGGTAAATTTCTAAAGTTG
1 AAGAATATAAAATACACCACCTAATTATTTTTGTACAATTTATGGTAAATTTCTAAAGTTG
33719747 GAACAGGGGA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.41, C:0.11, G:0.10, T:0.38
Consensus pattern (61 bp):
AAGAATATAAAATACACCACCTAATTATTTTTGTACAATTTATGGTAAATTTCTAAAGTTG
Done.