Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 86 of 199
Found at i:24158028 original size:16 final size:16
Alignment explanation
Indices: 24158007--24158042 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
24157997 TTTGGTTCGC
24158007 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
24158023 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
24158039 TGTA
1 TGTA
24158043 ATAGCAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:24158299 original size:18 final size:17
Alignment explanation
Indices: 24158278--24158312 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
24158268 TTATTATTAA
*
24158278 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
24158296 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
24158313 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:24158426 original size:14 final size:15
Alignment explanation
Indices: 24158377--24158428 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
24158367 GTAAAATATA
24158377 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
24158392 TATTAAATATATTAT
1 AATTAAATATATTAT
24158407 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
24158420 AATTTAATA
1 AATTAAATA
24158429 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:24158539 original size:18 final size:17
Alignment explanation
Indices: 24158518--24158552 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
24158508 TTATTATTAA
*
24158518 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
24158536 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
24158553 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:24158659 original size:18 final size:18
Alignment explanation
Indices: 24158638--24158685 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
24158628 TTATTATTAA
24158638 ATATATTATAATTAAAAT
1 ATATATTATAATTAAAAT
24158656 ATATAATT-TAA-TAAAAT
1 ATAT-ATTATAATTAAAAT
*
24158673 -TAT-TAATAATTAA
1 ATATATTATAATTAA
24158686 TATTCTTGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
14 1 0.04
15 3 0.12
16 6 0.23
17 6 0.23
18 7 0.27
19 3 0.12
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
ATATATTATAATTAAAAT
Found at i:24158666 original size:14 final size:15
Alignment explanation
Indices: 24158617--24158668 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
24158607 GTAAAATATA
24158617 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
24158632 TATTAAATATATTAT
1 AATTAAATATATTAT
24158647 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
24158660 AATTTAATA
1 AATTAAATA
24158669 AAATTATTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:24158803 original size:54 final size:54
Alignment explanation
Indices: 24158611--24158804 Score: 142
Period size: 59 Copynumber: 3.4 Consensus size: 54
24158601 AATATTGTAA
* * *
24158611 AATATAAA-TTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTT
1 AATA-AAATTTAAAATAATTACTATTAAATATATTATAATTAAAATATATGATTT
* * * * *
24158665 AATAAAATTATTAATAATTAATATTCT-TGTATGAATTTACTCA-AATCATAATATATGATACTA
1 AATAAAA-T-TTAA-AA-TAAT-TACTAT-TA--AATATA-TTATAATTAAAATATATGAT--T-
24158728 T
54 T
* *
24158729 AAATGAAAATTTGAAATAATTACTATTAAATATATTTTAATTAAAATATATGATTT
1 -AAT-AAAATTTAAAATAATTACTATTAAATATATTATAATTAAAATATATGATTT
24158785 AATAAAATTTAAAATAATTA
1 AATAAAATTTAAAATAATTA
24158805 TAACTAATAA
Statistics
Matches: 107, Mismatches: 16, Indels: 34
0.68 0.10 0.22
Matches are distributed among these distances:
53 3 0.03
54 20 0.19
55 3 0.03
56 5 0.05
57 2 0.02
58 6 0.06
59 23 0.21
61 23 0.21
62 7 0.07
63 3 0.03
64 4 0.04
65 4 0.04
66 4 0.04
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.42
Consensus pattern (54 bp):
AATAAAATTTAAAATAATTACTATTAAATATATTATAATTAAAATATATGATTT
Found at i:24158804 original size:120 final size:120
Alignment explanation
Indices: 24158261--24158793 Score: 928
Period size: 120 Copynumber: 4.4 Consensus size: 120
24158251 ATCATATTTA
24158261 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
24158326 TATTCTTATATGAGTTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
*
24158381 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
24158446 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
24158501 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* *
24158566 TATTCTTATATGAATTTACTCAAATCATAATATATAATATTGTAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
* *
24158621 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* *
24158686 TATTCTTGTATGAATTTACTCAAATCATAATATATGATACTAT-AAATGA-AAATTT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAAT-ATAAA-TT
* *
24158741 GAA-ATAATTACTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 -AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
24158794 TAAAATAATT
Statistics
Matches: 396, Mismatches: 14, Indels: 6
0.95 0.03 0.01
Matches are distributed among these distances:
119 7 0.02
120 387 0.98
121 2 0.01
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:24158886 original size:92 final size:92
Alignment explanation
Indices: 24158790--24158988 Score: 215
Period size: 92 Copynumber: 2.2 Consensus size: 92
24158780 GATTTAATAA
* * * *
24158790 AATTT-AAAATAATTATAACTAATAAATTATATTTTATGAATTTGTATAATTTAAAATAA-TAAT
1 AATTTCAAAA-AATTATAACTAATAAATTATATTATATGAATTTATACAATTAAAAATAATTAA-
*
24158853 TATTACATATAATTTTATGATTAATATTT
64 TATTAAATATAATTTTATGATTAATATTT
* * * * * *
24158882 AATTTCATAAAATTCTTAGTAATAAATTTTCTTATATGAATTTATACAATTAAAAATAATTAATA
1 AATTTCAAAAAATTATAACTAATAAATTATATTATATGAATTTATACAATTAAAAATAATTAATA
* * * *
24158947 TTAAATATAATTTAAT-ACTGATATAT
66 TTAAATATAATTTTATGATTAATATTT
*
24158973 AATTTCATAAAATTAT
1 AATTTCAAAAAATTAT
24158989 TTTTAATAAT
Statistics
Matches: 89, Mismatches: 16, Indels: 5
0.81 0.15 0.05
Matches are distributed among these distances:
91 22 0.25
92 61 0.69
93 6 0.07
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (92 bp):
AATTTCAAAAAATTATAACTAATAAATTATATTATATGAATTTATACAATTAAAAATAATTAATA
TTAAATATAATTTTATGATTAATATTT
Found at i:24158951 original size:16 final size:17
Alignment explanation
Indices: 24158930--24158963 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
24158920 AATTTATACA
24158930 ATTAAAAATAA-TTAAT
1 ATTAAAAATAATTTAAT
*
24158946 ATTAAATATAATTTAAT
1 ATTAAAAATAATTTAAT
24158963 A
1 A
24158964 CTGATATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATTAAAAATAATTTAAT
Found at i:24160842 original size:20 final size:20
Alignment explanation
Indices: 24160817--24160857 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
24160807 CCACTCGTTC
24160817 AGATGATATCGCTATCCTCT
1 AGATGATATCGCTATCCTCT
*
24160837 AGATGATATCGCTGTCCTCT
1 AGATGATATCGCTATCCTCT
24160857 A
1 A
24160858 AATCATTCAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.34
Consensus pattern (20 bp):
AGATGATATCGCTATCCTCT
Found at i:24167110 original size:24 final size:24
Alignment explanation
Indices: 24167083--24167130 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
24167073 TATTGGAAGA
24167083 TACATTTTAATATTTTATTAAATG
1 TACATTTTAATATTTTATTAAATG
24167107 TACATTTTAATATTTTATTAAATG
1 TACATTTTAATATTTTATTAAATG
24167131 GATTTATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.54
Consensus pattern (24 bp):
TACATTTTAATATTTTATTAAATG
Found at i:24167287 original size:21 final size:21
Alignment explanation
Indices: 24167263--24167315 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
24167253 CATTGTTTCT
*
24167263 AATCTCACCGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
*
24167284 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
*
24167305 AATCTTACCGC
1 AATCTCACCGC
24167316 CACCGCTGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.30, C:0.36, G:0.09, T:0.25
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:24167404 original size:21 final size:21
Alignment explanation
Indices: 24167378--24167433 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
24167368 AATAGCGGTG
*
24167378 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
*
24167399 GCGGTGAGATTGGATACTGTA
1 GCGGTGAGATTAGATACTGTA
*
24167420 GCAGTGAGATTAGA
1 GCGGTGAGATTAGA
24167434 AACAATGGTG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.27, C:0.09, G:0.36, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:24172306 original size:33 final size:34
Alignment explanation
Indices: 24172238--24172306 Score: 88
Period size: 33 Copynumber: 2.1 Consensus size: 34
24172228 CAATAATCAC
* *
24172238 TGTTTTAGTTCTCAAATATGAAAAACAAAATGGT
1 TGTTTTAGTTCCCAAATATGAAAAACAAAAAGGT
*
24172272 TGTTTT-GTTCCCAAATTTG-AAAACAAATAAGGT
1 TGTTTTAGTTCCCAAATATGAAAAACAAA-AAGGT
24172305 TG
1 TG
24172307 GAAAGAAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
32 8 0.26
33 17 0.55
34 6 0.19
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (34 bp):
TGTTTTAGTTCCCAAATATGAAAAACAAAAAGGT
Found at i:24174701 original size:20 final size:20
Alignment explanation
Indices: 24174676--24174723 Score: 80
Period size: 19 Copynumber: 2.4 Consensus size: 20
24174666 TTCGTTTAGT
24174676 TATTTATTTATTATTTTGAA
1 TATTTATTTATTATTTTGAA
24174696 TATTTA-TTATTATTTTGAA
1 TATTTATTTATTATTTTGAA
24174715 TAATTTATT
1 T-ATTTATT
24174724 ATTTGTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 14 0.54
20 11 0.42
21 1 0.04
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (20 bp):
TATTTATTTATTATTTTGAA
Found at i:24174705 original size:23 final size:24
Alignment explanation
Indices: 24174679--24174758 Score: 82
Period size: 23 Copynumber: 3.6 Consensus size: 24
24174669 GTTTAGTTAT
24174679 TTATTTATTATTTTGAAT-A--T-
1 TTATTTATTATTTTGAATAATTTA
24174699 TTA-TTATTATTTTGAATAATTTA
1 TTATTTATTATTTTGAATAATTTA
* *
24174722 TTATTTGTT-TTTTTAATAATTTA
1 TTATTTATTATTTTGAATAATTTA
* *
24174745 TTCTTTGTTATTTT
1 TTATTTATTATTTT
24174759 CTTTGTTTTT
Statistics
Matches: 51, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
19 14 0.27
20 4 0.08
22 1 0.02
23 24 0.47
24 8 0.16
ACGTcount: A:0.26, C:0.01, G:0.05, T:0.68
Consensus pattern (24 bp):
TTATTTATTATTTTGAATAATTTA
Found at i:24174724 original size:20 final size:19
Alignment explanation
Indices: 24174676--24174726 Score: 84
Period size: 20 Copynumber: 2.6 Consensus size: 19
24174666 TTCGTTTAGT
24174676 TATTTATTTATTATTTTGAA
1 TATTTA-TTATTATTTTGAA
24174696 TATTTATTATTATTTTGAA
1 TATTTATTATTATTTTGAA
24174715 TAATTTATTATT
1 T-ATTTATTATT
24174727 TGTTTTTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
19 14 0.47
20 16 0.53
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (19 bp):
TATTTATTATTATTTTGAA
Found at i:24175000 original size:49 final size:48
Alignment explanation
Indices: 24174942--24175047 Score: 122
Period size: 48 Copynumber: 2.2 Consensus size: 48
24174932 TATGGTCATA
* * * **
24174942 GGTTGAAGTATAACTAGGGCTCCCAGTTGACGGTGGTTATGCAATCACG
1 GGTTCAAGTATAACCA-GGCCCCCAACTGACGGTGGTTATGCAATCACG
* * * *
24174991 TGTTCAAGTATAACCAGGCCCCCAACTGGCGGTGGTTATGCGATTACG
1 GGTTCAAGTATAACCAGGCCCCCAACTGACGGTGGTTATGCAATCACG
24175039 GGTTCAAGT
1 GGTTCAAGT
24175048 TTCATGTCAC
Statistics
Matches: 47, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
48 34 0.72
49 13 0.28
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (48 bp):
GGTTCAAGTATAACCAGGCCCCCAACTGACGGTGGTTATGCAATCACG
Found at i:24176986 original size:28 final size:27
Alignment explanation
Indices: 24176940--24177000 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 27
24176930 TCTGCTCGAA
*
24176940 TATATTATGTTATAAAATATTATATTAAT
1 TATA-TATGTTATAAAATAATATA-TAAT
*
24176969 TATATATGTTA-AATAATAATATATATT
1 TATATATGTTATAA-AATAATATATAAT
24176996 TATAT
1 TATAT
24177001 TAAATCATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 10 0.34
28 15 0.52
29 4 0.14
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (27 bp):
TATATATGTTATAAAATAATATATAAT
Found at i:24180010 original size:8 final size:8
Alignment explanation
Indices: 24179997--24180026 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
24179987 GTTCATCATT
24179997 ATGAATTG
1 ATGAATTG
24180005 ATGAATTG
1 ATGAATTG
24180013 ATGAATTG
1 ATGAATTG
24180021 AT-AATT
1 ATGAATT
24180027 AATTAAGGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 4 0.18
8 18 0.82
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (8 bp):
ATGAATTG
Found at i:24181484 original size:20 final size:21
Alignment explanation
Indices: 24181441--24181485 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
24181431 TTTAAATACG
* *
24181441 TATTTCATTTTTATAAATTAT
1 TATTACATTTCTATAAATTAT
*
24181462 TATTACATTTCTA-AAATTTT
1 TATTACATTTCTATAAATTAT
24181482 TATT
1 TATT
24181486 TAAAGTTAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (21 bp):
TATTACATTTCTATAAATTAT
Found at i:24183244 original size:44 final size:44
Alignment explanation
Indices: 24183194--24183283 Score: 180
Period size: 44 Copynumber: 2.0 Consensus size: 44
24183184 ACTTAGAGGG
24183194 ATTTGGGCTAACATTCCTGTTGATTTGAGTTCCTTGAGAAGATC
1 ATTTGGGCTAACATTCCTGTTGATTTGAGTTCCTTGAGAAGATC
24183238 ATTTGGGCTAACATTCCTGTTGATTTGAGTTCCTTGAGAAGATC
1 ATTTGGGCTAACATTCCTGTTGATTTGAGTTCCTTGAGAAGATC
24183282 AT
1 AT
24183284 CTTTTAACCC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.23, C:0.16, G:0.22, T:0.39
Consensus pattern (44 bp):
ATTTGGGCTAACATTCCTGTTGATTTGAGTTCCTTGAGAAGATC
Found at i:24188210 original size:22 final size:23
Alignment explanation
Indices: 24188180--24188233 Score: 58
Period size: 22 Copynumber: 2.4 Consensus size: 23
24188170 TTGTATTAGT
* *
24188180 TTACCAAATTAAAC-TTAAAATA
1 TTACTAAATTAAACATTAAAAAA
* *
24188202 TTACTAAATTTATCATTAAAAAA
1 TTACTAAATTAAACATTAAAAAA
24188225 TTA-TAAATT
1 TTACTAAATT
24188234 TTATAAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 17 0.63
23 10 0.37
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (23 bp):
TTACTAAATTAAACATTAAAAAA
Found at i:24188492 original size:14 final size:16
Alignment explanation
Indices: 24188461--24188492 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
24188451 TTTTCTGAAA
24188461 ATAATTTTCCAGATGT
1 ATAATTTTCCAGATGT
24188477 ATAA-TTTCCA-ATGT
1 ATAATTTTCCAGATGT
24188491 AT
1 AT
24188493 CCATTGTGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 6 0.38
16 4 0.25
ACGTcount: A:0.34, C:0.12, G:0.09, T:0.44
Consensus pattern (16 bp):
ATAATTTTCCAGATGT
Found at i:24198004 original size:54 final size:53
Alignment explanation
Indices: 24197940--24198063 Score: 133
Period size: 54 Copynumber: 2.3 Consensus size: 53
24197930 CGTGTTTTAA
* * *
24197940 ACCGCGTAACTCACTGAGTTAGGTTACACA-GCCGTGTCGCAAGCCGTGTGCCAG
1 ACCGTGTAACTCACTGACTTA--TAACACACGCCGTGTCGCAAGCCGTGTGCCAG
* * * *
24197994 ACCGTGTAACTCTCTGACTTATAACACACTGCCGTGTCGCAGGCTGTGTGCTAG
1 ACCGTGTAACTCACTGACTTATAACACAC-GCCGTGTCGCAAGCCGTGTGCCAG
* *
24198048 ACTGTGTAAGTCACTG
1 ACCGTGTAACTCACTG
24198064 TATTGAAATA
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
52 6 0.10
54 52 0.90
ACGTcount: A:0.22, C:0.27, G:0.26, T:0.25
Consensus pattern (53 bp):
ACCGTGTAACTCACTGACTTATAACACACGCCGTGTCGCAAGCCGTGTGCCAG
Found at i:24199890 original size:17 final size:18
Alignment explanation
Indices: 24199859--24199894 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
24199849 CAAAAATCAC
24199859 TTAACAACACAAGTTTAT
1 TTAACAACACAAGTTTAT
24199877 TTAACAAC-CAAGTTTAT
1 TTAACAACACAAGTTTAT
24199894 T
1 T
24199895 AATATATCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.42, C:0.17, G:0.06, T:0.36
Consensus pattern (18 bp):
TTAACAACACAAGTTTAT
Found at i:24206481 original size:18 final size:17
Alignment explanation
Indices: 24206448--24206486 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
24206438 TTTTATAAAT
24206448 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
24206466 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
24206483 TGTG
1 TGTG
24206487 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:24206618 original size:8 final size:8
Alignment explanation
Indices: 24206605--24206633 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
24206595 CACTAGAGAC
24206605 CAGTGTTA
1 CAGTGTTA
24206613 CAGTGTTA
1 CAGTGTTA
24206621 CAGTGTTA
1 CAGTGTTA
24206629 CAGTG
1 CAGTG
24206634 AGTCCCGGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.34
Consensus pattern (8 bp):
CAGTGTTA
Found at i:24206746 original size:23 final size:23
Alignment explanation
Indices: 24206720--24206795 Score: 134
Period size: 23 Copynumber: 3.3 Consensus size: 23
24206710 AGTGTTATTG
24206720 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
24206743 ATCAGTGGTAGCTACAGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
24206766 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
24206789 ATCAGTG
1 ATCAGTG
24206796 TGGTACTTAT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 49 1.00
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:24215103 original size:17 final size:18
Alignment explanation
Indices: 24215073--24215106 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
24215063 CAAAAATCAC
24215073 TTAACAACACAAGTTTAT
1 TTAACAACACAAGTTTAT
24215091 TTAACAA-ACAAGTTTA
1 TTAACAACACAAGTTTA
24215107 ATAATCTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.47, C:0.15, G:0.06, T:0.32
Consensus pattern (18 bp):
TTAACAACACAAGTTTAT
Found at i:24224042 original size:9 final size:9
Alignment explanation
Indices: 24224028--24224067 Score: 53
Period size: 9 Copynumber: 4.2 Consensus size: 9
24224018 TAAGTTATTA
24224028 AAACTAATT
1 AAACTAATT
24224037 AAACTAGATT
1 AAACTA-ATT
*
24224047 AAATTAATT
1 AAACTAATT
24224056 AAACTAAGTT
1 AAACTAA-TT
24224066 AA
1 AA
24224068 TTAAGGCATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
9 15 0.56
10 12 0.44
ACGTcount: A:0.55, C:0.07, G:0.05, T:0.33
Consensus pattern (9 bp):
AAACTAATT
Found at i:24224067 original size:19 final size:18
Alignment explanation
Indices: 24224032--24224071 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
24224022 TTATTAAAAC
24224032 TAATTAAACTAGATTAAAT
1 TAATTAAACTAGATT-AAT
24224051 TAATTAAACTA-AGTTAAT
1 TAATTAAACTAGA-TTAAT
24224069 TAA
1 TAA
24224072 GGCATAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.38
Consensus pattern (18 bp):
TAATTAAACTAGATTAAT
Found at i:24241138 original size:27 final size:27
Alignment explanation
Indices: 24241103--24241223 Score: 95
Period size: 27 Copynumber: 4.5 Consensus size: 27
24241093 ATAGTTCACC
*
24241103 GGGACAGTAAACACGTGATAGTTCGTT
1 GGGATAGTAAACACGTGATAGTTCGTT
* * *
24241130 AGGATAGTAAATACAG-GATAG-TCTGCT
1 GGGATAGTAAACAC-GTGATAGTTC-GTT
* * *
24241157 GGGATAGTAAACACGGGGTAGTTCGTC
1 GGGATAGTAAACACGTGATAGTTCGTT
* * * *
24241184 GGG-TCAATAAACACATGGTAGTTCATT
1 GGGAT-AGTAAACACGTGATAGTTCGTT
24241211 GGGATAGTAAACA
1 GGGATAGTAAACA
24241224 TGGGGTAGTT
Statistics
Matches: 73, Mismatches: 15, Indels: 12
0.73 0.15 0.12
Matches are distributed among these distances:
26 4 0.05
27 65 0.89
28 4 0.05
ACGTcount: A:0.33, C:0.13, G:0.29, T:0.25
Consensus pattern (27 bp):
GGGATAGTAAACACGTGATAGTTCGTT
Found at i:24241230 original size:27 final size:27
Alignment explanation
Indices: 24241094--24241252 Score: 90
Period size: 27 Copynumber: 5.9 Consensus size: 27
24241084 CAATCAATGA
** * * *
24241094 TAGTTCACCGGGACAGTAAACACGTGA
1 TAGTTCATTGGGATAGTAAACACGGGG
* * * * *
24241121 TAGTTCGTTAGGATAGTAAATACAGGA
1 TAGTTCATTGGGATAGTAAACACGGGG
24241148 TAG-TC-TGCTGGGATAGTAAACACGGGG
1 TAGTTCAT--TGGGATAGTAAACACGGGG
* * * **
24241175 TAGTTCGTCGGG-TCAATAAACACATGG
1 TAGTTCATTGGGAT-AGTAAACACGGGG
*
24241202 TAGTTCATTGGGATAGTAAACATGGGG
1 TAGTTCATTGGGATAGTAAACACGGGG
* ** *
24241229 TAGTTTATCAGGATAGAAAACACG
1 TAGTTCATTGGGATAGTAAACACG
24241253 AAAATTTCGT
Statistics
Matches: 99, Mismatches: 27, Indels: 12
0.72 0.20 0.09
Matches are distributed among these distances:
25 1 0.01
26 3 0.03
27 91 0.92
28 3 0.03
29 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.28, T:0.25
Consensus pattern (27 bp):
TAGTTCATTGGGATAGTAAACACGGGG
Found at i:24251630 original size:16 final size:16
Alignment explanation
Indices: 24251609--24251645 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
24251599 TTGGTTCGCT
24251609 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
*
24251625 GTAATGGATTAGAGGC
1 GTAATGGAATAGAGGC
24251641 GTAAT
1 GTAAT
24251646 AGCAATTCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.35, C:0.05, G:0.35, T:0.24
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:24251689 original size:45 final size:44
Alignment explanation
Indices: 24251625--24251721 Score: 133
Period size: 44 Copynumber: 2.2 Consensus size: 44
24251615 GAATAGAGGC
*
24251625 GTAATGGATTAGAGGCGTAATAGCAATTCAAT-TGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAG-AATTC-ATGTGTTTGGTTGAAT
* *
24251670 GTAATGGAATAGAGGCGTAATAGTATTCTTGTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGAATTCATGTGTTTGGTTGAAT
*
24251714 GGAATGGA
1 GTAATGGA
24251722 GGTGTAATAG
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
43 1 0.02
44 24 0.51
45 22 0.47
ACGTcount: A:0.30, C:0.05, G:0.30, T:0.35
Consensus pattern (44 bp):
GTAATGGAATAGAGGCGTAATAGAATTCATGTGTTTGGTTGAAT
Found at i:24251905 original size:18 final size:17
Alignment explanation
Indices: 24251879--24251918 Score: 57
Period size: 16 Copynumber: 2.4 Consensus size: 17
24251869 CATAATTATT
24251879 ATAAAATATAT--TTTA
1 ATAAAATATATAATTTA
24251894 ATTAAAATATATAATTTA
1 A-TAAAATATATAATTTA
24251912 ATAAAAT
1 ATAAAAT
24251919 TCTTAGTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 1 0.05
16 10 0.45
17 6 0.27
18 5 0.23
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
ATAAAATATATAATTTA
Found at i:24251964 original size:61 final size:61
Alignment explanation
Indices: 24251899--24252089 Score: 212
Period size: 61 Copynumber: 3.2 Consensus size: 61
24251889 TTTTAATTAA
* *
24251899 AATATATAATTTAATAAAATTCTTAGTATTAAATATTCTTATATGAATTTACTAAAATCAT
1 AATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATAAATTTACTAAAATCAT
* * ** * * ** * *
24251960 AATATATAATACT-ATAAAA-T-ATAAT-TTAAAATAATAATTAT-TAAATATAATTTAATAAA
1 AATATATAAT-TTAATAAAATTCTTAATATT-AAAT-ATTCTTATATAAATTTACTAAAATCAT
24252019 AATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATAAATTTACTAAAATCAT
1 AATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATAAATTTACTAAAATCAT
24252080 AATATATAAT
1 AATATATAAT
24252090 ACTATAAAAT
Statistics
Matches: 100, Mismatches: 22, Indels: 16
0.72 0.16 0.12
Matches are distributed among these distances:
58 3 0.03
59 34 0.34
60 14 0.14
61 46 0.46
62 3 0.03
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.42
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATAAATTTACTAAAATCAT
Found at i:24251998 original size:13 final size:12
Alignment explanation
Indices: 24251974--24252014 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 12
24251964 TATAATACTA
24251974 TAAAATATAATT
1 TAAAATATAATT
24251986 TAAAATAATAATT
1 TAAAAT-ATAATT
*
24251999 ATTAAATATAATT
1 -TAAAATATAATT
24252012 TAA
1 TAA
24252015 TAAAAATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
12 8 0.32
13 12 0.48
14 5 0.20
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
TAAAATATAATT
Found at i:24252036 original size:59 final size:59
Alignment explanation
Indices: 24251960--24252148 Score: 213
Period size: 59 Copynumber: 3.2 Consensus size: 59
24251950 CTAAAATCAT
*
24251960 AATATATAATACTATAAAATATAATTTAAAATAATAATTATTAAATATAATTTAATAAA
1 AATATATAATACTATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAA
* * * * * ** * *
24252019 AATATATAAT-TTAATAAAATTCTTAATATT-AAAT-ATTCTTATATAAATTTACTAAAATCAT
1 AATATATAATACT-ATAAAA-T-ATAAT-TTAAAATAATTATTAT-TAAATATAATTTAATAAA
*
24252080 AATATATAATACTATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAGA
1 AATATATAATACTATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAA
24252139 AATATATAAT
1 AATATATAAT
24252149 TTACATTTAT
Statistics
Matches: 102, Mismatches: 20, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
58 3 0.03
59 45 0.44
60 15 0.15
61 36 0.35
62 3 0.03
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (59 bp):
AATATATAATACTATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAA
Found at i:24252077 original size:120 final size:120
Alignment explanation
Indices: 24251864--24252151 Score: 504
Period size: 120 Copynumber: 2.4 Consensus size: 120
24251854 TTAATCATAT
* * * * *
24251864 TTTAACATAATTATTATAAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAGTATT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
*
24251929 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
66 AAATATTCTTATATAAATTTACTAAAATCATAATATATAATACTATAAAATATAA
*
24251984 TTTAAAATAATAATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
24252049 AAATATTCTTATATAAATTTACTAAAATCATAATATATAATACTATAAAATATAA
66 AAATATTCTTATATAAATTTACTAAAATCATAATATATAATACTATAAAATATAA
*
24252104 TTTAAAATAATTATTATTAAATATAATTTAATAGAAATATATAATTTA
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTA
24252152 CATTTATTGC
Statistics
Matches: 159, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
120 159 1.00
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (120 bp):
TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
AAATATTCTTATATAAATTTACTAAAATCATAATATATAATACTATAAAATATAA
Found at i:24255808 original size:50 final size:50
Alignment explanation
Indices: 24255625--24255809 Score: 262
Period size: 50 Copynumber: 3.7 Consensus size: 50
24255615 GATTATAACA
* * * * * *
24255625 TGCCAAAGCCATGTCCCAAACAAGGTCTTACATGAGATGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGAT-CTCTCATCTCGG
* * ** *
24255676 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATCTCTCATCTCGG
24255726 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATCTCTCATCTCGG
24255776 TGCCAACGCCATGTCCCAGACATGGTCTTACATG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATG
24255810 AGGCCTCTTT
Statistics
Matches: 119, Mismatches: 15, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
50 89 0.75
51 30 0.25
ACGTcount: A:0.22, C:0.31, G:0.22, T:0.25
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATCTCTCATCTCGG
Found at i:24258201 original size:50 final size:50
Alignment explanation
Indices: 24258072--24258256 Score: 253
Period size: 50 Copynumber: 3.7 Consensus size: 50
24258062 GATAATAACA
* * ** * *
24258072 TGCCAAAGCCATGTCCCAGACAAGGTCTTACATGGGATGTTCTTATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * * **
24258123 TGCCCATGCCATGTCCCAGACATTGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
24258173 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
24258223 TGCCAACGCCATGTCCCAGACATGGTCTTACATG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATG
24258257 ATACCTCTTT
Statistics
Matches: 117, Mismatches: 17, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
50 86 0.74
51 31 0.26
ACGTcount: A:0.22, C:0.31, G:0.22, T:0.25
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:24259410 original size:25 final size:25
Alignment explanation
Indices: 24259369--24259437 Score: 70
Period size: 25 Copynumber: 2.8 Consensus size: 25
24259359 CCTTCTCTTG
*
24259369 TATTTATTT-TGTTTTATTTATTTAT
1 TATTTATTTAT-TATTATTTATTTAT
* *
24259394 T-TATTATTTCTTATTATTTGTTTAT
1 TAT-TTATTTATTATTATTTATTTAT
*
24259419 TATTTGTTTATTATTATTT
1 TATTTATTTATTATTATTT
24259438 GTTATCATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
24 1 0.03
25 34 0.92
26 2 0.05
ACGTcount: A:0.20, C:0.01, G:0.04, T:0.74
Consensus pattern (25 bp):
TATTTATTTATTATTATTTATTTAT
Found at i:24259421 original size:14 final size:13
Alignment explanation
Indices: 24259404--24259440 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
24259394 TTATTATTTC
24259404 TTATTATTTG--T
1 TTATTATTTGTTT
24259415 TTATTATTTGTTT
1 TTATTATTTGTTT
24259428 ATTATTATTTGTT
1 -TTATTATTTGTT
24259441 ATCATTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 10 0.43
13 1 0.04
14 12 0.52
ACGTcount: A:0.19, C:0.00, G:0.08, T:0.73
Consensus pattern (13 bp):
TTATTATTTGTTT
Found at i:24259438 original size:25 final size:25
Alignment explanation
Indices: 24259382--24259440 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
24259372 TTATTTTGTT
* *
24259382 TTATTTATTTATTTATTATTTCTTA
1 TTATTTGTTTATTTATTATTTATTA
*
24259407 TTATTTGTTTA-TTATTTGTTTATTA
1 TTATTTGTTTATTTA-TTATTTATTA
24259432 TTATTTGTT
1 TTATTTGTT
24259441 ATCATTTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
24 3 0.10
25 27 0.90
ACGTcount: A:0.20, C:0.02, G:0.05, T:0.73
Consensus pattern (25 bp):
TTATTTGTTTATTTATTATTTATTA
Found at i:24259695 original size:25 final size:25
Alignment explanation
Indices: 24259648--24259695 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
24259638 CTATTCTTGC
* **
24259648 TATTACTGATTATTCTTTTTTATTT
1 TATTACTGATTATTATTGGTTATTT
*
24259673 TATTACTGTTTATTATTGGTTAT
1 TATTACTGATTATTATTGGTTAT
24259696 ATTTCTTATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.21, C:0.06, G:0.08, T:0.65
Consensus pattern (25 bp):
TATTACTGATTATTATTGGTTATTT
Found at i:24261099 original size:6 final size:6
Alignment explanation
Indices: 24261090--24261122 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
24261080 TTTATTTTCT
*
24261090 TTTTAG TTTTAT TTTTAG TTTTAG TTTT-G TTTT
1 TTTTAG TTTTAG TTTTAG TTTTAG TTTTAG TTTT
24261123 TATTTTATGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.12, C:0.00, G:0.12, T:0.76
Consensus pattern (6 bp):
TTTTAG
Found at i:24261104 original size:12 final size:12
Alignment explanation
Indices: 24261080--24261128 Score: 57
Period size: 12 Copynumber: 4.2 Consensus size: 12
24261070 ATTGAGTTTA
*
24261080 TTTA-TTTTCTT
1 TTTAGTTTTATT
24261091 TTTAGTTTTATT
1 TTTAGTTTTATT
*
24261103 TTTAGTTTTAGT
1 TTTAGTTTTATT
24261115 TTT-GTTTTTATT
1 TTTAG-TTTTATT
24261127 TT
1 TT
24261129 ATGTTTATGT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
11 5 0.15
12 28 0.85
ACGTcount: A:0.12, C:0.02, G:0.08, T:0.78
Consensus pattern (12 bp):
TTTAGTTTTATT
Found at i:24261111 original size:18 final size:17
Alignment explanation
Indices: 24261080--24261143 Score: 69
Period size: 17 Copynumber: 3.7 Consensus size: 17
24261070 ATTGAGTTTA
24261080 TTTATTTTCT-TTTTAGT
1 TTTATTTT-TATTTTAGT
24261097 TTTATTTTTAGTTTTAGT
1 TTTATTTTTA-TTTTAGT
*
24261115 TTTGTTTTTATTTTA-T
1 TTTATTTTTATTTTAGT
*
24261131 GTTTATGTTTATT
1 -TTTATTTTTATT
24261144 GATATTTTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
16 2 0.05
17 23 0.56
18 16 0.39
ACGTcount: A:0.14, C:0.02, G:0.09, T:0.75
Consensus pattern (17 bp):
TTTATTTTTATTTTAGT
Found at i:24261189 original size:47 final size:47
Alignment explanation
Indices: 24261099--24261190 Score: 109
Period size: 47 Copynumber: 2.0 Consensus size: 47
24261089 TTTTTAGTTT
* * *
24261099 TATTTTTAGTTTTAGTTTTGTTTTTATTTTATGTTTATGTTTATTGA
1 TATTTTTAGTTTTAGTTTTGTTTTTATCTTAGGCTTATGTTTATTGA
24261146 TATTTTTAGTTGTT-GTTATTGTTATTT-TCTTAGGCTTAT-TTTATT
1 TATTTTTAGTT-TTAGTT-TTGTT-TTTATCTTAGGCTTATGTTTATT
24261191 TCTTATCTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
47 20 0.51
48 16 0.41
49 3 0.08
ACGTcount: A:0.16, C:0.02, G:0.13, T:0.68
Consensus pattern (47 bp):
TATTTTTAGTTTTAGTTTTGTTTTTATCTTAGGCTTATGTTTATTGA
Found at i:24265416 original size:3 final size:3
Alignment explanation
Indices: 24265389--24265430 Score: 50
Period size: 3 Copynumber: 14.0 Consensus size: 3
24265379 TTTTATTAAT
* *
24265389 TTA TTAA TTA TT- TTA TTA CTA TTA TTA TTA TTG TTA TTA TTA
1 TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
24265431 GTATATATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
2 2 0.06
3 28 0.85
4 3 0.09
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:24265707 original size:32 final size:30
Alignment explanation
Indices: 24265667--24265729 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 30
24265657 ATGATTCTAC
*
24265667 TTTATATATATATAATTTATATTTAATTATT
1 TTTATATATATATAATTTATA-TTAAGTATT
* *
24265698 TTTAGTATATATGTTATTTATATTAAGTATT
1 TTTA-TATATATATAATTTATATTAAGTATT
24265729 T
1 T
24265730 CATTTCAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 13 0.46
32 15 0.54
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (30 bp):
TTTATATATATATAATTTATATTAAGTATT
Found at i:24265726 original size:22 final size:21
Alignment explanation
Indices: 24265684--24265727 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
24265674 ATATATAATT
* *
24265684 TATATTTAATTATTTTTAGTA
1 TATATTTAATTATATTAAGTA
*
24265705 TATATGTTATTTATATTAAGTA
1 TATAT-TTAATTATATTAAGTA
24265727 T
1 T
24265728 TTCATTTCAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (21 bp):
TATATTTAATTATATTAAGTA
Found at i:24265917 original size:12 final size:12
Alignment explanation
Indices: 24265902--24265927 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
24265892 GTATACTTTC
24265902 ATATATATGTAT
1 ATATATATGTAT
24265914 ATATATATGTAT
1 ATATATATGTAT
24265926 AT
1 AT
24265928 TATTGATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (12 bp):
ATATATATGTAT
Found at i:24269335 original size:49 final size:49
Alignment explanation
Indices: 24269278--24269381 Score: 154
Period size: 49 Copynumber: 2.1 Consensus size: 49
24269268 TCATGTGTTA
* * * * *
24269278 TAATTTTATATAGTGTTGAGCTTTTGATTCATGATATTGAACTTATTTT
1 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
*
24269327 TAATTTTATAAAGTGTTCACCTTTTGATTCATGGTATTAAACTTAATTT
1 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
24269376 TAATTT
1 TAATTT
24269382 GTTTTTTTCT
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.29, C:0.08, G:0.12, T:0.52
Consensus pattern (49 bp):
TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
Found at i:24270926 original size:120 final size:120
Alignment explanation
Indices: 24270781--24271096 Score: 587
Period size: 120 Copynumber: 2.6 Consensus size: 120
24270771 ATACATTATT
* *
24270781 TTTATAGTATTACATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTA
1 TTTATAGCATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTA
* *
24270846 TAAAATTATATATTTTTATTAACTTATATTTAATAATAATTATGTTAAATTATAA
66 TTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATAA
*
24270901 TTTATAGCATTATATATTATTATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTA
1 TTTATAGCATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTA
24270966 TTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATAA
66 TTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATAA
24271021 TTTATAGCATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTA
1 TTTATAGCATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTA
24271086 TTAAATTATAT
66 TTAAATTATAT
24271097 TTAATAATAA
Statistics
Matches: 190, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 190 1.00
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (120 bp):
TTTATAGCATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTA
TTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATAA
Found at i:24270964 original size:38 final size:37
Alignment explanation
Indices: 24270922--24271096 Score: 104
Period size: 38 Copynumber: 4.5 Consensus size: 37
24270912 ATATATTATT
24270922 ATTTTAGTAAATTCATATAAGAATATTTAATATTAAGA
1 ATTTTAGTAAATT-ATATAAGAATATTTAATATTAAGA
* **** * *
24270960 ATTTTATTAAATTATATATTTTTATTAAATTATATTTAATA
1 ATTTTAGTAAATTATATAAGAATATT---TAATA-TTAAGA
* * * *
24271001 ATAATTATGTTAAATTATAATTTATAGCAT-TAT-ATATTATG-
1 AT-TTTA-G-TAAATTAT-A--TA-AGAATATTTAATATTAAGA
24271042 ATTTTAGTAAATTCATATAAGAATATTTAATATTAAGA
1 ATTTTAGTAAATT-ATATAAGAATATTTAATATTAAGA
*
24271080 ATTTTATTAAATTATAT
1 ATTTTAGTAAATTATAT
24271097 TTAATAATAA
Statistics
Matches: 101, Mismatches: 21, Indels: 31
0.66 0.14 0.20
Matches are distributed among these distances:
35 4 0.04
36 4 0.04
37 20 0.20
38 31 0.31
39 3 0.03
40 7 0.07
41 9 0.09
42 6 0.06
43 3 0.03
44 9 0.09
45 1 0.01
47 3 0.03
48 1 0.01
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (37 bp):
ATTTTAGTAAATTATATAAGAATATTTAATATTAAGA
Found at i:24271204 original size:16 final size:16
Alignment explanation
Indices: 24271183--24271216 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
24271173 ATATTAAGAA
24271183 TTTTATAAAATTATAT
1 TTTTATAAAATTATAT
*
24271199 TTTTATTAAATTATAT
1 TTTTATAAAATTATAT
24271215 TT
1 TT
24271217 AATAATAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TTTTATAAAATTATAT
Found at i:24271226 original size:16 final size:16
Alignment explanation
Indices: 24271207--24271323 Score: 60
Period size: 16 Copynumber: 7.2 Consensus size: 16
24271197 ATTTTTATTA
24271207 AATTATATTTAATAAT
1 AATTATATTTAATAAT
* *
24271223 AATTATGTTAAATTATAT
1 AATTATATTTAA-TA-AT
** *
24271241 AAGAATATTTAATATT
1 AATTATATTTAATAAT
* *
24271257 AA-GA-ATTTTATAA-
1 AATTATATTTAATAAT
** *
24271270 AATTATATATTTTTATT
1 AATTATAT-TTAATAAT
24271287 AAATTATATTTAATAAT
1 -AATTATATTTAATAAT
* * *
24271304 AATTATGTTAAATTAT
1 AATTATATTTAATAAT
24271320 AATT
1 AATT
24271324 TATAGCATTA
Statistics
Matches: 75, Mismatches: 19, Indels: 14
0.69 0.18 0.13
Matches are distributed among these distances:
13 2 0.03
14 8 0.11
15 3 0.04
16 35 0.47
17 9 0.12
18 18 0.24
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (16 bp):
AATTATATTTAATAAT
Found at i:24271250 original size:79 final size:81
Alignment explanation
Indices: 24271151--24271320 Score: 308
Period size: 81 Copynumber: 2.1 Consensus size: 81
24271141 ACGATTTTAG
24271151 TAAATTCATATAACAATATTTAATATTAAGAATTTTATAAAA-T-TATATTTTTATTAAATTATA
1 TAAATT-ATATAACAATATTTAATATTAAGAATTTTATAAAATTATATATTTTTATTAAATTATA
24271214 TTTAATAATAATTATGT
65 TTTAATAATAATTATGT
*
24271231 TAAATTATATAAGAATATTTAATATTAAGAATTTTATAAAATTATATATTTTTATTAAATTATAT
1 TAAATTATATAACAATATTTAATATTAAGAATTTTATAAAATTATATATTTTTATTAAATTATAT
24271296 TTAATAATAATTATGT
66 TTAATAATAATTATGT
24271312 TAAATTATA
1 TAAATTATA
24271321 ATTTATAGCA
Statistics
Matches: 87, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
79 34 0.39
80 7 0.08
81 46 0.53
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (81 bp):
TAAATTATATAACAATATTTAATATTAAGAATTTTATAAAATTATATATTTTTATTAAATTATAT
TTAATAATAATTATGT
Found at i:24271296 original size:199 final size:201
Alignment explanation
Indices: 24271081--24271441 Score: 627
Period size: 199 Copynumber: 1.8 Consensus size: 201
24271071 ATATTAAGAA
* *
24271081 TTTTATTAAATTATATTTAATAATAACTATGATAAATTATATTTTATAGTATTATATATTACGAT
1 TTTTATTAAATTATATTTAATAATAACTATGATAAATTATAATTTATAGCATTATATATTACGAT
24271146 TTTAGTAAATTCATATAACAATATTTAATATTAAGAATTTTA-TAAAAT-TATATTTTTATTAAA
66 TTTAGTAAATTCATATAACAATATTTAATATTAAGAATTTTATTAAAATATATATTTTTATTAAA
* *
24271209 TTATATTTAATAATAATTATGTTAAATTATATAAGAATATTTAATATTAAGAATTTTATAAAATT
131 TTATATTTAATAATAACTATGATAAATTATATAAGAATATTTAATATTAAGAATTTTATAAAATT
24271274 ATATAT
196 ATATAT
* * *
24271280 TTTTATTAAATTATATTTAATAATAATTATGTTAAATTATAATTTATAGCATTATATATTATGAT
1 TTTTATTAAATTATATTTAATAATAACTATGATAAATTATAATTTATAGCATTATATATTACGAT
* *
24271345 TTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTTATTAAA
66 TTTAGTAAATTCATATAACAATATTTAATATTAAGAATTTTATTAAAATATATATTTTTATTAAA
24271410 TTATATTTAATAATAACTATGATAAATTATAT
131 TTATATTTAATAATAACTATGATAAATTATAT
24271442 TTTATAGTAT
Statistics
Matches: 151, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
199 101 0.67
200 5 0.03
201 45 0.30
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (201 bp):
TTTTATTAAATTATATTTAATAATAACTATGATAAATTATAATTTATAGCATTATATATTACGAT
TTTAGTAAATTCATATAACAATATTTAATATTAAGAATTTTATTAAAATATATATTTTTATTAAA
TTATATTTAATAATAACTATGATAAATTATATAAGAATATTTAATATTAAGAATTTTATAAAATT
ATATAT
Found at i:24271372 original size:120 final size:120
Alignment explanation
Indices: 24271231--24271614 Score: 698
Period size: 120 Copynumber: 3.2 Consensus size: 120
24271221 ATAATTATGT
24271231 TAAATT-ATATAAGAATATTTAATATTAAGAATTTTATAAAATTATATATTTTTATTAAATTATA
1 TAAATTCATATAAGAATATTTAATATTAAGAATTTTATAAAATTATATATTTTTATTAAATTATA
24271295 TTTAATAATAATTATGTTAAATTATAATTTATAGCATTATATATTATGATTTTAG
66 TTTAATAATAATTATGTTAAATTATAATTTATAGCATTATATATTATGATTTTAG
*
24271350 TAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATA
1 TAAATTCATATAAGAATATTTAATATTAAGAATTTTATAAAATTATATATTTTTATTAAATTATA
* * * *
24271415 TTTAATAATAACTATGATAAATTATATTTTATAGTATTATATATTATGATTTTAG
66 TTTAATAATAATTATGTTAAATTATAATTTATAGCATTATATATTATGATTTTAG
24271470 TAAATTCATATAAGAATATTTAATATTAAGAATTTTATAAAATTATATATTTTTATTAAATTATA
1 TAAATTCATATAAGAATATTTAATATTAAGAATTTTATAAAATTATATATTTTTATTAAATTATA
* *
24271535 TTTAATAATAGTTAAGTTAAATTATAATTTATAGCATTATATATTATGATTTTAG
66 TTTAATAATAATTATGTTAAATTATAATTTATAGCATTATATATTATGATTTTAG
24271590 TAAATTCATATAAGAATATTTAATA
1 TAAATTCATATAAGAATATTTAATA
24271615 ATAATTATGT
Statistics
Matches: 252, Mismatches: 12, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
119 6 0.02
120 246 0.98
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.49
Consensus pattern (120 bp):
TAAATTCATATAAGAATATTTAATATTAAGAATTTTATAAAATTATATATTTTTATTAAATTATA
TTTAATAATAATTATGTTAAATTATAATTTATAGCATTATATATTATGATTTTAG
Found at i:24271651 original size:73 final size:72
Alignment explanation
Indices: 24271532--24271686 Score: 274
Period size: 73 Copynumber: 2.1 Consensus size: 72
24271522 TTATTAAATT
*
24271532 ATATTTAATAATAGTTAAGTTAAATTATAATTTATAGCATTATATATTATGATTTTAGTAAATTC
1 ATATTTAATAATAATTAAGTTAAATTATAATTTATAGCATTATATATTATGATTTTAGT-AATTC
*
24271597 ATATAAGA
65 ATATAACA
*
24271605 ATATTTAATAATAATTATGTTAAATTATAATTTATAGCATTATATATTATGATTTTAGTAATTCA
1 ATATTTAATAATAATTAAGTTAAATTATAATTTATAGCATTATATATTATGATTTTAGTAATTCA
24271670 TATAACA
66 TATAACA
24271677 ATATTTAATA
1 ATATTTAATA
24271687 TTAAGAATTT
Statistics
Matches: 79, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
72 22 0.28
73 57 0.72
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.46
Consensus pattern (72 bp):
ATATTTAATAATAATTAAGTTAAATTATAATTTATAGCATTATATATTATGATTTTAGTAATTCA
TATAACA
Found at i:24271904 original size:16 final size:16
Alignment explanation
Indices: 24271885--24271931 Score: 76
Period size: 16 Copynumber: 2.9 Consensus size: 16
24271875 CCTATTACGC
24271885 CTCTATTCCATTACAA
1 CTCTATTCCATTACAA
*
24271901 CTCTATTCCATTACAC
1 CTCTATTCCATTACAA
*
24271917 CTCCATTCCATTACA
1 CTCTATTCCATTACA
24271932 GCGAACCAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.28, C:0.36, G:0.00, T:0.36
Consensus pattern (16 bp):
CTCTATTCCATTACAA
Found at i:24276319 original size:7 final size:7
Alignment explanation
Indices: 24276309--24276357 Score: 57
Period size: 7 Copynumber: 7.1 Consensus size: 7
24276299 TTTTAAAATA
24276309 CATTTCC
1 CATTTCC
24276316 CATTTCCC
1 CATTT-CC
*
24276324 CA--CCC
1 CATTTCC
24276329 CATTTCC
1 CATTTCC
24276336 CATTTCC
1 CATTTCC
*
24276343 CATTTCT
1 CATTTCC
24276350 CATTTCC
1 CATTTCC
24276357 C
1 C
24276358 TAAGCCCGTG
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
5 4 0.11
7 27 0.77
8 4 0.11
ACGTcount: A:0.14, C:0.47, G:0.00, T:0.39
Consensus pattern (7 bp):
CATTTCC
Found at i:24278763 original size:23 final size:23
Alignment explanation
Indices: 24278734--24278780 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
24278724 TACTGTAGCT
24278734 TTTCTTTCCTTGCAATTAAGTAC
1 TTTCTTTCCTTGCAATTAAGTAC
24278757 TTTCTTTCCTTGCAATTAAGTAC
1 TTTCTTTCCTTGCAATTAAGTAC
24278780 T
1 T
24278781 CAAGTTTTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.21, C:0.21, G:0.09, T:0.49
Consensus pattern (23 bp):
TTTCTTTCCTTGCAATTAAGTAC
Found at i:24279108 original size:15 final size:15
Alignment explanation
Indices: 24279083--24279117 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
24279073 AACTCTATTT
*
24279083 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
24279097 TAATTAATATTAAGA
1 TAATTAATATTAAGA
24279112 TAATTA
1 TAATTA
24279118 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:24282260 original size:9 final size:9
Alignment explanation
Indices: 24282236--24282269 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
24282226 ATATAACAAT
*
24282236 TAATTATATT
1 TAATT-TATG
24282246 TAATTTATG
1 TAATTTATG
24282255 TAATTTATG
1 TAATTTATG
24282264 TAATTT
1 TAATTT
24282270 TTTTAAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 18 0.78
10 5 0.22
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (9 bp):
TAATTTATG
Found at i:24283824 original size:37 final size:35
Alignment explanation
Indices: 24283731--24283824 Score: 100
Period size: 37 Copynumber: 2.5 Consensus size: 35
24283721 GTCTCCAAAT
*
24283731 TCACATTTCAATTCAATTTCACTTTTTCACTTTCAA
1 TCACAATTCAATTCAA-TTCACTTTTTCACTTTCAA
*
24283767 TCACAATTCAATTCAAAATTCACTTTTTCCATTTTCAA
1 TCACAATTCAATTC--AATTCACTTTTT-CACTTTCAA
*
24283805 GTCA-ATATTCATTTCAATTC
1 -TCACA-ATTCAATTCAATTC
24283825 CACACATATA
Statistics
Matches: 50, Mismatches: 3, Indels: 9
0.81 0.05 0.15
Matches are distributed among these distances:
36 13 0.26
37 15 0.30
38 11 0.22
39 11 0.22
ACGTcount: A:0.31, C:0.23, G:0.01, T:0.45
Consensus pattern (35 bp):
TCACAATTCAATTCAATTCACTTTTTCACTTTCAA
Found at i:24284523 original size:6 final size:6
Alignment explanation
Indices: 24284507--24284552 Score: 83
Period size: 6 Copynumber: 7.7 Consensus size: 6
24284497 TAAACCCTAG
*
24284507 TTTTTC CTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTT
24284553 CTTCTTTCCT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTTC
Found at i:24284524 original size:12 final size:12
Alignment explanation
Indices: 24284507--24284564 Score: 82
Period size: 12 Copynumber: 4.8 Consensus size: 12
24284497 TAAACCCTAG
24284507 TTTTTCCTTTTC
1 TTTTTCCTTTTC
*
24284519 TTTTTCTTTTTC
1 TTTTTCCTTTTC
*
24284531 TTTTTCTTTTTC
1 TTTTTCCTTTTC
24284543 TTTTT-CTTTTC
1 TTTTTCCTTTTC
24284554 TTCTTTCCTTT
1 TT-TTTCCTTT
24284565 CTCCCTGTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
11 7 0.17
12 31 0.74
13 4 0.10
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTTCCTTTTC
Found at i:24284528 original size:18 final size:18
Alignment explanation
Indices: 24284507--24284560 Score: 83
Period size: 18 Copynumber: 3.0 Consensus size: 18
24284497 TAAACCCTAG
24284507 TTTTTCCTTTTCTTTTTC
1 TTTTTCCTTTTCTTTTTC
*
24284525 TTTTTCTTTTTCTTTTTC
1 TTTTTCCTTTTCTTTTTC
24284543 TTTTT-CTTTTCTTCTTTC
1 TTTTTCCTTTTCTT-TTTC
24284561 CTTTCTCCCT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.21
18 26 0.79
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (18 bp):
TTTTTCCTTTTCTTTTTC
Found at i:24284643 original size:17 final size:18
Alignment explanation
Indices: 24284621--24284655 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
24284611 TCTTTTTTTT
*
24284621 TTCTTTTA-GTTTCTTTA
1 TTCTTTTATGTTTATTTA
24284638 TTCTTTTATGTTTATTTA
1 TTCTTTTATGTTTATTTA
24284656 CTTTATTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.14, C:0.09, G:0.06, T:0.71
Consensus pattern (18 bp):
TTCTTTTATGTTTATTTA
Found at i:24284651 original size:23 final size:21
Alignment explanation
Indices: 24284609--24284668 Score: 59
Period size: 23 Copynumber: 2.8 Consensus size: 21
24284599 CCTTCATTTC
* *
24284609 TTTCTTT-TTTTTTTCTTTTA
1 TTTCTTTATTATTTTATTTTA
*
24284629 GTTTCTTTATTCTTTTATGTTTA
1 -TTTCTTTATTATTTTAT-TTTA
24284652 TTTACTTTATTATTTTA
1 TTT-CTTTATTATTTTA
24284669 ATGATAGTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 7 0.21
22 10 0.30
23 16 0.48
ACGTcount: A:0.13, C:0.08, G:0.03, T:0.75
Consensus pattern (21 bp):
TTTCTTTATTATTTTATTTTA
Found at i:24285431 original size:25 final size:24
Alignment explanation
Indices: 24285380--24285437 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 24
24285370 ATTTGGAAAT
*
24285380 CACATTCATAATATGTATTTATGA
1 CACATTCATAATATGTATTTATAA
*
24285404 CACATTCATAAAATAT-TATTTGTAA
1 CACATTCAT--AATATGTATTTATAA
24285429 CACATTCAT
1 CACATTCAT
24285438 TATGCTTAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
24 9 0.30
25 16 0.53
26 5 0.17
ACGTcount: A:0.40, C:0.16, G:0.05, T:0.40
Consensus pattern (24 bp):
CACATTCATAATATGTATTTATAA
Found at i:24285557 original size:11 final size:11
Alignment explanation
Indices: 24285543--24285570 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
24285533 AATTTTTTTC
24285543 ATTTTAATAAT
1 ATTTTAATAAT
24285554 ATTTTAATAAT
1 ATTTTAATAAT
24285565 ATTTTA
1 ATTTTA
24285571 TTACTCATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (11 bp):
ATTTTAATAAT
Found at i:24289426 original size:22 final size:24
Alignment explanation
Indices: 24289398--24289444 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
24289388 AAAAAAACAC
24289398 ATTTT-AAAAAA-TATATTTTAAA
1 ATTTTAAAAAAATTATATTTTAAA
*
24289420 ATTTTAAAAAAATTATGTTTTAAA
1 ATTTTAAAAAAATTATATTTTAAA
24289444 A
1 A
24289445 ATAAAAGCCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 5 0.23
23 6 0.27
24 11 0.50
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (24 bp):
ATTTTAAAAAAATTATATTTTAAA
Found at i:24294181 original size:6 final size:6
Alignment explanation
Indices: 24294170--24294239 Score: 131
Period size: 6 Copynumber: 11.7 Consensus size: 6
24294160 TTTGTCTAAT
*
24294170 TATATG TATATG TCTATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
24294218 TATATG TATATG TATATG TATA
1 TATATG TATATG TATATG TATA
24294240 CGGCGCGATA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 62 1.00
ACGTcount: A:0.33, C:0.01, G:0.16, T:0.50
Consensus pattern (6 bp):
TATATG
Found at i:24295624 original size:61 final size:61
Alignment explanation
Indices: 24295536--24295670 Score: 189
Period size: 61 Copynumber: 2.2 Consensus size: 61
24295526 ATTAGAATTA
* * * * * *
24295536 ATCACATTAATATTAAATTAATGAAATATTTTCTAGATAAATATTATATTAAATTTAATAT
1 ATCATATTAATATTAAACTAATAAAATACTATCTAGATAAATATTAAATTAAATTTAATAT
* *
24295597 ATCATATTAATGTTAAACTAATAAAATACTATCTAGATCAATATTAAATTAAATTTAATAT
1 ATCATATTAATATTAAACTAATAAAATACTATCTAGATAAATATTAAATTAAATTTAATAT
*
24295658 CTCATATTAATAT
1 ATCATATTAATAT
24295671 CTAGAAAAAT
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 64 1.00
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.42
Consensus pattern (61 bp):
ATCATATTAATATTAAACTAATAAAATACTATCTAGATAAATATTAAATTAAATTTAATAT
Found at i:24300728 original size:7 final size:7
Alignment explanation
Indices: 24300716--24300750 Score: 70
Period size: 7 Copynumber: 5.0 Consensus size: 7
24300706 CCAACTACAT
24300716 CTAATGA
1 CTAATGA
24300723 CTAATGA
1 CTAATGA
24300730 CTAATGA
1 CTAATGA
24300737 CTAATGA
1 CTAATGA
24300744 CTAATGA
1 CTAATGA
24300751 GGAAGAGATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (7 bp):
CTAATGA
Found at i:24307616 original size:59 final size:59
Alignment explanation
Indices: 24307502--24307620 Score: 220
Period size: 59 Copynumber: 2.0 Consensus size: 59
24307492 TTTTAGAAAA
*
24307502 CATTTAGATTGTATTTAAAAATAATATTTTACTATTAAAATATTAAGAATTTTAGTTTT
1 CATTTAGATTGTATTTAAAAATAATATCTTACTATTAAAATATTAAGAATTTTAGTTTT
*
24307561 CATTTAGATTGTATTTAAAAATAATATCTTAGTATTAAAATATTAAGAATTTTAGTTTT
1 CATTTAGATTGTATTTAAAAATAATATCTTACTATTAAAATATTAAGAATTTTAGTTTT
24307620 C
1 C
24307621 TCTATTTATT
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 58 1.00
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (59 bp):
CATTTAGATTGTATTTAAAAATAATATCTTACTATTAAAATATTAAGAATTTTAGTTTT
Found at i:24307802 original size:8 final size:9
Alignment explanation
Indices: 24307787--24307811 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
24307777 ACATATTTGC
24307787 TAATTTTTT
1 TAATTTTTT
24307796 TAATTTTTT
1 TAATTTTTT
24307805 TAATTTT
1 TAATTTT
24307812 ATATATTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (9 bp):
TAATTTTTT
Found at i:24308136 original size:112 final size:113
Alignment explanation
Indices: 24307995--24308239 Score: 384
Period size: 112 Copynumber: 2.2 Consensus size: 113
24307985 GTTGATCCAA
* ***
24307995 GCAGCCTAATTTTTTTACACATGGTATACTCATTTTGTTGACATGTGACAATTATTTATACAACC
1 GCAGCCTAATTTTTTGACACATAACATACTCATTTTGTTGACATGTGACAATTATTTATACAACC
* *
24308060 AATTTCTATATTATATATTACAAGGTCTCAGTCTC-CAGCTAATGTGG
66 AATTTATATATTATATATTACAAGGTCTCAGACTCTCAGCTAATGTGG
* *
24308107 GCAGCCTAAATTTTTGACACATAACATACTCATTTTGTTGACATGTGTCAATTATTTATACAACC
1 GCAGCCTAATTTTTTGACACATAACATACTCATTTTGTTGACATGTGACAATTATTTATACAACC
* *
24308172 AATTTATATATTATATATTACAAGGTCTTAGACTCTTAGCTAATGTGG
66 AATTTATATATTATATATTACAAGGTCTCAGACTCTCAGCTAATGTGG
*
24308220 ACAGCCTAATTTTTTGACAC
1 GCAGCCTAATTTTTTGACAC
24308240 GTGGTATATT
Statistics
Matches: 120, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
112 91 0.76
113 29 0.24
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.39
Consensus pattern (113 bp):
GCAGCCTAATTTTTTGACACATAACATACTCATTTTGTTGACATGTGACAATTATTTATACAACC
AATTTATATATTATATATTACAAGGTCTCAGACTCTCAGCTAATGTGG
Found at i:24308672 original size:67 final size:67
Alignment explanation
Indices: 24308591--24308731 Score: 201
Period size: 67 Copynumber: 2.1 Consensus size: 67
24308581 CACATTATTG
* * * *
24308591 GATAATACTTTCATAGCTCACTTTCAATATTTTCATTAAAAAAATAACTTTACTCTTACATTGAC
1 GATAATACTTTCATAGCTCACTTTCAATATTTTCATCAAAAAAATAACTTTAATCTCACATCGAC
24308656 TA
66 TA
* ** *
24308658 GATAATACTTTCATAGCTCACTTTCACTATTTTCATCAAAAAGTTAATTTTAATCTCACATCGAC
1 GATAATACTTTCATAGCTCACTTTCAATATTTTCATCAAAAAAATAACTTTAATCTCACATCGAC
24308723 TA
66 TA
*
24308725 GAGAATA
1 GATAATA
24308732 AGTTCACTTC
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
67 65 1.00
ACGTcount: A:0.37, C:0.18, G:0.06, T:0.38
Consensus pattern (67 bp):
GATAATACTTTCATAGCTCACTTTCAATATTTTCATCAAAAAAATAACTTTAATCTCACATCGAC
TA
Found at i:24308880 original size:26 final size:26
Alignment explanation
Indices: 24308850--24308902 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
24308840 CCTAGCTTGG
24308850 CCAGAAAAATGGGCCTAAAATTTTGC
1 CCAGAAAAATGGGCCTAAAATTTTGC
*
24308876 CCAGAAAAATGGGCCTAGAATTTTGC
1 CCAGAAAAATGGGCCTAAAATTTTGC
24308902 C
1 C
24308903 TAAGATTGCC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.23
Consensus pattern (26 bp):
CCAGAAAAATGGGCCTAAAATTTTGC
Found at i:24309765 original size:6 final size:6
Alignment explanation
Indices: 24309754--24309782 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
24309744 TTATAAAAAG
24309754 TTAAAT TTAAAT TTAAAT TTAAAT TTAAA
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAA
24309783 CAAATACTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
TTAAAT
Found at i:24310183 original size:20 final size:18
Alignment explanation
Indices: 24310130--24310179 Score: 66
Period size: 18 Copynumber: 2.7 Consensus size: 18
24310120 TTTTGTAGGG
24310130 TTTTAAGTTTTTTATATT
1 TTTTAAGTTTTTTATATT
24310148 TTTTAAGTTTATTATATATT
1 TTTTAAGTTT-TT-TATATT
*
24310168 CTTT-AGTTTTTT
1 TTTTAAGTTTTTT
24310180 TATAACATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 1 0.03
18 12 0.41
19 7 0.24
20 9 0.31
ACGTcount: A:0.22, C:0.02, G:0.06, T:0.70
Consensus pattern (18 bp):
TTTTAAGTTTTTTATATT
Found at i:24312434 original size:15 final size:15
Alignment explanation
Indices: 24312414--24312527 Score: 87
Period size: 15 Copynumber: 8.0 Consensus size: 15
24312404 CATACTTAAG
24312414 TAGGGTTTGCACATA
1 TAGGGTTTGCACATA
*
24312429 TAGGGTTTGCTCATA
1 TAGGGTTTGCACATA
*
24312444 T-GGGTTTACACATA
1 TAGGGTTTGCACATA
*
24312458 CAGGGTTTGCACATA
1 TAGGGTTTGCACATA
**
24312473 T--GG-TT-CACACC
1 TAGGGTTTGCACATA
* *
24312484 TAGGGTTCGCACAAA
1 TAGGGTTTGCACATA
* *
24312499 CAGGGTTCGCAC-TA
1 TAGGGTTTGCACATA
* *
24312513 AAGGGTTCGCACATA
1 TAGGGTTTGCACATA
24312528 GTTTGTATAA
Statistics
Matches: 79, Mismatches: 14, Indels: 12
0.75 0.13 0.11
Matches are distributed among these distances:
11 5 0.06
12 2 0.03
13 4 0.05
14 24 0.30
15 44 0.56
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.28
Consensus pattern (15 bp):
TAGGGTTTGCACATA
Found at i:24312462 original size:29 final size:29
Alignment explanation
Indices: 24312416--24312475 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
24312406 TACTTAAGTA
* * *
24312416 GGGTTTGCACATATAGGGTTTGCTCATAT
1 GGGTTTACACATACAGGGTTTGCACATAT
24312445 GGGTTTACACATACAGGGTTTGCACATAT
1 GGGTTTACACATACAGGGTTTGCACATAT
24312474 GG
1 GG
24312476 TTCACACCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.33
Consensus pattern (29 bp):
GGGTTTACACATACAGGGTTTGCACATAT
Found at i:24312580 original size:22 final size:22
Alignment explanation
Indices: 24312545--24312648 Score: 66
Period size: 22 Copynumber: 4.6 Consensus size: 22
24312535 TAATCAACAA
**
24312545 ATAAGGTTCACATATACCACAT
1 ATAAGGTTTGCATATACCACAT
* * * *
24312567 GTAGGGTTTGCATAAACAACAT
1 ATAAGGTTTGCATATACCACAT
* ** *
24312589 ATAAAGTTTGCAT-TATTTAAAT
1 ATAAGGTTTGCATATA-CCACAT
* *
24312611 AGTTAGGGTTCGCATATACCACAT
1 A--TAAGGTTTGCATATACCACAT
24312635 ATAAGGTTTGCATA
1 ATAAGGTTTGCATA
24312649 AATAATATAT
Statistics
Matches: 57, Mismatches: 21, Indels: 8
0.66 0.24 0.09
Matches are distributed among these distances:
21 1 0.02
22 41 0.72
24 13 0.23
25 2 0.04
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (22 bp):
ATAAGGTTTGCATATACCACAT
Found at i:24312627 original size:68 final size:66
Alignment explanation
Indices: 24312549--24312692 Score: 173
Period size: 68 Copynumber: 2.2 Consensus size: 66
24312539 CAACAAATAA
* * * *
24312549 GGTTCACATATACCACATGTAGGGTTTGCATAAACAACATATAAAGTTTGCATTATTT-AAATAG
1 GGTTCGCATATACCACATATAAGGTTTGCATAAACAACATATAAAGTTCGCA-TATTTAAAATA-
24312613 TTAG
64 -TAG
* * **
24312617 GGTTCGCATATACCACATATAAGGTTTGCATAAATAATATATAGGGTTCGCATATTTAAAATATA
1 GGTTCGCATATACCACATATAAGGTTTGCATAAACAACATATAAAGTTCGCATATTTAAAATATA
24312682 G
66 G
*
24312683 GGTTTGCATA
1 GGTTCGCATA
24312693 AATAACCTAT
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
66 12 0.18
67 5 0.08
68 49 0.74
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.34
Consensus pattern (66 bp):
GGTTCGCATATACCACATATAAGGTTTGCATAAACAACATATAAAGTTCGCATATTTAAAATATA
G
Found at i:24312681 original size:44 final size:44
Alignment explanation
Indices: 24312568--24312697 Score: 127
Period size: 44 Copynumber: 2.9 Consensus size: 44
24312558 ATACCACATG
* * * * **
24312568 TAGGGTTTGCATAAACAACATATAAAGTTTGCATTATTTAA-ATA
1 TAGGGTTCGCATATACAAAATATAAGGTTTGCA-TAAATAATATA
* *
24312612 GTTAGGGTTCGCATATACCACATATAAGGTTTGCATAAATAATATA
1 --TAGGGTTCGCATATACAAAATATAAGGTTTGCATAAATAATATA
** *
24312658 TAGGGTTCGCATATTTAAAATATAGGGTTTGCATAAATAA
1 TAGGGTTCGCATATACAAAATATAAGGTTTGCATAAATAA
24312698 CCTATAAGAT
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
44 35 0.49
45 5 0.07
46 32 0.44
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.35
Consensus pattern (44 bp):
TAGGGTTCGCATATACAAAATATAAGGTTTGCATAAATAATATA
Found at i:24312703 original size:22 final size:22
Alignment explanation
Indices: 24312568--24312697 Score: 89
Period size: 22 Copynumber: 5.8 Consensus size: 22
24312558 ATACCACATG
* *
24312568 TAGGGTTTGCATAAACAACATA
1 TAGGGTTTGCATAAATAAAATA
** * * *
24312590 TAAAGTTTGCATTATTTAAATA
1 TAGGGTTTGCATAAATAAAATA
* * ** *
24312612 GTTAGGGTTCGCATATACCACATA
1 --TAGGGTTTGCATAAATAAAATA
* *
24312636 TAAGGTTTGCATAAATAATATA
1 TAGGGTTTGCATAAATAAAATA
* **
24312658 TAGGGTTCGCATATTTAAAATA
1 TAGGGTTTGCATAAATAAAATA
24312680 TAGGGTTTGCATAAATAA
1 TAGGGTTTGCATAAATAA
24312698 CCTATAAGAT
Statistics
Matches: 76, Mismatches: 30, Indels: 4
0.69 0.27 0.04
Matches are distributed among these distances:
22 63 0.83
24 13 0.17
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.35
Consensus pattern (22 bp):
TAGGGTTTGCATAAATAAAATA
Found at i:24326890 original size:13 final size:13
Alignment explanation
Indices: 24326872--24326918 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
24326862 TACTGCTTTT
24326872 GAAAAGTGTCGTG
1 GAAAAGTGTCGTG
* *
24326885 GAAAAGTG-CTTTT
1 GAAAAGTGTC-GTG
*
24326898 GAAAAGTGTTGTG
1 GAAAAGTGTCGTG
24326911 GAAAAGTG
1 GAAAAGTG
24326919 CTTTTCAGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
12 1 0.04
13 26 0.96
ACGTcount: A:0.34, C:0.04, G:0.34, T:0.28
Consensus pattern (13 bp):
GAAAAGTGTCGTG
Found at i:24326930 original size:26 final size:26
Alignment explanation
Indices: 24326865--24326923 Score: 109
Period size: 26 Copynumber: 2.3 Consensus size: 26
24326855 GGCTCTTTAC
24326865 TGCTTTTGAAAAGTGTCGTGGAAAAG
1 TGCTTTTGAAAAGTGTCGTGGAAAAG
*
24326891 TGCTTTTGAAAAGTGTTGTGGAAAAG
1 TGCTTTTGAAAAGTGTCGTGGAAAAG
24326917 TGCTTTT
1 TGCTTTT
24326924 CAGAAGTAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (26 bp):
TGCTTTTGAAAAGTGTCGTGGAAAAG
Found at i:24326941 original size:26 final size:26
Alignment explanation
Indices: 24326865--24326931 Score: 80
Period size: 26 Copynumber: 2.6 Consensus size: 26
24326855 GGCTCTTTAC
* * *
24326865 TGCTTTTGAAAAGTGTCGTGGAAAAG
1 TGCTTTTCAAAAGTATTGTGGAAAAG
* *
24326891 TGCTTTTGAAAAGTGTTGTGGAAAAG
1 TGCTTTTCAAAAGTATTGTGGAAAAG
*
24326917 TGCTTTTCAGAAGTA
1 TGCTTTTCAAAAGTA
24326932 ATTTTGAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.30, C:0.07, G:0.28, T:0.34
Consensus pattern (26 bp):
TGCTTTTCAAAAGTATTGTGGAAAAG
Found at i:24327224 original size:21 final size:19
Alignment explanation
Indices: 24327168--24327228 Score: 70
Period size: 19 Copynumber: 3.1 Consensus size: 19
24327158 TAATTATTTA
24327168 TTAAATT-TAATTAGAATAT
1 TTAAATTATAATTA-AATAT
* *
24327187 ATAAATTATATTTAAATAT
1 TTAAATTATAATTAAATAT
24327206 TTAAATATAATAATTAAATAT
1 TTAAAT-T-ATAATTAAATAT
24327227 TT
1 TT
24327229 GTAATTAGAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
19 16 0.46
20 6 0.17
21 13 0.37
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.48
Consensus pattern (19 bp):
TTAAATTATAATTAAATAT
Found at i:24329084 original size:72 final size:73
Alignment explanation
Indices: 24328994--24329168 Score: 196
Period size: 72 Copynumber: 2.4 Consensus size: 73
24328984 AAAATCACAT
* * * *
24328994 ATAAACAACAATTGATAAAACTAATTTAGTA-AAAAATAAGTAGAATATAAATTCAATGA-AGAA
1 ATAAACAACTATTGATAAAACTAATTTAGCACAAAAATAAGTAGAACATAAATTCAAT-ATACAA
*
24329057 AGACCAAAC
65 AAACCAAAC
* * * *
24329066 ATAAACAACTTTTAATAAAACTAGA-TTA-CACATAAATAAGTAGAACATAAATTCAATATCCAA
1 ATAAACAACTATTGATAAAACTA-ATTTAGCACAAAAATAAGTAGAACATAAATTCAATATACAA
24329129 AAACCAAAC
65 AAACCAAAC
* * *
24329138 ATAAATAACTGTTGATAAAACTAGTTTAGCA
1 ATAAACAACTATTGATAAAACTAATTTAGCA
24329169 TTGTTGTTTA
Statistics
Matches: 85, Mismatches: 13, Indels: 9
0.79 0.12 0.08
Matches are distributed among these distances:
71 2 0.02
72 80 0.94
73 3 0.04
ACGTcount: A:0.55, C:0.13, G:0.08, T:0.25
Consensus pattern (73 bp):
ATAAACAACTATTGATAAAACTAATTTAGCACAAAAATAAGTAGAACATAAATTCAATATACAAA
AACCAAAC
Found at i:24329611 original size:18 final size:18
Alignment explanation
Indices: 24329590--24329673 Score: 150
Period size: 18 Copynumber: 4.7 Consensus size: 18
24329580 TCCATCAATT
*
24329590 TGAACACCATTTGAAATG
1 TGAACATCATTTGAAATG
24329608 TGAACATCATTTGAAATG
1 TGAACATCATTTGAAATG
24329626 TGAACATCATTTGAAATG
1 TGAACATCATTTGAAATG
*
24329644 TGAACATCATTTAAAATG
1 TGAACATCATTTGAAATG
24329662 TGAACATCATTT
1 TGAACATCATTT
24329674 CTCATATTTT
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 64 1.00
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.33
Consensus pattern (18 bp):
TGAACATCATTTGAAATG
Found at i:24330615 original size:43 final size:43
Alignment explanation
Indices: 24330562--24330693 Score: 210
Period size: 43 Copynumber: 3.1 Consensus size: 43
24330552 TTTTATAACT
*
24330562 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
*
24330605 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTGTCCCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
* * * *
24330648 AAATGCCGCTGAAGACCATGACCTTTAACGACGCTTTTCCCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
24330691 AAA
1 AAA
24330694 ACTTCTCCCA
Statistics
Matches: 82, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 82 1.00
ACGTcount: A:0.29, C:0.33, G:0.18, T:0.20
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
Found at i:24330730 original size:57 final size:57
Alignment explanation
Indices: 24330642--24330750 Score: 173
Period size: 57 Copynumber: 1.9 Consensus size: 57
24330632 GCGGCGCTTG
* * *
24330642 TCCCACAAATGCCGCTGAAGACCATGACCTTTAACGACGCTTTTCCCACAAAACTTC
1 TCCCACAAACGCCGCTAAACACCATGACCTTTAACGACGCTTTTCCCACAAAACTTC
* *
24330699 TCCCACAAACGCCGCTAAACACTATGACCTTTAGCGACGCTTTTCCCACAAA
1 TCCCACAAACGCCGCTAAACACCATGACCTTTAACGACGCTTTTCCCACAAA
24330751 CGCCGCTAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
57 47 1.00
ACGTcount: A:0.30, C:0.36, G:0.12, T:0.22
Consensus pattern (57 bp):
TCCCACAAACGCCGCTAAACACCATGACCTTTAACGACGCTTTTCCCACAAAACTTC
Found at i:24330760 original size:43 final size:42
Alignment explanation
Indices: 24330699--24330804 Score: 140
Period size: 43 Copynumber: 2.5 Consensus size: 42
24330689 ACAAAACTTC
* *
24330699 TCCCACAAACGCCGCTAAACACTATGACCTTTAGCGACGCTTT
1 TCCCACAAACGCCGCTAAAAAC-ATAACCTTTAGCGACGCTTT
* *
24330742 TCCCACAAACGCCGCTAAAAAACATAATCTTTAGCGGCGCTTT
1 TCCCACAAACGCCGCT-AAAAACATAACCTTTAGCGACGCTTT
**
24330785 TATCACAAACGCCGCTAAAA
1 TCCCACAAACGCCGCTAAAA
24330805 GTACAATTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
42 4 0.07
43 47 0.84
44 5 0.09
ACGTcount: A:0.33, C:0.32, G:0.13, T:0.22
Consensus pattern (42 bp):
TCCCACAAACGCCGCTAAAAACATAACCTTTAGCGACGCTTT
Found at i:24330774 original size:100 final size:100
Alignment explanation
Indices: 24330599--24330785 Score: 266
Period size: 100 Copynumber: 1.9 Consensus size: 100
24330589 GCGGCGCTTT
* * * * * *
24330599 TCCCACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTGTCCCACAAATGCCGCTGAAGAC
1 TCCCACAAACGCCGCTAAACACCATGACCTTTAGCGACGCTTGTCCCACAAACGCCGCTAAAAAA
*
24330664 CATGACCTTTAACGACGCTTTTCCCACAAAACTTC
66 CATAACCTTTAACGACGCTTTTCCCACAAAACTTC
* *
24330699 TCCCACAAACGCCGCTAAACACTATGACCTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAAAA
1 TCCCACAAACGCCGCTAAACACCATGACCTTTAGCGACGCTTGTCCCACAAACGCCGCTAAAAAA
* * *
24330764 CATAATCTTTAGCGGCGCTTTT
66 CATAACCTTTAACGACGCTTTT
24330786 ATCACAAACG
Statistics
Matches: 75, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
100 75 1.00
ACGTcount: A:0.29, C:0.34, G:0.15, T:0.22
Consensus pattern (100 bp):
TCCCACAAACGCCGCTAAACACCATGACCTTTAGCGACGCTTGTCCCACAAACGCCGCTAAAAAA
CATAACCTTTAACGACGCTTTTCCCACAAAACTTC
Found at i:24333879 original size:24 final size:24
Alignment explanation
Indices: 24333847--24333906 Score: 95
Period size: 24 Copynumber: 2.5 Consensus size: 24
24333837 CGTTGAAGGC
24333847 AGAAATAGATAACTTAAACAAATT
1 AGAAATAGATAACTTAAACAAATT
* *
24333871 AGAAATAGATAAATTAAACAACTT
1 AGAAATAGATAACTTAAACAAATT
24333895 AG-AATAGATAAC
1 AGAAATAGATAAC
24333907 AGTAGTCTCT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
23 9 0.27
24 24 0.73
ACGTcount: A:0.58, C:0.08, G:0.10, T:0.23
Consensus pattern (24 bp):
AGAAATAGATAACTTAAACAAATT
Found at i:24335125 original size:21 final size:21
Alignment explanation
Indices: 24335076--24335125 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
24335066 GGGGGTTTCA
24335076 AGGGGGGAAATTAGGGATTTT
1 AGGGGGGAAATTAGGGATTTT
* *
24335097 AGGAGGGAAAGTTGGGGATTTT
1 AGGGGGGAAA-TTAGGGATTTT
24335119 -GGGGGGA
1 AGGGGGGA
24335126 GGGGATTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 15 0.60
22 10 0.40
ACGTcount: A:0.26, C:0.00, G:0.50, T:0.24
Consensus pattern (21 bp):
AGGGGGGAAATTAGGGATTTT
Found at i:24335311 original size:77 final size:76
Alignment explanation
Indices: 24335159--24335426 Score: 432
Period size: 75 Copynumber: 3.5 Consensus size: 76
24335149 ATTTTTCTAT
* * * *
24335159 AAATTATTTTTTTTAGCGTTTTTTATAAAAATGCCGCTAAATGTTTTTCTATATAAAAT-AGCTA
1 AAATTATTTTTTGTGGCGTTTTTTATAAAAACGCCGCTAAATGTTTTGCTATATAAAATGA-CTA
24335223 TTTTTTAAAAGTA
65 TTTTTT-AAAGTA
*
24335236 AAATTATTTTTTGTGGCGCTTTTTTATAAAAACGTCGCTAAATGTTTTGCTATATAAAATGACTA
1 AAATTATTTTTTGTGGCG-TTTTTTATAAAAACGCCGCTAAATGTTTTGCTATATAAAATGACTA
24335301 TTTTTTAAAGTA
65 TTTTTTAAAGTA
*
24335313 AAATTATTTTTTGTGACGTTTTTTATAAAAACG-CGCTAAATGTTTTGCTATATAAAATGACTAT
1 AAATTATTTTTTGTGGCGTTTTTTATAAAAACGCCGCTAAATGTTTTGCTATATAAAATGACTAT
24335377 TTTTTAAAGTA
66 TTTTTAAAGTA
*
24335388 AAATTATTTTTTGTGGCGTTTTTAATAAAAACGCCGCTA
1 AAATTATTTTTTGTGGCGTTTTTTATAAAAACGCCGCTA
24335427 TTACTTACCT
Statistics
Matches: 180, Mismatches: 8, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
75 73 0.41
76 20 0.11
77 39 0.22
78 47 0.26
79 1 0.01
ACGTcount: A:0.34, C:0.09, G:0.12, T:0.46
Consensus pattern (76 bp):
AAATTATTTTTTGTGGCGTTTTTTATAAAAACGCCGCTAAATGTTTTGCTATATAAAATGACTAT
TTTTTAAAGTA
Found at i:24335444 original size:93 final size:90
Alignment explanation
Indices: 24335346--24335527 Score: 292
Period size: 93 Copynumber: 2.0 Consensus size: 90
24335336 TATAAAAACG
*
24335346 CGCTAAATGTTTTGCTATATAAAATGACTATTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTT
1 CGCTAAATATTTTGCTATATAAAATGACTATTTTTTAAAGTAAAATTA---TTTGTGGCGTTTTT
24335411 AATAAAAACGCCGCTATTACTTACCTTC
63 AATAAAAACGCCGCTATTACTTACCTTC
* * *
24335439 CGCTAAATATTTTGCTGTATAAAATTACTATTTTTTAAAGTAAAATTATTTGTGGCGTTTTTTAT
1 CGCTAAATATTTTGCTATATAAAATGACTATTTTTTAAAGTAAAATTATTTGTGGCGTTTTTAAT
*
24335504 AAAAACGCCGCTATTGCTTACCTT
66 AAAAACGCCGCTATTACTTACCTT
24335528 TTGCGGCGTT
Statistics
Matches: 84, Mismatches: 5, Indels: 3
0.91 0.05 0.03
Matches are distributed among these distances:
90 39 0.46
93 45 0.54
ACGTcount: A:0.31, C:0.14, G:0.12, T:0.43
Consensus pattern (90 bp):
CGCTAAATATTTTGCTATATAAAATGACTATTTTTTAAAGTAAAATTATTTGTGGCGTTTTTAAT
AAAAACGCCGCTATTACTTACCTTC
Found at i:24335709 original size:76 final size:76
Alignment explanation
Indices: 24335526--24335709 Score: 323
Period size: 77 Copynumber: 2.4 Consensus size: 76
24335516 ATTGCTTACC
* * *
24335526 TTTTGCGGCGTTTTTTATGAAAACGCCGCAAAATGTTTTGCTATATAAAATGACTATTTTTTAAA
1 TTTTGTGGCGTTTTTTATAAAAACGCCGCTAAATGTTTTGCTATATAAAATGACTATTTTTTAAA
24335591 GTAAAATTATT
66 GTAAAATTATT
24335602 TTTTGTGGCGCTTTTTTATAAAAACGCCGCTAAATGTTTTGCTATATAAAATGACTATTTTTTAA
1 TTTTGTGGCG-TTTTTTATAAAAACGCCGCTAAATGTTTTGCTATATAAAATGACTATTTTTTAA
24335667 AGTAAAATTATT
65 AGTAAAATTATT
*
24335679 TTTTGTGGCGTTTTTAATAAAAACGCCGCTA
1 TTTTGTGGCGTTTTTTATAAAAACGCCGCTA
24335710 TTGCTTACCT
Statistics
Matches: 103, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
76 29 0.28
77 74 0.72
ACGTcount: A:0.32, C:0.11, G:0.15, T:0.42
Consensus pattern (76 bp):
TTTTGTGGCGTTTTTTATAAAAACGCCGCTAAATGTTTTGCTATATAAAATGACTATTTTTTAAA
GTAAAATTATT
Found at i:24335898 original size:228 final size:231
Alignment explanation
Indices: 24335602--24336037 Score: 743
Period size: 228 Copynumber: 1.9 Consensus size: 231
24335592 TAAAATTATT
* *
24335602 TTTTGTGGCGCTTTTTTATAAAAACGCCGCTAAATGTTTTGCTATATAAAATGACTATTTTTTAA
1 TTTTGCGGCGCTTTTTTATAAAAACGCCGCAAAATGTTTTGCTATATAAAATGACTATTTTTTAA
24335667 AGTAAAATTATTTTTTGTGGCGTTTTTAATAAAAACGCCGCTATTGCTTACCTTTTGCGGCG-TT
66 AGTAAAATTATTTTTTGTGGCGTTTTTAATAAAAACGCCGCTATTGCTTACCTTTTGCGGCGTTT
* *
24335731 TTTATAAAAACGCCGCTAAATATTTTGCTGTATAAAATGACTATTTTTTAAAGTAAAATTA-TTT
131 TTTATAAAAACGCCACTAAATATTTTGCTATATAAAATGACTATTTTTTAAAGTAAAATTATTTT
24335795 GTGGCGTTTTTTATAAAAACGTCGCTATTGCTTACC
196 GTGGCGTTTTTTATAAAAACGTCGCTATTGCTTACC
* *
24335831 TTTTGCGGCG-TTTTTTATGAAAACGCTGCAAAATGTTTTGCTATATAAAATGACTATTTTTTAA
1 TTTTGCGGCGCTTTTTTATAAAAACGCCGCAAAATGTTTTGCTATATAAAATGACTATTTTTTAA
* * *
24335895 AGTAAGATTATTTTTTGTGGCGTTTTTTATAAAAACGCCGCTATTGCTTACTTTTTGCGGCGTTT
66 AGTAAAATTATTTTTTGTGGCGTTTTTAATAAAAACGCCGCTATTGCTTACCTTTTGCGGCGTTT
*
24335960 TTTATAAAAACGCCACTAAATGTTTTGCTATATAAAATGACTATTTTTTAAAGTAAAATTATTTT
131 TTTATAAAAACGCCACTAAATATTTTGCTATATAAAATGACTATTTTTTAAAGTAAAATTA--TT
24336025 TTGTGGCGTTTTT
194 TTGTGGCGTTTTT
24336038 CTTTAAAACG
Statistics
Matches: 193, Mismatches: 10, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
228 110 0.57
229 69 0.36
232 14 0.07
ACGTcount: A:0.29, C:0.12, G:0.15, T:0.44
Consensus pattern (231 bp):
TTTTGCGGCGCTTTTTTATAAAAACGCCGCAAAATGTTTTGCTATATAAAATGACTATTTTTTAA
AGTAAAATTATTTTTTGTGGCGTTTTTAATAAAAACGCCGCTATTGCTTACCTTTTGCGGCGTTT
TTTATAAAAACGCCACTAAATATTTTGCTATATAAAATGACTATTTTTTAAAGTAAAATTATTTT
GTGGCGTTTTTTATAAAAACGTCGCTATTGCTTACC
Found at i:24335961 original size:116 final size:116
Alignment explanation
Indices: 24335602--24336051 Score: 739
Period size: 116 Copynumber: 3.9 Consensus size: 116
24335592 TAAAATTATT
*
24335602 TTTTGTGGCGCTTTTTTATAAAAACGCCGCTAAATGTTTTGCTATATAAAATGACTATTTTTTAA
1 TTTTGCGGCG-TTTTTTATAAAAACGCCGCTAAATGTTTTGCTATATAAAATGACTATTTTTTAA
*
24335667 AGTAAAATTATTTTTTGTGGCGTTTTTAATAAAAACGCCGCTATTGCTTACC
65 AGTAAAATTATTTTTTGTGGCGTTTTTTATAAAAACGCCGCTATTGCTTACC
* *
24335719 TTTTGCGGCG-TTTTTATAAAAACGCCGCTAAATATTTTGCTGTATAAAATGACTATTTTTTAAA
1 TTTTGCGGCGTTTTTTATAAAAACGCCGCTAAATGTTTTGCTATATAAAATGACTATTTTTTAAA
*
24335783 GTAAAATTA---TTTGTGGCGTTTTTTATAAAAACGTCGCTATTGCTTACC
66 GTAAAATTATTTTTTGTGGCGTTTTTTATAAAAACGCCGCTATTGCTTACC
* * *
24335831 TTTTGCGGCGTTTTTTATGAAAACGCTGCAAAATGTTTTGCTATATAAAATGACTATTTTTTAAA
1 TTTTGCGGCGTTTTTTATAAAAACGCCGCTAAATGTTTTGCTATATAAAATGACTATTTTTTAAA
* *
24335896 GTAAGATTATTTTTTGTGGCGTTTTTTATAAAAACGCCGCTATTGCTTACT
66 GTAAAATTATTTTTTGTGGCGTTTTTTATAAAAACGCCGCTATTGCTTACC
*
24335947 TTTTGCGGCGTTTTTTATAAAAACGCCACTAAATGTTTTGCTATATAAAATGACTATTTTTTAAA
1 TTTTGCGGCGTTTTTTATAAAAACGCCGCTAAATGTTTTGCTATATAAAATGACTATTTTTTAAA
*
24336012 GTAAAATTATTTTTTGTGGCGTTTTTCT-TTAAAACGCCGC
66 GTAAAATTATTTTTTGTGGCGTTTTT-TATAAAAACGCCGC
24336052 AAAAAATTAT
Statistics
Matches: 309, Mismatches: 19, Indels: 11
0.91 0.06 0.03
Matches are distributed among these distances:
112 47 0.15
113 57 0.18
115 61 0.20
116 134 0.43
117 10 0.03
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.43
Consensus pattern (116 bp):
TTTTGCGGCGTTTTTTATAAAAACGCCGCTAAATGTTTTGCTATATAAAATGACTATTTTTTAAA
GTAAAATTATTTTTTGTGGCGTTTTTTATAAAAACGCCGCTATTGCTTACC
Found at i:24337118 original size:89 final size:89
Alignment explanation
Indices: 24336938--24337119 Score: 206
Period size: 89 Copynumber: 2.0 Consensus size: 89
24336928 CCCCAAACAA
* *
24336938 CTAACCTCTAAACCTTATTTAATATAAAAAATAAAAAACACTAATTAATCTAAATCATAAACCCT
1 CTAACCTCTAAACCTTACTTAATATAAAAAATAAAAAACACTAATTAATCTAAACCATAAACCCT
* * * *
24337003 AACCCGACCTTGAATCCCTAACCC
66 AACACGACCTCGAATCCATAAACC
* * * ** *
24337027 CTAACC-CTTAAACGTTACTTAATATATAAATTAAAATGCACTAATTAATCTAAACCCTAAACCC
1 CTAACCTC-TAAACCTTACTTAATATAAAAAATAAAAAACACTAATTAATCTAAACCATAAACCC
* *
24337091 TAACATGACAC-CGAATCTATAAACC
65 TAACACGAC-CTCGAATCCATAAACC
24337116 CTAA
1 CTAA
24337120 ATCCTTAACT
Statistics
Matches: 77, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
88 1 0.01
89 75 0.97
90 1 0.01
ACGTcount: A:0.45, C:0.26, G:0.03, T:0.26
Consensus pattern (89 bp):
CTAACCTCTAAACCTTACTTAATATAAAAAATAAAAAACACTAATTAATCTAAACCATAAACCCT
AACACGACCTCGAATCCATAAACC
Found at i:24337133 original size:7 final size:7
Alignment explanation
Indices: 24337112--24337176 Score: 60
Period size: 7 Copynumber: 9.3 Consensus size: 7
24337102 CGAATCTATA
*
24337112 AACCCTA
1 AACCCTT
*
24337119 AATCCTT
1 AACCCTT
*
24337126 AACTCTT
1 AACCCTT
24337133 AA-CCTCT
1 AACCCT-T
24337140 AACCCTT
1 AACCCTT
*
24337147 AACCCCT
1 AACCCTT
24337154 AACCCTT
1 AACCCTT
*
24337161 AACCCAT
1 AACCCTT
*
24337168 AAACCTT
1 AACCCTT
24337175 AA
1 AA
24337177 ATCACAACCC
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
6 2 0.04
7 41 0.89
8 3 0.07
ACGTcount: A:0.35, C:0.38, G:0.00, T:0.26
Consensus pattern (7 bp):
AACCCTT
Found at i:24337165 original size:14 final size:14
Alignment explanation
Indices: 24337125--24337176 Score: 68
Period size: 14 Copynumber: 3.7 Consensus size: 14
24337115 CCTAAATCCT
* *
24337125 TAACTCTTAACCTC
1 TAACCCTTAACCCC
24337139 TAACCCTTAACCCC
1 TAACCCTTAACCCC
*
24337153 TAACCCTTAACCCA
1 TAACCCTTAACCCC
*
24337167 TAAACCTTAA
1 TAACCCTTAA
24337177 ATCACAACCC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 34 1.00
ACGTcount: A:0.35, C:0.38, G:0.00, T:0.27
Consensus pattern (14 bp):
TAACCCTTAACCCC
Found at i:24337217 original size:14 final size:15
Alignment explanation
Indices: 24337198--24337227 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
24337188 TAAATTAGAG
24337198 TCCCTAA-TCCATAA
1 TCCCTAATTCCATAA
24337212 TCCCTAATTCCATAA
1 TCCCTAATTCCATAA
24337227 T
1 T
24337228 TTATAAACCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (15 bp):
TCCCTAATTCCATAA
Found at i:24337670 original size:41 final size:41
Alignment explanation
Indices: 24337606--24337805 Score: 265
Period size: 41 Copynumber: 4.9 Consensus size: 41
24337596 AAATGTTTTT
* * ** *
24337606 GCGGCGCTTTTTCAAAAATGCCGCTAAAGCCCCGAGCATTA
1 GCGGCGCTTTTTTAAAAACGCCGCTAAAGATCTGAGCATTA
* *
24337647 GCGGTGCTTTTTTAAAAACGCCGCTAAAGATCTGAGTATTA
1 GCGGCGCTTTTTTAAAAACGCCGCTAAAGATCTGAGCATTA
* *
24337688 GCGGCGCTTTTTTAAAAACTCCACTAAAGATCTGAGCATTA
1 GCGGCGCTTTTTTAAAAACGCCGCTAAAGATCTGAGCATTA
* *
24337729 GCGGCGCTTTTTCAAAAACGCCGCTAAAGATATGAGCATTA
1 GCGGCGCTTTTTTAAAAACGCCGCTAAAGATCTGAGCATTA
** *
24337770 GCGGCTTTTTTTTAAAAAACGCTGCTAAAGATCTGA
1 GCGGCGCTTTTTT-AAAAACGCCGCTAAAGATCTGA
24337806 AAGTAGAAAA
Statistics
Matches: 138, Mismatches: 20, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
41 118 0.86
42 20 0.14
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.28
Consensus pattern (41 bp):
GCGGCGCTTTTTTAAAAACGCCGCTAAAGATCTGAGCATTA
Found at i:24338439 original size:117 final size:107
Alignment explanation
Indices: 24338129--24338488 Score: 585
Period size: 107 Copynumber: 3.3 Consensus size: 107
24338119 TTATAGGCAC
*
24338129 AAGTTTTTAATTAATATTTATGTAATTAAAAAAAGTCCCTTTAAGATGATTATTAATTATTATTA
1 AAGTTTTTAATTAATATTTATGTAATTAAAAATAGTCCCTTTAAGATGATTATTAATTATTATTA
*
24338194 TTACTACTGACAAAATTTTACATTCTTTTCTGTAATTTTACA
66 TTGCTACTGACAAAATTTTACATTCTTTTCTGTAATTTTACA
24338236 AAGTTTTTAATTAATATTTATGTAATTAAAAATAGTCCCTTTAAGATGATTATTAATTATTATTA
1 AAGTTTTTAATTAATATTTATGTAATTAAAAATAGTCCCTTTAAGATGATTATTAATTATTATTA
24338301 TTGCTACTGACAAAATTTTACATTCTTTTCTGTAATTTTACA
66 TTGCTACTGACAAAATTTTACATTCTTTTCTGTAATTTTACA
* *
24338343 AATTTTTTAATTAATATTTATGTAATTAAAAATGGTCCCTTTAAGATGATTATTAATTATTATTA
1 AAGTTTTTAATTAATATTTATGTAATTAAAAATAGTCCCTTTAAGATGATTATTAATTATTATTA
*
24338408 TTGCTACTAACAAAATTTTACATTCTTTTACATTCTTTTCTGTAATTTTACA
66 TTGCTACTGAC--AA----A-A---TTTTACATTCTTTTCTGTAATTTTACA
24338460 AAGTTTTTAATTAATATTTATGTAATTAA
1 AAGTTTTTAATTAATATTTATGTAATTAA
24338489 TATTTATGTA
Statistics
Matches: 237, Mismatches: 6, Indels: 10
0.94 0.02 0.04
Matches are distributed among these distances:
107 178 0.75
109 2 0.01
113 1 0.00
114 1 0.00
117 55 0.23
ACGTcount: A:0.36, C:0.09, G:0.07, T:0.48
Consensus pattern (107 bp):
AAGTTTTTAATTAATATTTATGTAATTAAAAATAGTCCCTTTAAGATGATTATTAATTATTATTA
TTGCTACTGACAAAATTTTACATTCTTTTCTGTAATTTTACA
Found at i:24338487 original size:15 final size:15
Alignment explanation
Indices: 24338467--24338503 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
24338457 ACAAAGTTTT
24338467 TAATTAATATTTATG
1 TAATTAATATTTATG
24338482 TAATTAATATTTATG
1 TAATTAATATTTATG
24338497 TAATTAA
1 TAATTAA
24338504 AAATAGTCCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.51
Consensus pattern (15 bp):
TAATTAATATTTATG
Found at i:24340486 original size:19 final size:19
Alignment explanation
Indices: 24340462--24340519 Score: 80
Period size: 19 Copynumber: 3.1 Consensus size: 19
24340452 GTGGTGGAGA
*
24340462 AGAGGAACAAAGCACCAGC
1 AGAGGAACAAAGAACCAGC
* * *
24340481 AGAGGAAGAAATAACCATC
1 AGAGGAACAAAGAACCAGC
24340500 AGAGGAACAAAGAACCAGC
1 AGAGGAACAAAGAACCAGC
24340519 A
1 A
24340520 CCATCAGAAG
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.52, C:0.21, G:0.24, T:0.03
Consensus pattern (19 bp):
AGAGGAACAAAGAACCAGC
Done.