Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 74 of 343
Found at i:24234832 original size:30 final size:30
Alignment explanation
Indices: 24234802--24234858 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
24234792 CCACCCAACT
24234802 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
24234831 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
24234859 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:24237692 original size:15 final size:15
Alignment explanation
Indices: 24237665--24237712 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
24237655 AATTTATTTG
24237665 ATAA-TATTAATAATA
1 ATAATTATT-ATAATA
*
24237680 ATAATTATTATAACA
1 ATAATTATTATAATA
*
24237695 ATAATTTAATATAATA
1 ATAA-TTATTATAATA
24237711 AT
1 AT
24237713 TTAAATAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 13 0.46
16 15 0.54
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (15 bp):
ATAATTATTATAATA
Found at i:24237723 original size:13 final size:13
Alignment explanation
Indices: 24237665--24237720 Score: 51
Period size: 15 Copynumber: 4.1 Consensus size: 13
24237655 AATTTATTTG
24237665 ATAATATTAATAATA
1 ATAAT-TTAAT-ATA
* *
24237680 ATAATTATTATAACA
1 ATAATT-TAAT-ATA
24237695 ATAATTTAATATA
1 ATAATTTAATATA
24237708 ATAATTTAA-ATA
1 ATAATTTAATATA
24237720 A
1 A
24237721 ATATCTATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
12 4 0.11
13 11 0.31
14 4 0.11
15 17 0.47
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (13 bp):
ATAATTTAATATA
Found at i:24251235 original size:22 final size:22
Alignment explanation
Indices: 24251210--24251254 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
24251200 AAGATGAGAA
*
24251210 TGGATTAAATTTGTGCTTTATT
1 TGGATGAAATTTGTGCTTTATT
24251232 TGGATGAAATTTGTGCTTTATT
1 TGGATGAAATTTGTGCTTTATT
24251254 T
1 T
24251255 TTACTTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.22, C:0.04, G:0.20, T:0.53
Consensus pattern (22 bp):
TGGATGAAATTTGTGCTTTATT
Found at i:24268013 original size:46 final size:47
Alignment explanation
Indices: 24267869--24268036 Score: 191
Period size: 46 Copynumber: 3.6 Consensus size: 47
24267859 GTGAGCTAGC
* *
24267869 GTAAGACATGTCTGGGACATGCATCGGCCAC-ATTA-TGAGAGCCAGT
1 GTAAGACATGTCTGGGACATGCATCGGCCTCGA-GACTGAGAGCCAGT
* * * * * *
24267915 GTAAGACCATGTCTGGGACATGGCATCAGCATTGAGTC-GAGTGCTAGT
1 GTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACTGAGAGCCAGT
* *
24267963 GTAAGACATGTCTGTGACATGCATCGGCCTCGAGACTTA-AGCCAGT
1 GTAAGACATGTCTGGGACATGCATCGGCCTCGAGACTGAGAGCCAGT
24268009 GTAAGACATGTCTGGGACATGCATCGGC
1 GTAAGACATGTCTGGGACATGCATCGGC
24268037 TACAAGATGT
Statistics
Matches: 100, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
46 50 0.50
47 28 0.28
48 21 0.21
49 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.23
Consensus pattern (47 bp):
GTAAGACATGTCTGGGACATGCATCGGCCTCGAGACTGAGAGCCAGT
Found at i:24269095 original size:15 final size:15
Alignment explanation
Indices: 24269075--24269104 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
24269065 CAGAATGTCC
*
24269075 ATGTTTTTGTAAACG
1 ATGTTTTTGCAAACG
24269090 ATGTTTTTGCAAACG
1 ATGTTTTTGCAAACG
24269105 GGCTAGGACA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.10, G:0.20, T:0.43
Consensus pattern (15 bp):
ATGTTTTTGCAAACG
Found at i:24272485 original size:32 final size:32
Alignment explanation
Indices: 24272449--24272512 Score: 78
Period size: 32 Copynumber: 2.0 Consensus size: 32
24272439 TCCATACTTG
24272449 AATTCAT-TTCAATATTCACATCTCAT-TTCATC
1 AATTCATATTC-AT-TTCACATCTCATATTCATC
*
24272481 AATTCATACTTCATTTCTCATCTCATATTCAT
1 AATTCATA-TTCATTTCACATCTCATATTCAT
24272513 TTTTAATCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
32 18 0.64
33 7 0.25
34 3 0.11
ACGTcount: A:0.30, C:0.25, G:0.00, T:0.45
Consensus pattern (32 bp):
AATTCATATTCATTTCACATCTCATATTCATC
Found at i:24272521 original size:18 final size:19
Alignment explanation
Indices: 24272471--24272521 Score: 52
Period size: 18 Copynumber: 2.7 Consensus size: 19
24272461 TATTCACATC
24272471 TCATTTCATCAAT-TCATACT
1 TCATTTC-T-AATCTCATACT
*
24272491 TCATTTCTCATCTCATA-T
1 TCATTTCTAATCTCATACT
*
24272509 TCATTTTTAATCT
1 TCATTTCTAATCT
24272522 TTGCCATTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 14 0.52
19 6 0.22
20 7 0.26
ACGTcount: A:0.25, C:0.24, G:0.00, T:0.51
Consensus pattern (19 bp):
TCATTTCTAATCTCATACT
Found at i:24273777 original size:35 final size:34
Alignment explanation
Indices: 24273712--24273777 Score: 89
Period size: 35 Copynumber: 1.9 Consensus size: 34
24273702 TTTTAATTTC
* *
24273712 ATTCATTATTATTATATTATAATATCTACATTAG
1 ATTCATTATTATTATATTATAACATATACATTAG
24273746 ATTCATT-TTATTTATTATTATAACATATACAT
1 ATTCATTATTA-TTA-TATTATAACATATACAT
24273778 ATATATATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 3 0.11
34 10 0.36
35 15 0.54
ACGTcount: A:0.38, C:0.09, G:0.02, T:0.52
Consensus pattern (34 bp):
ATTCATTATTATTATATTATAACATATACATTAG
Found at i:24280009 original size:20 final size:23
Alignment explanation
Indices: 24279979--24280034 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 23
24279969 CTTTTAAGTT
24279979 TTTTATTTATTTA-CTTT-TTAA
1 TTTTATTTATTTACCTTTATTAA
*
24280000 TTTT-TTTATTTATCCTTTATTTA
1 TTTTATTTATTTA-CCTTTATTAA
24280023 TTTTATTTATTT
1 TTTTATTTATTT
24280035 GTTTATTATT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
20 8 0.27
21 4 0.13
22 4 0.13
23 7 0.23
24 7 0.23
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.75
Consensus pattern (23 bp):
TTTTATTTATTTACCTTTATTAA
Found at i:24280020 original size:11 final size:9
Alignment explanation
Indices: 24279979--24280034 Score: 55
Period size: 8 Copynumber: 6.3 Consensus size: 9
24279969 CTTTTAAGTT
24279979 TTTTATTTA
1 TTTTATTTA
*
24279988 -TTTACTT-
1 TTTTATTTA
*
24279995 TTTAATTT-
1 TTTTATTTA
24280003 TTTTATTTA
1 TTTTATTTA
24280012 TCCTTTATTTA
1 T--TTTATTTA
24280023 TTTTATTTA
1 TTTTATTTA
24280032 TTT
1 TTT
24280035 GTTTATTATT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
8 18 0.46
9 12 0.31
11 9 0.23
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.75
Consensus pattern (9 bp):
TTTTATTTA
Found at i:24280043 original size:20 final size:19
Alignment explanation
Indices: 24279984--24280044 Score: 59
Period size: 20 Copynumber: 3.1 Consensus size: 19
24279974 AAGTTTTTTA
* *
24279984 TTTATTTACTTTTTAATTTT
1 TTTATTTA-TTTTTTATTAT
**
24280004 TTTATTTATCCTTTATTTAT
1 TTTATTTATTTTTTA-TTAT
24280024 TTTATTTATTTGTTTATTAT
1 TTTATTTATTT-TTTATTAT
24280044 T
1 T
24280045 GGTTTTATAA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
19 4 0.12
20 25 0.76
21 4 0.12
ACGTcount: A:0.20, C:0.05, G:0.02, T:0.74
Consensus pattern (19 bp):
TTTATTTATTTTTTATTAT
Found at i:24280096 original size:23 final size:24
Alignment explanation
Indices: 24280070--24280124 Score: 78
Period size: 23 Copynumber: 2.3 Consensus size: 24
24280060 GAAATGTATA
*
24280070 TTTTAAATGTTTTATAA-TATTATT
1 TTTTAAATATTTTA-AATTATTATT
24280094 TTTTAAA-ATTTTAAATTATTATT
1 TTTTAAATATTTTAAATTATTATT
24280117 TTTTAAAT
1 TTTTAAAT
24280125 TATTATTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
22 2 0.07
23 19 0.68
24 7 0.25
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (24 bp):
TTTTAAATATTTTAAATTATTATT
Found at i:24280113 original size:20 final size:20
Alignment explanation
Indices: 24280047--24280176 Score: 67
Period size: 21 Copynumber: 6.4 Consensus size: 20
24280037 TTATTATTGG
* *
24280047 TTTTATAAAATTTGAAATGTA
1 TTTTTTAAAATTTTAAAT-TA
* *
24280068 TATTTTAAATGTTTTATAATATTA
1 TTTTTTAAA--ATTT-TAA-ATTA
24280092 TTTTTTAAAATTTTAAATTA
1 TTTTTTAAAATTTTAAATTA
*
24280112 TTATTTTTTAAA--TT--ATTA
1 -T-TTTTTAAAATTTTAAATTA
24280130 TTTTTT-AAA-TTTAAA-TA
1 TTTTTTAAAATTTTAAATTA
* *
24280147 TTATTTTTAAATTTTAAATAAA
1 TT-TTTTAAAATTTTAAAT-TA
24280169 TTTTTTAA
1 TTTTTTAA
24280177 TAATATAAAA
Statistics
Matches: 86, Mismatches: 9, Indels: 28
0.70 0.07 0.23
Matches are distributed among these distances:
15 3 0.03
16 7 0.08
17 5 0.06
18 9 0.10
19 3 0.03
20 12 0.14
21 16 0.19
22 14 0.16
23 3 0.03
24 12 0.14
25 2 0.02
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.58
Consensus pattern (20 bp):
TTTTTTAAAATTTTAAATTA
Found at i:24280122 original size:15 final size:15
Alignment explanation
Indices: 24280102--24280140 Score: 78
Period size: 15 Copynumber: 2.6 Consensus size: 15
24280092 TTTTTTAAAA
24280102 TTTTAAATTATTATT
1 TTTTAAATTATTATT
24280117 TTTTAAATTATTATT
1 TTTTAAATTATTATT
24280132 TTTTAAATT
1 TTTTAAATT
24280141 TAAATATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTTAAATTATTATT
Found at i:24280130 original size:38 final size:34
Alignment explanation
Indices: 24280079--24280159 Score: 110
Period size: 38 Copynumber: 2.3 Consensus size: 34
24280069 ATTTTAAATG
24280079 TTTTATAA-TATTATTTTTTAAAATTTTAAATTATTATT
1 TTTTA-AATTATTATTTTTT-AAA-TTTAAA-TATTA-T
24280117 TTTTAAATTATTATTTTTTAAATTTAAATATTAT
1 TTTTAAATTATTATTTTTTAAATTTAAATATTAT
24280151 TTTTAAATT
1 TTTTAAATT
24280160 TTAAATAAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
34 10 0.24
35 5 0.12
36 6 0.14
37 5 0.12
38 16 0.38
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (34 bp):
TTTTAAATTATTATTTTTTAAATTTAAATATTAT
Found at i:24280171 original size:19 final size:19
Alignment explanation
Indices: 24280131--24280173 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
24280121 AAATTATTAT
*
24280131 TTTTTAAATTTAAATATTA
1 TTTTTAAATTTAAATATAA
24280150 TTTTTAAATTTTAAATA-AA
1 TTTTTAAA-TTTAAATATAA
24280169 TTTTT
1 TTTTT
24280174 TAATAATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTTTAAATTTAAATATAA
Found at i:24280286 original size:21 final size:22
Alignment explanation
Indices: 24280239--24280306 Score: 79
Period size: 22 Copynumber: 3.1 Consensus size: 22
24280229 TATTATTTGT
24280239 TTTATAAAATTTTAAACGTATAT-
1 TTTATAAAATTTTAAA--TATATA
24280262 TTTA-AAAATTTTAAATATATA
1 TTTATAAAATTTTAAATATATA
**
24280283 TTTATTTAATTTTAAATATA-A
1 TTTATAAAATTTTAAATATATA
24280304 TTT
1 TTT
24280307 TTTAAATTAT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
20 5 0.12
21 8 0.20
22 24 0.59
23 4 0.10
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (22 bp):
TTTATAAAATTTTAAATATATA
Found at i:24280310 original size:20 final size:22
Alignment explanation
Indices: 24280268--24280311 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
24280258 ATATTTTAAA
24280268 AATTTTAAATATATATTTATTT
1 AATTTTAAATATATATTTATTT
24280290 AATTTTAAATATA-ATTT-TTT
1 AATTTTAAATATATATTTATTT
24280310 AA
1 AA
24280312 ATTATGATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 5 0.23
21 4 0.18
22 13 0.59
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
AATTTTAAATATATATTTATTT
Found at i:24280452 original size:19 final size:19
Alignment explanation
Indices: 24280428--24280472 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
24280418 GGAAAAAATA
24280428 AAAAAATGATTTATTTGTT
1 AAAAAATGATTTATTTGTT
*
24280447 AAAAAAGGATTTATTTGTT
1 AAAAAATGATTTATTTGTT
24280466 AAAAAAT
1 AAAAAAT
24280473 TATGAATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.40
Consensus pattern (19 bp):
AAAAAATGATTTATTTGTT
Found at i:24280495 original size:19 final size:19
Alignment explanation
Indices: 24280440--24280487 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 19
24280430 AAAATGATTT
** **
24280440 ATTTGTTAAAAAAGGATTT
1 ATTTGTTAAAAAATTATGA
24280459 ATTTGTTAAAAAATTATGA
1 ATTTGTTAAAAAATTATGA
24280478 ATTT-TTAAAA
1 ATTTGTTAAAA
24280488 TATATATGTA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.46, C:0.00, G:0.10, T:0.44
Consensus pattern (19 bp):
ATTTGTTAAAAAATTATGA
Found at i:24280521 original size:21 final size:21
Alignment explanation
Indices: 24280491--24280542 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
24280481 TTTAAAATAT
*
24280491 ATATGTATTAAAAAAGTAAAA
1 ATATATATTAAAAAAGTAAAA
* * *
24280512 ATTTATATTAGAAAATTAAAA
1 ATATATATTAAAAAAGTAAAA
24280533 ATATATATTA
1 ATATATATTA
24280543 TAACGACCAC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.37
Consensus pattern (21 bp):
ATATATATTAAAAAAGTAAAA
Found at i:24281559 original size:21 final size:20
Alignment explanation
Indices: 24281517--24281559 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
24281507 CTCAACCTTT
*
24281517 TAATTTTGATCTTCAATATA
1 TAATTTTGATCTTAAATATA
24281537 TAATTTT-ATGCTTAAATTATA
1 TAATTTTGAT-CTTAAA-TATA
24281558 TA
1 TA
24281560 TATAATTGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 2 0.10
20 12 0.60
21 6 0.30
ACGTcount: A:0.37, C:0.07, G:0.05, T:0.51
Consensus pattern (20 bp):
TAATTTTGATCTTAAATATA
Found at i:24283154 original size:30 final size:30
Alignment explanation
Indices: 24283118--24283220 Score: 127
Period size: 30 Copynumber: 3.4 Consensus size: 30
24283108 GACACAGAGT
*
24283118 AGTTCATATCACCCGGACATGGGCGGTTCG
1 AGTTCATATCACCCAGACATGGGCGGTTCG
*
24283148 AGTTCATATCACCCAGACATGGGCGATTCG
1 AGTTCATATCACCCAGACATGGGCGGTTCG
* * *
24283178 AGTTCATATAACCCCA-ACATAGGCGGTTTG
1 AGTTCATATCA-CCCAGACATGGGCGGTTCG
* *
24283208 AGTTTATTTCACC
1 AGTTCATATCACC
24283221 AACAGCAACC
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
29 2 0.03
30 57 0.90
31 4 0.06
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.27
Consensus pattern (30 bp):
AGTTCATATCACCCAGACATGGGCGGTTCG
Found at i:24289404 original size:22 final size:23
Alignment explanation
Indices: 24289378--24289423 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
24289368 CAACCAAACC
24289378 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
24289400 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
24289423 A
1 A
24289424 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:24289429 original size:23 final size:23
Alignment explanation
Indices: 24289385--24289429 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
24289375 ACCAATTCAA
*
24289385 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
24289408 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
24289430 CACATACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:24296123 original size:14 final size:14
Alignment explanation
Indices: 24296104--24296137 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
24296094 TGCCATTATA
24296104 ACCATAATTAATTT
1 ACCATAATTAATTT
24296118 ACCATAATTAATTT
1 ACCATAATTAATTT
24296132 ACCATA
1 ACCATA
24296138 TATACCAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.44, C:0.18, G:0.00, T:0.38
Consensus pattern (14 bp):
ACCATAATTAATTT
Found at i:24297032 original size:25 final size:25
Alignment explanation
Indices: 24297003--24297050 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
24296993 GCACATTCTC
*
24297003 GAGCCATATAACAGGATGCTTATAT
1 GAGCCATAGAACAGGATGCTTATAT
*
24297028 GAGCCATGGAACAGGATGCTTAT
1 GAGCCATAGAACAGGATGCTTAT
24297051 CTGGGTTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (25 bp):
GAGCCATAGAACAGGATGCTTATAT
Found at i:24298315 original size:30 final size:29
Alignment explanation
Indices: 24298236--24298316 Score: 85
Period size: 30 Copynumber: 2.8 Consensus size: 29
24298226 AAATGATGAT
*
24298236 ATTTTTATT-TTTTATTTTATC-ATTTATC
1 ATTTTTATTATTTTATTTT-CCAATTTATC
* *
24298264 ATCTTTTATTATTTCACTTTCCAATTTCATC
1 AT-TTTTATTATTTTATTTTCCAATTT-ATC
*
24298295 ATTTTTTTTATTTTATTTTCCA
1 ATTTTTATTATTTTATTTTCCA
24298317 TGGATGAATC
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
28 2 0.05
29 8 0.19
30 28 0.65
31 5 0.12
ACGTcount: A:0.21, C:0.14, G:0.00, T:0.65
Consensus pattern (29 bp):
ATTTTTATTATTTTATTTTCCAATTTATC
Found at i:24299683 original size:32 final size:31
Alignment explanation
Indices: 24299647--24299707 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 31
24299637 AAATATTAAA
*
24299647 TTTTAA-ATTTTTAAATATAATTTAAAAAAACG
1 TTTTAATATCTTTAAA-A-AATTTAAAAAAACG
*
24299679 TTTTAATATCTTTAAAAAATTTTAAAAAA
1 TTTTAATATCTTTAAAAAATTTAAAAAAA
24299708 TTAATAACTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
31 11 0.42
32 7 0.27
33 8 0.31
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.44
Consensus pattern (31 bp):
TTTTAATATCTTTAAAAAATTTAAAAAAACG
Found at i:24299860 original size:22 final size:22
Alignment explanation
Indices: 24299826--24299908 Score: 62
Period size: 21 Copynumber: 3.8 Consensus size: 22
24299816 TTTTAAATGT
* *
24299826 TTTATAATATTAAAAAATTATA
1 TTTAAAATTTTAAAAAATTATA
*
24299848 TTTAAAATTTT-AAAAATAATA
1 TTTAAAATTTTAAAAAATTATA
* * *
24299869 TTATAAAAAATTTAAAATA-TACA
1 TT-T-AAAATTTTAAAAAATTATA
* *
24299892 TTTCAAATTTTATAAAA
1 TTTAAAATTTTAAAAAA
24299909 CAATAATAAA
Statistics
Matches: 47, Mismatches: 11, Indels: 7
0.72 0.17 0.11
Matches are distributed among these distances:
21 21 0.45
22 11 0.23
23 11 0.23
24 4 0.09
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.42
Consensus pattern (22 bp):
TTTAAAATTTTAAAAAATTATA
Found at i:24299864 original size:21 final size:21
Alignment explanation
Indices: 24299838--24299908 Score: 63
Period size: 21 Copynumber: 3.2 Consensus size: 21
24299828 TATAATATTA
24299838 AAAAATTATATTTAAAATTTT
1 AAAAATTATATTTAAAATTTT
* *
24299859 AAAAATAATATTATAAAAAATTT
1 AAAAATTATATT-T-AAAATTTT
* *
24299882 -AAAATATACATTTCAAATTTT
1 AAAAAT-TATATTTAAAATTTT
24299903 ATAAAA
1 A-AAAA
24299909 CAATAATAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
21 17 0.44
22 7 0.18
23 15 0.38
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (21 bp):
AAAAATTATATTTAAAATTTT
Found at i:24299992 original size:17 final size:17
Alignment explanation
Indices: 24299972--24300010 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
24299962 GTAAATAAAT
*
24299972 AAAAAACTTAAAAAGAA
1 AAAAAACATAAAAAGAA
* *
24299989 AAAAAAGATAAAAAGAT
1 AAAAAACATAAAAAGAA
24300006 AAAAA
1 AAAAA
24300011 GGACAAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.79, C:0.03, G:0.08, T:0.10
Consensus pattern (17 bp):
AAAAAACATAAAAAGAA
Found at i:24300001 original size:24 final size:24
Alignment explanation
Indices: 24299948--24300020 Score: 74
Period size: 24 Copynumber: 3.0 Consensus size: 24
24299938 AAGGACAAAT
* * *
24299948 AAAAAACTTAAAAAGTAAATAAAT
1 AAAAAACTTAAAAAGAAAAAAAAG
24299972 AAAAAACTTAAAAAGAAAAAAAAG
1 AAAAAACTTAAAAAGAAAAAAAAG
** *
24299996 ATAAAAAGATAAAAAGGACAAAAAA
1 A-AAAAACTTAAAAA-GAAAAAAAA
24300021 TCACAAAAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
24 22 0.54
25 11 0.27
26 8 0.20
ACGTcount: A:0.75, C:0.04, G:0.08, T:0.12
Consensus pattern (24 bp):
AAAAAACTTAAAAAGAAAAAAAAG
Found at i:24300018 original size:17 final size:17
Alignment explanation
Indices: 24299981--24300019 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
24299971 TAAAAAACTT
*
24299981 AAAAAGAAAAAAAAGAT
1 AAAAAGAAAAAAAAGAC
* *
24299998 AAAAAGATAAAAAGGAC
1 AAAAAGAAAAAAAAGAC
24300015 AAAAA
1 AAAAA
24300020 ATCACAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.79, C:0.03, G:0.13, T:0.05
Consensus pattern (17 bp):
AAAAAGAAAAAAAAGAC
Found at i:24302323 original size:16 final size:16
Alignment explanation
Indices: 24302302--24302363 Score: 52
Period size: 16 Copynumber: 3.5 Consensus size: 16
24302292 CCTTGTCTCT
24302302 CCACCATCACTCTTCC
1 CCACCATCACTCTTCC
* *
24302318 CCACCATCGTCCCTCTCCCTCT
1 CCACCA---TCACTCT---TCC
24302340 CCACCATCACTCTTCC
1 CCACCATCACTCTTCC
24302356 CCACCATC
1 CCACCATC
24302364 GTCCCTCTCC
Statistics
Matches: 36, Mismatches: 4, Indels: 12
0.69 0.08 0.23
Matches are distributed among these distances:
16 16 0.44
19 12 0.33
22 8 0.22
ACGTcount: A:0.16, C:0.58, G:0.02, T:0.24
Consensus pattern (16 bp):
CCACCATCACTCTTCC
Found at i:24302343 original size:22 final size:22
Alignment explanation
Indices: 24302318--24302396 Score: 80
Period size: 22 Copynumber: 3.8 Consensus size: 22
24302308 TCACTCTTCC
24302318 CCACCATCGTCCCTCTCCCTCT
1 CCACCATCGTCCCTCTCCCTCT
* *
24302340 CCACCA---TCACTCT---TCC
1 CCACCATCGTCCCTCTCCCTCT
24302356 CCACCATCGTCCCTCTCCCTCT
1 CCACCATCGTCCCTCTCCCTCT
*
24302378 CCATCATCGTCCCTTCTCC
1 CCACCATCGTCCC-TCTCC
24302397 TCGTACCTGT
Statistics
Matches: 45, Mismatches: 5, Indels: 13
0.71 0.08 0.21
Matches are distributed among these distances:
16 8 0.18
19 12 0.27
22 20 0.44
23 5 0.11
ACGTcount: A:0.11, C:0.57, G:0.04, T:0.28
Consensus pattern (22 bp):
CCACCATCGTCCCTCTCCCTCT
Found at i:24302349 original size:38 final size:38
Alignment explanation
Indices: 24302298--24302385 Score: 167
Period size: 38 Copynumber: 2.3 Consensus size: 38
24302288 TCACCCTTGT
24302298 CTCTCCACCATCACTCTTCCCCACCATCGTCCCTCTCC
1 CTCTCCACCATCACTCTTCCCCACCATCGTCCCTCTCC
24302336 CTCTCCACCATCACTCTTCCCCACCATCGTCCCTCTCC
1 CTCTCCACCATCACTCTTCCCCACCATCGTCCCTCTCC
*
24302374 CTCTCCATCATC
1 CTCTCCACCATC
24302386 GTCCCTTCTC
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 49 1.00
ACGTcount: A:0.14, C:0.57, G:0.02, T:0.27
Consensus pattern (38 bp):
CTCTCCACCATCACTCTTCCCCACCATCGTCCCTCTCC
Found at i:24302352 original size:19 final size:20
Alignment explanation
Indices: 24302298--24302385 Score: 76
Period size: 19 Copynumber: 4.6 Consensus size: 20
24302288 TCACCCTTGT
*
24302298 CTCTCCACCATCACTCTTCC
1 CTCTCCATCATCACTCTTCC
* * *
24302318 C-CACCATCGTCCCTC-TCC
1 CTCTCCATCATCACTCTTCC
*
24302336 CTCTCCACCATCACTCTTCC
1 CTCTCCATCATCACTCTTCC
* * *
24302356 C-CACCATCGTCCCTC-TCC
1 CTCTCCATCATCACTCTTCC
24302374 CTCTCCATCATC
1 CTCTCCATCATC
24302386 GTCCCTTCTC
Statistics
Matches: 51, Mismatches: 14, Indels: 7
0.71 0.19 0.10
Matches are distributed among these distances:
18 8 0.16
19 38 0.75
20 5 0.10
ACGTcount: A:0.14, C:0.57, G:0.02, T:0.27
Consensus pattern (20 bp):
CTCTCCATCATCACTCTTCC
Found at i:24302978 original size:92 final size:92
Alignment explanation
Indices: 24302821--24303002 Score: 294
Period size: 92 Copynumber: 2.0 Consensus size: 92
24302811 AACCTACTGT
* *
24302821 TGAGAGGGAAAACAATTATCAATTTTGGTTAATACAATTTCCTTCATTATTCTCTCCTCTTCTCA
1 TGAGAGGGAAAACAATTATCAATTTTGGTTAATACAACTTCCTTCATTATTCTCTCCTATTCTCA
* *
24302886 ATTCCTTTTATCTTTTCTCTTTGCTGC
66 ATTCCCTCTATCTTTTCTCTTTGCTGC
* *
24302913 TGAGAGGGGAAAA-AATTATCAATTTTGGTTAATACAACTTCCTTCTTTATTCTCTCTTATTCTC
1 TGAGA-GGGAAAACAATTATCAATTTTGGTTAATACAACTTCCTTCATTATTCTCTCCTATTCTC
24302977 AATTCCCTCTATCTTTTCTCTTTGCT
65 AATTCCCTCTATCTTTTCTCTTTGCT
24303003 TTCTAATCTT
Statistics
Matches: 83, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
92 76 0.92
93 7 0.08
ACGTcount: A:0.23, C:0.21, G:0.10, T:0.46
Consensus pattern (92 bp):
TGAGAGGGAAAACAATTATCAATTTTGGTTAATACAACTTCCTTCATTATTCTCTCCTATTCTCA
ATTCCCTCTATCTTTTCTCTTTGCTGC
Found at i:24303051 original size:29 final size:28
Alignment explanation
Indices: 24303009--24303065 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 28
24302999 TGCTTTCTAA
24303009 TCTTTTCTGGTTCAGGCCGTATCAAAGGT
1 TCTTTTCTGGTTCA-GCCGTATCAAAGGT
*
24303038 TCTTTTCTGGTTCAGCTGTATCAAAGGT
1 TCTTTTCTGGTTCAGCCGTATCAAAGGT
24303066 ATTAGAACCT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 13 0.48
29 14 0.52
ACGTcount: A:0.18, C:0.19, G:0.23, T:0.40
Consensus pattern (28 bp):
TCTTTTCTGGTTCAGCCGTATCAAAGGT
Found at i:24308097 original size:24 final size:23
Alignment explanation
Indices: 24308068--24308125 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 23
24308058 GAGTATTTTA
*
24308068 TTTATTTAATATTAATACAATTAT
1 TTTATTTAATATTAATACAA-AAT
*
24308092 TTTATTTAATATTAATATAAAAT
1 TTTATTTAATATTAATACAAAAT
24308115 TTTCATTTAAT
1 TTT-ATTTAAT
24308126 TATATTTTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
23 5 0.16
24 26 0.84
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.55
Consensus pattern (23 bp):
TTTATTTAATATTAATACAAAAT
Found at i:24309611 original size:21 final size:20
Alignment explanation
Indices: 24309587--24309626 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
24309577 ACTAATACTA
*
24309587 TATTAAAAATTTCATAAATAT
1 TATT-AAAATTTCAAAAATAT
*
24309608 TATTATAATTTCAAAAATA
1 TATTAAAATTTCAAAAATA
24309627 AAAGTAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (20 bp):
TATTAAAATTTCAAAAATAT
Found at i:24315650 original size:93 final size:93
Alignment explanation
Indices: 24315538--24315709 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
24315528 GCCCATAAGT
*
24315538 GAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
24315602 ACGAGCTCGGATGCCTAGTTACATCTCAC
65 ACGAGCTCGGATGCCTAGTTACATCTCAC
*
24315631 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
24315696 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
24315710 CAAATATCCC
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:24315700 original size:46 final size:46
Alignment explanation
Indices: 24315530--24315705 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
24315520 TGTAACCCGC
*
24315530 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCAT
*
24315576 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCGCAT
* * *
24315626 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
24315669 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
24315706 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 8, Indels: 20
0.80 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 63 0.56
47 28 0.25
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:24317726 original size:21 final size:21
Alignment explanation
Indices: 24317702--24317757 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
24317692 CTACACAAGC
24317702 GGCGTGTGACCCCTCCACACG
1 GGCGTGTGACCCCTCCACACG
*** * *
24317723 GGCGTGTGTGGCCTTCACATG
1 GGCGTGTGACCCCTCCACACG
24317744 GGCGTGTAGACCCC
1 GGCGTGT-GACCCC
24317758 CACATGGACT
Statistics
Matches: 26, Mismatches: 8, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
21 23 0.88
22 3 0.12
ACGTcount: A:0.12, C:0.34, G:0.34, T:0.20
Consensus pattern (21 bp):
GGCGTGTGACCCCTCCACACG
Found at i:24322611 original size:7 final size:7
Alignment explanation
Indices: 24322599--24322631 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
24322589 TTGAATGGTG
24322599 TGCATTT
1 TGCATTT
24322606 TGCATTT
1 TGCATTT
24322613 TGCATTT
1 TGCATTT
*
24322620 TACA-TT
1 TGCATTT
24322626 TGCATT
1 TGCATT
24322632 AGTCTTTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
6 5 0.22
7 18 0.78
ACGTcount: A:0.18, C:0.15, G:0.12, T:0.55
Consensus pattern (7 bp):
TGCATTT
Found at i:24324781 original size:16 final size:16
Alignment explanation
Indices: 24324760--24324844 Score: 56
Period size: 13 Copynumber: 5.5 Consensus size: 16
24324750 TAATTAATTA
24324760 TTTATTTTTATTTTCT
1 TTTATTTTTATTTTCT
*
24324776 TTTA--TTTA-CTTCT
1 TTTATTTTTATTTTCT
*
24324789 TTTATTATTATTATTCT
1 TTTATTTTTATT-TTCT
* *
24324806 CTTAGCTTATTA-TTTC-
1 TTTA--TTTTTATTTTCT
*
24324822 -TTATTTTTATTTTAT
1 TTTATTTTTATTTTCT
24324837 TTTATTTT
1 TTTATTTT
24324845 AGTATCATTA
Statistics
Matches: 54, Mismatches: 6, Indels: 18
0.69 0.08 0.23
Matches are distributed among these distances:
13 13 0.24
14 7 0.13
15 6 0.11
16 11 0.20
17 10 0.19
18 1 0.02
19 6 0.11
ACGTcount: A:0.18, C:0.08, G:0.01, T:0.73
Consensus pattern (16 bp):
TTTATTTTTATTTTCT
Found at i:24327991 original size:48 final size:48
Alignment explanation
Indices: 24327934--24328067 Score: 225
Period size: 48 Copynumber: 2.8 Consensus size: 48
24327924 GTTCTGTAAG
* * *
24327934 ATTGG-TTTTGGGTACAGCTTTTTCTTCTTCTTCTTTTTTTCCCTGAA
1 ATTGGTTTTTGGGTACGGCTTTTTCTTCTTCTTCTTCTTTTCCCTAAA
24327981 ATTGGTTTTTGGGTACGGCTTTTTCTTCTTCTTCTTCTTTTCCCTAAA
1 ATTGGTTTTTGGGTACGGCTTTTTCTTCTTCTTCTTCTTTTCCCTAAA
*
24328029 ATTGGTTTTTGGGTACGGTTTTTTCTTCTTCTTCTTCTT
1 ATTGGTTTTTGGGTACGGCTTTTTCTTCTTCTTCTTCTT
24328068 CTTCTTTTCC
Statistics
Matches: 82, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
47 5 0.06
48 77 0.94
ACGTcount: A:0.09, C:0.19, G:0.16, T:0.57
Consensus pattern (48 bp):
ATTGGTTTTTGGGTACGGCTTTTTCTTCTTCTTCTTCTTTTCCCTAAA
Found at i:24328807 original size:18 final size:18
Alignment explanation
Indices: 24328762--24328825 Score: 78
Period size: 18 Copynumber: 3.6 Consensus size: 18
24328752 ATGAAATAAG
24328762 TTATATGTTGTTGTTC-T
1 TTATATGTTGTTGTTCAT
*
24328779 TTAGGGA-GTTGTTGTTCAT
1 TTA--TATGTTGTTGTTCAT
24328798 TTATATGTTGTTGTTCAT
1 TTATATGTTGTTGTTCAT
*
24328816 TTATAAGTTG
1 TTATATGTTG
24328826 AAGTTTCAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
17 4 0.10
18 31 0.77
19 5 0.12
ACGTcount: A:0.17, C:0.05, G:0.22, T:0.56
Consensus pattern (18 bp):
TTATATGTTGTTGTTCAT
Found at i:24330810 original size:33 final size:32
Alignment explanation
Indices: 24330740--24330812 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 32
24330730 AACAACTTCT
24330740 CCAGAAAATATTTTCAAGAAATCTACCAAACA
1 CCAGAAAATATTTTCAAGAAATCTACCAAACA
* *
24330772 ACAGAAAATATTTTACACAG-ATTC-ATCCAAACA
1 CCAGAAAATATTTT-CA-AGAAATCTA-CCAAACA
24330805 CCAGAAAA
1 CCAGAAAA
24330813 GTAAATCATT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
32 14 0.40
33 19 0.54
34 2 0.06
ACGTcount: A:0.51, C:0.22, G:0.07, T:0.21
Consensus pattern (32 bp):
CCAGAAAATATTTTCAAGAAATCTACCAAACA
Found at i:24330866 original size:14 final size:14
Alignment explanation
Indices: 24330815--24330859 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
24330805 CCAGAAAAGT
**
24330815 AAATCATTTTTTAG
1 AAATCATTTTCCAG
24330829 AAATCATTTTCCAG
1 AAATCATTTTCCAG
*
24330843 AAATCATTTTCCGG
1 AAATCATTTTCCAG
24330857 AAA
1 AAA
24330860 ATATTTTACC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.38
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:24331093 original size:47 final size:47
Alignment explanation
Indices: 24330967--24331102 Score: 118
Period size: 47 Copynumber: 2.9 Consensus size: 47
24330957 GTGTATACAT
* * *
24330967 AATA-ATACTAAAATATATACATAAT-ATATATAAATGAACATATAC
1 AATATATATTAAAATAAATACATAATAATATATAAATAAACATATAC
* * * * *
24331012 AATATCTATTATAAATATTAATAACATAAAAATATATTAATAAATATGTAC
1 AATATATATTA-AAATA--AAT-ACATAATAATATATAAATAAACATATAC
24331063 -ATATATATTGAAAATAAATACATAATAATAT-TAAAATAAA
1 AATATATATT-AAAATAAATACATAATAATATAT-AAATAAA
24331103 ATAATAAGTG
Statistics
Matches: 72, Mismatches: 11, Indels: 14
0.74 0.11 0.14
Matches are distributed among these distances:
45 4 0.06
46 5 0.07
47 22 0.31
48 3 0.04
49 2 0.03
50 19 0.26
51 17 0.24
ACGTcount: A:0.58, C:0.06, G:0.02, T:0.34
Consensus pattern (47 bp):
AATATATATTAAAATAAATACATAATAATATATAAATAAACATATAC
Found at i:24331105 original size:23 final size:22
Alignment explanation
Indices: 24331042--24331102 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
24331032 ATAACATAAA
* **
24331042 AATATATTAATAAATATGTACAT
1 AATATATTGA-AAATAAATACAT
24331065 -ATATATTGAAAATAAATACAT
1 AATATATTGAAAATAAATACAT
24331086 AATAATATT-AAAATAAA
1 AAT-ATATTGAAAATAAA
24331103 ATAATAAGTG
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
21 10 0.30
22 18 0.55
23 5 0.15
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.34
Consensus pattern (22 bp):
AATATATTGAAAATAAATACAT
Found at i:24331109 original size:22 final size:23
Alignment explanation
Indices: 24331060--24331102 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
24331050 AATAAATATG
24331060 TACAT-AT-ATATTGAAAATAAA
1 TACATAATAATATTGAAAATAAA
24331081 TACATAATAATATT-AAAATAAA
1 TACATAATAATATTGAAAATAAA
24331103 ATAATAAGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 5 0.25
22 10 0.50
23 5 0.25
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (23 bp):
TACATAATAATATTGAAAATAAA
Found at i:24331397 original size:11 final size:11
Alignment explanation
Indices: 24331383--24331425 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
24331373 TAATATTGAA
24331383 AATATATACAT
1 AATATATACAT
*
24331394 AATATATATAT
1 AATATATACAT
*
24331405 AACATATACGAT
1 AATATATAC-AT
24331417 ATATATATA
1 A-ATATATA
24331426 TACATTAGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
11 17 0.65
12 3 0.12
13 6 0.23
ACGTcount: A:0.53, C:0.07, G:0.02, T:0.37
Consensus pattern (11 bp):
AATATATACAT
Found at i:24331411 original size:24 final size:24
Alignment explanation
Indices: 24331311--24331427 Score: 88
Period size: 22 Copynumber: 5.0 Consensus size: 24
24331301 AGTGTTTAAG
*
24331311 AATATATACATAAGATGATATA-AA
1 AATATATACATAATAT-ATATATAA
* *
24331335 AATATGTACATGGAATAGTATATAAAA
1 AATATATACAT--AATA-TATATATAA
24331362 AATATA-AC-TAATA-ATAT-TGAA
1 AATATATACATAATATATATAT-AA
24331383 AATATATACATAATATATATAT--
1 AATATATACATAATATATATATAA
*
24331405 AACATATACGAT-ATATATATATA
1 AATATATAC-ATAATATATATATA
24331428 CATTAGAAAT
Statistics
Matches: 77, Mismatches: 5, Indels: 23
0.73 0.05 0.22
Matches are distributed among these distances:
21 12 0.16
22 20 0.26
23 11 0.14
24 14 0.18
25 2 0.03
26 10 0.13
27 8 0.10
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.33
Consensus pattern (24 bp):
AATATATACATAATATATATATAA
Found at i:24331533 original size:23 final size:22
Alignment explanation
Indices: 24331498--24331540 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
24331488 TATATATAAA
*
24331498 TAATAATGATATTAGAAATACT
1 TAATAATAATATTAGAAATACT
24331520 TAATATATAATATTAGAAATA
1 TAATA-ATAATATTAGAAATA
24331541 TATACATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.53, C:0.02, G:0.07, T:0.37
Consensus pattern (22 bp):
TAATAATAATATTAGAAATACT
Found at i:24331543 original size:18 final size:18
Alignment explanation
Indices: 24331522--24331571 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
24331512 GAAATACTTA
*
24331522 ATATATAATATTAGAAATAT
1 ATATATAATA-TA-AAAAAT
*
24331542 ATACATAATATAAAAAAT
1 ATATATAATATAAAAAAT
24331560 ATATATAATATA
1 ATATATAATATA
24331572 GTATTAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
18 16 0.59
19 2 0.07
20 9 0.33
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (18 bp):
ATATATAATATAAAAAAT
Found at i:24331551 original size:11 final size:11
Alignment explanation
Indices: 24331537--24331601 Score: 57
Period size: 11 Copynumber: 6.1 Consensus size: 11
24331527 TAATATTAGA
24331537 AATATATACAT
1 AATATATACAT
24331548 AATATA-A-A-
1 AATATATACAT
*
24331556 AA-ATATATAT
1 AATATATACAT
* *
24331566 AATATAGTATTAA
1 AATATA-TA-CAT
24331579 AATATATACAT
1 AATATATACAT
24331590 AATATATACAT
1 AATATATACAT
24331601 A
1 A
24331602 TTAAAAATAA
Statistics
Matches: 45, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
7 3 0.07
8 3 0.07
9 2 0.04
10 3 0.07
11 22 0.49
12 4 0.09
13 8 0.18
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.35
Consensus pattern (11 bp):
AATATATACAT
Found at i:24331551 original size:20 final size:20
Alignment explanation
Indices: 24331506--24331594 Score: 81
Period size: 20 Copynumber: 4.2 Consensus size: 20
24331496 AATAATAATG
*
24331506 ATATTAGAAATACTTAATATATA
1 ATATTAGAAATA--T-ATACATA
24331529 ATATTAGAAATATATACATA
1 ATATTAGAAATATATACATA
* * *
24331549 ATATAAAAAATATATATAATA
1 ATATTAGAAATATATA-CATA
24331570 TAGTATTA-AAATATATACATA
1 -A-TATTAGAAATATATACATA
24331591 ATAT
1 ATAT
24331595 ATACATATTA
Statistics
Matches: 57, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
19 3 0.05
20 21 0.37
21 7 0.12
22 10 0.18
23 16 0.28
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.37
Consensus pattern (20 bp):
ATATTAGAAATATATACATA
Found at i:24331625 original size:18 final size:20
Alignment explanation
Indices: 24331588--24331626 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
24331578 AAATATATAC
24331588 ATAATATATACATATTAAAA
1 ATAATATATACATATTAAAA
*
24331608 ATAATA-ATA-ATGTTAAAA
1 ATAATATATACATATTAAAA
24331626 A
1 A
24331627 AACTATTGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
19 3 0.17
20 6 0.33
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (20 bp):
ATAATATATACATATTAAAA
Found at i:24332519 original size:12 final size:12
Alignment explanation
Indices: 24332497--24332534 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
24332487 AAAAATTCTC
24332497 TCTCTTTTTTATT
1 TCTC-TTTTTATT
24332510 AT-TCTTTTTATT
1 -TCTCTTTTTATT
24332522 TCTCTTTTTATT
1 TCTCTTTTTATT
24332534 T
1 T
24332535 ATCTATACAC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 1 0.04
12 19 0.83
13 2 0.09
14 1 0.04
ACGTcount: A:0.11, C:0.13, G:0.00, T:0.76
Consensus pattern (12 bp):
TCTCTTTTTATT
Found at i:24333880 original size:89 final size:87
Alignment explanation
Indices: 24333536--24333928 Score: 374
Period size: 87 Copynumber: 4.5 Consensus size: 87
24333526 TCAAGTCATT
* * * * *
24333536 TCTCGCAATATGAATTGACTCTTTAAAAACAGACATT--AAAAACAGAAATTGAAAATAGCTCAG
1 TCTCGCAATATGAGTTGA-TTTTTGAAAACAGAAATTGAAAAAACAGAAATTGAAAATACCTCAG
* *
24333599 CACGTGAGCC-AAGGCTCAACTCACC
65 --CGTG-CCCTGAGGCTCAACTCACC
** ** ** * **
24333624 TCTCATAATATGAGTT-AGTTTTT-AAAACTTAGTTTG-AAAAGCAGATTTTGAAAATACCTC-G
1 TCTCGCAATATGAGTTGA-TTTTTGAAAACAGAAATTGAAAAAACAGAAATTGAAAATACCTCAG
*
24333685 ACATGTGACCC-GAGGCTCAACTCAGC
65 -C--GTG-CCCTGAGGCTCAACTCACC
* *
24333711 TCTCGCAATATGAGTTGATTTTTGAAAAATATAAATTGAAAAAACAGAAATTGAAAATACCTCAG
1 TCTCGCAATATGAGTTGATTTTTG-AAAACAGAAATTGAAAAAACAGAAATTGAAAATACCTCAG
* **
24333776 CATGTTCTGAGGCTCAACTCACC
65 CGTGCCCTGAGGCTCAACTCACC
*
24333799 TCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAAATTGAAAATTA-A-AAATTGAAAATACCT
1 TCTCGCAATATGAGTTGA--TTTTTGAAAA-CAGAAATTGAAAA-AACAGAAATTGAAAATACCT
24333862 CAGCGTGCCCTGAGGCTCAACTCACC
62 CAGCGTGCCCTGAGGCTCAACTCACC
24333888 TCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAA
1 TCTCGCAATATGAGTTGATTTTTGA-AAACAGAAATTGAAA
24333929 TTACCTCAGC
Statistics
Matches: 256, Mismatches: 35, Indels: 29
0.80 0.11 0.09
Matches are distributed among these distances:
85 2 0.01
86 9 0.04
87 83 0.32
88 51 0.20
89 69 0.27
90 40 0.16
91 2 0.01
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.28
Consensus pattern (87 bp):
TCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAAAAACAGAAATTGAAAATACCTCAGC
GTGCCCTGAGGCTCAACTCACC
Found at i:24333966 original size:73 final size:73
Alignment explanation
Indices: 24333847--24334062 Score: 326
Period size: 73 Copynumber: 2.9 Consensus size: 73
24333837 TGAAAATTAA
*
24333847 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
24333912 ACAA-ACAG
66 A-AAGACAG
*
24333920 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTT
**
24333985 TGAAAGGTAG
64 TGAAAGACAG
* ** *
24333995 AAATTGAAAATACCTCAACGTGTATTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
24334060 AAA
66 AAA
24334063 TAGAAATAAA
Statistics
Matches: 131, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
73 66 0.50
74 2 0.02
75 63 0.48
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (73 bp):
AAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
AAAGACAG
Found at i:24334029 original size:75 final size:75
Alignment explanation
Indices: 24333847--24334058 Score: 322
Period size: 75 Copynumber: 2.9 Consensus size: 75
24333837 TGAAAATTAA
*
24333847 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTT
1 AAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
24333910 TGACAAACAG
66 TGACAAACAG
*
24333920 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
**
24333985 TGA-AAGGTAG
66 TGACAA-ACAG
* ** *
24333995 AAATTGAAAATACCTCAACGTGTATTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTT
1 AAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
24334059 GAAATAGAAA
Statistics
Matches: 127, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
73 57 0.45
74 2 0.02
75 68 0.54
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (75 bp):
AAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
TGACAAACAG
Found at i:24340474 original size:46 final size:45
Alignment explanation
Indices: 24340376--24340466 Score: 130
Period size: 46 Copynumber: 2.0 Consensus size: 45
24340366 AACCCGCCCC
* *
24340376 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGA-ATGCGCAACCA
* *
24340422 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG-ATGCTCAACCA
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGAATGCGCAACCA
24340466 T
1 T
24340467 CCTAGTGACA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 9 0.22
46 32 0.78
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (45 bp):
TAAGTGAACTCAGACTCAACTCAACGAGTTCGGAATGCGCAACCA
Found at i:24340911 original size:30 final size:30
Alignment explanation
Indices: 24340877--24340937 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
24340867 CATTTAATAC
24340877 AAACTTTGGAAAAATTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACACTTTTGCCCCT
* * *
24340907 AAACTTTTGCATAATTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACACTTTTGCCCCT
24340937 A
1 A
24340938 GGCTCGGGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.31, C:0.25, G:0.08, T:0.36
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACACTTTTGCCCCT
Found at i:24348973 original size:22 final size:22
Alignment explanation
Indices: 24348832--24348974 Score: 65
Period size: 22 Copynumber: 6.0 Consensus size: 22
24348822 TGAAAAGTGT
** *
24348832 ATACATAATAATACAAAAATAT
1 ATACATAATAATATTAAAATAA
*
24348854 ATACATAAT-ATATATCAAATGAA
1 ATACATAATAATAT-TAAAAT-AA
* * *
24348877 CATATACAATATCTATTATAAATATTA
1 -ATACATAATA-ATATTA-AAATA--A
* *
24348904 ATAACATAAAAATA-TATTAATAA
1 AT-ACATAATAATATTA-AAATAA
**
24348927 ATATGTACATATATATTGAAAATAA
1 ATACATA-ATA-ATATT-AAAATAA
24348952 ATACATAATAATATTAAAATAA
1 ATACATAATAATATTAAAATAA
24348974 A
1 A
24348975 ATAATAAGTG
Statistics
Matches: 89, Mismatches: 19, Indels: 26
0.66 0.14 0.19
Matches are distributed among these distances:
21 3 0.03
22 24 0.27
23 11 0.12
24 13 0.15
25 20 0.22
26 12 0.13
27 6 0.07
ACGTcount: A:0.58, C:0.07, G:0.02, T:0.33
Consensus pattern (22 bp):
ATACATAATAATATTAAAATAA
Found at i:24349273 original size:22 final size:22
Alignment explanation
Indices: 24349161--24349300 Score: 95
Period size: 24 Copynumber: 5.9 Consensus size: 22
24349151 AAAAATATGT
* * *
24349161 ATATATATATAATAGTGTTTAAGA
1 ATATATACATAATA-TATATAA-A
*
24349185 ATATATACATAAGATGATATAAAA
1 ATATATACATAATAT-ATAT-AAA
*
24349209 ATATGTACATGAAATAGTATATAAA
1 ATATATACAT--AATA-TATATAAA
*
24349234 AAATATA-ACTAATA-ATATTGAAA
1 ATATATACA-TAATATATA-T-AAA
24349257 ATATATACATAATATATATAAA
1 ATATATACATAATATATATAAA
*
24349279 ACATATACGATATATATATATA
1 ATATATAC-ATA-ATATATATA
24349301 CACATTAGAA
Statistics
Matches: 94, Mismatches: 10, Indels: 24
0.73 0.08 0.19
Matches are distributed among these distances:
21 3 0.03
22 11 0.12
23 23 0.24
24 38 0.40
25 11 0.12
26 7 0.07
27 1 0.01
ACGTcount: A:0.54, C:0.04, G:0.07, T:0.34
Consensus pattern (22 bp):
ATATATACATAATATATATAAA
Found at i:24349295 original size:24 final size:22
Alignment explanation
Indices: 24349187--24349300 Score: 81
Period size: 23 Copynumber: 4.8 Consensus size: 22
24349177 GTTTAAGAAT
*
24349187 ATATACATAAGATGATATAAAA-
1 ATATACATAATAT-ATATAAAAC
*
24349209 ATATGTACATGAAATAGTATATAAAAA
1 ATA--TACAT--AATA-TATATAAAAC
*
24349236 ATATA-ACTAATA-ATATTGAAAAT
1 ATATACA-TAATATATA-T-AAAAC
24349259 ATATACATAATATATATAAAAC
1 ATATACATAATATATATAAAAC
24349281 ATATACGATATATATATATA
1 ATATAC-ATA-ATATATATA
24349301 CACATTAGAA
Statistics
Matches: 76, Mismatches: 3, Indels: 24
0.74 0.03 0.23
Matches are distributed among these distances:
21 3 0.04
22 14 0.18
23 22 0.29
24 19 0.25
25 3 0.04
26 11 0.14
27 4 0.05
ACGTcount: A:0.56, C:0.05, G:0.06, T:0.32
Consensus pattern (22 bp):
ATATACATAATATATATAAAAC
Found at i:24349410 original size:23 final size:23
Alignment explanation
Indices: 24349374--24349434 Score: 72
Period size: 23 Copynumber: 2.6 Consensus size: 23
24349364 ATATATATAA
*
24349374 ATAATA-ATGATATTAGAAATACT
1 ATAATATATAATATTAGAAATA-T
24349397 -TAATATATAATATTAGAAATAT
1 ATAATATATAATATTAGAAATAT
24349419 ATACATAATATAATAT
1 ATA-AT-ATATAATAT
24349435 ATATATATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
22 6 0.18
23 16 0.48
24 2 0.06
25 9 0.27
ACGTcount: A:0.54, C:0.03, G:0.05, T:0.38
Consensus pattern (23 bp):
ATAATATATAATATTAGAAATAT
Found at i:24349428 original size:11 final size:11
Alignment explanation
Indices: 24349414--24349478 Score: 50
Period size: 11 Copynumber: 6.1 Consensus size: 11
24349404 TAATATTAGA
24349414 AATATATACAT
1 AATATATACAT
*
24349425 AATATA-ATAT
1 AATATATACAT
24349435 ATATATATA-AT
1 A-ATATATACAT
*
24349446 -GTAGTATTA-A-
1 AATA-TA-TACAT
24349456 AATATATACAT
1 AATATATACAT
24349467 AATATATACAT
1 AATATATACAT
24349478 A
1 A
24349479 TTAAAAATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 14
0.72 0.05 0.23
Matches are distributed among these distances:
9 4 0.09
10 9 0.20
11 30 0.68
12 1 0.02
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.38
Consensus pattern (11 bp):
AATATATACAT
Found at i:24349428 original size:20 final size:20
Alignment explanation
Indices: 24349383--24349471 Score: 65
Period size: 20 Copynumber: 4.2 Consensus size: 20
24349373 AATAATAATG
*
24349383 ATATTAGAAATACTTAATATATA
1 ATATTAGAAATA--T-ATACATA
24349406 ATATTAGAAATATATACATA
1 ATATTAGAAATATATACATA
* *
24349426 ATATAATATATATATATA-ATGTA
1 ATAT--TAGAAATATATACA--TA
*
24349449 GTATTA-AAATATATACATA
1 ATATTAGAAATATATACATA
24349468 ATAT
1 ATAT
24349472 ATACATATTA
Statistics
Matches: 55, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
19 5 0.09
20 18 0.33
21 5 0.09
22 10 0.18
23 17 0.31
ACGTcount: A:0.53, C:0.03, G:0.04, T:0.39
Consensus pattern (20 bp):
ATATTAGAAATATATACATA
Found at i:24349502 original size:18 final size:20
Alignment explanation
Indices: 24349465--24349503 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
24349455 AAATATATAC
24349465 ATAATATATACATATTAAAA
1 ATAATATATACATATTAAAA
*
24349485 ATAATA-ATA-ATGTTAAAA
1 ATAATATATACATATTAAAA
24349503 A
1 A
24349504 AAACTATTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
19 3 0.17
20 6 0.33
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (20 bp):
ATAATATATACATATTAAAA
Found at i:24350383 original size:12 final size:12
Alignment explanation
Indices: 24350361--24350398 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
24350351 AAAAAAATTC
24350361 TCTCTTTTTTATT
1 TCTC-TTTTTATT
24350374 AT-TCTTTTTATT
1 -TCTCTTTTTATT
24350386 TCTCTTTTTATT
1 TCTCTTTTTATT
24350398 T
1 T
24350399 ATCTATACAC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 1 0.04
12 19 0.83
13 2 0.09
14 1 0.04
ACGTcount: A:0.11, C:0.13, G:0.00, T:0.76
Consensus pattern (12 bp):
TCTCTTTTTATT
Found at i:24355055 original size:40 final size:40
Alignment explanation
Indices: 24354971--24355154 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
24354961 TTGAATGCTG
* * * *
24354971 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
24355010 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
24355051 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
24355091 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
24355131 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
24355155 GAATGAGTTA
Statistics
Matches: 123, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 111 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:24355108 original size:80 final size:81
Alignment explanation
Indices: 24354971--24355151 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 81
24354961 TTGAATGCTG
* * *
24354971 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
24355035 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
24355051 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
24355112 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
24355131 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
24355152 ATTGAATGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 4 0.04
80 76 0.85
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:24355175 original size:39 final size:38
Alignment explanation
Indices: 24355052--24355201 Score: 131
Period size: 40 Copynumber: 3.8 Consensus size: 38
24355042 GTTATTAATT
* ** * *
24355052 CCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAATT
1 CCGGGTTAAGTCCCGAAGG-CATTGAACGAGTTACTAA-A
** *
24355092 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 CCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTACT-AAA
*
24355131 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATAA
1 -CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTA-AA
* *
24355171 CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 CCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
24355202 GAGCTAATCC
Statistics
Matches: 93, Mismatches: 11, Indels: 12
0.80 0.09 0.10
Matches are distributed among these distances:
39 30 0.32
40 63 0.68
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (38 bp):
CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTAAA
Found at i:24362884 original size:40 final size:40
Alignment explanation
Indices: 24362800--24362983 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
24362790 TTGAATGCTG
* * * *
24362800 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
24362839 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
24362880 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
24362920 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
24362960 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
24362984 GAATGAGTTA
Statistics
Matches: 123, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 111 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:24362937 original size:80 final size:81
Alignment explanation
Indices: 24362800--24362980 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 81
24362790 TTGAATGCTG
* * *
24362800 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
24362864 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
24362880 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
24362941 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
24362960 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
24362981 ATTGAATGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 4 0.04
80 76 0.85
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:24370391 original size:17 final size:17
Alignment explanation
Indices: 24370358--24370396 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
24370348 ATATGTACTC
24370358 TTTTTCTTTCACTAGGAA
1 TTTTTCTTTCACTAGG-A
*
24370376 TTTTTTTTTCAC-AGGA
1 TTTTTCTTTCACTAGGA
24370392 TTTTT
1 TTTTT
24370397 ATCTTAGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 6 0.30
17 3 0.15
18 11 0.55
ACGTcount: A:0.18, C:0.13, G:0.10, T:0.59
Consensus pattern (17 bp):
TTTTTCTTTCACTAGGA
Found at i:24372206 original size:14 final size:13
Alignment explanation
Indices: 24372179--24372218 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
24372169 TTAACTTCGA
24372179 ATTTTTTAAAATT
1 ATTTTTTAAAATT
*
24372192 ATTTTTTACATATT
1 ATTTTTTA-AAATT
*
24372206 ATTTTTCAAAATT
1 ATTTTTTAAAATT
24372219 TTCACTTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (13 bp):
ATTTTTTAAAATT
Found at i:24373650 original size:16 final size:17
Alignment explanation
Indices: 24373629--24373661 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
24373619 TTTATATTGA
24373629 ATATTTTAT-ATTATTT
1 ATATTTTATAATTATTT
24373645 ATATTTTATAATTATTT
1 ATATTTTATAATTATTT
24373662 TTAATTGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
ATATTTTATAATTATTT
Found at i:24381838 original size:28 final size:28
Alignment explanation
Indices: 24381807--24381937 Score: 156
Period size: 28 Copynumber: 4.7 Consensus size: 28
24381797 AAAAAAAATA
24381807 TTTGTGGCAATCTATGAAAAATGAAGCC
1 TTTGTGGCAATCTATGAAAAATGAAGCC
* * *
24381835 TTTGTGGCGATTTATGAAAAAAGAAGCC
1 TTTGTGGCAATCTATGAAAAATGAAGCC
24381863 TTTGTGGCAATCTATG-AAAATAGAAGCC
1 TTTGTGGCAATCTATGAAAAAT-GAAGCC
* ** * *
24381891 TTCGTGGTGATTTATGAAAAAGGAAGCC
1 TTTGTGGCAATCTATGAAAAATGAAGCC
* *
24381919 TTTATAGCAATCTATGAAA
1 TTTGTGGCAATCTATGAAA
24381938 GGAAAGCCAT
Statistics
Matches: 84, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
27 4 0.05
28 76 0.90
29 4 0.05
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.30
Consensus pattern (28 bp):
TTTGTGGCAATCTATGAAAAATGAAGCC
Found at i:24381868 original size:56 final size:57
Alignment explanation
Indices: 24381807--24381937 Score: 203
Period size: 56 Copynumber: 2.3 Consensus size: 57
24381797 AAAAAAAATA
*
24381807 TTTGTGGCAATCTATGAAAAAT-GAAGCCTTTGTGGCGATTTATGAAAAAAGAAGCC
1 TTTGTGGCAATCTATGAAAAATAGAAGCCTTCGTGGCGATTTATGAAAAAAGAAGCC
* *
24381863 TTTGTGGCAATCTATG-AAAATAGAAGCCTTCGTGGTGATTTATGAAAAAGGAAGCC
1 TTTGTGGCAATCTATGAAAAATAGAAGCCTTCGTGGCGATTTATGAAAAAAGAAGCC
* *
24381919 TTTATAGCAATCTATGAAA
1 TTTGTGGCAATCTATGAAA
24381938 GGAAAGCCAT
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
55 5 0.07
56 61 0.90
57 2 0.03
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.30
Consensus pattern (57 bp):
TTTGTGGCAATCTATGAAAAATAGAAGCCTTCGTGGCGATTTATGAAAAAAGAAGCC
Found at i:24384057 original size:18 final size:17
Alignment explanation
Indices: 24384034--24384067 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
24384024 AAGAAAATAA
*
24384034 TAAAATTAAAATTAAAAT
1 TAAAA-TAAAAATAAAAT
24384052 TAAAATAAAAATAAAA
1 TAAAATAAAAATAAAA
24384068 AGATAGGAGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (17 bp):
TAAAATAAAAATAAAAT
Found at i:24384066 original size:11 final size:11
Alignment explanation
Indices: 24384032--24384067 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
24384022 AAAAGAAAAT
24384032 AATAAAATTAA
1 AATAAAATTAA
24384043 AATTAAAATTAA
1 AA-TAAAATTAA
*
24384055 AATAAAAATAA
1 AATAAAATTAA
24384066 AA
1 AA
24384068 AGATAGGAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 12 0.52
12 11 0.48
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (11 bp):
AATAAAATTAA
Found at i:24384068 original size:6 final size:6
Alignment explanation
Indices: 24384034--24384067 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
24384024 AAGAAAATAA
*
24384034 TAAAAT TAAAAT TAAAAT TAAAA- TAAAAA TAAAA
1 TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAAAA
24384068 AGATAGGAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.19
6 22 0.81
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (6 bp):
TAAAAT
Found at i:24404258 original size:46 final size:47
Alignment explanation
Indices: 24404179--24404294 Score: 132
Period size: 46 Copynumber: 2.5 Consensus size: 47
24404169 CAAAGTAATA
*
24404179 TCCCAGACATGGTCTTACACTGACTATCATCTCG-TAGCCGATG-CATG
1 TCCCAGACATAGTCTTACACTGAC-ATCATCTCGAT-GCCGATGCCATG
* *
24404226 TCCTAGACAT-GTCTTACACT-AGCACTCGTCTCGATGCCGATGCCATG
1 TCCCAGACATAGTCTTACACTGA-CA-TCATCTCGATGCCGATGCCATG
*
24404273 TCCCAAACATAGTCTTACACTG
1 TCCCAGACATAGTCTTACACTG
24404295 GCTCTAATAA
Statistics
Matches: 59, Mismatches: 4, Indels: 10
0.81 0.05 0.14
Matches are distributed among these distances:
45 2 0.03
46 25 0.42
47 22 0.37
48 10 0.17
ACGTcount: A:0.24, C:0.31, G:0.17, T:0.28
Consensus pattern (47 bp):
TCCCAGACATAGTCTTACACTGACATCATCTCGATGCCGATGCCATG
Found at i:24411784 original size:47 final size:48
Alignment explanation
Indices: 24411706--24411980 Score: 221
Period size: 47 Copynumber: 5.9 Consensus size: 48
24411696 GTGGGTAAGG
* * *
24411706 TGCCGATGCCATGTCCTAGACACGGTCTTACACTAGCTCATATCTC-A
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATCTCGA
* * * * * *
24411753 TGTCGATGCCATGTCCCAAACATGGTTTTACACT-GATTATCATCT-TA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCA-CATCTCGA
* * * *
24411800 TAGCTGATG-CATGTCCCAGACAT-GTCTTGCACTGGCTTACATCTCGA
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATCTCGA
* * * * *
24411847 GGCCGATG-CATGTCCTAGACAT-GTCTTACACTAGCACCCGTCTCGA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATCTCGA
* * *
24411893 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-G-
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACAT-CTCGA
** *
24411940 TGGTTGATG-CATGTCCCAGACAT-GTCTTACACTAGCCCACA
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACA
24411981 ATAACCCATA
Statistics
Matches: 183, Mismatches: 36, Indels: 19
0.77 0.15 0.08
Matches are distributed among these distances:
46 75 0.41
47 81 0.44
48 26 0.14
49 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (48 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATCTCGA
Found at i:24411855 original size:46 final size:45
Alignment explanation
Indices: 24411805--24411972 Score: 176
Period size: 46 Copynumber: 3.6 Consensus size: 45
24411795 TCTTATAGCT
*
24411805 GATGCATGTCCCAGACATGTCTTGCACTGGCTTACATCTCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTT-CATCTCGAGGCC
* * ** * *
24411851 GATGCATGTCCTAGACATGTCTTACACTAGCACCCGTCTCGATGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGC-TTCATCTCGAGGCC
* * **
24411897 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGTT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TCAT-CTCGAGGCC
24411945 GATGCATGTCCCAGACATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
24411973 AGCCCACAAT
Statistics
Matches: 100, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
46 52 0.52
47 27 0.27
48 20 0.20
49 1 0.01
ACGTcount: A:0.21, C:0.29, G:0.21, T:0.28
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTTCATCTCGAGGCC
Found at i:24411907 original size:140 final size:141
Alignment explanation
Indices: 24411707--24411972 Score: 356
Period size: 140 Copynumber: 1.9 Consensus size: 141
24411697 TGGGTAAGGT
* * *
24411707 GCCGATGCCATGTCCTAGACACGGTCTTACACTAGCTCATATCTCATGTCGATGCCATGTCCCAA
1 GCCGATGCCATGTCCTAGACACGGTCTTACACTAGCACACATCTCATGCCGATGCCATGTCCCAA
* * ** *
24411772 ACATGGTTTTACACTGATTATCATCTTATAGCTGATGCATGTCCCAGACATGTCTTGCACTGGCT
66 ACATGGTCTTACACTGACTATCATAATATAGCTGATGCATGTCCCAGACATGTCTTACACTGGCT
24411837 TACATCTCGAG
131 TACATCTCGAG
* * *
24411848 GCCGATG-CATGTCCTAGACA-TGTCTTACACTAGCACCCGTCTCGATGCCGATGCCATGTCCCA
1 GCCGATGCCATGTCCTAGACACGGTCTTACACTAGCACACATCTC-ATGCCGATGCCATGTCCCA
* * * * * *
24411911 GACATGGTCTTACACTGGCTCTCATAATGTGGTTGATGCATGTCCCAGACATGTCTTACACT
65 AACATGGTCTTACACTGACTATCATAATATAGCTGATGCATGTCCCAGACATGTCTTACACT
24411973 AGCCCACAAT
Statistics
Matches: 107, Mismatches: 17, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
139 18 0.17
140 82 0.77
141 7 0.07
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.29
Consensus pattern (141 bp):
GCCGATGCCATGTCCTAGACACGGTCTTACACTAGCACACATCTCATGCCGATGCCATGTCCCAA
ACATGGTCTTACACTGACTATCATAATATAGCTGATGCATGTCCCAGACATGTCTTACACTGGCT
TACATCTCGAG
Found at i:24413771 original size:57 final size:58
Alignment explanation
Indices: 24413693--24413834 Score: 155
Period size: 57 Copynumber: 2.5 Consensus size: 58
24413683 CTTAGTCAGA
* ** * *
24413693 ATTACCGGTCCAGGCTAAATCCTTTTTATGACATATGCTCTAAAGCG-CTTGAT-TT-GG
1 ATTACCAGTCCAGGCTAAATCCTTTCCATAACATATGCTCGAAAG-GACTT-ATATTAGG
* * ** *
24413750 ATTACCCGTCCGGGCTAAATCCAATCCATAACATATGCTCGAGAGGACTTATATTAGG
1 ATTACCAGTCCAGGCTAAATCCTTTCCATAACATATGCTCGAAAGGACTTATATTAGG
24413808 ATTACCAGTCCAGGCTAAATCCTTTCC
1 ATTACCAGTCCAGGCTAAATCCTTTCC
24413835 GTAATGAGGT
Statistics
Matches: 69, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
56 3 0.04
57 41 0.59
58 25 0.36
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (58 bp):
ATTACCAGTCCAGGCTAAATCCTTTCCATAACATATGCTCGAAAGGACTTATATTAGG
Found at i:24414091 original size:17 final size:17
Alignment explanation
Indices: 24414069--24414101 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
24414059 TTTTTATCAT
24414069 TTATCATTTATCGGGCA
1 TTATCATTTATCGGGCA
24414086 TTATCATTTATCGGGC
1 TTATCATTTATCGGGC
24414102 TTTGCCAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.21, C:0.18, G:0.18, T:0.42
Consensus pattern (17 bp):
TTATCATTTATCGGGCA
Found at i:24416706 original size:31 final size:31
Alignment explanation
Indices: 24416668--24416731 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
24416658 TTTAACTTAA
24416668 CTTTAAAATCAGTTAATTTAACTCGAAAAGT
1 CTTTAAAATCAGTTAATTTAACTCGAAAAGT
24416699 CTTTAAAATCAGTTAATTTAACTCGAAAAGT
1 CTTTAAAATCAGTTAATTTAACTCGAAAAGT
24416730 CT
1 CT
24416732 ATCTAGTAGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.41, C:0.14, G:0.09, T:0.36
Consensus pattern (31 bp):
CTTTAAAATCAGTTAATTTAACTCGAAAAGT
Found at i:24417073 original size:31 final size:29
Alignment explanation
Indices: 24417000--24417085 Score: 70
Period size: 29 Copynumber: 2.9 Consensus size: 29
24416990 CAAGAATTGA
* * *
24417000 ATCAAACCAAAATTTCATGTATAAAATTAT
1 ATCAAACTAAAATTT-ATATATATAATTAT
*
24417030 A-CAAAATCAAAATTTATATATATAATTGCAT
1 ATCAAACT-AAAATTTATATATATAATT--AT
*
24417061 ATCAAACTAAAA--TATATGTATAATT
1 ATCAAACTAAAATTTATATATATAATT
24417086 TTAAAATTTA
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
29 26 0.57
30 8 0.17
31 7 0.15
32 5 0.11
ACGTcount: A:0.51, C:0.10, G:0.03, T:0.35
Consensus pattern (29 bp):
ATCAAACTAAAATTTATATATATAATTAT
Found at i:24419083 original size:25 final size:25
Alignment explanation
Indices: 24419032--24419083 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 25
24419022 TATTTTTAAG
*
24419032 TTTAAAATTTTTAAAATTTAGGGTT
1 TTTAAAATTTTTAAAATTTAGAGTT
*
24419057 TTTAATATTTTT-AAATTTA-AGATT
1 TTTAAAATTTTTAAAATTTAGAG-TT
24419081 TTT
1 TTT
24419084 GACTGAAATC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 1 0.04
24 12 0.50
25 11 0.46
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.58
Consensus pattern (25 bp):
TTTAAAATTTTTAAAATTTAGAGTT
Found at i:24427451 original size:5 final size:5
Alignment explanation
Indices: 24427415--24427463 Score: 52
Period size: 5 Copynumber: 10.4 Consensus size: 5
24427405 GCAAATTAAG
*
24427415 AAAGA ACAG- AAAG- AAA-A AAAG- AAAGAA AAAGA AAAGA AAAGA AAAGA
1 AAAGA AAAGA AAAGA AAAGA AAAGA AAAG-A AAAGA AAAGA AAAGA AAAGA
24427462 AA
1 AA
24427464 GGGAGAAAGG
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
4 13 0.34
5 21 0.55
6 4 0.11
ACGTcount: A:0.80, C:0.02, G:0.18, T:0.00
Consensus pattern (5 bp):
AAAGA
Found at i:24427864 original size:24 final size:24
Alignment explanation
Indices: 24427835--24427888 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
24427825 AAATGTGAGA
*
24427835 ATAAAAATTAGTCTCGGTTTAAGG
1 ATAAAAATTAGTCTCGATTTAAGG
*
24427859 ATAAAAATTAGTCTCGATTTAGGG
1 ATAAAAATTAGTCTCGATTTAAGG
24427883 ACTAAA
1 A-TAAA
24427889 TTGGAATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 23 0.85
25 4 0.15
ACGTcount: A:0.41, C:0.09, G:0.19, T:0.31
Consensus pattern (24 bp):
ATAAAAATTAGTCTCGATTTAAGG
Found at i:24432158 original size:15 final size:14
Alignment explanation
Indices: 24432131--24432174 Score: 52
Period size: 15 Copynumber: 3.0 Consensus size: 14
24432121 CTATTGCTTT
*
24432131 ATTCTGTTCTGTTC
1 ATTCTGCTCTGTTC
*
24432145 AGTTTTGCTCTGTTCC
1 A-TTCTGCTCTGTT-C
24432161 ATTCTGCTCTGTTC
1 ATTCTGCTCTGTTC
24432175 TGCCTTGTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 2 0.08
15 21 0.84
16 2 0.08
ACGTcount: A:0.07, C:0.25, G:0.16, T:0.52
Consensus pattern (14 bp):
ATTCTGCTCTGTTC
Found at i:24434355 original size:34 final size:35
Alignment explanation
Indices: 24434307--24434373 Score: 84
Period size: 34 Copynumber: 1.9 Consensus size: 35
24434297 AATTTTATTA
* * *
24434307 AAAAATTATAAACTTATTA-AAATTTATAAAAATCC
1 AAAAATGATAAACTT-TTAGAAATTAAAAAAAATCC
24434342 AAAAATGA-AAACTTTTAGAAATTAAAAAAAAT
1 AAAAATGATAAACTTTTAGAAATTAAAAAAAAT
24434374 AATTATTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
33 3 0.11
34 18 0.64
35 7 0.25
ACGTcount: A:0.61, C:0.06, G:0.03, T:0.30
Consensus pattern (35 bp):
AAAAATGATAAACTTTTAGAAATTAAAAAAAATCC
Found at i:24437671 original size:29 final size:30
Alignment explanation
Indices: 24437624--24437685 Score: 108
Period size: 29 Copynumber: 2.1 Consensus size: 30
24437614 ACTTAACAAG
24437624 CAAATGCCTCTAAAATAATAAAAAAATTAA
1 CAAATGCCTCTAAAATAATAAAAAAATTAA
*
24437654 CAAATGCCT-TAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAAAAAAATTAA
24437683 CAA
1 CAA
24437686 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 22 0.71
30 9 0.29
ACGTcount: A:0.60, C:0.15, G:0.03, T:0.23
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAAAAAAATTAA
Found at i:24438210 original size:42 final size:42
Alignment explanation
Indices: 24438149--24438253 Score: 140
Period size: 42 Copynumber: 2.5 Consensus size: 42
24438139 AGTTACATAA
* * * *
24438149 CTTGGACACATGCCTATGTCCTTGCCCATGTGGCTCACACGG
1 CTTGGGCACATGCCCATGTCCTTGCCCATGTAGCTCACACAG
*
24438191 CTTGGGCACATGCCCATGTCCTTGCCCATGTAGCTTACACAG
1 CTTGGGCACATGCCCATGTCCTTGCCCATGTAGCTCACACAG
*
24438233 -TCTGGGCACACGCCCATGTCC
1 CT-TGGGCACATGCCCATGTCC
24438254 CTGGCCGTGT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
41 1 0.02
42 55 0.98
ACGTcount: A:0.17, C:0.35, G:0.23, T:0.25
Consensus pattern (42 bp):
CTTGGGCACATGCCCATGTCCTTGCCCATGTAGCTCACACAG
Found at i:24443639 original size:22 final size:22
Alignment explanation
Indices: 24443614--24443662 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
24443604 TGTTTTCTCC
24443614 TTATTTTGCTACCATATTACTA
1 TTATTTTGCTACCATATTACTA
* * * *
24443636 TTATATTGCTACTATTTTATTA
1 TTATTTTGCTACCATATTACTA
24443658 TTATT
1 TTATT
24443663 GTTTAGATAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.12, G:0.04, T:0.57
Consensus pattern (22 bp):
TTATTTTGCTACCATATTACTA
Found at i:24443702 original size:12 final size:11
Alignment explanation
Indices: 24443683--24443713 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
24443673 TGTATAAAAC
24443683 TTATTTTATTA
1 TTATTTTATTA
24443694 TTAATTTTATTA
1 TT-ATTTTATTA
24443706 TTATTTTA
1 TTATTTTA
24443714 AAAGCATTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TTATTTTATTA
Found at i:24443730 original size:30 final size:30
Alignment explanation
Indices: 24443694--24443755 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
24443684 TATTTTATTA
24443694 TTAATTTTATTATTATTTTAAAAGCATTTG
1 TTAATTTTATTATTATTTTAAAAGCATTTG
* * *
24443724 TTAATTTTGTTATTATTTTAGAAGTATTTG
1 TTAATTTTATTATTATTTTAAAAGCATTTG
24443754 TT
1 TT
24443756 TGTTAAGTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.29, C:0.02, G:0.10, T:0.60
Consensus pattern (30 bp):
TTAATTTTATTATTATTTTAAAAGCATTTG
Found at i:24445405 original size:74 final size:74
Alignment explanation
Indices: 24445322--24445473 Score: 286
Period size: 74 Copynumber: 2.1 Consensus size: 74
24445312 AAATATAGAT
* *
24445322 AAAAGAATAACACAACTTGATATGATCACAGATGGAGAATGTCCAAATATAGAAACTTAAATTAA
1 AAAAGAATAACACAACTTGATATGATCAAAGATGGAGAATGTCCAAATATAAAAACTTAAATTAA
24445387 AGAATAAAA
66 AGAATAAAA
24445396 AAAAGAATAACACAACTTGATATGATCAAAGATGGAGAATGTCCAAATATAAAAACTTAAATTAA
1 AAAAGAATAACACAACTTGATATGATCAAAGATGGAGAATGTCCAAATATAAAAACTTAAATTAA
24445461 AGAATAAAA
66 AGAATAAAA
24445470 AAAA
1 AAAA
24445474 AAGGAGAGGA
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
74 76 1.00
ACGTcount: A:0.57, C:0.10, G:0.12, T:0.21
Consensus pattern (74 bp):
AAAAGAATAACACAACTTGATATGATCAAAGATGGAGAATGTCCAAATATAAAAACTTAAATTAA
AGAATAAAA
Found at i:24448069 original size:15 final size:15
Alignment explanation
Indices: 24448049--24448095 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
24448039 TTAAGCCTTC
24448049 TACTATATTATATAA
1 TACTATATTATATAA
* *
24448064 TACTATATCATATCA
1 TACTATATTATATAA
*
24448079 TA-TATAATATATTAA
1 TACTATATTATA-TAA
24448094 TA
1 TA
24448096 GTTTACATAC
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
14 7 0.27
15 19 0.73
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.45
Consensus pattern (15 bp):
TACTATATTATATAA
Found at i:24448263 original size:6 final size:6
Alignment explanation
Indices: 24448254--24448287 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
24448244 CCAATACCAA
24448254 CCAAAC CCAAAC CCAAAC CCAAAC CCAAAC CCAA
1 CCAAAC CCAAAC CCAAAC CCAAAC CCAAAC CCAA
24448288 GTATTATTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (6 bp):
CCAAAC
Found at i:24448549 original size:8 final size:8
Alignment explanation
Indices: 24448536--24448585 Score: 50
Period size: 8 Copynumber: 6.5 Consensus size: 8
24448526 ATAACACTAT
24448536 TTATTATA
1 TTATTATA
*
24448544 TTATTAAA
1 TTATTATA
*
24448552 TTAATATA
1 TTATTATA
* *
24448560 TTATCACA
1 TTATTATA
24448568 TTA-TATA
1 TTATTATA
24448575 TT-TTATA
1 TTATTATA
24448582 TTAT
1 TTAT
24448586 CTTTAAATTT
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
7 10 0.31
8 22 0.69
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (8 bp):
TTATTATA
Found at i:24450520 original size:40 final size:40
Alignment explanation
Indices: 24450476--24450556 Score: 144
Period size: 40 Copynumber: 2.0 Consensus size: 40
24450466 GGGTAGAAAG
* *
24450476 TAAGTTAGACCATGGTTGGTTTGTGGTGATTTTAATGAGA
1 TAAGTTACACCATAGTTGGTTTGTGGTGATTTTAATGAGA
24450516 TAAGTTACACCATAGTTGGTTTGTGGTGATTTTAATGAGA
1 TAAGTTACACCATAGTTGGTTTGTGGTGATTTTAATGAGA
24450556 T
1 T
24450557 TTTATTTTCT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.26, C:0.06, G:0.27, T:0.41
Consensus pattern (40 bp):
TAAGTTACACCATAGTTGGTTTGTGGTGATTTTAATGAGA
Found at i:24464406 original size:46 final size:45
Alignment explanation
Indices: 24464356--24464475 Score: 140
Period size: 46 Copynumber: 2.6 Consensus size: 45
24464346 GATGAGAGCT
*
24464356 AGTGTAAGACATGT-TAGGGACATGCATCGACCT-CGAGATGTAAGCC
1 AGTGTAAGACATGTCTAGGGACATGAATCG-CCTACGAGATGT--GCC
* *
24464402 AGTGTAAGACATGTCTA-GGACATGAATCGGCTACGAGATGTGTC
1 AGTGTAAGACATGTCTAGGGACATGAATCGCCTACGAGATGTGCC
24464446 AGTGTAAGACCATGTCT-GGGACATTGAATC
1 AGTGTAAGA-CATGTCTAGGGACA-TGAATC
24464476 AGCACGAATA
Statistics
Matches: 66, Mismatches: 3, Indels: 10
0.84 0.04 0.13
Matches are distributed among these distances:
44 11 0.17
45 14 0.21
46 39 0.59
47 2 0.03
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.24
Consensus pattern (45 bp):
AGTGTAAGACATGTCTAGGGACATGAATCGCCTACGAGATGTGCC
Found at i:24475127 original size:93 final size:93
Alignment explanation
Indices: 24475015--24475185 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
24475005 GCCCCTAAGT
* *
24475015 GAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAG-TTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
24475079 ACGAGTTCGGATGCCTAGTTACATTTCAC
65 ACGAGTTCGGATGCCTAGTTACATTTCAC
*
24475108 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
24475173 CGAGTTCGGATGC
66 CGAGTTCGGATGC
24475186 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:24475182 original size:46 final size:46
Alignment explanation
Indices: 24475010--24475182 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
24475000 AACCCGCCCC
* * *
24475010 TAAGTGAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAG-TTCGGACATTTGCATCCA
* * *
24475056 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
24475104 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
24475149 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
24475183 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 13, Indels: 16
0.79 0.10 0.12
Matches are distributed among these distances:
43 6 0.06
44 1 0.01
45 4 0.04
46 59 0.56
47 29 0.27
48 2 0.02
49 1 0.01
50 4 0.04
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:24475628 original size:29 final size:29
Alignment explanation
Indices: 24475596--24475652 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
24475586 CATTTAATAC
24475596 AAACTTTGGAAAAATTACACTTTTGCCCT
1 AAACTTTGGAAAAATTACACTTTTGCCCT
* * *
24475625 AAACTTTTGCATAATTACACTTTTGCCC
1 AAACTTTGGAAAAATTACACTTTTGCCC
24475653 CTAGGCTCGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.32, C:0.23, G:0.09, T:0.37
Consensus pattern (29 bp):
AAACTTTGGAAAAATTACACTTTTGCCCT
Found at i:24482662 original size:92 final size:92
Alignment explanation
Indices: 24482551--24482719 Score: 311
Period size: 92 Copynumber: 1.8 Consensus size: 92
24482541 GCCCCTAAGT
* *
24482551 GAACTCGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
24482616 GAGTTCGGATGCCTAGTTACATTTCAC
66 GAGTTCGGATGCCTAGTTACATTTCAC
*
24482643 GAACTCGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
24482708 GAGTTCGGATGC
66 GAGTTCGGATGC
24482720 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
92 74 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (92 bp):
GAACTCGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATTTCAC
Found at i:24482716 original size:46 final size:45
Alignment explanation
Indices: 24482546--24482716 Score: 188
Period size: 46 Copynumber: 3.7 Consensus size: 45
24482536 AACCCGCCCC
* * *
24482546 TAAGTGAACTCGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
24482591 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTC-GACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
24482639 TCA-CGAACTCGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGACTCAACTCAACGAGTTCGGACATTCGCATCCA
24482683 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTC-GACTCAACTCAACGAGTTCGGA
24482717 TGCTCAACCA
Statistics
Matches: 104, Mismatches: 11, Indels: 21
0.76 0.08 0.15
Matches are distributed among these distances:
41 2 0.02
42 4 0.04
43 1 0.01
44 2 0.02
45 17 0.16
46 64 0.62
47 6 0.06
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (45 bp):
TAAGTGAACTCGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:24490923 original size:39 final size:38
Alignment explanation
Indices: 24490861--24491025 Score: 135
Period size: 39 Copynumber: 4.3 Consensus size: 38
24490851 GCTCCTCGTT
* *
24490861 CAAAT-CCTTCGGGA-TATAGCCCGGTTTTAGTAACTCA
1 CAAATGCCTTCGGGACT-TAACCCGGATTTAGTAACTCA
* *
24490898 CACAATGCCTTCGGGACTTAACCCGGATTTAATAACTCG
1 CA-AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCA
* *
24490937 CAGATGCCTTCGGGACTT-ACGC-GATTTAGT-ACTTGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC-T-CA
* * * * *
24490974 CAAAGGCCTGTCGGGGCTTAA-CCGGATTTTGTATCTCG
1 CAAATGCCT-TCGGGACTTAACCCGGATTTAGTAACTCA
24491012 CACAATGCCTTCGG
1 CA-AATGCCTTCGG
24491026 ATCTTAGTCC
Statistics
Matches: 102, Mismatches: 16, Indels: 19
0.74 0.12 0.14
Matches are distributed among these distances:
35 2 0.02
36 8 0.08
37 13 0.13
38 34 0.33
39 43 0.42
40 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (38 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCA
Found at i:24498783 original size:39 final size:40
Alignment explanation
Indices: 24498738--24498962 Score: 226
Period size: 40 Copynumber: 5.7 Consensus size: 40
24498728 GCTCCTCGTT
* * *
24498738 CAAATGCCTTCGGGA-TATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACT-TAACCCGGATTTAGTAACTCGCA
* *
24498778 C-AATGCCTTCGAGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
24498817 CGAATGCCTTCGGGACTTAACCCGGATTTAGTACCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
24498857 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
24498897 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
24498938 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
24498963 CAGCATTCAA
Statistics
Matches: 156, Mismatches: 22, Indels: 14
0.81 0.11 0.07
Matches are distributed among these distances:
39 37 0.24
40 104 0.67
41 15 0.10
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Done.