Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 68 of 373
Found at i:20697584 original size:98 final size:97
Alignment explanation
Indices: 20697410--20697638 Score: 277
Period size: 98 Copynumber: 2.4 Consensus size: 97
20697400 GTTATATGTT
* * * * * *
20697410 AGCCAATGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTGTAAGAGCTAGTGTAAGACCCT
1 AGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATCGTTGTAAGAGCCAGTGTAACACCAT
*
20697475 ATTAGGGACATGGCATCGGCACCGATATATG-AG
66 ATTAGGAACATGGCATCGGCACCG-T-TATGTAG
* *
20697508 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATGT-A-AGCCAGTGTAACACC
1 AGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATCG-T-TGTAAGAGCCAGTGTAACACC
* * **
20697571 ATGTTTGGAACATGGCATCGGCATTGTTATGTAG
64 ATATTAGGAACATGGCATCGGCACCGTTATGTAG
20697605 -GCCAGTGTAAGACCATGTTTGGGACATGGCATCG
1 AGCCAGTGTAAGACCATGTTTGGGACATGGCATCG
20697639 ACATTTTACC
Statistics
Matches: 114, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
96 37 0.32
97 3 0.03
98 69 0.61
99 2 0.02
100 3 0.03
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (97 bp):
AGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATCGTTGTAAGAGCCAGTGTAACACCAT
ATTAGGAACATGGCATCGGCACCGTTATGTAG
Found at i:20699436 original size:28 final size:28
Alignment explanation
Indices: 20699399--20699504 Score: 110
Period size: 28 Copynumber: 3.8 Consensus size: 28
20699389 TTTGGCCTCT
* *
20699399 TTAGGCCC-AATCTCATTCATATAGCCTA
1 TTAGGCCCAAATCACATTCATAT-GCCCA
20699427 TTAGGCCCAAATCACATTCATATGACCCA
1 TTAGGCCCAAATCACATTCATATG-CCCA
* *
20699456 TCA-GCCCCAATCACATTCATATGGCCCA
1 TTAGGCCCAAATCACATTCATAT-GCCCA
* *
20699484 -TCGGCCCTAATCACATTCATA
1 TTAGGCCCAAATCACATTCATA
20699505 GTCATGCAAT
Statistics
Matches: 67, Mismatches: 7, Indels: 8
0.82 0.09 0.10
Matches are distributed among these distances:
28 48 0.72
29 19 0.28
ACGTcount: A:0.30, C:0.33, G:0.10, T:0.26
Consensus pattern (28 bp):
TTAGGCCCAAATCACATTCATATGCCCA
Found at i:20717387 original size:3 final size:3
Alignment explanation
Indices: 20717374--20717424 Score: 93
Period size: 3 Copynumber: 16.7 Consensus size: 3
20717364 TTGGAACAAG
20717374 TAA TAAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
20717420 TAA TA
1 TAA TA
20717425 GCAGCTACCA
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 44 0.94
4 3 0.06
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:20720297 original size:31 final size:31
Alignment explanation
Indices: 20720252--20720317 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
20720242 AATCCTCCCT
* *
20720252 GCATTAAATTCAACCAAAAACAGCAAATATA
1 GCATGAAATCCAACCAAAAACAGCAAATATA
*
20720283 GCATGAAATCCAACCAAAAACAGTAAATATA
1 GCATGAAATCCAACCAAAAACAGCAAATATA
20720314 GCAT
1 GCAT
20720318 AAAAAATATA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.53, C:0.20, G:0.09, T:0.18
Consensus pattern (31 bp):
GCATGAAATCCAACCAAAAACAGCAAATATA
Found at i:20721227 original size:17 final size:19
Alignment explanation
Indices: 20721190--20721227 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
20721180 TACAATAAAG
20721190 TAGTAAAAATATTATTTAA
1 TAGTAAAAATATTATTTAA
*
20721209 TAGTAGAAAT-TTA-TTAA
1 TAGTAAAAATATTATTTAA
20721226 TA
1 TA
20721228 TTTGAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 3 0.17
19 9 0.50
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (19 bp):
TAGTAAAAATATTATTTAA
Found at i:20725976 original size:9 final size:9
Alignment explanation
Indices: 20725962--20726031 Score: 65
Period size: 9 Copynumber: 8.0 Consensus size: 9
20725952 TAAGTATAAT
20725962 TAAGTTATG
1 TAAGTTATG
20725971 TAAGTTATG
1 TAAGTTATG
* * *
20725980 ATATGATATA
1 -TAAGTTATG
*
20725990 T-ATTTATG
1 TAAGTTATG
20725998 T-A-TTATG
1 TAAGTTATG
20726005 TAAGTTATG
1 TAAGTTATG
*
20726014 TAAATTATG
1 TAAGTTATG
20726023 TAAGTTATG
1 TAAGTTATG
20726032 CATTATGTAC
Statistics
Matches: 49, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
7 6 0.12
8 6 0.12
9 31 0.63
10 6 0.12
ACGTcount: A:0.36, C:0.00, G:0.17, T:0.47
Consensus pattern (9 bp):
TAAGTTATG
Found at i:20726031 original size:34 final size:34
Alignment explanation
Indices: 20725966--20726040 Score: 89
Period size: 34 Copynumber: 2.2 Consensus size: 34
20725956 TATAATTAAG
* * *
20725966 TTATGTAAGTTATGATATGATATATATTTATGTA
1 TTATGTAAGTTATGAAATGATATATAGTTATGCA
* *
20726000 TTATGTAAGTTATGTAAATTATGTA-AGTTATGCA
1 TTATGTAAGTTATG-AAATGATATATAGTTATGCA
20726034 TTATGTA
1 TTATGTA
20726041 CGACATAAAG
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
34 28 0.80
35 7 0.20
ACGTcount: A:0.35, C:0.01, G:0.16, T:0.48
Consensus pattern (34 bp):
TTATGTAAGTTATGAAATGATATATAGTTATGCA
Found at i:20726180 original size:9 final size:9
Alignment explanation
Indices: 20726166--20726324 Score: 91
Period size: 9 Copynumber: 17.7 Consensus size: 9
20726156 TGTGTTAATT
20726166 TTATGTAAA
1 TTATGTAAA
*
20726175 TTATGTAAG
1 TTATGTAAA
20726184 TTATG-AAA
1 TTATGTAAA
*
20726192 TTTGATCTTTAAA
1 -TT-A--TGTAAA
*
20726205 TTATGTAAG
1 TTATGTAAA
*
20726214 TCATGT--A
1 TTATGTAAA
*
20726221 TTATGTAAG
1 TTATGTAAA
20726230 TTATGT--A
1 TTATGTAAA
*
20726237 TTATGTAAG
1 TTATGTAAA
20726246 TTATGTAAA
1 TTATGTAAA
*
20726255 TTATGTAAG
1 TTATGTAAA
*
20726264 TTGTG-AAA
1 TTATGTAAA
*
20726272 TTCGAACTTTAAA
1 TT---A-TGTAAA
*
20726285 TTATGTAAG
1 TTATGTAAA
20726294 TTATGT--A
1 TTATGTAAA
*
20726301 TCATGTAAA
1 TTATGTAAA
20726310 TTATGTAAA
1 TTATGTAAA
20726319 TTATGT
1 TTATGT
20726325 GAGTTGCTGG
Statistics
Matches: 112, Mismatches: 22, Indels: 32
0.67 0.13 0.19
Matches are distributed among these distances:
7 16 0.14
8 6 0.05
9 75 0.67
10 2 0.02
11 1 0.01
12 4 0.04
13 8 0.07
ACGTcount: A:0.36, C:0.03, G:0.16, T:0.45
Consensus pattern (9 bp):
TTATGTAAA
Found at i:20726225 original size:16 final size:16
Alignment explanation
Indices: 20726204--20726265 Score: 97
Period size: 16 Copynumber: 3.8 Consensus size: 16
20726194 TGATCTTTAA
*
20726204 ATTATGTAAGTCATGT
1 ATTATGTAAGTTATGT
20726220 ATTATGTAAGTTATGT
1 ATTATGTAAGTTATGT
20726236 ATTATGTAAGTTATGT
1 ATTATGTAAGTTATGT
20726252 AAATTATGTAAGTT
1 --ATTATGTAAGTT
20726266 GTGAAATTCG
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
16 31 0.72
18 12 0.28
ACGTcount: A:0.34, C:0.02, G:0.18, T:0.47
Consensus pattern (16 bp):
ATTATGTAAGTTATGT
Found at i:20726300 original size:80 final size:80
Alignment explanation
Indices: 20726166--20726316 Score: 248
Period size: 80 Copynumber: 1.9 Consensus size: 80
20726156 TGTGTTAATT
* * * *
20726166 TTATGTAAATTATGTAAGTTATGAAATTTGATCTTTAAATTATGTAAGTCATGTATTATGTAAGT
1 TTATGTAAATTATGTAAGTTATGAAATTCGAACTTTAAATTATGTAAGTCATGTATCATGTAAAT
20726231 TATGTATTATGTAAG
66 TATGTATTATGTAAG
* *
20726246 TTATGTAAATTATGTAAGTTGTGAAATTCGAACTTTAAATTATGTAAGTTATGTATCATGTAAAT
1 TTATGTAAATTATGTAAGTTATGAAATTCGAACTTTAAATTATGTAAGTCATGTATCATGTAAAT
20726311 TATGTA
66 TATGTA
20726317 AATTATGTGA
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
80 65 1.00
ACGTcount: A:0.36, C:0.03, G:0.16, T:0.45
Consensus pattern (80 bp):
TTATGTAAATTATGTAAGTTATGAAATTCGAACTTTAAATTATGTAAGTCATGTATCATGTAAAT
TATGTATTATGTAAG
Found at i:20726315 original size:25 final size:26
Alignment explanation
Indices: 20726201--20726324 Score: 94
Period size: 25 Copynumber: 4.7 Consensus size: 26
20726191 ATTTGATCTT
* *
20726201 TAAATTATGTAAGTCATGTA-TTATG
1 TAAATTATGTAAGTTATGTAGTCATG
* *
20726226 TAAGTTATGT-A-TTATGTAAGTTATG
1 TAAATTATGTAAGTTATGT-AGTCATG
* * * *
20726251 TAAATTATGTAAGTTGTGAAATTCGAACTT
1 TAAATTATGTAAGTTATG-TAGTC--A-TG
20726281 TAAATTATGTAAGTTATGTA-TCATG
1 TAAATTATGTAAGTTATGTAGTCATG
*
20726306 TAAATTATGTAAATTATGT
1 TAAATTATGTAAGTTATGT
20726325 GAGTTGCTGG
Statistics
Matches: 79, Mismatches: 12, Indels: 16
0.74 0.11 0.15
Matches are distributed among these distances:
23 5 0.06
24 2 0.03
25 42 0.53
26 2 0.03
27 6 0.08
28 2 0.03
29 2 0.03
30 18 0.23
ACGTcount: A:0.36, C:0.03, G:0.16, T:0.44
Consensus pattern (26 bp):
TAAATTATGTAAGTTATGTAGTCATG
Found at i:20726544 original size:98 final size:99
Alignment explanation
Indices: 20726432--20726696 Score: 498
Period size: 98 Copynumber: 2.7 Consensus size: 99
20726422 AATAAAATAG
20726432 AATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATGTTAAAATAAAATAAAAT
1 AATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATGTTAAAATAAAATAAAAT
20726497 ATTGAAATTATTTTTCGTGATTC-AAAAAAATGA
66 ATTGAAATTATTTTTCGTGATTCAAAAAAAATGA
*
20726530 AATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATGTTAAAATAAAATAAATT
1 AATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATGTTAAAATAAAATAAAAT
20726595 ATTGAAATTATTTTTCGTGATTCAAAAAAAATGA
66 ATTGAAATTATTTTTCGTGATTCAAAAAAAATGA
20726629 AATATTTAAAATAAAACTTTAAATA-AGATTTAATTTAATTAGGTAATGTTAAAATAAAATAAAA
1 AATATTTAAAATAAAACTTTAAATACA-ATTTAATTTAATTAGGTAATGTTAAAATAAAATAAAA
20726693 TATT
65 TATT
20726697 TAAAATAAAA
Statistics
Matches: 163, Mismatches: 2, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
98 88 0.54
99 75 0.46
ACGTcount: A:0.52, C:0.03, G:0.07, T:0.38
Consensus pattern (99 bp):
AATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATGTTAAAATAAAATAAAAT
ATTGAAATTATTTTTCGTGATTCAAAAAAAATGA
Found at i:20726694 original size:62 final size:60
Alignment explanation
Indices: 20726618--20726810 Score: 202
Period size: 62 Copynumber: 3.2 Consensus size: 60
20726608 TTCGTGATTC
*
20726618 AAAAAAAATGAAATATTTAAAATAAAACTTTAAATA-AGATTTAATTTAATTAGGTAATGTT
1 AAAAAAAATAAAATATTTAAAATAAAACTTTAAATATA-ATTTAATTTAATTAGGTAAT-TT
* * * * *
20726679 AAAATAAAATAAAATATTTAAAATAAAA--TAAAATATTAAAATT-ATTT--TT-CGTGATTC
1 AAAA-AAAATAAAATATTTAAAATAAAACTTTAAATA-T-AATTTAATTTAATTAGGTAATTT
* *
20726736 AAAAAAAATAAAATATTTAAAATGAAACTTTAAATATAATTTAATTTAATTAGATAATTT
1 AAAAAAAATAAAATATTTAAAATAAAACTTTAAATATAATTTAATTTAATTAGGTAATTT
20726796 GAAAATAAAATAAAA
1 -AAAA-AAAATAAAA
20726811 GAGAACAAAA
Statistics
Matches: 107, Mismatches: 13, Indels: 23
0.75 0.09 0.16
Matches are distributed among these distances:
56 26 0.24
57 10 0.09
58 10 0.09
59 4 0.04
60 10 0.09
61 12 0.11
62 34 0.32
63 1 0.01
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.35
Consensus pattern (60 bp):
AAAAAAAATAAAATATTTAAAATAAAACTTTAAATATAATTTAATTTAATTAGGTAATTT
Found at i:20726719 original size:18 final size:19
Alignment explanation
Indices: 20726677--20726720 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
20726667 TTAGGTAATG
20726677 TTAAAATAAAATAAAATAT
1 TTAAAATAAAATAAAATAT
20726696 TTAAAATAAAATAAAATA-
1 TTAAAATAAAATAAAATAT
20726714 TTAAAAT
1 TTAAAAT
20726721 TATTTTTCGT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 7 0.28
19 18 0.72
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (19 bp):
TTAAAATAAAATAAAATAT
Found at i:20726726 original size:118 final size:118
Alignment explanation
Indices: 20726578--20726810 Score: 389
Period size: 118 Copynumber: 2.0 Consensus size: 118
20726568 TTAGGTAATG
* * *
20726578 TTAAAATAAAATAAATTATTGAAATTATTTTTCGTGATTCAAAAAAAATGAAATATTTAAAATAA
1 TTAAAATAAAATAAAATATTAAAATTATTTTTCGTGATTCAAAAAAAATAAAATATTTAAAATAA
*
20726643 AACTTTAAATA-AGATTTAATTTAATTAGGTAATGTT-AAAATAAAATAAAATAT
66 AACTTTAAATATA-ATTTAATTTAATTAGATAAT-TTGAAAATAAAATAAAATAT
*
20726696 TTAAAATAAAATAAAATATTAAAATTATTTTTCGTGATTCAAAAAAAATAAAATATTTAAAATGA
1 TTAAAATAAAATAAAATATTAAAATTATTTTTCGTGATTCAAAAAAAATAAAATATTTAAAATAA
20726761 AACTTTAAATATAATTTAATTTAATTAGATAATTTGAAAATAAAATAAAA
66 AACTTTAAATATAATTTAATTTAATTAGATAATTTGAAAATAAAATAAAA
20726811 GAGAACAAAA
Statistics
Matches: 108, Mismatches: 5, Indels: 4
0.92 0.04 0.03
Matches are distributed among these distances:
117 2 0.02
118 105 0.97
119 1 0.01
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.37
Consensus pattern (118 bp):
TTAAAATAAAATAAAATATTAAAATTATTTTTCGTGATTCAAAAAAAATAAAATATTTAAAATAA
AACTTTAAATATAATTTAATTTAATTAGATAATTTGAAAATAAAATAAAATAT
Found at i:20726747 original size:56 final size:56
Alignment explanation
Indices: 20726578--20726758 Score: 195
Period size: 56 Copynumber: 3.1 Consensus size: 56
20726568 TTAGGTAATG
* * *
20726578 TTAAAATAAAATAAATTATTGAAATTATTTTTCGTGATTCAAAAAAAATGAAATAT
1 TTAAAATAAAATAAAATATTAAAATTATTTTTCGTGATTCAAAAAAAATAAAATAT
* * * * * *
20726634 TTAAAATAAAACTTTAAATA--AGATTTAATTTAATTAGGTAATGTTAAAATAAAATAAAATAT
1 TTAAAATAAAA--TAAAATATTAAAATT-ATTT--TT-CGTGAT-TCAAAA-AAAATAAAATAT
20726696 TTAAAATAAAATAAAATATTAAAATTATTTTTCGTGATTCAAAAAAAATAAAATAT
1 TTAAAATAAAATAAAATATTAAAATTATTTTTCGTGATTCAAAAAAAATAAAATAT
20726752 TTAAAAT
1 TTAAAAT
20726759 GAAACTTTAA
Statistics
Matches: 100, Mismatches: 15, Indels: 20
0.74 0.11 0.15
Matches are distributed among these distances:
56 33 0.33
57 9 0.09
58 9 0.09
59 4 0.04
60 10 0.10
61 9 0.09
62 26 0.26
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.37
Consensus pattern (56 bp):
TTAAAATAAAATAAAATATTAAAATTATTTTTCGTGATTCAAAAAAAATAAAATAT
Found at i:20732044 original size:15 final size:15
Alignment explanation
Indices: 20732021--20732052 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
20732011 AAATAATAAT
20732021 TTATATATATTTATC
1 TTATATATATTTATC
*
20732036 TTATTTATATTTATC
1 TTATATATATTTATC
20732051 TT
1 TT
20732053 CTAAATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (15 bp):
TTATATATATTTATC
Found at i:20732965 original size:41 final size:41
Alignment explanation
Indices: 20732920--20733073 Score: 120
Period size: 41 Copynumber: 3.8 Consensus size: 41
20732910 ACGTTACCCA
20732920 TTGCGGCGTTTTAACAAAAACGCAGCTAATGCTTGAACTTT
1 TTGCGGCGTTTTAACAAAAACGCAGCTAATGCTTGAACTTT
* ** * * * * * * *
20732961 TTGCGGCGTTTTTAGGAAACCGCTGTTAATGCGT-CACCTA
1 TTGCGGCGTTTTAACAAAAACGCAGCTAATGCTTGAACTTT
* *
20733001 TTGCGGCGTTTTTGA-AAAAATGCCA-CTAATGCTTGAA-TTT
1 TTGCGGCG-TTTTAACAAAAACG-CAGCTAATGCTTGAACTTT
*
20733041 GTTGCGGCGTTTTACCAAAAACG-ACGCTAATGC
1 -TTGCGGCGTTTTAACAAAAACGCA-GCTAATGC
20733074 CTCAATAGCT
Statistics
Matches: 83, Mismatches: 23, Indels: 14
0.69 0.19 0.12
Matches are distributed among these distances:
39 1 0.01
40 27 0.33
41 55 0.66
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (41 bp):
TTGCGGCGTTTTAACAAAAACGCAGCTAATGCTTGAACTTT
Found at i:20733020 original size:81 final size:81
Alignment explanation
Indices: 20732881--20733053 Score: 217
Period size: 81 Copynumber: 2.1 Consensus size: 81
20732871 CGTACACTTC
*
20732881 TGCGGCGTTTTTAGAAAACCACCGCTAATACGTTACCCATTGCGGCGTTTTAACAAAAACG-CAG
1 TGCGGCGTTTTTAGAAAACCACCGCTAATACGTCACCCATTGCGGCGTTTTAACAAAAACGCCA-
20732945 CTAATGCTTGAACTTT-T
65 CTAATGCTTGAA-TTTGT
* * * * * * * *
20732962 TGCGGCGTTTTTAGGAAACCGCTGTTAATGCGTCACCTATTGCGGCGTTTTTGA-AAAAATGCCA
1 TGCGGCGTTTTTAGAAAACCACCGCTAATACGTCACCCATTGCGGCG-TTTTAACAAAAACGCCA
20733026 CTAATGCTTGAATTTGT
65 CTAATGCTTGAATTTGT
20733043 TGCGGCGTTTT
1 TGCGGCGTTTT
20733054 ACCAAAAACG
Statistics
Matches: 80, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
80 3 0.04
81 70 0.88
82 7 0.09
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.33
Consensus pattern (81 bp):
TGCGGCGTTTTTAGAAAACCACCGCTAATACGTCACCCATTGCGGCGTTTTAACAAAAACGCCAC
TAATGCTTGAATTTGT
Found at i:20733072 original size:81 final size:80
Alignment explanation
Indices: 20732881--20733073 Score: 189
Period size: 81 Copynumber: 2.4 Consensus size: 80
20732871 CGTACACTTC
* * *
20732881 TGCGGCGTTTTTAGAAAACCAC-CGCTAATACGTTACCCATTGCGGCGTTTTAACAAAAACGCAG
1 TGCGGCGTTTTTACAAAA--ACGCGCTAATGCGTCACCCATTGCGGCGTTTTAACAAAAACGCAG
20732945 CTAATGCTTGAACTTTT
64 CTAATGCTTGAACTTTT
** * * * * *
20732962 TGCGGCGTTTTTAGGAAACCGCTGTTAATGCGTCACCTATTGCGGCGTTTTTGA-AAAAATGCCA
1 TGCGGCGTTTTTACAAAAACGC-GCTAATGCGTCACCCATTGCGGCG-TTTTAACAAAAACG-CA
20733026 -CTAATGCTTGAA-TTTGT
63 GCTAATGCTTGAACTTT-T
20733043 TGCGGCG-TTTTACCAAAAACGACGCTAATGC
1 TGCGGCGTTTTTA-CAAAAACG-CGCTAATGC
20733074 CTCAATAGCT
Statistics
Matches: 93, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
79 1 0.01
80 9 0.10
81 75 0.81
82 8 0.09
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (80 bp):
TGCGGCGTTTTTACAAAAACGCGCTAATGCGTCACCCATTGCGGCGTTTTAACAAAAACGCAGCT
AATGCTTGAACTTTT
Found at i:20738369 original size:16 final size:16
Alignment explanation
Indices: 20738350--20738398 Score: 61
Period size: 16 Copynumber: 3.3 Consensus size: 16
20738340 ATTAAAATAC
20738350 TTTTGTTATAAATTAA
1 TTTTGTTATAAATTAA
*
20738366 TTTTG--A-AAA-TAC
1 TTTTGTTATAAATTAA
20738378 TTTTGTTATAAATTAA
1 TTTTGTTATAAATTAA
20738394 TTTTG
1 TTTTG
20738399 AAAACACATT
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
12 7 0.26
13 3 0.11
14 2 0.07
15 3 0.11
16 12 0.44
ACGTcount: A:0.35, C:0.02, G:0.08, T:0.55
Consensus pattern (16 bp):
TTTTGTTATAAATTAA
Found at i:20738375 original size:28 final size:28
Alignment explanation
Indices: 20738343--20738402 Score: 120
Period size: 28 Copynumber: 2.1 Consensus size: 28
20738333 CCTTTTTATT
20738343 AAAATACTTTTGTTATAAATTAATTTTG
1 AAAATACTTTTGTTATAAATTAATTTTG
20738371 AAAATACTTTTGTTATAAATTAATTTTG
1 AAAATACTTTTGTTATAAATTAATTTTG
20738399 AAAA
1 AAAA
20738403 CACATTTACA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.47
Consensus pattern (28 bp):
AAAATACTTTTGTTATAAATTAATTTTG
Found at i:20739053 original size:22 final size:21
Alignment explanation
Indices: 20739005--20739056 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
20738995 TGGACAAGCC
20739005 ACCACATAATTGCCAAAAACG
1 ACCACATAATTGCCAAAAACG
* *
20739026 ATCACATAATTG-CAGATAAACT
1 ACCACATAATTGCCA-A-AAACG
20739048 ACCACATAA
1 ACCACATAA
20739057 CTTCCACATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 2 0.08
21 12 0.46
22 12 0.46
ACGTcount: A:0.48, C:0.25, G:0.08, T:0.19
Consensus pattern (21 bp):
ACCACATAATTGCCAAAAACG
Found at i:20741133 original size:27 final size:28
Alignment explanation
Indices: 20741049--20741146 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
20741039 CATGAGATTG
* * * *
20741049 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
20741078 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
20741106 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
20741133 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
20741147 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:20741157 original size:27 final size:27
Alignment explanation
Indices: 20741077--20741159 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
20741067 TAAATTGTAC
* *
20741077 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
20741105 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
20741132 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
20741159 A
1 A
20741160 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:20741160 original size:29 final size:27
Alignment explanation
Indices: 20741049--20741160 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
20741039 CATGAGATTG
** * *
20741049 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
20741078 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
20741106 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
20741133 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
20741161 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:20748442 original size:27 final size:28
Alignment explanation
Indices: 20748358--20748455 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
20748348 CATGAGATTG
* * * *
20748358 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
20748387 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
20748415 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
20748442 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
20748456 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:20748466 original size:27 final size:27
Alignment explanation
Indices: 20748386--20748468 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
20748376 TAAATTGTAC
* *
20748386 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
20748414 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
20748441 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
20748468 A
1 A
20748469 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:20748469 original size:29 final size:27
Alignment explanation
Indices: 20748358--20748469 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
20748348 CATGAGATTG
** * *
20748358 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
20748387 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
20748415 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
20748442 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
20748470 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:20754019 original size:22 final size:22
Alignment explanation
Indices: 20753994--20754038 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
20753984 CCTGTACAAG
20753994 TTCGTAATACTTACATGCTCTT
1 TTCGTAATACTTACATGCTCTT
20754016 TTCGTAATACTTACATGCTCTT
1 TTCGTAATACTTACATGCTCTT
20754038 T
1 T
20754039 ATCTTTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.22, C:0.22, G:0.09, T:0.47
Consensus pattern (22 bp):
TTCGTAATACTTACATGCTCTT
Found at i:20757849 original size:40 final size:40
Alignment explanation
Indices: 20757764--20757851 Score: 95
Period size: 40 Copynumber: 2.2 Consensus size: 40
20757754 GACTATGTTC
* * *
20757764 GGCACTAAGTGTACGATTTGAAATAGCTTCGGCTATAAAT
1 GGCACTAACTGTACGAATTGAAATAGCTTCAGCTATAAAT
* * * * **
20757804 AGCACTAACTGTGCGAATTGGAGTAGCTTCAGCTATATGT
1 GGCACTAACTGTACGAATTGAAATAGCTTCAGCTATAAAT
20757844 GGCACTAA
1 GGCACTAA
20757852 AAGTGCAATA
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (40 bp):
GGCACTAACTGTACGAATTGAAATAGCTTCAGCTATAAAT
Found at i:20762728 original size:14 final size:14
Alignment explanation
Indices: 20762709--20762738 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
20762699 AAAACATCTC
20762709 AAAAGCATAAAGAT
1 AAAAGCATAAAGAT
*
20762723 AAAAGCATAGAGAT
1 AAAAGCATAAAGAT
20762737 AA
1 AA
20762739 CAAAACATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.63, C:0.07, G:0.17, T:0.13
Consensus pattern (14 bp):
AAAAGCATAAAGAT
Found at i:20782544 original size:93 final size:93
Alignment explanation
Indices: 20782416--20782586 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
20782406 GCCCCTAAGT
* *
20782416 GAACTTGGACTCAACTCAACGAGCTCAGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAATGAACTCGGACTCAACTCAA
20782481 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
20782509 GAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAATGAACTCGGACTCAACTCAA
20782574 CGAGTTCGGATGC
66 CGAGTTCGGATGC
20782587 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:20782581 original size:46 final size:46
Alignment explanation
Indices: 20782411--20782582 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
20782401 AACCCGCCCC
* * * *
20782411 TAAGTGAACTTGGACTCAACTCAACGAGCTCAGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCATCCA
* *
20782457 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C-A-TTCGCATCCA
* *
20782505 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCATCCA
20782550 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
20782583 ATGCTCAACC
Statistics
Matches: 106, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 3 0.03
46 57 0.54
47 28 0.26
48 3 0.03
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCATCCA
Found at i:20783040 original size:30 final size:30
Alignment explanation
Indices: 20783006--20783063 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
20782996 ATTTAATACG
20783006 AACTTTGGAAAAATTACACTTTTGCCCCCT
1 AACTTTGGAAAAATTACACTTTTGCCCCCT
* * *
20783036 AACTTTTGCATAATTACACTTTTGCCCC
1 AACTTTGGAAAAATTACACTTTTGCCCC
20783064 TAGGCTCGGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.28, C:0.28, G:0.09, T:0.36
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCCT
Found at i:20783944 original size:29 final size:29
Alignment explanation
Indices: 20783906--20783980 Score: 107
Period size: 29 Copynumber: 2.6 Consensus size: 29
20783896 ACCATCGTCG
*
20783906 GTACATAGTACCTGATAATATAATCACC-
1 GTACATAGTACCTGATAAAATAATCACCA
* *
20783934 GATACAAAGTACTTGATAAAATAATCACCA
1 G-TACATAGTACCTGATAAAATAATCACCA
20783964 GTACATAGTACCTGATA
1 GTACATAGTACCTGATA
20783981 CTTTAAACCT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
28 1 0.03
29 38 0.95
30 1 0.03
ACGTcount: A:0.43, C:0.19, G:0.12, T:0.27
Consensus pattern (29 bp):
GTACATAGTACCTGATAAAATAATCACCA
Found at i:20784857 original size:43 final size:42
Alignment explanation
Indices: 20784796--20784886 Score: 101
Period size: 42 Copynumber: 2.1 Consensus size: 42
20784786 GTGTCGCAAG
** *
20784796 CCGTGTGCCAGACCGTGTGTACATTCTATATTGAGTCACACGA
1 CCGTGTGCCAGACCGTGTG-ACAAACTATATTGAGACACACGA
* ** * *
20784839 CCGTGTGCTAGATTGTGTGACAAACTATTTTGAGACACACGG
1 CCGTGTGCCAGACCGTGTGACAAACTATATTGAGACACACGA
20784881 CCGTGT
1 CCGTGT
20784887 CTTATACCAT
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
42 24 0.60
43 16 0.40
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.29
Consensus pattern (42 bp):
CCGTGTGCCAGACCGTGTGACAAACTATATTGAGACACACGA
Found at i:20792714 original size:93 final size:93
Alignment explanation
Indices: 20792587--20792757 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
20792577 CCCATAAGTG
* * *
20792587 AACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
*
20792652 GAGCTCGGATGCCTAGTTACATCTCTCC
66 GAGCTCGAATGCCTAGTTACATCTCTCC
*
20792680 AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
*
20792745 GAGTTCGAATGCC
66 GAGCTCGAATGCC
20792758 GAAATATCCT
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGCTCGAATGCCTAGTTACATCTCTCC
Found at i:20792751 original size:46 final size:45
Alignment explanation
Indices: 20792578--20792747 Score: 191
Period size: 46 Copynumber: 3.7 Consensus size: 45
20792568 TGTAACCCGC
* *
20792578 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GGCATTCGCAT
*
20792624 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG-ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGC-A--T
* *** * *
20792670 ACATCTCTCCAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCAT
20792717 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAG
20792748 TTCGAATGCC
Statistics
Matches: 102, Mismatches: 15, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 60 0.59
47 31 0.30
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCAT
Found at i:20794153 original size:41 final size:41
Alignment explanation
Indices: 20794061--20794155 Score: 102
Period size: 41 Copynumber: 2.3 Consensus size: 41
20794051 GACACGAAGT
* * *
20794061 CTACTAGGCCCAAGGCCAGATGTAATACACAGGCTCGAAGC
1 CTACTAGGCTCAAGGCCAGATGTAATACACAGGATCAAAGC
* * * * *
20794102 ATGCTGGGCTCAAGGCCTA-ATTTAATACACCGGATCAAAGC
1 CTACTAGGCTCAAGGCC-AGATGTAATACACAGGATCAAAGC
20794143 CTACTAGGCTCAA
1 CTACTAGGCTCAA
20794156 AGTCTGATTC
Statistics
Matches: 42, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
41 41 0.98
42 1 0.02
ACGTcount: A:0.32, C:0.27, G:0.22, T:0.19
Consensus pattern (41 bp):
CTACTAGGCTCAAGGCCAGATGTAATACACAGGATCAAAGC
Found at i:20795042 original size:30 final size:30
Alignment explanation
Indices: 20795008--20795113 Score: 176
Period size: 30 Copynumber: 3.5 Consensus size: 30
20794998 GCACACACCT
*
20795008 GTGTGGCCAGCCCGTGGGGATCCTATGGAC
1 GTGTGGCCAGCCCGTGGGGATCCTATGGCC
*
20795038 GTGTGGCCAACCCGTGGGGATCCTATGGCC
1 GTGTGGCCAGCCCGTGGGGATCCTATGGCC
* *
20795068 GTGGGGCCAGCCCGTGGAGATCCTATGGCC
1 GTGTGGCCAGCCCGTGGGGATCCTATGGCC
20795098 GTGTGGCCAGCCCGTG
1 GTGTGGCCAGCCCGTG
20795114 TGGAATTCTG
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 70 1.00
ACGTcount: A:0.12, C:0.29, G:0.40, T:0.19
Consensus pattern (30 bp):
GTGTGGCCAGCCCGTGGGGATCCTATGGCC
Found at i:20795071 original size:17 final size:17
Alignment explanation
Indices: 20795049--20795100 Score: 58
Period size: 17 Copynumber: 3.3 Consensus size: 17
20795039 TGTGGCCAAC
20795049 CCGTGGGGATCCTATGG
1 CCGTGGGGATCCTATGG
*
20795066 CCGTGGGG--CC-A-GC
1 CCGTGGGGATCCTATGG
*
20795079 CCGTGGAGATCCTATGG
1 CCGTGGGGATCCTATGG
20795096 CCGTG
1 CCGTG
20795101 TGGCCAGCCC
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
13 8 0.29
14 1 0.04
15 4 0.14
16 1 0.04
17 14 0.50
ACGTcount: A:0.12, C:0.29, G:0.40, T:0.19
Consensus pattern (17 bp):
CCGTGGGGATCCTATGG
Found at i:20796214 original size:33 final size:32
Alignment explanation
Indices: 20796155--20796244 Score: 94
Period size: 33 Copynumber: 2.8 Consensus size: 32
20796145 ACTTGAGGTG
20796155 TACATTTCTTTCCAAGTGGTACACACAAAGTA
1 TACATTTCTTTCCAAGTGGTACACACAAAGTA
* *
20796187 TACATTTCCTTTTCATA-TGGTATACACAAAGTA
1 TACATTT-CTTTCCA-AGTGGTACACACAAAGTA
* **
20796220 TACCTAACCTTTCCAAGT-GTACACA
1 TACAT-TTCTTTCCAAGTGGTACACA
20796245 GAAGGTGTAC
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
32 14 0.30
33 32 0.68
34 1 0.02
ACGTcount: A:0.33, C:0.23, G:0.10, T:0.33
Consensus pattern (32 bp):
TACATTTCTTTCCAAGTGGTACACACAAAGTA
Found at i:20796997 original size:20 final size:21
Alignment explanation
Indices: 20796959--20797000 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
20796949 AAGTGGTTTA
20796959 TCTATCAATAATATTTCATTT
1 TCTATCAATAATATTTCATTT
20796980 TCTATCAA-AA-ACTTTCATTT
1 TCTATCAATAATA-TTTCATTT
20797000 T
1 T
20797001 ACAACATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 1 0.05
20 11 0.55
21 8 0.40
ACGTcount: A:0.33, C:0.17, G:0.00, T:0.50
Consensus pattern (21 bp):
TCTATCAATAATATTTCATTT
Found at i:20803514 original size:32 final size:33
Alignment explanation
Indices: 20803478--20803545 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
20803468 ACTTGAGGTG
20803478 TACATTT-CTTTCCA-AGTGGTACACACAAAGTA
1 TACATTTCCTTTCCATA-TGGTACACACAAAGTA
* *
20803510 TACATTTCCTTTTCATATGGTATACACAAAGTA
1 TACATTTCCTTTCCATATGGTACACACAAAGTA
20803543 TAC
1 TAC
20803546 CTAACCTTTC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
32 7 0.22
33 24 0.75
34 1 0.03
ACGTcount: A:0.34, C:0.21, G:0.10, T:0.35
Consensus pattern (33 bp):
TACATTTCCTTTCCATATGGTACACACAAAGTA
Found at i:20813202 original size:28 final size:28
Alignment explanation
Indices: 20813152--20813234 Score: 87
Period size: 28 Copynumber: 3.0 Consensus size: 28
20813142 CAAAATAGTT
** *
20813152 AAGAATAACCTTTGTGGTGAACTTTAAA
1 AAGAATAACCTTTGTGGCAAACTATAAA
* *
20813180 AAGAATAACCTTTTTGGCAAACTATGAA
1 AAGAATAACCTTTGTGGCAAACTATAAA
* * *
20813208 AGGAAT-GCCTTTGTGGCAAACTCTAAA
1 AAGAATAACCTTTGTGGCAAACTATAAA
20813235 TGGATCTCCT
Statistics
Matches: 45, Mismatches: 10, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
27 17 0.38
28 28 0.62
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (28 bp):
AAGAATAACCTTTGTGGCAAACTATAAA
Found at i:20816281 original size:49 final size:49
Alignment explanation
Indices: 20816212--20816809 Score: 815
Period size: 49 Copynumber: 12.1 Consensus size: 49
20816202 GAAATGATAG
20816212 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
20816261 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
20816308 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGAGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
20816355 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
20816404 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATATGTGA
20816455 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
20816504 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGAGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
20816551 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
20816600 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAAAGTGTA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA--T--ATGTG-A
* *
20816654 TATATGAG-ATAA-GGCCTAATGGTCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TA-A-G-GCCTAATGGCC----GAT-G-T--GATGAATGTGAAAGTGTATATATATGTGA
*
20816712 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
* * * * * * * *
20816759 CAGGGCCGAGTGCCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
20816806 TAAG
1 TAAG
20816810 TCCCGAAGGG
Statistics
Matches: 501, Mismatches: 22, Indels: 54
0.87 0.04 0.09
Matches are distributed among these distances:
47 185 0.37
48 1 0.00
49 201 0.40
51 51 0.10
52 1 0.00
53 6 0.01
54 3 0.01
55 6 0.01
56 8 0.02
57 5 0.01
58 3 0.01
59 6 0.01
60 1 0.00
61 2 0.00
63 22 0.04
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (49 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
Found at i:20816397 original size:96 final size:96
Alignment explanation
Indices: 20816212--20816643 Score: 769
Period size: 96 Copynumber: 4.5 Consensus size: 96
20816202 GAAATGATAG
*
20816212 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGAGATAAGGCCTAATGGCCG
*
20816277 ATGTGATGAATGTGAAAGTG--TATATACGTGA
64 ATGTGATGAATGTGAAAGTGTATATATATGTGA
20816308 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGATAAGGCCTAATGGCCGAT
20816373 GTGATGAATGTGAAAGTGTATATATATGTGA
66 GTGATGAATGTGAAAGTGTATATATATGTGA
*
20816404 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGC
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG----TATATATGAGATAAGGCCTAATGGC
20816469 CGATGTGATGAATGTGAAAGTGTATATATATGTGA
62 CGATGTGATGAATGTGAAAGTGTATATATATGTGA
20816504 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGATAAGGCCTAATGGCCGAT
20816569 GTGATGAATGTGAAAGTGTATATATATGTGA
66 GTGATGAATGTGAAAGTGTATATATATGTGA
20816600 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
20816644 TGAAAGTGTA
Statistics
Matches: 326, Mismatches: 4, Indels: 12
0.95 0.01 0.04
Matches are distributed among these distances:
94 46 0.14
96 185 0.57
100 95 0.29
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.30
Consensus pattern (96 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGATAAGGCCTAATGGCCGAT
GTGATGAATGTGAAAGTGTATATATATGTGA
Found at i:20816644 original size:16 final size:16
Alignment explanation
Indices: 20816625--20816659 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
20816615 GATGTGATGA
20816625 ATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATAT
20816641 ATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATAT
20816657 ATG
1 ATG
20816660 AGATAAGGCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.26, T:0.37
Consensus pattern (16 bp):
ATGTGAAAGTGTATAT
Found at i:20816660 original size:112 final size:112
Alignment explanation
Indices: 20816529--20816758 Score: 442
Period size: 112 Copynumber: 2.1 Consensus size: 112
20816519 GATGTGATGA
20816529 ATGTGAAAGTGTATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
20816594 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
66 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
20816641 ATGTGAAAGTGTATATATGAGATAAGGCCTAATGGTCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
*
20816706 ATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
66 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
20816753 ATGTGA
1 ATGTGA
20816759 CAGGGCCGAG
Statistics
Matches: 116, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
112 116 1.00
ACGTcount: A:0.33, C:0.07, G:0.29, T:0.31
Consensus pattern (112 bp):
ATGTGAAAGTGTATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
Found at i:20816692 original size:47 final size:47
Alignment explanation
Indices: 20816641--20816809 Score: 212
Period size: 47 Copynumber: 3.6 Consensus size: 47
20816631 AAGTGTATAT
* *
20816641 ATGTGAAAGTGTATATATGAGATAAGGCCTAATGGTCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
20816688 ATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * * *
20816737 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGCCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
20816784 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
20816810 TCCCGAAGGG
Statistics
Matches: 107, Mismatches: 13, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
47 63 0.59
49 44 0.41
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.28
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:20816711 original size:65 final size:64
Alignment explanation
Indices: 20816576--20816705 Score: 226
Period size: 63 Copynumber: 2.0 Consensus size: 64
20816566 GATGTGATGA
*
20816576 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTG-ATATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
20816641 ATGTGAAAGTG-TATATATGAGATAAGGCCTAATGGTCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGATATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
20816704 AT
1 AT
20816706 ATGTGATAGG
Statistics
Matches: 63, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
63 52 0.83
65 11 0.17
ACGTcount: A:0.35, C:0.05, G:0.28, T:0.32
Consensus pattern (64 bp):
ATGTGAAAGTGATATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
Found at i:20816984 original size:37 final size:37
Alignment explanation
Indices: 20816928--20817006 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
20816918 CCGAGCTCTA
* * *
20816928 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
20816965 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
20817002 AAGAC
1 AAGAC
20817007 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:20818940 original size:29 final size:29
Alignment explanation
Indices: 20818905--20818978 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
20818895 GTTGTGAGAT
* *
20818905 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
20818934 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
20818963 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
20818979 TGGATGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:20819392 original size:39 final size:40
Alignment explanation
Indices: 20819294--20819434 Score: 146
Period size: 39 Copynumber: 3.5 Consensus size: 40
20819284 AATGATGTCT
* * * *
20819294 GGGCTAAGTCCCGAAGTC-TTGGTGCTA-AGTGACCATATCC
1 GGGCTAAGTCCCGAAGGCATTGGTGCGAGA-T-ACTAAATCC
* * *
20819334 GGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATTCC
1 GGGCTAAG-TCCCGAAGGCATTGGTGCGAGATACTAAATCC
*
20819374 GGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCC
1 GGGCTAAGTCCCGAAGGCATTGGTGCGAGATACTAAATCC
20819413 GGGCTAAGTCCCGAAGAGCATT
1 GGGCTAAGTCCCGAAG-GCATT
20819435 CATGCTAGTG
Statistics
Matches: 84, Mismatches: 11, Indels: 11
0.79 0.10 0.10
Matches are distributed among these distances:
39 35 0.42
40 34 0.40
41 14 0.17
42 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTGGTGCGAGATACTAAATCC
Found at i:20819458 original size:40 final size:40
Alignment explanation
Indices: 20819409--20819685 Score: 392
Period size: 40 Copynumber: 6.9 Consensus size: 40
20819399 GAGTTACTAA
20819409 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
*
20819449 ATCCAGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
20819489 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
*
20819529 ATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
** * ** *
20819569 ATCTAGGCTAAGTTCCGAAGAGCATTTGTGCTAGTGATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* ** * * * *
20819609 ATCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* * *
20819649 ATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTGA
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
20819686 CGTGTATTTG
Statistics
Matches: 213, Mismatches: 24, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 213 1.00
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
Found at i:20823230 original size:47 final size:47
Alignment explanation
Indices: 20823123--20823845 Score: 1167
Period size: 47 Copynumber: 15.1 Consensus size: 47
20823113 GAAATGATAG
20823123 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
20823172 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
20823219 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
20823266 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
* *
20823315 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
20823362 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
20823411 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG----TATATATGTGA
*
20823462 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
20823509 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
20823556 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
20823605 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
20823652 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
20823699 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
* *
20823748 TAGGGCCTAATGGCCGATCTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * *
20823795 CAAGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
20823842 TAAG
1 TAAG
20823846 TCCCGAAGGG
Statistics
Matches: 636, Mismatches: 28, Indels: 22
0.93 0.04 0.03
Matches are distributed among these distances:
47 370 0.58
49 217 0.34
51 49 0.08
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:20823308 original size:96 final size:96
Alignment explanation
Indices: 20823123--20823845 Score: 1165
Period size: 96 Copynumber: 7.5 Consensus size: 96
20823113 GAAATGATAG
20823123 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
*
20823188 ATGTGATGAATGTGAAAGTG--TATATACGTGA
64 ATGTGATGAATGTGAAAGTGTATATATATGTGA
*
20823219 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
20823284 GTGATGAATGTGAAAGTGTATATATATGTGA
66 GTGATGAATGTGAAAGTGTATATATATGTGA
* *
20823315 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
20823380 GTGATGAATGTGAAAGTGTATATATATGTGA
66 GTGATGAATGTGAAAGTGTATATATATGTGA
20823411 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGC
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG----TATATATGTGATAAGGCCTAATGGC
*
20823476 CGATGTGATGAATGTGAAAGTG--TATATACGTGA
62 CGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
20823509 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
20823574 GTGATGAATGTGAAAGTGTATATATATGTGA
66 GTGATGAATGTGAAAGTGTATATATATGTGA
*
20823605 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
*
20823670 GTGATGAATGTGAAAGTG--TATATATGAGA
66 GTGATGAATGTGAAAGTGTATATATATGTGA
*
20823699 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
*
20823764 ATCTGATGAATGTGAAAGTG--TATATATGTGA
64 ATGTGATGAATGTGAAAGTGTATATATATGTGA
* * * * * * *
20823795 CAAGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
20823846 TCCCGAAGGG
Statistics
Matches: 594, Mismatches: 23, Indels: 22
0.93 0.04 0.03
Matches are distributed among these distances:
94 151 0.25
96 351 0.59
98 46 0.08
100 46 0.08
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (96 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
GTGATGAATGTGAAAGTGTATATATATGTGA
Found at i:20823381 original size:143 final size:143
Alignment explanation
Indices: 20823123--20823845 Score: 1275
Period size: 143 Copynumber: 5.0 Consensus size: 143
20823113 GAAATGATAG
20823123 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
20823188 ATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
66 ATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
20823253 TGTATATATGAGA
131 TGTATATATGAGA
*
20823266 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
* *
20823331 ATGTGATGAATGTGAAAGTGTATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
66 ATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
*
20823396 TGTATATATATGTGA
131 TG--TATATATGAGA
20823411 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGC
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATATGTGATAAGGCCTAATGGC
20823476 CGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
64 CGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
20823541 AGTGTATATATGAGA
129 AGTGTATATATGAGA
20823556 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
20823621 ATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
66 ATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
20823686 TGTATATATGAGA
131 TGTATATATGAGA
*
20823699 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
* * * * * * * *
20823764 ATCTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAGTGGCCAACGTGATGGATGTGAAAG
66 ATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
* *
20823829 TGTATAAATGTGA
131 TGTATATATGAGA
20823842 TAAG
1 TAAG
20823846 TCCCGAAGGG
Statistics
Matches: 557, Mismatches: 19, Indels: 8
0.95 0.03 0.01
Matches are distributed among these distances:
143 372 0.67
145 92 0.17
147 93 0.17
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (143 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
ATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGTATATATGAGA
Found at i:20824020 original size:37 final size:37
Alignment explanation
Indices: 20823964--20824042 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
20823954 CCGAGCTCTA
* * *
20823964 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
20824001 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
20824038 AAGAC
1 AAGAC
20824043 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:20832489 original size:24 final size:24
Alignment explanation
Indices: 20832462--20832521 Score: 104
Period size: 24 Copynumber: 2.5 Consensus size: 24
20832452 GTAAATTAAG
20832462 TAAAAATGGTTAAATCATAAAAGT
1 TAAAAATGGTTAAATCATAAAAGT
20832486 TAAAAATGGTTAAATCATAAAAGT
1 TAAAAATGGTTAAATCATAAAAGT
*
20832510 TACAAA-GGTTAA
1 TAAAAATGGTTAA
20832522 TTTTTATAAG
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
23 6 0.17
24 29 0.83
ACGTcount: A:0.53, C:0.05, G:0.13, T:0.28
Consensus pattern (24 bp):
TAAAAATGGTTAAATCATAAAAGT
Found at i:20834591 original size:13 final size:13
Alignment explanation
Indices: 20834556--20834580 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20834546 TGCCATTGAG
20834556 GGCATATTGGTTA
1 GGCATATTGGTTA
20834569 GGCATATTGGTT
1 GGCATATTGGTT
20834581 TGGATAGTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.08, G:0.32, T:0.40
Consensus pattern (13 bp):
GGCATATTGGTTA
Found at i:20835640 original size:21 final size:22
Alignment explanation
Indices: 20835607--20835647 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
20835597 TTCCTTTATG
20835607 TTTCATTGACACATA-ATCATA
1 TTTCATTGACACATACATCATA
**
20835628 TTTCATTTCCACATACATCA
1 TTTCATTGACACATACATCA
20835648 CAATACATTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.34, C:0.24, G:0.02, T:0.39
Consensus pattern (22 bp):
TTTCATTGACACATACATCATA
Found at i:20840034 original size:31 final size:31
Alignment explanation
Indices: 20839996--20840059 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
20839986 CCTTTTCATA
20839996 TTTCATATTTCATAACACTAGGCCGAAGCCT
1 TTTCATATTTCATAACACTAGGCCGAAGCCT
** *
20840027 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTAGGCCGAAGCCT
20840058 TT
1 TT
20840060 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTAGGCCGAAGCCT
Found at i:20840306 original size:24 final size:24
Alignment explanation
Indices: 20840254--20840394 Score: 207
Period size: 24 Copynumber: 5.9 Consensus size: 24
20840244 CTTTATCACC
*
20840254 TAACTGGAGGCCT-AGCCTCTTTTAA
1 TAACTGG-GGCATAAGCC-CTTTTAA
* *
20840279 TAACTGGGGCAAAAGCCCTTTTAG
1 TAACTGGGGCATAAGCCCTTTTAA
*
20840303 TAACTGGGGCATAAGACC-TTTAA
1 TAACTGGGGCATAAGCCCTTTTAA
20840326 TAACTGGGGCATAAGCCCTTTTAA
1 TAACTGGGGCATAAGCCCTTTTAA
20840350 TAACTGGGGCATAAGCCC-TTTAA
1 TAACTGGGGCATAAGCCCTTTTAA
20840373 TAACTGGGGCATAAGCCCTTTT
1 TAACTGGGGCATAAGCCCTTTT
20840395 TCACTTCCTT
Statistics
Matches: 106, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
23 44 0.42
24 51 0.48
25 11 0.10
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.28
Consensus pattern (24 bp):
TAACTGGGGCATAAGCCCTTTTAA
Found at i:20840327 original size:47 final size:47
Alignment explanation
Indices: 20840274--20840394 Score: 215
Period size: 47 Copynumber: 2.6 Consensus size: 47
20840264 CCTAGCCTCT
* *
20840274 TTTAATAACTGGGGCAAAAGCCCTTTTAGTAACTGGGGCATAAGACC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGACC
*
20840321 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGACC
20840368 TTTAATAACTGGGGCATAAGCCCTTTT
1 TTTAATAACTGGGGCATAAGCCCTTTT
20840395 TCACTTCCTT
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 71 1.00
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (47 bp):
TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGACC
Found at i:20840329 original size:23 final size:23
Alignment explanation
Indices: 20840274--20840393 Score: 195
Period size: 23 Copynumber: 5.1 Consensus size: 23
20840264 CCTAGCCTCT
*
20840274 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
* *
20840297 TTTTAGTAACTGGGGCATAAGACC
1 -TTTAATAACTGGGGCATAAGCCC
20840321 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
20840344 TTTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
20840368 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
20840391 TTT
1 TTT
20840394 TTCACTTCCT
Statistics
Matches: 90, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
23 47 0.52
24 43 0.48
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:20840471 original size:20 final size:20
Alignment explanation
Indices: 20840446--20840510 Score: 112
Period size: 20 Copynumber: 3.2 Consensus size: 20
20840436 ATGAATACAG
20840446 CATGTGCATATCATACATAT
1 CATGTGCATATCATACATAT
*
20840466 CATGTGCATATCATACATGT
1 CATGTGCATATCATACATAT
*
20840486 CATGTGCATATCATACATAC
1 CATGTGCATATCATACATAT
20840506 CATGT
1 CATGT
20840511 TTATCAAAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.34
Consensus pattern (20 bp):
CATGTGCATATCATACATAT
Found at i:20840477 original size:11 final size:11
Alignment explanation
Indices: 20840446--20840499 Score: 53
Period size: 11 Copynumber: 5.3 Consensus size: 11
20840436 ATGAATACAG
20840446 CATGTGCATAT
1 CATGTGCATAT
*
20840457 CA--TACATAT
1 CATGTGCATAT
20840466 CATGTGCATAT
1 CATGTGCATAT
* *
20840477 CA--TACATGT
1 CATGTGCATAT
20840486 CATGTGCATAT
1 CATGTGCATAT
20840497 CAT
1 CAT
20840500 ACATACCATG
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
9 15 0.45
11 18 0.55
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.35
Consensus pattern (11 bp):
CATGTGCATAT
Found at i:20845837 original size:13 final size:13
Alignment explanation
Indices: 20845821--20845874 Score: 63
Period size: 13 Copynumber: 4.2 Consensus size: 13
20845811 TTATAATCAA
20845821 TTCATATAACCAT
1 TTCATATAACCAT
* **
20845834 TTCATGTATTCAT
1 TTCATATAACCAT
20845847 TTCATATAACCAT
1 TTCATATAACCAT
* *
20845860 TTCATCTAAACAT
1 TTCATATAACCAT
20845873 TT
1 TT
20845875 TAATTTTATC
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 33 1.00
ACGTcount: A:0.33, C:0.20, G:0.02, T:0.44
Consensus pattern (13 bp):
TTCATATAACCAT
Found at i:20845873 original size:26 final size:26
Alignment explanation
Indices: 20845821--20845874 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
20845811 TTATAATCAA
* **
20845821 TTCATATAACCATTTCATGTATTCAT
1 TTCATATAACCATTTCATCTAAACAT
20845847 TTCATATAACCATTTCATCTAAACAT
1 TTCATATAACCATTTCATCTAAACAT
20845873 TT
1 TT
20845875 TAATTTTATC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.33, C:0.20, G:0.02, T:0.44
Consensus pattern (26 bp):
TTCATATAACCATTTCATCTAAACAT
Found at i:20847404 original size:29 final size:30
Alignment explanation
Indices: 20847366--20847428 Score: 92
Period size: 29 Copynumber: 2.1 Consensus size: 30
20847356 TATAAACTAA
* *
20847366 TAGTGATTAATTTTTGCAGTTTTTATGATT
1 TAGTGATTAATTTTTACAGCTTTTATGATT
*
20847396 TAGTG-TTAATTTTTATAGCTTTTATGATT
1 TAGTGATTAATTTTTACAGCTTTTATGATT
20847425 TAGT
1 TAGT
20847429 CTTTTTTCTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 25 0.83
30 5 0.17
ACGTcount: A:0.24, C:0.03, G:0.16, T:0.57
Consensus pattern (30 bp):
TAGTGATTAATTTTTACAGCTTTTATGATT
Found at i:20864808 original size:42 final size:43
Alignment explanation
Indices: 20864734--20864840 Score: 119
Period size: 42 Copynumber: 2.5 Consensus size: 43
20864724 GTCTTGAGAT
*
20864734 TTACATGTAAGACCATGTCTGGAACATCGGCATC-GTATATGA
1 TTACATGTAAGACCATGTCTGGAACATCGGCATCAATATATGA
* * * * * *
20864776 TTTCGTGTAAGACCCTGTTTGGGACAGT-GGCATCAATATTTGA
1 TTACATGTAAGACCATGTCTGGAACA-TCGGCATCAATATATGA
*
20864819 TTACATGTAAGACCACGTCTGG
1 TTACATGTAAGACCATGTCTGG
20864841 GACGTTGGCA
Statistics
Matches: 51, Mismatches: 12, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
42 27 0.53
43 24 0.47
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (43 bp):
TTACATGTAAGACCATGTCTGGAACATCGGCATCAATATATGA
Found at i:20864842 original size:43 final size:42
Alignment explanation
Indices: 20864694--20864856 Score: 159
Period size: 43 Copynumber: 3.8 Consensus size: 42
20864684 GTGTGATATT
* *
20864694 ATGTAAGACCACGTCTGGGACGTTGGCATCGTCTTGAGATTTAC
1 ATGTAAGACCACGTCTGGGACGTTGGCATCGTATT-TGA-TTAC
* * * * * *
20864738 ATGTAAGACCATGTCTGGAACATCGGCATCGTATATGATTTC
1 ATGTAAGACCACGTCTGGGACGTTGGCATCGTATTTGATTAC
* * *
20864780 GTGTAAGACC-CTGTTTGGGACAG-TGGCATCAATATTTGATTAC
1 ATGTAAGACCAC-GTCTGGGAC-GTTGGCATC-GTATTTGATTAC
*
20864823 ATGTAAGACCACGTCTGGGACGTTGGCATTGTAT
1 ATGTAAGACCACGTCTGGGACGTTGGCATCGTAT
20864857 GATTTTTCTG
Statistics
Matches: 93, Mismatches: 21, Indels: 12
0.74 0.17 0.10
Matches are distributed among these distances:
42 29 0.31
43 34 0.37
44 30 0.32
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (42 bp):
ATGTAAGACCACGTCTGGGACGTTGGCATCGTATTTGATTAC
Found at i:20866240 original size:20 final size:20
Alignment explanation
Indices: 20866198--20866240 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
20866188 TTGTGAATTG
*
20866198 ATCATAAAATGTTCTGATAC
1 ATCATAAAATGTTCCGATAC
*
20866218 ATCATAAAATGTTCCGATTC
1 ATCATAAAATGTTCCGATAC
20866238 ATC
1 ATC
20866241 CGGTAATACC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.37, C:0.19, G:0.09, T:0.35
Consensus pattern (20 bp):
ATCATAAAATGTTCCGATAC
Found at i:20866426 original size:7 final size:7
Alignment explanation
Indices: 20866416--20866441 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
20866406 TGGGGAATAT
20866416 AAATTTA
1 AAATTTA
20866423 AAATTTA
1 AAATTTA
20866430 AAATTTA
1 AAATTTA
20866437 AAATT
1 AAATT
20866442 ATATAGTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
AAATTTA
Found at i:20869500 original size:24 final size:23
Alignment explanation
Indices: 20869473--20869517 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
20869463 TTTTTCAAAC
20869473 ATACA-AATATAAATTTACAATATT
1 ATACATAATAT-AATTT-CAATATT
20869497 ATACATAATATAATTTCAATA
1 ATACATAATATAATTTCAATA
20869518 AAGTCAACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 5 0.25
24 10 0.50
25 5 0.25
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (23 bp):
ATACATAATATAATTTCAATATT
Found at i:20871768 original size:22 final size:23
Alignment explanation
Indices: 20871713--20871769 Score: 57
Period size: 22 Copynumber: 2.6 Consensus size: 23
20871703 GTTATAAAGT
* *
20871713 TTATTTGATATAT-TACTTAAAA
1 TTATTTGATAAATATAATTAAAA
* *
20871735 TTAATT-AAAAATATAATT-AAA
1 TTATTTGATAAATATAATTAAAA
20871756 TTATTTGATAAATA
1 TTATTTGATAAATA
20871770 CATATTTTAA
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
21 12 0.44
22 15 0.56
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.46
Consensus pattern (23 bp):
TTATTTGATAAATATAATTAAAA
Found at i:20875706 original size:18 final size:17
Alignment explanation
Indices: 20875685--20875726 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
20875675 AGTTATTTTT
20875685 AAAATATAAGATATTTAA
1 AAAATATAAGAT-TTTAA
**
20875703 AAAATATATTATTTTAA
1 AAAATATAAGATTTTAA
20875720 AAAATAT
1 AAAATAT
20875727 GTGACTCTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 12 0.55
18 10 0.45
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (17 bp):
AAAATATAAGATTTTAA
Found at i:20875828 original size:29 final size:29
Alignment explanation
Indices: 20875795--20875852 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
20875785 TTAAAAATTA
20875795 AAAATAGAATCATTTTTAAATATAAAACT
1 AAAATAGAATCATTTTTAAATATAAAACT
20875824 AAAATAGAATCATTTTTAAATATAAAACT
1 AAAATAGAATCATTTTTAAATATAAAACT
20875853 TTTAAATTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.55, C:0.07, G:0.03, T:0.34
Consensus pattern (29 bp):
AAAATAGAATCATTTTTAAATATAAAACT
Found at i:20880949 original size:9 final size:9
Alignment explanation
Indices: 20880937--20880969 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
20880927 GAATTATTCG
20880937 AATCGAGTT
1 AATCGAGTT
*
20880946 AATCGAATT
1 AATCGAGTT
20880955 AATCGAGTT
1 AATCGAGTT
20880964 AATCGA
1 AATCGA
20880970 ATCAACTCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.30
Consensus pattern (9 bp):
AATCGAGTT
Found at i:20880960 original size:18 final size:18
Alignment explanation
Indices: 20880937--20880971 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
20880927 GAATTATTCG
20880937 AATCGAGTTAATCGAATT
1 AATCGAGTTAATCGAATT
20880955 AATCGAGTTAATCGAAT
1 AATCGAGTTAATCGAAT
20880972 CAACTCAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.40, C:0.11, G:0.17, T:0.31
Consensus pattern (18 bp):
AATCGAGTTAATCGAATT
Found at i:20881301 original size:12 final size:12
Alignment explanation
Indices: 20881284--20881316 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
20881274 TATTTTTTAG
20881284 TTATTTACTCAC
1 TTATTTACTCAC
*
20881296 TTATTTATTCAC
1 TTATTTACTCAC
20881308 TTATTTACT
1 TTATTTACT
20881317 TCAATTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.24, C:0.18, G:0.00, T:0.58
Consensus pattern (12 bp):
TTATTTACTCAC
Found at i:20884867 original size:66 final size:65
Alignment explanation
Indices: 20884759--20884979 Score: 194
Period size: 66 Copynumber: 3.4 Consensus size: 65
20884749 AAAATTTACA
* * * * *
20884759 TAATAATTCTATAATATATTATTATT-TTATGCAAAACAATATCGTACACTATTATATATAATAT
1 TAATAATTATATAATATATTATT-TTATTATGTAATACTATATCGTATACTA-TATATATAATAT
20884823 AC
64 AC
* * * * * *
20884825 TAATAGTTATATAATATATTATTTTATTAGGTAATACTATATCATATATTAAAAATTATAATATA
1 TAATAATTATATAATATATTATTTTATTATGTAATACTATATCGTATACTATATA-TATAATATA
*
20884890 T
65 C
* * * * * * * * *
20884891 TAATAGTTTTATAACATATTATTATATTATGTAATATTAAATTGTATACTATAGTATATCATCTA
1 TAATAATTATATAATATATTATTTTATTATGTAATACTATATCGTATACTATA-TATATAATATA
20884956 C
65 C
20884957 T-ATAATCTATATAATATATTATT
1 TAATAAT-TATATAATATATTATT
20884980 ATAGCTAACT
Statistics
Matches: 122, Mismatches: 29, Indels: 8
0.77 0.18 0.05
Matches are distributed among these distances:
65 8 0.07
66 113 0.93
67 1 0.01
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (65 bp):
TAATAATTATATAATATATTATTTTATTATGTAATACTATATCGTATACTATATATATAATATAC
Found at i:20889010 original size:45 final size:41
Alignment explanation
Indices: 20888951--20889036 Score: 118
Period size: 42 Copynumber: 2.0 Consensus size: 41
20888941 TATTAAATTT
* *
20888951 AATTTAATGTTTATCTTGTAGATAAATATTCTATTAATTTAATA
1 AATTTAATATTTATC-T-T-GATAAATATTATATTAATTTAATA
20888995 AATTCTAATATTTATCTTGATAAATATTATATTAATTTAATA
1 AATT-TAATATTTATCTTGATAAATATTATATTAATTTAATA
20889037 TTAAAGTGGT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
42 23 0.59
43 1 0.03
44 5 0.13
45 10 0.26
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.50
Consensus pattern (41 bp):
AATTTAATATTTATCTTGATAAATATTATATTAATTTAATA
Found at i:20889026 original size:21 final size:20
Alignment explanation
Indices: 20888971--20889032 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 20
20888961 TTATCTTGTA
*
20888971 GATAAATATTCTATTAATTT
1 GATAAATATTATATTAATTT
* *
20888991 AATAAAT-TCTAATATTTATCTT
1 GATAAATAT-T-ATATTAAT-TT
20889013 GATAAATATTATATTAATTT
1 GATAAATATTATATTAATTT
20889033 AATATTAAAG
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
19 1 0.03
20 9 0.27
21 13 0.39
22 9 0.27
23 1 0.03
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (20 bp):
GATAAATATTATATTAATTT
Found at i:20895474 original size:23 final size:23
Alignment explanation
Indices: 20895441--20895544 Score: 104
Period size: 23 Copynumber: 4.5 Consensus size: 23
20895431 GAACTGATGG
20895441 ACAGTAAGCTCTATTGAGCTGAA
1 ACAGTAAGCTCTATTGAGCTGAA
*
20895464 ACGGTAAGCTCTATTGAGCTG-A
1 ACAGTAAGCTCTATTGAGCTGAA
* * *
20895486 ACAATAAGCTC-ATACGAGCGGAA
1 ACAGTAAGCTCTAT-TGAGCTGAA
* * * *
20895509 ACGGTAAGCTCCAATGAGATGAAA
1 ACAGTAAGCTCTATTGAGCTG-AA
20895533 ACAGTAAGCTCT
1 ACAGTAAGCTCT
20895545 TATGAGCAGA
Statistics
Matches: 64, Mismatches: 13, Indels: 7
0.76 0.15 0.08
Matches are distributed among these distances:
21 2 0.03
22 15 0.23
23 34 0.53
24 13 0.20
ACGTcount: A:0.37, C:0.19, G:0.23, T:0.21
Consensus pattern (23 bp):
ACAGTAAGCTCTATTGAGCTGAA
Found at i:20896506 original size:62 final size:62
Alignment explanation
Indices: 20896435--20896555 Score: 242
Period size: 62 Copynumber: 2.0 Consensus size: 62
20896425 GAATGAATTT
20896435 ACATGGTTTTGGCTTTGTTTTATTATTATTATTAACTTAATACATAAATTACTATATTATTA
1 ACATGGTTTTGGCTTTGTTTTATTATTATTATTAACTTAATACATAAATTACTATATTATTA
20896497 ACATGGTTTTGGCTTTGTTTTATTATTATTATTAACTTAATACATAAATTACTATATTA
1 ACATGGTTTTGGCTTTGTTTTATTATTATTATTAACTTAATACATAAATTACTATATTA
20896556 ACCTTATAAT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 59 1.00
ACGTcount: A:0.32, C:0.08, G:0.08, T:0.51
Consensus pattern (62 bp):
ACATGGTTTTGGCTTTGTTTTATTATTATTATTAACTTAATACATAAATTACTATATTATTA
Found at i:20900524 original size:40 final size:41
Alignment explanation
Indices: 20900478--20900574 Score: 128
Period size: 40 Copynumber: 2.4 Consensus size: 41
20900468 TGGCTATGCT
*
20900478 TGGCACTAAGTGTGCG-GTTTAATATAGCTTCGGCTACA-AA
1 TGGCACTAAGTGTGCGAGTTGAA-ATAGCTTCGGCTACATAA
* * *
20900518 TGGCACTAAGTGTGCGAGTTGGAATAGCTTCGTCTATATAA
1 TGGCACTAAGTGTGCGAGTTGAAATAGCTTCGGCTACATAA
20900559 -GGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
20900575 TACGGACTTA
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
40 45 0.88
41 6 0.12
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (41 bp):
TGGCACTAAGTGTGCGAGTTGAAATAGCTTCGGCTACATAA
Found at i:20911291 original size:43 final size:42
Alignment explanation
Indices: 20911203--20911296 Score: 109
Period size: 43 Copynumber: 2.2 Consensus size: 42
20911193 TGTGATTACA
* * *
20911203 TGTAAGACCATGTCTGGGACATTGGCATTGTATTAAGGTTATG
1 TGTAAGACCATGTCTGGGACATTAGCATCG-ATTAAGATTATG
* *
20911246 TGTAAGACCATGTCTGGGACATTAGTATCG-TTAATCGATTTTG
1 TGTAAGACCATGTCTGGGACATTAGCATCGATTAA--GATTATG
20911289 TGTAAGAC
1 TGTAAGAC
20911297 TCTATCTGAG
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
41 4 0.09
43 40 0.91
ACGTcount: A:0.27, C:0.13, G:0.26, T:0.35
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATTAGCATCGATTAAGATTATG
Found at i:20917621 original size:55 final size:55
Alignment explanation
Indices: 20917524--20917634 Score: 143
Period size: 55 Copynumber: 2.0 Consensus size: 55
20917514 CGAACATGCC
* * *
20917524 AAAACAACACGGGCGTGTGAGACGCCTGTGTGGAAGAACCGTGGGTGAACCTGTT
1 AAAACAACACGAGCGTGTGACACGCCTGTGTGCAAGAACCGTGGGTGAACCTGTT
* * * *
20917579 AAAACAGCACGAGCGTGTGACACGCCTGTGT-CTAGCACCCGTGGTTGAACCTGTT
1 AAAACAACACGAGCGTGTGACACGCCTGTGTGCAAG-AACCGTGGGTGAACCTGTT
20917634 A
1 A
20917635 GATTGACACG
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
54 2 0.04
55 46 0.96
ACGTcount: A:0.26, C:0.23, G:0.31, T:0.20
Consensus pattern (55 bp):
AAAACAACACGAGCGTGTGACACGCCTGTGTGCAAGAACCGTGGGTGAACCTGTT
Found at i:20924425 original size:40 final size:40
Alignment explanation
Indices: 20924379--20924471 Score: 132
Period size: 40 Copynumber: 2.3 Consensus size: 40
20924369 GATTATTTTT
* *
20924379 GACACTTAGTGTGCGATATAATATAGCTTCGGCTATATAT
1 GACACTTAGTGTGCGATATAAGATAGCTTCGGCTATATAA
* * * *
20924419 GGCACTTAGTGTGCGATTTGAGATAGCTTCGGCTATGTAA
1 GACACTTAGTGTGCGATATAAGATAGCTTCGGCTATATAA
20924459 GACACTTAGTGTG
1 GACACTTAGTGTG
20924472 TGAGATATTG
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (40 bp):
GACACTTAGTGTGCGATATAAGATAGCTTCGGCTATATAA
Found at i:20925541 original size:12 final size:12
Alignment explanation
Indices: 20925524--20925555 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
20925514 TCCCTAATTG
20925524 GCACACGGCCTA
1 GCACACGGCCTA
20925536 GCACACGGCCTA
1 GCACACGGCCTA
20925548 GCACACGG
1 GCACACGG
20925556 GCGTGTGACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.25, C:0.41, G:0.28, T:0.06
Consensus pattern (12 bp):
GCACACGGCCTA
Found at i:20928136 original size:41 final size:41
Alignment explanation
Indices: 20928075--20928161 Score: 167
Period size: 41 Copynumber: 2.1 Consensus size: 41
20928065 TCTATGGATC
20928075 CCCT-TATTAGGTTTCACCCTAATCTGGCAAAACCTTATCA
1 CCCTATATTAGGTTTCACCCTAATCTGGCAAAACCTTATCA
20928115 CCCTATATTAGGTTTCACCCTAATCTGGCAAAACCTTATCA
1 CCCTATATTAGGTTTCACCCTAATCTGGCAAAACCTTATCA
20928156 CCCTAT
1 CCCTAT
20928162 CTCTAGGCGT
Statistics
Matches: 46, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
40 4 0.09
41 42 0.91
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (41 bp):
CCCTATATTAGGTTTCACCCTAATCTGGCAAAACCTTATCA
Found at i:20939135 original size:37 final size:37
Alignment explanation
Indices: 20939085--20939163 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
20939075 TTATTACGAA
* * *
20939085 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
20939122 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
20939159 GTCTT
1 GTCTT
20939164 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:20939360 original size:47 final size:47
Alignment explanation
Indices: 20939282--20939814 Score: 796
Period size: 47 Copynumber: 11.1 Consensus size: 47
20939272 CCCTTCGGGA
* * * * ** *
20939282 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCGCTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
20939329 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
20939376 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
20939423 CCTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
20939474 CTTATCTCATATATACGCTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
**
20939521 CTTATCATGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
20939568 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
20939619 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
20939668 CTTATCTCATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
20939715 CTTATCACGTATATACACTTTCACATTTATCACATCCGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
20939762 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
20939811 CTTA
1 CTTA
20939815 CTATCATTTC
Statistics
Matches: 447, Mismatches: 29, Indels: 18
0.90 0.06 0.04
Matches are distributed among these distances:
47 268 0.60
49 88 0.20
51 91 0.20
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:20939556 original size:145 final size:146
Alignment explanation
Indices: 20939293--20939814 Score: 824
Period size: 145 Copynumber: 3.6 Consensus size: 146
20939283 TTATCACATT
* * * ** * * *
20939293 TATACACTTTCACATCCATCACGTTGGCCGCTCGGCCCTGTCAC-ATATATACACTTTCACATTC
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTC
*
20939357 ATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG
66 ATCACATCGGCCATTAGGCCTTATCATATATATACACTTTCACATTCATCACATCGGCCATTAGG
*
20939422 CCCTATCACATATATA
131 CCTTATCACATATATA
* *
20939438 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCTC-ATATATACGCTTTCACATTC
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTC
*
20939502 ATCACATCGGCCATTAGGCCTTATCATGTATATACACTTTCACATTCATCACATCGGCCATTAGG
66 ATCACATCGGCCATTAGGCCTTATCATATATATACACTTTCACATTCATCACATCGGCCATTAGG
20939567 CCTTATCACATATATA
131 CCTTATCACATATATA
20939583 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATT
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATACACTTTCACATT
20939648 CATCACATCGGCCATTAGGCCTTATC-TCATATATACACTTTCACATTCATCACATCGGCCATTA
65 CATCACATCGGCCATTAGGCCTTATCAT-ATATATACACTTTCACATTCATCACATCGGCCATTA
*
20939712 GGCCTTATCAC----GTA
129 GGCCTTATCACATATATA
* *
20939726 TATACACTTTCACATTTATCACATCCGCCATTAGGCCTTATCACATATATATACACTTTCACATT
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATACACTTTCACATT
20939791 CATCACATCGGCCATTAGGCCTTA
65 CATCACATCGGCCATTAGGCCTTA
20939815 CTATCATTTC
Statistics
Matches: 355, Mismatches: 19, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
143 89 0.25
145 175 0.49
146 1 0.00
147 90 0.25
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (146 bp):
TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTC
ATCACATCGGCCATTAGGCCTTATCATATATATACACTTTCACATTCATCACATCGGCCATTAGG
CCTTATCACATATATA
Found at i:20939691 original size:194 final size:193
Alignment explanation
Indices: 20939282--20939814 Score: 874
Period size: 194 Copynumber: 2.8 Consensus size: 193
20939272 CCCTTCGGGA
* * * * * ** * * * *
20939282 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCGCTCGGCCCTGTCACATATATACAC
1 CTTATCTCATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACGTATATACAC
20939347 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
*
20939410 TCGGCCATTAGGCCCTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 TCGGCCATTAGGCCTTATCACA-ATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
20939474 CTTATCTCATATATACGCTTTCACATTCATCACATCGGCCATTAGGCCTTATCATGTATATACAC
1 CTTATCTCATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACGTATATACAC
20939539 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATATACACTTTCACATTCATCA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATATACACTTTCACATTCATCA
20939604 CATCGGCCATTAGGCCTTATCAC-ATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
129 CATCGGCCATTAGGCCTTATCACAATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
20939668 CTTATCTCATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACGTATATACAC
1 CTTATCTCATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACGTATATACAC
* *
20939733 TTTCACATTTATCACATCCGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
20939798 TCGGCCATTAGGCCTTA
131 TCGGCCATTAGGCCTTA
20939815 CTATCATTTC
Statistics
Matches: 319, Mismatches: 18, Indels: 8
0.92 0.05 0.02
Matches are distributed among these distances:
192 134 0.42
194 139 0.44
196 46 0.14
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (193 bp):
CTTATCTCATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACGTATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACAATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:20944453 original size:45 final size:44
Alignment explanation
Indices: 20944403--20944492 Score: 137
Period size: 45 Copynumber: 2.0 Consensus size: 44
20944393 CCAAAACATG
20944403 TGTCACATATAT-TACGAACTCAGACCACAACTCAATGAGTTCAGA
1 TGTCACATATATCT-CGAACTCAGACCACAACTC-ATGAGTTCAGA
* *
20944448 TGTCACATATATCTTGAACTCATACCACAACTCATGAGTTCAGA
1 TGTCACATATATCTCGAACTCAGACCACAACTCATGAGTTCAGA
20944492 T
1 T
20944493 AACATAGTTC
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
44 12 0.29
45 29 0.69
46 1 0.02
ACGTcount: A:0.36, C:0.24, G:0.12, T:0.28
Consensus pattern (44 bp):
TGTCACATATATCTCGAACTCAGACCACAACTCATGAGTTCAGA
Found at i:20947087 original size:22 final size:21
Alignment explanation
Indices: 20947049--20947093 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
20947039 TTGATCCTCA
* *
20947049 CTTTTCTTTCTTCCACATTTT
1 CTTTTCTTTCATCCACAATTT
*
20947070 CTTTTCTTTTCATGCACAATTT
1 CTTTTC-TTTCATCCACAATTT
20947092 CT
1 CT
20947094 AACAAGAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.13, C:0.27, G:0.02, T:0.58
Consensus pattern (21 bp):
CTTTTCTTTCATCCACAATTT
Found at i:20954352 original size:40 final size:40
Alignment explanation
Indices: 20954268--20954452 Score: 195
Period size: 40 Copynumber: 4.7 Consensus size: 40
20954258 TTGAATGCTG
* *
20954268 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
20954307 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
20954348 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTAATAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
20954387 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
*
20954426 AACCGGGCTAAGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
20954453 AACGAGGAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 16
0.81 0.08 0.10
Matches are distributed among these distances:
39 35 0.28
40 76 0.61
41 12 0.10
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:20954404 original size:79 final size:81
Alignment explanation
Indices: 20954268--20954452 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 81
20954258 TTGAATGCTG
* *
20954268 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGAACAAATCCGGACTAAGATCCGAAGGCATT
20954332 TGTGCGAGA-TACTA-A
66 TGTGCGA-ATTACTATA
* * * **
20954347 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTAATAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGAACAAATCCGGACTAAGAT-CCGAAGGCA
20954409 TTTGTGCGAATTACTATA
64 TTTGTGCGAATTACTATA
*
20954427 ACCGGGCTAAGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
20954453 AACGAGGAGC
Statistics
Matches: 92, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
78 2 0.02
79 57 0.62
80 33 0.36
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGAACAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAATTACTATA
Found at i:20954474 original size:79 final size:78
Alignment explanation
Indices: 20954269--20954485 Score: 228
Period size: 79 Copynumber: 2.7 Consensus size: 78
20954259 TGAATGCTGT
* * *
20954269 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTGACTATATCCGG-TTAAG-TCCGAAGGCATTT
*
20954333 GTGCGAGATACTAATT
63 GTGCGAGATACTAATA
* * *
20954349 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCC-GGTTAAGT-CCGAAGGCATTTG
20954413 TGCGA-ATTACT-ATAA
64 TGCGAGA-TACTAAT-A
** *
20954428 CCGGGCTAAGTCCCGAAGGCATTTGAACGAG-GAGCTATATCCGGTTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGA-CTATATCCGGTT-AAGTCCGAAGG
20954486 TACGTGATTT
Statistics
Matches: 116, Mismatches: 13, Indels: 17
0.79 0.09 0.12
Matches are distributed among these distances:
78 4 0.03
79 66 0.57
80 46 0.40
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (78 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCCGGTTAAGTCCGAAGGCATTTGTG
CGAGATACTAATA
Found at i:20962204 original size:40 final size:40
Alignment explanation
Indices: 20962120--20962304 Score: 195
Period size: 40 Copynumber: 4.7 Consensus size: 40
20962110 TTGAATGCTG
* *
20962120 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
20962159 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
20962200 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTAATAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
20962239 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
*
20962278 AACCGGGCTAAGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
20962305 AACGAGGAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 16
0.81 0.08 0.10
Matches are distributed among these distances:
39 35 0.28
40 76 0.61
41 12 0.10
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:20962256 original size:79 final size:81
Alignment explanation
Indices: 20962120--20962304 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 81
20962110 TTGAATGCTG
* *
20962120 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGAACAAATCCGGACTAAGATCCGAAGGCATT
20962184 TGTGCGAGA-TACTA-A
66 TGTGCGA-ATTACTATA
* * * **
20962199 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTAATAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGAACAAATCCGGACTAAGAT-CCGAAGGCA
20962261 TTTGTGCGAATTACTATA
64 TTTGTGCGAATTACTATA
*
20962279 ACCGGGCTAAGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
20962305 AACGAGGAGC
Statistics
Matches: 92, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
78 2 0.02
79 57 0.62
80 33 0.36
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGAACAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAATTACTATA
Found at i:20962326 original size:79 final size:78
Alignment explanation
Indices: 20962121--20962337 Score: 228
Period size: 79 Copynumber: 2.7 Consensus size: 78
20962111 TGAATGCTGT
* * *
20962121 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTGACTATATCCGG-TTAAG-TCCGAAGGCATTT
*
20962185 GTGCGAGATACTAATT
63 GTGCGAGATACTAATA
* * *
20962201 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCC-GGTTAAGT-CCGAAGGCATTTG
20962265 TGCGA-ATTACT-ATAA
64 TGCGAGA-TACTAAT-A
** *
20962280 CCGGGCTAAGTCCCGAAGGCATTTGAACGAG-GAGCTATATCCGGTTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGA-CTATATCCGGTT-AAGTCCGAAGG
20962338 TACGTGATTT
Statistics
Matches: 116, Mismatches: 13, Indels: 17
0.79 0.09 0.12
Matches are distributed among these distances:
78 4 0.03
79 66 0.57
80 46 0.40
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (78 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCCGGTTAAGTCCGAAGGCATTTGTG
CGAGATACTAATA
Found at i:20974569 original size:40 final size:40
Alignment explanation
Indices: 20974485--20974669 Score: 195
Period size: 40 Copynumber: 4.7 Consensus size: 40
20974475 TTGAATGCTG
* *
20974485 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
20974524 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
20974565 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTAATAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
20974604 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
*
20974643 AACCGGGCTAAGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
20974670 AACGAGGAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 16
0.81 0.08 0.10
Matches are distributed among these distances:
39 35 0.28
40 76 0.61
41 12 0.10
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:20974621 original size:79 final size:81
Alignment explanation
Indices: 20974485--20974669 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 81
20974475 TTGAATGCTG
* *
20974485 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGAACAAATCCGGACTAAGATCCGAAGGCATT
20974549 TGTGCGAGA-TACTA-A
66 TGTGCGA-ATTACTATA
* * * **
20974564 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTAATAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGAACAAATCCGGACTAAGAT-CCGAAGGCA
20974626 TTTGTGCGAATTACTATA
64 TTTGTGCGAATTACTATA
*
20974644 ACCGGGCTAAGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
20974670 AACGAGGAGC
Statistics
Matches: 92, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
78 2 0.02
79 57 0.62
80 33 0.36
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGAACAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAATTACTATA
Found at i:20974691 original size:79 final size:78
Alignment explanation
Indices: 20974486--20974702 Score: 228
Period size: 79 Copynumber: 2.7 Consensus size: 78
20974476 TGAATGCTGT
* * *
20974486 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTGACTATATCCGG-TTAAG-TCCGAAGGCATTT
*
20974550 GTGCGAGATACTAATT
63 GTGCGAGATACTAATA
* * *
20974566 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCC-GGTTAAGT-CCGAAGGCATTTG
20974630 TGCGA-ATTACT-ATAA
64 TGCGAGA-TACTAAT-A
** *
20974645 CCGGGCTAAGTCCCGAAGGCATTTGAACGAG-GAGCTATATCCGGTTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGA-CTATATCCGGTT-AAGTCCGAAGG
20974703 TACGTGATTT
Statistics
Matches: 116, Mismatches: 13, Indels: 17
0.79 0.09 0.12
Matches are distributed among these distances:
78 4 0.03
79 66 0.57
80 46 0.40
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (78 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCCGGTTAAGTCCGAAGGCATTTGTG
CGAGATACTAATA
Found at i:20997632 original size:28 final size:28
Alignment explanation
Indices: 20997601--20997699 Score: 103
Period size: 28 Copynumber: 3.5 Consensus size: 28
20997591 CTGACCGATC
*
20997601 TCGCACACATATTGCTCGGTTAAAGAAT
1 TCGCACACATAGTGCTCGGTTAAAGAAT
* ** *
20997629 TCGCACACACAGTGCTC-ACTAACCG-AT
1 TCGCACACATAGTGCTCGGTTAA-AGAAT
*
20997656 CTCGCACACATAGTCCTCGGTTAAAGAAT
1 -TCGCACACATAGTGCTCGGTTAAAGAAT
*
20997685 TCGCACACACAGTGC
1 TCGCACACATAGTGC
20997700 CTCAATTCAT
Statistics
Matches: 55, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
27 5 0.09
28 45 0.82
29 5 0.09
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.22
Consensus pattern (28 bp):
TCGCACACATAGTGCTCGGTTAAAGAAT
Found at i:20997635 original size:56 final size:56
Alignment explanation
Indices: 20997574--20997700 Score: 218
Period size: 56 Copynumber: 2.3 Consensus size: 56
20997564 AAACGAAATC
* * *
20997574 CGCACACACAGTGCCCACTGACCGATCTCGCACACATATTGCTCGGTTAAAGAATT
1 CGCACACACAGTGCCCACTAACCGATCTCGCACACATAGTCCTCGGTTAAAGAATT
*
20997630 CGCACACACAGTGCTCACTAACCGATCTCGCACACATAGTCCTCGGTTAAAGAATT
1 CGCACACACAGTGCCCACTAACCGATCTCGCACACATAGTCCTCGGTTAAAGAATT
20997686 CGCACACACAGTGCC
1 CGCACACACAGTGCC
20997701 TCAATTCATT
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 66 1.00
ACGTcount: A:0.29, C:0.34, G:0.17, T:0.20
Consensus pattern (56 bp):
CGCACACACAGTGCCCACTAACCGATCTCGCACACATAGTCCTCGGTTAAAGAATT
Found at i:20997723 original size:25 final size:25
Alignment explanation
Indices: 20997683--20997737 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
20997673 CGGTTAAAGA
20997683 ATTCGCACACACAGTGCCTCA-ATTC
1 ATTCGCACACACAGTGCCT-ATATTC
* *
20997708 ATTCGCACCCATAGTGCCTATATTC
1 ATTCGCACACACAGTGCCTATATTC
20997733 ATTCG
1 ATTCG
20997738 TTATTACATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 1 0.04
25 26 0.96
ACGTcount: A:0.25, C:0.33, G:0.13, T:0.29
Consensus pattern (25 bp):
ATTCGCACACACAGTGCCTATATTC
Found at i:20997917 original size:43 final size:43
Alignment explanation
Indices: 20997856--20997990 Score: 180
Period size: 43 Copynumber: 3.1 Consensus size: 43
20997846 CTTTGCTCGA
* * * *
20997856 ATCACCGGCATTAAGCCTGCTAGGCACGAAGACCCAAATACAC
1 ATCACCAGCATAAAGCCTGCTAGGCACGAAGGCCCGAATACAC
* *
20997899 ATCACCAGCATGAAGCCTGCTAGGAACGAAGGCCCGAATACAC
1 ATCACCAGCATAAAGCCTGCTAGGCACGAAGGCCCGAATACAC
* * * *
20997942 ATCACCAGCACAAAGCCTGCTAGGCATGAAGGCCTGATTACAC
1 ATCACCAGCATAAAGCCTGCTAGGCACGAAGGCCCGAATACAC
20997985 ATCACC
1 ATCACC
20997991 GGCACGAATG
Statistics
Matches: 81, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 81 1.00
ACGTcount: A:0.34, C:0.32, G:0.20, T:0.14
Consensus pattern (43 bp):
ATCACCAGCATAAAGCCTGCTAGGCACGAAGGCCCGAATACAC
Found at i:20998052 original size:40 final size:40
Alignment explanation
Indices: 20997987--20998147 Score: 241
Period size: 40 Copynumber: 4.0 Consensus size: 40
20997977 GATTACACAT
* * * * *
20997987 CACCGGCACGAATGCCCTTCAGGACTTAGCACGGATGTAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
20998027 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATAGAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
20998067 CACCAGCATGAATGCTCTTCGGGACTTAGCCCGGCTATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
20998107 CACCAGCATGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
20998147 C
1 C
20998148 TCTCAATTCT
Statistics
Matches: 111, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 111 1.00
ACGTcount: A:0.27, C:0.30, G:0.24, T:0.20
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
Found at i:21002811 original size:28 final size:28
Alignment explanation
Indices: 21002780--21002874 Score: 95
Period size: 28 Copynumber: 3.4 Consensus size: 28
21002770 CTGATCTCTT
*
21002780 ACACATATTGCTCGGTTAAAGAATTCGC
1 ACACATAGTGCTCGGTTAAAGAATTCGC
* * ** *
21002808 ACACACAGAGCTC-ACTAACCG-ATCTCGC
1 ACACATAGTGCTCGGTTAA-AGAAT-TCGC
21002836 ACACATAGTGCTCGGTTAAAGAATTCGC
1 ACACATAGTGCTCGGTTAAAGAATTCGC
*
21002864 ACACACAGTGC
1 ACACATAGTGC
21002875 CTCAATTCAT
Statistics
Matches: 51, Mismatches: 12, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
27 5 0.10
28 41 0.80
29 5 0.10
ACGTcount: A:0.33, C:0.28, G:0.18, T:0.21
Consensus pattern (28 bp):
ACACATAGTGCTCGGTTAAAGAATTCGC
Found at i:21002840 original size:56 final size:56
Alignment explanation
Indices: 21002749--21002871 Score: 183
Period size: 56 Copynumber: 2.2 Consensus size: 56
21002739 AAACAAAATC
* * * ** *
21002749 CGCACACACAGTGCCCACTGACTGATCTCTTACACATATTGCTCGGTTAAAGAATT
1 CGCACACACAGAGCCCACTAACCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
*
21002805 CGCACACACAGAGCTCACTAACCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
1 CGCACACACAGAGCCCACTAACCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
21002861 CGCACACACAG
1 CGCACACACAG
21002872 TGCCTCAATT
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
56 60 1.00
ACGTcount: A:0.31, C:0.31, G:0.17, T:0.21
Consensus pattern (56 bp):
CGCACACACAGAGCCCACTAACCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
Found at i:21002898 original size:25 final size:25
Alignment explanation
Indices: 21002858--21002912 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
21002848 CGGTTAAAGA
21002858 ATTCGCACACACAGTGCCTCA-ATTC
1 ATTCGCACACACAGTGCCT-ATATTC
* *
21002883 ATTCGCACCCATAGTGCCTATATTC
1 ATTCGCACACACAGTGCCTATATTC
21002908 ATTCG
1 ATTCG
21002913 TTATTACATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 1 0.04
25 26 0.96
ACGTcount: A:0.25, C:0.33, G:0.13, T:0.29
Consensus pattern (25 bp):
ATTCGCACACACAGTGCCTATATTC
Found at i:21003092 original size:43 final size:43
Alignment explanation
Indices: 21003031--21003147 Score: 153
Period size: 43 Copynumber: 2.7 Consensus size: 43
21003021 CTTTGCTCGA
*
21003031 ATCACCGGCATTAAGCCTGCTAGGCACGAAGAACCAAATACAC
1 ATCACCGGCATAAAGCCTGCTAGGCACGAAGAACCAAATACAC
* * ** *
21003074 ATCACCGGCATGAAGCCTGCTAGGAACGAAGGCCCGAATACAC
1 ATCACCGGCATAAAGCCTGCTAGGCACGAAGAACCAAATACAC
* * *
21003117 ATCACCAGCACAAAGCCTGCTAGGCATGAAG
1 ATCACCGGCATAAAGCCTGCTAGGCACGAAG
21003148 GCCTGATTAC
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 64 1.00
ACGTcount: A:0.35, C:0.30, G:0.22, T:0.13
Consensus pattern (43 bp):
ATCACCGGCATAAAGCCTGCTAGGCACGAAGAACCAAATACAC
Found at i:21003148 original size:43 final size:43
Alignment explanation
Indices: 21003043--21003170 Score: 166
Period size: 43 Copynumber: 3.0 Consensus size: 43
21003033 CACCGGCATT
** * * **
21003043 AAGCCTGCTAGGCACGAAGAACCAAATACACATCACCGGCATG
1 AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACA
*
21003086 AAGCCTGCTAGGAACGAAGGCCCGAATACACATCACCAGCACA
1 AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACA
* * *
21003129 AAGCCTGCTAGGCATGAAGGCCTGATTACACATCACCAGCAC
1 AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCAC
21003171 GAATGCCCTT
Statistics
Matches: 74, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 74 1.00
ACGTcount: A:0.35, C:0.31, G:0.21, T:0.12
Consensus pattern (43 bp):
AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACA
Found at i:21003227 original size:40 final size:40
Alignment explanation
Indices: 21003162--21003322 Score: 268
Period size: 40 Copynumber: 4.0 Consensus size: 40
21003152 GATTACACAT
* * *
21003162 CACCAGCACGAATGCCCTTCAGGACTTAGCCCGGATGTAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
21003202 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
21003242 CACCAGCATGAATGCTCTTCGGGACTTAGCCCGGCTATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
21003282 CACCAGCACGAATGCTCTACGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
21003322 C
1 C
21003323 TATCAATTCT
Statistics
Matches: 113, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 113 1.00
ACGTcount: A:0.27, C:0.31, G:0.22, T:0.19
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
Done.