Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167893.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_16, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 22157061
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 74000 characters in sequence are not A, C, G, or T
File 49 of 113
Found at i:12996775 original size:117 final size:118
Alignment explanation
Indices: 12996553--12996776 Score: 292
Period size: 117 Copynumber: 1.9 Consensus size: 118
12996543 ATTAAAAATC
* * *
12996553 TCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTTATCTTGAAAAAGCTCATCTCAGTAGAGGC
1 TCCTCTCAGCAAAGGCTCAACAACTTTAAAAATC-T-TCTTGAAAAAGCTCATCTCAGCAGAGGC
* * *
12996618 TCAACAACTTTAAAAATCTCTTGGAAAAGGCTCCTCTCAGCAAAAACTCAACAAT
64 TCAACAACTTTAAAAATCTCTTGAAAAAAGCTCCTATCAGCAAAAACTCAACAAT
* * *
12996673 TCCTCTCAGCAAAGGCTCAACAACTTTAAAAATC-TCTTGAAAAAGCTCCTTTTAGCAGAGGCTC
1 TCCTCTCAGCAAAGGCTCAACAACTTTAAAAATCTTCTTGAAAAAGCTCATCTCAGCAGAGGCTC
* *
12996737 AACAACTTT-GAAATCTCATCT-AAAAAAGCTCTTATCAGCA
66 AACAACTTTAAAAATCTC-T-TGAAAAAAGCTCCTATCAGCA
12996777 GAGGCACAAC
Statistics
Matches: 91, Mismatches: 11, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
116 7 0.08
117 51 0.56
118 1 0.01
120 32 0.35
ACGTcount: A:0.37, C:0.25, G:0.12, T:0.26
Consensus pattern (118 bp):
TCCTCTCAGCAAAGGCTCAACAACTTTAAAAATCTTCTTGAAAAAGCTCATCTCAGCAGAGGCTC
AACAACTTTAAAAATCTCTTGAAAAAAGCTCCTATCAGCAAAAACTCAACAAT
Found at i:12996781 original size:47 final size:45
Alignment explanation
Indices: 12996673--12996812 Score: 165
Period size: 46 Copynumber: 3.0 Consensus size: 45
12996663 ACTCAACAAT
* * *
12996673 TCCTCTCAGCAAAGGCTCAACAACTTTAAAAATCTCTTGAAAAAGC
1 TCCTTTCAGCAGAGGCTCAACAACTTT-AAAATCTCTTAAAAAAGC
* *
12996719 TCCTTTTAGCAGAGGCTCAACAACTTTGAAATCTCATCTAAAAAAGC
1 TCCTTTCAGCAGAGGCTCAACAACTTTAAAATCTC-T-TAAAAAAGC
* *
12996766 T-CTTATCAGCAGAGGCACAACAACTTTAAAATTCTCTTGAAAAAGC
1 TCCTT-TCAGCAGAGGCTCAACAACTTTAAAA-TCTCTTAAAAAAGC
12996812 T
1 T
12996813 TCGACTCAAC
Statistics
Matches: 81, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
45 7 0.09
46 37 0.46
47 33 0.41
48 4 0.05
ACGTcount: A:0.38, C:0.24, G:0.12, T:0.26
Consensus pattern (45 bp):
TCCTTTCAGCAGAGGCTCAACAACTTTAAAATCTCTTAAAAAAGC
Found at i:13001121 original size:14 final size:14
Alignment explanation
Indices: 13001102--13001140 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
13001092 ATGAAATGGC
13001102 AAGAAAATGATGAA
1 AAGAAAATGATGAA
**
13001116 AAGAAAAAAATGAA
1 AAGAAAATGATGAA
13001130 AAGTAAAATGA
1 AAG-AAAATGA
13001141 AGATGAAAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
14 15 0.75
15 5 0.25
ACGTcount: A:0.69, C:0.00, G:0.18, T:0.13
Consensus pattern (14 bp):
AAGAAAATGATGAA
Found at i:13007894 original size:5 final size:5
Alignment explanation
Indices: 13007885--13007918 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
13007875 TGCTTTTTAT
*
13007885 TTTTG ATTTG TTTTG TTTTG TTTTG TTTTG TTTT
1 TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTT
13007919 TTACTAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.03, C:0.00, G:0.18, T:0.79
Consensus pattern (5 bp):
TTTTG
Found at i:13009833 original size:15 final size:15
Alignment explanation
Indices: 13009815--13009861 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
13009805 GGCCAAAAAA
13009815 TTTTTTT-TTGTGTG
1 TTTTTTTGTTGTGTG
* *
13009829 --TTTTTGTAGTTTG
1 TTTTTTTGTTGTGTG
13009842 TTTTTTTGTTGTGTG
1 TTTTTTTGTTGTGTG
13009857 TTTTT
1 TTTTT
13009862 GTAGGTATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
12 5 0.19
13 5 0.19
15 16 0.62
ACGTcount: A:0.02, C:0.00, G:0.21, T:0.77
Consensus pattern (15 bp):
TTTTTTTGTTGTGTG
Found at i:13009874 original size:28 final size:28
Alignment explanation
Indices: 13009814--13009874 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
13009804 TGGCCAAAAA
* *
13009814 ATTTTTTTTTGTGTGTTTTTGTAGTTTG
1 ATTTTTTGTTGTGTGTTTTTGTAGTATG
*
13009842 TTTTTTTGTTGTGTGTTTTTGTAGGTAT-
1 ATTTTTTGTTGTGTGTTTTTGTA-GTATG
13009870 ATTTT
1 ATTTT
13009875 GGCGTTGGGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 25 0.89
29 3 0.11
ACGTcount: A:0.08, C:0.00, G:0.21, T:0.70
Consensus pattern (28 bp):
ATTTTTTGTTGTGTGTTTTTGTAGTATG
Found at i:13010326 original size:3 final size:3
Alignment explanation
Indices: 13010318--13010358 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
13010308 AAATTAAATA
13010318 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
13010359 AATGGTGTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:13010911 original size:27 final size:28
Alignment explanation
Indices: 13010871--13010928 Score: 68
Period size: 26 Copynumber: 2.1 Consensus size: 28
13010861 GAATTGCTCA
*
13010871 ACATTGTTCAGTTATAAT-TACTAGTTTTT
1 ACATTGTTCAGTTA-AATCT-CTAGCTTTT
13010900 ACATT-TT-AGTTAAATCTCTAGCTTTT
1 ACATTGTTCAGTTAAATCTCTAGCTTTT
13010926 ACA
1 ACA
13010929 AAATAAAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
26 14 0.52
27 6 0.22
28 2 0.07
29 5 0.19
ACGTcount: A:0.29, C:0.14, G:0.09, T:0.48
Consensus pattern (28 bp):
ACATTGTTCAGTTAAATCTCTAGCTTTT
Found at i:13012444 original size:27 final size:24
Alignment explanation
Indices: 13012406--13012479 Score: 78
Period size: 24 Copynumber: 3.0 Consensus size: 24
13012396 TATCATTTTG
*
13012406 ATTTTTTATTTAAAATATTAAAGTA
1 ATTTTTTATTTAAAATAATAAA-TA
*
13012431 ATTTTGTTGATTTAATATAATAAATA
1 ATTTT-TT-ATTTAAAATAATAAATA
*
13012457 A-TTTTTATTCTAAATTAATAAAT
1 ATTTTTTATT-TAAAATAATAAAT
13012480 TAATAAATTA
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
23 3 0.07
24 13 0.31
25 8 0.19
26 5 0.12
27 13 0.31
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.51
Consensus pattern (24 bp):
ATTTTTTATTTAAAATAATAAATA
Found at i:13012480 original size:8 final size:8
Alignment explanation
Indices: 13012467--13012495 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
13012457 ATTTTTATTC
13012467 TAAATTAA
1 TAAATTAA
13012475 TAAATTAA
1 TAAATTAA
13012483 TAAATTAA
1 TAAATTAA
13012491 TAAAT
1 TAAAT
13012496 ATTATAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
TAAATTAA
Found at i:13016294 original size:133 final size:133
Alignment explanation
Indices: 13016051--13016297 Score: 352
Period size: 133 Copynumber: 1.9 Consensus size: 133
13016041 AATTTAGATC
* * * *
13016051 TATCAATTCAAGAATTCTACAAACTCTAAATCATACCATTCACCAACCCTACTTTATAAATTTTA
1 TATCAATTCAAGAATTCTACAAACTCTAAATCAAACCATTCACCAACACTACTCTATAAATTCTA
* * * *
13016116 GATCTATCTAGATTTAAGACTACATAACTCTAGATCTTTTTATTCAAGAGTCTACACAACTCTAT
66 GATCTATCCAAATTTAAGACTACACAACTCTAGATCTTTTCATTCAAGAGTCTACACAACTCTAT
13016181 ATT
131 ATT
* ** **
13016184 TATCAATTTAAGAATTCTACAAACTCTTGATCAAACCATTCACTTACACTACTCTATAAATTCTA
1 TATCAATTCAAGAATTCTACAAACTCTAAATCAAACCATTCACCAACACTACTCTATAAATTCTA
*
13016249 GATCTATCCAAATTTGAGA-TGACACAACTCTAGATCTTTTCATTCAAGA
66 GATCTATCCAAATTTAAGACT-ACACAACTCTAGATCTTTTCATTCAAGA
13016298 ACTATGCACT
Statistics
Matches: 99, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
132 1 0.01
133 98 0.99
ACGTcount: A:0.37, C:0.22, G:0.06, T:0.35
Consensus pattern (133 bp):
TATCAATTCAAGAATTCTACAAACTCTAAATCAAACCATTCACCAACACTACTCTATAAATTCTA
GATCTATCCAAATTTAAGACTACACAACTCTAGATCTTTTCATTCAAGAGTCTACACAACTCTAT
ATT
Found at i:13018542 original size:42 final size:43
Alignment explanation
Indices: 13018493--13018610 Score: 136
Period size: 44 Copynumber: 2.8 Consensus size: 43
13018483 ATAATATATA
*
13018493 TTCAAATGAAATATTGTTTATATATTA-ACTATAACATGAATG
1 TTCAAATGAAATATTGTTTATATATCATACTATAACATGAATG
* * * *
13018535 TTCAAATGAAATATAATATTCATAT-TCATATTATAATATGAATG
1 TTCAAATGAAATAT--TGTTTATATATCATACTATAACATGAATG
*
13018579 TTCGAATGAAATATTGTTTATATAT-ATA-TATA
1 TTCAAATGAAATATTGTTTATATATCATACTATA
13018611 CATTCATATT
Statistics
Matches: 64, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
41 4 0.06
42 24 0.38
43 3 0.05
44 33 0.52
ACGTcount: A:0.43, C:0.06, G:0.08, T:0.42
Consensus pattern (43 bp):
TTCAAATGAAATATTGTTTATATATCATACTATAACATGAATG
Found at i:13021484 original size:14 final size:14
Alignment explanation
Indices: 13021447--13021486 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
13021437 ACCAAAGTAT
*
13021447 TAAAAAAATAAAAA
1 TAAAAAAGTAAAAA
13021461 TAAAAAAGTAAAAA
1 TAAAAAAGTAAAAA
*
13021475 TAAAAGAGTAAA
1 TAAAAAAGTAAA
13021487 GTTACACAGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.15
Consensus pattern (14 bp):
TAAAAAAGTAAAAA
Found at i:13022100 original size:3 final size:3
Alignment explanation
Indices: 13022094--13022150 Score: 114
Period size: 3 Copynumber: 19.0 Consensus size: 3
13022084 CAATTATTAT
13022094 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC
13022142 TAC TAC TAC
1 TAC TAC TAC
13022151 AAAAAATTAA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
TAC
Found at i:13023015 original size:19 final size:19
Alignment explanation
Indices: 13022991--13023031 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
13022981 TGAGCTTTGA
*
13022991 GGTGTTAAGTGCATTATAT
1 GGTGTTAAGTGCATCATAT
13023010 GGTGTTAAGTGCATCATAT
1 GGTGTTAAGTGCATCATAT
13023029 GGT
1 GGT
13023032 TGAGTGTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.24, C:0.07, G:0.29, T:0.39
Consensus pattern (19 bp):
GGTGTTAAGTGCATCATAT
Found at i:13023782 original size:19 final size:19
Alignment explanation
Indices: 13023758--13023801 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
13023748 TTAAAATTAA
* *
13023758 TTTCTTTTCTTCTTTTTTT
1 TTTCTTCTCTTCTTTCTTT
*
13023777 TTTCTTCTGTTCTTTCTTT
1 TTTCTTCTCTTCTTTCTTT
13023796 TTTCTT
1 TTTCTT
13023802 GTTTTTGTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.00, C:0.18, G:0.02, T:0.80
Consensus pattern (19 bp):
TTTCTTCTCTTCTTTCTTT
Found at i:13023810 original size:23 final size:24
Alignment explanation
Indices: 13023759--13023815 Score: 61
Period size: 23 Copynumber: 2.5 Consensus size: 24
13023749 TAAAATTAAT
13023759 TTCT-TTTC-TTCTTTTTTTTTTC
1 TTCTGTTTCTTTCTTTTTTTTTTC
13023781 TTCTG-TTCTTTCTTTTTTCTTGTT-
1 TTCTGTTTCTTTCTTTTTT-TT-TTC
13023805 TT-TGTTTCTTT
1 TTCTGTTTCTTT
13023816 TGAAACAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
22 7 0.23
23 11 0.37
24 10 0.33
25 2 0.07
ACGTcount: A:0.00, C:0.16, G:0.05, T:0.79
Consensus pattern (24 bp):
TTCTGTTTCTTTCTTTTTTTTTTC
Found at i:13025652 original size:13 final size:13
Alignment explanation
Indices: 13025634--13025660 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
13025624 ATAAGCATTG
13025634 CTAATGAAAAGAC
1 CTAATGAAAAGAC
13025647 CTAATGAAAAGAC
1 CTAATGAAAAGAC
13025660 C
1 C
13025661 ATTTTGCCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.52, C:0.19, G:0.15, T:0.15
Consensus pattern (13 bp):
CTAATGAAAAGAC
Found at i:13026969 original size:22 final size:22
Alignment explanation
Indices: 13026921--13026998 Score: 61
Period size: 22 Copynumber: 3.5 Consensus size: 22
13026911 ATACCCGAAG
* *
13026921 GACTTTGGAATTATGCCTA-GAA
1 GACTTTGAAATTATG-ATAGGAA
*
13026943 AACTTTGAAATTATGATAGGAA
1 GACTTTGAAATTATGATAGGAA
* * * *
13026965 GACTTTGAGATTGT-ATCTGGAG
1 GACTTTGAAATTATGAT-AGGAA
13026987 GACTTTGAAATT
1 GACTTTGAAATT
13026999 CTACCTGAAG
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
21 4 0.09
22 41 0.91
ACGTcount: A:0.33, C:0.09, G:0.23, T:0.35
Consensus pattern (22 bp):
GACTTTGAAATTATGATAGGAA
Found at i:13027010 original size:22 final size:22
Alignment explanation
Indices: 13026965--13027016 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
13026955 ATGATAGGAA
* * * *
13026965 GACTTTGAGATTGTATCTGGAG
1 GACTTTGAAATTCTACCTGAAG
13026987 GACTTTGAAATTCTACCTGAAG
1 GACTTTGAAATTCTACCTGAAG
13027009 GACTTTGA
1 GACTTTGA
13027017 GGTTGATCTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.27, C:0.13, G:0.25, T:0.35
Consensus pattern (22 bp):
GACTTTGAAATTCTACCTGAAG
Found at i:13027079 original size:22 final size:21
Alignment explanation
Indices: 13027054--13027145 Score: 78
Period size: 22 Copynumber: 4.2 Consensus size: 21
13027044 AACCTTAAGA
*
13027054 ACTTTGCAATTGTGCTTGGAAG
1 ACTTTG-AATTGTGCTCGGAAG
** *
13027076 ACTTTGAACTTGTGCTTAGAAA
1 ACTTTGAA-TTGTGCTCGGAAG
* * *
13027098 ATTTTGGGATTGTGCCCGGAAG
1 ACTTT-GAATTGTGCTCGGAAG
13027120 ACTTTGAAATTGTGCTCGGAA-
1 ACTTTG-AATTGTGCTCGGAAG
13027141 ACTTT
1 ACTTT
13027146 AACATTATGC
Statistics
Matches: 56, Mismatches: 11, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
21 8 0.14
22 46 0.82
23 2 0.04
ACGTcount: A:0.25, C:0.14, G:0.25, T:0.36
Consensus pattern (21 bp):
ACTTTGAATTGTGCTCGGAAG
Found at i:13027156 original size:21 final size:22
Alignment explanation
Indices: 13027054--13027156 Score: 57
Period size: 22 Copynumber: 4.7 Consensus size: 22
13027044 AACCTTAAGA
* * *
13027054 ACTTTGCAATTGTGCTTGGAAG
1 ACTTTGAAATTATGCTCGGAAG
* * ** *
13027076 ACTTTGAACTTGTGCTTAGAAA
1 ACTTTGAAATTATGCTCGGAAG
* ** * *
13027098 ATTTTGGGATTGTGCCCGGAAG
1 ACTTTGAAATTATGCTCGGAAG
*
13027120 ACTTTGAAATTGTGCTCGGAA-
1 ACTTTGAAATTATGCTCGGAAG
13027141 ACTTT-AACATTATGCT
1 ACTTTGAA-ATTATGCT
13027157 TAGAGGACTT
Statistics
Matches: 63, Mismatches: 17, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
20 2 0.03
21 12 0.19
22 49 0.78
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (22 bp):
ACTTTGAAATTATGCTCGGAAG
Found at i:13027214 original size:40 final size:40
Alignment explanation
Indices: 13027170--13027268 Score: 132
Period size: 40 Copynumber: 2.5 Consensus size: 40
13027160 AGGACTTTGT
*
13027170 AATCTTTCAAAAATTTAAGAA-TTTG-TTATAA-GTCTTTAGA
1 AATCTTTCAAAAATTTAA-AACTTTGCTTA-AAGGTCTTGA-A
*
13027210 AATCTTTCAAAATTTTAAAACTTTGCTTAAAGGTCTTGAA
1 AATCTTTCAAAAATTTAAAACTTTGCTTAAAGGTCTTGAA
13027250 AATCTTTCAAAAATTTAAA
1 AATCTTTCAAAAATTTAAA
13027269 GTTTTTGCCT
Statistics
Matches: 53, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
39 2 0.04
40 42 0.79
41 9 0.17
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.40
Consensus pattern (40 bp):
AATCTTTCAAAAATTTAAAACTTTGCTTAAAGGTCTTGAA
Found at i:13027276 original size:41 final size:40
Alignment explanation
Indices: 13027170--13027357 Score: 132
Period size: 41 Copynumber: 4.6 Consensus size: 40
13027160 AGGACTTTGT
* *
13027170 AATCTTTCAAAAATTT-AAGAATTTGTTATAA-GTCTTTAGA
1 AATCTTTCAAAAATTTAAAGATTTTGTTA-AAGGTCTTGA-A
* *
13027210 AATCTTTCAAAATTTTAAA-ACTTTGCTTAAAGGTCTTGAA
1 AATCTTTCAAAAATTTAAAGATTTTG-TTAAAGGTCTTGAA
* * ** *
13027250 AATCTTTCAAAAATTTAAAGTTTTTGCCTAAAAATCTTGGA
1 AATCTTTCAAAAATTTAAAGATTTTG-TTAAAGGTCTTGAA
* ** * * *
13027291 ATTCATTAAAAAAATTT-AAGGTTTTGTCCAGAGGTCTTGAA
1 AATC-TTTCAAAAATTTAAAGATTTTGT-TAAAGGTCTTGAA
* *
13027332 AATCATCTAAAAAATTTAAAGATTTT
1 AATC-TTTCAAAAATTTAAAGATTTT
13027358 TCCAGAGGTA
Statistics
Matches: 117, Mismatches: 24, Indels: 12
0.76 0.16 0.08
Matches are distributed among these distances:
40 41 0.35
41 59 0.50
42 17 0.15
ACGTcount: A:0.40, C:0.10, G:0.11, T:0.39
Consensus pattern (40 bp):
AATCTTTCAAAAATTTAAAGATTTTGTTAAAGGTCTTGAA
Found at i:13027362 original size:41 final size:41
Alignment explanation
Indices: 13027240--13027397 Score: 144
Period size: 41 Copynumber: 3.9 Consensus size: 41
13027230 CTTTGCTTAA
* *
13027240 AGGTCTTGAAAATC-TTTCAAAAATTTAAAG-TTTTTGCCTAA
1 AGGTCTTGAAAATCATTTAAAAAATTTAAAGATTTTT-CC-AG
** * * * *
13027281 AAATCTTGGAATTCATTAAAAAAATTT-AAGGTTTTGTCCAG
1 AGGTCTTGAAAATCATTTAAAAAATTTAAAGATTTT-TCCAG
*
13027322 AGGTCTTGAAAATCATCTAAAAAATTTAAAGATTTTTCCAG
1 AGGTCTTGAAAATCATTTAAAAAATTTAAAGATTTTTCCAG
* * *
13027363 AGGTATTTAGAAATCATTTTAAAAATTTAAA-ATTT
1 AGGTCTTGA-AAATCATTTAAAAAATTTAAAGATTT
13027398 CATCAGGAAG
Statistics
Matches: 94, Mismatches: 18, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
41 51 0.54
42 42 0.45
43 1 0.01
ACGTcount: A:0.41, C:0.09, G:0.12, T:0.38
Consensus pattern (41 bp):
AGGTCTTGAAAATCATTTAAAAAATTTAAAGATTTTTCCAG
Found at i:13029204 original size:16 final size:18
Alignment explanation
Indices: 13029174--13029206 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
13029164 ATTTAAATTT
13029174 ATCCAAAATGAAATAATG
1 ATCCAAAATGAAATAATG
13029192 ATCC-AAATG-AATAAT
1 ATCCAAAATGAAATAAT
13029207 TAGGTAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 5 0.33
18 4 0.27
ACGTcount: A:0.55, C:0.12, G:0.09, T:0.24
Consensus pattern (18 bp):
ATCCAAAATGAAATAATG
Found at i:13032524 original size:35 final size:38
Alignment explanation
Indices: 13032480--13032550 Score: 94
Period size: 38 Copynumber: 1.9 Consensus size: 38
13032470 CATTGAATAA
*
13032480 AATGCATGTAATAT-CTA-T-TGATGTGGATGAGATGG
1 AATGCATGTAATATCCTATTATGATGTGCATGAGATGG
* *
13032515 AATGGATGTATTATCCTATTATGATGTGCATGAGAT
1 AATGCATGTAATATCCTATTATGATGTGCATGAGAT
13032551 AGGATACATG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
35 12 0.40
36 3 0.10
37 1 0.03
38 14 0.47
ACGTcount: A:0.31, C:0.07, G:0.25, T:0.37
Consensus pattern (38 bp):
AATGCATGTAATATCCTATTATGATGTGCATGAGATGG
Found at i:13032562 original size:38 final size:38
Alignment explanation
Indices: 13032498--13032574 Score: 95
Period size: 38 Copynumber: 2.0 Consensus size: 38
13032488 TAATATCTAT
* **
13032498 TGATGTGGATGAGATGGAATGGATGTATTATCC-TATTA
1 TGATGTGCATGAGATGGAATACATGTATTA-CCTTATTA
13032536 TGATGTGCATGAGATAGG-ATACATGTATTACCTTATTA
1 TGATGTGCATGAGAT-GGAATACATGTATTACCTTATTA
13032574 T
1 T
13032575 TCCCAATCAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
37 2 0.06
38 30 0.88
39 2 0.06
ACGTcount: A:0.30, C:0.08, G:0.25, T:0.38
Consensus pattern (38 bp):
TGATGTGCATGAGATGGAATACATGTATTACCTTATTA
Found at i:13033609 original size:25 final size:25
Alignment explanation
Indices: 13033582--13033763 Score: 213
Period size: 25 Copynumber: 7.2 Consensus size: 25
13033572 AATACAAAAT
* *
13033582 AAATGACATAATTTAAATATGCATTAA
1 AAATGACATAATTAAAATATGCA-T-G
* *
13033609 AAATGACATATTTACAATATGCATG
1 AAATGACATAATTAAAATATGCATG
* * **
13033634 AAATAATATAATTAAAATATATATG
1 AAATGACATAATTAAAATATGCATG
*
13033659 AAATGATATAATTAAAATATGCATG
1 AAATGACATAATTAAAATATGCATG
*
13033684 AAATGACATAATTAAAATATGTATG
1 AAATGACATAATTAAAATATGCATG
*
13033709 AAATGACATAATCT-CAATATGCATG
1 AAATGACATAAT-TAAAATATGCATG
* *
13033734 AAATGATATAATTAAAATATGTATG
1 AAATGACATAATTAAAATATGCATG
13033759 AAATG
1 AAATG
13033764 TAAACAACAC
Statistics
Matches: 133, Mismatches: 20, Indels: 6
0.84 0.13 0.04
Matches are distributed among these distances:
24 1 0.01
25 110 0.83
26 2 0.02
27 20 0.15
ACGTcount: A:0.51, C:0.06, G:0.10, T:0.32
Consensus pattern (25 bp):
AAATGACATAATTAAAATATGCATG
Found at i:13033679 original size:50 final size:50
Alignment explanation
Indices: 13033582--13033763 Score: 240
Period size: 50 Copynumber: 3.6 Consensus size: 50
13033572 AATACAAAAT
* * * * *
13033582 AAATGACATAATTTAAATATGCATTAAAAATGACATATTTACAATATGCATG
1 AAATGATATAATTAAAATATGTA-T-GAAATGACATAATTACAATATGCATG
* * * *
13033634 AAATAATATAATTAAAATATATATGAAATGATATAATTAAAATATGCATG
1 AAATGATATAATTAAAATATGTATGAAATGACATAATTACAATATGCATG
*
13033684 AAATGACATAATTAAAATATGTATGAAATGACATAATCT-CAATATGCATG
1 AAATGATATAATTAAAATATGTATGAAATGACATAAT-TACAATATGCATG
13033734 AAATGATATAATTAAAATATGTATGAAATG
1 AAATGATATAATTAAAATATGTATGAAATG
13033764 TAAACAACAC
Statistics
Matches: 114, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
50 94 0.82
51 2 0.02
52 18 0.16
ACGTcount: A:0.51, C:0.06, G:0.10, T:0.32
Consensus pattern (50 bp):
AAATGATATAATTAAAATATGTATGAAATGACATAATTACAATATGCATG
Found at i:13034519 original size:17 final size:17
Alignment explanation
Indices: 13034497--13034529 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
13034487 TTTTTGGATC
13034497 AATATCAAAACACTTTA
1 AATATCAAAACACTTTA
*
13034514 AATATCAAAATACTTT
1 AATATCAAAACACTTT
13034530 TTCTACTCTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (17 bp):
AATATCAAAACACTTTA
Found at i:13035088 original size:7 final size:7
Alignment explanation
Indices: 13035076--13035184 Score: 50
Period size: 7 Copynumber: 16.3 Consensus size: 7
13035066 TAGGTCTAGG
13035076 TTAGGGT
1 TTAGGGT
13035083 TTAGGGT
1 TTAGGGT
*
13035090 TTA-GAT
1 TTAGGGT
*
13035096 TTAAGGT
1 TTAGGGT
*
13035103 TTA-GTT
1 TTAGGGT
*
13035109 TTATGGT
1 TTAGGGT
*
13035116 TTAGAGT
1 TTAGGGT
13035123 TTA-GGT
1 TTAGGGT
**
13035129 TTATAGT
1 TTAGGGT
*
13035136 TTATGGT
1 TTAGGGT
**
13035143 TT-GTAT
1 TTAGGGT
13035149 TTAGGGT
1 TTAGGGT
* *
13035156 TTCATGTT
1 TT-AGGGT
*
13035164 TTAAGG-
1 TTAGGGT
13035170 -TAGGGT
1 TTAGGGT
13035176 TTAGGGT
1 TTAGGGT
13035183 TT
1 TT
13035185 GAATTTGGGG
Statistics
Matches: 76, Mismatches: 19, Indels: 14
0.70 0.17 0.13
Matches are distributed among these distances:
5 4 0.05
6 18 0.24
7 49 0.64
8 5 0.07
ACGTcount: A:0.19, C:0.01, G:0.29, T:0.50
Consensus pattern (7 bp):
TTAGGGT
Found at i:13035098 original size:13 final size:13
Alignment explanation
Indices: 13035082--13035157 Score: 66
Period size: 13 Copynumber: 5.8 Consensus size: 13
13035072 TAGGTTAGGG
13035082 TTTAGGGTTTAGA
1 TTTAGGGTTTAGA
* *
13035095 TTTAAGGTTTAGT
1 TTTAGGGTTTAGA
*
13035108 TTTATGGTTTAGA
1 TTTAGGGTTTAGA
*
13035121 GTTTA-GGTTTATA
1 -TTTAGGGTTTAGA
*
13035134 GTTTATGGTTT-GTA
1 -TTTAGGGTTTAG-A
13035148 TTTAGGGTTT
1 TTTAGGGTTT
13035158 CATGTTTTAA
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
13 43 0.81
14 10 0.19
ACGTcount: A:0.20, C:0.00, G:0.26, T:0.54
Consensus pattern (13 bp):
TTTAGGGTTTAGA
Found at i:13035102 original size:26 final size:25
Alignment explanation
Indices: 13035072--13035129 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 25
13035062 GGTCTAGGTC
13035072 TAGGTTAGGGTTTAGGGTTTAGA-TT
1 TAGGTTA-GGTTTAGGGTTTAGAGTT
* *
13035097 TAAGGTTTAGTTTTATGGTTTAGAGTT
1 T-AGG-TTAGGTTTAGGGTTTAGAGTT
13035124 TAGGTT
1 TAGGTT
13035130 TATAGTTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
25 3 0.11
26 19 0.68
27 6 0.21
ACGTcount: A:0.21, C:0.00, G:0.31, T:0.48
Consensus pattern (25 bp):
TAGGTTAGGTTTAGGGTTTAGAGTT
Found at i:13035118 original size:20 final size:20
Alignment explanation
Indices: 13035095--13035157 Score: 58
Period size: 20 Copynumber: 3.1 Consensus size: 20
13035085 AGGGTTTAGA
13035095 TTTAAGGTTTAGTTTTATGG
1 TTTAAGGTTTAGTTTTATGG
* *
13035115 TTT-AGAGTTTAGGTTTATAG
1 TTTAAG-GTTTAGTTTTATGG
* *
13035135 TTTATGGTTT-GTATTTAGGG
1 TTTAAGGTTTAGT-TTTATGG
13035155 TTT
1 TTT
13035158 CATGTTTTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
19 3 0.09
20 30 0.88
21 1 0.03
ACGTcount: A:0.19, C:0.00, G:0.25, T:0.56
Consensus pattern (20 bp):
TTTAAGGTTTAGTTTTATGG
Found at i:13038133 original size:40 final size:39
Alignment explanation
Indices: 13038078--13038175 Score: 115
Period size: 40 Copynumber: 2.4 Consensus size: 39
13038068 CGGGTCTTAT
** ** *
13038078 CCTTAATTTTTAAAGTTGTGTGCCTTGGTATTGAAAGAGC
1 CCTTAA-TTTTAAAGTTGTGCACCTTCATATTGAAAGAAC
13038118 CCTTAATTCTTAAAGTTGTGCACCTTCATATTGAAAGAAC
1 CCTTAATT-TTAAAGTTGTGCACCTTCATATTGAAAGAAC
*
13038158 CTTTAAATTTTAAAGTTG
1 CCTT-AATTTTAAAGTTG
13038176 CATGCTTTCA
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
39 2 0.04
40 44 0.88
41 4 0.08
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.40
Consensus pattern (39 bp):
CCTTAATTTTAAAGTTGTGCACCTTCATATTGAAAGAAC
Found at i:13038454 original size:13 final size:13
Alignment explanation
Indices: 13038436--13038478 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
13038426 TTTTATGTTC
13038436 TTATGTTTTTATT
1 TTATGTTTTTATT
*
13038449 TTATGTTTTGATAT
1 TTATGTTTTTAT-T
*
13038463 TTATTTTATTTATT
1 TTATGTT-TTTATT
13038477 TT
1 TT
13038479 TACATCTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
13 11 0.44
14 10 0.40
15 4 0.16
ACGTcount: A:0.19, C:0.00, G:0.07, T:0.74
Consensus pattern (13 bp):
TTATGTTTTTATT
Found at i:13039565 original size:20 final size:21
Alignment explanation
Indices: 13039535--13039574 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
13039525 TTATTTTATT
13039535 TTATGTTATTTTTTTGTTTGG
1 TTATGTTATTTTTTTGTTTGG
13039556 TTAT-TTATTTTTTTGTTTG
1 TTATGTTATTTTTTTGTTTG
13039575 TTTGTCTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.10, C:0.00, G:0.15, T:0.75
Consensus pattern (21 bp):
TTATGTTATTTTTTTGTTTGG
Found at i:13039584 original size:20 final size:20
Alignment explanation
Indices: 13039541--13039585 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
13039531 TATTTTATGT
*
13039541 TATTTTTTTGTTTGGTTATT
1 TATTTTTTTGTTTGGTTATC
* *
13039561 TATTTTTTTGTTTGTTTGTC
1 TATTTTTTTGTTTGGTTATC
13039581 TATTT
1 TATTT
13039586 ATTCATTTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.09, C:0.02, G:0.13, T:0.76
Consensus pattern (20 bp):
TATTTTTTTGTTTGGTTATC
Found at i:13039602 original size:24 final size:24
Alignment explanation
Indices: 13039557--13039603 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
13039547 TTTGTTTGGT
** * *
13039557 TATTTATTTTTTTGTTTGTTTGTC
1 TATTTATTCATTTCTTTATTTGTC
13039581 TATTTATTCATTTCTTTATTTGT
1 TATTTATTCATTTCTTTATTTGT
13039604 AAATTTTTTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.13, C:0.06, G:0.09, T:0.72
Consensus pattern (24 bp):
TATTTATTCATTTCTTTATTTGTC
Found at i:13042197 original size:113 final size:113
Alignment explanation
Indices: 13041999--13042224 Score: 389
Period size: 113 Copynumber: 2.0 Consensus size: 113
13041989 AAAACTTAAA
13041999 AAAAAAATTTGGGTTGTAATTTCACATAAAGAGGCTCTGACACCACATGTAAGTATAATCCAAGG
1 AAAAAAATTTGGGTTGTAATTTCACATAAAGAGGCTCTGACACCACATGTAAGTATAATCCAAGG
* * *
13042064 TCACTATGTGAAAATAAGAACATCACAATTAGACAAATTAACTGACAT
66 TCACTATATGAAAAGAAGAACATCACAATTAGACAAATTAACTAACAT
* * *
13042112 AAAAAAATTTGGGTTGTAATTTCACATAAAGAGGTTTTGATACCACATGTAAGTATAATCCAAGG
1 AAAAAAATTTGGGTTGTAATTTCACATAAAGAGGCTCTGACACCACATGTAAGTATAATCCAAGG
*
13042177 TCACTATATGAATAGAAGAACATCACAATTAGACAAATTAACTAACAT
66 TCACTATATGAAAAGAAGAACATCACAATTAGACAAATTAACTAACAT
13042225 GCTTGTTTGG
Statistics
Matches: 106, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
113 106 1.00
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.27
Consensus pattern (113 bp):
AAAAAAATTTGGGTTGTAATTTCACATAAAGAGGCTCTGACACCACATGTAAGTATAATCCAAGG
TCACTATATGAAAAGAAGAACATCACAATTAGACAAATTAACTAACAT
Found at i:13045491 original size:18 final size:17
Alignment explanation
Indices: 13045465--13045517 Score: 65
Period size: 18 Copynumber: 3.1 Consensus size: 17
13045455 ATATAAGAAA
*
13045465 AATACTAAAAAATACAAT
1 AATAGTAAAAAATA-AAT
13045483 AATAGTAAAAAATAAA-
1 AATAGTAAAAAATAAAT
13045499 AA-AGTAAATAAATAAAT
1 AATAGTAAA-AAATAAAT
13045516 AA
1 AA
13045518 AAGAAAAACT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
15 6 0.19
16 9 0.28
17 4 0.12
18 13 0.41
ACGTcount: A:0.72, C:0.04, G:0.04, T:0.21
Consensus pattern (17 bp):
AATAGTAAAAAATAAAT
Found at i:13045534 original size:33 final size:33
Alignment explanation
Indices: 13045470--13045534 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 33
13045460 AGAAAAATAC
*
13045470 TAAAAAATACAATAATAGTAAAAAATAAAAAAG
1 TAAAAAATACAATAAAAGTAAAAAATAAAAAAG
*
13045503 TAAATAAATA-AATAAAAG-AAAAACTAGAAAAA
1 TAAA-AAATACAATAAAAGTAAAAAATA-AAAAA
13045535 ATATAAACAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
32 7 0.25
33 16 0.57
34 5 0.18
ACGTcount: A:0.74, C:0.03, G:0.06, T:0.17
Consensus pattern (33 bp):
TAAAAAATACAATAAAAGTAAAAAATAAAAAAG
Found at i:13047174 original size:17 final size:18
Alignment explanation
Indices: 13047152--13047193 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
13047142 TGAAAATTTG
13047152 ATTTTTTAGGATTTTTTT
1 ATTTTTTAGGATTTTTTT
*
13047170 ATTTTTTGGGATTTTTTT
1 ATTTTTTAGGATTTTTTT
13047188 ATTTTT
1 ATTTTT
13047194 AAAATTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.14, C:0.00, G:0.12, T:0.74
Consensus pattern (18 bp):
ATTTTTTAGGATTTTTTT
Found at i:13048459 original size:57 final size:56
Alignment explanation
Indices: 13048398--13048506 Score: 157
Period size: 57 Copynumber: 1.9 Consensus size: 56
13048388 ATGAAAAAGC
* * *
13048398 AAAGTCAGAAGATGTAAAT-ACTAAATATCTTGTTTTCTTAAATCTTTCAAAAAAAAA
1 AAAGTCAAAAGATGCAAATCAC-AAA-ATCTTATTTTCTTAAATCTTTCAAAAAAAAA
13048455 AAAGTCAAAAGATGCAAATGCACAAAATCTTATTTTCTTAAATCTTTCAAAA
1 AAAGTCAAAAGATGCAAAT-CACAAAATCTTATTTTCTTAAATCTTTCAAAA
13048507 TTCTTTTTCT
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
57 42 0.89
58 3 0.06
59 2 0.04
ACGTcount: A:0.47, C:0.13, G:0.08, T:0.32
Consensus pattern (56 bp):
AAAGTCAAAAGATGCAAATCACAAAATCTTATTTTCTTAAATCTTTCAAAAAAAAA
Found at i:13054464 original size:11 final size:10
Alignment explanation
Indices: 13054447--13054486 Score: 53
Period size: 10 Copynumber: 3.8 Consensus size: 10
13054437 CTTTCCTACA
13054447 TTTTTATTAT
1 TTTTTATTAT
13054457 TATTTTATTTAT
1 T-TTTTA-TTAT
*
13054469 TTTTTATCAT
1 TTTTTATTAT
13054479 TTTTTATT
1 TTTTTATT
13054487 TTATTTTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
10 11 0.42
11 10 0.38
12 5 0.19
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.78
Consensus pattern (10 bp):
TTTTTATTAT
Found at i:13054474 original size:22 final size:22
Alignment explanation
Indices: 13054447--13054494 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
13054437 CTTTCCTACA
*
13054447 TTTTTATTATTATTTTA-TTTAT
1 TTTTTATCATT-TTTTATTTTAT
13054469 TTTTTATCATTTTTTATTTTAT
1 TTTTTATCATTTTTTATTTTAT
13054491 TTTT
1 TTTT
13054495 AAAGAAGATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 5 0.21
22 19 0.79
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (22 bp):
TTTTTATCATTTTTTATTTTAT
Found at i:13054656 original size:24 final size:27
Alignment explanation
Indices: 13054599--13054665 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 27
13054589 GAAAAATATT
*
13054599 GAAAAAAAAATAAAAAGGAAAAAAGTA
1 GAAAAATAAATAAAAAGGAAAAAAGTA
13054626 -AATAAATAAAT-AAAA-G-AAAAAGTA
1 GAA-AAATAAATAAAAAGGAAAAAAGTA
13054650 GAAAAATACAA-AAAAA
1 GAAAAATA-AATAAAAA
13054666 TCTTGAACTG
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
24 13 0.37
25 9 0.26
26 6 0.17
27 7 0.20
ACGTcount: A:0.78, C:0.01, G:0.10, T:0.10
Consensus pattern (27 bp):
GAAAAATAAATAAAAAGGAAAAAAGTA
Found at i:13056098 original size:9 final size:9
Alignment explanation
Indices: 13056084--13056123 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
13056074 TAAGTACACA
13056084 TTTAATATG
1 TTTAATATG
*
13056093 TTTAATAAG
1 TTTAATATG
*
13056102 TTTAACATG
1 TTTAATATG
*
13056111 TTTAATACG
1 TTTAATATG
13056120 TTTA
1 TTTA
13056124 GGTCATGTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.35, C:0.05, G:0.10, T:0.50
Consensus pattern (9 bp):
TTTAATATG
Found at i:13056133 original size:20 final size:18
Alignment explanation
Indices: 13056084--13056123 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
13056074 TAAGTACACA
* *
13056084 TTTAATATGTTTAATAAG
1 TTTAACATGTTTAATACG
13056102 TTTAACATGTTTAATACG
1 TTTAACATGTTTAATACG
13056120 TTTA
1 TTTA
13056124 GGTCATGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.35, C:0.05, G:0.10, T:0.50
Consensus pattern (18 bp):
TTTAACATGTTTAATACG
Found at i:13056835 original size:31 final size:30
Alignment explanation
Indices: 13056770--13056838 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 30
13056760 TTTGAATTTA
*
13056770 ATATTAAAAATTAATATAGTTATGTAATAT
1 ATATTAAAAATTAATATAGTTATGTAATAC
*
13056800 ATATTAAAATTTAAATATA-TATAT-TAAATAC
1 ATATTAAAAATT-AATATAGT-TATGT-AATAC
13056831 ATATTAAA
1 ATATTAAA
13056839 TGGGTATTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
30 13 0.38
31 21 0.62
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (30 bp):
ATATTAAAAATTAATATAGTTATGTAATAC
Found at i:13057008 original size:29 final size:29
Alignment explanation
Indices: 13056982--13057041 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 29
13056972 TGTGTTAGGT
13056982 ATATCTATTCATATATATCCATATTAGTC
1 ATATCTATTCATATATATCCATATTAGTC
* * * *
13057011 ATGTCTATTCATGTATATCCATGTTATTC
1 ATATCTATTCATATATATCCATATTAGTC
13057040 AT
1 AT
13057042 CGTTTCGTAC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.30, C:0.17, G:0.07, T:0.47
Consensus pattern (29 bp):
ATATCTATTCATATATATCCATATTAGTC
Found at i:13064236 original size:18 final size:18
Alignment explanation
Indices: 13064213--13064248 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
13064203 TCCATTTTGG
*
13064213 ATTCTTGCTTTTTTGCTT
1 ATTCTTGCTTCTTTGCTT
*
13064231 ATTCTTTCTTCTTTGCTT
1 ATTCTTGCTTCTTTGCTT
13064249 TCTCCTTCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.06, C:0.19, G:0.08, T:0.67
Consensus pattern (18 bp):
ATTCTTGCTTCTTTGCTT
Found at i:13066942 original size:37 final size:36
Alignment explanation
Indices: 13066892--13066996 Score: 156
Period size: 37 Copynumber: 2.9 Consensus size: 36
13066882 AAATAATTTA
* *
13066892 TTTTTTAGAATTATCTTCCAATATGTTGGTAAAACT
1 TTTTTTAAAATTATCTTCCAATATGTTAGTAAAACT
*
13066928 TTTTATTAAAATTATCTTCCAATATGTTAGTGAAACT
1 TTTT-TTAAAATTATCTTCCAATATGTTAGTAAAACT
*
13066965 TTTTGTTAAAATCATCTTCCAATATGTTAGTA
1 TTTT-TTAAAATTATCTTCCAATATGTTAGTA
13066997 GGATTTCATG
Statistics
Matches: 62, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
36 4 0.06
37 58 0.94
ACGTcount: A:0.32, C:0.11, G:0.10, T:0.47
Consensus pattern (36 bp):
TTTTTTAAAATTATCTTCCAATATGTTAGTAAAACT
Found at i:13067144 original size:43 final size:43
Alignment explanation
Indices: 13067082--13067163 Score: 146
Period size: 43 Copynumber: 1.9 Consensus size: 43
13067072 CTTATTTTTA
*
13067082 GACTTTTCTTAAAACATCACAAACCTTCCAATATGTTGGCATG
1 GACTTTTCTTAAAACATCACAAACCATCCAATATGTTGGCATG
*
13067125 GACTTTTCTTAAAATATCACAAACCATCCAATATGTTGG
1 GACTTTTCTTAAAACATCACAAACCATCCAATATGTTGG
13067164 TAAGGTTTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.34, C:0.22, G:0.11, T:0.33
Consensus pattern (43 bp):
GACTTTTCTTAAAACATCACAAACCATCCAATATGTTGGCATG
Found at i:13067224 original size:56 final size:59
Alignment explanation
Indices: 13067151--13067261 Score: 165
Period size: 60 Copynumber: 1.9 Consensus size: 59
13067141 TCACAAACCA
*
13067151 TCCAATATGTTGGTAA-GG-TTTATTTTTT-ATTTTAAGAAATTAAAAAATTTACACCC
1 TCCAATATGTTGATAAGGGTTTTATTTTTTGATTTTAAGAAATTAAAAAATTTACACCC
* *
13067207 TCCAATATGTTGATAAGGGTTTTTTTTTTTTGGTTTTAAGAAATTAAAAAATTTA
1 TCCAATATGTTGATAAGGG-TTTTATTTTTTGATTTTAAGAAATTAAAAAATTTA
13067262 AACTTTTCGG
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
56 15 0.31
57 2 0.04
59 9 0.19
60 22 0.46
ACGTcount: A:0.34, C:0.07, G:0.13, T:0.46
Consensus pattern (59 bp):
TCCAATATGTTGATAAGGGTTTTATTTTTTGATTTTAAGAAATTAAAAAATTTACACCC
Found at i:13068503 original size:13 final size:14
Alignment explanation
Indices: 13068476--13068517 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
13068466 AGATAGATAA
*
13068476 ATAAACATAACAAC
1 ATAAACATAAAAAC
13068490 ATAAA-ATAAAAAC
1 ATAAACATAAAAAC
13068503 ATAAGAACATAAAAA
1 AT-A-AACATAAAAA
13068518 GAATATAGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
13 9 0.38
14 6 0.25
15 2 0.08
16 7 0.29
ACGTcount: A:0.71, C:0.12, G:0.02, T:0.14
Consensus pattern (14 bp):
ATAAACATAAAAAC
Found at i:13070051 original size:14 final size:14
Alignment explanation
Indices: 13070032--13070058 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
13070022 ATTTTATTCA
13070032 TATTTTAATTTTTT
1 TATTTTAATTTTTT
13070046 TATTTTAATTTTT
1 TATTTTAATTTTT
13070059 GCTTTAATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (14 bp):
TATTTTAATTTTTT
Found at i:13075268 original size:13 final size:13
Alignment explanation
Indices: 13075250--13075300 Score: 95
Period size: 13 Copynumber: 4.0 Consensus size: 13
13075240 TAAGAATATT
13075250 GCATTCATTCATG
1 GCATTCATTCATG
13075263 GCATTCATTCATG
1 GCATTCATTCATG
13075276 GCATTCATTCATG
1 GCATTCATTCATG
13075289 GCATTCA-TCATG
1 GCATTCATTCATG
13075301 CATATTTGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
12 5 0.13
13 33 0.87
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.37
Consensus pattern (13 bp):
GCATTCATTCATG
Found at i:13075885 original size:38 final size:38
Alignment explanation
Indices: 13075812--13075886 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
13075802 CTGGACATGA
* * *
13075812 TTTTATTTTTTCAAAGTTAAATCCTTAATGAAGGAGTT
1 TTTTATTTTTCCAAAGTTAAAGCCTCAATGAAGGAGTT
13075850 TTTTATTTTTCCAAAGTTAAAGCCTCAATTG-AGGAGT
1 TTTTATTTTTCCAAAGTTAAAGCCTCAA-TGAAGGAGT
13075887 GTAGAGGAGT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
38 31 0.94
39 2 0.06
ACGTcount: A:0.31, C:0.11, G:0.15, T:0.44
Consensus pattern (38 bp):
TTTTATTTTTCCAAAGTTAAAGCCTCAATGAAGGAGTT
Found at i:13075955 original size:38 final size:38
Alignment explanation
Indices: 13075893--13076015 Score: 160
Period size: 38 Copynumber: 3.2 Consensus size: 38
13075883 GAGTGTAGAG
13075893 GAGTTCTTTA-TTTTTTCAAAAGTTGAAGCCTCGGTGGAA
1 GAGTTCTTTATTTTTTTC--AAGTTGAAGCCTCGGTGGAA
*
13075932 GAGTTCTTTATTTTTTTCAAGTTGAAGCCTCGGTGGAG
1 GAGTTCTTTATTTTTTTCAAGTTGAAGCCTCGGTGGAA
* * * *
13075970 GAGTACTTTATTTTTTT-AAGTTAAAGCGTCGATGGAA
1 GAGTTCTTTATTTTTTTCAAGTTGAAGCCTCGGTGGAA
*
13076007 AAGTTCTTT
1 GAGTTCTTT
13076016 GTTTCTCAAA
Statistics
Matches: 75, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
37 23 0.31
38 35 0.47
39 10 0.13
40 7 0.09
ACGTcount: A:0.24, C:0.11, G:0.23, T:0.41
Consensus pattern (38 bp):
GAGTTCTTTATTTTTTTCAAGTTGAAGCCTCGGTGGAA
Found at i:13076168 original size:43 final size:43
Alignment explanation
Indices: 13076110--13076245 Score: 170
Period size: 43 Copynumber: 3.2 Consensus size: 43
13076100 TTTCAAGTCC
13076110 TAGTTAT-GAGAGAGCATTTTATTTTCCAAAAGTTCCAAAGCCT
1 TAGTTATGGAG-GAGCATTTTATTTTCCAAAAGTTCCAAAGCCT
* * * *
13076153 TAATTATGGGGGAGCATTTTATTTTTCAAAAG-TCTTAAAGCCT
1 TAGTTATGGAGGAGCATTTTATTTTCCAAAAGTTC-CAAAGCCT
* *
13076196 TAGTTATGGAGGAGTATTTTATTTTCCAAAAGTAT-CAATGCCT
1 TAGTTATGGAGGAGCATTTTATTTTCCAAAAGT-TCCAAAGCCT
13076239 TAGTTAT
1 TAGTTAT
13076246 ATGGAAGCTT
Statistics
Matches: 79, Mismatches: 10, Indels: 8
0.81 0.10 0.08
Matches are distributed among these distances:
42 2 0.03
43 74 0.94
44 2 0.03
45 1 0.01
ACGTcount: A:0.31, C:0.12, G:0.18, T:0.39
Consensus pattern (43 bp):
TAGTTATGGAGGAGCATTTTATTTTCCAAAAGTTCCAAAGCCT
Found at i:13077148 original size:20 final size:19
Alignment explanation
Indices: 13077123--13077180 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 19
13077113 TTTTGCATGA
13077123 ATTTGCATGACTAATATTAT
1 ATTTGCATGA-TAATATTAT
*
13077143 ATTTGCATGATTAATACTAT
1 ATTTGCATGA-TAATATTAT
*
13077163 ATTCGCATGATAAT-TTAT
1 ATTTGCATGATAATATTAT
13077181 TTGCCTAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
18 3 0.09
19 4 0.12
20 27 0.79
ACGTcount: A:0.34, C:0.10, G:0.10, T:0.45
Consensus pattern (19 bp):
ATTTGCATGATAATATTAT
Found at i:13077250 original size:21 final size:20
Alignment explanation
Indices: 13077202--13077574 Score: 144
Period size: 21 Copynumber: 17.4 Consensus size: 20
13077192 TTTATTTGTG
* *
13077202 TTATTAATATATTTGCATGA
1 TTATTAATTTAATTGCATGA
* **
13077222 AT-TTAATTTGCTTGCATGA
1 TTATTAATTTAATTGCATGA
13077241 TTTATTAATTTAATTGCATGA
1 -TTATTAATTTAATTGCATGA
* * ***
13077262 TTATTAATATATTTATTTGAA
1 TTATTAATTTAATTGCATG-A
* *
13077283 TGATTTATTTAATTGCATGA
1 TTATTAATTTAATTGCATGA
*
13077303 TTTATTAATTTAATTGCATAA
1 -TTATTAATTTAATTGCATGA
*
13077324 TTATTAATATATTTATTTGCATGA
1 TTA-T--TA-ATTTAATTGCATGA
* * **
13077348 TTA-AATATTTATTTGTGTGA
1 TTATTA-ATTTAATTGCATGA
* *
13077368 TATATTAATATATTTGCATGA
1 T-TATTAATTTAATTGCATGA
*
13077389 TTATTAATATATTTATTTGCATGA
1 TTA-T--TA-ATTTAATTGCATGA
* * **
13077413 TTA-AATATTTATTTGTGTGA
1 TTATTA-ATTTAATTGCATGA
* *
13077433 TATATTAATATATTTGCATGA
1 T-TATTAATTTAATTGCATGA
* *
13077454 TTATTAATATATTTATTTGTATGA
1 TTA-T--TA-ATTTAATTGCATGA
13077478 TTATATTTAATTTAATTGCATGA
1 -T-TA-TTAATTTAATTGCATGA
*
13077501 TTATTAATGTATTTAATTGCTTGA
1 TTATT-A---ATTTAATTGCATGA
* *
13077525 TTATTAATATATTTATTTGTATGA
1 TTA-T--TA-ATTTAATTGCATGA
*
13077549 TTA-T-ATTTTATTGCATGA
1 TTATTAATTTAATTGCATGA
13077567 TTATTAAT
1 TTATTAAT
13077575 ATATTTATTT
Statistics
Matches: 272, Mismatches: 50, Indels: 62
0.71 0.13 0.16
Matches are distributed among these distances:
18 14 0.05
19 15 0.06
20 59 0.22
21 79 0.29
22 3 0.01
23 18 0.07
24 76 0.28
25 2 0.01
26 5 0.02
27 1 0.00
ACGTcount: A:0.33, C:0.03, G:0.10, T:0.53
Consensus pattern (20 bp):
TTATTAATTTAATTGCATGA
Found at i:13077285 original size:24 final size:24
Alignment explanation
Indices: 13077233--13077287 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
13077223 TTTAATTTGC
* *
13077233 TTGCATGA-T-TTATTA-ATTTAA
1 TTGCATGATTATTAATATATTTAT
13077254 TTGCATGATTATTAATATATTTAT
1 TTGCATGATTATTAATATATTTAT
*
13077278 TTGAATGATT
1 TTGCATGATT
13077288 TATTTAATTG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 8 0.29
22 1 0.04
23 5 0.18
24 14 0.50
ACGTcount: A:0.33, C:0.04, G:0.11, T:0.53
Consensus pattern (24 bp):
TTGCATGATTATTAATATATTTAT
Found at i:13077293 original size:17 final size:17
Alignment explanation
Indices: 13077271--13077313 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
13077261 ATTATTAATA
13077271 TATTTATTTGAATGATT
1 TATTTATTTGAATGATT
* *
13077288 TATTTAATTGCATGATT
1 TATTTATTTGAATGATT
*
13077305 TATTAATTT
1 TATTTATTT
13077314 AATTGCATAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.30, C:0.02, G:0.09, T:0.58
Consensus pattern (17 bp):
TATTTATTTGAATGATT
Found at i:13077343 original size:24 final size:24
Alignment explanation
Indices: 13077288--13077594 Score: 245
Period size: 24 Copynumber: 13.8 Consensus size: 24
13077278 TTGAATGATT
* *
13077288 TATTTAATTGCATGA-T-TTATTA
1 TATTTATTTGCATGATTATTAATA
* *
13077310 -ATTTAATTGCATAATTATTAATA
1 TATTTATTTGCATGATTATTAATA
13077333 TATTTATTTGCATG---ATTAA-A
1 TATTTATTTGCATGATTATTAATA
**
13077353 TATTTATTTGTGTGATATATT-A-A
1 TATTTATTTGCATGAT-TATTAATA
13077376 TA--TATTTGCATGATTATTAATA
1 TATTTATTTGCATGATTATTAATA
13077398 TATTTATTTGCATG---ATTAA-A
1 TATTTATTTGCATGATTATTAATA
**
13077418 TATTTATTTGTGTGATATATT-A-A
1 TATTTATTTGCATGAT-TATTAATA
13077441 TA--TATTTGCATGATTATTAATA
1 TATTTATTTGCATGATTATTAATA
* *
13077463 TATTTATTTGTATGATTA-T-ATT
1 TATTTATTTGCATGATTATTAATA
* *
13077485 TAATTTAATTGCATGATTATTAATG
1 T-ATTTATTTGCATGATTATTAATA
* *
13077510 TATTTAATTGCTTGATTATTAATA
1 TATTTATTTGCATGATTATTAATA
*
13077534 TATTTATTTG--T-ATGATT-ATA
1 TATTTATTTGCATGATTATTAATA
13077554 T-TTTA-TTGCATGATTATTAATA
1 TATTTATTTGCATGATTATTAATA
**
13077576 TATTTATTTGTGTGATTAT
1 TATTTATTTGCATGATTAT
13077595 ATTTGATTGC
Statistics
Matches: 233, Mismatches: 24, Indels: 54
0.75 0.08 0.17
Matches are distributed among these distances:
18 3 0.01
19 4 0.02
20 39 0.17
21 55 0.24
22 15 0.06
23 33 0.14
24 81 0.35
25 3 0.01
ACGTcount: A:0.33, C:0.03, G:0.10, T:0.54
Consensus pattern (24 bp):
TATTTATTTGCATGATTATTAATA
Found at i:13077392 original size:65 final size:64
Alignment explanation
Indices: 13077233--13077577 Score: 403
Period size: 65 Copynumber: 5.3 Consensus size: 64
13077223 TTTAATTTGC
* *
13077233 TTGCATGATTTATTAATTTAATTGCATGATTATTAATATATTTATTTGAATGATT---TATTTAA
1 TTGCATGA-TTATTAATATAATTGCATGATTATTAATATATTTATTTGCATGATTAAATATTTAA
* * *
13077295 TTGCATGATTTATTAATTTAATTGCATAATTATTAATATATTTATTTGCATGATTAAATATTTAT
1 TTGCATGA-TTATTAATATAATTGCATGATTATTAATATATTTATTTGCATGATTAAATATTTAA
** * *
13077360 TTGTGTGATATATTAATATATTTGCATGATTATTAATATATTTATTTGCATGATTAAATATTTAT
1 TTGCATGAT-TATTAATATAATTGCATGATTATTAATATATTTATTTGCATGATTAAATATTTAA
** * * *
13077425 TTGTGTGATATATTAATATATTTGCATGATTATTAATATATTTATTTGTATGATTATATTTAATT
1 TTGCATGAT-TATTAATATAATTGCATGATTATTAATATATTTATTTGCATGATTA-A-AT-ATT
13077490 TAA
62 TAA
* *
13077493 TTGCATGATTATTAATGTATTTAATTGCTTGATTATTAATATATTTATTTGTATGATT--ATATT
1 TTGCATGATTATTAA--TA--TAATTGCATGATTATTAATATATTTATTTGCATGATTAAATATT
*
13077556 TTA
62 TAA
13077559 TTGCATGATTATTAATATA
1 TTGCATGATTATTAATATA
13077578 TTTATTTGTG
Statistics
Matches: 255, Mismatches: 17, Indels: 22
0.87 0.06 0.07
Matches are distributed among these distances:
62 55 0.22
64 3 0.01
65 119 0.47
66 21 0.08
67 8 0.03
68 12 0.05
69 2 0.01
71 35 0.14
ACGTcount: A:0.34, C:0.03, G:0.10, T:0.53
Consensus pattern (64 bp):
TTGCATGATTATTAATATAATTGCATGATTATTAATATATTTATTTGCATGATTAAATATTTAA
Found at i:13077555 original size:18 final size:18
Alignment explanation
Indices: 13077532--13077621 Score: 65
Period size: 18 Copynumber: 4.7 Consensus size: 18
13077522 TGATTATTAA
13077532 TATATTTATTTGTATGAT
1 TATATTTATTTGTATGAT
* *
13077550 TATATTTTATTGCATGATTATTAA
1 TATA-TTTATT---TG--TATGAT
*
13077574 TATATTTATTTGTGTGAT
1 TATATTTATTTGTATGAT
*
13077592 TATATTTGA-TTGCATGAT
1 TATATTT-ATTTGTATGAT
*
13077610 TATATATATTTG
1 TATATTTATTTG
13077622 CATCAATAAT
Statistics
Matches: 56, Mismatches: 8, Indels: 16
0.70 0.10 0.20
Matches are distributed among these distances:
17 1 0.02
18 30 0.54
19 7 0.12
20 2 0.04
22 2 0.04
23 6 0.11
24 8 0.14
ACGTcount: A:0.29, C:0.02, G:0.12, T:0.57
Consensus pattern (18 bp):
TATATTTATTTGTATGAT
Found at i:13077730 original size:35 final size:35
Alignment explanation
Indices: 13077677--13077781 Score: 142
Period size: 35 Copynumber: 3.1 Consensus size: 35
13077667 TTATTGCATG
13077677 ATAATTT-TTGCAAGGTATGATTTTATATTATTGC
1 ATAATTTATTGCAAGGTATGATTTTATATTATTGC
* *
13077711 ATAATTTATTGCACGGTATGATTTAATATTATTGC
1 ATAATTTATTGCAAGGTATGATTTTATATTATTGC
** * *
13077746 ACGATTTATTGCATGATATGATTTTAT-TTATTGC
1 ATAATTTATTGCAAGGTATGATTTTATATTATTGC
13077780 AT
1 AT
13077782 GATATAATTT
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
34 15 0.24
35 47 0.76
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.49
Consensus pattern (35 bp):
ATAATTTATTGCAAGGTATGATTTTATATTATTGC
Found at i:13077774 original size:22 final size:22
Alignment explanation
Indices: 13077749--13077806 Score: 91
Period size: 22 Copynumber: 2.6 Consensus size: 22
13077739 TTATTGCACG
*
13077749 ATTTATTGCATGATATGATTTT
1 ATTTATTGCATGATATAATTTT
13077771 ATTTATTGCATGATATAATTTT
1 ATTTATTGCATGATATAATTTT
13077793 ATATT-TTGCATGAT
1 AT-TTATTGCATGAT
13077807 TTATTGCATA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
22 32 0.94
23 2 0.06
ACGTcount: A:0.29, C:0.05, G:0.12, T:0.53
Consensus pattern (22 bp):
ATTTATTGCATGATATAATTTT
Found at i:13077809 original size:34 final size:36
Alignment explanation
Indices: 13077771--13077942 Score: 116
Period size: 35 Copynumber: 5.0 Consensus size: 36
13077761 ATATGATTTT
*
13077771 ATTTATTGCAT-GATATAATTTTATA-TT-TTGCATG
1 ATTTATTGCATAG-TATAATTTAATATTTATTGCATG
*
13077805 ATTTATTGCATAGTATGATTTAATATTTATTGCATG
1 ATTTATTGCATAGTATAATTTAATATTTATTGCATG
** * ** * * *
13077841 A-TTATTTAATA-TTTAGATAGAATTTTTGTAT-CATC
1 ATTTATTGCATAGTATA-ATTTAATATTTAT-TGCATG
* *
13077876 ATGT-TTG---A-TATAATTTTATA-TTATTGCATG
1 ATTTATTGCATAGTATAATTTAATATTTATTGCATG
*
13077906 ATTTATTGCATAGTATGATTTAATATTTATTGCATG
1 ATTTATTGCATAGTATAATTTAATATTTATTGCATG
13077942 A
1 A
13077943 CTATTTGATA
Statistics
Matches: 102, Mismatches: 23, Indels: 24
0.68 0.15 0.16
Matches are distributed among these distances:
29 1 0.01
30 9 0.09
31 7 0.07
32 4 0.04
34 24 0.24
35 36 0.35
36 21 0.21
ACGTcount: A:0.31, C:0.05, G:0.12, T:0.51
Consensus pattern (36 bp):
ATTTATTGCATAGTATAATTTAATATTTATTGCATG
Found at i:13077813 original size:56 final size:56
Alignment explanation
Indices: 13077714--13077854 Score: 180
Period size: 56 Copynumber: 2.5 Consensus size: 56
13077704 TTATTGCATA
* *
13077714 ATTTATTGCACGGTATGATTTAATATTATTGCACGATTTATTGCAT-GATATGATTT-T
1 ATTTATTGCATGATAT-ATTTAATATT-TTGCACGATTTATTGCATAG-TATGATTTAT
* *
13077771 ATTTATTGCATGATATAATTTTATATTTTGCATGATTTATTGCATAGTATGATTTAAT
1 ATTTATTGCATGATAT-ATTTAATATTTTGCACGATTTATTGCATAGTATGATTT-AT
13077829 ATTTATTGCATGAT-TATTTAATATTT
1 ATTTATTGCATGATATATTTAATATTT
13077855 AGATAGAATT
Statistics
Matches: 75, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
56 35 0.47
57 25 0.33
58 15 0.20
ACGTcount: A:0.30, C:0.06, G:0.13, T:0.51
Consensus pattern (56 bp):
ATTTATTGCATGATATATTTAATATTTTGCACGATTTATTGCATAGTATGATTTAT
Found at i:13077850 original size:22 final size:24
Alignment explanation
Indices: 13077805--13077855 Score: 79
Period size: 22 Copynumber: 2.2 Consensus size: 24
13077795 ATTTTGCATG
13077805 ATTTATTGCATAGTATGATTTAAT
1 ATTTATTGCATAGTATGATTTAAT
*
13077829 ATTTATTGCAT-G-ATTATTTAAT
1 ATTTATTGCATAGTATGATTTAAT
13077851 ATTTA
1 ATTTA
13077856 GATAGAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 14 0.54
23 1 0.04
24 11 0.42
ACGTcount: A:0.33, C:0.04, G:0.10, T:0.53
Consensus pattern (24 bp):
ATTTATTGCATAGTATGATTTAAT
Found at i:13077915 original size:101 final size:100
Alignment explanation
Indices: 13077781--13077982 Score: 368
Period size: 101 Copynumber: 2.0 Consensus size: 100
13077771 ATTTATTGCA
*
13077781 TGATATAATTTTATATTTTGCATGATTTATTGCATAGTATGATTTAATATTTATTGCATGATTAT
1 TGATATAATTTTATATTTTGCATGATTTATTGCATAGTATGATTTAATATTTATTGCATGACTAT
*
13077846 TTAATATTTAGATAGAATTTTTGTATCATCATGTT
66 TTAATATTTAGATAGAATTTTTGTATCACCATGTT
13077881 TGATATAATTTTATATTATTGCATGATTTATTGCATAGTATGATTTAATATTTATTGCATGACTA
1 TGATATAATTTTATATT-TTGCATGATTTATTGCATAGTATGATTTAATATTTATTGCATGACTA
*
13077946 TTTGATATTTAGATAGAATTTTTGTATCACCATGTT
65 TTTAATATTTAGATAGAATTTTTGTATCACCATGTT
13077982 T
1 T
13077983 TGTAAATAAA
Statistics
Matches: 98, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
100 17 0.17
101 81 0.83
ACGTcount: A:0.31, C:0.06, G:0.12, T:0.51
Consensus pattern (100 bp):
TGATATAATTTTATATTTTGCATGATTTATTGCATAGTATGATTTAATATTTATTGCATGACTAT
TTAATATTTAGATAGAATTTTTGTATCACCATGTT
Found at i:13081807 original size:17 final size:17
Alignment explanation
Indices: 13081783--13081825 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
13081773 AAAATGTGCG
13081783 AAAAAAAATTAG-ATAA
1 AAAAAAAATTAGAATAA
*
13081799 AAGAAAAAA-AAGAATAA
1 AA-AAAAAATTAGAATAA
13081816 AAAAAAAATT
1 AAAAAAAATT
13081826 TTAAACTGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
16 10 0.45
17 12 0.55
ACGTcount: A:0.79, C:0.00, G:0.07, T:0.14
Consensus pattern (17 bp):
AAAAAAAATTAGAATAA
Found at i:13082746 original size:23 final size:23
Alignment explanation
Indices: 13082720--13082771 Score: 104
Period size: 23 Copynumber: 2.3 Consensus size: 23
13082710 TACATGTATG
13082720 CATCATTCTAAGAATATTGCATT
1 CATCATTCTAAGAATATTGCATT
13082743 CATCATTCTAAGAATATTGCATT
1 CATCATTCTAAGAATATTGCATT
13082766 CATCAT
1 CATCAT
13082772 GCATATTTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.35, C:0.19, G:0.08, T:0.38
Consensus pattern (23 bp):
CATCATTCTAAGAATATTGCATT
Found at i:13083100 original size:13 final size:13
Alignment explanation
Indices: 13083082--13083106 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13083072 ATAATCTTTT
13083082 CATTCATTACATG
1 CATTCATTACATG
13083095 CATTCATTACAT
1 CATTCATTACAT
13083107 ATGCTTAAAA
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:0.32, C:0.24, G:0.04, T:0.40
Consensus pattern (13 bp):
CATTCATTACATG
Found at i:13083551 original size:43 final size:43
Alignment explanation
Indices: 13083494--13083643 Score: 153
Period size: 43 Copynumber: 3.5 Consensus size: 43
13083484 AAGTTAAAGT
* * *
13083494 CTCAGTAATAGGGAAGCATTTTATTTTCCTAAAGTTCCAATGC
1 CTCAGTTATGGGGAAGCATTTTATTTTCCTAAAGTTTCAATGC
* * * *
13083537 ATCAGTTGTGGGGAAGCATTTTATTTT-TTAAAAGTTTCAAAGC
1 CTCAGTTATGGGGAAGCATTTTATTTTCCT-AAAGTTTCAATGC
* * *
13083580 CTCAGTTATGGAGG-AGTATTTTATTTTCCAAAATTTTCAATGC
1 CTCAGTTATGG-GGAAGCATTTTATTTTCCTAAAGTTTCAATGC
* *
13083623 CTCAGTTACGGGGGAGC-TTTT
1 CTCAGTTATGGGGAAGCATTTT
13083644 GAGGTTTTTT
Statistics
Matches: 87, Mismatches: 16, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
42 7 0.08
43 78 0.90
44 2 0.02
ACGTcount: A:0.27, C:0.15, G:0.20, T:0.38
Consensus pattern (43 bp):
CTCAGTTATGGGGAAGCATTTTATTTTCCTAAAGTTTCAATGC
Found at i:13083885 original size:13 final size:13
Alignment explanation
Indices: 13083867--13083892 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13083857 ATTTTATTTG
13083867 TATTTTAATTTTT
1 TATTTTAATTTTT
13083880 TATTTTAATTTTT
1 TATTTTAATTTTT
13083893 GGCTTTTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
TATTTTAATTTTT
Found at i:13084575 original size:20 final size:19
Alignment explanation
Indices: 13084552--13084600 Score: 64
Period size: 20 Copynumber: 2.6 Consensus size: 19
13084542 TTTGCTTGAC
13084552 TAATATTATTTTTGCATAA
1 TAATATTATTTTTGCATAA
* *
13084571 TTAATATTATATTTGCATGA
1 -TAATATTATTTTTGCATAA
13084591 TAAT-TTATTT
1 TAATATTATTT
13084601 GCCTAATATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 5 0.19
19 4 0.15
20 17 0.65
ACGTcount: A:0.35, C:0.04, G:0.06, T:0.55
Consensus pattern (19 bp):
TAATATTATTTTTGCATAA
Found at i:13084668 original size:16 final size:17
Alignment explanation
Indices: 13084634--13084724 Score: 67
Period size: 17 Copynumber: 5.7 Consensus size: 17
13084624 CTTAATTTGC
13084634 TTGCATGATTTATTTAA
1 TTGCATGATTTATTTAA
13084651 TTGCATGATTTATTAATTTAA
1 TTGCATGA--T-TT-ATTTAA
13084672 TTGCATGA-TTA-TTAA
1 TTGCATGATTTATTTAA
13084687 -T--AT-ATTTA--T--
1 TTGCATGATTTATTTAA
*
13084696 TTGAATGATTTATTTAA
1 TTGCATGATTTATTTAA
13084713 TTGCATGATTTA
1 TTGCATGATTTA
13084725 CTAATTTAAT
Statistics
Matches: 60, Mismatches: 1, Indels: 26
0.69 0.01 0.30
Matches are distributed among these distances:
10 1 0.02
11 2 0.03
12 7 0.12
13 5 0.08
14 1 0.02
15 5 0.08
16 1 0.02
17 21 0.35
19 1 0.02
20 2 0.03
21 14 0.23
ACGTcount: A:0.32, C:0.04, G:0.11, T:0.53
Consensus pattern (17 bp):
TTGCATGATTTATTTAA
Found at i:13084669 original size:21 final size:21
Alignment explanation
Indices: 13084645--13084749 Score: 106
Period size: 21 Copynumber: 5.1 Consensus size: 21
13084635 TGCATGATTT
*
13084645 ATTTAATTGCATGATTTATTA
1 ATTTAATTGCATGAATTATTA
13084666 ATTTAATTGCATG-ATTATTA
1 ATTTAATTGCATGAATTATTA
* * *** * *
13084686 ATATATTTATTTGAATGATTT
1 ATTTAATTGCATGAATTATTA
* *
13084707 ATTTAATTGCATGATTTACTA
1 ATTTAATTGCATGAATTATTA
13084728 ATTTAATTGCAT-AATTATTA
1 ATTTAATTGCATGAATTATTA
13084748 AT
1 AT
13084750 ATATTTATTT
Statistics
Matches: 64, Mismatches: 19, Indels: 3
0.74 0.22 0.03
Matches are distributed among these distances:
20 22 0.34
21 42 0.66
ACGTcount: A:0.35, C:0.05, G:0.09, T:0.51
Consensus pattern (21 bp):
ATTTAATTGCATGAATTATTA
Found at i:13084703 original size:24 final size:24
Alignment explanation
Indices: 13084644--13084971 Score: 166
Period size: 24 Copynumber: 13.2 Consensus size: 24
13084634 TTGCATGATT
* *
13084644 TATTTAATTGCATGA-T-TTATTA
1 TATTTATTTGCATGATTATTAATA
*
13084666 -ATTTAATTGCATGATTATTAATA
1 TATTTATTTGCATGATTATTAATA
*
13084689 TATTTATTTGAATGATTTATTTAATTGCA
1 TATTTATTTGCATGA-TTA-TTAA-T--A
*
13084718 TGATTTACTAATTTAATTGCATAATTATTAATA
1 T-A-TT--T-A-TT--T-GCATGATTATTAATA
*
13084751 TATTTATTTGCATGATTACCTAATA
1 TATTTATTTGCATGATTA-TTAATA
*
13084776 TATTTATGTGTGTGATTGCATGTTATTAATA
1 TATTTAT-T-TG-CA-TG-A--TTATTAATA
13084807 TA-TTATTTGCATG---ATTAATA
1 TATTTATTTGCATGATTATTAATA
* *
13084827 TATTTATTT--ATG-TGATTTATCA
1 TATTTATTTGCATGATTATTAAT-A
*
13084849 -ATATATTTGCATGATTATTAATA
1 TATTTATTTGCATGATTATTAATA
* *
13084872 TATTTATTTGTATGATTA-T-ATT
1 TATTTATTTGCATGATTATTAATA
13084894 TAATTTGA-TTGCATGATTATTAATA
1 T-ATTT-ATTTGCATGATTATTAATA
* * *
13084919 TATTTAATTGCATGATTATTACTG
1 TATTTATTTGCATGATTATTAATA
13084943 TATTT-TATTGCATGATTA-TATATA
1 TATTTAT-TTGCATGATTATTA-ATA
13084967 TATTT
1 TATTT
13084972 GTGTAAATGA
Statistics
Matches: 242, Mismatches: 24, Indels: 78
0.70 0.07 0.23
Matches are distributed among these distances:
19 3 0.01
20 9 0.04
21 32 0.13
22 5 0.02
23 27 0.11
24 84 0.35
25 19 0.08
26 7 0.03
27 6 0.02
28 4 0.02
29 6 0.02
30 6 0.02
31 11 0.05
32 4 0.02
33 3 0.01
34 1 0.00
35 3 0.01
36 4 0.02
37 4 0.02
38 4 0.02
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.52
Consensus pattern (24 bp):
TATTTATTTGCATGATTATTAATA
Found at i:13084706 original size:62 final size:62
Alignment explanation
Indices: 13084634--13084959 Score: 285
Period size: 62 Copynumber: 5.2 Consensus size: 62
13084624 CTTAATTTGC
13084634 TTGCATGATTTATTTAATTGCATGATTTATTAATTTAATTGCATGATTATTAATATATTTAT
1 TTGCATGATTTATTTAATTGCATGATTTATTAATTTAATTGCATGATTATTAATATATTTAT
* * *
13084696 TTGAATGATTTATTTAATTGCATGATTTACTAATTTAATTGCATAATTATTAATATATTTAT
1 TTGCATGATTTATTTAATTGCATGATTTATTAATTTAATTGCATGATTATTAATATATTTAT
** * * *
13084758 TTGCATGA-TTACCTAA-T--AT-ATTTATGT-GTGTGATTGCATG-TTATTAATATA-TTAT
1 TTGCATGATTTATTTAATTGCATGATTTAT-TAATTTAATTGCATGATTATTAATATATTTAT
* * * * *
13084813 TTGCATGATTAATATATTTATT-TATGTGATTTATCAATATATTTGCATGATTATTAATATATTT
1 TTGCATGATT--TAT-TTAATTGCA--TGATTTATTAATTTAATTGCATGATTATTAATATATTT
13084877 AT
61 AT
* * * *
13084879 TTGTATGATTATATTTAATTTGATTGCATGATTATTAATATATTTAATTGCATGATTATTACTGT
1 TTGCATGATT-TATTT-A----ATTGCATGA-T-TTATTA-ATTTAATTGCATGATTATTAATAT
13084944 ATTT-T
57 ATTTAT
13084949 ATTGCATGATT
1 -TTGCATGATT
13084960 ATATATATAT
Statistics
Matches: 212, Mismatches: 29, Indels: 37
0.76 0.10 0.13
Matches are distributed among these distances:
55 12 0.06
56 12 0.06
57 14 0.07
58 5 0.02
59 2 0.01
60 2 0.01
61 7 0.03
62 66 0.31
63 1 0.00
64 17 0.08
65 15 0.07
66 13 0.06
68 3 0.01
69 4 0.02
70 6 0.03
71 33 0.16
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.52
Consensus pattern (62 bp):
TTGCATGATTTATTTAATTGCATGATTTATTAATTTAATTGCATGATTATTAATATATTTAT
Found at i:13084707 original size:45 final size:45
Alignment explanation
Indices: 13084644--13084971 Score: 196
Period size: 45 Copynumber: 7.1 Consensus size: 45
13084634 TTGCATGATT
* *
13084644 TATTTAATTGCATGATTTATTAATTTAATTGCATGATTATTAATA
1 TATTTATTTGAATGATTTATTAATTTAATTGCATGATTATTAATA
*
13084689 TATTTATTTGAATGA--T-TT-ATTTAATTGCATGA-T-TTACTA
1 TATTTATTTGAATGATTTATTAATTTAATTGCATGATTATTAATA
* * * * * *
13084728 -ATTTAATTGCATAATTATTAATATATTTATTTGCATGATTACCTAATA
1 TATTTATTTGAATGA-T-TTATTA-ATTTAATTGCATGATTA-TTAATA
* *
13084776 TATTTATGTGTGTGATTGCATGTTATTAATATATTATTTGCATG---ATTAATA
1 TATTTA--T-T-TGAATG-AT-TTATT-A-AT-TTAATTGCATGATTATTAATA
* * * *
13084827 TATTTATTT-ATGTGATTTATCAATATATTTGCATGATTATTAATA
1 TATTTATTTGA-ATGATTTATTAATTTAATTGCATGATTATTAATA
* *
13084872 TATTTATTTGTATGATTATATTTAATTTGATTGCATGATTATTAATA
1 TATTTATTTGAATGATT-TA-TTAATTTAATTGCATGATTATTAATA
* * *
13084919 TATTTAATTGCATGA-TTATTACTGTATTTTATTGCATGATTA-TATATA
1 TATTTATTTGAATGATTTATTA----ATTTAATTGCATGATTATTA-ATA
13084967 TATTT
1 TATTT
13084972 GTGTAAATGA
Statistics
Matches: 224, Mismatches: 29, Indels: 57
0.72 0.09 0.18
Matches are distributed among these distances:
38 11 0.05
39 5 0.02
40 1 0.00
41 14 0.06
42 13 0.06
43 4 0.02
44 4 0.02
45 53 0.24
46 7 0.03
47 40 0.18
48 29 0.13
49 6 0.03
51 11 0.05
52 2 0.01
53 8 0.04
54 5 0.02
55 11 0.05
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.52
Consensus pattern (45 bp):
TATTTATTTGAATGATTTATTAATTTAATTGCATGATTATTAATA
Found at i:13084821 original size:55 final size:57
Alignment explanation
Indices: 13084733--13084840 Score: 159
Period size: 55 Copynumber: 1.9 Consensus size: 57
13084723 TACTAATTTA
*
13084733 ATTGCATAATTATTAATATATTTATTTGCATGATTACCTA-ATATATTTATGTGTGTG
1 ATTGCATAATTATTAATATATTTATTTGCATGATTA-ATATATATATTTATGTGTGTG
* *
13084790 ATTGCAT-GTTATTAATATA-TTATTTGCATGATTAATATATTTATTTATGTG
1 ATTGCATAATTATTAATATATTTATTTGCATGATTAATATATATATTTATGTG
13084841 ATTTATCAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
54 2 0.04
55 27 0.57
56 11 0.23
57 7 0.15
ACGTcount: A:0.31, C:0.06, G:0.12, T:0.51
Consensus pattern (57 bp):
ATTGCATAATTATTAATATATTTATTTGCATGATTAATATATATATTTATGTGTGTG
Found at i:13084843 original size:121 final size:119
Alignment explanation
Indices: 13084671--13084889 Score: 293
Period size: 121 Copynumber: 1.8 Consensus size: 119
13084661 TATTAATTTA
*
13084671 ATTGCATGATTATTAATATATTTATTTGAATGATTTATTTAATTGCATGATTTA-CTAATTTAAT
1 ATTGCATGATTATTAATATATTTATTTGAATGATTTATTTAATTGCATGATTTATC-AATATAAT
13084735 TGCATAATTATTAATATATTTATTTGCATGATTACCTAATATATTTATGTGTGTG
65 TGCATAATTATTAATATATTTATTTGCATGATTACCTAATATATTTATGTGTGTG
* * *
13084790 ATTGCATG-TTATTAATATA-TTATTTGCATGATTAATATATTTATT-TATGTGATTTATCAATA
1 ATTGCATGATTATTAATATATTTATTTGAATGATT--TAT-TTAATTGCA--TGATTTATCAATA
* * *
13084852 TATTTGCATGATTATTAATATATTTATTTGTATGATTA
61 TAATTGCATAATTATTAATATATTTATTTGCATGATTA
13084890 TATTTAATTT
Statistics
Matches: 87, Mismatches: 7, Indels: 10
0.84 0.07 0.10
Matches are distributed among these distances:
117 13 0.15
118 11 0.13
119 12 0.14
120 5 0.06
121 45 0.52
122 1 0.01
ACGTcount: A:0.33, C:0.05, G:0.11, T:0.52
Consensus pattern (119 bp):
ATTGCATGATTATTAATATATTTATTTGAATGATTTATTTAATTGCATGATTTATCAATATAATT
GCATAATTATTAATATATTTATTTGCATGATTACCTAATATATTTATGTGTGTG
Found at i:13084939 original size:71 final size:66
Alignment explanation
Indices: 13084790--13084972 Score: 180
Period size: 71 Copynumber: 2.7 Consensus size: 66
13084780 TATGTGTGTG
*
13084790 ATTGCATG-TTATTAATATA-TTATTTGCATGATTAATATATTTATTT-ATGTGATTTATCAATA
1 ATTGCATGATTATTAATATATTTATTTGCATGATT-ATAT-TTAATTTGATGTGATTTATCAATA
13084852 TAT
64 TAT
* *
13084855 -TTGCATGATTATTAATATATTTATTTGTATGATTATATTTAATTTGAT-TGCATGATTATTAAT
1 ATTGCATGATTATTAATATATTTATTTGCATGATTATATTTAATTTGATGTG-AT--TTATCAAT
13084918 ATATTT
63 ATA--T
* * *
13084924 AATTGCATGATTATTACTGTATTT-TATTGCATGATTATATATATATTTG
1 -ATTGCATGATTATTAATATATTTAT-TTGCATGATTATATTTA-ATTTG
13084973 TGTAAATGAT
Statistics
Matches: 99, Mismatches: 7, Indels: 17
0.80 0.06 0.14
Matches are distributed among these distances:
64 15 0.15
65 19 0.19
66 13 0.13
67 10 0.10
69 1 0.01
70 1 0.01
71 35 0.35
72 5 0.05
ACGTcount: A:0.32, C:0.04, G:0.10, T:0.53
Consensus pattern (66 bp):
ATTGCATGATTATTAATATATTTATTTGCATGATTATATTTAATTTGATGTGATTTATCAATATA
T
Found at i:13084982 original size:48 final size:48
Alignment explanation
Indices: 13084855--13085018 Score: 131
Period size: 48 Copynumber: 3.4 Consensus size: 48
13084845 ATCAATATAT
* ** * *
13084855 TTGCATGATTATTAATATATTTATTTGTATGATTA-TAT-TTAATTTGA
1 TTGCATGATTATTAATATATTTAATTAAATGATTATTATGGT-ATTTTA
**
13084902 TTGCATGATTATTAATATATTTAATTGCATGATTATTACT-GTATTTTA
1 TTGCATGATTATTAATATATTTAATTAAATGATTATTA-TGGTATTTTA
* *
13084950 TTGCATGATTA-TATATATATTT-GTGTAAATGATTTTTATGGTATTATATTA
1 TTGCATGATTATTA-ATATATTTAAT-TAAATGATTATTATGGTA-T-T-TTA
* *
13085001 TTGCATGATCAATAATAT
1 TTGCATGATTATTAATAT
13085019 TATTGCATGA
Statistics
Matches: 99, Mismatches: 9, Indels: 14
0.81 0.07 0.11
Matches are distributed among these distances:
47 37 0.37
48 39 0.39
49 3 0.03
50 1 0.01
51 17 0.17
52 2 0.02
ACGTcount: A:0.32, C:0.04, G:0.12, T:0.52
Consensus pattern (48 bp):
TTGCATGATTATTAATATATTTAATTAAATGATTATTATGGTATTTTA
Found at i:13085084 original size:17 final size:16
Alignment explanation
Indices: 13085064--13085120 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 16
13085054 ATTATTGCAA
13085064 GATTTATTGCATGATAT
1 GATTTATTGCATG-TAT
* *
13085081 GATTTTATT-TATTGCAT
1 GA-TTTATTGCA-TGTAT
13085098 GATTTATTGCATGGTAT
1 GATTTATTGCAT-GTAT
13085115 GATTTA
1 GATTTA
13085121 ATATTTTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
16 7 0.22
17 17 0.53
18 8 0.25
ACGTcount: A:0.26, C:0.05, G:0.18, T:0.51
Consensus pattern (16 bp):
GATTTATTGCATGTAT
Found at i:13085102 original size:34 final size:35
Alignment explanation
Indices: 13085015--13085125 Score: 152
Period size: 34 Copynumber: 3.1 Consensus size: 35
13085005 ATGATCAATA
* *
13085015 ATATTATTGCATGATAATTTTTGCATGGCATGATTTT
1 ATATTATTGCATGAT--TTATTGCATGGTATGATTTT
* *
13085052 ATATTATTGCAAGATTTATTGCATGATATGATTTT
1 ATATTATTGCATGATTTATTGCATGGTATGATTTT
*
13085087 AT-TTATTGCATGATTTATTGCATGGTATGATTTA
1 ATATTATTGCATGATTTATTGCATGGTATGATTTT
13085121 ATATT
1 ATATT
13085126 TTTAATGCAT
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
34 31 0.47
35 21 0.32
37 14 0.21
ACGTcount: A:0.29, C:0.06, G:0.15, T:0.50
Consensus pattern (35 bp):
ATATTATTGCATGATTTATTGCATGGTATGATTTT
Found at i:13085104 original size:12 final size:12
Alignment explanation
Indices: 13085055--13085110 Score: 55
Period size: 12 Copynumber: 4.8 Consensus size: 12
13085045 TGATTTTATA
*
13085055 TTATTGCAAGAT
1 TTATTGCATGAT
13085067 TTATTGCATGAT
1 TTATTGCATGAT
* *
13085079 ATGATT---TTAT
1 -TTATTGCATGAT
13085089 TTATTGCATGAT
1 TTATTGCATGAT
13085101 TTATTGCATG
1 TTATTGCATG
13085111 GTATGATTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
9 4 0.11
10 3 0.09
12 24 0.69
13 4 0.11
ACGTcount: A:0.27, C:0.07, G:0.16, T:0.50
Consensus pattern (12 bp):
TTATTGCATGAT
Found at i:13094733 original size:24 final size:23
Alignment explanation
Indices: 13094670--13094736 Score: 72
Period size: 22 Copynumber: 3.1 Consensus size: 23
13094660 TATAATATAA
* *
13094670 TATACATAAATATATTA-TTT-T
1 TATATATAAATATAATATTTTAT
13094691 TA-ATATAAAT-T-ATATTTTAAT
1 TATATATAAATATAATATTTT-AT
13094712 TATATATAAATATAATATTTTAT
1 TATATATAAATATAATATTTTAT
13094735 TA
1 TA
13094737 AATTAAAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
18 2 0.05
19 4 0.11
20 7 0.18
21 5 0.13
22 8 0.21
23 5 0.13
24 7 0.18
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.52
Consensus pattern (23 bp):
TATATATAAATATAATATTTTAT
Found at i:13094747 original size:23 final size:24
Alignment explanation
Indices: 13094692--13094743 Score: 67
Period size: 22 Copynumber: 2.3 Consensus size: 24
13094682 TATTATTTTT
13094692 AATATAAAT-T-ATATTTTAATTA
1 AATATAAATATAATATTTTAATTA
*
13094714 TATATAAATATAATATTTT-ATTA
1 AATATAAATATAATATTTTAATTA
13094737 AAT-TAAA
1 AATATAAA
13094744 ATATTAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
22 12 0.46
23 7 0.27
24 7 0.27
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (24 bp):
AATATAAATATAATATTTTAATTA
Found at i:13094806 original size:24 final size:23
Alignment explanation
Indices: 13094764--13094809 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
13094754 ATAATTTTTT
13094764 AATTAATAAATATATAAATATAA
1 AATTAATAAATATATAAATATAA
13094787 AATTAAATAAATA-ATAAAATATA
1 AATT-AATAAATATAT-AAATATA
13094810 TTTTTATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 6 0.29
24 15 0.71
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (23 bp):
AATTAATAAATATATAAATATAA
Found at i:13095777 original size:13 final size:14
Alignment explanation
Indices: 13095752--13095778 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
13095742 GTTTTTGTAA
13095752 AAAAATAATTTTTG
1 AAAAATAATTTTTG
13095766 AAAAATAATTTTT
1 AAAAATAATTTTT
13095779 ATATTTTTAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (14 bp):
AAAAATAATTTTTG
Found at i:13096302 original size:23 final size:24
Alignment explanation
Indices: 13096248--13096325 Score: 65
Period size: 24 Copynumber: 3.3 Consensus size: 24
13096238 TTATAATAAA
* * *
13096248 TATAAATAAAAAGATTTTTTAATAA
1 TATAAATAATAA-ATATTTTAATAG
* *
13096273 T-TCAATAATAGATACTTTTAAT-G
1 TATAAATAATAAATA-TTTTAATAG
13096296 TA-AAAT-ATAAATATTTTAATAG
1 TATAAATAATAAATATTTTAATAG
13096318 TATAAATA
1 TATAAATA
13096326 TTTTAATAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 11
0.69 0.12 0.19
Matches are distributed among these distances:
21 7 0.17
22 9 0.22
23 10 0.24
24 14 0.34
25 1 0.02
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (24 bp):
TATAAATAATAAATATTTTAATAG
Found at i:13096323 original size:17 final size:16
Alignment explanation
Indices: 13096300--13096342 Score: 70
Period size: 17 Copynumber: 2.7 Consensus size: 16
13096290 TTAATGTAAA
13096300 ATATAAATATTTTAAT
1 ATATAAATATTTTAAT
13096316 AGTATAAATATTTTAAT
1 A-TATAAATATTTTAAT
13096333 A-ATAAATATT
1 ATATAAATATT
13096343 ACTATTTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
15 9 0.35
16 1 0.04
17 16 0.62
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (16 bp):
ATATAAATATTTTAAT
Found at i:13096519 original size:16 final size:16
Alignment explanation
Indices: 13096479--13096510 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
13096469 ATTCTTGAAT
13096479 ATAAATAATTTTAATA
1 ATAAATAATTTTAATA
13096495 ATAAATAATTTTAATA
1 ATAAATAATTTTAATA
13096511 TACTATAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
ATAAATAATTTTAATA
Found at i:13100230 original size:83 final size:84
Alignment explanation
Indices: 13099953--13100263 Score: 326
Period size: 86 Copynumber: 3.7 Consensus size: 84
13099943 TTAGAACAAT
* * * * *
13099953 AAAGATAACGTTTTTAAAATTAAAAACATGGTCTTTGTTGAAACTATATTATGAAAAAATTATTT
1 AAAGATAACATTTTTAAATTTAAAAACATGATCTTTGTTGAAATTATATTATG---AAATTTTTT
*
13100018 TTTAGAATTTTATAGTTTCAAC
63 TTTAGAATTTTATAATTTCAAC
* * * ** * * *
13100040 AAA-TTCA-ATATTTTAAGTTTAAAAATGTGATTTTTGTTGAAATTATGTTATGAAAATTTTACT
1 AAAGATAACAT-TTTTAAATTTAAAAACATGATCTTTGTTGAAATTATATTATG-AAATTTT-TT
* *
13100103 TTTAGAATTTTATAATTTTAAT
63 TTTAGAATTTTATAATTTCAAC
* * *
13100125 AAAGACAACATTTTTAAATTTAAAAACGTGATCTTTGTTGAAAATATATTATG-AATTTGTTTTT
1 AAAGATAACATTTTTAAATTTAAAAACATGATCTTTGTTGAAATTATATTATGAAATTT-TTTTT
* *
13100189 TA-AATTCTATAATTTCGAC
65 TAGAATTTTATAATTTCAAC
*
13100208 AAAGATAACATTTTTAAATTTAAAAACATGATTTTTGTTGAAATTATATTAT-AAAT
1 AAAGATAACATTTTTAAATTTAAAAACATGATCTTTGTTGAAATTATATTATGAAAT
13100264 ATAAATATAT
Statistics
Matches: 185, Mismatches: 33, Indels: 16
0.79 0.14 0.07
Matches are distributed among these distances:
83 64 0.35
84 17 0.09
85 25 0.14
86 74 0.40
87 5 0.03
ACGTcount: A:0.41, C:0.05, G:0.09, T:0.45
Consensus pattern (84 bp):
AAAGATAACATTTTTAAATTTAAAAACATGATCTTTGTTGAAATTATATTATGAAATTTTTTTTT
AGAATTTTATAATTTCAAC
Found at i:13100357 original size:20 final size:20
Alignment explanation
Indices: 13100315--13100358 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
13100305 AATAAACAAA
*
13100315 TAAACAAATAATTTATATAT
1 TAAACAAATAATTTACATAT
* *
13100335 TAAACAAATAGTTTACATGT
1 TAAACAAATAATTTACATAT
13100355 TAAA
1 TAAA
13100359 TATATTATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.52, C:0.07, G:0.05, T:0.36
Consensus pattern (20 bp):
TAAACAAATAATTTACATAT
Found at i:13101118 original size:24 final size:24
Alignment explanation
Indices: 13101090--13101135 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
13101080 TCTATTTTAA
13101090 CCTAATTTTTATGTTATTTACTTT
1 CCTAATTTTTATGTTATTTACTTT
13101114 CCTAATTTTTATGTTATTTACT
1 CCTAATTTTTATGTTATTTACT
13101136 ATATTGAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.22, C:0.13, G:0.04, T:0.61
Consensus pattern (24 bp):
CCTAATTTTTATGTTATTTACTTT
Found at i:13104813 original size:14 final size:14
Alignment explanation
Indices: 13104794--13104820 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
13104784 ATTTAGTGCT
13104794 ATTATTGTTTTTGC
1 ATTATTGTTTTTGC
13104808 ATTATTGTTTTTG
1 ATTATTGTTTTTG
13104821 TGTATGCATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.04, G:0.15, T:0.67
Consensus pattern (14 bp):
ATTATTGTTTTTGC
Found at i:13104880 original size:22 final size:23
Alignment explanation
Indices: 13104854--13104911 Score: 64
Period size: 26 Copynumber: 2.4 Consensus size: 23
13104844 TATTTCTATT
13104854 TTTTTCATTATTTTCTTTGCATG
1 TTTTTCATTATTTTCTTTGCATG
*
13104877 TTTTCATGCATTATTTTCTTTGTATG
1 TTTT--T-CATTATTTTCTTTGCATG
*
13104903 -TGTTCATTA
1 TTTTTCATTA
13104912 AGATTTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
22 5 0.17
23 5 0.17
25 3 0.10
26 17 0.57
ACGTcount: A:0.16, C:0.12, G:0.10, T:0.62
Consensus pattern (23 bp):
TTTTTCATTATTTTCTTTGCATG
Found at i:13104888 original size:26 final size:26
Alignment explanation
Indices: 13104859--13104909 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
13104849 CTATTTTTTT
*
13104859 CATTATTTTCTTTGCATGTTTTCATG
1 CATTATTTTCTTTGCATGTGTTCATG
*
13104885 CATTATTTTCTTTGTATGTGTTCAT
1 CATTATTTTCTTTGCATGTGTTCAT
13104910 TAAGATTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.16, C:0.14, G:0.12, T:0.59
Consensus pattern (26 bp):
CATTATTTTCTTTGCATGTGTTCATG
Found at i:13107955 original size:16 final size:16
Alignment explanation
Indices: 13107930--13107962 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
13107920 ACCCTTTATG
*
13107930 TTATTTTTTGTATATA
1 TTATTCTTTGTATATA
13107946 TTATTCTTTGTATATA
1 TTATTCTTTGTATATA
13107962 T
1 T
13107963 CATTTTTACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.03, G:0.06, T:0.67
Consensus pattern (16 bp):
TTATTCTTTGTATATA
Found at i:13110556 original size:22 final size:23
Alignment explanation
Indices: 13110513--13110568 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
13110503 TGAGAAGTAC
* *
13110513 AAAATAAAAAAACAGAAGGAAAA
1 AAAATAAAAAAACAAAAAGAAAA
13110536 AAAATAAAAAAA-AAAAAGAAAA
1 AAAATAAAAAAACAAAAAGAAAA
* *
13110558 AGAAGAAAAAA
1 AAAATAAAAAA
13110569 TTGATGGACA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 17 0.59
23 12 0.41
ACGTcount: A:0.84, C:0.02, G:0.11, T:0.04
Consensus pattern (23 bp):
AAAATAAAAAAACAAAAAGAAAA
Found at i:13110558 original size:23 final size:23
Alignment explanation
Indices: 13110513--13110558 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
13110503 TGAGAAGTAC
* * *
13110513 AAAATAAAAAAACAGAAGGAAAA
1 AAAATAAAAAAAAAAAAGAAAAA
13110536 AAAATAAAAAAAAAAAAGAAAAA
1 AAAATAAAAAAAAAAAAGAAAAA
13110559 GAAGAAAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.85, C:0.02, G:0.09, T:0.04
Consensus pattern (23 bp):
AAAATAAAAAAAAAAAAGAAAAA
Found at i:13110896 original size:20 final size:21
Alignment explanation
Indices: 13110853--13110914 Score: 65
Period size: 20 Copynumber: 3.0 Consensus size: 21
13110843 AGAAACTAAT
**
13110853 AAGCAAAAAAATGAAAAATGAA
1 AAGC-AAAAAATGAAAAAAAAA
13110875 AA-CTAAAAAA-GAAAAAAAAA
1 AAGC-AAAAAATGAAAAAAAAA
*
13110895 AAGCAAAAAATGAGAAAAAA
1 AAGCAAAAAATGAAAAAAAA
13110915 TGAATACTTG
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
20 16 0.47
21 16 0.47
22 2 0.06
ACGTcount: A:0.77, C:0.05, G:0.11, T:0.06
Consensus pattern (21 bp):
AAGCAAAAAATGAAAAAAAAA
Found at i:13110913 original size:21 final size:22
Alignment explanation
Indices: 13110833--13110914 Score: 64
Period size: 21 Copynumber: 3.8 Consensus size: 22
13110823 ATAAATGAGA
* *
13110833 AAAAAAGATGAGAAACTAATAAGC
1 AAAAAA-ATGAGAAA-AAAAAAGC
*
13110857 AAAAAAATGA-AAAATGAAAA-C
1 AAAAAAATGAGAAAA-AAAAAGC
* *
13110878 TAAAAAA-GAAAAAAAAAAAGC
1 AAAAAAATGAGAAAAAAAAAGC
13110899 -AAAAAATGAGAAAAAA
1 AAAAAAATGAGAAAAAA
13110915 TGAATACTTG
Statistics
Matches: 48, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
20 12 0.25
21 20 0.42
22 6 0.12
23 4 0.08
24 6 0.12
ACGTcount: A:0.74, C:0.05, G:0.12, T:0.09
Consensus pattern (22 bp):
AAAAAAATGAGAAAAAAAAAGC
Found at i:13112060 original size:44 final size:45
Alignment explanation
Indices: 13111968--13112064 Score: 124
Period size: 44 Copynumber: 2.2 Consensus size: 45
13111958 GAAACCCAAA
*
13111968 AAAATTTTCAAATAAAAATCTTTAAAATTTTGGATATGAAGTCAT
1 AAAATTTTCAAATAAAAATCTTTAAAACTTTGGATATGAAGTCAT
* * * * * *
13112013 AAAATTTTGAAA-AATAATCTTTGAAACTTTGGATGTGAATTCCT
1 AAAATTTTCAAATAAAAATCTTTAAAACTTTGGATATGAAGTCAT
13112057 AAAATTTT
1 AAAATTTT
13112065 TTAATTGTTA
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 34 0.76
45 11 0.24
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.39
Consensus pattern (45 bp):
AAAATTTTCAAATAAAAATCTTTAAAACTTTGGATATGAAGTCAT
Found at i:13112092 original size:90 final size:91
Alignment explanation
Indices: 13111984--13112179 Score: 236
Period size: 92 Copynumber: 2.2 Consensus size: 91
13111974 TTCAAATAAA
** *
13111984 AATCTTTAAAATTTTGGATATGAAGTCAT-AAA-ATTTTGAAAAATAATCTTTGAAACTTTGGAT
1 AATCTTTAAAATTTTGGATATGAAACCATGAAATATTTTGAAAAAGAATCTTTGAAACTTTGGAT
* * *
13112047 GTGAATTCCTAAAA-TTTTTTAATTGTT
66 GTGAAAT-ATAAAAGTTTTTTAA-TGTG
* * * * * *
13112074 AATCTTTAAAATTTTGGATGTGAAACCATGAAATTTTTTGAATAAGAATTTTTGAAATTTTGGTT
1 AATCTTTAAAATTTTGGATATGAAACCATGAAATATTTTGAAAAAGAATCTTTGAAACTTTGGAT
13112139 GTGAAATATAAAAGTTTTTTAATGTG
66 GTGAAATATAAAAGTTTTTTAATGTG
*
13112165 AATTTTTAAAATTTT
1 AATCTTTAAAATTTT
13112180 TTATGTGAAT
Statistics
Matches: 90, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
90 26 0.29
91 25 0.28
92 39 0.43
ACGTcount: A:0.37, C:0.05, G:0.13, T:0.45
Consensus pattern (91 bp):
AATCTTTAAAATTTTGGATATGAAACCATGAAATATTTTGAAAAAGAATCTTTGAAACTTTGGAT
GTGAAATATAAAAGTTTTTTAATGTG
Found at i:13112164 original size:23 final size:22
Alignment explanation
Indices: 13112138--13112202 Score: 62
Period size: 23 Copynumber: 3.0 Consensus size: 22
13112128 AAATTTTGGT
13112138 TGTGAA-ATATAAAAGTTTTTTAA
1 TGTGAATATATAAAA-TTTTTT-A
* *
13112161 TGTGAATTTTTAAAATTTTTTA
1 TGTGAATATATAAAATTTTTTA
* *
13112183 TGTGAATCTCT-AAATTTTTT
1 TGTGAATATATAAAATTTTTT
13112203 GAATGAAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
21 9 0.24
22 10 0.27
23 12 0.32
24 6 0.16
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.52
Consensus pattern (22 bp):
TGTGAATATATAAAATTTTTTA
Found at i:13112177 original size:45 final size:45
Alignment explanation
Indices: 13111988--13112188 Score: 156
Period size: 46 Copynumber: 4.4 Consensus size: 45
13111978 AATAAAAATC
* ** ** ** *
13111988 TTTAAAATTTTGGATATGAAGTCATAAAATTTTGAAAAAT-AATC
1 TTTAAAATTTTGGATGTGAAACCATAAAATTTTTTAATGTGAATT
* * * * *
13112032 TTTGAAACTTTGGATGTGAATTCC-TAAAATTTTTTAATTGTTAATC
1 TTTAAAATTTTGGATGTGAA-ACCATAAAATTTTTTAA-TGTGAATT
* **
13112078 TTTAAAATTTTGGATGTGAAACCATGAAATTTTTTGAATAAGAATT
1 TTTAAAATTTTGGATGTGAAACCATAAAATTTTTT-AATGTGAATT
* * *
13112124 TTTGAAATTTTGGTTGTGAAA-TATAAAAGTTTTTTAATGTGAATT
1 TTTAAAATTTTGGATGTGAAACCATAAAA-TTTTTTAATGTGAATT
**
13112169 TTTAAAATTTTTTATGTGAA
1 TTTAAAATTTTGGATGTGAA
13112189 TCTCTAAATT
Statistics
Matches: 124, Mismatches: 27, Indels: 11
0.77 0.17 0.07
Matches are distributed among these distances:
44 28 0.23
45 33 0.27
46 61 0.49
47 2 0.02
ACGTcount: A:0.37, C:0.04, G:0.14, T:0.45
Consensus pattern (45 bp):
TTTAAAATTTTGGATGTGAAACCATAAAATTTTTTAATGTGAATT
Found at i:13112185 original size:22 final size:23
Alignment explanation
Indices: 13112147--13112207 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 23
13112137 TTGTGAAATA
* *
13112147 TAAAAGTTTTTTAATGTGAATTTT
1 TAAAA-TTTTTTAATGTGAATCTC
13112171 TAAAATTTTTT-ATGTGAATCTC
1 TAAAATTTTTTAATGTGAATCTC
13112193 T-AAATTTTTTGAATG
1 TAAAATTTTTT-AATG
13112208 AAAAATCTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
21 9 0.27
22 10 0.30
23 9 0.27
24 5 0.15
ACGTcount: A:0.33, C:0.03, G:0.11, T:0.52
Consensus pattern (23 bp):
TAAAATTTTTTAATGTGAATCTC
Found at i:13112202 original size:45 final size:45
Alignment explanation
Indices: 13112040--13112207 Score: 123
Period size: 46 Copynumber: 3.7 Consensus size: 45
13112030 TCTTTGAAAC
* * *
13112040 TTTGGATGTGAAT-TCCTAAAATTTTTT-AATTGTTAATCTTTAAAAT
1 TTTGTATGTGAATCT-CT-AAATTTTTTGAA-TGTGAATTTTTAAAAT
* * ** *
13112086 TTTGGATGTGAAAC-CATGAAATTTTTTGAATAAGAATTTTTGAAAT
1 TTTGTATGTGAATCTC-T-AAATTTTTTGAATGTGAATTTTTAAAAT
* *
13112132 TTTGGT-TGTGAAATAT-AAAAGTTTTTT-AATGTGAATTTTTAAAAT
1 TTT-GTATGTG-AATCTCTAAA-TTTTTTGAATGTGAATTTTTAAAAT
*
13112177 TTTTTATGTGAATCTCTAAATTTTTTGAATG
1 TTTGTATGTGAATCTCTAAATTTTTTGAATG
13112208 AAAAATCTTT
Statistics
Matches: 95, Mismatches: 17, Indels: 21
0.71 0.13 0.16
Matches are distributed among these distances:
44 11 0.12
45 33 0.35
46 46 0.48
47 5 0.05
ACGTcount: A:0.33, C:0.04, G:0.14, T:0.48
Consensus pattern (45 bp):
TTTGTATGTGAATCTCTAAATTTTTTGAATGTGAATTTTTAAAAT
Found at i:13112268 original size:42 final size:43
Alignment explanation
Indices: 13112178--13112269 Score: 134
Period size: 43 Copynumber: 2.2 Consensus size: 43
13112168 TTTTAAAATT
* * *
13112178 TTTTATGTGAATCTCTAAATTTTTTGAATGAAAAATCTTTAAC
1 TTTTAGGTGAATCTCTAAAATTTTTAAATGAAAAATCTTTAAC
13112221 TTTTAGGTGAATCTCTAAAATTTTTAAATG-AAAATCTTTGAA-
1 TTTTAGGTGAATCTCTAAAATTTTTAAATGAAAAATCTTT-AAC
13112263 TTTTAGG
1 TTTTAGG
13112270 AAGTAAGCAT
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
42 16 0.36
43 29 0.64
ACGTcount: A:0.35, C:0.08, G:0.12, T:0.46
Consensus pattern (43 bp):
TTTTAGGTGAATCTCTAAAATTTTTAAATGAAAAATCTTTAAC
Found at i:13112400 original size:53 final size:53
Alignment explanation
Indices: 13112336--13112519 Score: 165
Period size: 53 Copynumber: 3.5 Consensus size: 53
13112326 ATCTTTTGAA
* * *
13112336 TGCGAATCTTTAAATCTTTGCAAATATGAAAACCTTACAAATCTTGCAATTTT
1 TGCGAATCTTTAAATCTTTGCAAATATGAAAACCTTGCGAATCTTGCAATTCT
* ** * ** **
13112389 TGCGAATCTTTAAATTTTTGTGAATTTGAAATTCTTGCGAATCTAAC-ATTCT
1 TGCGAATCTTTAAATCTTTGCAAATATGAAAACCTTGCGAATCTTGCAATTCT
* * * * * * *
13112441 TGCAAACCTTTAAATTTTTTACAAATCTAAAAACTTTGCGAATCTTGCAATTCT
1 TGCGAATCTTTAAA-TCTTTGCAAATATGAAAACCTTGCGAATCTTGCAATTCT
*
13112495 TGTGAATCTTTAAATGCTTT-CAAAT
1 TGCGAATCTTTAAAT-CTTTGCAAAT
13112520 CTTTTATTTT
Statistics
Matches: 101, Mismatches: 27, Indels: 6
0.75 0.20 0.04
Matches are distributed among these distances:
52 16 0.16
53 66 0.65
54 19 0.19
ACGTcount: A:0.33, C:0.16, G:0.10, T:0.41
Consensus pattern (53 bp):
TGCGAATCTTTAAATCTTTGCAAATATGAAAACCTTGCGAATCTTGCAATTCT
Found at i:13112420 original size:17 final size:18
Alignment explanation
Indices: 13112375--13112432 Score: 73
Period size: 18 Copynumber: 3.3 Consensus size: 18
13112365 AAACCTTACA
*
13112375 AATCTTGCAATTTTTGCG
1 AATCTTGAAATTTTTGCG
* *
13112393 AATCTTTAAATTTTTGTG
1 AATCTTGAAATTTTTGCG
*
13112411 AAT-TTGAAATTCTTGCG
1 AATCTTGAAATTTTTGCG
13112428 AATCT
1 AATCT
13112433 AACATTCTTG
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
17 14 0.42
18 19 0.58
ACGTcount: A:0.28, C:0.12, G:0.14, T:0.47
Consensus pattern (18 bp):
AATCTTGAAATTTTTGCG
Done.