Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008955.1 Hibiscus syriacus cultivar Beakdansim tig00112285_pilon, 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: 4658001
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 13 of 23
Found at i:2584064 original size:19 final size:18
Alignment explanation
Indices: 2584025--2584070 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
2584015 CTATTTCAAG
2584025 TTCAATTTA--TTTGAAA
1 TTCAATTTATTTTTGAAA
*
2584041 GTCAATTTATTTTTGGAAA
1 TTCAATTTATTTTT-GAAA
2584060 TTCAATTTATT
1 TTCAATTTATT
2584071 CTTTTCTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 8 0.32
18 3 0.12
19 14 0.56
ACGTcount: A:0.33, C:0.07, G:0.09, T:0.52
Consensus pattern (18 bp):
TTCAATTTATTTTTGAAA
Found at i:2584879 original size:83 final size:83
Alignment explanation
Indices: 2584747--2585292 Score: 862
Period size: 83 Copynumber: 6.5 Consensus size: 83
2584737 TGGATTTGTT
* * * *
2584747 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAATCAAGCATTGAGT
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAAT
2584812 TTAGAAGATGAATTTGCC
66 TTAGAAGATGAATTTGCC
*
2584830 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA-CAATCATTGAGT
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAAT
2584894 TTAGAAGATGAATTTGCC
66 TTAGAAGATGAATTTGCC
* * * * * *
2584912 AATAGCATCTTCTGGAATTGTTCTTTGAGTTATCTGGTTTGGTATGAACCCAAAAAAAACAATCA
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGT-TGGA--C---AGAACCAATCA
* *
2584977 TTGAATTTGGAAGATGAATGTGCTC
60 TTGAATTTAGAAGATGAATTTGC-C
*
2585002 -ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAGT
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAAT
2585066 TTAGAAGATGAATTTGCC
66 TTAGAAGATGAATTTGCC
2585084 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAAT
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAAT
*
2585149 TTAGAAGATAAATTTGCC
66 TTAGAAGATGAATTTGCC
*
2585167 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGTTTGGACAGAACCAATCATTGAAT
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAAT
*
2585232 TTAGAAGATAAATTTGCC
66 TTAGAAGATGAATTTGCC
2585250 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGT
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGT
2585293 CTGGTAGGAA
Statistics
Matches: 431, Mismatches: 23, Indels: 18
0.91 0.05 0.04
Matches are distributed among these distances:
82 70 0.16
83 287 0.67
85 1 0.00
86 1 0.00
88 6 0.01
89 65 0.15
90 1 0.00
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.36
Consensus pattern (83 bp):
AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAAT
TTAGAAGATGAATTTGCC
Found at i:2586228 original size:113 final size:112
Alignment explanation
Indices: 2586024--2586791 Score: 1238
Period size: 113 Copynumber: 6.8 Consensus size: 112
2586014 ATTCAAATCT
*
2586024 ATCATTTGATGGATTATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
1 ATCACTTGATGGATTAT-TTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
* * *
2586089 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACATTTTATTTGAATTC
65 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTC
* *
2586137 ATCAAATTGATGGATTAGCTTTTCCAGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 ATC-ACTTGATGGATTA-TTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
2586201 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTC
64 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTC
2586250 ATCACTTGATGGATTATTTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
1 ATCACTTGATGGATTATTTTT-CCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
*
2586315 GATGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTC
65 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTC
2586363 ATCACTTGATGGATTATTTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
1 ATCACTTGATGGATTATTTTT-CCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
* *
2586428 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTATTTGAATTC
65 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTC
* *
2586476 ATCAAATTGATGGATTAGCTTTTCCAGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 ATC-ACTTGATGGATTA-TTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
2586540 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTC
64 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTC
2586589 ATCACTTGATGGATTATTTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
1 ATCACTTGATGGATTATTTTT-CCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
* *
2586654 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT-TGCTCAAATC
65 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGT-CTGAATTC
* * ** *
2586702 TATTACTTGATGGGTTATTTTTTTTAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGA
1 -ATCACTTGATGGATTA-TTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
2586767 AG-AGAAAGTTCATAATGAGAAGAAT
64 AGAAG-AAGTTCATAATGAGAAGAAT
2586792 CATCAAAAGC
Statistics
Matches: 619, Mismatches: 24, Indels: 23
0.93 0.04 0.03
Matches are distributed among these distances:
111 8 0.01
112 37 0.06
113 450 0.73
114 115 0.19
115 9 0.01
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (112 bp):
ATCACTTGATGGATTATTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
AAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTC
Found at i:2586649 original size:339 final size:339
Alignment explanation
Indices: 2586016--2586791 Score: 1396
Period size: 339 Copynumber: 2.3 Consensus size: 339
2586006 CAACAAAGAT
*
2586016 TCAAATCTATCATTTGATGGATTATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCTATCACTTGATGGATTAT-TTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
2586081 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACATTTTATTTGAATTCATCAAATTG
65 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACATTTTATTTGAATTCATCAAATTG
2586146 ATGGATTAGCTTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTT
130 ATGGATTAGCTTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTT
2586211 CATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTCATCACTTGATGGATTATTTTTGCCAG
195 CATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTCATCACTTGATGGATTATTTTTGCCAG
*
2586276 AGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGATGAAGTTCATAATGAGAAGAATTT
260 AGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTT
2586341 GTTCAACC-TTTTGTC
325 GTTCAACCTTTTTG-C
* *
2586356 TGAATTC-ATCACTTGATGGATTATTTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCTATCACTTGATGGATTATTTTT-CCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
*
2586420 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTATTTGAATTCATCAAATTG
65 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACATTTTATTTGAATTCATCAAATTG
2586485 ATGGATTAGCTTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTT
130 ATGGATTAGCTTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTT
2586550 CATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTCATCACTTGATGGATTATTTTTGCCAG
195 CATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTCATCACTTGATGGATTATTTTTGCCAG
2586615 AGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTT
260 AGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTT
2586680 GTTCAACCTTTTTGC
325 GTTCAACCTTTTTGC
* * **
2586695 TCAAATCTATTACTTGATGGGTTATTTTTTTTAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCTATCACTTGATGGATTA-TTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
*
2586760 AGAAAGAAG-AGAAAGTTCATAATGAGAAGAAT
65 AGAAGGAAGAAG-AAGTTCATAATGAGAAGAAT
2586792 CATCAAAAGC
Statistics
Matches: 419, Mismatches: 12, Indels: 10
0.95 0.03 0.02
Matches are distributed among these distances:
338 4 0.01
339 325 0.78
340 85 0.20
341 5 0.01
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.31
Consensus pattern (339 bp):
TCAAATCTATCACTTGATGGATTATTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAA
GAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACATTTTATTTGAATTCATCAAATTGA
TGGATTAGCTTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTC
ATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTCATCACTTGATGGATTATTTTTGCCAGA
GAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTG
TTCAACCTTTTTGC
Found at i:2587050 original size:3 final size:3
Alignment explanation
Indices: 2587042--2587097 Score: 103
Period size: 3 Copynumber: 18.7 Consensus size: 3
2587032 TTTTTATCCA
*
2587042 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2587090 TAT TAT TA
1 TAT TAT TA
2587098 AATATATATT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:2587124 original size:14 final size:15
Alignment explanation
Indices: 2587096--2587130 Score: 63
Period size: 14 Copynumber: 2.4 Consensus size: 15
2587086 TTATTATTAT
2587096 TAAATATATATTAAA
1 TAAATATATATTAAA
2587111 TAAATATATA-TAAA
1 TAAATATATATTAAA
2587125 TAAATA
1 TAAATA
2587131 ATTACAGACC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.50
15 10 0.50
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
TAAATATATATTAAA
Found at i:2596086 original size:11 final size:11
Alignment explanation
Indices: 2596070--2596098 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
2596060 CAATCTATGT
2596070 AGCTTTCCCGC
1 AGCTTTCCCGC
2596081 AGCTTTCCCGC
1 AGCTTTCCCGC
2596092 AGCTTTC
1 AGCTTTC
2596099 GGACAGCGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.10, C:0.41, G:0.17, T:0.31
Consensus pattern (11 bp):
AGCTTTCCCGC
Found at i:2598104 original size:22 final size:22
Alignment explanation
Indices: 2598079--2598208 Score: 53
Period size: 21 Copynumber: 6.1 Consensus size: 22
2598069 TAAAAATGTT
2598079 AAAAAAAATAAAATAAATGAAG
1 AAAAAAAATAAAATAAATGAAG
* * * **
2598101 -AAAATATTAAATTTCAT-AA-
1 AAAAAAAATAAAATAAATGAAG
* *
2598120 AAGAAAAATAATA-AAAT--AG
1 AAAAAAAATAAAATAAATGAAG
* * *
2598139 AAAAAATATTAAAATAAA-AAAT
1 AAAAAA-AATAAAATAAATGAAG
2598161 AAAATAAAATAAAATAAAGTG-AG
1 AAAA-AAAATAAAATAAA-TGAAG
* *
2598184 AAAATAAA-AAAATAAAAGAAAG
1 AAAAAAAATAAAATAAATG-AAG
2598206 AAA
1 AAA
2598209 GAAGTGTTAA
Statistics
Matches: 76, Mismatches: 21, Indels: 22
0.64 0.18 0.18
Matches are distributed among these distances:
18 1 0.01
19 7 0.09
20 15 0.20
21 23 0.30
22 23 0.30
23 7 0.09
ACGTcount: A:0.74, C:0.01, G:0.07, T:0.18
Consensus pattern (22 bp):
AAAAAAAATAAAATAAATGAAG
Found at i:2598145 original size:17 final size:16
Alignment explanation
Indices: 2598123--2598198 Score: 80
Period size: 17 Copynumber: 4.5 Consensus size: 16
2598113 TTCATAAAAG
2598123 AAAAATAATAAAATAGA
1 AAAAATAATAAAATA-A
*
2598140 AAAAATATTAAAATAA
1 AAAAATAATAAAATAA
*
2598156 AAAATAAAATAAAATAA
1 AAAA-ATAATAAAATAA
* *
2598173 AATAAAGTGAGAAAATAA
1 AA-AAA-TAATAAAATAA
2598191 AAAAATAA
1 AAAAATAA
2598199 AAGAAAGAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
16 7 0.14
17 30 0.61
18 12 0.24
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.18
Consensus pattern (16 bp):
AAAAATAATAAAATAA
Found at i:2598169 original size:25 final size:25
Alignment explanation
Indices: 2598124--2598171 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
2598114 TCATAAAAGA
*
2598124 AAAATAATAAAATAGAAAAAATATT
1 AAAATAATAAAATAAAAAAAATATT
2598149 AAAATAA-AAAATAAAATAAAATA
1 AAAATAATAAAATAAAA-AAAATA
2598172 AAATAAAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (25 bp):
AAAATAATAAAATAAAAAAAATATT
Found at i:2598211 original size:26 final size:28
Alignment explanation
Indices: 2598156--2598211 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 28
2598146 ATTAAAATAA
* **
2598156 AAAATAAAATAAAATAAAATAAAGTGAG
1 AAAATAAAATAAAATAAAAGAAAGAAAG
2598184 AAAAT-AAA-AAAATAAAAGAAAGAAAG
1 AAAATAAAATAAAATAAAAGAAAGAAAG
2598210 AA
1 AA
2598212 GTGTTAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 17 0.68
27 3 0.12
28 5 0.20
ACGTcount: A:0.77, C:0.00, G:0.11, T:0.12
Consensus pattern (28 bp):
AAAATAAAATAAAATAAAAGAAAGAAAG
Found at i:2598341 original size:18 final size:18
Alignment explanation
Indices: 2598303--2598341 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
2598293 AGTTGTTTTA
*
2598303 AAATAAAAGATAAAAATT
1 AAATAAAAGATAAAAAAT
2598321 AAATAAAAGA-AAATAAAT
1 AAATAAAAGATAAA-AAAT
2598339 AAA
1 AAA
2598342 AAATCTAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 3 0.16
18 16 0.84
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (18 bp):
AAATAAAAGATAAAAAAT
Found at i:2598979 original size:5 final size:5
Alignment explanation
Indices: 2598971--2599005 Score: 54
Period size: 5 Copynumber: 7.0 Consensus size: 5
2598961 AAATACAAAT
2598971 ATATA ATATA ATATA ATATA ATATTA ATAT- ATATA
1 ATATA ATATA ATATA ATATA ATA-TA ATATA ATATA
2599006 CTAAATAAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 4 0.14
5 19 0.68
6 5 0.18
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
ATATA
Found at i:2599697 original size:200 final size:199
Alignment explanation
Indices: 2599169--2599949 Score: 933
Period size: 200 Copynumber: 3.9 Consensus size: 199
2599159 GGAAGATGGC
* * * * * *
2599169 TTCTTGTTGCCAAATCGTAGTCAACCTTGGTCTTCTTCTT-AGTTTAAAGACCTCGGTTTGAAAA
1 TTCTTGTTGCTAAATCGCAGCCAACCTAGGTCTTCTTCTTGA-CTTAAAGACCTCGGTTT-AAAC
* * * * * * *
2599233 TTCAACCGAAAAGTTGTTCCTTGATGCTACCATGCGGCTGATATGTCTTCGAGCTGAATGGAATC
64 TTCAACCGGAAAGTAGTTCCTCGTTGCTACCATGCGGTTGATATGCCTTTGAGCTGAATGGAATC
* * * ** * *
2599298 GAACTTGAAAGTTTTGTTGACAAATATCATTTCTCGCCTTGAGCTATGCTGTAAATTCAGTTGGG
129 GAACTCGAAAGTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGCTGTAAATTCGGCT-GG
2599363 AGATAGT
193 AGATAGT
* * * *
2599370 TTCTTGTTACTAAATCGCAGCTAACCTAGG---TCTTCTTAACTTAAAGACCTCGATTTAAACTT
1 TTCTTGTTGCTAAATCGCAGCCAACCTAGGTCTTCTTCTTGACTTAAAGACCTCGGTTTAAACTT
* * * *
2599432 AAACCGGAAAATAGTTCCTCGTTGCTACCATGCGGTTGATAAGCCTTTGAGCTGAATGAAATCGA
66 CAACCGGAAAGTAGTTCCTCGTTGCTACCATGCGGTTGATATGCCTTTGAGCTGAATGGAATCGA
* * *
2599497 ACTCGAAAGTTTTGTTGACAGATAGCCCTTCTCGCCTTCAGCTACGCTGTACATTCGGCATGGAG
131 ACTCGAAAGTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGCTGTAAATTCGGC-TGGAG
2599562 ATAGT
195 ATAGT
* *
2599567 TTCTTGTTGCTAAATCGCACCCAATCTAGGTCTTCTTCTTGACTTAAAGACCTCGGTTTAAACTT
1 TTCTTGTTGCTAAATCGCAGCCAACCTAGGTCTTCTTCTTGACTTAAAGACCTCGGTTTAAACTT
* *
2599632 CAACCGGAAAGTAGTTCCTCGTTGCTACCATGCGGTTGATATG-CTTTCGAGATGAAAGGAATCG
66 CAACCGGAAAGTAGTTCCTCGTTGCTACCATGCGGTTGATATGCCTTT-GAGCTGAATGGAATCG
* * * *
2599696 AACTCGAAAGTTTTGTTGAAAGATAGCCCTTCTCGCCTTGAGTTATGTTGTAAACTCGGCTGTGA
130 AACTCGAAAGTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGCTGTAAATTCGGCTG-GA
2599761 GATAGT
194 GATAGT
* * * * * * * *
2599767 TCCTTATTGTTAAATTGCAACCAACCTATGTCTTCTTCTTGACTTAAAGACATTGGTTTAAACTT
1 TTCTTGTTGCTAAATCGCAGCCAACCTAGGTCTTCTTCTTGACTTAAAGACCTCGGTTTAAACTT
* ** * * * *
2599832 TAACCGGAAAGTAGTTTATCATTGCTACAATGCGGTTAATATGCCTTTGAGCTGATTGGAATCGA
66 CAACCGGAAAGTAGTTCCTCGTTGCTACCATGCGGTTGATATGCCTTTGAGCTGAATGGAATCGA
* * * * * *
2599897 ATTCAAAAGTTTTGTTGACATATAACCATTCTCGCCTTGAGCTATGCTATAAA
131 ACTCGAAAGTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGCTGTAAA
2599950 CGGTTCCTCT
Statistics
Matches: 496, Mismatches: 76, Indels: 17
0.84 0.13 0.03
Matches are distributed among these distances:
197 143 0.29
198 23 0.05
199 7 0.01
200 295 0.59
201 28 0.06
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (199 bp):
TTCTTGTTGCTAAATCGCAGCCAACCTAGGTCTTCTTCTTGACTTAAAGACCTCGGTTTAAACTT
CAACCGGAAAGTAGTTCCTCGTTGCTACCATGCGGTTGATATGCCTTTGAGCTGAATGGAATCGA
ACTCGAAAGTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGCTGTAAATTCGGCTGGAGA
TAGT
Found at i:2600242 original size:86 final size:86
Alignment explanation
Indices: 2600012--2600223 Score: 345
Period size: 86 Copynumber: 2.5 Consensus size: 86
2600002 ATTCTTTAGT
* *
2600012 TGACTCCCCTTCACGGGAAA-TCCAAGTGGTATATTCTTCAGGTGGTTCCCCTTCGTGAGTCTGA
1 TGACTCCCCTTCACGGGAAAGT-CATGTGGTATATTCTTCAGGTGGTTCCCCTTCGCGAGTCTGA
2600076 ACCAGGTGAGATGATATTTGGA
65 ACCAGGTGAGATGATATTTGGA
* *
2600098 TGATTCCCCTTCACGGGAAAGTCTTGTGGTATATTCTTCAGGTGGTTCCCCTTCGCGAGTCTGAA
1 TGACTCCCCTTCACGGGAAAGTCATGTGGTATATTCTTCAGGTGGTTCCCCTTCGCGAGTCTGAA
*
2600163 CCAGGTGAGATGATCTTTGGA
66 CCAGGTGAGATGATATTTGGA
* *
2600184 TGACTCCTCTTCACGAGAAAGTCATGTGGTATATTCTTCA
1 TGACTCCCCTTCACGGGAAAGTCATGTGGTATATTCTTCA
2600224 AGTGACTCCT
Statistics
Matches: 116, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
86 115 0.99
87 1 0.01
ACGTcount: A:0.21, C:0.22, G:0.25, T:0.32
Consensus pattern (86 bp):
TGACTCCCCTTCACGGGAAAGTCATGTGGTATATTCTTCAGGTGGTTCCCCTTCGCGAGTCTGAA
CCAGGTGAGATGATATTTGGA
Found at i:2607423 original size:33 final size:33
Alignment explanation
Indices: 2607381--2607488 Score: 92
Period size: 40 Copynumber: 3.0 Consensus size: 33
2607371 AAAAAAATGT
2607381 TATATAAAAATGTTAAAAGAAAAAATAAAATAAA
1 TATA-AAAAATGTTAAAAGAAAAAATAAAATAAA
* *
2607415 TGA-AAAAAATATTAAATTTCAGAAAAGAAAAATAATAAAA
1 T-ATAAAAAATGTTAAA----AGAAAA-AATAA-AAT-AAA
*
2607455 TATAAAAAATGTTAAAAGAGAAAATAAAAATAAA
1 TATAAAAAATGTTAAAAGAAAAAAT-AAAATAAA
2607489 ACAAAATAAA
Statistics
Matches: 59, Mismatches: 5, Indels: 20
0.70 0.06 0.24
Matches are distributed among these distances:
33 11 0.19
34 5 0.08
35 6 0.10
36 7 0.12
37 6 0.10
38 4 0.07
39 4 0.07
40 16 0.27
ACGTcount: A:0.69, C:0.01, G:0.07, T:0.22
Consensus pattern (33 bp):
TATAAAAAATGTTAAAAGAAAAAATAAAATAAA
Found at i:2607505 original size:16 final size:16
Alignment explanation
Indices: 2607475--2607504 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
2607465 GTTAAAAGAG
2607475 AAAATAAAAATAAAAC
1 AAAATAAAAATAAAAC
2607491 AAAAT-AAAATAAAA
1 AAAATAAAAATAAAA
2607505 AAGTGGTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.83, C:0.03, G:0.00, T:0.13
Consensus pattern (16 bp):
AAAATAAAAATAAAAC
Found at i:2607524 original size:43 final size:43
Alignment explanation
Indices: 2607448--2607555 Score: 121
Period size: 44 Copynumber: 2.5 Consensus size: 43
2607438 AAAGAAAAAT
*
2607448 AATAAAATATAAAAAATGTTAAAAGAGAAAATAAAAATAAAACAA
1 AATAAAATA-AAAAAGTGTTAAAAGAGAAAATAAAAAT-AAACAA
* * * * *
2607493 AATAAAATAAAAAAGTGGTAAAATA-AGAATAAAACTAAATAA
1 AATAAAATAAAAAAGTGTTAAAAGAGAAAATAAAAATAAACAA
*
2607535 AATAAAA-AAAGAAGTGTTAAA
1 AATAAAATAAAAAAGTGTTAAA
2607556 TTTTAAAGAA
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
41 12 0.22
42 12 0.22
43 9 0.16
44 13 0.24
45 9 0.16
ACGTcount: A:0.70, C:0.02, G:0.09, T:0.19
Consensus pattern (43 bp):
AATAAAATAAAAAAGTGTTAAAAGAGAAAATAAAAATAAACAA
Found at i:2607660 original size:18 final size:18
Alignment explanation
Indices: 2607639--2607681 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
2607629 GTTATTTTTA
*
2607639 AAATAAAAGATAAGAATT
1 AAATAAAAGAAAAGAATT
*
2607657 AAATAAAAGAAAATAATT
1 AAATAAAAGAAAAGAATT
2607675 AAATAAA
1 AAATAAA
2607682 TAATCTAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.21
Consensus pattern (18 bp):
AAATAAAAGAAAAGAATT
Found at i:2608279 original size:12 final size:13
Alignment explanation
Indices: 2608262--2608290 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
2608252 AAAGATAAAA
2608262 TAAAATAATAT-T
1 TAAAATAATATCT
2608274 TAAAATAATATCT
1 TAAAATAATATCT
2608287 TAAA
1 TAAA
2608291 TCTTAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (13 bp):
TAAAATAATATCT
Found at i:2609070 original size:16 final size:17
Alignment explanation
Indices: 2609044--2609084 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
2609034 CGAGGTTACT
*
2609044 ATTTATATGAATAGT-GA
1 ATTT-TATGAATAGTAAA
2609061 ATTTTATGAATAGTAAA
1 ATTTTATGAATAGTAAA
2609078 ATTTTAT
1 ATTTTAT
2609085 CGGCGATACG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 10 0.45
17 12 0.55
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.46
Consensus pattern (17 bp):
ATTTTATGAATAGTAAA
Found at i:2610852 original size:58 final size:57
Alignment explanation
Indices: 2610770--2610932 Score: 175
Period size: 58 Copynumber: 2.8 Consensus size: 57
2610760 TTTGTTTAAA
* * *
2610770 TAATTACCAAAATAGCACCCTTTTCGAATTAATTCCCAAAATAGCACCAATTTCGAAT
1 TAATTCCCAGAATAGCACCTTTTTCGAATTAATTCCCAAAATAGCACC-ATTTCGAAT
* * ** *
2610828 TAATTCCCAGAATATCACCTTTTTCAAAAAAAATTACCAAAATAGCACCATTTCGAAT
1 TAATTCCCAGAATAGCACCTTTTTC-GAATTAATTCCCAAAATAGCACCATTTCGAAT
* **** *
2610886 TAATTCCCCGAATAGCA-CTAAACCGAATTAATTCCCAAAATAACACC
1 TAATTCCCAGAATAGCACCTTTTTCGAATTAATTCCCAAAATAGCACC
2610933 GGTCAACGGG
Statistics
Matches: 85, Mismatches: 19, Indels: 4
0.79 0.18 0.04
Matches are distributed among these distances:
56 18 0.21
57 3 0.04
58 45 0.53
59 19 0.22
ACGTcount: A:0.42, C:0.25, G:0.06, T:0.27
Consensus pattern (57 bp):
TAATTCCCAGAATAGCACCTTTTTCGAATTAATTCCCAAAATAGCACCATTTCGAAT
Found at i:2610899 original size:28 final size:28
Alignment explanation
Indices: 2610770--2610932 Score: 146
Period size: 29 Copynumber: 5.7 Consensus size: 28
2610760 TTTGTTTAAA
* *
2610770 TAATTACCAAAATAGCACCCTTTTCGAAT
1 TAATTCCCAAAATAGCA-CCATTTCGAAT
2610799 TAATTCCCAAAATAGCACCAATTTCGAAT
1 TAATTCCCAAAATAGCACC-ATTTCGAAT
* * * * *
2610828 TAATTCCCAGAATATCACCTTTTTCAAAAA
1 TAATTCCCAAAATAGCACC-ATTTC-GAAT
* *
2610858 AAATTACCAAAATAGCACCATTTCGAAT
1 TAATTCCCAAAATAGCACCATTTCGAAT
** * ***
2610886 TAATTCCCCGAATAGCACTAAACCGAAT
1 TAATTCCCAAAATAGCACCATTTCGAAT
*
2610914 TAATTCCCAAAATAACACC
1 TAATTCCCAAAATAGCACC
2610933 GGTCAACGGG
Statistics
Matches: 105, Mismatches: 27, Indels: 5
0.77 0.20 0.04
Matches are distributed among these distances:
28 39 0.37
29 49 0.47
30 17 0.16
ACGTcount: A:0.42, C:0.25, G:0.06, T:0.27
Consensus pattern (28 bp):
TAATTCCCAAAATAGCACCATTTCGAAT
Found at i:2610967 original size:17 final size:17
Alignment explanation
Indices: 2610933--2610983 Score: 84
Period size: 17 Copynumber: 2.9 Consensus size: 17
2610923 AAATAACACC
*
2610933 GGTCAACGGGTCGAGTCG
1 GGTCAAC-GGTCGGGTCG
2610951 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
2610968 GGTCAACGGTCGGGTC
1 GGTCAACGGTCGGGTC
2610984 AACAGGTAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
17 25 0.78
18 7 0.22
ACGTcount: A:0.14, C:0.24, G:0.45, T:0.18
Consensus pattern (17 bp):
GGTCAACGGTCGGGTCG
Found at i:2615447 original size:23 final size:23
Alignment explanation
Indices: 2615419--2615465 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
2615409 TGGGAGATTA
2615419 TTAAAAGTCAAGAAT-GGGAGGCG
1 TTAAAAGTCAAGAATAGGG-GGCG
*
2615442 TTAAAATTCAAGAATAGGGGGCG
1 TTAAAAGTCAAGAATAGGGGGCG
2615465 T
1 T
2615466 CGAATTCGGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 19 0.86
24 3 0.14
ACGTcount: A:0.38, C:0.09, G:0.32, T:0.21
Consensus pattern (23 bp):
TTAAAAGTCAAGAATAGGGGGCG
Found at i:2618732 original size:50 final size:50
Alignment explanation
Indices: 2618673--2618786 Score: 210
Period size: 50 Copynumber: 2.3 Consensus size: 50
2618663 ATAAATGTGT
* *
2618673 CTAAGGTATCGATATTTTATAGGCGCTATTATTGCAATTCTTTTAAATTC
1 CTAAAGTATCAATATTTTATAGGCGCTATTATTGCAATTCTTTTAAATTC
2618723 CTAAAGTATCAATATTTTATAGGCGCTATTATTGCAATTCTTTTAAATTC
1 CTAAAGTATCAATATTTTATAGGCGCTATTATTGCAATTCTTTTAAATTC
2618773 CTAAAGTATCAATA
1 CTAAAGTATCAATA
2618787 CTTAGGTGCA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
50 62 1.00
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.42
Consensus pattern (50 bp):
CTAAAGTATCAATATTTTATAGGCGCTATTATTGCAATTCTTTTAAATTC
Found at i:2619073 original size:20 final size:20
Alignment explanation
Indices: 2619025--2619080 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 20
2619015 GTAACTCTTT
* *
2619025 ATCGGTTTTCTCAAATTGAA
1 ATCGGTTTTGTCAAATTCAA
* *
2619045 ATC-GTTTTGTCAATTTCCA
1 ATCGGTTTTGTCAAATTCAA
2619064 ATCGGTTTTGTCAAATT
1 ATCGGTTTTGTCAAATT
2619081 AAAACTGAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.25, C:0.16, G:0.14, T:0.45
Consensus pattern (20 bp):
ATCGGTTTTGTCAAATTCAA
Found at i:2621849 original size:136 final size:137
Alignment explanation
Indices: 2621604--2621851 Score: 401
Period size: 136 Copynumber: 1.8 Consensus size: 137
2621594 GGCTCTTTTT
*
2621604 CATTTTCTGCAAACAAACACAACAAAATTTCACACATTTTCACTGTTATTAACAAGAGAAAAACC
1 CATTTTCTGCAAACAAACACAACAAAAGTTCACACATTTTCACTGTTATTAACAAGAGAAAAACC
* * *
2621669 AAACCAATGATGTTCATGTTTTTCTGTCAAAAAACCAAGTTTTCTTTTTCGATCATTAACTTCTG
66 AAACCAATGACGTTCATGTTTTTATATCAAAAAACCAAGTTTTCTTTTTCGATCATTAACTTCTG
2621734 CAACATC
131 CAACATC
*
2621741 CATTTTTTGCAAA-AAACACAACAAAAGTTCACACATTTTCACTGTTATTAACAAGAGAAAAAAC
1 CATTTTCTGCAAACAAACACAACAAAAGTTCACACATTTTCACTGTTATTAACAAGAG-AAAAAC
* * *
2621805 CAAATCAATGACGTTCATGTTTTTATATC-ACAAACCCAGTTTTCTTT
65 CAAACCAATGACGTTCATGTTTTTATATCAAAAAACCAAGTTTTCTTT
2621852 CTGCAACACC
Statistics
Matches: 102, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
136 59 0.58
137 43 0.42
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.33
Consensus pattern (137 bp):
CATTTTCTGCAAACAAACACAACAAAAGTTCACACATTTTCACTGTTATTAACAAGAGAAAAACC
AAACCAATGACGTTCATGTTTTTATATCAAAAAACCAAGTTTTCTTTTTCGATCATTAACTTCTG
CAACATC
Found at i:2623217 original size:21 final size:23
Alignment explanation
Indices: 2623191--2623234 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 23
2623181 CCAATGTATA
*
2623191 TTATAAGA-TAGTGA-TATTTTT
1 TTATAAGATTAATGACTATTTTT
2623212 TTATAAGATTAATGACTATTTTT
1 TTATAAGATTAATGACTATTTTT
2623235 GTAACATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 8 0.40
22 5 0.25
23 7 0.35
ACGTcount: A:0.34, C:0.02, G:0.11, T:0.52
Consensus pattern (23 bp):
TTATAAGATTAATGACTATTTTT
Found at i:2623576 original size:11 final size:11
Alignment explanation
Indices: 2623562--2623593 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
2623552 TTTTAATCTT
*
2623562 AAAATAATTTC
1 AAAACAATTTC
2623573 AAAACAATTTC
1 AAAACAATTTC
2623584 AAAACAATTT
1 AAAACAATTT
2623594 TACAAAGTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (11 bp):
AAAACAATTTC
Found at i:2626843 original size:22 final size:22
Alignment explanation
Indices: 2626815--2626865 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
2626805 TGGTAGATGA
2626815 CTATTCTAGATATACTTGGGTT
1 CTATTCTAGATATACTTGGGTT
2626837 CTATTCTAGATATACTTGGGTT
1 CTATTCTAGATATACTTGGGTT
2626859 CTATTCT
1 CTATTCT
2626866 TAAGTACTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.22, C:0.16, G:0.16, T:0.47
Consensus pattern (22 bp):
CTATTCTAGATATACTTGGGTT
Found at i:2631640 original size:18 final size:18
Alignment explanation
Indices: 2631617--2631666 Score: 91
Period size: 18 Copynumber: 2.8 Consensus size: 18
2631607 TAACAAAAAG
2631617 GGGGGAGAAGTGTTTTAA
1 GGGGGAGAAGTGTTTTAA
2631635 GGGGGAGAAGTGTTTTAA
1 GGGGGAGAAGTGTTTTAA
*
2631653 AGGGGAGAAGTGTT
1 GGGGGAGAAGTGTT
2631667 AGAGTAAGGG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.28, C:0.00, G:0.46, T:0.26
Consensus pattern (18 bp):
GGGGGAGAAGTGTTTTAA
Found at i:2633504 original size:12 final size:13
Alignment explanation
Indices: 2633483--2633561 Score: 54
Period size: 16 Copynumber: 5.5 Consensus size: 13
2633473 CAACATAACC
2633483 AAAATAAAAAATA
1 AAAATAAAAAATA
2633496 AAAAT-AAAAATA
1 AAAATAAAAAATA
*
2633508 AAACA-AAATGAATA
1 AAA-ATAAA-AAATA
2633522 AAATGATAACATAAATA
1 AAA--ATAA-A-AAATA
2633539 AAAATGAAAACAAATA
1 AAAAT--AAA-AAATA
2633555 AAAATAA
1 AAAATAA
2633562 CACACAATAA
Statistics
Matches: 54, Mismatches: 4, Indels: 15
0.74 0.05 0.21
Matches are distributed among these distances:
12 10 0.19
13 8 0.15
14 9 0.17
15 3 0.06
16 13 0.24
17 11 0.20
ACGTcount: A:0.76, C:0.04, G:0.04, T:0.16
Consensus pattern (13 bp):
AAAATAAAAAATA
Found at i:2633515 original size:16 final size:17
Alignment explanation
Indices: 2633496--2633574 Score: 74
Period size: 16 Copynumber: 4.6 Consensus size: 17
2633486 ATAAAAAATA
2633496 AAAATAAAAAT-AAAAC
1 AAAATAAAAATGAAAAC
*
2633512 AAAATGAATAAAATGATAAC
1 AAAAT--A-AAAATGAAAAC
2633532 ATAAATAAAAATGAAAAC
1 A-AAATAAAAATGAAAAC
*
2633550 -AAATAAAAAT-AACAC
1 AAAATAAAAATGAAAAC
*
2633565 ACAATAAAAA
1 AAAATAAAAA
2633575 AAGCAATGGA
Statistics
Matches: 53, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
15 4 0.08
16 23 0.43
18 11 0.21
19 6 0.11
20 5 0.09
21 4 0.08
ACGTcount: A:0.73, C:0.08, G:0.04, T:0.15
Consensus pattern (17 bp):
AAAATAAAAATGAAAAC
Found at i:2633739 original size:13 final size:13
Alignment explanation
Indices: 2633723--2633757 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
2633713 GTACTCAAAT
2633723 GAAAATAAATAAA
1 GAAAATAAATAAA
*
2633736 GAAAAATAAATAGA
1 G-AAAATAAATAAA
2633750 GAAAATAA
1 GAAAATAA
2633758 TAATAATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.74, C:0.00, G:0.11, T:0.14
Consensus pattern (13 bp):
GAAAATAAATAAA
Found at i:2633743 original size:14 final size:14
Alignment explanation
Indices: 2633724--2633754 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
2633714 TACTCAAATG
2633724 AAAATAAATAAAGA
1 AAAATAAATAAAGA
*
2633738 AAAATAAATAGAGA
1 AAAATAAATAAAGA
2633752 AAA
1 AAA
2633755 TAATAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.77, C:0.00, G:0.10, T:0.13
Consensus pattern (14 bp):
AAAATAAATAAAGA
Found at i:2635663 original size:86 final size:86
Alignment explanation
Indices: 2635543--2635751 Score: 262
Period size: 86 Copynumber: 2.5 Consensus size: 86
2635533 AATGGAATAA
* * * * *
2635543 AACTCGAAGGTCTTTTGTTAACAGATAACCCTTCTCGCCTTGAGCTATGCTGTAAATTGGATGTG
1 AACTCGAAGGTTTTTTGTTGACAAATAACTCTTCTCGCCTTGAGCTATGCTGTAAATTGGATATG
*
2635608 CCTTTGAGCTGAGTGTAATCG
66 ACTTTGAGCTGAGTGTAATCG
* * * *
2635629 AACTCAAAGGTTTTTTGTTGACAAATAACTCTTCTCTG-CTTGAGTTATGCTTTAAATTTGATAT
1 AACTCGAAGGTTTTTTGTTGACAAATAACTCTTCTC-GCCTTGAGCTATGCTGTAAATTGGATAT
2635693 GACTTTGAGCTGAGTGTAATCG
65 GACTTTGAGCTGAGTGTAATCG
* * * *
2635715 -ACTTGAAGG-TCTTTGATGATAAATAACTCTTCTCGCC
1 AACTCGAAGGTTTTTTGTTGACAAATAACTCTTCTCGCC
2635752 CCTAGTTCTA
Statistics
Matches: 106, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
83 1 0.01
84 23 0.22
85 7 0.07
86 74 0.70
87 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (86 bp):
AACTCGAAGGTTTTTTGTTGACAAATAACTCTTCTCGCCTTGAGCTATGCTGTAAATTGGATATG
ACTTTGAGCTGAGTGTAATCG
Found at i:2636180 original size:121 final size:121
Alignment explanation
Indices: 2635826--2636345 Score: 695
Period size: 121 Copynumber: 4.3 Consensus size: 121
2635816 CGTTAGGTAT
* * *
2635826 GATATCCTTCATCGTGAAGTTAAAATCGTGGATGGCTCCTTCATTGTGAAGTTGAGCTTTGAATT
1 GATATCCTTCATCGTGAAGTTGAAATCGTGGATGGCTCATTCGTTGTGAAGTTGAGCTTTGAATT
* * * * *
2635891 GGATATCCTTCGTCGTGAAGTTGAAATCCAAGGATTGTATTGCTGCTTGTAGGCAC
66 GGATATCATTCGTCGTGAAGTTGAAATACAAGGGTTGCATTGCTGCTTGTGGGCAC
** *
2635947 GATATCCTTTTTTGTGAAGTTG-AATCG-GGATGGCTCATTCGTTGTGAAGTTGAGCTTTGAATT
1 GATATCCTTCATCGTGAAGTTGAAATCGTGGATGGCTCATTCGTTGTGAAGTTGAGCTTTGAATT
* *
2636010 GG-TATCCTTCGTCGTGAAGTTGAAATACAAGGGTTGCATTGCTGTTTGTGGGCAC
66 GGATATCATTCGTCGTGAAGTTGAAATACAAGGGTTGCATTGCTGCTTGTGGGCAC
* * *
2636065 GATATCCTTCGTCGTGAAGCTGAAATCGTGGATGGCTCCTTCGTTGTGAAGTTGAGCTTTGAATT
1 GATATCCTTCATCGTGAAGTTGAAATCGTGGATGGCTCATTCGTTGTGAAGTTGAGCTTTGAATT
** *
2636130 GGATATCATTCGTCGTGAAGTTGAAATTTAAGGGTTGCATTGTTGCTTGTGGGCAC
66 GGATATCATTCGTCGTGAAGTTGAAATACAAGGGTTGCATTGCTGCTTGTGGGCAC
* *
2636186 GATATCCTTCATCGTGAAGTTTAAATCGTGGATGGCTCATTCGTTGTGAAGTTGAGCTTTGAACT
1 GATATCCTTCATCGTGAAGTTGAAATCGTGGATGGCTCATTCGTTGTGAAGTTGAGCTTTGAATT
* * * * * * *
2636251 GGATATCATTCGTTGTGAAGTTGAAATCCAATCTAGAGTTGTATTAGTTTCTTGTGGGCAT
66 GGATATCATTCGTCGTGAAGTTGAAAT---A-CAAGGGTTGCATT-GCTGCTTGTGGGCAC
* * *
2636312 GGTATCCTTCATTGTGAAGTTAAAATCGTGGATG
1 GATATCCTTCATCGTGAAGTTGAAATCGTGGATG
2636346 ATCAATTACT
Statistics
Matches: 354, Mismatches: 37, Indels: 11
0.88 0.09 0.03
Matches are distributed among these distances:
118 66 0.19
119 41 0.12
120 42 0.12
121 152 0.43
125 9 0.03
126 44 0.12
ACGTcount: A:0.23, C:0.14, G:0.27, T:0.36
Consensus pattern (121 bp):
GATATCCTTCATCGTGAAGTTGAAATCGTGGATGGCTCATTCGTTGTGAAGTTGAGCTTTGAATT
GGATATCATTCGTCGTGAAGTTGAAATACAAGGGTTGCATTGCTGCTTGTGGGCAC
Found at i:2638088 original size:212 final size:215
Alignment explanation
Indices: 2637719--2638144 Score: 831
Period size: 212 Copynumber: 2.0 Consensus size: 215
2637709 TTTTATTGAT
2637719 GTGGTTGATGTTGTTAATCTTTCAATCTCTCTCCCTCATAGGAGGTTTCTTACTGGCCTCCCCAT
1 GTGGTTGATGTTGTTAATCTTTCAATCTCTCTCCCTCATAGGAGGTTTCTTACTGGCCTCCCCAT
2637784 CCTTAATTTTGCCTTGTTTTATGGCTGAATCGACCATTTCTCCTGCCATAACTAAATCTGAAAAG
66 CCTTAATTTTGCCTTGTTTTATGGCTGAATCGACCATTTCTCCTGCCATAACTAAATCTGAAAAG
2637849 CTTTTCGATGTGATTGCAACCAGGTGTCTGAAATATGGAGTCTTCAAGGTCTGTACAAAAACTTC
131 CTTTTCGATGTGATTGCAACCAGGTGTCTGAAATATGGAGTCTTCAAGGTCTGTACAAAAACTTC
2637914 CTGGTTTT-TTTTCATCCAG
196 CTGGTTTTCTTTTCATCCAG
2637933 GTGGTTGATGTTGTTAATCTTTCAATCTCTCTCCCTCATA-GAGGTTTCTTACTGGCCTCCCCAT
1 GTGGTTGATGTTGTTAATCTTTCAATCTCTCTCCCTCATAGGAGGTTTCTTACTGGCCTCCCCAT
2637997 CCTTAA-TTTGCCTTGTTTTATGGCTGAATCGACCATTTCTCCTGCCATAACTAAATCTGAAAAG
66 CCTTAATTTTGCCTTGTTTTATGGCTGAATCGACCATTTCTCCTGCCATAACTAAATCTGAAAAG
2638061 CTTTTCGATGTGATTGCAACCAGGTGTCTGAAATATGGAGTCTTCAAGGTCTGTACAAAAACTTC
131 CTTTTCGATGTGATTGCAACCAGGTGTCTGAAATATGGAGTCTTCAAGGTCTGTACAAAAACTTC
2638126 CTGGTTTTCTTTTCATCCA
196 CTGGTTTTCTTTTCATCCA
2638145 AGGGTGGATG
Statistics
Matches: 211, Mismatches: 0, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
212 131 0.62
213 40 0.19
214 40 0.19
ACGTcount: A:0.22, C:0.23, G:0.17, T:0.38
Consensus pattern (215 bp):
GTGGTTGATGTTGTTAATCTTTCAATCTCTCTCCCTCATAGGAGGTTTCTTACTGGCCTCCCCAT
CCTTAATTTTGCCTTGTTTTATGGCTGAATCGACCATTTCTCCTGCCATAACTAAATCTGAAAAG
CTTTTCGATGTGATTGCAACCAGGTGTCTGAAATATGGAGTCTTCAAGGTCTGTACAAAAACTTC
CTGGTTTTCTTTTCATCCAG
Found at i:2642163 original size:51 final size:51
Alignment explanation
Indices: 2642086--2642219 Score: 189
Period size: 51 Copynumber: 2.6 Consensus size: 51
2642076 GAAAAGTAAT
2642086 AAAATAACTAAAAATAAAAATAAAACAAAATGAATAAAATGACAACAT-AACA
1 AAAATAA--AAAAATAAAAATAAAACAAAATGAATAAAATGACAACATAAACA
* * *
2642138 AAAATAAAAAAATAAAAAATAAAACAAAGTGAATAAAATGATAACATAAATA
1 AAAATAAAAAAAT-AAAAATAAAACAAAATGAATAAAATGACAACATAAACA
*
2642190 AAAATGAAAAAATAAAAATAAAACACAAAT
1 AAAATAAAAAAATAAAAATAAAACA-AAAT
2642220 AAAAAGAAGG
Statistics
Matches: 74, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
50 6 0.08
51 43 0.58
52 25 0.34
ACGTcount: A:0.73, C:0.07, G:0.04, T:0.16
Consensus pattern (51 bp):
AAAATAAAAAAATAAAAATAAAACAAAATGAATAAAATGACAACATAAACA
Found at i:2642195 original size:18 final size:16
Alignment explanation
Indices: 2642096--2642224 Score: 77
Period size: 17 Copynumber: 7.6 Consensus size: 16
2642086 AAAATAACTA
*
2642096 AAAATAAAAATAAAAC
1 AAAATAAAAATGAAAC
2642112 AAAATGAATAAAATGACAAC
1 AAAAT--A-AAAATGA-AAC
* *
2642132 ATAACAAAAAT-AAA-
1 AAAATAAAAATGAAAC
*
2642146 AAAATAAAAAATAAAAC
1 AAAAT-AAAAATGAAAC
*
2642163 AAAGTGAATAAAATGATAAC
1 AAAAT--A-AAAATGA-AAC
2642183 ATAAATAAAAATG-AA-
1 A-AAATAAAAATGAAAC
*
2642198 AAAATAAAAATAAAAC
1 AAAATAAAAATGAAAC
2642214 ACAAATAAAAA
1 A-AAATAAAAA
2642225 GAAGGAAAAA
Statistics
Matches: 90, Mismatches: 9, Indels: 27
0.71 0.07 0.21
Matches are distributed among these distances:
14 13 0.14
15 11 0.12
16 12 0.13
17 18 0.20
18 10 0.11
19 13 0.14
20 10 0.11
21 3 0.03
ACGTcount: A:0.74, C:0.06, G:0.05, T:0.15
Consensus pattern (16 bp):
AAAATAAAAATGAAAC
Found at i:2642275 original size:15 final size:16
Alignment explanation
Indices: 2642255--2642284 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
2642245 ATTAAATAGA
2642255 AAAAAGAAA-AAAAAT
1 AAAAAGAAATAAAAAT
2642270 AAAAAGAAATAAAAA
1 AAAAAGAAATAAAAA
2642285 ATACTAATGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.87, C:0.00, G:0.07, T:0.07
Consensus pattern (16 bp):
AAAAAGAAATAAAAAT
Found at i:2642347 original size:2 final size:2
Alignment explanation
Indices: 2642342--2642404 Score: 126
Period size: 2 Copynumber: 31.5 Consensus size: 2
2642332 CACACCACAG
2642342 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2642384 AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT A
2642405 ATAAAATATA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2643880 original size:31 final size:31
Alignment explanation
Indices: 2643844--2643902 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
2643834 AACTTAAAAG
* *
2643844 AGTTTTGCAATACTGAGATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
2643875 AGTTTTACAATACTGAAATTTAAATAAT
1 AGTTTTACAATACTGAAATTTAAATAAT
2643903 CCATACAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.42
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:2643953 original size:22 final size:22
Alignment explanation
Indices: 2643927--2643969 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
2643917 TAATAAATTA
*
2643927 TTTAAAATAAATCAATTCATAT
1 TTTAAAATAAATCAATACATAT
2643949 TTTAAAATAAATCAATACATA
1 TTTAAAATAAATCAATACATA
2643970 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATACATAT
Found at i:2643978 original size:22 final size:22
Alignment explanation
Indices: 2643929--2643977 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
2643919 ATAAATTATT
* **
2643929 TAAAATAAATCAATTCATATTT
1 TAAAATAAATCAATACATATAA
2643951 TAAAATAAATCAATACATACTAA
1 TAAAATAAATCAATACATA-TAA
2643974 TAAA
1 TAAA
2643978 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATACATATAA
Found at i:2643981 original size:54 final size:54
Alignment explanation
Indices: 2643917--2644488 Score: 392
Period size: 54 Copynumber: 10.6 Consensus size: 54
2643907 ACAACTACAA
*
2643917 TAATAAATTATTTAAAATAAATCAATTCATATTTTAAAATAAATCAATACATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATACATAC
* * *
2643971 TAATAAATTATTTAAAATAAATCAATCCATA----CAACTACAAT-AATAAAT-C
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATA-AATCAATACATAC
*** *
2644020 -AAT-CCGTATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATCCATAC
1 TAATAAATTA-TTTAAAATAAATCAA-TC---C--AT--A-T-TTTAAAATAAATCAATACATAC
*
2644083 -AACTACA--A--T--AATAAATCAATCCATATTTTAAAATAAATCAAT-CTATAC
1 TAA-TAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATAC-ATAC
* * ** * ** * *
2644131 AAATAAATTATTT-AAATAAATCAATCTATACTAATAAATTATTTAAAATAAAT-C
1 TAATAAATTATTTAAAATAAATCAATCCATA-TTTTAAAATAAAT-CAATACATAC
** *
2644185 -AATCTA-TATTTTAAAATAAATCAATTCATATTTTAAAATAAATCAAT-CTATAC
1 TAATAAATTA-TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATAC-ATAC
*
2644238 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATACATAC
* * * *
2644292 TAATAAATTATTTAAAGTAAATCAATCCATA----CAACTACAAT-AATAAAT-C
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATA-AATCAATACATAC
** *
2644341 -AATCCA-TATTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAATCCATAC
1 TAATAAATTA-TTTAAAATAAATCAAT-C---C--AT--A-T-TTTAAAATAAATCAATACATAC
* *
2644404 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATTAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATACATAC
2644458 TAATAAATTATTTAAAATAAATCAATCCATA
1 TAATAAATTATTTAAAATAAATCAATCCATA
2644489 CAACTACAAT
Statistics
Matches: 411, Mismatches: 50, Indels: 114
0.71 0.09 0.20
Matches are distributed among these distances:
47 5 0.01
48 60 0.15
49 8 0.02
50 21 0.05
51 6 0.01
52 12 0.03
53 31 0.08
54 186 0.45
55 9 0.02
56 3 0.01
57 2 0.00
58 12 0.03
60 2 0.00
61 6 0.01
62 18 0.04
63 6 0.01
64 21 0.05
65 3 0.01
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (54 bp):
TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATACATAC
Found at i:2644019 original size:26 final size:26
Alignment explanation
Indices: 2643986--2644107 Score: 92
Period size: 26 Copynumber: 4.6 Consensus size: 26
2643976 AATTATTTAA
2643986 AATAAATCAATCCATACAACTACAAT
1 AATAAATCAATCCATACAACTACAAT
* * **
2644012 AATAAATCAATCCGT---ATTTTAA-
1 AATAAATCAATCCATACAACTACAAT
* *
2644034 AATAAATCAATTCATACTAA-TAAATTATTT
1 AATAAATCAATCCATAC-AACTACA--A--T
2644064 AAAATAAATCAATCCATACAACTACAAT
1 --AATAAATCAATCCATACAACTACAAT
2644092 AATAAATCAATCCATA
1 AATAAATCAATCCATA
2644108 TTTTAAAATA
Statistics
Matches: 74, Mismatches: 10, Indels: 24
0.69 0.09 0.22
Matches are distributed among these distances:
22 13 0.18
23 4 0.05
25 2 0.03
26 31 0.42
27 1 0.01
28 1 0.01
30 1 0.01
31 2 0.03
32 19 0.26
ACGTcount: A:0.52, C:0.17, G:0.01, T:0.30
Consensus pattern (26 bp):
AATAAATCAATCCATACAACTACAAT
Found at i:2644022 original size:80 final size:80
Alignment explanation
Indices: 2643932--2644568 Score: 852
Period size: 80 Copynumber: 7.9 Consensus size: 80
2643922 AATTATTTAA
* *
2643932 AATAAATCAATTCATATTTTAAAATAAATCAATACATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
2643997 CCATACAACTACAAT
66 CCATACAACTACAAT
* *
2644012 AATAAATCAATCCGTATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
2644077 CCATACAACTACAAT
66 CCATACAACTACAAT
* *
2644092 AATAAATCAATCCATATTTTAAAATAAATCAATCTATACAAATAAATTATTT-AAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
* *
2644156 CTATACTAA-TAAATTATTT
66 CCATAC-AACTACA--A--T
*
2644175 AAAATAAATCAATCTATATTTTAAAATAAATCAAT---T-C--AT--A-T-TTTAAAATAAATCA
1 --AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCA
* *
2644230 ATCTATACTAA-TAAATTATTT
64 ATCCATAC-AACTACA--A--T
*
2644251 AAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAGTAAATCA
1 --AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCA
2644316 ATCCATACAACTACAAT
64 ATCCATACAACTACAAT
*
2644333 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
*
2644398 CCATACTAA-TAAATTATTT
66 CCATAC-AACTACA--A--T
*
2644417 AAAATAAATCAATCCATATTTTAAAATAAATTAATCCATACTAATAAATTATTTAAAATAAATCA
1 --AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCA
2644482 ATCCATACAACTACAAT
64 ATCCATACAACTACAAT
2644499 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
2644564 CCATA
66 CCATA
2644569 TTTTAAAATA
Statistics
Matches: 509, Mismatches: 21, Indels: 54
0.87 0.04 0.09
Matches are distributed among these distances:
75 3 0.01
76 66 0.13
77 1 0.00
79 23 0.05
80 269 0.53
81 4 0.01
82 6 0.01
83 1 0.00
84 4 0.01
85 37 0.07
86 95 0.19
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.34
Consensus pattern (80 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
CCATACAACTACAAT
Found at i:2644149 original size:31 final size:32
Alignment explanation
Indices: 2644109--2644192 Score: 152
Period size: 31 Copynumber: 2.7 Consensus size: 32
2644099 CAATCCATAT
2644109 TTTAAAATAAATCAATCTATACAAATAAATTA
1 TTTAAAATAAATCAATCTATACAAATAAATTA
*
2644141 TTT-AAATAAATCAATCTATACTAATAAATTA
1 TTTAAAATAAATCAATCTATACAAATAAATTA
2644172 TTTAAAATAAATCAATCTATA
1 TTTAAAATAAATCAATCTATA
2644193 TTTTAAAATA
Statistics
Matches: 50, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
31 30 0.60
32 20 0.40
ACGTcount: A:0.54, C:0.10, G:0.00, T:0.37
Consensus pattern (32 bp):
TTTAAAATAAATCAATCTATACAAATAAATTA
Found at i:2644245 original size:22 final size:22
Alignment explanation
Indices: 2644172--2644236 Score: 114
Period size: 22 Copynumber: 3.0 Consensus size: 22
2644162 TAATAAATTA
2644172 TTTAAAATAAATCAATCTATAT
1 TTTAAAATAAATCAATCTATAT
2644194 TTTAAAATAAATCAAT-TCATAT
1 TTTAAAATAAATCAATCT-ATAT
2644216 TTTAAAATAAATCAATCTATA
1 TTTAAAATAAATCAATCTATA
2644237 CTAATAAATT
Statistics
Matches: 41, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
21 1 0.02
22 39 0.95
23 1 0.02
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (22 bp):
TTTAAAATAAATCAATCTATAT
Found at i:2644255 original size:32 final size:32
Alignment explanation
Indices: 2644216--2644667 Score: 204
Period size: 32 Copynumber: 15.4 Consensus size: 32
2644206 CAATTCATAT
*
2644216 TTTAAAATAAATCAATCTATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
2644248 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
2644270 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
2644302 TTTAAAGTAAATCAATCCATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
2644332 --T--AATAAATCAATCC--A-T-AT------
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
2644350 TTTAAAATAAATCAATCCATACAAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
2644382 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
2644414 TTTAAAATAAATCAATCCATATTTTAAAATAAATTAA
1 TTTAAAATAAATCAATCCATA--CT--AATAAATT-A
* * * * * *
2644451 TCCATACTAATAAAT-TAT--TTA-AAATAAATCAA
1 T--TTA-AAATAAATCAATCCATACTAATAAAT-TA
* * ** **
2644483 TCCATACAACTACAAT-AATAAAT-C-AATCCATAT-
1 T--TTA-AAATA-AATCAATCCATACTAATAAAT-TA
2644516 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
2644548 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
2644570 TTTAAAATAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
2644602 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
2644624 TTTAAAATAAATCAATTCATATTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
2644656 TTTAAAATAAAT
1 TTTAAAATAAAT
2644668 TATTTTTAAA
Statistics
Matches: 329, Mismatches: 28, Indels: 126
0.68 0.06 0.26
Matches are distributed among these distances:
20 1 0.00
22 62 0.19
23 7 0.02
24 5 0.02
26 22 0.07
28 10 0.03
29 3 0.01
30 13 0.04
31 11 0.03
32 159 0.48
33 6 0.02
34 6 0.02
35 1 0.00
36 8 0.02
37 4 0.01
39 4 0.01
40 7 0.02
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (32 bp):
TTTAAAATAAATCAATCCATACTAATAAATTA
Found at i:2644274 original size:22 final size:22
Alignment explanation
Indices: 2644248--2644290 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
2644238 TAATAAATTA
2644248 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
2644270 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
2644291 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:2644299 original size:22 final size:22
Alignment explanation
Indices: 2644250--2644298 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
2644240 ATAAATTATT
**
2644250 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
2644272 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
2644295 TAAA
1 TAAA
2644299 TTATTTAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:2644379 original size:22 final size:22
Alignment explanation
Indices: 2644304--2644379 Score: 55
Period size: 22 Copynumber: 3.2 Consensus size: 22
2644294 ATAAATTATT
2644304 TAAAGTAAATCAATCCATACAACTA
1 TAAA-TAAATCAATCCATACAA--A
* ***
2644329 CAATAATAAATCAATCCATA-TTT
1 -TA-AATAAATCAATCCATACAAA
2644352 TAAAATAAATCAATCCATACAAA
1 T-AAATAAATCAATCCATACAAA
2644375 TAAAT
1 TAAAT
2644380 TATTTAAAAT
Statistics
Matches: 39, Mismatches: 8, Indels: 10
0.68 0.14 0.18
Matches are distributed among these distances:
22 20 0.51
23 2 0.05
26 15 0.38
27 2 0.05
ACGTcount: A:0.54, C:0.17, G:0.01, T:0.28
Consensus pattern (22 bp):
TAAATAAATCAATCCATACAAA
Found at i:2644431 original size:166 final size:166
Alignment explanation
Indices: 2644216--2644568 Score: 670
Period size: 166 Copynumber: 2.1 Consensus size: 166
2644206 CAATTCATAT
*
2644216 TTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
*
2644281 TCAATCCATACTAATAAATTATTTAAAGTAAATCAATCCATACAACTACAATAATAAATCAATCC
66 TCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCC
2644346 ATATTTTAAAATAAATCAATCCATACAAATAAATTA
131 ATATTTTAAAATAAATCAATCCATACAAATAAATTA
2644382 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
*
2644447 TTAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCC
66 TCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCC
*
2644512 ATATTTTAAAATAAATCAATCCATACTAATAAATTA
131 ATATTTTAAAATAAATCAATCCATACAAATAAATTA
2644548 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
2644569 TTTTAAAATA
Statistics
Matches: 183, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
166 183 1.00
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.33
Consensus pattern (166 bp):
TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
TCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCC
ATATTTTAAAATAAATCAATCCATACAAATAAATTA
Found at i:2644440 original size:22 final size:22
Alignment explanation
Indices: 2644414--2644456 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
2644404 TAATAAATTA
2644414 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
2644436 TTTAAAATAAATTAATCCATA
1 TTTAAAATAAATCAATCCATA
2644457 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:2644465 original size:22 final size:22
Alignment explanation
Indices: 2644416--2644464 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
2644406 ATAAATTATT
**
2644416 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
*
2644438 TAAAATAAATTAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
2644461 TAAA
1 TAAA
2644465 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:2644545 original size:22 final size:23
Alignment explanation
Indices: 2644470--2644544 Score: 82
Period size: 22 Copynumber: 3.2 Consensus size: 23
2644460 ATAAATTATT
2644470 TAAAATAAATCAATCCATAC-AA
1 TAAAATAAATCAATCCATACTAA
**
2644492 CTACAATAATAAATCAATCCATA-TTT
1 -T--AA-AATAAATCAATCCATACTAA
2644518 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATACTAA
2644541 TAAA
1 TAAA
2644545 TTATTTAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
22 16 0.37
23 8 0.19
25 3 0.07
26 16 0.37
ACGTcount: A:0.55, C:0.17, G:0.00, T:0.28
Consensus pattern (23 bp):
TAAAATAAATCAATCCATACTAA
Found at i:2644563 original size:54 final size:54
Alignment explanation
Indices: 2644012--2644667 Score: 388
Period size: 54 Copynumber: 12.1 Consensus size: 54
2644002 CAACTACAAT
* *
2644012 AATAAATCAATCCGTATTTTAAAATAAATCAATTCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
* ** **
2644066 AATAAATCAATCCATACAACTACAATAATAAATCAATCCATA-TTTTAAA--A--T-A
1 AATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATACTAATAAATTATTTAA
* * * * *
2644118 AATCAATCTATACAAATAAATTATTTAAATAAATCAATCTATACTAATAAATTATTTAA
1 AATAAATCAAT-C-CAT--ATT-TTAAAATAAATCAATCCATACTAATAAATTATTTAA
* * * * * *
2644177 AATAAATCAATCTATATTTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCTAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATA--CT--AATAAAT-TATTTAA
* * ** * ** *
2644236 ACT-AATAAAT---TA-TTTAAAATAAATCAATCCATA-TTTTAAAATAAAT-C
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
** ** * *
2644283 AATCCATACTAATAAAT-TATTTAAAGTAAATCAATCCATAC-AACTACA--A--T--
1 AATAAAT-C-AATCCATAT-TTTAAAATAAATCAATCCATACTAA-TAAATTATTTAA
*
2644333 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
** * *
2644387 AATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATA-TTTTAAAATAAATTAA
1 AATAAATCAAT-C---C--AT--A-T-TTTAAAATAAATCAATCCATACTAAT-AAATTATTTAA
* * *
2644451 TCCATACTAATAAAT---TA-TTTAAAATAAATCAATCCATAC-AACTACA--A--T--
1 --AATA--AATCAATCCATATTTTAAAATAAATCAATCCATACTAA-TAAATTATTTAA
2644499 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
*
2644553 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
* *
2644607 AATAAATCAATCCATATTTTAAAATAAATCAATTCATATTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
2644661 AATAAAT
1 AATAAAT
2644668 TATTTTTAAA
Statistics
Matches: 472, Mismatches: 66, Indels: 128
0.71 0.10 0.19
Matches are distributed among these distances:
44 6 0.01
46 3 0.01
47 4 0.01
48 58 0.12
49 10 0.02
50 11 0.02
51 2 0.00
52 13 0.03
53 22 0.05
54 226 0.48
55 11 0.02
56 2 0.00
57 12 0.03
58 31 0.07
59 17 0.04
60 2 0.00
62 1 0.00
63 2 0.00
64 30 0.06
66 3 0.01
68 6 0.01
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.35
Consensus pattern (54 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
Found at i:2644574 original size:22 final size:22
Alignment explanation
Indices: 2644548--2644590 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
2644538 TAATAAATTA
2644548 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
2644570 TTTAAAATAAATCAATTCATA
1 TTTAAAATAAATCAATCCATA
2644591 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:2644599 original size:22 final size:22
Alignment explanation
Indices: 2644550--2644598 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
2644540 ATAAATTATT
**
2644550 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
*
2644572 TAAAATAAATCAATTCATACTAA
1 TAAAATAAATCAATCCATA-TAA
2644595 TAAA
1 TAAA
2644599 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:2644608 original size:166 final size:164
Alignment explanation
Indices: 2644216--2644622 Score: 595
Period size: 166 Copynumber: 2.4 Consensus size: 164
2644206 CAATTCATAT
* * * *
2644216 TTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
1 TTTAAAATAAATCAATCCATACTAATAAATAATTCAAAATAAATAAAT-C-TATTTTAAAATAAA
*
2644281 TCAATCCATACTAATAAATTATTTAAAGTAAATCAATCCATACAACTACAATAATAAATCAATCC
64 TCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCC
2644346 ATATTTTAAAATAAATCAATCCATACAAATAAATTA
129 ATATTTTAAAATAAATCAATCCATACAAATAAATTA
* * *
2644382 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
1 TTTAAAATAAATCAATCCATACTAATAAATAATTCAAAATAAATAAAT-C-TATTTTAAAATAAA
*
2644447 TTAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCC
64 TCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCC
*
2644512 ATATTTTAAAATAAATCAATCCATACTAATAAATTA
129 ATATTTTAAAATAAATCAATCCATACAAATAAATTA
* * *
2644548 TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTCATACT-AATAAAT-TA-TTTAAAAT
1 TTTAAAATAAATCAATCCATA--CT--AATAAAT-AATTCAAAATAAATAAATCTATTTTAAAAT
2644610 AAATCAATCCATA
61 AAATCAATCCATA
2644623 TTTTAAAATA
Statistics
Matches: 225, Mismatches: 11, Indels: 10
0.91 0.04 0.04
Matches are distributed among these distances:
166 203 0.90
167 2 0.01
168 1 0.00
170 13 0.06
171 6 0.03
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (164 bp):
TTTAAAATAAATCAATCCATACTAATAAATAATTCAAAATAAATAAATCTATTTTAAAATAAATC
AATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCAT
ATTTTAAAATAAATCAATCCATACAAATAAATTA
Found at i:2644628 original size:22 final size:22
Alignment explanation
Indices: 2644602--2644702 Score: 85
Period size: 22 Copynumber: 4.5 Consensus size: 22
2644592 TAATAAATTA
2644602 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
2644624 TTTAAAATAAATCAATTCATAT
1 TTTAAAATAAATCAATCCATAT
* * ** * **
2644646 TAATAAATTATTTAAAATAAATTAT
1 T-TTAAAATAAAT-CAATCCA-TAT
*
2644671 TTTTAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
2644693 TTTATAATAA
1 TTTAAAATAA
2644703 TTTATTTTAA
Statistics
Matches: 58, Mismatches: 18, Indels: 6
0.71 0.22 0.07
Matches are distributed among these distances:
22 33 0.57
23 11 0.19
24 10 0.17
25 4 0.07
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:2644650 original size:18 final size:18
Alignment explanation
Indices: 2644575--2644653 Score: 58
Period size: 22 Copynumber: 4.4 Consensus size: 18
2644565 CATATTTTAA
*
2644575 AATAAATCAATTCATACT
1 AATAAATCAATTCATATT
* *
2644593 AATAAAT-TATT--TA-A
1 AATAAATCAATTCATATT
*
2644607 AATAAATCAATCCATATTTT
1 AATAAATCAATTCATA--TT
2644627 AAAATAAATCAATTCATATT
1 --AATAAATCAATTCATATT
2644647 AATAAAT
1 AATAAAT
2644654 TATTTAAAAT
Statistics
Matches: 47, Mismatches: 6, Indels: 16
0.68 0.09 0.23
Matches are distributed among these distances:
14 7 0.15
15 4 0.09
17 5 0.11
18 14 0.30
20 2 0.04
22 15 0.32
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.37
Consensus pattern (18 bp):
AATAAATCAATTCATATT
Found at i:2644680 original size:15 final size:14
Alignment explanation
Indices: 2644647--2644764 Score: 101
Period size: 15 Copynumber: 7.5 Consensus size: 14
2644637 AATTCATATT
*
2644647 AATAAATTATTTAA
1 AATAAATTATTTTA
2644661 AATAAATTATTTTTA
1 AATAAATTA-TTTTA
2644676 AATAAATCAATCCATATTTTA
1 AAT--A--AAT---TATTTTA
*
2644697 TAATAATTTATTTTA
1 -AATAAATTATTTTA
2644712 AATTAAATTATTTTA
1 AA-TAAATTATTTTA
2644727 TAATAAATTATTTTA
1 -AATAAATTATTTTA
2644742 GAATAAATTATTTTAA
1 -AATAAATTATTTT-A
2644758 AATAAAT
1 AATAAAT
2644765 AACCTTATTA
Statistics
Matches: 88, Mismatches: 4, Indels: 23
0.77 0.03 0.20
Matches are distributed among these distances:
14 11 0.12
15 57 0.65
16 3 0.03
17 1 0.01
18 2 0.02
19 3 0.03
20 1 0.01
21 5 0.06
22 5 0.06
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (14 bp):
AATAAATTATTTTA
Found at i:2644717 original size:69 final size:66
Alignment explanation
Indices: 2644593--2644749 Score: 190
Period size: 69 Copynumber: 2.3 Consensus size: 66
2644583 AATTCATACT
* *
2644593 AATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTCATATTAATAAATTA-T
1 AATAAATTATTTTAAATAAATCAATCCATATTTTAAAATAAATCAATTCA-A--ATTAAATTATT
2644657 TTAA
63 TTAA
* * * * *
2644661 AATAAATTATTTTTAAATAAATCAATCCATATTTTATAATAATTTATTTTAAATTAAATTATTTT
1 AATAAATTA-TTTTAAATAAATCAATCCATATTTTAAAATAAATCAATTCAAATTAAATTATTTT
*
2644726 AT
65 AA
2644728 AATAAATTATTTTAGAATAAAT
1 AATAAATTATTTTA-AATAAAT
2644750 TATTTTAAAA
Statistics
Matches: 78, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
66 13 0.17
67 20 0.26
68 10 0.13
69 35 0.45
ACGTcount: A:0.50, C:0.05, G:0.01, T:0.45
Consensus pattern (66 bp):
AATAAATTATTTTAAATAAATCAATCCATATTTTAAAATAAATCAATTCAAATTAAATTATTTTA
A
Found at i:2644724 original size:30 final size:30
Alignment explanation
Indices: 2644690--2644764 Score: 116
Period size: 30 Copynumber: 2.5 Consensus size: 30
2644680 AATCAATCCA
*
2644690 TATTTTATAATAATTTATTTTA-AATTAAAT
1 TATTTTATAATAAATTATTTTAGAA-TAAAT
2644720 TATTTTATAATAAATTATTTTAGAATAAAT
1 TATTTTATAATAAATTATTTTAGAATAAAT
*
2644750 TATTTTAAAATAAAT
1 TATTTTATAATAAAT
2644765 AACCTTATTA
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
30 40 0.95
31 2 0.05
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (30 bp):
TATTTTATAATAAATTATTTTAGAATAAAT
Found at i:2644733 original size:52 final size:47
Alignment explanation
Indices: 2644513--2644734 Score: 176
Period size: 54 Copynumber: 4.3 Consensus size: 47
2644503 AATCAATCCA
* *
2644513 TATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 TATTTTATAATAAATCAATCCATATTAATAAATTATTTAAAAT--A--AAT
* * *
2644564 CCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAAT
1 ---TATTTTATAATAAATCAATCCATATTAATAAATTATTTAAAAT--A--AAT
* *
2644618 CCATATTTTAAAATAAATCAATTCATATTAATAAATTATTTAAAATAAAT
1 ---TATTTTATAATAAATCAATCCATATTAATAAATTATTTAAAATAAAT
* *
2644668 TATTTT-TAAATAAATCAATCCATATTTTATAATAATTTATTTTAAATTAAAT
1 TATTTTAT-AATAAATCAATCCATA---T-TAATAAATTA-TTTAAAATAAAT
2644720 TATTTTATAATAAAT
1 TATTTTATAATAAAT
2644735 TATTTTAGAA
Statistics
Matches: 155, Mismatches: 6, Indels: 16
0.88 0.03 0.09
Matches are distributed among these distances:
47 21 0.14
50 4 0.03
51 9 0.06
52 25 0.16
53 1 0.01
54 95 0.61
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (47 bp):
TATTTTATAATAAATCAATCCATATTAATAAATTATTTAAAATAAAT
Found at i:2651902 original size:35 final size:34
Alignment explanation
Indices: 2651836--2652185 Score: 121
Period size: 37 Copynumber: 9.6 Consensus size: 34
2651826 AATCATTTCG
*
2651836 AAAATTATATAATATCTGGTTTT-AAATATTTTTTGA
1 AAAATTATAT-ATA--TGGTTTTAAAACATTTTTTGA
*
2651872 AAACTTATATATATGGGTTTTAAAACA--TTTTGAA
1 AAAATTATATATAT-GGTTTTAAAACATTTTTTG-A
* *
2651906 AAAATATATAATATATAGTTTTTGAAAA-ATGTTTTGA
1 AAAAT-TAT-ATATAT-GGTTTT-AAAACATTTTTTGA
* * **
2651943 AAATATATATATTATATAGATTTTGAAAAAACATTTT-A
1 AAA-AT-TATA-TATAT-GGTTTT-AAAACATTTTTTGA
2651981 AAAATATATACTATATGGTTTTTGAAAAACA--TTTTGA
1 AAAAT-TATA-TATATGG-TTTT--AAAACATTTTTTGA
* * * * ** *
2652018 AAATACATATAAATATAGTTCTAAAA-AGATTTTGG
1 AAA-A-TTATATATATGGTTTTAAAACATTTTTTGA
* *
2652053 AAATTATATAATATATAGTTTTAAAA-ATATTTTTGA
1 AAAAT-TAT-ATATATGGTTTTAAAACAT-TTTTTGA
*
2652089 AAAATTATATAATATATAGTTTTAAAAAAACA-TTTTTGA
1 AAAA-T-TAT-ATATATGGTTTT---AAAACATTTTTTGA
*
2652128 AAACTTATATAATAT--TTTTAAAACATTTTTTTGA
1 AAAATTATAT-ATATGGTTTTAAAACA-TTTTTTGA
* *
2652162 AAACTATATAATATATAGTTTTAA
1 AAAAT-TAT-ATATATGGTTTTAA
2652186 TTTTTTTAAA
Statistics
Matches: 255, Mismatches: 26, Indels: 65
0.74 0.08 0.19
Matches are distributed among these distances:
32 6 0.02
33 7 0.03
34 30 0.12
35 44 0.17
36 41 0.16
37 65 0.25
38 42 0.16
39 15 0.06
40 4 0.02
41 1 0.00
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.43
Consensus pattern (34 bp):
AAAATTATATATATGGTTTTAAAACATTTTTTGA
Found at i:2652111 original size:109 final size:106
Alignment explanation
Indices: 2651835--2652185 Score: 335
Period size: 109 Copynumber: 3.2 Consensus size: 106
2651825 AAATCATTTC
* * * * *
2651835 GAAAATTATATAATATCTGGTTTTAAATAT-TTTTTGAAAACT-TAT-ATATATGGGTTTT-AAA
1 GAAAATTATATAATATATAGTTTTAAAAATATTTTTGAAAAATATATAATATATGGTTTTTAAAA
*
2651896 ACATTTTGAAAAAATATATAATATATAGTTTTTGAAAAATGTTTT
66 ACATTTTG-AAAAACATATAA-ATATAG-TTTT-AAAAATGTTTT
* * *
2651941 GAAAATATATATATTATATAGATTTTGAAAAA-ACATTTT-AAAAATATATACTATATGGTTTTT
1 GAAAAT-TATATAATATATAG-TTTT-AAAAATA-TTTTTGAAAAATATATAATATATGGTTTTT
*
2652004 GAAAAACATTTTGAAAATACATATAAATATAGTTCTAAAAA-GATTTT
62 -AAAAACATTTTGAAAA-ACATATAAATATAGTTTTAAAAATG-TTTT
* * *
2652051 GGAAATTATATAATATATAGTTTTAAAAATATTTTTGAAAAATTATATAATATATAGTTTTAAAA
1 GAAAATTATATAATATATAGTTTTAAAAATATTTTTGAAAAA-TATATAATATATGGTTTT-TAA
* *
2652116 AAACATTTTTG-AAAACTTATATAATAT--TTTTAAAACATTTTTTT
64 AAACA-TTTTGAAAAACATATA-AATATAGTTTTAAAA-A-TGTTTT
*
2652160 GAAAACTATATAATATATAGTTTTAA
1 GAAAATTATATAATATATAGTTTTAA
2652186 TTTTTTTAAA
Statistics
Matches: 204, Mismatches: 21, Indels: 37
0.78 0.08 0.14
Matches are distributed among these distances:
106 6 0.03
107 27 0.13
108 21 0.10
109 82 0.40
110 26 0.13
111 14 0.07
112 10 0.05
113 18 0.09
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.43
Consensus pattern (106 bp):
GAAAATTATATAATATATAGTTTTAAAAATATTTTTGAAAAATATATAATATATGGTTTTTAAAA
ACATTTTGAAAAACATATAAATATAGTTTTAAAAATGTTTT
Found at i:2658076 original size:94 final size:94
Alignment explanation
Indices: 2657915--2658102 Score: 367
Period size: 94 Copynumber: 2.0 Consensus size: 94
2657905 ATAACGGCAA
*
2657915 GTTAAATCAAATTTATCTAAGCAAGAAATTTTCGGTAATGATGGACTAAGGGAGTTAAGGAACAC
1 GTTAAATCAAATTTATCTAAGCAAGAAATTTTCAGTAATGATGGACTAAGGGAGTTAAGGAACAC
2657980 CTGTTATAGTCAAATTCACACGAGCACTC
66 CTGTTATAGTCAAATTCACACGAGCACTC
2658009 GTTAAATCAAATTTATCTAAGCAAGAAATTTTCAGTAATGATGGACTAAGGGAGTTAAGGAACAC
1 GTTAAATCAAATTTATCTAAGCAAGAAATTTTCAGTAATGATGGACTAAGGGAGTTAAGGAACAC
2658074 CTGTTATAGTCAAATTCACACGAGCACTC
66 CTGTTATAGTCAAATTCACACGAGCACTC
2658103 AAGAATTTCA
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
94 93 1.00
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.28
Consensus pattern (94 bp):
GTTAAATCAAATTTATCTAAGCAAGAAATTTTCAGTAATGATGGACTAAGGGAGTTAAGGAACAC
CTGTTATAGTCAAATTCACACGAGCACTC
Found at i:2659274 original size:84 final size:83
Alignment explanation
Indices: 2659106--2660206 Score: 1064
Period size: 84 Copynumber: 13.3 Consensus size: 83
2659096 TTAAAGATAA
* * * *
2659106 CATTTGCAGCATAACTCAAGGCCAGAAGGGTTATCTGCCAA-CAAAGACCTTCGAGTTCGATTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTG-CAACCAAAGACCTTCGAGTTCGACTAC
* * *
2659170 ACTCAGCTTCGAGGGTACAT
65 GCTCAGC-TCAAGGGCACAT
* * *
2659190 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCTAACCAAAGACATTTGAGTTCGACCAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGC-AACCAAAGACCTTCGAGTTCGACTAC
* *
2659255 GCTCAGCTCAACGACACAT
65 GCTCAGCTCAAGGGCACAT
* * ** * *
2659274 CATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG---CCAAAGACCCCCGAGTTCGATTACA
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCAACCAAAGACCTTCGAGTTCGACTACG
* *
2659336 CTCAGCTTCGAGGGCATAT
66 CTCAGC-TCAAGGGCACAT
* * * * *
2659355 CATTTACGGCATAACTCAAGGCTAGAAGGGTTATCTGTC-ACCAAAGACCTTCGAGTTCGACTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTG-CAACCAAAGACCTTCGAGTTCGACTAC
*
2659419 GCTCAGCTCTAA-GGCATAT
65 GCTCAGCTC-AAGGGCACAT
* * * ** *
2659438 CATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTCTGCCAATAAAAGACCTTTGAGTTCGACTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTG-CAACCAAAGACCTTCGAGTTCGACTAC
*
2659503 GCTCAGCTCAACGGCACAT
65 GCTCAGCTCAAGGGCACAT
* * * *
2659522 CATTTGCAGCATAATTTAAGTCAAGAAGGGTTATCTG---CCAAAGA-C-TCGAGTTCGATTACA
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCAACCAAAGACCTTCGAGTTCGACTACG
*
2659582 CTCAGCTTCGAGGGCACAT
66 CTCAGC-TCAAGGGCACAT
* * * * *
2659601 CATTTGCAGTATAACATAAGTCGAGAAGGGTTACCTGCCAACAAAAGACCTTTGAGTTCGACTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTG-CAACCAAAGACCTTCGAGTTCGACTAC
* *
2659666 GCTCAGCTCAACGTCACAT
65 GCTCAGCTCAAGGGCACAT
* * * * * * *
2659685 CATTTACAGCATAGCTTAAGTCAAGAAGGGCTA--T-CAGCCAAAGA-CTCTCGAGTTTGATTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCAACCAAAGACCT-TCGAGTTCGACTAC
* *
2659746 ACTCAGCTTCGAGGGCACAT
65 GCTCAGC-TCAAGGGCACAT
* * *
2659766 CATTTGCAGTATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGACTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTG-CAACCAAAGACCTTCGAGTTCGACTAC
* *
2659831 GCTCAGCTCAACGACACAT
65 GCTCAGCTCAAGGGCACAT
* * * ** *
2659850 CATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTG---CCAAAGA-CTCTCGAGTTTAATTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCAACCAAAGACCT-TCGAGTTCGACTAC
* *
2659911 ACTCAGCTTCGAGGGCACAT
65 GCTCAGC-TCAAGGGCACAT
* *
2659931 CATTTGCAGTATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTG-CAACCAAAGACCTTCGAGTTCGACTAC
2659996 GCTCAGCTCCAA-GGCACAT
65 GCTCAGCT-CAAGGGCACAT
* * * * * * *
2660015 CATCTGCAGTATAACTTAAGTCGAGAAGGTTTATCTG---CCAAAGACCCTCAAGTTCGATTACA
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCAACCAAAGACCTTCGAGTTCGACTACG
**
2660077 CTCAGCTTTGAGGGCACAT
66 CTCAGC-TCAAGGGCACAT
* * * * *
2660096 CATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTC-ACCAAAAGACCTTCGAGTTCGACTA
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTG-CAACC-AAAGACCTTCGAGTTCGACTA
*
2660160 CGCTCAGCTCCAA-GGCATAT
64 CGCTCAGCT-CAAGGGCACAT
* * *
2660180 CATTTACATCATAGCTTAAGTCGAGAA
1 CATTTGCAGCATAACTTAAGTCGAGAA
2660207 AAGCTATCTA
Statistics
Matches: 827, Mismatches: 152, Indels: 76
0.78 0.14 0.07
Matches are distributed among these distances:
78 18 0.02
79 47 0.06
80 103 0.12
81 154 0.19
82 1 0.00
83 51 0.06
84 330 0.40
85 119 0.14
86 4 0.00
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (83 bp):
CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCAACCAAAGACCTTCGAGTTCGACTACG
CTCAGCTCAAGGGCACAT
Found at i:2659384 original size:165 final size:164
Alignment explanation
Indices: 2659106--2660206 Score: 599
Period size: 165 Copynumber: 6.7 Consensus size: 164
2659096 TTAAAGATAA
* * **
2659106 CATTTGCAGCATAACTCAAGGCCAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTACA
1 CATTTGCAGCATAACTTAAGTCCAGAAGGGTTATCTG-C--CAAAGACCCCCGAGTTCGATTACA
* * * *
2659171 CTCAGCTTCGAGGGTACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCTAACCAAA
63 CTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTG-TAACCAAA
*
2659236 GACATTTGAGTTCGACCACGCTCAGCTC-AACGACACAT
127 GACATTCGAGTTCGACCACGCTCAGCTCTAA-GACACAT
* * *
2659274 CATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTC
1 CATTTGCAGCATAACTTAAGTCCAGAAGGGTTATCTGCCAAAGACCCCCGAGTTCGATTACACTC
* * * * *
2659339 AGCTTCGAGGGCATATCATTTACGGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACC
66 AGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTAACCAAAGACA
* * *
2659404 TTCGAGTTCGACTACGCTCAGCTCTAAGGCATAT
131 TTCGAGTTCGACCACGCTCAGCTCTAAGACACAT
* * * *** *
2659438 CATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTCTGCCAATAAAAGACCTTTGAGTTCGACTAC
1 CATTTGCAGCATAACTTAAGTCCAGAAGGGTTATCTGCC----AAAGACCCCCGAGTTCGATTAC
* * * * * * * *
2659503 GCTCAGC-TCAACGGCACATCATTTGCAGCATAATTTAAGTCAAGAAGGGTTATCTG---CCAAA
62 ACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTAACCAAA
** * * * *
2659564 GAC--TCGAGTTCGATTACACTCAGCTTCGAGGGCACAT
127 GACATTCGAGTTCGACCACGCTCAGC-TCTAAGACACAT
* * * * *** *
2659601 CATTTGCAGTATAACATAAGTCGAGAAGGGTTACCTGCCAACAAAAGACCTTTGAGTTCGACTAC
1 CATTTGCAGCATAACTTAAGTCCAGAAGGGTTATCTG-C--C-AAAGACCCCCGAGTTCGATTAC
* * * * * * * * * *
2659666 GCTCAGC-TCAACGTCACATCATTTACAGCATAGCTTAAGTCAAGAAGGGCTATC---AGCCAAA
62 ACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTAACCAAA
* ** * * * *
2659727 GAC-TCTCGAGTTTGATTACACTCAGCTTCGAGGGCACAT
127 GACAT-TCGAGTTCGACCACGCTCAGC-TCTAAGACACAT
* * *** *
2659766 CATTTGCAGTATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGACTAC
1 CATTTGCAGCATAACTTAAGTCCAGAAGGGTTATCTG-C--C-AAAGACCCCCGAGTTCGATTAC
* * * * * * * * * *
2659831 GCTCAGC-TCAACGACACATCATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTG---CCAAA
62 ACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTAACCAAA
** ** * * * *
2659892 GAC-TCTCGAGTTTAATTACACTCAGCTTCGAGGGCACAT
127 GACAT-TCGAGTTCGACCACGCTCAGC-TCTAAGACACAT
* * *** *
2659931 CATTTGCAGTATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTAC
1 CATTTGCAGCATAACTTAAGTCCAGAAGGGTTATCTG----CCAAAGACCCCCGAGTTCGATTAC
* * * * * * * * *
2659996 GCTCAGC-TCCAAGGCACATCATCTGCAGTATAACTTAAGTCGAGAAGGTTTATCTG---CCAAA
62 ACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTAACCAAA
** * ** * * * *
2660057 GACCCTCAAGTTCGATTACACTCAGCTTTGAGGGCACAT
127 GACATTCGAGTTCGACCACGCTCAGCTCT-AAGACACAT
* * * * * ** *
2660096 CATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTAC
1 CATTTGCAGCATAACTTAAGTCCAGAAGGGTTATCTG---CC-AAAGACCCCCGAGTTCGATTAC
* * * * * * * *
2660161 GCTCAGC-TCCAAGGCATATCATTTACATCATAGCTTAAGTCGAGAA
62 ACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCGAGAA
2660207 AAGCTATCTA
Statistics
Matches: 820, Mismatches: 92, Indels: 45
0.86 0.10 0.05
Matches are distributed among these distances:
162 19 0.02
163 120 0.15
164 84 0.10
165 497 0.61
166 2 0.00
167 41 0.05
168 57 0.07
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (164 bp):
CATTTGCAGCATAACTTAAGTCCAGAAGGGTTATCTGCCAAAGACCCCCGAGTTCGATTACACTC
AGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTAACCAAAGACA
TTCGAGTTCGACCACGCTCAGCTCTAAGACACAT
Found at i:2659992 original size:330 final size:328
Alignment explanation
Indices: 2659106--2660215 Score: 1297
Period size: 330 Copynumber: 3.4 Consensus size: 328
2659096 TTAAAGATAA
* *
2659106 CATTTGCAGCATAACTCAAGGCCAGAAGGGTTATCTGCCAAC-AAAGACCTTCGAGTTCGATTAC
1 CATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTAC
* * * * * *
2659170 ACTCAGCTTCGAGGGTACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCTAACCAA
66 GCTCAGC-TCAACGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGCTATCTG----CCAA
* ** * * * * * *
2659235 AGACAT-TTGAGTTCGACCACGCTCAGC-TCAACGACACATCATTTGCAGCATAGCTTAAGTCGA
126 AGAC-TCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGTATAACTTAAGTCGA
* *** * * * *
2659298 GAAGGGCTATCTG----CCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCATATCATT
190 GAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGC-TC-AAGGCACATCATT
* * * * * *
2659359 TACGGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCA
253 TACAGCATAACTTAAGTCAAGAAGGGTTATCTG---CCAAAGACC-TCGAGTTCGATTACACTCA
* * *
2659424 GC-TCTAAGGCATAT
314 GCTTCGAGGGCACAT
* * * * * *
2659438 CATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTCTGCCAATAAAAGACCTTTGAGTTCGACTAC
1 CATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTAC
* *
2659503 GCTCAGCTCAACGGCACATCATTTGCAGCATAATTTAAGTCAAGAAGGGTTATCTGCCAAAGA--
66 GCTCAGCTCAACGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGCTATCTGCCAAAGACT
*
2659566 CTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGTATAACATAAGTCGAGAAGGG
131 CTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGTATAACTTAAGTCGAGAAGGG
* * *
2659631 TTACCTGCCAACAAAAGACCTTTGAGTTCGACTACGCTCAGCTCAACGTCACATCATTTACAGCA
196 TTATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCAA-GGCACATCATTTACAGCA
* * * *
2659696 TAGCTTAAGTCAAGAAGGGCTATCAGCCAAAGACTCTCGAGTTTGATTACACTCAGCTTCGAGGG
260 TAACTTAAGTCAAGAAGGGTTATCTGCCAAAGAC-CTCGAGTTCGATTACACTCAGCTTCGAGGG
2659761 CACAT
324 CACAT
* * * * *
2659766 CATTTGCAGTATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGACTAC
1 CATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTAC
* *
2659831 GCTCAGCTCAACGACACATCATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTGCCAAAGACT
66 GCTCAGCTCAACGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGCTATCTGCCAAAGACT
**
2659896 CTCGAGTTTAATTACACTCAGCTTCGAGGGCACATCATTTGCAGTATAACTTAAGTCGAGAAGGG
131 CTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGTATAACTTAAGTCGAGAAGGG
* * *
2659961 TTATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATCTGCAGTA
196 TTATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCT-CAAGGCACATCATTTACAGCA
* * * *
2660026 TAACTTAAGTCGAGAAGGTTTATCTGCCAAAGACCCTCAAGTTCGATTACACTCAGCTTTGAGGG
260 TAACTTAAGTCAAGAAGGGTTATCTGCCAAAGA-CCTCGAGTTCGATTACACTCAGCTTCGAGGG
2660091 CACAT
324 CACAT
* * * *
2660096 CATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTAC
1 CATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTAC
* * * * * **
2660161 GCTCAGCTCCAA-GGCATATCATTTACATCATAGCTTAAGTCGAGAAAAGCTATCT
66 GCTCAGCT-CAACGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGCTATCT
2660216 ATCAGCGAAG
Statistics
Matches: 673, Mismatches: 90, Indels: 32
0.85 0.11 0.04
Matches are distributed among these distances:
326 17 0.03
327 67 0.10
328 136 0.20
329 1 0.00
330 314 0.47
331 32 0.05
332 80 0.12
333 26 0.04
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (328 bp):
CATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTAC
GCTCAGCTCAACGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGCTATCTGCCAAAGACT
CTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGTATAACTTAAGTCGAGAAGGG
TTATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCAAGGCACATCATTTACAGCAT
AACTTAAGTCAAGAAGGGTTATCTGCCAAAGACCTCGAGTTCGATTACACTCAGCTTCGAGGGCA
CAT
Found at i:2660125 original size:411 final size:411
Alignment explanation
Indices: 2659106--2660083 Score: 1251
Period size: 411 Copynumber: 2.4 Consensus size: 411
2659096 TTAAAGATAA
* * *
2659106 CATTTGCAGCATAACTCAAGGCCAGAAGGGTTATCTGCCAA-CAAAGACCTTCGAGTTCGATTAC
1 CATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGATTAC
* *
2659170 ACTCAGCTTCGAGGGTACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCTAACCAA
66 ACTCAGCTTCGAGGGCACATCATTTGCAGTATAACTTAAGTCGAGAAGGGTTATCTG---ACCAA
* * * *
2659235 AGACATTTGAGTTCGACCACGCTCAGCTCAACGACACATCATTTGCAGCATAGCTTAAGTCGAGA
128 AGACCTTTGAGTTCGACTACGCTCAGCTCAACGACACATCATTTACAGCATAGCTTAAGTCAAGA
* * *
2659300 AGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCATATCATTTACGGC
193 AGGGCTATCAGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGC
* * *
2659365 ATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCTA
258 ATAACTCAAGGCGAGAAGGGTTATCTGCCACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCTA
* * * * * *
2659430 AGGCATATCATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTCTGCCAATAAAAGACCTTTGAGT
323 AGACACATCATTTGCAGCACAACTTAAGTCAAGAAGGGCTATCTGCC---AAAAGACCTTCGAGT
* *
2659495 TCGACTACGCTCAGCTCAACGGCACAT
385 TCAACTACACTCAGCTCAACGGCACAT
*
2659522 CATTTGCAGCATAATTTAAGTCAAGAAGGGTTATCTG----CCAAAGA-C-TCGAGTTCGATTAC
1 CATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGATTAC
* * *
2659581 ACTCAGCTTCGAGGGCACATCATTTGCAGTATAACATAAGTCGAGAAGGGTTACCTGCCAACAAA
66 ACTCAGCTTCGAGGGCACATCATTTGCAGTATAACTTAAGTCGAGAAGGGTTATCTG---ACCAA
*
2659646 AGACCTTTGAGTTCGACTACGCTCAGCTCAACGTCACATCATTTACAGCATAGCTTAAGTCAAGA
128 AGACCTTTGAGTTCGACTACGCTCAGCTCAACGACACATCATTTACAGCATAGCTTAAGTCAAGA
* * * * *
2659711 AGGGCTATCAGCCAAAGACTCTCGAGTTTGATTACACTCAGCTTCGAGGGCACATCATTTGCAGT
193 AGGGCTATCAGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGC
* * *
2659776 ATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGACTACGCTCAGCTC-
258 ATAACTCAAGGCGAGAAGGGTTATCTGCC-ACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCT
* *
2659840 AACGACACATCATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTGCC-AAAGA-CTCTCGAGT
322 AA-GACACATCATTTGCAGCACAACTTAAGTCAAGAAGGGCTATCTGCCAAAAGACCT-TCGAGT
* * * *
2659903 TTAATTACACTCAGCTTCGAGGGCACAT
385 TCAACTACACTCAGC-TCAACGGCACAT
* * * *
2659931 CATTTGCAGTATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTAC
1 CATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGATTAC
* * * * *
2659996 GCTCAGC-TCCAAGGCACATCATCTGCAGTATAACTTAAGTCGAGAAGGTTTATCTG-CCAAAGA
66 ACTCAGCTTCGAGGGCACATCATTTGCAGTATAACTTAAGTCGAGAAGGGTTATCTGACCAAAGA
* ** * *
2660059 CCCTCAAGTTCGATTACACTCAGCT
131 CCTTTGAGTTCGACTACGCTCAGCT
2660084 TTGAGGGCAC
Statistics
Matches: 490, Mismatches: 61, Indels: 28
0.85 0.11 0.05
Matches are distributed among these distances:
407 2 0.00
408 21 0.04
409 44 0.09
410 26 0.05
411 217 0.44
412 72 0.15
413 13 0.03
414 44 0.09
415 18 0.04
416 33 0.07
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.25
Consensus pattern (411 bp):
CATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGATTAC
ACTCAGCTTCGAGGGCACATCATTTGCAGTATAACTTAAGTCGAGAAGGGTTATCTGACCAAAGA
CCTTTGAGTTCGACTACGCTCAGCTCAACGACACATCATTTACAGCATAGCTTAAGTCAAGAAGG
GCTATCAGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATA
ACTCAAGGCGAGAAGGGTTATCTGCCACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAGA
CACATCATTTGCAGCACAACTTAAGTCAAGAAGGGCTATCTGCCAAAAGACCTTCGAGTTCAACT
ACACTCAGCTCAACGGCACAT
Found at i:2660748 original size:35 final size:36
Alignment explanation
Indices: 2660681--2661032 Score: 194
Period size: 37 Copynumber: 9.6 Consensus size: 36
2660671 AAATCATTTC
* * *
2660681 GAAAATTATATA-ATATATGGTTTT-AAATATTTTTT
1 GAAAACTATATATATATA-GTTTTTAAAACATTTTTT
* **
2660716 GAAAACT-TATATATATGGTTTTTAAAACATTTTGA
1 GAAAACTATATATATATAGTTTTTAAAACATTTTTT
* * *
2660751 AAAAATATATATAATATATAGTTTTTGAAAA-ATATTTT
1 GAAAA-CTATAT-ATATATAGTTTTT-AAAACATTTTTT
* * * **
2660789 GAATATATATATATATTATATAGATTTTGAAAAAACATTTT
1 GAA-A-A-CTATATA-TATATAG-TTTTTAAAACATTTTTT
* *
2660830 -AAAAATATATACTATATGGTTTTTGAAAAACA--TTTT
1 GAAAACTATATA-TATATAGTTTTT--AAAACATTTTTT
* * **
2660866 GAAAA-TACGTATAAATATAG-TTCTAAAA-AGATTTT
1 GAAAACTA--TATATATATAGTTTTTAAAACATTTTTT
* * *
2660901 GGAAATTATATAATATATAGTTTTAAAAACA-TTTTT
1 GAAAACTATAT-ATATATAGTTTTTAAAACATTTTTT
* *
2660937 GAAAAATTATATAATATATAGTTTTAAAAAACA-TTTTT
1 G-AAAACTATAT-ATATATAGTTTT-TAAAACATTTTTT
2660975 GAAAACT-TATATA-ATA-TTTTTAAAACATTTTTTT
1 GAAAACTATATATATATAGTTTTTAAAACA-TTTTTT
2661009 GAAAACTATATTATATATAGTTTT
1 GAAAACTATA-TATATATAGTTTT
2661033 AATTTTTTTT
Statistics
Matches: 257, Mismatches: 30, Indels: 57
0.75 0.09 0.17
Matches are distributed among these distances:
32 6 0.02
33 5 0.02
34 31 0.12
35 42 0.16
36 34 0.13
37 56 0.22
38 45 0.18
39 7 0.03
40 21 0.08
41 10 0.04
ACGTcount: A:0.45, C:0.03, G:0.08, T:0.44
Consensus pattern (36 bp):
GAAAACTATATATATATAGTTTTTAAAACATTTTTT
Found at i:2661038 original size:33 final size:29
Alignment explanation
Indices: 2661001--2661060 Score: 75
Period size: 29 Copynumber: 1.9 Consensus size: 29
2660991 TTTTTAAAAC
2661001 ATTTTTTTGAAAACTATATTATATATAGTTTTA
1 ATTTTTTT-AAAA-TATA--ATATATAGTTTTA
*
2661034 ATTTTTTTTAAATATAATATATAGTTT
1 ATTTTTTTAAAATATAATATATAGTTT
2661061 AAACAAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 11 0.42
31 4 0.15
32 3 0.12
33 8 0.31
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.57
Consensus pattern (29 bp):
ATTTTTTTAAAATATAATATATAGTTTTA
Found at i:2662378 original size:2 final size:2
Alignment explanation
Indices: 2662371--2662406 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
2662361 ATCATTCTTT
2662371 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2662407 CATTATCATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2665047 original size:2 final size:2
Alignment explanation
Indices: 2665040--2665069 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
2665030 AAAATTGAAG
2665040 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2665070 GAAAATATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2665125 original size:24 final size:25
Alignment explanation
Indices: 2665081--2665153 Score: 84
Period size: 24 Copynumber: 3.0 Consensus size: 25
2665071 AAAATATAAG
2665081 AATATAA-ATAAA-TATATATAATA
1 AATATAATATAAATTATATATAATA
2665104 AATA-AATA-AAAGTTATATATAA-A
1 AATATAATATAAA-TTATATATAATA
*
2665127 AATATAATATAAATAATATAGTAATA
1 AATATAATATAAATTATATA-TAATA
2665153 A
1 A
2665154 TGAAAAATAT
Statistics
Matches: 42, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
22 5 0.12
23 10 0.24
24 19 0.45
25 6 0.14
26 2 0.05
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (25 bp):
AATATAATATAAATTATATATAATA
Found at i:2665126 original size:34 final size:35
Alignment explanation
Indices: 2665044--2665142 Score: 94
Period size: 34 Copynumber: 2.8 Consensus size: 35
2665034 TTGAAGATAT
* * *
2665044 ATATATATATATATATATATATATATGAAAATATAAGA
1 ATATATATAAATATATATA-ATAAAT--AAATAAAAGA
*
2665082 ATATAAATAAATATATATAATAAATAAATAAAAG-
1 ATATATATAAATATATATAATAAATAAATAAAAGA
* *
2665116 TTATATATAAAAATATA-ATATAAATAA
1 ATATATATAAATATATATA-ATAAATAA
2665143 TATAGTAATA
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
33 1 0.02
34 22 0.42
35 8 0.15
37 5 0.09
38 17 0.32
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (35 bp):
ATATATATAAATATATATAATAAATAAATAAAAGA
Found at i:2665151 original size:17 final size:16
Alignment explanation
Indices: 2665081--2665152 Score: 51
Period size: 17 Copynumber: 4.2 Consensus size: 16
2665071 AAAATATAAG
2665081 AATATAAATAAATA-T
1 AATATAAATAAATAGT
2665096 ATATAATAAATAAATAAAAGT
1 A-AT-ATAAATAAAT---AGT
*
2665117 TATATATAA-AAATA-T
1 AATATA-AATAAATAGT
2665132 AATATAAATAATATAGT
1 AATATAAATAA-ATAGT
2665149 AATA
1 AATA
2665153 ATGAAAAATA
Statistics
Matches: 45, Mismatches: 2, Indels: 18
0.69 0.03 0.28
Matches are distributed among these distances:
14 2 0.04
15 9 0.20
16 6 0.13
17 15 0.33
19 7 0.16
20 5 0.11
21 1 0.02
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (16 bp):
AATATAAATAAATAGT
Found at i:2665160 original size:32 final size:29
Alignment explanation
Indices: 2665101--2665163 Score: 74
Period size: 32 Copynumber: 2.1 Consensus size: 29
2665091 AATATATATA
*
2665101 ATAAATAAATAAAAGTTATATATAAAAAT
1 ATAAATAAATAAAAGTAATATATAAAAAT
2665130 ATAATATAAATAATATAGTAATA-ATGAAAAAT
1 ATAA-ATAAATAA-A-AGTAATATAT-AAAAAT
2665162 AT
1 AT
2665164 TTAAATATTG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
29 4 0.14
30 8 0.28
31 3 0.10
32 14 0.48
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (29 bp):
ATAAATAAATAAAAGTAATATATAAAAAT
Found at i:2665482 original size:15 final size:15
Alignment explanation
Indices: 2665459--2665489 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2665449 TTCTCAGGTA
*
2665459 TCTCTCTTTTCATCT
1 TCTCCCTTTTCATCT
2665474 TCTCCCTTTTCATCT
1 TCTCCCTTTTCATCT
2665489 T
1 T
2665490 GCTTGACCTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.06, C:0.35, G:0.00, T:0.58
Consensus pattern (15 bp):
TCTCCCTTTTCATCT
Found at i:2665519 original size:14 final size:15
Alignment explanation
Indices: 2665482--2665524 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 15
2665472 CTTCTCCCTT
*
2665482 TTCATCTTGCTTGAC
1 TTCATCTTTCTTGAC
*
2665497 CTCAT-TTTCTTGA-
1 TTCATCTTTCTTGAC
2665510 TTCATCTTTCTTGAC
1 TTCATCTTTCTTGAC
2665525 CTCCATTTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
13 4 0.17
14 15 0.65
15 4 0.17
ACGTcount: A:0.14, C:0.26, G:0.09, T:0.51
Consensus pattern (15 bp):
TTCATCTTTCTTGAC
Found at i:2665541 original size:28 final size:26
Alignment explanation
Indices: 2665479--2665541 Score: 81
Period size: 28 Copynumber: 2.3 Consensus size: 26
2665469 CATCTTCTCC
2665479 CTTTTCATCTTGCTTGACCTCATTTT
1 CTTTTCATCTTGCTTGACCTCATTTT
*
2665505 CTTGATTCATCTTTCTTGACCTCCATTTT
1 CTT--TTCATCTTGCTTGACCT-CATTTT
2665534 CATTTTCA
1 C-TTTTCA
2665542 CCGACGAGGC
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
26 3 0.09
28 20 0.62
29 7 0.22
30 2 0.06
ACGTcount: A:0.14, C:0.27, G:0.06, T:0.52
Consensus pattern (26 bp):
CTTTTCATCTTGCTTGACCTCATTTT
Found at i:2667478 original size:17 final size:17
Alignment explanation
Indices: 2667456--2667494 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
2667446 TAATATTATC
2667456 TAAAATACAAATT-TTTA
1 TAAAATA-AAATTATTTA
*
2667473 TAAAATATAATTATTTA
1 TAAAATAAAATTATTTA
2667490 TAAAA
1 TAAAA
2667495 AAATGAACCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 4 0.20
17 16 0.80
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (17 bp):
TAAAATAAAATTATTTA
Found at i:2669763 original size:13 final size:13
Alignment explanation
Indices: 2669745--2669770 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2669735 GAGTTTAAGC
2669745 CTGCTTCCATAGG
1 CTGCTTCCATAGG
2669758 CTGCTTCCATAGG
1 CTGCTTCCATAGG
2669771 GGGCTTCTGC
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:0.15, C:0.31, G:0.23, T:0.31
Consensus pattern (13 bp):
CTGCTTCCATAGG
Found at i:2675161 original size:42 final size:42
Alignment explanation
Indices: 2675069--2675161 Score: 159
Period size: 42 Copynumber: 2.2 Consensus size: 42
2675059 TCAAGCCGAA
* * *
2675069 CCAAATTAGAAATGATTTGATTGAAGACATTCACGTGTTGCG
1 CCAAATCATAAATGATTTGATTGAAGACATTCACATGTTGCG
2675111 CCAAATCATAAATGATTTGATTGAAGACATTCACATGTTGCG
1 CCAAATCATAAATGATTTGATTGAAGACATTCACATGTTGCG
2675153 CCAAATCAT
1 CCAAATCAT
2675162 GATCATCATG
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.30
Consensus pattern (42 bp):
CCAAATCATAAATGATTTGATTGAAGACATTCACATGTTGCG
Found at i:2678697 original size:94 final size:94
Alignment explanation
Indices: 2678536--2678723 Score: 367
Period size: 94 Copynumber: 2.0 Consensus size: 94
2678526 ATAACGGCAA
*
2678536 GTTAAATCAAATTTATCTAAGCAAGAAATTTTCGGTAATGATGGACTAAGGGAGTTAAGGAACAC
1 GTTAAATCAAATTTATCTAAGCAAGAAATTTTCAGTAATGATGGACTAAGGGAGTTAAGGAACAC
2678601 CTGTTATAGTCAAATTCACACGAGCACTC
66 CTGTTATAGTCAAATTCACACGAGCACTC
2678630 GTTAAATCAAATTTATCTAAGCAAGAAATTTTCAGTAATGATGGACTAAGGGAGTTAAGGAACAC
1 GTTAAATCAAATTTATCTAAGCAAGAAATTTTCAGTAATGATGGACTAAGGGAGTTAAGGAACAC
2678695 CTGTTATAGTCAAATTCACACGAGCACTC
66 CTGTTATAGTCAAATTCACACGAGCACTC
2678724 AAGAATTTCA
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
94 93 1.00
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.28
Consensus pattern (94 bp):
GTTAAATCAAATTTATCTAAGCAAGAAATTTTCAGTAATGATGGACTAAGGGAGTTAAGGAACAC
CTGTTATAGTCAAATTCACACGAGCACTC
Found at i:2679897 original size:84 final size:84
Alignment explanation
Indices: 2679729--2680830 Score: 1042
Period size: 84 Copynumber: 13.3 Consensus size: 84
2679719 TTAAAGATAA
* * * *
2679729 CATTTGCAGCATAACTCAAGGCCAGAAGGGTTATCTGCCAA-CAAAGACCTTCGAGTTCGATTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTAC
* * *
2679793 ACTCAGCTTCGAGGGTACAT
66 GCTCAGC-TCAAGGGCACAT
* * * * * *
2679813 CATTTGCAGTATAACTTAAGTCGAGAAGGGTTATCTGCTAACCAATGACATTTGAGTTCGACCAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTAC
* *
2679878 GCTCAGCTCAACGACACAT
66 GCTCAGCTCAAGGGCACAT
* * ** * *
2679897 CATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG----CCAAAGACCCCCGAGTTTGATTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTAC
* * *
2679958 ACTCAGCTTCGAGGGCATAT
66 GCTCAGC-TCAAGGGCACAT
* * * * *
2679978 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTC-ACCAAAGACCTTCGAGTTCGACTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTAC
*
2680042 GCTCAGCTCTAA-GGCATAT
66 GCTCAGCTC-AAGGGCACAT
* * * ** *
2680061 CATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTCTGCCAATAAAAGACCTTTGAGTTCGACTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTAC
*
2680126 GCTCAGCTCAACGGCACAT
66 GCTCAGCTCAAGGGCACAT
* *
2680145 CATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTG----CCAAAGA-CTCTCGAGTTCGATTA
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCT-TCGAGTTCGACTA
* *
2680205 CACTCAGCTTCGAGGGCACAT
65 CGCTCAGC-TCAAGGGCACAT
* * * * * *
2680226 CATTTGCAGTATAACATAAGTCGAGAAGGGTTACCTGCCAGCAAAAGACCTTTGAGTTCGACTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTAC
* *
2680291 GCTCAGCTCAATGTCACAT
66 GCTCAGCTCAAGGGCACAT
* * * * * *
2680310 CATTTACAGCATAGCTTAAGTCAAGAAGGGCTA--T--CAGCCAAAGA-CTCTCGAGTTCGATTA
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCT-TCGAGTTCGACTA
* *
2680370 CACTCAGCTTCGAGGGCACAT
65 CGCTCAGC-TCAAGGGCACAT
* * *
2680391 CATTTGCAGTATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGACTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTAC
* *
2680456 GCTCAGCTCAATGACACAT
66 GCTCAGCTCAAGGGCACAT
* * * * * *
2680475 CATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTG----TCAAAGA-CTCTCGAGTTCAATTA
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCT-TCGAGTTCGACTA
* *
2680535 CACTCAGCTTCGAGGGCACAT
65 CGCTCAGC-TCAAGGGCACAT
* * *
2680556 CATTTGCAGTATAACTTAAGTCGAGAAGGGTTATCTGCCAACCGAAGACCTTTGAGTTCGACTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTAC
2680621 GCTCAGCTCCAA-GGCACAT
66 GCTCAGCT-CAAGGGCACAT
* ** * * *
2680640 CATCTGCAATATAACTTAAGTCGAGAA-GGTCTATCTG----CCAAAGACCCTCAAG-TCGATTA
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGT-TATCTGCCAACCAAAGACCTTCGAGTTCGACTA
* *
2680699 CACTCAGCTTCGAGGGCACAT
65 CGCTCAGC-TCAAGGGCACAT
* * * * * *
2680720 CATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTC-ACCAAAAGACCTTCGAGTTCGACTA
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACC-AAAGACCTTCGAGTTCGACTA
*
2680784 CGCTCAGCTCCAA-GGCATAT
65 CGCTCAGCT-CAAGGGCACAT
* * *
2680804 CATTTACATCATAGCTTAAGTCGAGAA
1 CATTTGCAGCATAACTTAAGTCGAGAA
2680831 AAGCTATCTG
Statistics
Matches: 828, Mismatches: 150, Indels: 80
0.78 0.14 0.08
Matches are distributed among these distances:
79 21 0.03
80 140 0.17
81 164 0.20
82 1 0.00
83 50 0.06
84 333 0.40
85 113 0.14
86 6 0.01
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.25
Consensus pattern (84 bp):
CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTAC
GCTCAGCTCAAGGGCACAT
Found at i:2680278 original size:165 final size:164
Alignment explanation
Indices: 2679729--2680830 Score: 1254
Period size: 165 Copynumber: 6.7 Consensus size: 164
2679719 TTAAAGATAA
* * * * *
2679729 CATTTGCAGCATAACTCAAGGCCAGAAGGGTTATCTGCCAAC-AAAGACCTTCGAGTTCGATTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGACTAC
* * * * *
2679793 ACTCAGCTTCGAGGGTACATCATTTGCAGTATAACTTAAGTCGAGAAGGGTTATCTGCTAACCAA
66 GCTCAGC-TC-AAGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTG----CCAA
* * ** * * * *
2679858 TGACAT-TTGAGTTCGACCACGCTCAGC-TCAACGACACAT
125 AGAC-TCTCGAGTTCGATTACACTCAGCTTCGAGGGCACAT
* * *** * *
2679897 CATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG-C--C-AAAGACCCCCGAGTTTGATTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGACTAC
* * * * * * *
2679958 ACTCAGCTTCGAGGGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAA
66 GCTCAGC-TC-AAGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTG---CCAAA
* * * * *
2680023 GAC-CTTCGAGTTCGACTACGCTCAGC-TCTAAGGCATAT
126 GACTC-TCGAGTTCGATTACACTCAGCTTCGAGGGCACAT
* * * *
2680061 CATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTCTGCCAATAAAAGACCTTTGAGTTCGACTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGACTAC
2680126 GCTCAGCTCAACGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAAAGACT
66 GCTCAGCTCAA-GGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAAAGACT
2680191 CTCGAGTTCGATTACACTCAGCTTCGAGGGCACAT
130 CTCGAGTTCGATTACACTCAGCTTCGAGGGCACAT
* * * *
2680226 CATTTGCAGTATAACATAAGTCGAGAAGGGTTACCTGCCAGCAAAAGACCTTTGAGTTCGACTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGACTAC
* * * * *
2680291 GCTCAGCTCAATGTCACATCATTTACAGCATAGCTTAAGTCAAGAAGGGCTATCAGCCAAAGACT
66 GCTCAGCTCAA-GGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAAAGACT
2680356 CTCGAGTTCGATTACACTCAGCTTCGAGGGCACAT
130 CTCGAGTTCGATTACACTCAGCTTCGAGGGCACAT
*
2680391 CATTTGCAGTATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGACTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGACTAC
* * * *
2680456 GCTCAGCTCAATGACACATCATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTGTCAAAGACT
66 GCTCAGCTCAA-GGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAAAGACT
*
2680521 CTCGAGTTCAATTACACTCAGCTTCGAGGGCACAT
130 CTCGAGTTCGATTACACTCAGCTTCGAGGGCACAT
* **
2680556 CATTTGCAGTATAACTTAAGTCGAGAAGGGTTATCTGCCAACCGAAGACCTTTGAGTTCGACTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGACTAC
* ** *
2680621 GCTCAGCTCCAAGGCACATCATCTGCAATATAACTTAAGTCGAGAA-GGTCTATCTGCCAAAGAC
66 GCTCAGCT-CAAGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGT-TATCTGCCAAAGAC
* *
2680685 CCTCAAG-TCGATTACACTCAGCTTCGAGGGCACAT
129 TCTCGAGTTCGATTACACTCAGCTTCGAGGGCACAT
* * * * * * * *
2680720 CATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGACTAC
* * * * *
2680785 GCTCAGCTCCAAGGCATATCATTTACATCATAGCTTAAGTCGAGAA
66 GCTCAGCT-CAAGGCACATCATTTGCAGCATAACTTAAGTCAAGAA
2680831 AAGCTATCTG
Statistics
Matches: 825, Mismatches: 98, Indels: 26
0.87 0.10 0.03
Matches are distributed among these distances:
164 218 0.26
165 506 0.61
166 4 0.00
167 42 0.05
168 55 0.07
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.25
Consensus pattern (164 bp):
CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGACTAC
GCTCAGCTCAAGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAAAGACTC
TCGAGTTCGATTACACTCAGCTTCGAGGGCACAT
Found at i:2680877 original size:578 final size:575
Alignment explanation
Indices: 2679770--2680863 Score: 1484
Period size: 578 Copynumber: 1.9 Consensus size: 575
2679760 TATCTGCCAA
*
2679770 CAAAGACCTTCGAGTTCGATTACACTCAGCTTCGAGGGTACATCATTTGCAGTATAACTTAAGTC
1 CAAAGACCTTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGTATAACTTAAGTC
* * *
2679835 GAGAAGGGTTATCTGCTAACCAATGACATTTGAGTTCGACCACGCTCAGCTCAACGACACATCAT
66 GAGAAGGGTTATCTGCCAACAAAAGACATTTGAGTTCGACCACGCTCAGCTCAACGACACATCAT
* **
2679900 TTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTTGATTACACTCAGC
131 TTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCAATTACACTCAGC
* * *
2679965 TTCGAGGGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTC
196 TTCGAGGGCACATCATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGCCACCAAAGACCTTC
* * * * * *
2680030 GAGTTCGACTACGCTCAGCTCTAAGGCATATCATTTGCAGCACAACTTAAGTCTAGAAGGGTTGT
261 GAGTTCGACTACGCTCAGCTCCAAGGCACATCATCTGCAACACAACTTAAGTCGAGAAGGGTTAT
* ** * * *
2680095 CTGCCAATAAAAGACCTTTGAGTTCGACTACGCTCAGCTCAACGGCACATCATTTGCAGCATAAC
326 CTGCC---AAAAGACCCTCAAGTTCGACTACACTCAGCTCAACGGCACATCATTTACAACATAAC
* * * * *
2680160 TTAAGTCAAGAAGGGTTATCTGCCAAAGACTCTCGAGTTCGATTACACTCAGCTTCGAGGGCACA
388 TCAAGGCAAGAAGGGTTATCTGCCAAAGACTCTCGAGTTCGACTACACTCAGCTTCCAAGGCACA
* ** *
2680225 TCATTTGCAGTATAACATAAGTCGAGAAGGGTTACCTGCCAGCAAAAGACCTTTGAGTTCGACTA
453 TCATTTACAGTATAACATAAGTCGAGAAAAGCTACCTGCCAGCAAAAGACCTTTGAGTTCGACTA
*
2680290 CGCTCAGCTCAATGTCACATCATTTACAGCATAGCTTAAGTCAAGAAGGGCTATCAGC
518 CACTCAGCTCAATGTCACATCATTTACAGCATAGCTTAAGTCAAGAAGGGCTATCAGC
2680348 CAAAGA-CTCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGTATAACTTAAGT
1 CAAAGACCT-TCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGTATAACTTAAGT
* * *
2680412 CGAGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGACTACGCTCAGCTCAATGACACATCA
65 CGAGAAGGGTTATCTGCCAACAAAAGACATTTGAGTTCGACCACGCTCAGCTCAACGACACATCA
* * *
2680477 TTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTGTCAAAGACTCTCGAGTTCAATTACACTCAG
130 TTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCAATTACACTCAG
* * * * *
2680542 CTTCGAGGGCACATCATTTGCAGTATAACTTAAGTCGAGAAGGGTTATCTGCCAACCGAAGACCT
195 CTTCGAGGGCACATCATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGCC-ACCAAAGACCT
* * *
2680607 TTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATCTGCAATATAACTTAAGTCGAGAA-GGTC
259 TCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATCTGCAACACAACTTAAGTCGAGAAGGGT-
* * *
2680671 TATCTGCC-AAAGACCCTCAAG-TCGATTACACTCAGCTTCGAGGGCACATCATTTACAACATAA
323 TATCTGCCAAAAGACCCTCAAGTTCGACTACACTCAGC-TCAACGGCACATCATTTACAACATAA
* *
2680734 CTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGAC-CTTCGAGTTCGACTACGCTCAGC-TCCAA
387 CTCAAGGCAAGAAGGGTTATCTG---CC-AAAGACTC-TCGAGTTCGACTACACTCAGCTTCCAA
* * * * * * *
2680797 GGCATATCATTTACA-TCATAGCTTAAGTCGAGAAAAGCTATCTGTCAGC-GAAGATCTTTCGAG
447 GGCACATCATTTACAGT-ATAACATAAGTCGAGAAAAGCTACCTGCCAGCAAAAGACCTTT-GAG
2680860 TTCG
510 TTCG
2680864 GTTTCATTCA
Statistics
Matches: 448, Mismatches: 57, Indels: 22
0.85 0.11 0.04
Matches are distributed among these distances:
574 13 0.03
575 52 0.12
577 11 0.02
578 278 0.62
579 94 0.21
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.25
Consensus pattern (575 bp):
CAAAGACCTTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGTATAACTTAAGTC
GAGAAGGGTTATCTGCCAACAAAAGACATTTGAGTTCGACCACGCTCAGCTCAACGACACATCAT
TTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCAATTACACTCAGC
TTCGAGGGCACATCATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGCCACCAAAGACCTTC
GAGTTCGACTACGCTCAGCTCCAAGGCACATCATCTGCAACACAACTTAAGTCGAGAAGGGTTAT
CTGCCAAAAGACCCTCAAGTTCGACTACACTCAGCTCAACGGCACATCATTTACAACATAACTCA
AGGCAAGAAGGGTTATCTGCCAAAGACTCTCGAGTTCGACTACACTCAGCTTCCAAGGCACATCA
TTTACAGTATAACATAAGTCGAGAAAAGCTACCTGCCAGCAAAAGACCTTTGAGTTCGACTACAC
TCAGCTCAATGTCACATCATTTACAGCATAGCTTAAGTCAAGAAGGGCTATCAGC
Found at i:2681371 original size:35 final size:36
Alignment explanation
Indices: 2681304--2681655 Score: 194
Period size: 37 Copynumber: 9.6 Consensus size: 36
2681294 AAATCATTTC
* * *
2681304 GAAAATTATATA-ATATATGGTTTT-AAATATTTTTT
1 GAAAACTATATATATATA-GTTTTTAAAACATTTTTT
* **
2681339 GAAAACT-TATATATATGGTTTTTAAAACATTTTGA
1 GAAAACTATATATATATAGTTTTTAAAACATTTTTT
* * *
2681374 AAAAATATATATAATATATAGTTTTTGAAAA-ATATTTT
1 GAAAA-CTATAT-ATATATAGTTTTT-AAAACATTTTTT
* * * **
2681412 GAATATATATATATATTATATAGATTTTGAAAAAACATTTT
1 GAA-A-A-CTATATA-TATATAG-TTTTTAAAACATTTTTT
* *
2681453 -AAAAATATATACTATATGGTTTTTGAAAAACA--TTTT
1 GAAAACTATATA-TATATAGTTTTT--AAAACATTTTTT
* * **
2681489 GAAAA-TACATATAAATATAG-TTCTAAAA-AGATTTT
1 GAAAACT--ATATATATATAGTTTTTAAAACATTTTTT
* * *
2681524 GGAAATTATATAATATATAGTTTTAAAAACA-TTTTT
1 GAAAACTATAT-ATATATAGTTTTTAAAACATTTTTT
* *
2681560 GAAAAATTATATAATATATAGTTTTAAAAAACA-TTTTT
1 G-AAAACTATAT-ATATATAGTTTT-TAAAACATTTTTT
2681598 GAAAACT-TATATA-ATA-TTTTTAAAACATTTTTTT
1 GAAAACTATATATATATAGTTTTTAAAACA-TTTTTT
2681632 GAAAACTATATTATATATAGTTTT
1 GAAAACTATA-TATATATAGTTTT
2681656 AATTTTTTTA
Statistics
Matches: 257, Mismatches: 30, Indels: 57
0.75 0.09 0.17
Matches are distributed among these distances:
32 6 0.02
33 5 0.02
34 32 0.12
35 42 0.16
36 32 0.12
37 56 0.22
38 46 0.18
39 7 0.03
40 21 0.08
41 10 0.04
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.44
Consensus pattern (36 bp):
GAAAACTATATATATATAGTTTTTAAAACATTTTTT
Found at i:2685731 original size:26 final size:23
Alignment explanation
Indices: 2685667--2685739 Score: 64
Period size: 22 Copynumber: 3.2 Consensus size: 23
2685657 TATATTGAAA
*
2685667 ATATAAGAATATAAAT-AAATAT
1 ATATAAAAATATAAATAAAATAT
**
2685689 ATATAATTA-ATAAATAAAAGTTAT
1 ATATAAAAATATAAATAAAA--TAT
2685713 ATATAAAAATAT-AATATAAATA-
1 ATATAAAAATATAAATA-AAATAT
2685735 ATATA
1 ATATA
2685740 GTAATAATGA
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
21 6 0.14
22 15 0.36
23 2 0.05
24 14 0.33
25 5 0.12
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (23 bp):
ATATAAAAATATAAATAAAATAT
Found at i:2686075 original size:15 final size:15
Alignment explanation
Indices: 2686052--2686082 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2686042 TTCTCAGGTA
*
2686052 TCTCTCTTTTCATCT
1 TCTCCCTTTTCATCT
2686067 TCTCCCTTTTCATCT
1 TCTCCCTTTTCATCT
2686082 T
1 T
2686083 GCTTGACCTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.06, C:0.35, G:0.00, T:0.58
Consensus pattern (15 bp):
TCTCCCTTTTCATCT
Found at i:2686112 original size:14 final size:15
Alignment explanation
Indices: 2686075--2686117 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 15
2686065 CTTCTCCCTT
*
2686075 TTCATCTTGCTTGAC
1 TTCATCTTTCTTGAC
*
2686090 CTCAT-TTTCTTGA-
1 TTCATCTTTCTTGAC
2686103 TTCATCTTTCTTGAC
1 TTCATCTTTCTTGAC
2686118 CTCCATTTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
13 4 0.17
14 15 0.65
15 4 0.17
ACGTcount: A:0.14, C:0.26, G:0.09, T:0.51
Consensus pattern (15 bp):
TTCATCTTTCTTGAC
Found at i:2686134 original size:28 final size:26
Alignment explanation
Indices: 2686072--2686134 Score: 81
Period size: 28 Copynumber: 2.3 Consensus size: 26
2686062 CATCTTCTCC
2686072 CTTTTCATCTTGCTTGACCTCATTTT
1 CTTTTCATCTTGCTTGACCTCATTTT
*
2686098 CTTGATTCATCTTTCTTGACCTCCATTTT
1 CTT--TTCATCTTGCTTGACCT-CATTTT
2686127 CATTTTCA
1 C-TTTTCA
2686135 CCGACGAGGC
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
26 3 0.09
28 20 0.62
29 7 0.22
30 2 0.06
ACGTcount: A:0.14, C:0.27, G:0.06, T:0.52
Consensus pattern (26 bp):
CTTTTCATCTTGCTTGACCTCATTTT
Found at i:2688080 original size:17 final size:17
Alignment explanation
Indices: 2688058--2688096 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
2688048 TAATATTATC
2688058 TAAAATACAAATT-TTTA
1 TAAAATA-AAATTATTTA
*
2688075 TAAAATATAATTATTTA
1 TAAAATAAAATTATTTA
2688092 TAAAA
1 TAAAA
2688097 AAATGAACCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 4 0.20
17 16 0.80
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (17 bp):
TAAAATAAAATTATTTA
Found at i:2690366 original size:13 final size:13
Alignment explanation
Indices: 2690348--2690373 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2690338 GAGTTTAAGC
2690348 CTGCTTCCATAGG
1 CTGCTTCCATAGG
2690361 CTGCTTCCATAGG
1 CTGCTTCCATAGG
2690374 GGGCTTCTGC
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:0.15, C:0.31, G:0.23, T:0.31
Consensus pattern (13 bp):
CTGCTTCCATAGG
Found at i:2695679 original size:42 final size:42
Alignment explanation
Indices: 2695633--2695716 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
2695623 ACCAAAATAG
*
2695633 AAATGATTTGATTGAAGACATTCACGTGTTGCGCCAAATCAT
1 AAATGATTTGATTGAAGACATTCACATGTTGCGCCAAATCAT
2695675 AAATGATTTGATTGAAGACATTCACATGTTGCGCCAAATCAT
1 AAATGATTTGATTGAAGACATTCACATGTTGCGCCAAATCAT
2695717 GATCATCATG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.31
Consensus pattern (42 bp):
AAATGATTTGATTGAAGACATTCACATGTTGCGCCAAATCAT
Found at i:2698519 original size:12 final size:12
Alignment explanation
Indices: 2698504--2698569 Score: 80
Period size: 12 Copynumber: 5.6 Consensus size: 12
2698494 GTTATTTAAA
2698504 CGGGTATTGGGC
1 CGGGTATTGGGC
*
2698516 CGGGTATTGGGT
1 CGGGTATTGGGC
* *
2698528 CAGGTATTGGGT
1 CGGGTATTGGGC
2698540 C-GGTATTGGGC
1 CGGGTATTGGGC
* *
2698551 CGGGAATCGGGC
1 CGGGTATTGGGC
2698563 CGGGTAT
1 CGGGTAT
2698570 ATATATATAT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
11 10 0.21
12 37 0.79
ACGTcount: A:0.12, C:0.15, G:0.47, T:0.26
Consensus pattern (12 bp):
CGGGTATTGGGC
Found at i:2698533 original size:24 final size:24
Alignment explanation
Indices: 2698506--2698569 Score: 76
Period size: 23 Copynumber: 2.7 Consensus size: 24
2698496 TATTTAAACG
*
2698506 GGTATTGGGCCGGGTATTGGGTCA
1 GGTATTGGGCCGGGTATTGGGCCA
* *
2698530 GGTATTGGGTC-GGTATTGGGCCG
1 GGTATTGGGCCGGGTATTGGGCCA
* *
2698553 GGAATCGGGCCGGGTAT
1 GGTATTGGGCCGGGTAT
2698570 ATATATATAT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
23 18 0.55
24 15 0.45
ACGTcount: A:0.12, C:0.14, G:0.47, T:0.27
Consensus pattern (24 bp):
GGTATTGGGCCGGGTATTGGGCCA
Found at i:2698629 original size:24 final size:25
Alignment explanation
Indices: 2698567--2698629 Score: 71
Period size: 24 Copynumber: 2.6 Consensus size: 25
2698557 TCGGGCCGGG
2698567 TATATA-TATATATATTTAAATTAAA
1 TATATATTATAT-TATTTAAATTAAA
*
2698592 TATATATT-TTTTATTTAAATTAAA
1 TATATATTATATTATTTAAATTAAA
2698616 T-T-TATTAATATTAT
1 TATATATT-ATATTAT
2698630 ATATATATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
22 4 0.12
23 1 0.03
24 19 0.58
25 8 0.24
26 1 0.03
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (25 bp):
TATATATTATATTATTTAAATTAAA
Found at i:2698719 original size:13 final size:13
Alignment explanation
Indices: 2698663--2698706 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
2698653 TTTAATATTT
*
2698663 ATCGGGTCGGGT-
1 ATCGGGGCGGGTA
*
2698675 ATCGGGGCGGATA
1 ATCGGGGCGGGTA
*
2698688 ATCAGGGCGGGTA
1 ATCGGGGCGGGTA
2698701 ATCGGG
1 ATCGGG
2698707 TAATCGGGGC
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
12 10 0.38
13 16 0.62
ACGTcount: A:0.18, C:0.16, G:0.48, T:0.18
Consensus pattern (13 bp):
ATCGGGGCGGGTA
Found at i:2702796 original size:33 final size:33
Alignment explanation
Indices: 2702754--2702816 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
2702744 GGCGACATCG
*
2702754 AAGGTCTGCTGCAACAGACGTGGTGGATGCTCC
1 AAGGTCTGCTGCAACAGACGCGGTGGATGCTCC
* *
2702787 AAGGTCTGCTGCATCAGATGCGGTGGATGC
1 AAGGTCTGCTGCAACAGACGCGGTGGATGC
2702817 ATCCTCTGCA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.21, C:0.22, G:0.35, T:0.22
Consensus pattern (33 bp):
AAGGTCTGCTGCAACAGACGCGGTGGATGCTCC
Found at i:2709604 original size:22 final size:22
Alignment explanation
Indices: 2709564--2709605 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
2709554 TACACATATG
*
2709564 TAATTTACTCTTGTCTTTTTAT
1 TAATTTACTCTTATCTTTTTAT
* *
2709586 TAATTTATTCTTATTTTTTT
1 TAATTTACTCTTATCTTTTT
2709606 GTATATATTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.19, C:0.10, G:0.02, T:0.69
Consensus pattern (22 bp):
TAATTTACTCTTATCTTTTTAT
Found at i:2711968 original size:29 final size:29
Alignment explanation
Indices: 2711935--2712000 Score: 105
Period size: 29 Copynumber: 2.3 Consensus size: 29
2711925 AACCGTTAAC
*
2711935 CGTTGACCCAGTCGTTAGCTATTGACTGT
1 CGTTGACCCAGTCGTTAGCCATTGACTGT
*
2711964 CGTTGACCCAGTCGTTGGCCATTGACTGT
1 CGTTGACCCAGTCGTTAGCCATTGACTGT
*
2711993 TGTTGACC
1 CGTTGACC
2712001 AGCCATTAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.15, C:0.26, G:0.26, T:0.33
Consensus pattern (29 bp):
CGTTGACCCAGTCGTTAGCCATTGACTGT
Found at i:2714506 original size:23 final size:23
Alignment explanation
Indices: 2714476--2714582 Score: 133
Period size: 23 Copynumber: 4.7 Consensus size: 23
2714466 CTCGTATAAA
*
2714476 TGCACCGAAGTGCCAAGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
* * *
2714499 TGCACCGAAGTGTCGCGTATAAT
1 TGCACCGAAGTGCCACGTAGAAT
* *
2714522 TGCACCGAAGTGTCGCGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
* *
2714545 TACACCGAAGTGCCACGTAGAAA
1 TGCACCGAAGTGCCACGTAGAAT
*
2714568 TGCACCGAATTGCCA
1 TGCACCGAAGTGCCA
2714583 TATAAGATAT
Statistics
Matches: 73, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 73 1.00
ACGTcount: A:0.31, C:0.24, G:0.25, T:0.20
Consensus pattern (23 bp):
TGCACCGAAGTGCCACGTAGAAT
Found at i:2714542 original size:46 final size:46
Alignment explanation
Indices: 2714468--2714582 Score: 149
Period size: 46 Copynumber: 2.5 Consensus size: 46
2714458 CACCACAACT
* * *
2714468 CGTATAAATGCACCGAAGTGCCAAGTAGAATTGCACCGAAGTGTCG
1 CGTATAAATGCACCGAAGTGCCAAGTAGAATTACACCGAAGTGCCA
* * **
2714514 CGTATAATTGCACCGAAGTGTCGCGTAGAATTACACCGAAGTGCCA
1 CGTATAAATGCACCGAAGTGCCAAGTAGAATTACACCGAAGTGCCA
* *
2714560 CGTAGAAATGCACCGAATTGCCA
1 CGTATAAATGCACCGAAGTGCCA
2714583 TATAAGATAT
Statistics
Matches: 57, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
46 57 1.00
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (46 bp):
CGTATAAATGCACCGAAGTGCCAAGTAGAATTACACCGAAGTGCCA
Found at i:2714819 original size:21 final size:21
Alignment explanation
Indices: 2714793--2714833 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
2714783 ATATCCTTTT
*
2714793 ACATATTCATGTAAACATATC
1 ACATATTCATATAAACATATC
2714814 ACATATTCATATAAACATAT
1 ACATATTCATATAAACATAT
2714834 AGCTTCATCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.46, C:0.17, G:0.02, T:0.34
Consensus pattern (21 bp):
ACATATTCATATAAACATATC
Found at i:2719701 original size:23 final size:23
Alignment explanation
Indices: 2719675--2719766 Score: 112
Period size: 23 Copynumber: 4.0 Consensus size: 23
2719665 CACCACAGCT
* * *
2719675 CATATAAATGTACCGAAGTGCAA
1 CATAGAAATGCACCGAAGTGCCA
* * *
2719698 CATAGAATTGTACCAAAGTGCCA
1 CATAGAAATGCACCGAAGTGCCA
* *
2719721 CGTAGAATTGCACCGAAGTGCCA
1 CATAGAAATGCACCGAAGTGCCA
2719744 CATAGAAATGCACCGAAGTGCCA
1 CATAGAAATGCACCGAAGTGCCA
2719767 TATAAGATAT
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 60 1.00
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.18
Consensus pattern (23 bp):
CATAGAAATGCACCGAAGTGCCA
Found at i:2720044 original size:28 final size:28
Alignment explanation
Indices: 2719999--2720052 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
2719989 AAACATATCA
2719999 CATATTCATATAAACACGTAGCTTCATCC
1 CATATTCATATAAACACGTAG-TTCATCC
* *
2720028 CATA-TCATGTAATCACGTAGTTCAT
1 CATATTCATATAAACACGTAGTTCAT
2720053 GTAAATTCTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 5 0.22
28 14 0.61
29 4 0.17
ACGTcount: A:0.33, C:0.24, G:0.09, T:0.33
Consensus pattern (28 bp):
CATATTCATATAAACACGTAGTTCATCC
Found at i:2722308 original size:32 final size:32
Alignment explanation
Indices: 2722267--2722388 Score: 156
Period size: 32 Copynumber: 3.8 Consensus size: 32
2722257 CTTAAGGTGA
* *
2722267 CCTTGGGTAGGCTCTAAGGCCCCAAAGCATTT
1 CCTTGGGTAGGCTCTAAGGCCCCAAGGTATTT
2722299 CCTTGGGTAGGCTCTAAGGCCCCAAGGTATTT
1 CCTTGGGTAGGCTCTAAGGCCCCAAGGTATTT
* * * *
2722331 CCTCGGGTAGGCGT-TTAGGCCCTAAGGTACTT
1 CCTTGGGTAGGC-TCTAAGGCCCCAAGGTATTT
* *
2722363 CCTTGGGTAGGCTCTCATGCCCCAAG
1 CCTTGGGTAGGCTCTAAGGCCCCAAG
2722389 ATAATCCCTT
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
31 1 0.01
32 76 0.97
33 1 0.01
ACGTcount: A:0.18, C:0.28, G:0.28, T:0.26
Consensus pattern (32 bp):
CCTTGGGTAGGCTCTAAGGCCCCAAGGTATTT
Found at i:2724459 original size:37 final size:36
Alignment explanation
Indices: 2724400--2724519 Score: 181
Period size: 35 Copynumber: 3.3 Consensus size: 36
2724390 ATCCCATTAT
* *
2724400 CATTTTTC-AACAAACATCTACCAAACTTTGAAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTG-AAAAC
*
2724436 TATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
2724472 CA-TTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
2724507 CATTTTTTCAAAG
1 CA-TTTTTCAAAG
2724520 TTGGTTACCA
Statistics
Matches: 77, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
35 35 0.45
36 13 0.17
37 29 0.38
ACGTcount: A:0.43, C:0.20, G:0.05, T:0.32
Consensus pattern (36 bp):
CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
Found at i:2724475 original size:21 final size:21
Alignment explanation
Indices: 2724451--2724511 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
2724441 TTCAAAGAAA
2724451 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
*
2724472 CATTT-TCAAA----G-AAA-
1 CATTTACCAAACTTTGAAAAC
2724486 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
2724507 CATTT
1 CATTT
2724512 TTTCAAAGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 7 0.23
16 1 0.03
19 1 0.03
20 7 0.23
21 10 0.32
ACGTcount: A:0.43, C:0.21, G:0.05, T:0.31
Consensus pattern (21 bp):
CATTTACCAAACTTTGAAAAC
Found at i:2724528 original size:35 final size:36
Alignment explanation
Indices: 2724402--2724546 Score: 142
Period size: 35 Copynumber: 4.1 Consensus size: 36
2724392 CCCATTATCA
*
2724402 TTTTTCAACA-AACA-TCTACCAAACTTTGAAAAAC-T
1 TTTTTCAA-AGAACAGT-TACCAAACTTTGAAAACCAT
*
2724437 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAACCA-
1 -TTTTTCAAAG-AACAGTTACCAAACTTTGAAAACCAT
*
2724474 -TTTTCAAAGAAACATTTACCAAACTTTGAAAACCAT
1 TTTTTCAAAG-AACAGTTACCAAACTTTGAAAACCAT
***
2724510 TTTTTCAAAG-TTGGTTACCAAAC-TTGAAAACCAT
1 TTTTTCAAAGAACAGTTACCAAACTTTGAAAACCAT
2724544 TTT
1 TTT
2724547 AGTACTTTCA
Statistics
Matches: 98, Mismatches: 5, Indels: 14
0.84 0.04 0.12
Matches are distributed among these distances:
34 14 0.14
35 45 0.46
36 8 0.08
37 30 0.31
38 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.06, T:0.33
Consensus pattern (36 bp):
TTTTTCAAAGAACAGTTACCAAACTTTGAAAACCAT
Found at i:2728530 original size:13 final size:13
Alignment explanation
Indices: 2728512--2728547 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
2728502 TATTCACATG
2728512 AATAGTAACCCCA
1 AATAGTAACCCCA
*
2728525 AATAGTAACCCCG
1 AATAGTAACCCCA
*
2728538 AATTGTAACC
1 AATAGTAACC
2728548 TCCCAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.42, C:0.28, G:0.11, T:0.19
Consensus pattern (13 bp):
AATAGTAACCCCA
Found at i:2728990 original size:37 final size:36
Alignment explanation
Indices: 2728931--2729044 Score: 178
Period size: 35 Copynumber: 3.2 Consensus size: 36
2728921 ATCCCATTAT
* *
2728931 CATTTTTC-AACAAACATCTACCAAACTTTGAAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTG-AAAAC
*
2728967 TATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
2729003 CA-TTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
2729038 CATTTTT
1 CATTTTT
2729045 TCATAGTTGG
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
35 35 0.49
36 17 0.24
37 20 0.28
ACGTcount: A:0.43, C:0.20, G:0.04, T:0.32
Consensus pattern (36 bp):
CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
Done.