Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032245.1 Gossypioides kirkii chromosome KI_2_4
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: 41238926
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 6100 characters in sequence are not A, C, G, or T
File 54 of 132
Found at i:15093233 original size:23 final size:23
Alignment explanation
Indices: 15093193--15093236 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
15093183 GATTTTTAAA
*
15093193 ATAAATTTAAAAATGTTAAAAGG
1 ATAAAATTAAAAATGTTAAAAGG
15093216 ATAAAATTATAAAA-GTTAAAA
1 ATAAAATTA-AAAATGTTAAAA
15093237 AAGCGGAAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.61, C:0.00, G:0.09, T:0.30
Consensus pattern (23 bp):
ATAAAATTAAAAATGTTAAAAGG
Found at i:15095358 original size:207 final size:210
Alignment explanation
Indices: 15094992--15095433 Score: 599
Period size: 207 Copynumber: 2.1 Consensus size: 210
15094982 TTCATCTCTT
* **
15094992 GGTCTACTTCTCTGTATCTCATCAGGAAGATGACCGTTTTATTACTTCGACCCACTTCTCTGTAT
1 GGTCCACTTCTCTGTATCTCATCAGGAAGATGACCACTTTATTACTTCGACCCACTTCTCTGTAT
* * **
15095057 CTCATCAGGGAGATATGGGTTTGAAGCTTCACTCACATTGAACTTTGCTTCATTTGATTTTGGTC
66 CTCATCAAGAAGATATGGGTTTGAAGCTTCACTCACATTGAACTTCACTTCATTTGATTTTGGTC
* * *
15095122 TACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATT-TATTTAATCCACTTCTTTGTATCTC
131 CACTTCTCTGTATCTCATCAGGAAGATGACCGCCTCATTGT-TTCAATCCACTTCTTTGTATCTC
* * **
15095186 ATCAGGAAGGCGGATTC
195 ATCA-AAAGACAAATTC
*
15095203 GGTCCACTTCTCTGTATCTCATCAGGAAGATGACCACTTTATT-CTTTGACCCACTTCTCTGTAT
1 GGTCCACTTCTCTGTATCTCATCAGGAAGATGACCACTTTATTACTTCGACCCACTTCTCTGTAT
* ** * *
15095267 CTCATCAAGAAGATA-GGGTTTGAAG-TCTCATTCGTATTGAGCTTCACTTTA-TTGA-TTTGGT
66 CTCATCAAGAAGATATGGGTTTGAAGCT-TCACTCACATTGAACTTCACTTCATTTGATTTTGGT
*
15095328 CCACTTCTCTGTATCTCATCAGGCAGATGACCGCCTCATTGTTTCAATCCACTTCTTTGTATCTC
130 CCACTTCTCTGTATCTCATCAGGAAGATGACCGCCTCATTGTTTCAATCCACTTCTTTGTATCTC
* *
15095393 ATGAAAAGACAAATTT
195 ATCAAAAGACAAATTC
*
15095409 GGTCCACTTCTCTATATCTCATCAG
1 GGTCCACTTCTCTGTATCTCATCAG
15095434 AAAGGCGGAT
Statistics
Matches: 205, Mismatches: 24, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
206 31 0.15
207 68 0.33
208 6 0.03
209 27 0.13
210 33 0.16
211 40 0.20
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.37
Consensus pattern (210 bp):
GGTCCACTTCTCTGTATCTCATCAGGAAGATGACCACTTTATTACTTCGACCCACTTCTCTGTAT
CTCATCAAGAAGATATGGGTTTGAAGCTTCACTCACATTGAACTTCACTTCATTTGATTTTGGTC
CACTTCTCTGTATCTCATCAGGAAGATGACCGCCTCATTGTTTCAATCCACTTCTTTGTATCTCA
TCAAAAGACAAATTC
Found at i:15095427 original size:36 final size:37
Alignment explanation
Indices: 15095375--15095464 Score: 119
Period size: 37 Copynumber: 2.5 Consensus size: 37
15095365 ATTGTTTCAA
* *
15095375 TCCACTTCTTTGTATCTCATGA-AAAGACAAATTTGG
1 TCCACTTCTCTGTATCTCATCAGAAAGACAAATTTGG
* * **
15095411 TCCACTTCTCTATATCTCATCAGAAAGGCGGATTTGG
1 TCCACTTCTCTGTATCTCATCAGAAAGACAAATTTGG
15095448 TCCACTTCTCTGTATCT
1 TCCACTTCTCTGTATCT
15095465 TATTAGGAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
36 19 0.41
37 27 0.59
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.37
Consensus pattern (37 bp):
TCCACTTCTCTGTATCTCATCAGAAAGACAAATTTGG
Found at i:15095501 original size:121 final size:124
Alignment explanation
Indices: 15095168--15095521 Score: 334
Period size: 121 Copynumber: 2.9 Consensus size: 124
15095158 ATTTATTTAA
* * * *
15095168 TCCACTTCTTTGTATCTCATCAGGAAGGCGGATTCGGTCCACTTCTCTGTATCTCATCAGGAAGA
1 TCCACTTCTCTATATCTCATCAGAAAGGCGGATTTGGTCCACTTCTCTGTATCTCATCAGGAAGA
* * **
15095233 TGACCACTTTATT-CTTTGACCCACTTCTCTGTATCTCATCAAGAAGATAGGGTTTGAAG
66 TGACCACTTTATTGCTTTGACCCACTTCTTTGTATCTCATCAAGAAGACAGAATTTG-AG
* * *** **
15095292 TCTCA-TTC-GTATTGAGCT--TCACTTTA--TTGATTTGGTCCACTTCTCTGTATCTCATCAGG
1 TC-CACTTCTCTA-T-ATCTCATCA-GAAAGGCGGATTTGGTCCACTTCTCTGTATCTCATCAGG
* * * * * * *
15095351 CAGATGACCGCCTCATTG-TTTCAATCCACTTCTTTGTATCTCATGAA-AAGACA-AATTTG-G
62 AAGATGACCACTTTATTGCTTT-GACCCACTTCTTTGTATCTCATCAAGAAGACAGAATTTGAG
* * *
15095411 TCCACTTCTCTATATCTCATCAGAAAGGCGGATTTGGTCCACTTCTCTGTATCTTATTAGGAATA
1 TCCACTTCTCTATATCTCATCAGAAAGGCGGATTTGGTCCACTTCTCTGTATCTCATCAGGAAGA
* *
15095476 TGACCAATTTATTGCTTTGACCCACTTATTTGTATCTCATCAAGAA
66 TGACCACTTTATTGCTTTGACCCACTTCTTTGTATCTCATCAAGAA
15095522 AATGGGGGTG
Statistics
Matches: 177, Mismatches: 39, Indels: 30
0.72 0.16 0.12
Matches are distributed among these distances:
118 5 0.03
119 8 0.05
120 5 0.03
121 66 0.37
122 56 0.32
123 25 0.14
124 7 0.04
125 5 0.03
ACGTcount: A:0.24, C:0.23, G:0.16, T:0.37
Consensus pattern (124 bp):
TCCACTTCTCTATATCTCATCAGAAAGGCGGATTTGGTCCACTTCTCTGTATCTCATCAGGAAGA
TGACCACTTTATTGCTTTGACCCACTTCTTTGTATCTCATCAAGAAGACAGAATTTGAG
Found at i:15095646 original size:198 final size:198
Alignment explanation
Indices: 15095374--15096046 Score: 695
Period size: 198 Copynumber: 3.3 Consensus size: 198
15095364 CATTGTTTCA
* * * ** * * *
15095374 ATCCACTTCTTTGTATCTCATGA-AAAGACAAATTTGGTCCACTTCTCTATATCTCATCAGAAAG
1 ATCCACTTCTCTGTATCTCATCAGGAAGACGGATTTGGTCCACTCCTCTGTATCTCATCAGGAAG
** * * * *
15095438 GCGGATTTGGTCCACTTCTCTGTATCTTATTAGGAATATGACCAATTTATTGCTTTGACCCACTT
66 ATGAATTTGGTCCACTTCTCTGTATCTCATTAGGAAGATGACCAATTTATTACTTTGACCCACTT
* * * *
15095503 ATTTGTATCTCATCAAGAAAATGGGGGTGTGAAGTTTCACTCACACTGAGCTTTGCTTCATTAAT
131 CTCTGTATCTCATCAAGAAGATGGGGGTGTGAAGTTTCACTCACATTGAGCTTTGCTTCATTAAT
15095568 TTG
196 TTG
* *
15095571 ATCCACTTCTCTGTATCTCATCAGGAAGACGGATTTGGTCTACTCCTCTGTATCTCATCAGGAGG
1 ATCCACTTCTCTGTATCTCATCAGGAAGACGGATTTGGTCCACTCCTCTGTATCTCATCAGGAAG
* * * **
15095636 ATGAATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGAACTTTTTATTACTTTGACCCACTT
66 ATGAATTTGGTCCACTTCTCTGTATCTCATTAGGAAGATGACCAATTTATTACTTTGACCCACTT
* * *
15095701 CTCTGTATCTCATCAGGAAGATGGGGGTTTGAAGTTTCACTCACATTGAGCTTTGCTTCATTGAT
131 CTCTGTATCTCATCAAGAAGATGGGGGTGTGAAGTTTCACTCACATTGAGCTTTGCTTCATTAAT
15095766 TTG
196 TTG
* * * * **
15095769 GTCTACATCTCTGTATCTTATCAGGAAGATGACTGCCTCATTGATTTAATCCAC-CTCTCTGTAT
1 ATCCACTTCTCTGTATCTCATCAGG-A-A-GAC-G-------GATTTGGTCCACTC-CTCTGTAT
* * * * * *** *
15095833 CTCATTAAGAAGATGAATTTGGTTCACTTCTCTGCATCTCGTTAGGAAGATGACCGCCTTATTTC
54 CTCATCAGGAAGATGAATTTGGTCCACTTCTCTGTATCTCATTAGGAAGATGACCAATTTATTAC
* * ** * * *
15095898 TTCGACCAACTTCTCTGTATCTCATCAAGAAGATGGAAGAGTGAAGTTTTACTCACATTTAGCTT
119 TTTGACCCACTTCTCTGTATCTCATCAAGAAGATGGGGGTGTGAAGTTTCACTCACATTGAGCTT
*
15095963 TAG-TTCATTAACTTG
184 T-GCTTCATTAATTTG
* * * * * *
15095978 ATCCACTTCTTTGTATCTCATCAAGAAGATGGATTTGGTCTACTTCTTTGTATCTCATCAGGAAG
1 ATCCACTTCTCTGTATCTCATCAGGAAGACGGATTTGGTCCACTCCTCTGTATCTCATCAGGAAG
15096043 ATGA
66 ATGA
15096047 CCACTTTATT
Statistics
Matches: 388, Mismatches: 73, Indels: 29
0.79 0.15 0.06
Matches are distributed among these distances:
197 21 0.05
198 199 0.51
199 1 0.00
200 1 0.00
201 3 0.01
202 1 0.00
205 1 0.00
206 2 0.01
207 1 0.00
208 2 0.01
209 155 0.40
210 1 0.00
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.37
Consensus pattern (198 bp):
ATCCACTTCTCTGTATCTCATCAGGAAGACGGATTTGGTCCACTCCTCTGTATCTCATCAGGAAG
ATGAATTTGGTCCACTTCTCTGTATCTCATTAGGAAGATGACCAATTTATTACTTTGACCCACTT
CTCTGTATCTCATCAAGAAGATGGGGGTGTGAAGTTTCACTCACATTGAGCTTTGCTTCATTAAT
TTG
Found at i:15095676 original size:37 final size:37
Alignment explanation
Indices: 15095565--15095677 Score: 172
Period size: 37 Copynumber: 3.1 Consensus size: 37
15095555 TTGCTTCATT
* * *
15095565 AATTTGATCCACTTCTCTGTATCTCATCAGGAAGACG
1 AATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATG
* * *
15095602 GATTTGGTCTACTCCTCTGTATCTCATCAGGAGGATG
1 AATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATG
15095639 AATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATG
1 AATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATG
15095676 AA
1 AA
15095678 CTTTTTATTA
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (37 bp):
AATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATG
Found at i:15095995 original size:209 final size:209
Alignment explanation
Indices: 15095616--15096008 Score: 502
Period size: 209 Copynumber: 1.9 Consensus size: 209
15095606 TGGTCTACTC
* * * **
15095616 CTCTGTATCTCATCAGGAGGATGAATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGAACTT
1 CTCTGTATCTCATCAAGAAGATGAATTTGGTCTACTTCTCTGCATCTCATCAGGAAGATGAACGC
* * * * ** **
15095681 TTTATTACTTTGACCCACTTCTCTGTATCTCATCAGGAAGATGGGGGTTTGAAGTTTCACTCACA
66 CTTATTACTTCGACCAACTTCTCTGTATCTCATCAAGAAGATGGAAGAGTGAAGTTTCACTCACA
* * * * * *
15095746 TTGAGCTTTGCTTCATTGATTTGGTCTACATCTCTGTATCTTATCAGGAAGATGACTGCCTCATT
131 TTGAGCTTTGCTTCATTAACTTGATCCACATCTCTGTATCTCATCAAGAAGATGACTGCCTCATT
15095811 GATTTAATCCACCT
196 GATTTAATCCACCT
* * * *
15095825 CTCTGTATCTCATTAAGAAGATGAATTTGGT-TCACTTCTCTGCATCTCGTTAGGAAGATGACCG
1 CTCTGTATCTCATCAAGAAGATGAATTTGGTCT-ACTTCTCTGCATCTCATCAGGAAGATGAACG
* *
15095889 CCTTATTTCTTCGACCAACTTCTCTGTATCTCATCAAGAAGATGGAAGAGTGAAGTTTTACTCAC
65 CCTTATTACTTCGACCAACTTCTCTGTATCTCATCAAGAAGATGGAAGAGTGAAGTTTCACTCAC
* * *
15095954 ATTTAGCTTTAG-TTCATTAACTTGATCCACTTCTTTGTATCTCATCAAGAAGATG
130 ATTGAGCTTT-GCTTCATTAACTTGATCCACATCTCTGTATCTCATCAAGAAGATG
15096009 GATTTGGTCT
Statistics
Matches: 154, Mismatches: 28, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
208 1 0.01
209 152 0.99
210 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.37
Consensus pattern (209 bp):
CTCTGTATCTCATCAAGAAGATGAATTTGGTCTACTTCTCTGCATCTCATCAGGAAGATGAACGC
CTTATTACTTCGACCAACTTCTCTGTATCTCATCAAGAAGATGGAAGAGTGAAGTTTCACTCACA
TTGAGCTTTGCTTCATTAACTTGATCCACATCTCTGTATCTCATCAAGAAGATGACTGCCTCATT
GATTTAATCCACCT
Found at i:15096107 original size:161 final size:161
Alignment explanation
Indices: 15095817--15096113 Score: 409
Period size: 161 Copynumber: 1.8 Consensus size: 161
15095807 CATTGATTTA
* * *
15095817 ATCCACCTCTCTGTATCTCATTAAGAAGATGAATTTGGTTCACTTCTCTGCATCTCGTTAGGAAG
1 ATCCACCTCTCTGTATCTCATCAAGAAGATGAATTTGGTTCACTTCTCTGCATCTCATCAGGAAG
* *
15095882 ATGACCGCCTTATTTCTTCGACCAACTTCTCTGTATCTCATCAAGAAGATGGAAGAGTGAAGTTT
66 ATGACCACCTTATTACTTCGACCAACTTCTCTGTATCTCATCAAGAAGATGGAAGAGTGAAGTTT
*
15095947 TACTCACATTTAGCTTTAGTTCATTAACTTG
131 CACTCACATTTAGCTTTAGTTCATTAACTTG
* * * * *
15095978 ATCCACTTCTTTGTATCTCATCAAGAAGATGGATTTGG-TCTACTTCTTTGTATCTCATCAGGAA
1 ATCCACCTCTCTGTATCTCATCAAGAAGATGAATTTGGTTC-ACTTCTCTGCATCTCATCAGGAA
* * ** **
15096042 GATGACCACTTTATTACTTCGACCCACTTCTCTGTATCTCATCGGGAAGATGG-AGTTTCGAAGT
65 GATGACCACCTTATTACTTCGACCAACTTCTCTGTATCTCATCAAGAAGATGGAAGAGT-GAAGT
15096106 TTCACTCA
129 TTCACTCA
15096114 TATTGAACTT
Statistics
Matches: 117, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
160 5 0.04
161 112 0.96
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.36
Consensus pattern (161 bp):
ATCCACCTCTCTGTATCTCATCAAGAAGATGAATTTGGTTCACTTCTCTGCATCTCATCAGGAAG
ATGACCACCTTATTACTTCGACCAACTTCTCTGTATCTCATCAAGAAGATGGAAGAGTGAAGTTT
CACTCACATTTAGCTTTAGTTCATTAACTTG
Found at i:15099916 original size:16 final size:16
Alignment explanation
Indices: 15099879--15099910 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
15099869 CATTAGGTTT
15099879 AGTTCTTTGAATAGAG
1 AGTTCTTTGAATAGAG
15099895 AGTTCTTTGAATAGAG
1 AGTTCTTTGAATAGAG
15099911 GATTCTCGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (16 bp):
AGTTCTTTGAATAGAG
Found at i:15126235 original size:12 final size:12
Alignment explanation
Indices: 15126218--15126242 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15126208 TAGTTGATAG
15126218 AACAATTCTATC
1 AACAATTCTATC
15126230 AACAATTCTATC
1 AACAATTCTATC
15126242 A
1 A
15126243 GATATCAATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (12 bp):
AACAATTCTATC
Found at i:15138727 original size:17 final size:16
Alignment explanation
Indices: 15138706--15138762 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 16
15138696 GTTGTCATCA
15138706 CATTTCGTTTGTCATTG
1 CATTTC-TTTGTCATTG
* *
15138723 TATTTTTCTTGTCATTG
1 CATTTCT-TTGTCATTG
*
15138740 CATCTTCATTGTCATTG
1 CAT-TTCTTTGTCATTG
15138757 CATTTC
1 CATTTC
15138763 CATATATATT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
16 4 0.12
17 27 0.82
18 2 0.06
ACGTcount: A:0.14, C:0.19, G:0.12, T:0.54
Consensus pattern (16 bp):
CATTTCTTTGTCATTG
Found at i:15145597 original size:16 final size:16
Alignment explanation
Indices: 15145576--15145641 Score: 51
Period size: 16 Copynumber: 3.7 Consensus size: 16
15145566 AATGTTTCAG
15145576 TTTAATTAGCATTAAT
1 TTTAATTAGCATTAAT
* *
15145592 TTTAATTAACACTAATGTT
1 TTTAATTAGCATTAA---T
15145611 TCAGTTTAATTAGCATTAAT
1 T---T-TAATTAGCATTAAT
15145631 TTTAATTAGCA
1 TTTAATTAGCA
15145642 CAAATCTACA
Statistics
Matches: 39, Mismatches: 4, Indels: 14
0.68 0.07 0.25
Matches are distributed among these distances:
16 22 0.56
17 1 0.03
19 2 0.05
20 2 0.05
22 1 0.03
23 11 0.28
ACGTcount: A:0.36, C:0.09, G:0.08, T:0.47
Consensus pattern (16 bp):
TTTAATTAGCATTAAT
Found at i:15149723 original size:15 final size:15
Alignment explanation
Indices: 15149703--15149737 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
15149693 AACATGCAAG
* *
15149703 AAAAAAACTAAAACT
1 AAAAAAAATAAAAAT
15149718 AAAAAAAATAAAAAT
1 AAAAAAAATAAAAAT
15149733 AAAAA
1 AAAAA
15149738 TAAAATTGGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.83, C:0.06, G:0.00, T:0.11
Consensus pattern (15 bp):
AAAAAAAATAAAAAT
Found at i:15153148 original size:11 final size:11
Alignment explanation
Indices: 15153132--15153161 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
15153122 GCAAATCTTC
15153132 GGGTTTTCACT
1 GGGTTTTCACT
15153143 GGGTTTTCACT
1 GGGTTTTCACT
*
15153154 CGGTTTTC
1 GGGTTTTC
15153162 GCTTCTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.07, C:0.20, G:0.27, T:0.47
Consensus pattern (11 bp):
GGGTTTTCACT
Found at i:15155655 original size:36 final size:36
Alignment explanation
Indices: 15155554--15155657 Score: 154
Period size: 36 Copynumber: 2.9 Consensus size: 36
15155544 TGGTAACAGG
* * *
15155554 CATGACCTTTAGGTTAATAGGGAGTAAAACGAGAAT
1 CATGACCTTTGGGTCAATAGGGAGTAAAATGAGAAT
*
15155590 CATGACCTTTGGGTCAATAGGGAGTAAAATGAGCAT
1 CATGACCTTTGGGTCAATAGGGAGTAAAATGAGAAT
* *
15155626 TATGACCTTTGGGTCAACAGGGAGTAAAATGA
1 CATGACCTTTGGGTCAATAGGGAGTAAAATGA
15155658 ATAACGAACA
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 62 1.00
ACGTcount: A:0.36, C:0.12, G:0.27, T:0.25
Consensus pattern (36 bp):
CATGACCTTTGGGTCAATAGGGAGTAAAATGAGAAT
Found at i:15156359 original size:21 final size:21
Alignment explanation
Indices: 15156326--15156393 Score: 84
Period size: 21 Copynumber: 3.3 Consensus size: 21
15156316 TTTGGTGTTT
*
15156326 GTAG-AGTAAGACTTGTATCG
1 GTAGAAGTGAGACTTGTATCG
*
15156346 GTAGAAGTGAGACTTGTTTCG
1 GTAGAAGTGAGACTTGTATCG
* *
15156367 GTAGAACTGATACTTGTATCG
1 GTAGAAGTGAGACTTGTATCG
*
15156388 GCAGAA
1 GTAGAA
15156394 AAATGCACTA
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
20 4 0.10
21 37 0.90
ACGTcount: A:0.29, C:0.12, G:0.29, T:0.29
Consensus pattern (21 bp):
GTAGAAGTGAGACTTGTATCG
Found at i:15163873 original size:15 final size:15
Alignment explanation
Indices: 15163855--15163889 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
15163845 TCTCAGTAGA
* *
15163855 TTCTTTTTCAGCATT
1 TTCTTTCTCAACATT
15163870 TTCTTTCTCAACATT
1 TTCTTTCTCAACATT
15163885 TTCTT
1 TTCTT
15163890 CCTTGGCATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.14, C:0.23, G:0.03, T:0.60
Consensus pattern (15 bp):
TTCTTTCTCAACATT
Found at i:15177696 original size:26 final size:26
Alignment explanation
Indices: 15177648--15177712 Score: 105
Period size: 26 Copynumber: 2.5 Consensus size: 26
15177638 GACCCTTGGC
15177648 CTTTCACCTACT-AAAAACTCTTGAT
1 CTTTCACCTACTAAAAAACTCTTGAT
* *
15177673 CTTTTATCTACTAAAAAACTCTTGAT
1 CTTTCACCTACTAAAAAACTCTTGAT
15177699 CTTTCACCTACTAA
1 CTTTCACCTACTAA
15177713 CTATTAAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
25 10 0.29
26 25 0.71
ACGTcount: A:0.32, C:0.26, G:0.03, T:0.38
Consensus pattern (26 bp):
CTTTCACCTACTAAAAAACTCTTGAT
Found at i:15182062 original size:26 final size:26
Alignment explanation
Indices: 15182014--15182078 Score: 114
Period size: 26 Copynumber: 2.5 Consensus size: 26
15182004 GACCCTTGGC
15182014 CTTTCACCTACT-AAAAACTCTTGAT
1 CTTTCACCTACTAAAAAACTCTTGAT
*
15182039 CTTTCATCTACTAAAAAACTCTTGAT
1 CTTTCACCTACTAAAAAACTCTTGAT
15182065 CTTTCACCTACTAA
1 CTTTCACCTACTAA
15182079 CTACTAAATT
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
25 11 0.30
26 26 0.70
ACGTcount: A:0.32, C:0.28, G:0.03, T:0.37
Consensus pattern (26 bp):
CTTTCACCTACTAAAAAACTCTTGAT
Found at i:15183374 original size:22 final size:22
Alignment explanation
Indices: 15183349--15183397 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
15183339 TTGCATTCAT
** *
15183349 TCATACATCCGGTAAAGGGCTC
1 TCATACATCCCATAAACGGCTC
*
15183371 TCATACGTCCCATAAACGGCTC
1 TCATACATCCCATAAACGGCTC
15183393 TCATA
1 TCATA
15183398 TACTAGTGCG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.29, C:0.31, G:0.16, T:0.24
Consensus pattern (22 bp):
TCATACATCCCATAAACGGCTC
Found at i:15192572 original size:17 final size:18
Alignment explanation
Indices: 15192546--15192588 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
15192536 TACATTTTAA
*
15192546 TGTCACTGCATGTT-CAT-
1 TGTCATTGCAT-TTCCATG
15192563 TGTCATTGCATTTCCATG
1 TGTCATTGCATTTCCATG
15192581 TGTCATTG
1 TGTCATTG
15192589 TAAATTAACG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 2 0.09
17 13 0.57
18 8 0.35
ACGTcount: A:0.16, C:0.21, G:0.19, T:0.44
Consensus pattern (18 bp):
TGTCATTGCATTTCCATG
Found at i:15196885 original size:270 final size:272
Alignment explanation
Indices: 15196397--15196893 Score: 768
Period size: 270 Copynumber: 1.8 Consensus size: 272
15196387 GTAGATCACA
15196397 ATACATGAATGTGTGTAAGTCCATGTGGCTGAGACCCATGGAAAAATTATGTGATCGTATGAATA
1 ATACATGAATGTGTGTAAGTCCATGTGGCTGAGACCCATGGAAAAATTATGTGATCGTATGAATA
* * * *
15196462 TGTTTAAGGTGTAGCCTTCGATAATGTGTAAATCGAATTGGTAGATCATGATACATGAATTTATG
66 TGTTCAAGGTGTAGCCTTCAATAATGTGTAAATCGAATTGGTAGATCACGAAACATGAATTTATG
* * * * * *
15196527 TCTAAATCCATTAGGGAAAAAACCATGGCACCTTCTGTGAAAGTTCGTCGAGGTAATAAATACGT
131 TCTAAACCCATTAGAGAAAAAACCATCGCACCTTCTGTGAAAGTTCGTCGAGGCAATAAACACAT
* * *
15196592 GATTCGGTATGTCTCCCTTGTGGCGTATTCTGCATGTTGCCCTTGTGACGTATTCAGTTTGGCTC
196 GATTCAGTATGTCTCCATTGTGGCATATTCTGCATGTTGCCCTTGTGACGTATTCAGTTTGGCTC
15196657 TTTTGGTGTGTG
261 TTTTGGTGTGTG
* *
15196669 ATACATGAATGTGTGTAAGTCCATGTGGTTGAGACCCATGGCAAAATTATGTGATCGTATG-A-A
1 ATACATGAATGTGTGTAAGTCCATGTGGCTGAGACCCATGGAAAAATTATGTGATCGTATGAATA
* *
15196732 TGTTCATGGTGTAGCCTTCAATAATGTGTATATCGAATTGGTAGATCACGAAACATGAATTTATG
66 TGTTCAAGGTGTAGCCTTCAATAATGTGTAAATCGAATTGGTAGATCACGAAACATGAATTTATG
* * *
15196797 TCTAAACCCATTAGAGAAAAAACCATCGCACCTTCTGTGAAAG-TCTGTTGGGGCAGTAAACACA
131 TCTAAACCCATTAGAGAAAAAACCATCGCACCTTCTGTGAAAGTTC-GTCGAGGCAATAAACACA
15196861 TGATTCAGTATGT-TGCCATTGTGGCATATTCTG
195 TGATTCAGTATGTCT-CCATTGTGGCATATTCTG
15196894 TTTGGCTCTT
Statistics
Matches: 203, Mismatches: 20, Indels: 6
0.89 0.09 0.03
Matches are distributed among these distances:
269 3 0.01
270 140 0.69
271 1 0.00
272 59 0.29
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.33
Consensus pattern (272 bp):
ATACATGAATGTGTGTAAGTCCATGTGGCTGAGACCCATGGAAAAATTATGTGATCGTATGAATA
TGTTCAAGGTGTAGCCTTCAATAATGTGTAAATCGAATTGGTAGATCACGAAACATGAATTTATG
TCTAAACCCATTAGAGAAAAAACCATCGCACCTTCTGTGAAAGTTCGTCGAGGCAATAAACACAT
GATTCAGTATGTCTCCATTGTGGCATATTCTGCATGTTGCCCTTGTGACGTATTCAGTTTGGCTC
TTTTGGTGTGTG
Found at i:15201661 original size:70 final size:70
Alignment explanation
Indices: 15201540--15201678 Score: 242
Period size: 70 Copynumber: 2.0 Consensus size: 70
15201530 TCGATGTCGC
*
15201540 GACACACAAGAGCTGTGTCGCGACAATGAATTCAGTTTGCTCTTTTAGGTAATTCTTTTAGGCAT
1 GACACACAAGAGCTGTGTCGCGACAATGAATTCAGTTTGCTCCTTTAGGTAATTCTTTTAGGCAT
15201605 TGTAT
66 TGTAT
* * *
15201610 GACACACAGGAGCTGTGTCGCGACAATGAATTTAGTTTGCTCCTTTGGGTAATTCTTTTAGGCAT
1 GACACACAAGAGCTGTGTCGCGACAATGAATTCAGTTTGCTCCTTTAGGTAATTCTTTTAGGCAT
15201675 TGTA
66 TGTA
15201679 GCAACACGGG
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
70 65 1.00
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.35
Consensus pattern (70 bp):
GACACACAAGAGCTGTGTCGCGACAATGAATTCAGTTTGCTCCTTTAGGTAATTCTTTTAGGCAT
TGTAT
Found at i:15201717 original size:21 final size:21
Alignment explanation
Indices: 15201688--15201738 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
15201678 AGCAACACGG
15201688 GTCGCGACACACCATGCCCGT
1 GTCGCGACACACCATGCCCGT
*
15201709 GTTGCGACACACCATGCCCGT
1 GTCGCGACACACCATGCCCGT
15201730 GTCGCGACA
1 GTCGCGACA
15201739 TAGAAGTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.20, C:0.39, G:0.25, T:0.16
Consensus pattern (21 bp):
GTCGCGACACACCATGCCCGT
Found at i:15210065 original size:18 final size:18
Alignment explanation
Indices: 15210039--15210088 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
15210029 GGCAATGTCT
*
15210039 TCTTTTTTTTCTTCCTTC
1 TCTTATTTTTCTTCCTTC
15210057 TCTTATTTTTCTT-CTTC
1 TCTTATTTTTCTTCCTTC
* *
15210074 TTTTCTTTCTTCTTC
1 TCTTATTT-TTCTTC
15210089 TTTTGCTTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 10 0.37
18 17 0.63
ACGTcount: A:0.02, C:0.26, G:0.00, T:0.72
Consensus pattern (18 bp):
TCTTATTTTTCTTCCTTC
Found at i:15210082 original size:15 final size:15
Alignment explanation
Indices: 15210036--15210092 Score: 78
Period size: 15 Copynumber: 3.6 Consensus size: 15
15210026 CGGGGCAATG
15210036 TCTTCTTTTTTTTCT
1 TCTTCTTTTTTTTCT
15210051 TCCTTCTCTTATTTTTCT
1 T-CTTCT-TT-TTTTTCT
*
15210069 TCTTCTTTTCTTTCT
1 TCTTCTTTTTTTTCT
15210084 TCTTCTTTT
1 TCTTCTTTT
15210093 GCTTCAATAC
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
15 16 0.42
16 7 0.18
17 7 0.18
18 8 0.21
ACGTcount: A:0.02, C:0.25, G:0.00, T:0.74
Consensus pattern (15 bp):
TCTTCTTTTTTTTCT
Found at i:15210089 original size:18 final size:18
Alignment explanation
Indices: 15210036--15210090 Score: 62
Period size: 16 Copynumber: 3.2 Consensus size: 18
15210026 CGGGGCAATG
*
15210036 TCTTCTTTTTTTTCTTC-
1 TCTTCTTTTATTTCTTCT
*
15210053 -CTTCTCTTATTT-TTCT
1 TCTTCTTTTATTTCTTCT
*
15210069 TCTTCTTTTCTTTCTTCT
1 TCTTCTTTTATTTCTTCT
15210087 TCTT
1 TCTT
15210091 TTGCTTCAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
15 3 0.10
16 10 0.32
17 10 0.32
18 8 0.26
ACGTcount: A:0.02, C:0.25, G:0.00, T:0.73
Consensus pattern (18 bp):
TCTTCTTTTATTTCTTCT
Found at i:15238105 original size:43 final size:43
Alignment explanation
Indices: 15238009--15238165 Score: 180
Period size: 43 Copynumber: 3.7 Consensus size: 43
15237999 CAGATTTACA
* * * *
15238009 AGTCTTCCTTTT-AAC--AATCTTATGCTC-TACCAAGTCATA
1 AGTCTTCCTTTTAAACATAATCTCATGCTCATTCCGAGTCATG
15238048 AGTCTTCCTTTTTAAACATAATCTCATGCTCATTTCCGAGTCATG
1 AGTCTTCC-TTTTAAACATAATCTCATGCTCA-TTCCGAGTCATG
*
15238093 AGTCTTCC-TTTAAACATAATCTCATGCTCATTCTGAGTCATG
1 AGTCTTCCTTTTAAACATAATCTCATGCTCATTCCGAGTCATG
* * * *
15238135 AGTATTCCATTTATACATATTCTCATGCTCA
1 AGTCTTCCTTTTAAACATAATCTCATGCTCA
15238166 ACCCAAGACA
Statistics
Matches: 103, Mismatches: 8, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
39 8 0.08
40 4 0.04
41 3 0.03
42 18 0.17
43 53 0.51
45 17 0.17
ACGTcount: A:0.27, C:0.24, G:0.10, T:0.39
Consensus pattern (43 bp):
AGTCTTCCTTTTAAACATAATCTCATGCTCATTCCGAGTCATG
Found at i:15245222 original size:12 final size:13
Alignment explanation
Indices: 15245180--15245224 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
15245170 ATAATTTTTG
15245180 TTATTAATAAATA
1 TTATTAATAAATA
15245193 TT-TTAATTAAATA
1 TTATTAA-TAAATA
15245206 TTTATTAAT-AATA
1 -TTATTAATAAATA
15245219 TTATTA
1 TTATTA
15245225 TTATTATTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
12 10 0.34
13 12 0.41
14 3 0.10
15 4 0.14
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
TTATTAATAAATA
Found at i:15246781 original size:3 final size:3
Alignment explanation
Indices: 15246768--15246817 Score: 84
Period size: 3 Copynumber: 17.0 Consensus size: 3
15246758 TTCAAATCCA
*
15246768 AAT AA- AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT GAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
15246815 AAT
1 AAT
15246818 CTAAAAGTTC
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
2 2 0.05
3 42 0.95
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:15248176 original size:43 final size:40
Alignment explanation
Indices: 15248058--15248288 Score: 183
Period size: 43 Copynumber: 5.5 Consensus size: 40
15248048 TTGATGCGTA
** * ** *
15248058 TTAAAGGAAGACTCATTTCTCGAAATGAGCATGAGGGTATA
1 TTAAAGGAAGACTCATGACTCGGAA-GAGCATGAGATTATG
*
15248099 TTAAAGGAAGACTCATGTCTCGGAATGAGCATGAGATTATG
1 TTAAAGGAAGACTCATGACTCGGAA-GAGCATGAGATTATG
* * * *
15248140 TTAAAAAGGAATACTCGTGACTCGAGAAGAGAATGAGATTACG
1 TT--AAAGGAAGACTCATGACTCG-GAAGAGCATGAGATTATG
* * * *
15248183 ATTTAAGGAAGAATCATGACTCGGAAAGAGTATGAGGTTATG
1 -TTAAAGGAAGACTCATGACTCGG-AAGAGCATGAGATTATG
* * * *
15248225 TTTTAAAGGAAGACTCGTGACTCGAGATGAGCATTAGATTACG
1 --TTAAAGGAAGACTCATGACTCG-GAAGAGCATGAGATTATG
*
15248268 TTTAAAGGAAGACTTATGACT
1 -TTAAAGGAAGACTCATGACT
15248289 TGGTTGATTT
Statistics
Matches: 155, Mismatches: 28, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
41 39 0.25
42 49 0.32
43 61 0.39
44 6 0.04
ACGTcount: A:0.37, C:0.11, G:0.26, T:0.26
Consensus pattern (40 bp):
TTAAAGGAAGACTCATGACTCGGAAGAGCATGAGATTATG
Found at i:15248206 original size:85 final size:85
Alignment explanation
Indices: 15248099--15248288 Score: 256
Period size: 85 Copynumber: 2.2 Consensus size: 85
15248089 TGAGGGTATA
* * *
15248099 TTAAAGGAAGACTCATGTCTCGGAATGAGCATGAGATTATGTTAAAAAGGAATACTCGTGACTCG
1 TTAAAGGAAGACTCATGACTCGGAAAGAGCATGAGATTATGTTAAAAAGGAAGACTCGTGACTCG
15248164 AGAAGAGAATGAGATTACGAT
66 AGAAGAGAATGAGATTACG-T
* * * **
15248185 TT-AAGGAAGAATCATGACTCGGAAAGAGTATGAGGTTATGTTTTAAAGGAAGACTCGTGACTCG
1 TTAAAGGAAGACTCATGACTCGGAAAGAGCATGAGATTATGTTAAAAAGGAAGACTCGTGACTCG
* * *
15248249 AGATGAGCATTAGATTACGT
66 AGAAGAGAATGAGATTACGT
*
15248269 TTAAAGGAAGACTTATGACT
1 TTAAAGGAAGACTCATGACT
15248289 TGGTTGATTT
Statistics
Matches: 90, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
84 3 0.03
85 85 0.94
86 2 0.02
ACGTcount: A:0.37, C:0.11, G:0.26, T:0.26
Consensus pattern (85 bp):
TTAAAGGAAGACTCATGACTCGGAAAGAGCATGAGATTATGTTAAAAAGGAAGACTCGTGACTCG
AGAAGAGAATGAGATTACGT
Found at i:15248901 original size:43 final size:43
Alignment explanation
Indices: 15248824--15249016 Score: 271
Period size: 43 Copynumber: 4.5 Consensus size: 43
15248814 TATGCTATAC
* * *
15248824 CGAGTCATAAGTCTTCC-TTTAAACATAATCTCATGCTCATTT
1 CGAGACATAAGTCTTCCATTTATACATAATCTCATGCTCATCT
* ** * * *
15248866 CGAGTCACGAGTCTTTCATTTATACATAATCTCATGCTCGTCC
1 CGAGACATAAGTCTTCCATTTATACATAATCTCATGCTCATCT
*
15248909 CGAGACATAAGTCTTCCATTTATATATAATCTCATGCTCATCT
1 CGAGACATAAGTCTTCCATTTATACATAATCTCATGCTCATCT
* *
15248952 CGAGACATGAGTCTTCCATTTATACATAATCTCATGCTCATCC
1 CGAGACATAAGTCTTCCATTTATACATAATCTCATGCTCATCT
15248995 CGAGACATAAGTCTTCCATTTA
1 CGAGACATAAGTCTTCCATTTA
15249017 CACCAAGTGA
Statistics
Matches: 132, Mismatches: 18, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
42 14 0.11
43 118 0.89
ACGTcount: A:0.28, C:0.25, G:0.11, T:0.35
Consensus pattern (43 bp):
CGAGACATAAGTCTTCCATTTATACATAATCTCATGCTCATCT
Found at i:15248972 original size:86 final size:86
Alignment explanation
Indices: 15248815--15249016 Score: 309
Period size: 86 Copynumber: 2.4 Consensus size: 86
15248805 AAACAATTTT
* * * *
15248815 ATGCT-ATACCGAGTCATAAGTCTTCC-TTTAAACATAATCTCATGCTCATTTCGAGTCACGAGT
1 ATGCTCATCCCGAGACATAAGTCTTCCATTTAAACATAATCTCATGCTCATCTCGAGACACGAGT
*
15248878 CTTTCATTTATACATAATCTC
66 CTTCCATTTATACATAATCTC
* * * *
15248899 ATGCTCGTCCCGAGACATAAGTCTTCCATTTATATATAATCTCATGCTCATCTCGAGACATGAGT
1 ATGCTCATCCCGAGACATAAGTCTTCCATTTAAACATAATCTCATGCTCATCTCGAGACACGAGT
15248964 CTTCCATTTATACATAATCTC
66 CTTCCATTTATACATAATCTC
15248985 ATGCTCATCCCGAGACATAAGTCTTCCATTTA
1 ATGCTCATCCCGAGACATAAGTCTTCCATTTA
15249017 CACCAAGTGA
Statistics
Matches: 106, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
84 5 0.05
85 18 0.17
86 83 0.78
ACGTcount: A:0.28, C:0.25, G:0.11, T:0.35
Consensus pattern (86 bp):
ATGCTCATCCCGAGACATAAGTCTTCCATTTAAACATAATCTCATGCTCATCTCGAGACACGAGT
CTTCCATTTATACATAATCTC
Found at i:15257708 original size:43 final size:41
Alignment explanation
Indices: 15257595--15257817 Score: 184
Period size: 43 Copynumber: 5.3 Consensus size: 41
15257585 TTGATGCGTA
* * * *
15257595 TTAAAGGAAGACTCATGTCTCG-GAATAAGCATGA-AGGTATA
1 TTAAAGGAAGACTCATGACTCGAGAA-GAGCATGAGA-TTATG
* * *
15257636 TTAAAGG-AGACTCATGTCTCGGGATGAGCATGAGATTATG
1 TTAAAGGAAGACTCATGACTCGAGAAGAGCATGAGATTATG
*
15257676 TTAAAAAGGAAGACTCGTGACTCGAGAAGAGCATGAGATTATG
1 TT--AAAGGAAGACTCATGACTCGAGAAGAGCATGAGATTATG
* * * *
15257719 ATTTAAGGAAGACTCATGACTCGAAAAGAGTATGAGGTTATG
1 -TTAAAGGAAGACTCATGACTCGAGAAGAGCATGAGATTATG
** * * *
15257761 TTCTAAAGGAAGACTTGTGACTCGAGATGGGCGTGAGATTGCAT-
1 -T-TAAAGGAAGACTCATGACTCGAGAAGAGCATGAGATT--ATG
15257805 TTAAAGGAAGACT
1 TTAAAGGAAGACT
15257818 TATGGTTCGA
Statistics
Matches: 150, Mismatches: 23, Indels: 17
0.79 0.12 0.09
Matches are distributed among these distances:
40 26 0.17
41 10 0.07
42 52 0.35
43 58 0.39
44 2 0.01
45 2 0.01
ACGTcount: A:0.35, C:0.12, G:0.28, T:0.25
Consensus pattern (41 bp):
TTAAAGGAAGACTCATGACTCGAGAAGAGCATGAGATTATG
Found at i:15257760 original size:85 final size:84
Alignment explanation
Indices: 15257597--15257817 Score: 216
Period size: 85 Copynumber: 2.6 Consensus size: 84
15257587 GATGCGTATT
* * * * * * **
15257597 AAAGGAAGACTCATGTCTCG-GAATAAGCATGAAGGTAT-ATTAAAGG-AGACTCATGTCTCGGG
1 AAAGGAAGACTCGTGACTCGAGAA-GAGCATG-AGATATGATTTAAGGAAGACTCATGACTCGAA
*
15257659 ATGAGCATGAGATTATGTTAA
64 AAGAGCATGAGATTATGTTAA
15257680 AAAGGAAGACTCGTGACTCGAGAAGAGCATGAGATTATGATTTAAGGAAGACTCATGACTCGAAA
1 AAAGGAAGACTCGTGACTCGAGAAGAGCATGAGA-TATGATTTAAGGAAGACTCATGACTCGAAA
* * **
15257745 AGAGTATGAGGTTATGTTCT
65 AGAGCATGAGATTATGTTAA
* * * *
15257765 AAAGGAAGACTTGTGACTCGAGATGGGCGTGAGAT-TGCATTTAAAGGAAGACT
1 AAAGGAAGACTCGTGACTCGAGAAGAGCATGAGATATG-ATTT-AAGGAAGACT
15257818 TATGGTTCGA
Statistics
Matches: 115, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
82 2 0.02
83 29 0.25
84 15 0.13
85 69 0.60
ACGTcount: A:0.36, C:0.12, G:0.28, T:0.24
Consensus pattern (84 bp):
AAAGGAAGACTCGTGACTCGAGAAGAGCATGAGATATGATTTAAGGAAGACTCATGACTCGAAAA
GAGCATGAGATTATGTTAA
Found at i:15258423 original size:21 final size:21
Alignment explanation
Indices: 15258377--15258428 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
15258367 TGTTCATAGT
* *
15258377 AGTATCGGTAGAAGCATGACT
1 AGTATCGGTAGAAGCATCACA
*
15258398 TGTATCGGTA-AAGCTATCACA
1 AGTATCGGTAGAAGC-ATCACA
15258419 AGTATCGGTA
1 AGTATCGGTA
15258429 CAAATTTGCA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
20 4 0.15
21 22 0.85
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (21 bp):
AGTATCGGTAGAAGCATCACA
Found at i:15259109 original size:72 final size:72
Alignment explanation
Indices: 15258992--15259131 Score: 217
Period size: 72 Copynumber: 1.9 Consensus size: 72
15258982 TTCTTTTTAA
* * * * * *
15258992 TGTTGGTCATGAATTCTTTAGTTGTGTTAACCTTATCGAATATAGTGCCCTTGAATGTTTCTAGA
1 TGTTGGCCATGAATTCTTTAGTTGTGGTAACCTTATCGAACATAGTGCCCCTAAATGTTTCTAAA
15259057 ATGGTCT
66 ATGGTCT
*
15259064 TGTTGGCCATGAATTCTTTAGTTGTGGTAACCTTATCGAACATAGTGCCCCTAAATTTTTCTAAA
1 TGTTGGCCATGAATTCTTTAGTTGTGGTAACCTTATCGAACATAGTGCCCCTAAATGTTTCTAAA
15259129 ATG
66 ATG
15259132 ACATTCATAA
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
72 61 1.00
ACGTcount: A:0.24, C:0.16, G:0.19, T:0.41
Consensus pattern (72 bp):
TGTTGGCCATGAATTCTTTAGTTGTGGTAACCTTATCGAACATAGTGCCCCTAAATGTTTCTAAA
ATGGTCT
Found at i:15271774 original size:2 final size:2
Alignment explanation
Indices: 15271767--15271804 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
15271757 GCTAGCAAAA
15271767 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
15271805 ATGCTAAATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:15273554 original size:20 final size:19
Alignment explanation
Indices: 15273519--15273561 Score: 52
Period size: 18 Copynumber: 2.2 Consensus size: 19
15273509 ATAAAAATGA
*
15273519 AAAAAAATCCCTAAA-TTT
1 AAAAAAACCCCTAAATTTT
15273537 AAAAAAACCCCATAAAATTTT
1 AAAAAAACCCC-T-AAATTTT
15273558 AAAA
1 AAAA
15273562 TTTTCTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 10 0.48
19 1 0.05
20 3 0.14
21 7 0.33
ACGTcount: A:0.60, C:0.16, G:0.00, T:0.23
Consensus pattern (19 bp):
AAAAAAACCCCTAAATTTT
Found at i:15275690 original size:21 final size:21
Alignment explanation
Indices: 15275660--15275699 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
15275650 AACGCCTACT
*
15275660 AAAAAATCGTTTGTATTTAAG
1 AAAAAATCGTTTGGATTTAAG
*
15275681 AAAAAGTCGTTTGGATTTA
1 AAAAAATCGTTTGGATTTA
15275700 TCCATGATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.40, C:0.05, G:0.17, T:0.38
Consensus pattern (21 bp):
AAAAAATCGTTTGGATTTAAG
Found at i:15275895 original size:21 final size:21
Alignment explanation
Indices: 15275869--15275927 Score: 84
Period size: 21 Copynumber: 2.8 Consensus size: 21
15275859 TATAAATTAA
15275869 AATATATTAATAATATAGAAT
1 AATATATTAATAATATAGAAT
*
15275890 AATATATTAATAATAT-TAAT
1 AATATATTAATAATATAGAAT
*
15275910 AATATATAAATAAATATA
1 AATATATTAAT-AATATA
15275928 TAAAGAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
20 13 0.38
21 21 0.62
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (21 bp):
AATATATTAATAATATAGAAT
Found at i:15275907 original size:9 final size:9
Alignment explanation
Indices: 15275872--15275914 Score: 50
Period size: 9 Copynumber: 4.4 Consensus size: 9
15275862 AAATTAAAAT
15275872 ATATTAATA
1 ATATTAATA
*
15275881 ATATAGAATAA
1 ATAT-TAAT-A
15275892 TATATTAATA
1 -ATATTAATA
15275902 ATATTAATA
1 ATATTAATA
15275911 ATAT
1 ATAT
15275915 ATAAATAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
9 17 0.59
10 4 0.14
11 4 0.14
12 4 0.14
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (9 bp):
ATATTAATA
Found at i:15275918 original size:27 final size:28
Alignment explanation
Indices: 15275853--15275924 Score: 76
Period size: 30 Copynumber: 2.5 Consensus size: 28
15275843 AATTAATTTA
15275853 AATATAT-ATAAATTAAAATATATTAAT
1 AATATATAATAAATTAAAATATATTAAT
* *
15275880 AATATAGAAT-AATATATTAATAATATTAAT
1 AATATATAATAAAT-TA-AAAT-ATATTAAT
15275910 AATATATAAATAAAT
1 AATATAT-AATAAAT
15275925 ATATAAAGAA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
27 9 0.25
28 4 0.11
29 3 0.08
30 14 0.39
31 3 0.08
32 3 0.08
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (28 bp):
AATATATAATAAATTAAAATATATTAAT
Found at i:15276330 original size:17 final size:16
Alignment explanation
Indices: 15276304--15276338 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
15276294 ATCAAAAGCG
*
15276304 AAAAAGAAAGAAATGAA
1 AAAAAAAAAGAAAT-AA
15276321 AAAAAAAAAGAAATAA
1 AAAAAAAAAGAAATAA
15276337 AA
1 AA
15276339 GTTGCTAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.83, C:0.00, G:0.11, T:0.06
Consensus pattern (16 bp):
AAAAAAAAAGAAATAA
Found at i:15276393 original size:13 final size:13
Alignment explanation
Indices: 15276377--15276402 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15276367 GATTTCGTTG
15276377 AAATCAATATAGA
1 AAATCAATATAGA
15276390 AAATCAATATAGA
1 AAATCAATATAGA
15276403 TTTATAGTAA
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:0.62, C:0.08, G:0.08, T:0.23
Consensus pattern (13 bp):
AAATCAATATAGA
Found at i:15277672 original size:14 final size:15
Alignment explanation
Indices: 15277641--15277683 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 15
15277631 TGGATTAAAT
15277641 AATTAAATAAATTAA
1 AATTAAATAAATTAA
*
15277656 AATTAAA-AAATTTA
1 AATTAAATAAATTAA
15277670 AATT--ATAAATTAA
1 AATTAAATAAATTAA
15277683 A
1 A
15277684 GGGGTCAGAC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
12 1 0.04
13 7 0.28
14 10 0.40
15 7 0.28
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
AATTAAATAAATTAA
Found at i:15277728 original size:23 final size:23
Alignment explanation
Indices: 15277695--15277739 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
15277685 GGGTCAGACA
15277695 AAAAAAGGTATGTTAATTAATCC
1 AAAAAAGGTATGTTAATTAATCC
*
15277718 AAAAAATGTATGTTAATTAATC
1 AAAAAAGGTATGTTAATTAATC
15277740 AAAGGTCCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.49, C:0.07, G:0.11, T:0.33
Consensus pattern (23 bp):
AAAAAAGGTATGTTAATTAATCC
Found at i:15283283 original size:12 final size:12
Alignment explanation
Indices: 15283268--15283292 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15283258 GACAGAAAAG
15283268 TTATCATTATGT
1 TTATCATTATGT
15283280 TTATCATTATGT
1 TTATCATTATGT
15283292 T
1 T
15283293 ATAAGAAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.08, G:0.08, T:0.60
Consensus pattern (12 bp):
TTATCATTATGT
Found at i:15284938 original size:17 final size:17
Alignment explanation
Indices: 15284918--15284952 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
15284908 TCCGTATATT
*
15284918 ATACTAATTATATCTAA
1 ATACTAAGTATATCTAA
15284935 ATACTAAGTATATCTAA
1 ATACTAAGTATATCTAA
15284952 A
1 A
15284953 CGAGTCTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.49, C:0.11, G:0.03, T:0.37
Consensus pattern (17 bp):
ATACTAAGTATATCTAA
Found at i:15289073 original size:20 final size:20
Alignment explanation
Indices: 15289035--15289073 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
15289025 ATTGTTTATA
**
15289035 TATTTTTTTAATTTGATTTT
1 TATTTTTTTAATTAAATTTT
15289055 TATTTTTTTAATTAAATTT
1 TATTTTTTTAATTAAATTT
15289074 AACATCCAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.72
Consensus pattern (20 bp):
TATTTTTTTAATTAAATTTT
Found at i:15292984 original size:81 final size:81
Alignment explanation
Indices: 15292894--15293067 Score: 294
Period size: 81 Copynumber: 2.1 Consensus size: 81
15292884 TATGTAAGAC
*
15292894 CTCAACCATCGCTACGGTCTATAACATCCGCTCACGATGCTACTAACACAAGCTGCTGAGAATCC
1 CTCAGCCATCGCTACGGTCTATAACATCCGCTCACGATGCTACTAACACAAGCTGCTGAGAATCC
* *
15292959 GCAATGTATGCAAGAT
66 GAAATGTATGCAAAAT
* * *
15292975 CTTAGCCATCGCTACGGTCTATAACATCCGCTCACGATGCTATTAACACAAGCTGCTGAGAATCT
1 CTCAGCCATCGCTACGGTCTATAACATCCGCTCACGATGCTACTAACACAAGCTGCTGAGAATCC
15293040 GAAATGTATGCAAAAT
66 GAAATGTATGCAAAAT
15293056 CTCAGCCATCGC
1 CTCAGCCATCGC
15293068 ATGGGTTCGT
Statistics
Matches: 86, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
81 86 1.00
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (81 bp):
CTCAGCCATCGCTACGGTCTATAACATCCGCTCACGATGCTACTAACACAAGCTGCTGAGAATCC
GAAATGTATGCAAAAT
Found at i:15294825 original size:21 final size:21
Alignment explanation
Indices: 15294780--15294831 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
15294770 ATAACATATA
*
15294780 CATAAATA-AAAAAATCAATG
1 CATAAATATATAAAATCAATG
*
15294800 AATAAATATATAAAATGCAAT-
1 CATAAATATATAAAAT-CAATG
*
15294821 CATAAAAATAT
1 CATAAATATAT
15294832 CTAATATAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 7 0.27
21 15 0.58
22 4 0.15
ACGTcount: A:0.63, C:0.08, G:0.04, T:0.25
Consensus pattern (21 bp):
CATAAATATATAAAATCAATG
Found at i:15294906 original size:15 final size:15
Alignment explanation
Indices: 15294870--15294907 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
15294860 ACATGTAATT
15294870 AAATAA-AAAAAATA
1 AAATAATAAAAAATA
*
15294884 AAAAAATAAAAAATA
1 AAATAATAAAAAATA
*
15294899 AGATAATAA
1 AAATAATAA
15294908 CAATAAATGC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 5 0.25
15 15 0.75
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.16
Consensus pattern (15 bp):
AAATAATAAAAAATA
Found at i:15295106 original size:16 final size:16
Alignment explanation
Indices: 15295071--15295113 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
15295061 ATTAGGCATG
*
15295071 AAAATAAAT-CACAAA
1 AAAATAAATAAACAAA
*
15295086 TAAATAAATAAACAAA
1 AAAATAAATAAACAAA
*
15295102 AAAATCAATAAA
1 AAAATAAATAAA
15295114 TTAAATGTCA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.74, C:0.09, G:0.00, T:0.16
Consensus pattern (16 bp):
AAAATAAATAAACAAA
Found at i:15295138 original size:25 final size:25
Alignment explanation
Indices: 15295098--15295145 Score: 64
Period size: 24 Copynumber: 1.9 Consensus size: 25
15295088 AATAAATAAA
15295098 CAAAAAAATCAATAAAT-TAAATGT
1 CAAAAAAATCAATAAATATAAATGT
15295122 CAAAATAAA-CAACTAAATATAAAT
1 CAAAA-AAATCAA-TAAATATAAAT
15295146 AATAATAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 8 0.38
25 8 0.38
26 5 0.24
ACGTcount: A:0.65, C:0.10, G:0.02, T:0.23
Consensus pattern (25 bp):
CAAAAAAATCAATAAATATAAATGT
Found at i:15296085 original size:45 final size:45
Alignment explanation
Indices: 15296006--15296585 Score: 493
Period size: 45 Copynumber: 12.8 Consensus size: 45
15295996 TTGTAACTTT
* * * ** *
15296006 AATCTGCCTCTCTGGATTTAGGGGTATAAGATTGGATAATGACTTC
1 AATCTGCCCCTCTGGA-TTAAGGGTAAAAGATTGGATGGTGGCTTC
* * **
15296052 AATCTACCCCTCTGGATCAAGGGTAAAAGATTGGATTATGGCTTC
1 AATCTGCCCCTCTGGATTAAGGGTAAAAGATTGGATGGTGGCTTC
* * * *
15296097 AATTTGTCCCTCTGGA-TAAGAGGTAAAATACTGGATGGTGGCTTC
1 AATCTGCCCCTCTGGATTAAG-GGTAAAAGATTGGATGGTGGCTTC
** * * *
15296142 AATCTGCCCCTAAGGATTAAGGGTAAAAGATTGGATAGTAGCTTT
1 AATCTGCCCCTCTGGATTAAGGGTAAAAGATTGGATGGTGGCTTC
* * * * * ** *
15296187 AAGCTGCCCCTTTAGATTTAGGGATAAAAGATCGGATGGTAACTGC
1 AATCTGCCCCTCTGGATTAAGGG-TAAAAGATTGGATGGTGGCTTC
* * * * * *
15296233 AATCTACCCCTTTGAATTTAGGAGTAAAAGATCT-AATAGTGGCTTC
1 AATCTGCCCCTCTGGATTAAGG-GTAAAAGAT-TGGATGGTGGCTTC
** * *
15296279 AATCTGCCAATCTGGATTAGGGGTAAAAGATTGGATGGTGGTTTC
1 AATCTGCCCCTCTGGATTAAGGGTAAAAGATTGGATGGTGGCTTC
* * * * *
15296324 AACCTGCCACTCTGGATT-AGAGGTAAAAGATCGAATGATGGCTTC
1 AATCTGCCCCTCTGGATTAAG-GGTAAAAGATTGGATGGTGGCTTC
* * * * * *
15296369 AATTTGTCCTTCTAGATTAGGGGCAAAAGATTGGATGGTGGCTTC
1 AATCTGCCCCTCTGGATTAAGGGTAAAAGATTGGATGGTGGCTTC
* * * *
15296414 AATCTACCCCTTTGGATTTAGGGGTAAAAGATTGGATGGTGGCTTT
1 AATCTGCCCCTCTGGA-TTAAGGGTAAAAGATTGGATGGTGGCTTC
* * *
15296460 AATCTGCCCTTCTAGATTAAGGGTAAAATATTGGATGGTGGCTTC
1 AATCTGCCCCTCTGGATTAAGGGTAAAAGATTGGATGGTGGCTTC
* * * *
15296505 AAT-TCGCCTCTCTGGATTAGGGGTAAAATATTGGATGATGGCTTC
1 AATCT-GCCCCTCTGGATTAAGGGTAAAAGATTGGATGGTGGCTTC
** * *
15296550 AATCTATCCCTCTAGATTAGGGGTAAAAGATTGGAT
1 AATCTGCCCCTCTGGATTAAGGGTAAAAGATTGGAT
15296586 TTTGTGATGT
Statistics
Matches: 426, Mismatches: 97, Indels: 23
0.78 0.18 0.04
Matches are distributed among these distances:
44 6 0.01
45 295 0.69
46 124 0.29
47 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (45 bp):
AATCTGCCCCTCTGGATTAAGGGTAAAAGATTGGATGGTGGCTTC
Found at i:15296458 original size:181 final size:179
Alignment explanation
Indices: 15296006--15296585 Score: 589
Period size: 181 Copynumber: 3.2 Consensus size: 179
15295996 TTGTAACTTT
* * ** *
15296006 AATCTG-CCTCTCTGGATTTAGGGGTATAAGATTGGATAATGACTTCAATCTACCCCTCTGGA-T
1 AATCTGTCCT-TCTAGA-TTAGGGGTAAAAGATTGGATGGTGACTTCAATCTACCCCTTTGGATT
* * * * * * *
15296069 CAAGGGTAAAAGATTGGATTA-TGGCTTCAATTTGTCCCTCTGGATAAGAGGTAAAATACTGGAT
64 TAGGGGTAAAAGATTGGA-TAGTGGCTTCAATCTG-CCATCTGGATTAGGGGTAAAATATTGGAT
* ** * *
15296133 GGTGGCTTCAATCTGCCCCTAAGGATTA-AGGGTAAAAGATTGGAT-AGTAGCTTT
127 GGTGGCTTCAA-CTGCCACTCTGGATTAGA-GGTAAAAGATTGGATGA-TGGCTTC
* * * * * * *
15296187 AAGCTGCCCCTT-TAGATTTAGGGATAAAAGATCGGATGGTAACTGCAATCTACCCCTTTGAATT
1 AATCTG-TCCTTCTAGA-TTAGGGGTAAAAGATTGGATGGTGACTTCAATCTACCCCTTTGGATT
* * *
15296251 TAGGAGTAAAAGATCT-AATAGTGGCTTCAATCTGCCAATCTGGATTAGGGGTAAAAGATTGGAT
64 TAGGGGTAAAAGAT-TGGATAGTGGCTTCAATCTGCC-ATCTGGATTAGGGGTAAAATATTGGAT
* * *
15296315 GGTGGTTTCAACCTGCCACTCTGGATTAGAGGTAAAAGATCGAATGATGGCTTC
127 GGTGGCTTCAA-CTGCCACTCTGGATTAGAGGTAAAAGATTGGATGATGGCTTC
* * *
15296369 AATTTGTCCTTCTAGATTAGGGGCAAAAGATTGGATGGTGGCTTCAATCTACCCCTTTGGATTTA
1 AATCTGTCCTTCTAGATTAGGGGTAAAAGATTGGATGGTGACTTCAATCTACCCCTTTGGATTTA
* * * * *
15296434 GGGGTAAAAGATTGGATGGTGGCTTTAATCTGCCCTTCTAGATTAAGGGTAAAATATTGGATGGT
66 GGGGTAAAAGATTGGATAGTGGCTTCAATCTG-CCATCTGGATTAGGGGTAAAATATTGGATGGT
* * * *
15296499 GGCTTCAATTCGCCTCTCTGGATTAGGGGTAAAATATTGGATGATGGCTTC
130 GGCTTCAACT-GCCACTCTGGATTAGAGGTAAAAGATTGGATGATGGCTTC
* *
15296550 AATCTATCCCTCTAGATTAGGGGTAAAAGATTGGAT
1 AATCTGTCCTTCTAGATTAGGGGTAAAAGATTGGAT
15296586 TTTGTGATGT
Statistics
Matches: 328, Mismatches: 59, Indels: 24
0.80 0.14 0.06
Matches are distributed among these distances:
180 2 0.01
181 221 0.67
182 99 0.30
183 6 0.02
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (179 bp):
AATCTGTCCTTCTAGATTAGGGGTAAAAGATTGGATGGTGACTTCAATCTACCCCTTTGGATTTA
GGGGTAAAAGATTGGATAGTGGCTTCAATCTGCCATCTGGATTAGGGGTAAAATATTGGATGGTG
GCTTCAACTGCCACTCTGGATTAGAGGTAAAAGATTGGATGATGGCTTC
Found at i:15306867 original size:11 final size:11
Alignment explanation
Indices: 15306851--15306891 Score: 59
Period size: 11 Copynumber: 3.9 Consensus size: 11
15306841 ATGTGAGGAT
15306851 TTTATTTATTA
1 TTTATTTATTA
15306862 TTTATTTATTA
1 TTTATTTATTA
15306873 TTTA-TTATT-
1 TTTATTTATTA
*
15306882 TTTATGTATT
1 TTTATTTATT
15306892 TTTTTATGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
9 4 0.14
10 9 0.32
11 15 0.54
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (11 bp):
TTTATTTATTA
Found at i:15306894 original size:11 final size:11
Alignment explanation
Indices: 15306850--15306895 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
15306840 TATGTGAGGA
15306850 TTTTATTTATT
1 TTTTATTTATT
*
15306861 ATTTATTTATT
1 TTTTATTTATT
*
15306872 ATTTA-TTA-T
1 TTTTATTTATT
*
15306881 TTTTATGTATT
1 TTTTATTTATT
15306892 TTTT
1 TTTT
15306896 TATGAAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
9 5 0.17
10 5 0.17
11 20 0.67
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (11 bp):
TTTTATTTATT
Found at i:15307601 original size:18 final size:18
Alignment explanation
Indices: 15307578--15307629 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 18
15307568 TTCAAAAGTA
15307578 AAGCATACTGGCTCGTCT
1 AAGCATACTGGCTCGTCT
* *
15307596 AAGCATACTGGCTCATTT
1 AAGCATACTGGCTCGTCT
* *
15307614 GAGCATACTCGCTCGT
1 AAGCATACTGGCTCGT
15307630 AAGAGCGTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (18 bp):
AAGCATACTGGCTCGTCT
Found at i:15308552 original size:19 final size:19
Alignment explanation
Indices: 15308528--15308564 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
15308518 CAGGTACCGA
15308528 TAGAAGTCTCCCAAAACTG
1 TAGAAGTCTCCCAAAACTG
15308547 TAGAAGTCTCCCAAAACT
1 TAGAAGTCTCCCAAAACT
15308565 ATAAAAATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.27, G:0.14, T:0.22
Consensus pattern (19 bp):
TAGAAGTCTCCCAAAACTG
Found at i:15318573 original size:13 final size:13
Alignment explanation
Indices: 15318539--15318588 Score: 55
Period size: 13 Copynumber: 3.6 Consensus size: 13
15318529 AAATGATATA
15318539 AAAATAAATAACAAC
1 AAAATAAAT-A-AAC
*
15318554 AAGATAAATAAAC
1 AAAATAAATAAAC
*
15318567 AAAATAAATAAATA
1 AAAATAAATAAA-C
15318581 AAAATAAA
1 AAAATAAA
15318589 AATTAAATGC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
13 14 0.45
14 9 0.29
15 8 0.26
ACGTcount: A:0.76, C:0.06, G:0.02, T:0.16
Consensus pattern (13 bp):
AAAATAAATAAAC
Found at i:15318596 original size:17 final size:17
Alignment explanation
Indices: 15318540--15318582 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
15318530 AATGATATAA
*
15318540 AAATAAAT-AACAACA-
1 AAATAAATAAACAAAAT
*
15318555 AGATAAATAAACAAAAT
1 AAATAAATAAACAAAAT
15318572 AAATAAATAAA
1 AAATAAATAAA
15318583 AATAAAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 7 0.30
16 6 0.26
17 10 0.43
ACGTcount: A:0.74, C:0.07, G:0.02, T:0.16
Consensus pattern (17 bp):
AAATAAATAAACAAAAT
Found at i:15318669 original size:15 final size:15
Alignment explanation
Indices: 15318635--15318676 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
15318625 ATTAGGCATG
*
15318635 AAAATAAAT-GACAA
1 AAAATAAATAAACAA
15318649 ATAAATAAATAAACAA
1 A-AAATAAATAAACAA
*
15318665 AAAATTAATAAA
1 AAAATAAATAAA
15318677 TTAAATGTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 1 0.04
15 18 0.75
16 5 0.21
ACGTcount: A:0.74, C:0.05, G:0.02, T:0.19
Consensus pattern (15 bp):
AAAATAAATAAACAA
Found at i:15318975 original size:24 final size:27
Alignment explanation
Indices: 15318916--15318976 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 27
15318906 GTTTTGAATT
*
15318916 TTCTTTGAATGTATGTGTCAAAAAAAA
1 TTCTTTGAATGTATGTATCAAAAAAAA
* *
15318943 TTCTCTGAAT-TTTGTAT-AAAAAAAA
1 TTCTTTGAATGTATGTATCAAAAAAAA
15318968 -TCTTTGAAT
1 TTCTTTGAAT
15318977 CTTATTACTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 8 0.27
25 8 0.27
26 5 0.17
27 9 0.30
ACGTcount: A:0.39, C:0.08, G:0.11, T:0.41
Consensus pattern (27 bp):
TTCTTTGAATGTATGTATCAAAAAAAA
Found at i:15320724 original size:11 final size:11
Alignment explanation
Indices: 15320691--15320724 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
15320681 ATATAGGTTC
15320691 TTATTTTTATT
1 TTATTTTTATT
* *
15320702 CTATTTTCATT
1 TTATTTTTATT
15320713 TTATTTTTATT
1 TTATTTTTATT
15320724 T
1 T
15320725 AACTTTGGTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (11 bp):
TTATTTTTATT
Found at i:15330097 original size:36 final size:36
Alignment explanation
Indices: 15330042--15330147 Score: 90
Period size: 36 Copynumber: 2.9 Consensus size: 36
15330032 AGTTCGTAGT
** * *
15330042 TAATATAGCTCATATATATACCATAGTTCACACATA
1 TAATATAGCTCGCACATATAACATAGTTCACACATA
* * **
15330078 T-ATCTTAGCTCGCACATATAATATAACTCACACATA
1 TAAT-ATAGCTCGCACATATAACATAGTTCACACATA
* *
15330114 TAATATAGCTCGCATA-AAAAGCATAGTTCACACA
1 TAATATAGCTCGCACATATAA-CATAGTTCACACA
15330148 CACATATCAT
Statistics
Matches: 53, Mismatches: 14, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
35 5 0.09
36 46 0.87
37 2 0.04
ACGTcount: A:0.42, C:0.22, G:0.08, T:0.29
Consensus pattern (36 bp):
TAATATAGCTCGCACATATAACATAGTTCACACATA
Found at i:15333638 original size:24 final size:24
Alignment explanation
Indices: 15333605--15333651 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
15333595 GTTAAGAGTA
*
15333605 AAAACTGTCAGTGTAAATGTAATAT
1 AAAACTGTCAGAGTAAAT-TAATAT
15333630 AAAA-TGTCAGAGTAAATTAATA
1 AAAACTGTCAGAGTAAATTAATA
15333652 AAAGATAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 5 0.24
24 12 0.57
25 4 0.19
ACGTcount: A:0.49, C:0.06, G:0.15, T:0.30
Consensus pattern (24 bp):
AAAACTGTCAGAGTAAATTAATAT
Found at i:15335849 original size:17 final size:17
Alignment explanation
Indices: 15335829--15335890 Score: 56
Period size: 17 Copynumber: 3.6 Consensus size: 17
15335819 AAATGCAACT
*
15335829 ACAATTCAAATGCTAGA-
1 ACAATTAAAATGC-AGAG
*
15335846 ACAAATAAAATGCAGAG
1 ACAATTAAAATGCAGAG
*
15335863 ACAATAAAAAATGCA-ATG
1 ACAAT-TAAAATGCAGA-G
15335881 ACAATTAAAA
1 ACAATTAAAA
15335891 GAAATGCATG
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
16 3 0.08
17 20 0.54
18 14 0.38
ACGTcount: A:0.58, C:0.13, G:0.11, T:0.18
Consensus pattern (17 bp):
ACAATTAAAATGCAGAG
Found at i:15335875 original size:18 final size:19
Alignment explanation
Indices: 15335852--15335890 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
15335842 TAGAACAAAT
15335852 AAAATGCAGA-GACAA-TAA
1 AAAATGCA-ATGACAATTAA
15335870 AAAATGCAATGACAATTAA
1 AAAATGCAATGACAATTAA
15335889 AA
1 AA
15335891 GAAATGCATG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 1 0.05
18 13 0.68
19 5 0.26
ACGTcount: A:0.62, C:0.10, G:0.13, T:0.15
Consensus pattern (19 bp):
AAAATGCAATGACAATTAA
Found at i:15342462 original size:18 final size:18
Alignment explanation
Indices: 15342418--15342463 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
15342408 AACTTGTGGA
15342418 TGCATCTGATTATATGAC
1 TGCATCTGATTATATGAC
* *
15342436 TGCACCTGATTCTATGA-
1 TGCATCTGATTATATGAC
15342453 TCGCATCTGAT
1 T-GCATCTGAT
15342464 CAAGTTGCGC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 1 0.04
18 23 0.96
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.37
Consensus pattern (18 bp):
TGCATCTGATTATATGAC
Found at i:15344101 original size:24 final size:24
Alignment explanation
Indices: 15344068--15344114 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
15344058 GTTAAGAGTA
*
15344068 AAAACTGTCAGTGCAAATGTAATAT
1 AAAACTGTCAGAGCAAAT-TAATAT
15344093 AAAA-TGTCAGAGCAAATTAATA
1 AAAACTGTCAGAGCAAATTAATA
15344115 AAAGATAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 5 0.24
24 12 0.57
25 4 0.19
ACGTcount: A:0.49, C:0.11, G:0.15, T:0.26
Consensus pattern (24 bp):
AAAACTGTCAGAGCAAATTAATAT
Found at i:15345561 original size:35 final size:36
Alignment explanation
Indices: 15345511--15345615 Score: 131
Period size: 35 Copynumber: 2.9 Consensus size: 36
15345501 AGCAACAGGC
*
15345511 ATGACCTTTGGGTCAATAGGGAG-AAAATGAGCATA
1 ATGACCTTTGGGTCAATAGGGAGTAAAACGAGCATA
* *
15345546 ATGACCTTTGTGTCAATAGGGAGTAAAACGAGCATC
1 ATGACCTTTGGGTCAATAGGGAGTAAAACGAGCATA
* * *
15345582 ATGACCCTTTTGGATCAACAAGGAGTAAAACGAG
1 ATGA-CC-TTTGGGTCAATAGGGAGTAAAACGAG
15345616 TAACGATCAT
Statistics
Matches: 60, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
35 22 0.37
36 14 0.23
37 2 0.03
38 22 0.37
ACGTcount: A:0.36, C:0.15, G:0.26, T:0.23
Consensus pattern (36 bp):
ATGACCTTTGGGTCAATAGGGAGTAAAACGAGCATA
Found at i:15346298 original size:21 final size:21
Alignment explanation
Indices: 15346272--15346323 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
15346262 GGAGTTTTTA
*
15346272 GTATCGATAGTCGTATAACTT
1 GTATCGATAGTCGCATAACTT
* * * *
15346293 GTATCGGTAGTTGCCTCACTT
1 GTATCGATAGTCGCATAACTT
15346314 GTATCGATAG
1 GTATCGATAG
15346324 AACTGCTAAG
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.37
Consensus pattern (21 bp):
GTATCGATAGTCGCATAACTT
Found at i:15350700 original size:3 final size:3
Alignment explanation
Indices: 15350692--15350721 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
15350682 TTTTTACAAC
15350692 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
15350722 TAAAAACCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:15353375 original size:2 final size:2
Alignment explanation
Indices: 15353368--15353395 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
15353358 AAAACAAAAT
15353368 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
15353396 GTTGATAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15357857 original size:20 final size:19
Alignment explanation
Indices: 15357832--15357872 Score: 64
Period size: 20 Copynumber: 2.1 Consensus size: 19
15357822 TGTCATTTTT
15357832 TTTGCCCTCTTTCTTTGCTC
1 TTTGCCCTCTTTCTTT-CTC
*
15357852 TTTGCCCTTTTTCTTTCTC
1 TTTGCCCTCTTTCTTTCTC
15357871 TT
1 TT
15357873 AATAGAGTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.00, C:0.32, G:0.07, T:0.61
Consensus pattern (19 bp):
TTTGCCCTCTTTCTTTCTC
Found at i:15361770 original size:79 final size:79
Alignment explanation
Indices: 15361537--15361900 Score: 424
Period size: 79 Copynumber: 4.6 Consensus size: 79
15361527 ATGATTTTGG
* * *
15361537 CACCCAGTGCCTAGCGGATAAACCACAAAAGTGAGCACAACTCTAGTTTGATTAACCAACAACAT
1 CACCCAGTGCCTAGCGGATAAACCACAAATGTGAGCCCAACTCTAGTTGGATTAACCAACAACAT
* *
15361602 CCGTCAAATTTTGG
66 CCGTCAAATCTTGA
* * *
15361616 CACCTAGTACCTAGCGGATAAAACCACAAATGTGAGCTCAACTCTAGTTGGATTAACCAACAACA
1 CACCCAGTGCCTAGCGGAT-AAACCACAAATGTGAGCCCAACTCTAGTTGGATTAACCAACAACA
15361681 TCCGTCAAATCTTGA
65 TCCGTCAAATCTTGA
* * * * * *
15361696 TACCCAGTGTCTAGCTGATAAATCGA-AAATGTGACCCCAACTCTAGTTGGATTAACCAACAAAA
1 CACCCAGTGCCTAGCGGATAAA-CCACAAATGTGAGCCCAACTCTAGTTGGATTAACCAACAACA
* * *
15361760 TCTGTTAAATCTTGG
65 TCCGTCAAATCTTGA
* * * ** ** *
15361775 CACCTAGTGCCTAGCGAATAAACCGCAAAAATGAGCCCAGTTCTAGTTGGATTAACCAACAATAT
1 CACCCAGTGCCTAGCGGATAAACCACAAATGTGAGCCCAACTCTAGTTGGATTAACCAACAACAT
*
15361840 CCGTCAAATCCTGA
66 CCGTCAAATCTTGA
* * * * *
15361854 CACCCAGTGCCTAACGGATAAACCGCAAATATGAGACCAGCTCTAGT
1 CACCCAGTGCCTAGCGGATAAACCACAAATGTGAGCCCAACTCTAGT
15361901 CAGTTAAACT
Statistics
Matches: 240, Mismatches: 42, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
78 1 0.00
79 168 0.70
80 71 0.30
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.23
Consensus pattern (79 bp):
CACCCAGTGCCTAGCGGATAAACCACAAATGTGAGCCCAACTCTAGTTGGATTAACCAACAACAT
CCGTCAAATCTTGA
Found at i:15363837 original size:36 final size:36
Alignment explanation
Indices: 15363785--15363856 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
15363775 CTTTCTCATA
15363785 ACAATAGTGGTCTATTTATTTAATAAGTCCATTACT
1 ACAATAGTGGTCTATTTATTTAATAAGTCCATTACT
* *
15363821 ACAATAGTGGTTTATTTATTTAATAAGTCCGTTACT
1 ACAATAGTGGTCTATTTATTTAATAAGTCCATTACT
15363857 CTAATTTCTC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.43
Consensus pattern (36 bp):
ACAATAGTGGTCTATTTATTTAATAAGTCCATTACT
Found at i:15365374 original size:10 final size:10
Alignment explanation
Indices: 15365282--15365374 Score: 54
Period size: 10 Copynumber: 9.4 Consensus size: 10
15365272 TTAAGAATGT
15365282 TATTAAATTA
1 TATTAAATTA
* *
15365292 TA-TATTATTT
1 TATTA-AATTA
15365302 TATTAAATTA
1 TATTAAATTA
*
15365312 TATTTAA-TA
1 TATTAAATTA
15365321 -A-T-AATTA
1 TATTAAATTA
*
15365328 TGTTAAATTA
1 TATTAAATTA
15365338 TGATTAAATTA
1 T-ATTAAATTA
*
15365349 T-TTATTATTTA
1 TATTA--AATTA
15365360 TTATTAAATTA
1 -TATTAAATTA
15365371 TATT
1 TATT
15365375 TAATAATAAT
Statistics
Matches: 63, Mismatches: 9, Indels: 22
0.67 0.10 0.23
Matches are distributed among these distances:
6 2 0.03
7 3 0.05
8 1 0.02
9 8 0.13
10 26 0.41
11 19 0.30
12 1 0.02
13 3 0.05
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (10 bp):
TATTAAATTA
Found at i:15365393 original size:59 final size:57
Alignment explanation
Indices: 15365234--15365393 Score: 171
Period size: 59 Copynumber: 2.6 Consensus size: 57
15365224 ATATTATGAT
*
15365234 TTTTATT-AATTCATATTTTAATAATAATTATTATTATATTAAGAATGTTATTAAATTATATATT
1 TTTTATTAAATT-ATA-TTTAATAATAATTA-TATTAAATT----ATG--ATTAAATTATATATT
15365298 A
57 A
* *
15365299 TTTTATTAAATTATATTTAATAATAATTATGTTAAATTATGATTAAATTATTTATTA
1 TTTTATTAAATTATATTTAATAATAATTATATTAAATTATGATTAAATTATATATTA
15365356 TTTATTATTAAATTATATTTAATAATAATCT-TATTAAA
1 -TT-TTATTAAATTATATTTAATAATAAT-TATATTAAA
15365394 ATTTAATAAC
Statistics
Matches: 87, Mismatches: 4, Indels: 14
0.83 0.04 0.13
Matches are distributed among these distances:
57 15 0.17
58 2 0.02
59 34 0.39
60 1 0.01
63 7 0.08
64 14 0.16
65 10 0.11
66 4 0.05
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (57 bp):
TTTTATTAAATTATATTTAATAATAATTATATTAAATTATGATTAAATTATATATTA
Found at i:15370720 original size:21 final size:21
Alignment explanation
Indices: 15370671--15370721 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
15370661 AATTCCTTGT
15370671 ATTGCCTGAATTTTCTCCTCCA
1 ATTGCCT-AATTTTCTCCTCCA
*
15370693 ATAGCCTATATTTT-TCCTCCA
1 ATTGCCTA-ATTTTCTCCTCCA
*
15370714 TTTGCCTA
1 ATTGCCTA
15370722 GGGAGGTCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 14 0.56
22 11 0.44
ACGTcount: A:0.20, C:0.29, G:0.08, T:0.43
Consensus pattern (21 bp):
ATTGCCTAATTTTCTCCTCCA
Found at i:15375467 original size:59 final size:58
Alignment explanation
Indices: 15375390--15375707 Score: 410
Period size: 59 Copynumber: 5.4 Consensus size: 58
15375380 AATTAGGGTC
* * *
15375390 AAAATGGAATTTTGGAAAGTTTGGGGGTAAAATGGTAATTTTTGGTTAAACTGGGGTTA
1 AAAATGG-GTTTTGGAAAGTTTGGGGGTAAAATGGTAATTTTTGGTGAAACTGAGGTTA
* * *
15375449 AAAATAGGGTTTTTGAAAGTTTGAGGGTAAAATTGTAATTTTTGGTGAAACTGAGGTTA
1 AAAAT-GGGTTTTGGAAAGTTTGGGGGTAAAATGGTAATTTTTGGTGAAACTGAGGTTA
* *
15375508 AAAATGGGATTTTGGAAAGTTCGGGGGTAAAATGATAATTTTTGGTGAAA-TCGAGGTT-
1 AAAATGGG-TTTTGGAAAGTTTGGGGGTAAAATGGTAATTTTTGGTGAAACT-GAGGTTA
* *
15375566 AAAATGGAATTTTGGAAAGTTTGGGGGT-AAATGGTAATTTTTGGTGAAATTGAGGTT-
1 AAAATGG-GTTTTGGAAAGTTTGGGGGTAAAATGGTAATTTTTGGTGAAACTGAGGTTA
* * * *
15375623 ATAATGGAATTTTGGAAAGTTTGGGGGTAAAATGGTAATTTTTGGTGAAACCGGGGTTA
1 AAAATGG-GTTTTGGAAAGTTTGGGGGTAAAATGGTAATTTTTGGTGAAACTGAGGTTA
*
15375682 AAAATGGGATTTTGGAAAGCTTGGGG
1 AAAATGGG-TTTTGGAAAGTTTGGGG
15375708 ACTAGAGAGC
Statistics
Matches: 230, Mismatches: 21, Indels: 16
0.86 0.08 0.06
Matches are distributed among these distances:
57 53 0.23
58 56 0.24
59 119 0.52
60 2 0.01
ACGTcount: A:0.32, C:0.02, G:0.31, T:0.35
Consensus pattern (58 bp):
AAAATGGGTTTTGGAAAGTTTGGGGGTAAAATGGTAATTTTTGGTGAAACTGAGGTTA
Found at i:15377444 original size:18 final size:17
Alignment explanation
Indices: 15377373--15377452 Score: 72
Period size: 17 Copynumber: 4.5 Consensus size: 17
15377363 TTGGGTTTTT
* *
15377373 AATTTAAATTTTAATTA
1 AATTTAAATTTAAAATA
15377390 AATTTAAATTTATTTCAAAT-
1 AATTTAAATTTA----AAATA
*
15377410 ATTTTAAATTTAAAATA
1 AATTTAAATTTAAAATA
*
15377427 AATTTATATTTAATAATA
1 AATTTAAATTTAA-AATA
15377445 AATTTAAA
1 AATTTAAA
15377453 CCTATTTAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
16 4 0.08
17 22 0.43
18 11 0.22
20 11 0.22
21 3 0.06
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (17 bp):
AATTTAAATTTAAAATA
Found at i:15379238 original size:14 final size:14
Alignment explanation
Indices: 15379219--15379257 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 14
15379209 AAAAAAATTC
15379219 AAGTCCAAACTTA-A
1 AAGTCCAAA-TTACA
15379233 AAGTCCAAATTACA
1 AAGTCCAAATTACA
15379247 AAGTTCCAAAT
1 AAG-TCCAAAT
15379258 ACCCAACTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 3 0.13
14 13 0.57
15 7 0.30
ACGTcount: A:0.49, C:0.21, G:0.08, T:0.23
Consensus pattern (14 bp):
AAGTCCAAATTACA
Found at i:15399360 original size:2 final size:2
Alignment explanation
Indices: 15399353--15399395 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
15399343 TCCACAGTTA
15399353 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
15399395 A
1 A
15399396 AGTAAATATG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:15406186 original size:56 final size:57
Alignment explanation
Indices: 15406121--15406227 Score: 171
Period size: 56 Copynumber: 1.9 Consensus size: 57
15406111 TATGATTCTG
* *
15406121 GAAAAAATAATTTTGACGAGATGTGTTCT-AAAAATAATTTTGACGAGATGGGTTTT
1 GAAAAAATAATTTTGACGAGATATGTTATGAAAAATAATTTTGACGAGATGGGTTTT
* *
15406177 GAAAAAATAATTTTGACGTGATATGTTATGAAAAATTATTTTGACGAGATG
1 GAAAAAATAATTTTGACGAGATATGTTATGAAAAATAATTTTGACGAGATG
15406228 AATTTTGTTC
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
56 26 0.57
57 20 0.43
ACGTcount: A:0.39, C:0.05, G:0.21, T:0.36
Consensus pattern (57 bp):
GAAAAAATAATTTTGACGAGATATGTTATGAAAAATAATTTTGACGAGATGGGTTTT
Found at i:15406192 original size:29 final size:28
Alignment explanation
Indices: 15406123--15406227 Score: 140
Period size: 27 Copynumber: 3.8 Consensus size: 28
15406113 TGATTCTGGA
*
15406123 AAAAATAATTTTGACGAGATGTGTTCT-
1 AAAAATAATTTTGACGAGATGTGTTATG
* *
15406150 AAAAATAATTTTGACGAGATGGGTTTTG
1 AAAAATAATTTTGACGAGATGTGTTATG
* *
15406178 AAAAAATAATTTTGACGTGATATGTTATG
1 -AAAAATAATTTTGACGAGATGTGTTATG
*
15406207 AAAAATTATTTTGACGAGATG
1 AAAAATAATTTTGACGAGATG
15406228 AATTTTGTTC
Statistics
Matches: 67, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 25 0.37
28 18 0.27
29 24 0.36
ACGTcount: A:0.39, C:0.05, G:0.20, T:0.36
Consensus pattern (28 bp):
AAAAATAATTTTGACGAGATGTGTTATG
Found at i:15408098 original size:32 final size:32
Alignment explanation
Indices: 15408062--15408125 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
15408052 ACTTTAAAAA
15408062 AATTAGGGGTTTCAACCATCCTT-TTCAAAGTC
1 AATTAGGGGTTTCAACCAT-CTTCTTCAAAGTC
15408094 AATTAGGGGTTTCAACCATCTTCTTCAAAGTC
1 AATTAGGGGTTTCAACCATCTTCTTCAAAGTC
15408126 CATCTCCTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
31 3 0.10
32 28 0.90
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (32 bp):
AATTAGGGGTTTCAACCATCTTCTTCAAAGTC
Found at i:15413915 original size:16 final size:18
Alignment explanation
Indices: 15413876--15413909 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
15413866 TAAATTTATA
15413876 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
15413893 ATTTTTATATATTATGT
1 ATATTTATATATTATGT
15413910 AATTTAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:15413958 original size:19 final size:17
Alignment explanation
Indices: 15413936--15413974 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
15413926 AAAAATAAAC
15413936 TTATACTAAATATACAATA
1 TTATACT-AATATA-AATA
*
15413955 TTATTCTAATATAAATA
1 TTATACTAATATAAATA
15413972 TTA
1 TTA
15413975 AAATAATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.37
18 6 0.32
19 6 0.32
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.44
Consensus pattern (17 bp):
TTATACTAATATAAATA
Found at i:15414028 original size:18 final size:17
Alignment explanation
Indices: 15413996--15414029 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
15413986 AAATGACTAT
*
15413996 ATAAAAAATTTTAATAA
1 ATAAAAAATTATAATAA
15414013 ATAAAAAATATATAATA
1 ATAAAAAAT-TATAATA
15414030 TTATCAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
ATAAAAAATTATAATAA
Found at i:15415645 original size:6 final size:6
Alignment explanation
Indices: 15415634--15415680 Score: 80
Period size: 6 Copynumber: 8.2 Consensus size: 6
15415624 AATTAAATTT
15415634 ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA A-TTTA ATTTT- ATTTTA
1 ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA
15415680 A
1 A
15415681 ATTCAAAAAG
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
5 10 0.26
6 29 0.74
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (6 bp):
ATTTTA
Found at i:15417520 original size:30 final size:30
Alignment explanation
Indices: 15417485--15417620 Score: 177
Period size: 30 Copynumber: 4.6 Consensus size: 30
15417475 GTAGGTCTCT
15417485 AAACTTTTTGAAAATTATATTTTGACCCCA
1 AAACTTTTTGAAAATTATATTTTGACCCCA
* *
15417515 AAACTTTCTGGAAATTATATTTTGACCCCA
1 AAACTTTTTGAAAATTATATTTTGACCCCA
*
15417545 AAACTTTTCT-AAGATTATATTTTGACCCCA
1 AAACTTTT-TGAAAATTATATTTTGACCCCA
* * *
15417575 AAACTTTTTGAAAATTACATTTTAACCCTA
1 AAACTTTTTGAAAATTATATTTTGACCCCA
**
15417605 AAA-TTTTCCAAAATTA
1 AAACTTTTTGAAAATTA
15417621 CCATTTTACC
Statistics
Matches: 93, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
29 12 0.13
30 80 0.86
31 1 0.01
ACGTcount: A:0.38, C:0.18, G:0.06, T:0.39
Consensus pattern (30 bp):
AAACTTTTTGAAAATTATATTTTGACCCCA
Found at i:15417646 original size:29 final size:29
Alignment explanation
Indices: 15417614--15417715 Score: 127
Period size: 29 Copynumber: 3.5 Consensus size: 29
15417604 AAAATTTTCC
15417614 AAAATTACCATTTTACCCCCGAATCTTCA
1 AAAATTACCATTTTACCCCCGAATCTTCA
* * * *
15417643 AAAAAT-CCATTTTTAACCCCGATTTCATCA
1 AAAATTACCA-TTTTACCCCCGA-ATCTTCA
15417673 AAAATTACCATTTTACCCCCGAATCTTCA
1 AAAATTACCATTTTACCCCCGAATCTTCA
*
15417702 AAAA-TATCATTTTA
1 AAAATTACCATTTTA
15417716 ATCCCGATTT
Statistics
Matches: 61, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
28 12 0.20
29 25 0.41
30 21 0.34
31 3 0.05
ACGTcount: A:0.37, C:0.26, G:0.03, T:0.33
Consensus pattern (29 bp):
AAAATTACCATTTTACCCCCGAATCTTCA
Found at i:15417648 original size:30 final size:30
Alignment explanation
Indices: 15417614--15417705 Score: 120
Period size: 30 Copynumber: 3.1 Consensus size: 30
15417604 AAAATTTTCC
15417614 AAAATTACCATTTTACCCCCGAATCTTCAA
1 AAAATTACCATTTTACCCCCGAATCTTCAA
*
15417644 AAAA-T-CCATTTTTAACCCCG-AT-TTCATCA
1 AAAATTACCA-TTTTACCCCCGAATCTTCA--A
15417673 AAAATTACCATTTTACCCCCGAATCTTCAA
1 AAAATTACCATTTTACCCCCGAATCTTCAA
15417703 AAA
1 AAA
15417706 TATCATTTTA
Statistics
Matches: 53, Mismatches: 2, Indels: 14
0.77 0.03 0.20
Matches are distributed among these distances:
27 4 0.08
28 5 0.09
29 16 0.30
30 19 0.36
31 5 0.09
32 4 0.08
ACGTcount: A:0.38, C:0.28, G:0.03, T:0.30
Consensus pattern (30 bp):
AAAATTACCATTTTACCCCCGAATCTTCAA
Found at i:15417657 original size:59 final size:58
Alignment explanation
Indices: 15417594--15417778 Score: 182
Period size: 59 Copynumber: 3.2 Consensus size: 58
15417584 GAAAATTACA
*
15417594 TTTTAACCCTAAAATTT-TCCAAAATTACCATTTTACCCCCGAATCTTCAAAAA-ATCCAT
1 TTTTAACCC--AAATTTATCAAAAATTACCATTTTACCCCCGAATCTTCAAAAATAT-CAT
**
15417653 TTTTAACCCCGATTTCATCAAAAATTACCATTTTACCCCCGAATCTTCAAAAATATCA-
1 TTTTAACCCAAATTT-ATCAAAAATTACCATTTTACCCCCGAATCTTCAAAAATATCAT
* * * * * * *
15417711 TTTTAATCCC-GATTTCACCAAAAATTACTATTTTGA-CCTCGAATTTTCTAAAATTTCAT
1 TTTTAA-CCCAAATTT-ATCAAAAATTACCATTTT-ACCCCCGAATCTTCAAAAATATCAT
15417770 TTTTAACCC
1 TTTTAACCC
15417779 CGATTTCACC
Statistics
Matches: 111, Mismatches: 9, Indels: 13
0.83 0.07 0.10
Matches are distributed among these distances:
57 4 0.04
58 49 0.44
59 56 0.50
60 2 0.02
ACGTcount: A:0.35, C:0.25, G:0.03, T:0.37
Consensus pattern (58 bp):
TTTTAACCCAAATTTATCAAAAATTACCATTTTACCCCCGAATCTTCAAAAATATCAT
Found at i:15417722 original size:58 final size:58
Alignment explanation
Indices: 15417614--15417797 Score: 248
Period size: 58 Copynumber: 3.2 Consensus size: 58
15417604 AAAATTTTCC
15417614 AAAATTACCATTTTACCCCCGAATCTTCAAAAA-ATCCATTTTTAACCCCGATTTCATCA
1 AAAATTACCATTTTACCCCCGAATCTTCAAAAATAT-CATTTTTAACCCCGATTTCA-CA
*
15417673 AAAATTACCATTTTACCCCCGAATCTTCAAAAATATCA-TTTTAATCCCGATTTCACCA
1 AAAATTACCATTTTACCCCCGAATCTTCAAAAATATCATTTTTAACCCCGATTTCA-CA
* * * * * *
15417731 AAAATTACTATTTTGA-CCTCGAATTTTCTAAAATTTCATTTTTAACCCCGATTTCACC
1 AAAATTACCATTTT-ACCCCCGAATCTTCAAAAATATCATTTTTAACCCCGATTTCACA
15417789 AAAATTACC
1 AAAATTACC
15417798 CTTTCGCCCC
Statistics
Matches: 112, Mismatches: 10, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
58 58 0.52
59 52 0.46
60 2 0.02
ACGTcount: A:0.35, C:0.26, G:0.04, T:0.35
Consensus pattern (58 bp):
AAAATTACCATTTTACCCCCGAATCTTCAAAAATATCATTTTTAACCCCGATTTCACA
Found at i:15417732 original size:29 final size:29
Alignment explanation
Indices: 15417613--15417797 Score: 121
Period size: 29 Copynumber: 6.3 Consensus size: 29
15417603 TAAAATTTTC
* *
15417613 CAAAATTACCATTTTACCCCCGAATCTTCA-
1 CAAAAATACCATTTTAACCCCG-AT-TTCAT
15417643 -AAAAAT-CCATTTTTAACCCCGATTTCAT
1 CAAAAATACCA-TTTTAACCCCGATTTCAT
* * *
15417671 CAAAAATTACCATTTTACCCCCGA-ATCTT
1 CAAAAA-TACCATTTTAACCCCGATTTCAT
* * *
15417700 CAAAAATATCATTTTAATCCCGATTTCAC
1 CAAAAATACCATTTTAACCCCGATTTCAT
* * *
15417729 CAAAAATTACTATTTTGACCTCGAATTT--T
1 CAAAAA-TACCATTTTAACCCCG-ATTTCAT
* ** *
15417758 CTAAAATTTCATTTTTAACCCCGATTTCAC
1 CAAAAATACCA-TTTTAACCCCGATTTCAT
*
15417788 CAAAATTACC
1 CAAAAATACC
15417798 CTTTCGCCCC
Statistics
Matches: 116, Mismatches: 28, Indels: 22
0.70 0.17 0.13
Matches are distributed among these distances:
27 4 0.03
28 25 0.22
29 51 0.44
30 29 0.25
31 7 0.06
ACGTcount: A:0.35, C:0.26, G:0.04, T:0.35
Consensus pattern (29 bp):
CAAAAATACCATTTTAACCCCGATTTCAT
Found at i:15417832 original size:117 final size:117
Alignment explanation
Indices: 15417614--15417841 Score: 262
Period size: 117 Copynumber: 1.9 Consensus size: 117
15417604 AAAATTTTCC
15417614 AAAATTACCATTTTACCCCCGAATCTTCAAAAAATCCATTTTTAACCCCGATTTCATCAAAAATT
1 AAAATTACCATTTTACCCCCGAATCTTCAAAAAATCCATTTTTAACCCCGATTTCATCAAAAATT
* * * *
15417679 ACCATTTTACCCCCGAATCTTCAAAAATATCATTTTAATCCCGATTTCACCA
66 ACCATTTCACCCCCGAATATCCAAAAACATCATTTTAATCCCGATTTCACCA
* * * * * * *
15417731 AAAATTACTATTTTGA-CCTCGAATTTTCTAAAATTTCATTTTTAACCCCGATTTCA-CCAAAAT
1 AAAATTACCATTTT-ACCCCCGAATCTTCAAAAAATCCATTTTTAACCCCGATTTCATCAAAAAT
* * * ** * *
15417794 TACCCTTTCGCCCCTGGGTATCCGAAATACATCGTTTTAATCCCGATT
65 TACCATTTCACCCCCGAATATCC-AAAAACATCATTTTAATCCCGATT
15417842 GCATCATTTT
Statistics
Matches: 91, Mismatches: 18, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
116 21 0.23
117 69 0.76
118 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.35
Consensus pattern (117 bp):
AAAATTACCATTTTACCCCCGAATCTTCAAAAAATCCATTTTTAACCCCGATTTCATCAAAAATT
ACCATTTCACCCCCGAATATCCAAAAACATCATTTTAATCCCGATTTCACCA
Found at i:15429754 original size:92 final size:92
Alignment explanation
Indices: 15429503--15430223 Score: 1058
Period size: 92 Copynumber: 7.9 Consensus size: 92
15429493 AGATCAACCA
15429503 AACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCTGAA
1 AACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCTGAA
15429568 ATTGAAGTAAGAGTAAGAAGAAGGACC
66 ATTGAAGTAAGAGTAAGAAGAAGGACC
* *
15429595 AACATC-TTTTCCTATCCTCTTGAAATTGAAGTAAAGTTGAATAACAAGCCTTCGTCCCTCTGAA
1 AACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCTGAA
15429659 ATTGAAGTAAGAGTAAGAAGAAGGACC
66 ATTGAAGTAAGAGTAAGAAGAAGGACC
*
15429686 AACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCCGAA
1 AACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCTGAA
*
15429751 ATTGAAGTAAGAGTAAGAAGTAGGACC
66 ATTGAAGTAAGAGTAAGAAGAAGGACC
* * *
15429778 AACGTCATTTTCATATCCTCTTGAAATTGAACTAAAGCTGGATAACAAGCCTTCGTCCCTCTGAA
1 AACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCTGAA
*
15429843 ATTGAAGTAAGAGT---AAGAAGGACT
66 ATTGAAGTAAGAGTAAGAAGAAGGACC
* * ** *
15429867 AACATCATTTTCCTATTCTCTTGAAATTTAAGTAAAGCAAGATAACAAGCCTCCGTCCCTCTGAA
1 AACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCTGAA
15429932 ATTGAAGTAAGAGTAAGAAGAAGGACC
66 ATTGAAGTAAGAGTAAGAAGAAGGACC
* * * ** * *
15429959 AACATC-TTTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATATCAAGCTTTTATCTCTCTGGA
1 AACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCTGAA
* * *
15430023 ATTGAAGTAGGAGTAAGATGAAGCACC
66 ATTGAAGTAAGAGTAAGAAGAAGGACC
* *
15430050 AATATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAACCTTCGTCCCTCTGAA
1 AACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCTGAA
* * * *
15430115 ATTGAAGTAAAAGCAAGATGAAGCACC
66 ATTGAAGTAAGAGTAAGAAGAAGGACC
* * * * * ** *
15430142 GACATC-TTTCCCTATCCTCTTGAAATTGAAGTAGAGCTAGATATCAAGCCTTTATCTCTCTGAA
1 AACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCTGAA
*
15430206 ATTGAAGTAAGAGCAAGA
66 ATTGAAGTAAGAGTAAGA
15430224 TAAAACCCCG
Statistics
Matches: 565, Mismatches: 59, Indels: 11
0.89 0.09 0.02
Matches are distributed among these distances:
89 79 0.14
91 231 0.41
92 255 0.45
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (92 bp):
AACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCTGAA
ATTGAAGTAAGAGTAAGAAGAAGGACC
Found at i:15430109 original size:183 final size:183
Alignment explanation
Indices: 15429503--15430224 Score: 1072
Period size: 183 Copynumber: 4.0 Consensus size: 183
15429493 AGATCAACCA
15429503 AACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCTGAA
1 AACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCTGAA
*
15429568 ATTGAAGTAAGAGTAAGAAGAAGGACCAACATCTTTTCCTATCCTCTTGAAATTGAAGTAAAGTT
66 ATTGAAGTAAGAGTAAGAAGAAGGACCAACATCTTTTCCTATCCTCTTGAAATTGAAGTAAAGCT
* * *
15429633 GAATAACAAGCCTTCGTCCCTCTGAAATTGAAGTAAGAGTAAGAAGAAGGACC
131 GGATAACAAGCCTTCATCCCTCTGAAATTGAAGTAAGAGTAAGATGAAGGACC
*
15429686 AACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCCGAA
1 AACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCTGAA
* * * *
15429751 ATTGAAGTAAGAGTAAGAAGTAGGACCAACGTCATTTTCATATCCTCTTGAAATTGAACTAAAGC
66 ATTGAAGTAAGAGTAAGAAGAAGGACCAACATC-TTTTCCTATCCTCTTGAAATTGAAGTAAAGC
* *
15429816 TGGATAACAAGCCTTCGTCCCTCTGAAATTGAAGTAAGAGT-A-A-GAAGGACT
130 TGGATAACAAGCCTTCATCCCTCTGAAATTGAAGTAAGAGTAAGATGAAGGACC
* * ** *
15429867 AACATCATTTTCCTATTCTCTTGAAATTTAAGTAAAGCAAGATAACAAGCCTCCGTCCCTCTGAA
1 AACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCTGAA
*
15429932 ATTGAAGTAAGAGTAAGAAGAAGGACCAACATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGCT
66 ATTGAAGTAAGAGTAAGAAGAAGGACCAACATCTTTTCCTATCCTCTTGAAATTGAAGTAAAGCT
* * * * * * *
15429997 GGATATCAAGCTTTTATCTCTCTGGAATTGAAGTAGGAGTAAGATGAAGCACC
131 GGATAACAAGCCTTCATCCCTCTGAAATTGAAGTAAGAGTAAGATGAAGGACC
* *
15430050 AATATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAACCTTCGTCCCTCTGAA
1 AACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCTGAA
* * * * * * *
15430115 ATTGAAGTAAAAGCAAGATGAAGCACCGACATCTTTCCCTATCCTCTTGAAATTGAAGTAGAGCT
66 ATTGAAGTAAGAGTAAGAAGAAGGACCAACATCTTTTCCTATCCTCTTGAAATTGAAGTAAAGCT
* * * * *
15430180 AGATATCAAGCCTTTATCTCTCTGAAATTGAAGTAAGAGCAAGAT
131 GGATAACAAGCCTTCATCCCTCTGAAATTGAAGTAAGAGTAAGAT
15430225 AAAACCCCGA
Statistics
Matches: 489, Mismatches: 46, Indels: 8
0.90 0.08 0.01
Matches are distributed among these distances:
180 62 0.13
181 98 0.20
182 2 0.00
183 259 0.53
184 68 0.14
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (183 bp):
AACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCTGAA
ATTGAAGTAAGAGTAAGAAGAAGGACCAACATCTTTTCCTATCCTCTTGAAATTGAAGTAAAGCT
GGATAACAAGCCTTCATCCCTCTGAAATTGAAGTAAGAGTAAGATGAAGGACC
Found at i:15430508 original size:6 final size:6
Alignment explanation
Indices: 15430497--15430571 Score: 68
Period size: 6 Copynumber: 13.2 Consensus size: 6
15430487 AATTAAATTT
* * * *
15430497 ATTTTA ATTTTA AATTT- ATTTTA AATTCA ATTTTA ATTTTA ATTTGA
1 ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA
* *
15430544 A-TTTA A-TTTA AATTTA ATGTT- ATTTTA A
1 ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA A
15430572 ATTCAAAAAG
Statistics
Matches: 55, Mismatches: 11, Indels: 6
0.76 0.15 0.08
Matches are distributed among these distances:
5 17 0.31
6 38 0.69
ACGTcount: A:0.37, C:0.01, G:0.03, T:0.59
Consensus pattern (6 bp):
ATTTTA
Found at i:15430508 original size:11 final size:11
Alignment explanation
Indices: 15430489--15430571 Score: 69
Period size: 11 Copynumber: 7.4 Consensus size: 11
15430479 CATTTGGAAA
* *
15430489 TTAAATTTATT
1 TTAATTTTAAT
15430500 TTAATTTTAAAT
1 TTAATTTT-AAT
15430512 TT-ATTTTAAAT
1 TTAATTTT-AAT
*
15430523 TCAATTTTAATT
1 TTAATTTTAA-T
*
15430535 TTAATTTGAAT
1 TTAATTTTAAT
*
15430546 TTAATTTAAAT
1 TTAATTTTAAT
* *
15430557 TTAATGTTATT
1 TTAATTTTAAT
15430568 TTAA
1 TTAA
15430572 ATTCAAAAAG
Statistics
Matches: 60, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
11 42 0.70
12 18 0.30
ACGTcount: A:0.37, C:0.01, G:0.02, T:0.59
Consensus pattern (11 bp):
TTAATTTTAAT
Found at i:15430509 original size:17 final size:17
Alignment explanation
Indices: 15430489--15430574 Score: 95
Period size: 17 Copynumber: 5.1 Consensus size: 17
15430479 CATTTGGAAA
*
15430489 TTAAATTTATTTTAATT
1 TTAAATTTATTTTAAAT
15430506 TTAAATTTATTTTAAAT
1 TTAAATTTATTTTAAAT
* *
15430523 TCAATTTTAATTTT-AAT
1 TTAAATTT-ATTTTAAAT
* *
15430540 TTGAATTTAATTTAAAT
1 TTAAATTTATTTTAAAT
15430557 TT-AATGTTATTTTAAAT
1 TTAAAT-TTATTTTAAAT
15430574 T
1 T
15430575 CAAAAAGAAA
Statistics
Matches: 58, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
16 7 0.12
17 46 0.79
18 5 0.09
ACGTcount: A:0.37, C:0.01, G:0.02, T:0.59
Consensus pattern (17 bp):
TTAAATTTATTTTAAAT
Found at i:15430528 original size:23 final size:23
Alignment explanation
Indices: 15430502--15430561 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 23
15430492 AATTTATTTT
*
15430502 AATTTTAAATTTATTTTAAATTC
1 AATTTTAAATTTAATTTAAATTC
* * *
15430525 AATTTTAATTTTAATTTGAATTT
1 AATTTTAAATTTAATTTAAATTC
15430548 AA-TTTAAATTTAAT
1 AATTTTAAATTTAAT
15430562 GTTATTTTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
22 11 0.34
23 21 0.66
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (23 bp):
AATTTTAAATTTAATTTAAATTC
Found at i:15430975 original size:15 final size:16
Alignment explanation
Indices: 15430941--15430982 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
15430931 TTTGAAAACC
*
15430941 AAAAAAAACCAATGCT
1 AAAAAAAACCAATGCA
* *
15430957 AAAAAAAATCAATGAA
1 AAAAAAAACCAATGCA
15430973 AAAAAAAACC
1 AAAAAAAACC
15430983 TTCATTGAGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.71, C:0.14, G:0.05, T:0.10
Consensus pattern (16 bp):
AAAAAAAACCAATGCA
Found at i:15432648 original size:21 final size:21
Alignment explanation
Indices: 15432624--15432676 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
15432614 CTTGGGAAAA
*
15432624 TTCTACCGATACAAGT-GTGAC
1 TTCTACCGATACAAGTCAT-AC
* *
15432645 TTCTATCGAAACAAGTCATAC
1 TTCTACCGATACAAGTCATAC
15432666 TTCTACCGATA
1 TTCTACCGATA
15432677 TTAAAAACTC
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 25 0.96
22 1 0.04
ACGTcount: A:0.32, C:0.25, G:0.13, T:0.30
Consensus pattern (21 bp):
TTCTACCGATACAAGTCATAC
Found at i:15433391 original size:36 final size:36
Alignment explanation
Indices: 15433336--15433439 Score: 127
Period size: 36 Copynumber: 2.9 Consensus size: 36
15433326 TGATCGTTAT
* * *
15433336 TCATTTTATTCCTTGTTGACACATAGGTCATGATGC
1 TCATTTTACTCCCTGTTGACACAAAGGTCATGATGC
* * *
15433372 TCATTTTACTCCCTATTGACCCAAAGGTCATGTTGC
1 TCATTTTACTCCCTGTTGACACAAAGGTCATGATGC
* * *
15433408 TCATTGTACTCCCTGTTGACCCGAAGGTCATG
1 TCATTTTACTCCCTGTTGACACAAAGGTCATG
15433440 CCTGTTACCA
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 59 1.00
ACGTcount: A:0.21, C:0.25, G:0.17, T:0.37
Consensus pattern (36 bp):
TCATTTTACTCCCTGTTGACACAAAGGTCATGATGC
Found at i:15433733 original size:20 final size:20
Alignment explanation
Indices: 15433696--15433733 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
15433686 CTGTCGTTTC
*
15433696 TATCTTTCACATTTTCAATT
1 TATCTTTCACATTATCAATT
15433716 TATCGTTTCA-ATTATCAA
1 TATC-TTTCACATTATCAA
15433734 CAACCATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.29, C:0.18, G:0.03, T:0.50
Consensus pattern (20 bp):
TATCTTTCACATTATCAATT
Found at i:15445078 original size:18 final size:18
Alignment explanation
Indices: 15445047--15445081 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
15445037 GCTTACTCGG
* *
15445047 TTTCTTCTTTCCCTTAGC
1 TTTCTACTTCCCCTTAGC
15445065 TTTCTACTTCCCCTTAG
1 TTTCTACTTCCCCTTAG
15445082 AGGATGAGGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.09, C:0.34, G:0.06, T:0.51
Consensus pattern (18 bp):
TTTCTACTTCCCCTTAGC
Found at i:15454465 original size:30 final size:30
Alignment explanation
Indices: 15454431--15454487 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
15454421 TCATTTGAGG
15454431 TGTGTCTCTGTTCGTACTACATATTTGTTA
1 TGTGTCTCTGTTCGTACTACATATTTGTTA
* * * *
15454461 TGTGTTTCTGTTTGTGCTACATGTTTG
1 TGTGTCTCTGTTCGTACTACATATTTG
15454488 CTGTGTGACG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.12, C:0.14, G:0.21, T:0.53
Consensus pattern (30 bp):
TGTGTCTCTGTTCGTACTACATATTTGTTA
Found at i:15455798 original size:19 final size:18
Alignment explanation
Indices: 15455765--15455827 Score: 56
Period size: 19 Copynumber: 3.4 Consensus size: 18
15455755 GTTTTGAAAT
* *
15455765 TTTTATTTTTCATTTTTA
1 TTTTAATTTTAATTTTTA
* *
15455783 TTATT-GTTTTAAATTTTAA
1 TT-TTAATTTT-AATTTTTA
15455802 TTTTAATTTTAATTTTTA
1 TTTTAATTTTAATTTTTA
15455820 TGTTTAAT
1 T-TTTAAT
15455828 AAAGGGGGTC
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
18 16 0.44
19 20 0.56
ACGTcount: A:0.25, C:0.02, G:0.03, T:0.70
Consensus pattern (18 bp):
TTTTAATTTTAATTTTTA
Found at i:15455818 original size:13 final size:13
Alignment explanation
Indices: 15455762--15455819 Score: 50
Period size: 12 Copynumber: 4.6 Consensus size: 13
15455752 TAGGTTTTGA
*
15455762 AATTTTTATTTTT
1 AATTTTTAATTTT
*
15455775 CATTTTT-ATTATT
1 AATTTTTAATT-TT
* *
15455788 -GTTTTAAATTTT
1 AATTTTTAATTTT
15455800 AA-TTTTAATTTT
1 AATTTTTAATTTT
15455812 AATTTTTA
1 AATTTTTA
15455820 TGTTTAATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
12 19 0.54
13 16 0.46
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.69
Consensus pattern (13 bp):
AATTTTTAATTTT
Found at i:15455825 original size:13 final size:12
Alignment explanation
Indices: 15455789--15455827 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
15455779 TTTATTATTG
15455789 TTTTAAATTTTAA
1 TTTT-AATTTTAA
15455802 TTTTAATTTTAA
1 TTTTAATTTTAA
*
15455814 TTTTTATGTTTAA
1 TTTTAAT-TTTAA
15455827 T
1 T
15455828 AAAGGGGGTC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 14 0.58
13 10 0.42
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (12 bp):
TTTTAATTTTAA
Found at i:15460223 original size:21 final size:21
Alignment explanation
Indices: 15460197--15460243 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
15460187 CATGCTTATG
15460197 ATGTTTGTGCCTCAATCGATC
1 ATGTTTGTGCCTCAATCGATC
15460218 ATGTTTGTGCCTCAATCGATC
1 ATGTTTGTGCCTCAATCGATC
15460239 ATGTT
1 ATGTT
15460244 CTCAATTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.19, C:0.21, G:0.19, T:0.40
Consensus pattern (21 bp):
ATGTTTGTGCCTCAATCGATC
Found at i:15461544 original size:17 final size:16
Alignment explanation
Indices: 15461510--15461569 Score: 52
Period size: 15 Copynumber: 3.7 Consensus size: 16
15461500 ATCATATAGA
*
15461510 TAATTTGCATACTTAGAT
1 TAATTTGCAT--TGAGAT
15461528 TAATTTGCATTAGAGAT
1 TAATTTGCATT-GAGAT
* *
15461545 CAA-TTGCATTTAGAT
1 TAATTTGCATTGAGAT
15461560 T-ATTTGCATT
1 TAATTTGCATT
15461570 TAATTTTAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
14 1 0.03
15 11 0.31
16 8 0.22
17 6 0.17
18 10 0.28
ACGTcount: A:0.32, C:0.10, G:0.13, T:0.45
Consensus pattern (16 bp):
TAATTTGCATTGAGAT
Found at i:15461559 original size:15 final size:15
Alignment explanation
Indices: 15461522--15461571 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 15
15461512 ATTTGCATAC
15461522 TTAGATTAATTTGCAT
1 TTAGATTAA-TTGCAT
* *
15461538 TAGAGATCAATTGCAT
1 T-TAGATTAATTGCAT
*
15461554 TTAGATTATTTGCAT
1 TTAGATTAATTGCAT
15461569 TTA
1 TTA
15461572 ATTTTAATCA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
15 14 0.50
16 8 0.29
17 6 0.21
ACGTcount: A:0.32, C:0.08, G:0.14, T:0.46
Consensus pattern (15 bp):
TTAGATTAATTGCAT
Found at i:15463276 original size:17 final size:18
Alignment explanation
Indices: 15463230--15463280 Score: 59
Period size: 21 Copynumber: 2.7 Consensus size: 18
15463220 ACTTAACCAC
15463230 TTTAATATTAAATTAATA
1 TTTAATATTAAATTAATA
*
15463248 TAGATAAATATTAAATTAA-A
1 T---TTAATATTAAATTAATA
15463268 TTTAATATTAAAT
1 TTTAATATTAAAT
15463281 CTTACTAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
17 11 0.39
18 1 0.04
20 2 0.07
21 14 0.50
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (18 bp):
TTTAATATTAAATTAATA
Done.