Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008175.1 Hibiscus syriacus cultivar Beakdansim tig00110770_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: 426378
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 2
Found at i:271973 original size:30 final size:30
Alignment explanation
Indices: 271939--271997 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
271929 TTTGGTTCCT
* *
271939 AAACTTT-TTAAAGTTTATACTTTGGTCACC
1 AAACTTTACTAAA-TTTATAATTTGGTCACC
271969 AAACTTTACTAAATTTATAATTTGGTCAC
1 AAACTTTACTAAATTTATAATTTGGTCAC
271998 TAAATAAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.34, C:0.15, G:0.08, T:0.42
Consensus pattern (30 bp):
AAACTTTACTAAATTTATAATTTGGTCACC
Found at i:275740 original size:178 final size:178
Alignment explanation
Indices: 275441--275796 Score: 696
Period size: 178 Copynumber: 2.0 Consensus size: 178
275431 TCTAAATCTG
275441 ATAAAAAAAATTAAATTTTATAAACATATATATATAATCTTATCAAATCAAAATGTATCAAAACC
1 ATAAAAAAAATTAAATTTTATAAACATATATATATAATCTTATCAAATCAAAATGTATCAAAACC
275506 CGTTAAATCTGAATTTTTTGACCAGCTTTAGGTGTAGGGAAACTTTTGGACTTGGTTGTGTGTTT
66 CGTTAAATCTGAATTTTTTGACCAGCTTTAGGTGTAGGGAAACTTTTGGACTTGGTTGTGT-TTT
275571 ATCATGTTCTTAAAGGTAGATTAGTTAATTGTAGATA-GTGATTGTTTT
130 ATCATGTTCTTAAAGGTAGATTAGTTAATTGTAGATAGGTGATTGTTTT
275619 ATAAAAAAAATTAAATTTTATAAACATATATATATAATCTTATCAAATCAAAATGTATCAAAACC
1 ATAAAAAAAATTAAATTTTATAAACATATATATATAATCTTATCAAATCAAAATGTATCAAAACC
275684 CGTTAAATCTGAATTTTTTGACCAGCTTTAGGTGTAGGGAAACTTTTGGACTTGGTTGTGTTTTA
66 CGTTAAATCTGAATTTTTTGACCAGCTTTAGGTGTAGGGAAACTTTTGGACTTGGTTGTGTTTTA
275749 TCATGTTCTTAAAGGTAGATTAGTTAATTGTAGATAGGTGATTGTTTT
131 TCATGTTCTTAAAGGTAGATTAGTTAATTGTAGATAGGTGATTGTTTT
275797 TCAGTTTTTC
Statistics
Matches: 177, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
177 40 0.23
178 137 0.77
ACGTcount: A:0.35, C:0.09, G:0.16, T:0.40
Consensus pattern (178 bp):
ATAAAAAAAATTAAATTTTATAAACATATATATATAATCTTATCAAATCAAAATGTATCAAAACC
CGTTAAATCTGAATTTTTTGACCAGCTTTAGGTGTAGGGAAACTTTTGGACTTGGTTGTGTTTTA
TCATGTTCTTAAAGGTAGATTAGTTAATTGTAGATAGGTGATTGTTTT
Found at i:281421 original size:21 final size:20
Alignment explanation
Indices: 281336--281492 Score: 84
Period size: 21 Copynumber: 7.8 Consensus size: 20
281326 AATGACCAAT
** *
281336 AAAATCGCAACGCGA-AATA
1 AAAATCGCAACGCGATTTTC
***
281355 AAAATCGCAACGCGATCCCC
1 AAAATCGCAACGCGATTTTC
* ** *
281375 AGAATCGCAAATC-AGTTTCC
1 AAAATCGCAACGCGA-TTTTC
*
281395 AAAATCGCAACGCGATTCTTG
1 AAAATCGCAACGCGATT-TTC
* * *
281416 AAAATCGCAATGCGATAGTAC
1 AAAATCGCAACGCGAT-TTTC
* **
281437 AAATTCGCATTGCGATTTTCC
1 AAAATCGCAACGCGATTTT-C
* * *
281458 AAAATCGCAACGCGAATATG
1 AAAATCGCAACGCGATTTTC
281478 AAAATCGCAACGCGA
1 AAAATCGCAACGCGA
281493 ACACATAAAT
Statistics
Matches: 104, Mismatches: 28, Indels: 11
0.73 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
AAAATCGCAACGCGATTTTC
Found at i:281521 original size:20 final size:20
Alignment explanation
Indices: 281459--281702 Score: 228
Period size: 20 Copynumber: 12.2 Consensus size: 20
281449 CGATTTTCCA
* ** *
281459 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
281479 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
281499 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
281519 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
281539 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
281559 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
281579 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
281599 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * * *
281619 AAATCACAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
281639 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
*
281659 AAATCGC-ACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
281678 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
281698 AAATC
1 AAATC
281703 CGGTAGGGCA
Statistics
Matches: 188, Mismatches: 29, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
19 21 0.11
20 165 0.88
21 2 0.01
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:292238 original size:16 final size:17
Alignment explanation
Indices: 292217--292248 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
292207 TTATGCTTGA
292217 AAAAAAAAAGA-AAAAG
1 AAAAAAAAAGAGAAAAG
292233 AAAAAAAAAGAGAAAA
1 AAAAAAAAAGAGAAAA
292249 AAGAGGGGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAGAGAAAAG
Found at i:292250 original size:12 final size:13
Alignment explanation
Indices: 292216--292252 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
292206 ATTATGCTTG
292216 AAAA-AAAAAAGA
1 AAAAGAAAAAAGA
292228 AAAAGAAAAAA-A
1 AAAAGAAAAAAGA
*
292240 AAGAGAAAAAAGA
1 AAAAGAAAAAAGA
292253 GGGGTCAAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
12 15 0.68
13 7 0.32
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (13 bp):
AAAAGAAAAAAGA
Found at i:292587 original size:16 final size:16
Alignment explanation
Indices: 292561--292605 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
292551 TTTGAATACA
*
292561 ATTCTATTTATTTCAAG
1 ATTCAATTTATTT-AAG
*
292578 -TTCAATTTATTTGAG
1 ATTCAATTTATTTAAG
292593 ATTCAATTTATTT
1 ATTCAATTTATTT
292606 TTGGAAATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 2 0.08
16 23 0.92
ACGTcount: A:0.29, C:0.09, G:0.07, T:0.56
Consensus pattern (16 bp):
ATTCAATTTATTTAAG
Found at i:293632 original size:166 final size:166
Alignment explanation
Indices: 293344--294314 Score: 1725
Period size: 166 Copynumber: 5.9 Consensus size: 166
293334 CATCAACTGA
*
293344 AAGATGAATTTGC-CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAG
1 AAGATGAATATGCTC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAG
293408 AA-CAATCATTGAATTTAGAAGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTA
65 AACCAATCATTGAATTTAGAAGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTA
*
293472 TCTGATTTGGTTTAGCAGAACCAATCATTGAATTGGG
130 TCTGATCTGGTTTAGCAGAACCAATCATTGAATTGGG
* *
293509 AAAATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
1 AAGATGAATATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
293574 ACCAATCATTGAATTTAGAAGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
66 ACCAATCATTGAATTTAGAAGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
293639 CTGATCTGGTTTAGCAGAACCAATCATTGAATTGGG
131 CTGATCTGGTTTAGCAGAACCAATCATTGAATTGGG
*
293675 AAGATAAATATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
1 AAGATGAATATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
293740 ACCAATCATTGAATTTAGAAGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
66 ACCAATCATTGAATTTAGAAGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
293805 CTGATCTGGTTTAGCAGAACCAATCATTGAATTGGG
131 CTGATCTGGTTTAGCAGAACCAATCATTGAATTGGG
* *
293841 AAGATGAATATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATATGGTTGGACAAA
1 AAGATGAATATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
293906 ACCAATCATTGAATTTAGAAGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
66 ACCAATCATTGAATTTAGAAGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
293971 CTGATCTGGTTTAGCAGAACCAATCATTGAATTGGG
131 CTGATCTGGTTTAGCAGAACCAATCATTGAATTGGG
* *
294007 AAGATGAATATGCTCATAGCATCTTCTAGAAGTGTTCTTTGAGTTATCTGATCTGGTT-TAGCAG
1 AAGATGAATATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA-CAG
** * * *
294071 AACCAATCATTGAATTGGGAAGATGAATATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTA
65 AACCAATCATTGAATTTAGAAGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTA
294136 TCTGATCTGGTTTAGCAGAACCAATCATTGAATTGGG
130 TCTGATCTGGTTTAGCAGAACCAATCATTGAATTGGG
294173 AAGATGAATATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG-CAG
1 AAGATGAATATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGGACAG
* * * *
294237 AACCAATCATTGAATTTGGAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTA
65 AACCAATCATTGAATTTAGAAGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTA
294302 TCTGATCTGGTTT
130 TCTGATCTGGTTT
294315 GGTAAGAACT
Statistics
Matches: 779, Mismatches: 22, Indels: 9
0.96 0.03 0.01
Matches are distributed among these distances:
165 63 0.08
166 714 0.92
167 2 0.00
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.36
Consensus pattern (166 bp):
AAGATGAATATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
ACCAATCATTGAATTTAGAAGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
CTGATCTGGTTTAGCAGAACCAATCATTGAATTGGG
Found at i:294316 original size:83 final size:83
Alignment explanation
Indices: 293344--294314 Score: 1540
Period size: 83 Copynumber: 11.7 Consensus size: 83
293334 CATCAACTGA
* *
293344 AAGATGAATTTGC-CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGGACA
1 AAGATGAATATGCTC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAG-CA
**
293407 GAA-CAATCATTGAATTTAG
64 GAACCAATCATTGAATTGGG
* * * *
293426 AAGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATTTGGTTTAGCAGA
1 AAGATGAATATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGCAGA
293491 ACCAATCATTGAATTGGG
66 ACCAATCATTGAATTGGG
* * *
293509 AAAATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGGACAG
1 AAGATGAATATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAG-CAG
**
293573 AACCAATCATTGAATTTAG
65 AACCAATCATTGAATTGGG
* * *
293592 AAGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGCAGA
1 AAGATGAATATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGCAGA
293657 ACCAATCATTGAATTGGG
66 ACCAATCATTGAATTGGG
* *
293675 AAGATAAATATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGGACAG
1 AAGATGAATATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAG-CAG
**
293739 AACCAATCATTGAATTTAG
65 AACCAATCATTGAATTGGG
* * *
293758 AAGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGCAGA
1 AAGATGAATATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGCAGA
293823 ACCAATCATTGAATTGGG
66 ACCAATCATTGAATTGGG
* * *
293841 AAGATGAATATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATATGG-TTGGACAA
1 AAGATGAATATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAG-CAG
**
293905 AACCAATCATTGAATTTAG
65 AACCAATCATTGAATTGGG
* * *
293924 AAGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGCAGA
1 AAGATGAATATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGCAGA
293989 ACCAATCATTGAATTGGG
66 ACCAATCATTGAATTGGG
*
294007 AAGATGAATATGCTCATAGCATCTTCTAGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGCAGA
1 AAGATGAATATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGCAGA
294072 ACCAATCATTGAATTGGG
66 ACCAATCATTGAATTGGG
294090 AAGATGAATATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGCAGA
1 AAGATGAATATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGCAGA
294155 ACCAATCATTGAATTGGG
66 ACCAATCATTGAATTGGG
*
294173 AAGATGAATATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGA
1 AAGATGAATATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGCAGA
*
294238 ACCAATCATTGAATTTGG
66 ACCAATCATTGAATTGGG
*
294256 AAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
1 AAGATGAATATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
294315 GGTAAGAACT
Statistics
Matches: 821, Mismatches: 59, Indels: 17
0.92 0.07 0.02
Matches are distributed among these distances:
82 66 0.08
83 746 0.91
84 9 0.01
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.36
Consensus pattern (83 bp):
AAGATGAATATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGCAGA
ACCAATCATTGAATTGGG
Found at i:295160 original size:113 final size:113
Alignment explanation
Indices: 294965--295604 Score: 901
Period size: 113 Copynumber: 5.6 Consensus size: 113
294955 ATTCAAATCT
*
294965 ATCATTTGATGGATTGA-CATTTCAAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 ATCATTTGATGGATT-ATCATTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* *
295029 AGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTCTGCCT-AATTC
65 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCCTGAATTC
* * *
295077 TATCACTTGATGGATTAGCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 -ATCATTTGATGGATTATCATTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* * *
295142 AGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTGTTACCTGAATTC
65 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCCTGAATTC
* *
295191 ATCACTTGATGGATTATCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
1 ATCATTTGATGGATTATCATTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
**
295256 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTTTCTGAATTC
66 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCCTGAATTC
* *
295304 ATCAAATTGATGGATTATCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 ATC-ATTTGATGGATTATCATTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* * *
295369 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAATCTTTTGCTTGAATTC
65 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCCTGAATTC
* * * * *
295418 ATCATTTGATGGATCAACATTGCCAG-GTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAAAA
1 ATCATTTGATGGATTATCATTTCCAGAGAAG-GTTCATAATGAGAAGAA--C-TCATCTGAAGAA
* * *
295482 GGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAATCTTTTGCTTGAATTC
62 GGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCCTGAATTC
* ** * *
295534 ATCATTTGATGGATCATCATCCCCAGCAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAG-
1 ATCATTTGATGGATTATCATTTCCAG-AGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
295598 AGAAGAA
65 AGAAGAA
295605 TTTATTCAAT
Statistics
Matches: 487, Mismatches: 31, Indels: 18
0.91 0.06 0.03
Matches are distributed among these distances:
112 4 0.01
113 252 0.52
114 124 0.25
115 2 0.00
116 86 0.18
117 17 0.03
118 2 0.00
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.29
Consensus pattern (113 bp):
ATCATTTGATGGATTATCATTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCCTGAATTC
Found at i:295400 original size:227 final size:225
Alignment explanation
Indices: 294965--295604 Score: 899
Period size: 227 Copynumber: 2.8 Consensus size: 225
294955 ATTCAAATCT
*
294965 ATCATTTGATGGATTGACATTTCAAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
1 ATCATTTGATGGATT-ACATTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
* * * *
295030 GAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTCTGCCT-AATTCTATCACTTGATGGATTA
65 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTTCCTGAATTC-ATCAATTGATGGATTA
*
295094 GCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
129 TCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
*
295159 AGAAGAATTTGTTCAACCTGTTACCTGAATTC
194 AGAAGAACTTGTTCAACCTGTTACCTGAATTC
* *
295191 ATCACTTGATGGATTATCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
1 ATCATTTGATGGATTA-CATTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
*
295256 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTTTCTGAATTCATCAAATTGATGGATTA
65 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTTCCTGAATTCATC-AATTGATGGATTA
*
295321 TCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
129 TCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATG
* * * *
295386 AGAAGAACTTGTTCAATCTTTTGCTTGAATTC
194 AGAAGAACTTGTTCAACCTGTTACCTGAATTC
* * * *
295418 ATCATTTGATGGATCAACATTGCCAG-GTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAAAA
1 ATCATTTGATGGAT-TACATTTCCAGAGAAG-GTTCATAATGAGAAGAA--C-TCATCTGAAGAA
* * * * *
295482 GGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAATCTTTTGCTTGAATTCATCATTTGATGGA
61 GGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTTCCTGAATTCATCAATTGATGGA
* * ** * *
295547 TCATCATCCCCAGCAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAG-AGAAGAA
126 TTATCTTTTCCAG-AGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
295605 TTTATTCAAT
Statistics
Matches: 372, Mismatches: 33, Indels: 15
0.89 0.08 0.04
Matches are distributed among these distances:
225 1 0.00
226 104 0.28
227 144 0.39
228 1 0.00
229 26 0.07
230 96 0.26
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.29
Consensus pattern (225 bp):
ATCATTTGATGGATTACATTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
AAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTTCCTGAATTCATCAATTGATGGATTATC
TTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAG
AAGAACTTGTTCAACCTGTTACCTGAATTC
Found at i:295749 original size:3 final size:3
Alignment explanation
Indices: 295741--295820 Score: 117
Period size: 3 Copynumber: 26.7 Consensus size: 3
295731 TTTTTACCCA
*
295741 TAT TAT TAT TAT TAT TAT TAT TAT TAC TAT TAT TAT TAT TAT TAT TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
295788 TAT CAT TAT TAT TAT TAT TAT TAA TAT ATAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TA
295821 AATAAATATA
Statistics
Matches: 69, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
2 2 0.03
3 64 0.93
4 3 0.04
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:295838 original size:14 final size:15
Alignment explanation
Indices: 295810--295842 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
295800 TATTATTATT
295810 AATATATATTAAATA
1 AATATATATTAAATA
295825 AATATATA-TAAATA
1 AATATATATTAAATA
295839 AATA
1 AATA
295843 ATTACAGACC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
AATATATATTAAATA
Found at i:298627 original size:28 final size:28
Alignment explanation
Indices: 298591--298652 Score: 124
Period size: 28 Copynumber: 2.2 Consensus size: 28
298581 ATAAATTGTG
298591 AATATACAATTTTATATGATATTATGAA
1 AATATACAATTTTATATGATATTATGAA
298619 AATATACAATTTTATATGATATTATGAA
1 AATATACAATTTTATATGATATTATGAA
298647 AATATA
1 AATATA
298653 ATTATGGTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.42
Consensus pattern (28 bp):
AATATACAATTTTATATGATATTATGAA
Found at i:299476 original size:24 final size:24
Alignment explanation
Indices: 299450--299525 Score: 80
Period size: 24 Copynumber: 3.2 Consensus size: 24
299440 AGAAAATGAG
*
299450 TAAACGAGTCGATAAACGAGCTTG
1 TAAACGAGTCGATAAACGAGCTTA
** * *
299474 TAAACGAACCAATAAACAAGCTTA
1 TAAACGAGTCGATAAACGAGCTTA
* * *
299498 TAAACAAGTCGAGAAACGATCTTA
1 TAAACGAGTCGATAAACGAGCTTA
299522 TAAA
1 TAAA
299526 TGAACTTGTT
Statistics
Matches: 40, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.47, C:0.17, G:0.16, T:0.20
Consensus pattern (24 bp):
TAAACGAGTCGATAAACGAGCTTA
Found at i:315329 original size:31 final size:31
Alignment explanation
Indices: 315286--315346 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
315276 AGTTACGTCG
*
315286 GGGAACATATTGCAAATGGACTAAATGTTGA
1 GGGAACATATTGCAAACGGACTAAATGTTGA
*
315317 GGGACCATATTGCAAACGGACTAAATGTTG
1 GGGAACATATTGCAAACGGACTAAATGTTG
315347 GGGGGATTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.36, C:0.13, G:0.26, T:0.25
Consensus pattern (31 bp):
GGGAACATATTGCAAACGGACTAAATGTTGA
Found at i:317207 original size:20 final size:20
Alignment explanation
Indices: 317165--317207 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 20
317155 TCAATTTTAT
* *
317165 TAAAATATTTGAAATTATAA
1 TAAAATATTAGAAATTAAAA
317185 TAAAAT-TTAGAAATTAAACA
1 TAAAATATTAGAAATTAAA-A
317205 TAA
1 TAA
317208 TTAGGATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.35
Consensus pattern (20 bp):
TAAAATATTAGAAATTAAAA
Found at i:327652 original size:3 final size:3
Alignment explanation
Indices: 327646--327683 Score: 51
Period size: 3 Copynumber: 12.3 Consensus size: 3
327636 TATTATTATT
327646 ATC ATC ATC ATC ATC ATC ATC ATC AATCC A-C ATC ATC A
1 ATC ATC ATC ATC ATC ATC ATC ATC -AT-C ATC ATC ATC A
327684 CATTGTTAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
2 2 0.06
3 26 0.81
4 3 0.09
5 1 0.03
ACGTcount: A:0.37, C:0.34, G:0.00, T:0.29
Consensus pattern (3 bp):
ATC
Found at i:337443 original size:36 final size:34
Alignment explanation
Indices: 337372--337441 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
337362 AGCTGGAAAT
337372 TAGGACCAATACAATATAAAATGGTATATATATA
1 TAGGACCAATACAATATAAAATGGTATATATATA
337406 TAGGACCAATACAATATAAAATGGTATATATATA
1 TAGGACCAATACAATATAAAATGGTATATATATA
337440 TA
1 TA
337442 TATATTATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.50, C:0.09, G:0.11, T:0.30
Consensus pattern (34 bp):
TAGGACCAATACAATATAAAATGGTATATATATA
Found at i:338788 original size:26 final size:27
Alignment explanation
Indices: 338718--338792 Score: 73
Period size: 26 Copynumber: 2.8 Consensus size: 27
338708 CCGCAATTAC
**
338718 TAATTTACATAAATATAATAAGAAATATG
1 TAATTTAC-T-AATATAATAATTAATATG
* * *
338747 TAAATTATTAAT-TAATAATTACTAT-
1 TAATTTACTAATATAATAATTAATATG
338772 TAATTTACTAATATAATAATT
1 TAATTTACTAATATAATAATT
338793 TTATACTAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
25 10 0.26
26 18 0.47
27 3 0.08
28 1 0.03
29 6 0.16
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.43
Consensus pattern (27 bp):
TAATTTACTAATATAATAATTAATATG
Found at i:338917 original size:263 final size:266
Alignment explanation
Indices: 338451--338978 Score: 987
Period size: 263 Copynumber: 2.0 Consensus size: 266
338441 AAATCTAAAT
338451 ATTACTAATTTACATAAATATATAATAAGAAATATGTAAATTATTAATTAATAATTACTATTAAT
1 ATTACTAATTTACATAAATATATAATAAGAAATATGTAAATTATTAATTAATAATTACTATTAAT
338516 TACTAATATAATAATTTTATACTAAATAATAAGAAATATTAATTATTTATTAAATTTAAAAATCA
66 TACTAATATAATAATTTTATACTAAATAATAAGAAATATTAATTATTTATTAAATTTAAAAATCA
338581 AACCCTAATTATCCTATCCAAAAATTATAATGGGCTTAACAAGTAACTAATCGAATAAAATTTTA
131 AACCCTAATTATCCTATCCAAAAATTATAATGGGCTTAACAAGTAACTAATCGAATAAAATTTTA
338646 ACGAATTTAACGAGTCGAGTCAAATAATAAA-TTTTAACAAACA-G-T-AACACTGATCAACTCA
196 ACGAATTTAACGAGTCGAGTCAAATAATAAATTTTTAACAAACATGTTAAACACTGATCAACTCA
338707 ACCGCA
261 ACCGCA
338713 ATTACTAATTTACAT-AA-ATATAATAAGAAATATGTAAATTATTAATTAATAATTACTATTAAT
1 ATTACTAATTTACATAAATATATAATAAGAAATATGTAAATTATTAATTAATAATTACTATTAA-
338776 TTACTAATATAATAATTTTATACTAAATAATAAGAAAATATTAAATTATTTATTAAATTTAAAAA
65 TTACTAATATAATAATTTTATACTAAATAATAAG-AAATATT-AATTATTTATTAAATTTAAAAA
338841 TCAAACCCTAATTATCCTATCCAAAAATTATAATGGGCTTAACAAGTAACTAATCGAATAAAATT
128 TCAAACCCTAATTATCCTATCCAAAAATTATAATGGGCTTAACAAGTAACTAATCGAATAAAATT
338906 TTAACGAATTTAACGAGTCGAGTCAAATAATAAATTTTTAACAAACATGTTAAACACTGATCAAC
193 TTAACGAATTTAACGAGTCGAGTCAAATAATAAATTTTTAACAAACATGTTAAACACTGATCAAC
338971 TCAACCGC
258 TCAACCGC
338979 TACTCTTTGG
Statistics
Matches: 259, Mismatches: 0, Indels: 9
0.97 0.00 0.03
Matches are distributed among these distances:
260 45 0.17
261 36 0.14
262 22 0.08
263 121 0.47
264 12 0.05
265 1 0.00
266 1 0.00
267 21 0.08
ACGTcount: A:0.48, C:0.12, G:0.06, T:0.34
Consensus pattern (266 bp):
ATTACTAATTTACATAAATATATAATAAGAAATATGTAAATTATTAATTAATAATTACTATTAAT
TACTAATATAATAATTTTATACTAAATAATAAGAAATATTAATTATTTATTAAATTTAAAAATCA
AACCCTAATTATCCTATCCAAAAATTATAATGGGCTTAACAAGTAACTAATCGAATAAAATTTTA
ACGAATTTAACGAGTCGAGTCAAATAATAAATTTTTAACAAACATGTTAAACACTGATCAACTCA
ACCGCA
Found at i:340186 original size:32 final size:33
Alignment explanation
Indices: 340148--340218 Score: 99
Period size: 32 Copynumber: 2.2 Consensus size: 33
340138 CAACTCAAGG
* * *
340148 AGTAAAGTACAATTAATTATAAAAAATAAGGGA
1 AGTAAAGTAAAATTAACTATAAAAAATAAGAGA
*
340181 A-TAAAGTAAAATTAACTATAAAAATTAAGAGA
1 AGTAAAGTAAAATTAACTATAAAAAATAAGAGA
340213 AGTAAA
1 AGTAAA
340219 ATCAAACTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
32 28 0.85
33 5 0.15
ACGTcount: A:0.61, C:0.03, G:0.13, T:0.24
Consensus pattern (33 bp):
AGTAAAGTAAAATTAACTATAAAAAATAAGAGA
Found at i:343427 original size:2 final size:2
Alignment explanation
Indices: 343420--343455 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
343410 TTCTCTAAGC
343420 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
343456 GTACGTATCT
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):
AT
Found at i:349072 original size:21 final size:21
Alignment explanation
Indices: 349033--349072 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
349023 AATAAATAAA
* * *
349033 AATAATAATATTTAGTATTCT
1 AATAACAATATTAACTATTCT
349054 AATAACAATATTAACTATT
1 AATAACAATATTAACTATT
349073 TGGACTAACT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.42
Consensus pattern (21 bp):
AATAACAATATTAACTATTCT
Found at i:349173 original size:17 final size:18
Alignment explanation
Indices: 349151--349187 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
349141 ATAGTATAGG
349151 GACCAAAAACAAA-AATT
1 GACCAAAAACAAAGAATT
*
349168 GACCAACAACAAAGAATT
1 GACCAAAAACAAAGAATT
349186 GA
1 GA
349188 TCTAAGTATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.59, C:0.19, G:0.11, T:0.11
Consensus pattern (18 bp):
GACCAAAAACAAAGAATT
Found at i:357137 original size:22 final size:21
Alignment explanation
Indices: 357112--357154 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 21
357102 AATAATATCG
357112 AATACATTATCAAATTATCATA
1 AATACATTATCAAATTA-CATA
357134 AATACATTATCAAATTACATA
1 AATACATTATCAAATTACATA
357155 CCTAGCCTGC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (21 bp):
AATACATTATCAAATTACATA
Found at i:364030 original size:26 final size:26
Alignment explanation
Indices: 363994--364045 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
363984 TTACAGTCAA
363994 GATCTCCTTCATGGAGATGGGAGCGT
1 GATCTCCTTCATGGAGATGGGAGCGT
364020 GATCTCCTTCATGGAGATGGGAGCGT
1 GATCTCCTTCATGGAGATGGGAGCGT
364046 TGGCGGCCGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.19, C:0.19, G:0.35, T:0.27
Consensus pattern (26 bp):
GATCTCCTTCATGGAGATGGGAGCGT
Found at i:364548 original size:45 final size:46
Alignment explanation
Indices: 364465--364556 Score: 118
Period size: 45 Copynumber: 2.0 Consensus size: 46
364455 AAAATAATTC
* * *
364465 ACATCATCATTAAATAGTAACAAATAACGCTTTTATAATTATTAAT
1 ACATCATCATTAAATAGTAACAAATAACGATTTCATAATTATAAAT
364511 ACATCATCAATT-AA-AGTAACAAATAAC-ATTTGCATAATTATAAAT
1 ACATCATC-ATTAAATAGTAACAAATAACGATTT-CATAATTATAAAT
364556 A
1 A
364557 GATATGAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
44 3 0.07
45 25 0.61
46 10 0.24
47 3 0.07
ACGTcount: A:0.49, C:0.13, G:0.04, T:0.34
Consensus pattern (46 bp):
ACATCATCATTAAATAGTAACAAATAACGATTTCATAATTATAAAT
Found at i:364917 original size:108 final size:109
Alignment explanation
Indices: 364727--364933 Score: 359
Period size: 108 Copynumber: 1.9 Consensus size: 109
364717 AACCGCTCAC
364727 AATAGTCAAGAGAAGAACACTATCACAACACTCACATCAATCCAGGACATTACAACAAAATGCAC
1 AATAGTCAAGAGAAGAACACTATCACAACACTCACATCAATCCAGGACATTACAACAAAATGCAC
364792 AGAACAGAAAAGAAGGGATCAGTTTAGCCCGATCCGCTCACAAT
66 AGAACAGAAAAGAAGGGATCAGTTTAGCCCGATCCGCTCACAAT
364836 AATAGTCAAAGAGAAGAACACTAT--CAACAACTCACATC-ATCCAGGACATTACAACAAAATGC
1 AATAGTC-AAGAGAAGAACACTATCACAAC-ACTCACATCAATCCAGGACATTACAACAAAATGC
364898 ACAGAACAG-AAAGAAAGGGATCAGTTTAGCCCGATC
64 ACAGAACAGAAAAG-AAGGGATCAGTTTAGCCCGATC
364934 AGTTTACCCT
Statistics
Matches: 95, Mismatches: 0, Indels: 7
0.93 0.00 0.07
Matches are distributed among these distances:
107 4 0.04
108 59 0.62
109 16 0.17
110 16 0.17
ACGTcount: A:0.45, C:0.24, G:0.16, T:0.15
Consensus pattern (109 bp):
AATAGTCAAGAGAAGAACACTATCACAACACTCACATCAATCCAGGACATTACAACAAAATGCAC
AGAACAGAAAAGAAGGGATCAGTTTAGCCCGATCCGCTCACAAT
Found at i:365859 original size:20 final size:21
Alignment explanation
Indices: 365829--365869 Score: 75
Period size: 20 Copynumber: 2.0 Consensus size: 21
365819 CTTTACAAAG
365829 ACAACAAGTGGTCAATCGTCT
1 ACAACAAGTGGTCAATCGTCT
365850 ACAA-AAGTGGTCAATCGTCT
1 ACAACAAGTGGTCAATCGTCT
365870 CACTCTCCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (21 bp):
ACAACAAGTGGTCAATCGTCT
Found at i:367121 original size:33 final size:33
Alignment explanation
Indices: 367084--367146 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
367074 GTTTTACACA
*
367084 TTTTAAATTGTTAGATTAAATAAATTTAATTAT
1 TTTTAAATTGTGAGATTAAATAAATTTAATTAT
367117 TTTTAAATTGTGAGATTAAATAAATTTAAT
1 TTTTAAATTGTGAGATTAAATAAATTTAAT
367147 GATTAATTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.43, C:0.00, G:0.08, T:0.49
Consensus pattern (33 bp):
TTTTAAATTGTGAGATTAAATAAATTTAATTAT
Found at i:367150 original size:17 final size:17
Alignment explanation
Indices: 367097--367152 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 17
367087 TAAATTGTTA
367097 GATTAAATAAATTTAAT
1 GATTAAATAAATTTAAT
* ** *
367114 TATT-TTTAAATTGTGA-
1 GATTAAATAAATT-TAAT
367130 GATTAAATAAATTTAAT
1 GATTAAATAAATTTAAT
367147 GATTAA
1 GATTAA
367153 TTTAATGATT
Statistics
Matches: 28, Mismatches: 8, Indels: 6
0.67 0.19 0.14
Matches are distributed among these distances:
16 11 0.39
17 17 0.61
ACGTcount: A:0.46, C:0.00, G:0.09, T:0.45
Consensus pattern (17 bp):
GATTAAATAAATTTAAT
Found at i:372701 original size:21 final size:20
Alignment explanation
Indices: 372653--372704 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 20
372643 ATCTGAAAAA
*
372653 ATTGGATATCCAAATTTTCG
1 ATTGGATATCTAAATTTTCG
372673 ---GG-TATCTAAATTTTCGG
1 ATTGGATATCTAAATTTTC-G
372690 ATTGGATATCTAAAT
1 ATTGGATATCTAAAT
372705 ATTCAGATCC
Statistics
Matches: 26, Mismatches: 1, Indels: 9
0.72 0.03 0.25
Matches are distributed among these distances:
16 12 0.46
17 3 0.12
20 2 0.08
21 9 0.35
ACGTcount: A:0.31, C:0.12, G:0.17, T:0.40
Consensus pattern (20 bp):
ATTGGATATCTAAATTTTCG
Found at i:376649 original size:21 final size:22
Alignment explanation
Indices: 376623--376669 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
376613 AAATCTTTTC
*
376623 TTTATT-TTACTTTAAAT-TGCT
1 TTTATTATTA-TTTAAATATCCT
376644 TTTATTATTATTTAAATATCCT
1 TTTATTATTATTTAAATATCCT
376666 TTTA
1 TTTA
376670 CCAAAATCCC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.28, C:0.09, G:0.02, T:0.62
Consensus pattern (22 bp):
TTTATTATTATTTAAATATCCT
Found at i:378771 original size:2 final size:2
Alignment explanation
Indices: 378764--378792 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
378754 TGCATACTAC
378764 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
378793 TGTTTTATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:393648 original size:64 final size:64
Alignment explanation
Indices: 393547--393670 Score: 162
Period size: 64 Copynumber: 1.9 Consensus size: 64
393537 CTTTAAAATA
* *
393547 AAAATAAAAACATCGAATGTCATCAGTGTATTGATGCACAAG-TAGTGCATCGATGCACCCCCTT
1 AAAATAAAAACATCGAATGACATCAGTGTATCGATGCA-AAGATAGTGCATCGATGCACCCCCTT
* * * *
393611 AAAATACAAACATCGAATGAGATTTA-TGTATCGATGCATAGATAGTGCATCGATGCACCC
1 AAAATAAAAACATCGAATGACA-TCAGTGTATCGATGCAAAGATAGTGCATCGATGCACCC
393671 GTCAAGGGAT
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
63 2 0.04
64 48 0.92
65 2 0.04
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.25
Consensus pattern (64 bp):
AAAATAAAAACATCGAATGACATCAGTGTATCGATGCAAAGATAGTGCATCGATGCACCCCCTT
Found at i:394746 original size:15 final size:15
Alignment explanation
Indices: 394722--394769 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
394712 GAGAAATGAA
*
394722 ATAAGGTATGTGATT
1 ATAAGATATGTGATT
*
394737 ATAAGATATGTGATA
1 ATAAGATATGTGATT
* *
394752 ATAAGTTATATGATT
1 ATAAGATATGTGATT
394767 ATA
1 ATA
394770 TGATCATAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.42, C:0.00, G:0.19, T:0.40
Consensus pattern (15 bp):
ATAAGATATGTGATT
Found at i:395230 original size:23 final size:23
Alignment explanation
Indices: 395197--395256 Score: 102
Period size: 23 Copynumber: 2.6 Consensus size: 23
395187 CATCTTATAT
*
395197 GGCACTACGGTGCAATTCTACGC
1 GGCACTTCGGTGCAATTCTACGC
*
395220 GGCACTTCGGTGCAATTCTACGT
1 GGCACTTCGGTGCAATTCTACGC
395243 GGCACTTCGGTGCA
1 GGCACTTCGGTGCA
395257 TTTATATGAG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.18, C:0.28, G:0.28, T:0.25
Consensus pattern (23 bp):
GGCACTTCGGTGCAATTCTACGC
Found at i:406780 original size:91 final size:91
Alignment explanation
Indices: 406640--406815 Score: 307
Period size: 91 Copynumber: 1.9 Consensus size: 91
406630 ATAATAAAAA
*
406640 TATTTACATTGTATAAGAATTATAAAATTTTCAGATAAAAATTAAAAAAAAGTAAAATTTAAAGT
1 TATTTACATTGTATAAGAATTATAAAATTTTCAGATAAAAATTAAAAAAAAATAAAATTTAAAGT
406705 TTAACTCGAATCGAAAATTCGCAAGT
66 TTAACTCGAATCGAAAATTCGCAAGT
**
406731 TATTTACATTGTATAAGAATTATAAAATTTTCAGATAAAAATTTTAAAAAAATAAAATTTAAAGT
1 TATTTACATTGTATAAGAATTATAAAATTTTCAGATAAAAATTAAAAAAAAATAAAATTTAAAGT
* *
406796 TTAACTTGACTCGAAAATTC
66 TTAACTCGAATCGAAAATTC
406816 ACGAGTTTAA
Statistics
Matches: 80, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
91 80 1.00
ACGTcount: A:0.49, C:0.07, G:0.09, T:0.35
Consensus pattern (91 bp):
TATTTACATTGTATAAGAATTATAAAATTTTCAGATAAAAATTAAAAAAAAATAAAATTTAAAGT
TTAACTCGAATCGAAAATTCGCAAGT
Found at i:407256 original size:2 final size:2
Alignment explanation
Indices: 407249--407309 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
407239 TATAACACCA
407249 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
407291 AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT A
407310 AACTAAGATT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:409824 original size:24 final size:23
Alignment explanation
Indices: 409783--409839 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 23
409773 TATATCTCTA
* *
409783 TATATTATTTTTTAAAATTAAATT
1 TATATT-TTTTTTAAAATAAAAGT
*
409807 TATATTTTTTTATTAAATAAAAGT
1 TATATTTTTTT-TAAAATAAAAGT
*
409831 AATATTTTT
1 TATATTTTT
409840 ATACAAATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 5 0.18
24 23 0.82
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (23 bp):
TATATTTTTTTTAAAATAAAAGT
Found at i:417175 original size:2 final size:2
Alignment explanation
Indices: 417168--417212 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
417158 TCGATATAAC
*
417168 TA TA TA TA TA TA TA TA TA TC 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 TA TA TA
417210 TA T
1 TA T
417213 TATTTTTATT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:417828 original size:15 final size:15
Alignment explanation
Indices: 417808--417843 Score: 65
Period size: 14 Copynumber: 2.5 Consensus size: 15
417798 ATGTGGATTG
417808 ATTTATTTTTAAATA
1 ATTTATTTTTAAATA
417823 ATTTA-TTTTAAATA
1 ATTTATTTTTAAATA
417837 ATTTATT
1 ATTTATT
417844 AGTATGGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 14 0.70
15 6 0.30
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
ATTTATTTTTAAATA
Found at i:417866 original size:32 final size:32
Alignment explanation
Indices: 417823--417974 Score: 146
Period size: 32 Copynumber: 5.4 Consensus size: 32
417813 TTTTTAAATA
417823 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
*
417855 ATTT-GTTT---TAA---A--A-TATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
417877 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
417909 ATTTATTTT--A-AA---A-TA-TA--GATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
*
417931 ATTTATTTTAAATAATTTATTTGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
417963 ATTTATTTTAAA
1 ATTTATTTTAAA
417975 ATATGGATTG
Statistics
Matches: 97, Mismatches: 3, Indels: 40
0.69 0.02 0.29
Matches are distributed among these distances:
22 27 0.28
23 4 0.04
24 3 0.03
25 5 0.05
26 4 0.04
28 4 0.04
29 4 0.04
30 3 0.03
31 4 0.04
32 39 0.40
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (32 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTG
Found at i:417871 original size:22 final size:22
Alignment explanation
Indices: 417846--417888 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
417836 AATTTATTAG
*
417846 TATGGATTGATTTGTTTTAAAA
1 TATGGATTGATTTATTTTAAAA
417868 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
417889 TAATTTATTA
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:0.33, C:0.00, G:0.16, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:418005 original size:26 final size:24
Alignment explanation
Indices: 417945--418123 Score: 96
Period size: 22 Copynumber: 6.8 Consensus size: 24
417935 ATTTTAAATA
417945 ATTTATTTGTATGGATTGATTTA-T
1 ATTTA-TTGTATGGATTGATTTATT
***
417969 -TTTAAAATATGGATTGATTTATT
1 ATTTATTGTATGGATTGATTTATT
417992 ATTGTAGTTGTATGGATTGATTTATTTT
1 ATT-TA-TTGTATGGATTGATTTA--TT
*
418020 AAATAATTATTAGTATGGATTGATTATTTTAAATA
1 --AT--TTATT-GTATGGATTG---A-TTT--ATT
418055 ATTTATTAGTATGGATTGATTTA-T
1 ATTTATT-GTATGGATTGATTTATT
***
418079 -TTTAAAATATGGATTGATTTATT
1 ATTTATTGTATGGATTGATTTATT
418102 ATTGTAGTTGTATGGATTGATT
1 ATT-TA-TTGTATGGATTGATT
418124 ATTTTAAATA
Statistics
Matches: 120, Mismatches: 14, Indels: 40
0.69 0.08 0.23
Matches are distributed among these distances:
22 28 0.23
23 10 0.08
24 4 0.03
25 5 0.04
26 26 0.22
27 3 0.03
28 3 0.03
30 4 0.03
31 28 0.23
32 1 0.01
33 2 0.02
34 1 0.01
35 4 0.03
37 1 0.01
ACGTcount: A:0.31, C:0.00, G:0.17, T:0.53
Consensus pattern (24 bp):
ATTTATTGTATGGATTGATTTATT
Found at i:418039 original size:31 final size:32
Alignment explanation
Indices: 418001--418084 Score: 154
Period size: 31 Copynumber: 2.7 Consensus size: 32
417991 TATTGTAGTT
418001 GTATGGATTGATTTATTTTAAATAA-TTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
418032 GTATGGATTGA-TTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
418063 GTATGGATTGATTTATTTTAAA
1 GTATGGATTGATTTATTTTAAA
418085 ATATGGATTG
Statistics
Matches: 51, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
30 13 0.25
31 28 0.55
32 10 0.20
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (32 bp):
GTATGGATTGATTTATTTTAAATAATTTATTA
Found at i:418183 original size:51 final size:52
Alignment explanation
Indices: 418117--418229 Score: 144
Period size: 52 Copynumber: 2.2 Consensus size: 52
418107 AGTTGTATGG
**
418117 ATTGA-TTATTTTAAATAA-TTATTAGTATGGGTTGA-TTA-TTTAAAATATAA
1 ATTGATTTATTTTAAATAATTTA-TAGTAT-GAATGATTTATTTTAAAATATAA
**
418167 ATTGATTTATTTTAAATAATTTATAGTATGAATGATTTATTTTAAAATATGG
1 ATTGATTTATTTTAAATAATTTATAGTATGAATGATTTATTTTAAAATATAA
418219 ATTGATTTATT
1 ATTGATTTATT
418230 ATTGTAGTTG
Statistics
Matches: 55, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
50 9 0.16
51 22 0.40
52 24 0.44
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (52 bp):
ATTGATTTATTTTAAATAATTTATAGTATGAATGATTTATTTTAAAATATAA
Found at i:418220 original size:128 final size:131
Alignment explanation
Indices: 418038--418344 Score: 516
Period size: 128 Copynumber: 2.4 Consensus size: 131
418028 ATTAGTATGG
418038 ATTGA-TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATT
1 ATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATT
* *
418102 ATTGTAGTTGTATGGATTGATTATTTTAAATAATTATTAGTATGGGTTGA-TTA-TTTAAAATAT
66 ATTGTAGTTGTATAGATTGATTATTTTAAATAA-TATTAGTATGGATTGATTTATTTTAAAATAT
418165 AA
130 AA
*
418167 ATTGATTTATTTTAAATAATTTA-TAGTAT-GAATGATTTATTTTAAAATATGGATTGATTTATT
1 ATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATT
*
418230 ATTGTAGTTGTATAGATTGATTATTTTAAATAATATTAGTATGGATTGATTTATTTTAAAATATG
66 ATTGTAGTTGTATAGATTGATTATTTTAAATAATATTAGTATGGATTGATTTATTTTAAAATATA
*
418295 G
131 A
418296 ATTGATTTATTTTAAAATAATTTATTAGTATGGATTGATTTATTTTAAA
1 ATTGATTTATTTT-AAATAATTTATTAGTATGGATTGATTTATTTTAAA
418345 TAATTTATTA
Statistics
Matches: 166, Mismatches: 6, Indels: 9
0.92 0.03 0.05
Matches are distributed among these distances:
127 15 0.09
128 68 0.41
129 34 0.20
130 27 0.16
131 6 0.04
132 16 0.10
ACGTcount: A:0.36, C:0.00, G:0.14, T:0.51
Consensus pattern (131 bp):
ATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATT
ATTGTAGTTGTATAGATTGATTATTTTAAATAATATTAGTATGGATTGATTTATTTTAAAATATA
A
Found at i:418297 original size:22 final size:22
Alignment explanation
Indices: 418269--418314 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
418259 ATAATATTAG
418269 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
418291 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
418313 TA
1 TA
418315 ATTTATTAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:418351 original size:32 final size:32
Alignment explanation
Indices: 418291--418408 Score: 209
Period size: 32 Copynumber: 3.7 Consensus size: 32
418281 TATTTTAAAA
418291 TATGGATTGATTTATTTTAAAATAATTTATTAG
1 TATGGATTGATTTATTTT-AAATAATTTATTAG
418324 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
418356 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
* *
418388 TATGAATTAATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
418409 ATATGGATTG
Statistics
Matches: 83, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
32 65 0.78
33 18 0.22
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (32 bp):
TATGGATTGATTTATTTTAAATAATTTATTAG
Found at i:418400 original size:18 final size:18
Alignment explanation
Indices: 418313--418403 Score: 72
Period size: 18 Copynumber: 5.5 Consensus size: 18
418303 TATTTTAAAA
*
418313 TAATTTATTAGTATGGAT
1 TAATTTATTAGTATGAAT
* *
418331 TGATTTATT--T-T-AAA
1 TAATTTATTAGTATGAAT
*
418345 TAATTTATTAGTATGGAT
1 TAATTTATTAGTATGAAT
* *
418363 TGATTTATT--T-T-AAA
1 TAATTTATTAGTATGAAT
418377 TAATTTATTAGTATGAAT
1 TAATTTATTAGTATGAAT
418395 TAATTTATT
1 TAATTTATT
418404 TTAAAATATG
Statistics
Matches: 54, Mismatches: 11, Indels: 16
0.67 0.14 0.20
Matches are distributed among these distances:
14 18 0.33
15 2 0.04
16 4 0.07
17 2 0.04
18 28 0.52
ACGTcount: A:0.35, C:0.00, G:0.11, T:0.54
Consensus pattern (18 bp):
TAATTTATTAGTATGAAT
Found at i:418478 original size:112 final size:113
Alignment explanation
Indices: 418239--418488 Score: 357
Period size: 112 Copynumber: 2.2 Consensus size: 113
418229 TATTGTAGTT
* * *
418239 GTATAGATTGA-TTATTTTAAATAATATTAGTATGGATTGATTTATTTTAAAATATGGATTGATT
1 GTATGGATTGATTTATTTTAAATAATATTAGTATGAATTAATTTATTTTAAAATATGGATTGATT
* *
418303 TATTTTAAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTA
66 TA-TTT--AAT-ATGTATTAGTATAGATTGATTTATTTTAAATAATTTATTA
418355 GTATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTAATTTATTTTAAAATATGGATTGA
1 GTATGGATTGATTTATTTTAAATAA--TATTAGTATGAATTAATTTATTTTAAAATATGGATTGA
418420 TTTA-TT-AT-TGTAGTT-GTATAGATTGATTTATTTTAAATAATTTATTA
64 TTTATTTAATATGTA-TTAGTATAGATTGATTTATTTTAAATAATTTATTA
418467 GTATGGATTGATTTATTTTAAA
1 GTATGGATTGATTTATTTTAAA
418489 ATATGTATTG
Statistics
Matches: 125, Mismatches: 5, Indels: 12
0.88 0.04 0.08
Matches are distributed among these distances:
112 56 0.45
113 2 0.02
114 2 0.02
116 10 0.08
117 15 0.12
119 40 0.32
ACGTcount: A:0.36, C:0.00, G:0.13, T:0.52
Consensus pattern (113 bp):
GTATGGATTGATTTATTTTAAATAATATTAGTATGAATTAATTTATTTTAAAATATGGATTGATT
TATTTAATATGTATTAGTATAGATTGATTTATTTTAAATAATTTATTA
Found at i:418550 original size:32 final size:32
Alignment explanation
Indices: 418514--418709 Score: 149
Period size: 32 Copynumber: 6.0 Consensus size: 32
418504 TATTGTAGTT
418514 GTATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
* * *
418546 GTATGGATTTA-TTATTTAAAATATGGATTGATTTA
1 GTATGGATTGATTTATTTTAAATA---ATTTA-TTA
* *
418581 TTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTA
1 --GTA--TGGATTGA----TTTATTTTAAATAATTTATTA
*
418621 GTATTGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
418653 GTATGGATTGATTTA--TT--AT--TGTAGTT-
1 GTATGGATTGATTTATTTTAAATAATTTA-TTA
418679 GTATGGATTGA-TTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
418710 TTGTAATTGT
Statistics
Matches: 129, Mismatches: 14, Indels: 43
0.69 0.08 0.23
Matches are distributed among these distances:
25 3 0.02
26 14 0.11
27 4 0.03
28 2 0.02
29 2 0.02
30 4 0.03
31 14 0.11
32 45 0.35
34 4 0.03
35 3 0.02
36 5 0.04
37 3 0.02
38 3 0.02
39 5 0.04
40 3 0.02
41 4 0.03
44 11 0.09
ACGTcount: A:0.32, C:0.00, G:0.15, T:0.53
Consensus pattern (32 bp):
GTATGGATTGATTTATTTTAAATAATTTATTA
Found at i:418636 original size:18 final size:18
Alignment explanation
Indices: 418613--418670 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
418603 ATTTTAAATA
418613 ATTTATTAGTATTGATTG
1 ATTTATTAGTATTGATTG
* * *
418631 ATTTA-T--T-TTAAATA
1 ATTTATTAGTATTGATTG
*
418645 ATTTATTAGTATGGATTG
1 ATTTATTAGTATTGATTG
418663 ATTTATTA
1 ATTTATTA
418671 TTGTAGTTGT
Statistics
Matches: 29, Mismatches: 7, Indels: 8
0.66 0.16 0.18
Matches are distributed among these distances:
14 9 0.31
15 2 0.07
17 2 0.07
18 16 0.55
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.55
Consensus pattern (18 bp):
ATTTATTAGTATTGATTG
Found at i:418728 original size:57 final size:58
Alignment explanation
Indices: 418621--418729 Score: 143
Period size: 57 Copynumber: 1.9 Consensus size: 58
418611 TAATTTATTA
* * **
418621 GTATTGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTATTGTAGTT
1 GTATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATGGATTATTGTAGTT
418679 GTATGGATTGA-TTATTTTAAATAATTTATTA-T-TGTAATTGTATGGATTATT
1 GTATGGATTGATTTATTTTAAATAATTTATTAGTATG-AATTG-ATGGATTATT
418730 TAAATTTCAG
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
55 2 0.04
56 5 0.11
57 28 0.62
58 10 0.22
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.54
Consensus pattern (58 bp):
GTATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATGGATTATTGTAGTT
Found at i:424917 original size:7 final size:7
Alignment explanation
Indices: 424901--424935 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
424891 ACAGGGCATC
424901 GGTACAT
1 GGTACAT
*
424908 GGTACCT
1 GGTACAT
424915 GGTACAT
1 GGTACAT
*
424922 GGTACCT
1 GGTACAT
424929 GGTACAT
1 GGTACAT
424936 TTATCATTGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.29
Consensus pattern (7 bp):
GGTACAT
Found at i:424920 original size:14 final size:14
Alignment explanation
Indices: 424901--424935 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
424891 ACAGGGCATC
424901 GGTACATGGTACCT
1 GGTACATGGTACCT
424915 GGTACATGGTACCT
1 GGTACATGGTACCT
424929 GGTACAT
1 GGTACAT
424936 TTATCATTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.29
Consensus pattern (14 bp):
GGTACATGGTACCT
Done.