Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009605.1 Hibiscus syriacus cultivar Beakdansim tig00116989_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: 9158330
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 9 of 35
Found at i:1866975 original size:542 final size:538
Alignment explanation
Indices: 1865906--1867107 Score: 1675
Period size: 542 Copynumber: 2.2 Consensus size: 538
1865896 AATTTAAAAT
* * * * *
1865906 GAACAAGTTCTTCTGATTATGAAC-T-TTCT-CC--TATAGGAGGAGTTCTTCTCATTATGAACT
1 GAACAAGATCTTCTCATTATGAACTTCTTCTCCCTGTATCGGAAGAGTTCTTCTAATTATGAACT
** * * * * *
1865966 CTCCATCAGAAATGTTAATCCCTCAAGCGAGGCGTCACTGATTCGAAATACCGTGAATCAAGTGA
66 CTCCATTGGAAATGTCAATCCCTCAAGCGAGGTGTCACTGATTCGAAATGCCATGAATCGAGTGA
* *
1866031 TAGGTCAAACAAGCTCTTCTCATTATGAACTTTTTCTCCCTCTGTCGGACGAGTTCTTCTCATTA
131 TAGGTCAAACAAACTCTTCTCATTATGAACTTATTCTCCCTCTGTCGGACGAGTTCTTCTCATTA
* * * *
1866096 TGAACTCTCAATTAGAAATATCAATCCCGAGGTGTCACTAATTCGAAATACCGTGAATCGAGTGA
196 TGAACTCTCAATTAGAAACATCAATCCCGAGGTGTCACTAATTCAAAATACCATGAATCGAGTAA
** *
1866161 TAAGTCGGACAAGCACTTCTCATTATGAACTTCTTCTCCCTCTATCAGATGAGTTCTTCTCATTA
261 TAAGTCAAACAAGCACTTCTCATTATGAACTTCTTCTCCCTCTATCAGATGAGTTCCTCTCATTA
* *
1866226 TGAACTCTCAATTGGAAATATCAATCCCTCAAGCGAGGTGTCACTGATTCGAAATGCCATGAATC
326 TGAACTCTCAATTGGAAATATCAATCCCTCAAGCGAGGTGTCACTGATTCAAAATACCATGAATC
* * *
1866291 GAGTGATAGGTCGAACAAGCTCTTCTCATTATGAACTTATTCTCCCCCTTTCGGATGAGTTCTTC
391 GAGTGATAGGTCGAACAAACTCTTCTCATTATAAACTTATTCTCCCCCTGTCGGATGAGTTCTTC
* ** *
1866356 TCATTATGAACTCTCCATTGGAAACGTCAATCTCTCAAGCGAGGTGTCACTGATTTGAAATACCT
456 TCATTATGAACTCTCCATTGGAAACGTCAATCCCTCAAGCGAGGTGTCACTGATTCAAAATACCA
*
1866421 TGAATTGAGTGATA-GCTC
521 TGAATCGAGTGATATG-TC
* * * *
1866439 GAATAA-ACTCTTCTCGTTATGAACTTCTTCTCCCTTTATCGGAAGAGTTCTTCTTATTATGAAC
1 GAACAAGA-TCTTCTCATTATGAACTTCTTCTCCCTGTATCGGAAGAGTTCTTCTAATTATGAAC
* * *
1866503 TATCCATTGGAAATGTCAATCCCTCAAGCGAGGTATCACTGATTCAAAATGCCATGAATCGAGTG
65 TCTCCATTGGAAATGTCAATCCCTCAAGCGAGGTGTCACTGATTCGAAATGCCATGAATCGAGTG
* * *
1866568 ATAGGTCGAACAAACTCTTCTCATTATGAACTTATTCTCCCTCTGTCGGATGAGTTCTTCTTATT
130 ATAGGTCAAACAAACTCTTCTCATTATGAACTTATTCTCCCTCTGTCGGACGAGTTCTTCTCATT
* ** * *
1866633 ATGAACTCTCAATTGGTTACGTCAATCCCTCAAGCGAGGTGTCACTAATTCAAAATATCATGAAT
195 ATGAACTCTCAATTAGAAACATCAAT--C-C---CGAGGTGTCACTAATTCAAAATACCATGAAT
* * * * *
1866698 CGAGTAATAGGTCAAACAAGCTCTTCTTATTATGAACTTCTTCTCCGTCTATCGGATGAG-TCCT
254 CGAGTAATAAGTCAAACAAGCACTTCTCATTATGAACTTCTTCTCCCTCTATCAGATGAGTTCCT
* * * *
1866762 -TCATTATGAACTCTCCATTGGAAATGTCAATCCCTCAAGTGAGGTGTCACTGATTTAAAATACC
319 CTCATTATGAACTCTCAATTGGAAATATCAATCCCTCAAGCGAGGTGTCACTGATTCAAAATACC
* * *
1866826 ATGAATCGAGTGATATGTCGAACAAACTCTTCTCATTATAAACTTGTTCTCCCTCTGTCGGATGA
384 ATGAATCGAGTGATAGGTCGAACAAACTCTTCTCATTATAAACTTATTCTCCCCCTGTCGGATGA
* *
1866891 GTTCTTCTCATTATGAACTCTCCATTGGAAATGTTAATCCCTCAAGCGAGGTGTCACTGATTCAA
449 GTTCTTCTCATTATGAACTCTCCATTGGAAACGTCAATCCCTCAAGCGAGGTGTCACTGATTCAA
* *
1866956 AATATCATGAATCGAGTGATATGTT
514 AATACCATGAATCGAGTGATATGTC
* *
1866981 GAACAAGATCTTCTCATTATGAACTTCTTCTCCCTGTGTCGGATGAGTTCTTCTAATTATGAACT
1 GAACAAGATCTTCTCATTATGAACTTCTTCTCCCTGTATCGGAAGAGTTCTTCTAATTATGAACT
* *
1867046 CTCCATTGGAAATGTCCATCCCTCAAGCGAGGTGTCACTGATTTGAAATGCCATGAATCGAG
66 CTCCATTGGAAATGTCAATCCCTCAAGCGAGGTGTCACTGATTCGAAATGCCATGAATCGAG
1867108 CAACGAAAAT
Statistics
Matches: 584, Mismatches: 71, Indels: 19
0.87 0.11 0.03
Matches are distributed among these distances:
533 19 0.03
534 1 0.00
535 4 0.01
536 2 0.00
538 161 0.28
540 1 0.00
541 1 0.00
542 310 0.53
543 5 0.01
544 80 0.14
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (538 bp):
GAACAAGATCTTCTCATTATGAACTTCTTCTCCCTGTATCGGAAGAGTTCTTCTAATTATGAACT
CTCCATTGGAAATGTCAATCCCTCAAGCGAGGTGTCACTGATTCGAAATGCCATGAATCGAGTGA
TAGGTCAAACAAACTCTTCTCATTATGAACTTATTCTCCCTCTGTCGGACGAGTTCTTCTCATTA
TGAACTCTCAATTAGAAACATCAATCCCGAGGTGTCACTAATTCAAAATACCATGAATCGAGTAA
TAAGTCAAACAAGCACTTCTCATTATGAACTTCTTCTCCCTCTATCAGATGAGTTCCTCTCATTA
TGAACTCTCAATTGGAAATATCAATCCCTCAAGCGAGGTGTCACTGATTCAAAATACCATGAATC
GAGTGATAGGTCGAACAAACTCTTCTCATTATAAACTTATTCTCCCCCTGTCGGATGAGTTCTTC
TCATTATGAACTCTCCATTGGAAACGTCAATCCCTCAAGCGAGGTGTCACTGATTCAAAATACCA
TGAATCGAGTGATATGTC
Found at i:1867208 original size:42 final size:41
Alignment explanation
Indices: 1867147--1867264 Score: 191
Period size: 42 Copynumber: 2.8 Consensus size: 41
1867137 GAAGGTATTA
* * *
1867147 CTCGAAAGGCTTACAGATGACCTGAAGGATTTAAGCATCATG
1 CTCGAAAGACTTACTGATGACCCGAAGGATTTAA-CATCATG
1867189 CTCGAAAGACTTACTGATGACCCGAAGGATTTACACATCATG
1 CTCGAAAGACTTACTGATGACCCGAAGGATTTA-ACATCATG
1867231 CTCGAAAGACTTACTGATGACCCGAAGGATTTAA
1 CTCGAAAGACTTACTGATGACCCGAAGGATTTAA
1867265 AAATCAAGAA
Statistics
Matches: 72, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
41 1 0.01
42 70 0.97
43 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (41 bp):
CTCGAAAGACTTACTGATGACCCGAAGGATTTAACATCATG
Found at i:1867222 original size:20 final size:20
Alignment explanation
Indices: 1867199--1867263 Score: 60
Period size: 20 Copynumber: 3.1 Consensus size: 20
1867189 CTCGAAAGAC
1867199 TTACTGATGACCCGAAGGAT
1 TTACTGATGACCCGAAGGAT
* * * *
1867219 TTACACATCATG-CTCGAAAGAC
1 TT--AC-TGATGACCCGAAGGAT
1867241 TTACTGATGACCCGAAGGAT
1 TTACTGATGACCCGAAGGAT
1867261 TTA
1 TTA
1867264 AAAATCAAGA
Statistics
Matches: 33, Mismatches: 8, Indels: 8
0.67 0.16 0.16
Matches are distributed among these distances:
19 4 0.12
20 14 0.42
22 11 0.33
23 4 0.12
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (20 bp):
TTACTGATGACCCGAAGGAT
Found at i:1867236 original size:22 final size:21
Alignment explanation
Indices: 1867170--1867236 Score: 57
Period size: 22 Copynumber: 3.1 Consensus size: 21
1867160 CAGATGACCT
1867170 GAAGGATTTAAGCATCATGCTC
1 GAAGGATTTAA-CATCATGCTC
* * * *
1867192 GAAAGACTT-AC-TGATGACCC
1 GAAGGATTTAACATCATG-CTC
1867212 GAAGGATTTACACATCATGCTC
1 GAAGGATTTA-ACATCATGCTC
1867234 GAA
1 GAA
1867237 AGACTTACTG
Statistics
Matches: 33, Mismatches: 8, Indels: 8
0.67 0.16 0.16
Matches are distributed among these distances:
19 4 0.12
20 10 0.30
21 1 0.03
22 14 0.42
23 4 0.12
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (21 bp):
GAAGGATTTAACATCATGCTC
Found at i:1867244 original size:22 final size:22
Alignment explanation
Indices: 1867182--1867244 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 22
1867172 AGGATTTAAG
1867182 CATCATGCTCGAAAGACTT--A
1 CATCATGCTCGAAAGACTTACA
* * * *
1867202 C-TGATGACCCGAAGGATTTACA
1 CATCATG-CTCGAAAGACTTACA
1867224 CATCATGCTCGAAAGACTTAC
1 CATCATGCTCGAAAGACTTAC
1867245 TGATGACCCG
Statistics
Matches: 31, Mismatches: 8, Indels: 6
0.69 0.18 0.13
Matches are distributed among these distances:
19 4 0.13
20 10 0.32
22 13 0.42
23 4 0.13
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.24
Consensus pattern (22 bp):
CATCATGCTCGAAAGACTTACA
Found at i:1870138 original size:7 final size:7
Alignment explanation
Indices: 1870127--1870181 Score: 69
Period size: 7 Copynumber: 7.9 Consensus size: 7
1870117 ACCTTATAAC
*
1870127 TCTTTTC
1 TCTTTTT
1870134 TCTTTTTT
1 TC-TTTTT
1870142 TCTTTTT
1 TCTTTTT
1870149 TCTTTTT
1 TCTTTTT
1870156 TCTTTATT
1 TCTTT-TT
1870164 TCTTTTT
1 TCTTTTT
1870171 T-TTTTT
1 TCTTTTT
1870177 T-TTTT
1 TCTTTT
1870182 CTGATGGATA
Statistics
Matches: 45, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
6 10 0.22
7 22 0.49
8 13 0.29
ACGTcount: A:0.02, C:0.13, G:0.00, T:0.85
Consensus pattern (7 bp):
TCTTTTT
Found at i:1870147 original size:15 final size:15
Alignment explanation
Indices: 1870127--1870178 Score: 72
Period size: 15 Copynumber: 3.5 Consensus size: 15
1870117 ACCTTATAAC
*
1870127 TCTTTTCTCTTTTTT
1 TCTTTTTTCTTTTTT
1870142 TCTTTTTTC-TTTTT
1 TCTTTTTTCTTTTTT
1870156 TCTTTATTTCTTTTTT
1 TCTTT-TTTCTTTTTT
1870172 T-TTTTTT
1 TCTTTTTT
1870179 TTTCTGATGG
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
14 13 0.38
15 15 0.44
16 6 0.18
ACGTcount: A:0.02, C:0.13, G:0.00, T:0.85
Consensus pattern (15 bp):
TCTTTTTTCTTTTTT
Found at i:1870159 original size:22 final size:22
Alignment explanation
Indices: 1870127--1870181 Score: 78
Period size: 22 Copynumber: 2.6 Consensus size: 22
1870117 ACCTTATAAC
*
1870127 TCTTTTCTCTTTTTTTCTTTTT
1 TCTTTTTTCTTTTTTTCTTTTT
*
1870149 TCTTTTTTCTTTATTTCTTTTT
1 TCTTTTTTCTTTTTTTCTTTTT
1870171 T-TTTTTT-TTTT
1 TCTTTTTTCTTTT
1870182 CTGATGGATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
20 3 0.10
21 6 0.20
22 21 0.70
ACGTcount: A:0.02, C:0.13, G:0.00, T:0.85
Consensus pattern (22 bp):
TCTTTTTTCTTTTTTTCTTTTT
Found at i:1873533 original size:1 final size:1
Alignment explanation
Indices: 1873529--1873570 Score: 57
Period size: 1 Copynumber: 42.0 Consensus size: 1
1873519 TCTTTTTTCC
* * *
1873529 TTTTTTTTTCTTTTCTCTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1873571 CTGATGGATA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (1 bp):
T
Found at i:1873542 original size:7 final size:7
Alignment explanation
Indices: 1873517--1873572 Score: 51
Period size: 7 Copynumber: 7.7 Consensus size: 7
1873507 CTTGATTCAA
1873517 TTTCTTT
1 TTTCTTT
1873524 TTTCCTTT
1 TTT-CTTT
*
1873532 TTTTTTCT
1 TTTCTT-T
1873540 TTTCTCTT
1 TTTCT-TT
1873548 TTT-TTT
1 TTTCTTT
*
1873554 TTTTTTT
1 TTTCTTT
*
1873561 TTTTTTT
1 TTTCTTT
1873568 TTTCT
1 TTTCT
1873573 GATGGATAAG
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
6 5 0.12
7 20 0.48
8 16 0.38
9 1 0.02
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTCTTT
Found at i:1873549 original size:23 final size:23
Alignment explanation
Indices: 1873517--1873565 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
1873507 CTTGATTCAA
*
1873517 TTTCTTTTTTCCTTTTTTTTTCT
1 TTTCTCTTTTCCTTTTTTTTTCT
** *
1873540 TTTCTCTTTTTTTTTTTTTTTTT
1 TTTCTCTTTTCCTTTTTTTTTCT
1873563 TTT
1 TTT
1873566 TTTTTCTGAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (23 bp):
TTTCTCTTTTCCTTTTTTTTTCT
Found at i:1873557 original size:25 final size:25
Alignment explanation
Indices: 1873519--1873567 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
1873509 TGATTCAATT
1873519 TCTTTTTTCCTTTTTTTTTCTTTTC
1 TCTTTTTTCCTTTTTTTTTCTTTTC
** *
1873544 TCTTTTTTTTTTTTTTTTTTTTTT
1 TCTTTTTTCCTTTTTTTTTCTTTT
1873568 TTTCTGATGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (25 bp):
TCTTTTTTCCTTTTTTTTTCTTTTC
Found at i:1877495 original size:63 final size:62
Alignment explanation
Indices: 1877296--1877520 Score: 240
Period size: 63 Copynumber: 3.6 Consensus size: 62
1877286 TATTCATGAT
* * ** * *
1877296 CATCATGCAGAATGTGAAGATGCAAATATAGATACAAAAGTGATGATCCTCTGAAATGCAATA
1 CATCATGCAGAATGCGAAGATACAAATGCAGATGCAAAA-TGATGATCCTCTGAAATTCAATA
* * * * * *
1877359 CACCATGCAAAATGCGAAGATGCATATGCAGATGCAAAAT--TGATCCTCTAAAATAT-AATG
1 CATCATGCAGAATGCGAAGATACAAATGCAGATGCAAAATGATGATCCTCTGAAAT-TCAATA
* * *
1877419 CATCATGCAGAATGCGAAGATACAAATGCCGATGTAAAATTGATGATCCTATGAAATTCAATA
1 CATCATGCAGAATGCGAAGATACAAATGCAGATGCAAAA-TGATGATCCTCTGAAATTCAATA
* * *
1877482 CATCATACAGAATGCAAAGATACAAATGTAGATGCAAAA
1 CATCATGCAGAATGCGAAGATACAAATGCAGATGCAAAA
1877521 ATTTTGATCC
Statistics
Matches: 133, Mismatches: 24, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
60 49 0.37
61 1 0.01
62 2 0.02
63 81 0.61
ACGTcount: A:0.44, C:0.16, G:0.17, T:0.23
Consensus pattern (62 bp):
CATCATGCAGAATGCGAAGATACAAATGCAGATGCAAAATGATGATCCTCTGAAATTCAATA
Found at i:1877515 original size:123 final size:123
Alignment explanation
Indices: 1877296--1877520 Score: 297
Period size: 123 Copynumber: 1.8 Consensus size: 123
1877286 TATTCATGAT
* * * *
1877296 CATCATGCAGAATGTGAAGATGCAAATATAGATACAAAAGTGATGATCCTCTGAAATGCAATACA
1 CATCATGCAGAATGCGAAGATACAAATACAGATACAAAAGTGATGATCCTATGAAATGCAATACA
* * * *
1877361 CCATGCAAAATGCGAAGATGCATATGCAGATGCAAAATTGATCCTCTAAAATATAATG
66 CCATACAAAATGCAAAGATACAAATGCAGATGCAAAATTGATCCTCTAAAATATAATG
* * ** * *
1877419 CATCATGCAGAATGCGAAGATACAAATGCCGATGTAAAATTGATGATCCTATGAAATTCAATACA
1 CATCATGCAGAATGCGAAGATACAAATACAGATACAAAAGTGATGATCCTATGAAATGCAATACA
* * *
1877484 TCATACAGAATGCAAAGATACAAATGTAGATGCAAAA
66 CCATACAAAATGCAAAGATACAAATGCAGATGCAAAA
1877521 ATTTTGATCC
Statistics
Matches: 85, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
123 85 1.00
ACGTcount: A:0.44, C:0.16, G:0.17, T:0.23
Consensus pattern (123 bp):
CATCATGCAGAATGCGAAGATACAAATACAGATACAAAAGTGATGATCCTATGAAATGCAATACA
CCATACAAAATGCAAAGATACAAATGCAGATGCAAAATTGATCCTCTAAAATATAATG
Found at i:1879559 original size:2 final size:2
Alignment explanation
Indices: 1879552--1879613 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
1879542 TATAAATTAT
1879552 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1879594 TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA
1879614 ATGCATAAGG
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1884714 original size:18 final size:18
Alignment explanation
Indices: 1884693--1884735 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
1884683 AAAGGAAATT
*
1884693 AAAAAAAGAATAAAAGAG
1 AAAAAAAGAAGAAAAGAG
* * *
1884711 AAAAAATGAAGGAAAGAT
1 AAAAAAAGAAGAAAAGAG
1884729 AAAAAAA
1 AAAAAAA
1884736 CAAAAACAAA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.77, C:0.00, G:0.16, T:0.07
Consensus pattern (18 bp):
AAAAAAAGAAGAAAAGAG
Found at i:1886308 original size:117 final size:117
Alignment explanation
Indices: 1886071--1886340 Score: 287
Period size: 117 Copynumber: 2.3 Consensus size: 117
1886061 AATATTTGAA
* *
1886071 TTTT-CAGATTTGATCTTCCCTGAAAAAGTAGTGGAGAAAATCTTCCCTGAAGAGCAATAGAGTG
1 TTTTCCAGATTTGATCTTCCCTG-AAAAGTAGTGGAGAAAATCTACCCTAAAGAGCAATAGAGTG
** ** * * * **** *
1886135 AATTAAAATTTTCCTTATCTTATCTTATTTGAAGAGTAGTGGAGCAGATTCCT
65 AACCAAAATTTTCCGAATCTGATCTTATCTGAAGAGCAACAAAGCAGATTCAT
* * *
1886188 TTTTCCATATTTGATCTTCCCTGAAAAGTAGTGGAGAAAATCTACCCTAAAGAGCAGTGGAGTGA
1 TTTTCCAGATTTGATCTTCCCTGAAAAGTAGTGGAGAAAATCTACCCTAAAGAGCAATAGAGTGA
*
1886253 ACCAAAATTTTCCAGAAT-TGATCTT-TCCTGAAGAGCAACAAAGCATA-TCAAT
66 ACCAAAATTTTCC-GAATCTGATCTTAT-CTGAAGAGCAACAAAGCAGATTC-AT
* * *
1886305 TTTTCCAGGTTTGATCTCCCCTGAAGAGTAGTGGAG
1 TTTTCCAGATTTGATCTTCCCTGAAAAGTAGTGGAG
1886341 CAATTATACC
Statistics
Matches: 127, Mismatches: 22, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
116 3 0.02
117 105 0.83
118 19 0.15
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (117 bp):
TTTTCCAGATTTGATCTTCCCTGAAAAGTAGTGGAGAAAATCTACCCTAAAGAGCAATAGAGTGA
ACCAAAATTTTCCGAATCTGATCTTATCTGAAGAGCAACAAAGCAGATTCAT
Found at i:1886654 original size:132 final size:130
Alignment explanation
Indices: 1886356--1886702 Score: 342
Period size: 132 Copynumber: 2.7 Consensus size: 130
1886346 ATACCGTGAT
* * *
1886356 TCAATCTTCCCTGAAGAGCAGTGGAGTGAATC-AATTTTTCCAGATATAATCTTCCTTGAAGAGT
1 TCAATCTTCCCTGAAGAGCAGTGGAGTGAATCAAAATTTTACAGATATAATCTTCCTTGAAGAGC
* * * ** * *
1886420 AGCAGAAAAGATCCCTTTTTCCATATTTGATCTTCCTAAAAAGCATTGGAACAAATTTACTCAAT
66 AGCAGAAAAGATCCCTTTTTACATATTTGATCTTCCTAAAAAGAAATGGAACAAAACTACCCAAC
* * * *
1886485 TCAATCTTCCCTGTAA-AGCAGTGGAGTGAATCAAAATTTTATAGATCTGATGTTCCCTT-AAGA
1 TCAATCTTCCCTG-AAGAGCAGTGGAGTGAATCAAAATTTTACAGATATAATCTT-CCTTGAAGA
* * * * * *
1886548 GCATCA-AAGCATATCCCTTTTTATATATTTGATCTTCCCTAAAGAGAAATGGACCAAAACTACC
64 GCAGCAGAA-AAGATCCCTTTTTACATATTTGATCTT-CCTAAAAAGAAATGGAACAAAACTACC
1886612 CTAAC
127 C-AAC
* * ** * * *
1886617 TCAATCTTTCCTGAAGAGCAGTGGAATGAATCAAAATTTCCCAGATATGATCTTCCCTGAAAAGC
1 TCAATCTTCCCTGAAGAGCAGTGGAGTGAATCAAAATTTTACAGATATAATCTTCCTTGAAGAGC
* **
1886682 AGTAGAGGAGATCCCCTTTTT
66 AGCAGAAAAGAT-CCCTTTTT
1886703 CTAGATTCTA
Statistics
Matches: 174, Mismatches: 34, Indels: 16
0.78 0.15 0.07
Matches are distributed among these distances:
129 31 0.18
130 48 0.28
131 30 0.17
132 56 0.32
133 9 0.05
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.31
Consensus pattern (130 bp):
TCAATCTTCCCTGAAGAGCAGTGGAGTGAATCAAAATTTTACAGATATAATCTTCCTTGAAGAGC
AGCAGAAAAGATCCCTTTTTACATATTTGATCTTCCTAAAAAGAAATGGAACAAAACTACCCAAC
Found at i:1887151 original size:22 final size:20
Alignment explanation
Indices: 1887119--1887159 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
1887109 GAGTATAAAT
1887119 AAAATAATATATATAAGTTTTA
1 AAAATAATATAT-T-AGTTTTA
*
1887141 AAAATATTATATTAGTTTT
1 AAAATAATATATTAGTTTT
1887160 TGAAAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 1 0.06
22 11 0.61
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (20 bp):
AAAATAATATATTAGTTTTA
Found at i:1887222 original size:18 final size:17
Alignment explanation
Indices: 1887207--1887240 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
1887197 ACATATATTT
*
1887207 TATAGTTTTGAAATATA
1 TATAGTTTCGAAATATA
1887224 TATAGTTTCGAAA-ATA
1 TATAGTTTCGAAATATA
1887240 T
1 T
1887241 GGTTTTTGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.41, C:0.03, G:0.12, T:0.44
Consensus pattern (17 bp):
TATAGTTTCGAAATATA
Found at i:1894271 original size:153 final size:150
Alignment explanation
Indices: 1893965--1894271 Score: 515
Period size: 153 Copynumber: 2.0 Consensus size: 150
1893955 AAGGTGGAGG
*
1893965 ATCAACATAAAAAATTTCTTTCCGAGGTAGATCAAGAGACCTACGATGATGTTGGAGGATTTGTG
1 ATCAACATAAAAAATTTCTTTCCGAGGTAGATCAAGAGACCTACAATGATGTTGGAGGATTTGTG
1894030 TTTCGACTGGGTGAAGTGTGAAGGGAATGCACCACCCGAAAGTGTGTAGACCGCCGATCCCTTAA
66 TTTCGACTGGGTGAAGTGTGAAGGGAATGCACCACCCGAAAGTGTGTAGACCGCCGATCCCTTAA
* *
1894095 GCTAGTAACCAAGCTGTGGA
131 GCCAGTAACCAAGCTGTGAA
*
1894115 ATCAACATAAAAAATTTCTTTCCGAGGTAGATCAAGAGACGTACAATGATGTGGTGGAGGATTTG
1 ATCAACATAAAAAATTTCTTTCCGAGGTAGATCAAGAGACCTACAATGATGT--TGGAGGATTTG
* *
1894180 TGTTTCGGCTGGGTGAAGTTTGAAGGGAATGCACCCACCCGAAAGTGTGTAGACCGCCGATCCCT
64 TGTTTCGACTGGGTGAAGTGTGAAGGGAATGCA-CCACCCGAAAGTGTGTAGACCGCCGATCCCT
* *
1894245 TAAGCCATTAACCAAGTTGTGAA
128 TAAGCCAGTAACCAAGCTGTGAA
1894268 ATCA
1 ATCA
1894272 TTTTTTGAAA
Statistics
Matches: 146, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
150 50 0.34
152 42 0.29
153 54 0.37
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (150 bp):
ATCAACATAAAAAATTTCTTTCCGAGGTAGATCAAGAGACCTACAATGATGTTGGAGGATTTGTG
TTTCGACTGGGTGAAGTGTGAAGGGAATGCACCACCCGAAAGTGTGTAGACCGCCGATCCCTTAA
GCCAGTAACCAAGCTGTGAA
Found at i:1900677 original size:22 final size:22
Alignment explanation
Indices: 1900652--1900697 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
1900642 AATGGTTATT
* *
1900652 ATATATATGATTTTTATCATGA
1 ATATATATAATGTTTATCATGA
*
1900674 ATATATATAATGTTTATTATGA
1 ATATATATAATGTTTATCATGA
1900696 AT
1 AT
1900698 GTTACTTCGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.39, C:0.02, G:0.09, T:0.50
Consensus pattern (22 bp):
ATATATATAATGTTTATCATGA
Found at i:1901455 original size:16 final size:15
Alignment explanation
Indices: 1901428--1901463 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
1901418 ATATGTAATT
*
1901428 TATTAATATAATTAG
1 TATTAATATAATTAA
1901443 TATTAATTATAATTAA
1 TATTAA-TATAATTAA
1901459 TATTA
1 TATTA
1901464 TGACATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (15 bp):
TATTAATATAATTAA
Found at i:1906871 original size:18 final size:18
Alignment explanation
Indices: 1906848--1906883 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
1906838 TTTGACGGTC
1906848 AATTTTGAAAATTTACCA
1 AATTTTGAAAATTTACCA
1906866 AATTTTGAAAATTTACCA
1 AATTTTGAAAATTTACCA
1906884 TAAATTGTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.11, G:0.06, T:0.39
Consensus pattern (18 bp):
AATTTTGAAAATTTACCA
Found at i:1907293 original size:22 final size:22
Alignment explanation
Indices: 1907268--1907313 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
1907258 ACTGGTTATT
*
1907268 ATATATATGATTTTTATCATGA
1 ATATATATGATGTTTATCATGA
*
1907290 ATATATATGATGTTTATTATGA
1 ATATATATGATGTTTATCATGA
1907312 AT
1 AT
1907314 GTTACTTCGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.37, C:0.02, G:0.11, T:0.50
Consensus pattern (22 bp):
ATATATATGATGTTTATCATGA
Found at i:1907488 original size:22 final size:22
Alignment explanation
Indices: 1907463--1907508 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
1907453 ACTGGTTATT
*
1907463 ATATATATGATTTTTATCATGA
1 ATATATATGATGTTTATCATGA
*
1907485 ATATATATGATGTTTATTATGA
1 ATATATATGATGTTTATCATGA
1907507 AT
1 AT
1907509 GTTACTTCGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.37, C:0.02, G:0.11, T:0.50
Consensus pattern (22 bp):
ATATATATGATGTTTATCATGA
Found at i:1907700 original size:20 final size:20
Alignment explanation
Indices: 1907672--1907719 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
1907662 ACTAGTGTGT
* *
1907672 AAGGACACTAAGTGCAAGTG
1 AAGGGCACTAAGTGCAAGTA
* *
1907692 AAGGGCACTAAGTGTAGGTA
1 AAGGGCACTAAGTGCAAGTA
1907712 AAGGGCAC
1 AAGGGCAC
1907720 AACCTTATGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.38, C:0.15, G:0.33, T:0.15
Consensus pattern (20 bp):
AAGGGCACTAAGTGCAAGTA
Found at i:1915039 original size:21 final size:21
Alignment explanation
Indices: 1915006--1915056 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
1914996 GATTCCTTTG
*
1915006 AAAAGTATGTCCCCCAGACAC
1 AAAAGTATCTCCCCCAGACAC
*
1915027 AAACGTATCTCCCCCAGACAC
1 AAAAGTATCTCCCCCAGACAC
1915048 AAAAGTATC
1 AAAAGTATC
1915057 ATTTAATGGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.39, C:0.33, G:0.12, T:0.16
Consensus pattern (21 bp):
AAAAGTATCTCCCCCAGACAC
Found at i:1934520 original size:12 final size:12
Alignment explanation
Indices: 1934501--1934533 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
1934491 ACATGTATTT
1934501 TAGTATAAAACA
1 TAGTATAAAACA
*
1934513 TCGTATAAAACA
1 TAGTATAAAACA
1934525 TAGTATAAA
1 TAGTATAAA
1934534 TTCATTTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.55, C:0.09, G:0.09, T:0.27
Consensus pattern (12 bp):
TAGTATAAAACA
Found at i:1934793 original size:27 final size:27
Alignment explanation
Indices: 1934752--1934819 Score: 102
Period size: 27 Copynumber: 2.6 Consensus size: 27
1934742 CAGTATAAAC
*
1934752 TGCC-TGTAATAGTATAGCACATTTAA
1 TGCCATGTAATTGTATAGCACATTTAA
* *
1934778 TGCCATGTAATTGTATGGCACATTTAG
1 TGCCATGTAATTGTATAGCACATTTAA
1934805 TGCCATGTAATTGTA
1 TGCCATGTAATTGTA
1934820 ATTGCACCAT
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
26 4 0.11
27 34 0.89
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.37
Consensus pattern (27 bp):
TGCCATGTAATTGTATAGCACATTTAA
Found at i:1941510 original size:26 final size:26
Alignment explanation
Indices: 1941479--1941544 Score: 132
Period size: 26 Copynumber: 2.5 Consensus size: 26
1941469 GCATGGTCTT
1941479 GTGCATCGATGCATCAAATGCACTGA
1 GTGCATCGATGCATCAAATGCACTGA
1941505 GTGCATCGATGCATCAAATGCACTGA
1 GTGCATCGATGCATCAAATGCACTGA
1941531 GTGCATCGATGCAT
1 GTGCATCGATGCAT
1941545 GGTATATGCA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.24
Consensus pattern (26 bp):
GTGCATCGATGCATCAAATGCACTGA
Found at i:1944372 original size:20 final size:20
Alignment explanation
Indices: 1944320--1944375 Score: 62
Period size: 22 Copynumber: 2.7 Consensus size: 20
1944310 ACATCTTTAT
1944320 GGTGTATCGATGCACATTCAA
1 GGTGTATCGATGCACATT-AA
1944341 GGAT-TCATCGATGCACTATT-A
1 GG-TGT-ATCGATGCAC-ATTAA
1944362 GGTGTATCGATGCA
1 GGTGTATCGATGCA
1944376 TGAAACACAA
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
20 10 0.32
21 7 0.23
22 11 0.35
23 3 0.10
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (20 bp):
GGTGTATCGATGCACATTAA
Found at i:1953112 original size:18 final size:18
Alignment explanation
Indices: 1953085--1953128 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
1953075 TTAAATAAAT
*
1953085 TGCACCTATGAATCTCAA
1 TGCACATATGAATCTCAA
1953103 TGCACATATGAATCTCAA
1 TGCACATATGAATCTCAA
1953121 TGCACATA
1 TGCACATA
1953129 CAATAGGCCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.36, C:0.25, G:0.11, T:0.27
Consensus pattern (18 bp):
TGCACATATGAATCTCAA
Found at i:1956517 original size:21 final size:20
Alignment explanation
Indices: 1956491--1956533 Score: 77
Period size: 21 Copynumber: 2.1 Consensus size: 20
1956481 TACTGCACCT
1956491 TCTAATTGATCATACAGACCA
1 TCTAATTGATCATACA-ACCA
1956512 TCTAATTGATCATACAACCA
1 TCTAATTGATCATACAACCA
1956532 TC
1 TC
1956534 AATCCTAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.37, C:0.26, G:0.07, T:0.30
Consensus pattern (20 bp):
TCTAATTGATCATACAACCA
Found at i:1966738 original size:134 final size:133
Alignment explanation
Indices: 1966485--1966738 Score: 350
Period size: 133 Copynumber: 1.9 Consensus size: 133
1966475 AATCTGAGAT
* * * *
1966485 TAGTGGAATGAATCAACATTTCCAGTTCTGATCTACCCTGAAGAAGCAGCGGAGCAGATGCCCCT
1 TAGTGGAATGAATCAACATTTCCAGTTCTAATATACCCTGAAAAAGCAGCGAAGCAGATGCCCCT
* * * * *
1966550 TTTCATATTTGATCTTCCCTGAAGAAGAATTAGAGCAAGTCTTCCTTGATTCAATCTTTCTTGAA
66 TTTCAAATTTGATATTCCCTGAAGAAGAAGTAGAACAAGTCTTCCTGGATTCAATCTTTCTTGAA
1966615 GAA
131 GAA
* *
1966618 TAGTGGAATTAATCAACATTTCCA-TATCTAATATACCCTGAAAAAGTAGCGAAGCAGAT-CCCC
1 TAGTGGAATGAATCAACATTTCCAGT-TCTAATATACCCTGAAAAAGCAGCGAAGCAGATGCCCC
* *
1966681 TTTATTCAAATTTGATATTCCCTGAAGAAGTAGTGGAACAAGTCTTCCTGGATTCAAT
65 -TT-TTCAAATTTGATATTCCCTGAAGAAGAAGTAGAACAAGTCTTCCTGGATTCAAT
1966739 ATTCCATGAA
Statistics
Matches: 105, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
132 5 0.05
133 53 0.50
134 47 0.45
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (133 bp):
TAGTGGAATGAATCAACATTTCCAGTTCTAATATACCCTGAAAAAGCAGCGAAGCAGATGCCCCT
TTTCAAATTTGATATTCCCTGAAGAAGAAGTAGAACAAGTCTTCCTGGATTCAATCTTTCTTGAA
GAA
Found at i:1966749 original size:134 final size:134
Alignment explanation
Indices: 1966485--1966760 Score: 351
Period size: 134 Copynumber: 2.1 Consensus size: 134
1966475 AATCTGAGAT
* * * *
1966485 TAGTGGAATGAATCAACATTTCCAGTTCTGATCTACCCTGAAGAAGCAGCGGAGCAGATGCCCCT
1 TAGTGGAATGAATCAACATTTCCAGTTCTAATATACCCTGAAAAAGCAGCGAAGCAGATGCCCCT
* * * * * * * *
1966550 TTTCATATTTGATCTTCCCTGAAGAAGAATTAGAGCAAGTCTTCCTTGATTCAATCTTTCTTGAA
66 TTTCAAATTTGATATTCCCTGAAGAAGAAGTAGAACAAGTCTTCCTGGATTCAATATTCCATGAA
1966615 GAA-
131 GAAG
* *
1966618 TAGTGGAATTAATCAACATTTCCA-TATCTAATATACCCTGAAAAAGTAGCGAAGCAGAT-CCCC
1 TAGTGGAATGAATCAACATTTCCAGT-TCTAATATACCCTGAAAAAGCAGCGAAGCAGATGCCCC
* *
1966681 TTTATTCAAATTTGATATTCCCTGAAGAAGTAGTGGAACAAGTCTTCCTGGATTCAATATTCCAT
65 -TT-TTCAAATTTGATATTCCCTGAAGAAGAAGTAGAACAAGTCTTCCTGGATTCAATATTCCAT
1966746 GAAGAAG
128 GAAGAAG
*
1966753 CAGTGGAA
1 TAGTGGAA
1966761 CAAGTCTACC
Statistics
Matches: 122, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
132 5 0.04
133 53 0.43
134 57 0.47
135 7 0.06
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.30
Consensus pattern (134 bp):
TAGTGGAATGAATCAACATTTCCAGTTCTAATATACCCTGAAAAAGCAGCGAAGCAGATGCCCCT
TTTCAAATTTGATATTCCCTGAAGAAGAAGTAGAACAAGTCTTCCTGGATTCAATATTCCATGAA
GAAG
Found at i:1966758 original size:42 final size:42
Alignment explanation
Indices: 1966695--1966798 Score: 156
Period size: 42 Copynumber: 2.5 Consensus size: 42
1966685 TTCAAATTTG
* * * *
1966695 ATATTCCCTGAAGAAGTAGTGGAACAAGTCTTCCTGGATTCA
1 ATATTCCATGAAGAAGCAGTGGAACAAGTCTACCTCGATTCA
1966737 ATATTCCATGAAGAAGCAGTGGAACAAGTCTACCTCGATTCA
1 ATATTCCATGAAGAAGCAGTGGAACAAGTCTACCTCGATTCA
*
1966779 ATATTCCTTGAAGAA-CAGTG
1 ATATTCCATGAAGAAGCAGTG
1966799 AAATGAACCA
Statistics
Matches: 57, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
41 5 0.09
42 52 0.91
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (42 bp):
ATATTCCATGAAGAAGCAGTGGAACAAGTCTACCTCGATTCA
Found at i:1967055 original size:3 final size:3
Alignment explanation
Indices: 1967047--1967100 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
1967037 TCTAAATACC
1967047 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1967095 ATT ATT
1 ATT ATT
1967101 TGTTTTCAGG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:1969956 original size:29 final size:29
Alignment explanation
Indices: 1969902--1969967 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
1969892 ATCATCCTCG
* *
1969902 TCTTGATTATGCATGAGGTATTATCCCAA
1 TCTTGATTATGCATGAGATATCATCCCAA
* *
1969931 TCTTGATTTTGCATGAGATCA-CATCCCCA
1 TCTTGATTATGCATGAGAT-ATCATCCCAA
*
1969960 TCCTGATT
1 TCTTGATT
1969968 CTGTATGGGA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 30 0.97
30 1 0.03
ACGTcount: A:0.24, C:0.23, G:0.15, T:0.38
Consensus pattern (29 bp):
TCTTGATTATGCATGAGATATCATCCCAA
Found at i:1969979 original size:29 final size:29
Alignment explanation
Indices: 1969924--1969980 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 29
1969914 ATGAGGTATT
* *
1969924 ATCCCAATCTTGATTTTGCATGAGATCAC
1 ATCCCAATCCTGATTCTGCATGAGATCAC
* * *
1969953 ATCCCCATCCTGATTCTGTATGGGATCA
1 ATCCCAATCCTGATTCTGCATGAGATCA
1969981 TATCTCGTCC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.33
Consensus pattern (29 bp):
ATCCCAATCCTGATTCTGCATGAGATCAC
Found at i:1973089 original size:14 final size:14
Alignment explanation
Indices: 1973072--1973098 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1973062 AATATCCTTT
1973072 AAAATAATTTTAAG
1 AAAATAATTTTAAG
1973086 AAAATAATTTTAA
1 AAAATAATTTTAA
1973099 AAGATAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (14 bp):
AAAATAATTTTAAG
Found at i:1975667 original size:35 final size:37
Alignment explanation
Indices: 1975627--1975699 Score: 132
Period size: 35 Copynumber: 2.0 Consensus size: 37
1975617 TCAGGAAATA
1975627 TCAATCTTGAAAGAGAGGG-ATTGTTCCGCTT-TTCT
1 TCAATCTTGAAAGAGAGGGAATTGTTCCGCTTCTTCT
1975662 TCAATCTTGAAAGAGAGGGAATTGTTCCGCTTCTTCT
1 TCAATCTTGAAAGAGAGGGAATTGTTCCGCTTCTTCT
1975699 T
1 T
1975700 GAGGGAAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
35 19 0.53
36 12 0.33
37 5 0.14
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.37
Consensus pattern (37 bp):
TCAATCTTGAAAGAGAGGGAATTGTTCCGCTTCTTCT
Found at i:1976662 original size:191 final size:191
Alignment explanation
Indices: 1976281--1976675 Score: 558
Period size: 191 Copynumber: 2.1 Consensus size: 191
1976271 AAGCATCATT
* *
1976281 CTCGAAAGACTTACTGATGGCCCGAAAGACTTACCAAATTTGGGAACAGTTTACTAGGTATGAAA
1 CTCGAAAGACTTACTGATGGCCCGAAAGACTTACCAAATTTGGAAACAGTTTACTAGGTAAGAAA
* * ** * *
1976346 CTTTTCTTACTTTTCAAAAAATTCAATTTTCATATTTAAATGAGAAACTTTTCTCATTTTTCGAG
66 CTTTTCTTACTTTTCAAAAAAATCAATTTTCATATTTAAATGAAAAAAATTTCTAATTTTTCGAA
** * * * *
1976411 AGACATTTGAAAACATTCTGCCCGTAGGTCTTATGGATGGCCTGAAGGACTTAACATCTTA
131 AGACACCTGAAAACATCCTGCCCGAAGGTCTTATGGATGGCCAGAACGACTTAACATCTTA
* * * * *
1976472 CTCGAAAGACTTACTGATGGCCTGAATGACTTACCAATTTTGGAAATAGTTTACTAGGTAAGACA
1 CTCGAAAGACTTACTGATGGCCCGAAAGACTTACCAAATTTGGAAACAGTTTACTAGGTAAGAAA
* *
1976537 TTTTTCTTACTTTT-AAAAAAATCAATTTTCATATTTAAATGAAAAAAATTTCTAATTTTTTGAA
66 CTTTTCTTACTTTTCAAAAAAATCAATTTTCATATTTAAATGAAAAAAATTTCTAATTTTTCGAA
* *
1976601 AGACACCTGAAAACATCCTGCCTGAAGGTCTTATGGATGGCCAAGAACGACTTATCATCTTA
131 AGACACCTGAAAACATCCTGCCCGAAGGTCTTATGGATGGCC-AGAACGACTTAACATCTTA
*
1976663 CTCAAAAGACTTA
1 CTCGAAAGACTTA
1976676 AAGATGACCA
Statistics
Matches: 179, Mismatches: 24, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
190 80 0.45
191 99 0.55
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (191 bp):
CTCGAAAGACTTACTGATGGCCCGAAAGACTTACCAAATTTGGAAACAGTTTACTAGGTAAGAAA
CTTTTCTTACTTTTCAAAAAAATCAATTTTCATATTTAAATGAAAAAAATTTCTAATTTTTCGAA
AGACACCTGAAAACATCCTGCCCGAAGGTCTTATGGATGGCCAGAACGACTTAACATCTTA
Found at i:1977010 original size:241 final size:234
Alignment explanation
Indices: 1976454--1977443 Score: 903
Period size: 233 Copynumber: 4.2 Consensus size: 234
1976444 TGGATGGCCT
* * * * * **
1976454 GAAGGACTTAA-CATCTTACTCGAAAGACTTACTGATGGCCTGAATGACTTACCAATTTTGGAAA
1 GAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATGAATTTTGGAAA
* * * * * *
1976518 TAGTTTACTAGGTAAGACATTTTTCTTA-CTTTTAAAAAAATCAATTTTCATATTTAAATGAAAA
66 TAGTTTACTAGGTAAGAAACTTTTCTTACCTTTCAAAAAAATTAATTTTCAAATTTAAATGAGAA
* * ** *
1976582 AAATTTCTAATTTTTTGAAAGACACCTGAAAACATCCTGCCTGAAGGTCTTATGGATGGCCAAGA
131 ACATTTCTCATTTTTTGAAAGACATATGAAAACATCCTGCCTAAAGGTCTTATGGATGGCCAAGA
* ** * *
1976647 ACGACTTATCATCTTACTCAAAAGACTTAAAGATGACCA
196 AAGACTTATCAGATGACCCAAAAGACTTAAAGATGACCA
* * * *
1976686 GAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCTCAAAGGACTAATGAATTTAGGAAA
1 GAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATGAATTTTGGAAA
* * *
1976751 TAGTTTACTAGGTAAGAAACTTTTATTACCTTTCAAAAAAATTAATTTTCAGATTTAAGTGAGAA
66 TAGTTTACTAGGTAAGAAACTTTTCTTACCTTTCAAAAAAATTAATTTTCAAATTTAAATGAGAA
1976816 ACATTTCTCATTTTTTGAAAGACATATGAAAACATCCTGCCTAAAGGTCTTATGGATGGAATCTT
131 ACATTTCTCATTTTTTGAAAGACATATGAAAACATCCTGCCTAAAGGTCTTATGGATGG---C--
** * * * * *
1976881 GCTCGAAATATTTA-CAGATGACCCAAAGGATTTAAGCAGATAGCCCA
191 -CAAGAAAGACTTATCAGATGACCCAAAAGACTTAA--AGAT-GACCA
* * *
1976928 -AAGGATTTAAGCATCATGCTCGAAACACTAATTGATGGCCCGAAGGACTTATGAATTTTGGAAA
1 GAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATGAATTTTGGAAA
* * * *
1976992 GAGTTTACTAGATAAGAAACTTTTCTTACTTTTC-AAAAAATTCAATTTTTAAATTTAAATGAGA
66 TAGTTTACTAGGTAAGAAACTTTTCTTACCTTTCAAAAAAATT-AATTTTCAAATTTAAATGAGA
* * * * ** * * *
1977056 AACCTTTCTCATATTTCGAGAGATGTGTGAAAACATCCTGCTTAAAGGTCTTATGGATGGCC-CG
130 AACATTTCTCATTTTTTGAAAGACATATGAAAACATCCTGCCTAAAGGTCTTATGGATGGCCAAG
* ** ** * *
1977120 AATGACTTATCATCTTG-CTTGAAAA-ACTTACAGATGACCC
195 AAAGACTTATCA-GATGAC-CCAAAAGACTTAAAGATGACCA
* * * *
1977160 GAACGATTTAAGCATTATGCTC-AGAAGACTTACTGATGGCACGAAGGACATATGAATTTTGGAA
1 GAAGGATTTAAGCATCATGCTCGA-AAGACTTACTGATGGCCCGAAGGACTTATGAATTTTGGAA
** **
1977224 ATAGTTTACTAGGTAAGAAACTTTTCTTAGTTTTC-AAAAAATTCAATTTTCGTATTTAAATGAG
65 ATAGTTTACTAGGTAAGAAACTTTTCTTACCTTTCAAAAAAATT-AATTTTCAAATTTAAATGAG
* * * * * * * * ** * * *
1977288 AAACTTTTATCCGTCTTCT-AAAAATATGTGAAAACATCCTGCCCGAAGTTTTTATGGATGGCCC
129 AAACATTTCT-CATTTTTTGAAAGACATATGAAAACATCCTGCCTAAAGGTCTTATGGATGGCCA
* * * * *
1977352 A-AATGACTTATCATATTG-CTCGAAAGACTTATAGATGACTC-
193 AGAAAGACTTATCAGA-TGACCCAAAAGACTTAAAGATGAC-CA
* * * * *
1977393 GGAGGATTTAAACAACATGCTCAAAAGACTTACTGATGG-CCGAAAGACTTA
1 GAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTA
1977444 CTAAGTAAGA
Statistics
Matches: 624, Mismatches: 111, Indels: 46
0.80 0.14 0.06
Matches are distributed among these distances:
232 27 0.04
233 287 0.46
234 99 0.16
235 8 0.01
236 5 0.01
237 1 0.00
238 1 0.00
239 15 0.02
240 16 0.03
241 161 0.26
242 4 0.01
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.32
Consensus pattern (234 bp):
GAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATGAATTTTGGAAA
TAGTTTACTAGGTAAGAAACTTTTCTTACCTTTCAAAAAAATTAATTTTCAAATTTAAATGAGAA
ACATTTCTCATTTTTTGAAAGACATATGAAAACATCCTGCCTAAAGGTCTTATGGATGGCCAAGA
AAGACTTATCAGATGACCCAAAAGACTTAAAGATGACCA
Found at i:1982214 original size:20 final size:21
Alignment explanation
Indices: 1982175--1982225 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 21
1982165 TCCTAAATGC
*
1982175 CCAAACTAGGACAATTAGCTA
1 CCAAACTAGGACAATCAGCTA
*
1982196 CCAAA-TAGGATAATCAGCTA
1 CCAAACTAGGACAATCAGCTA
1982216 CCAAACTAGG
1 CCAAACTAGG
1982226 TTGACCTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 18 0.67
21 9 0.33
ACGTcount: A:0.43, C:0.24, G:0.16, T:0.18
Consensus pattern (21 bp):
CCAAACTAGGACAATCAGCTA
Found at i:1986820 original size:3 final size:3
Alignment explanation
Indices: 1986812--1986841 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
1986802 ATAAAATCTA
1986812 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1986842 TACATATACT
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:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:2000968 original size:37 final size:38
Alignment explanation
Indices: 2000868--2000983 Score: 207
Period size: 38 Copynumber: 3.1 Consensus size: 38
2000858 ATGCATCGTA
2000868 TGCTTACATATAAGGTCGTGGCCACCATATGCACCGAAG
1 TGCTTACA-ATAAGGTCGTGGCCACCATATGCACCGAAG
2000907 TGCTTACAATAAGGTCGTGGCCACCATATGCACCGAAG
1 TGCTTACAATAAGGTCGTGGCCACCATATGCACCGAAG
*
2000945 TGCTTAC-ATAAGGTCGTGCCCACCATATGCACCGAAG
1 TGCTTACAATAAGGTCGTGGCCACCATATGCACCGAAG
2000982 TG
1 TG
2000984 TTTAATCGAT
Statistics
Matches: 76, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
37 31 0.41
38 37 0.49
39 8 0.11
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.22
Consensus pattern (38 bp):
TGCTTACAATAAGGTCGTGGCCACCATATGCACCGAAG
Found at i:2002433 original size:197 final size:198
Alignment explanation
Indices: 2002076--2002472 Score: 728
Period size: 197 Copynumber: 2.0 Consensus size: 198
2002066 ACTCAGTCTC
2002076 CATATGAACACCTTACCAAACATATGCAAATTCAAACCAAAAGGTTAGAATCTTACTAATATAGG
1 CATATGAACACCTTACCAAACATATGCAAATTCAAACCAAAAGGTTAGAATCTTACTAATATAGG
2002141 CATACTTTGGAAAATAAATTCCTAACAAAATTTTCCGACCCGATAAAATTTCCATGTCAAAACAT
66 CATACTTTGGAAAATAAATTCCTAACAAAATTTTCCGACCCGATAAAATTTCCATGTCAAAACAT
2002206 AAATGTTGACCTTAATACTTCTAATTGAACACTCAAGTTCCTTTTTTATCCCAAATTCACATAAC
131 AAATGTTGACCTTAATACTTCTAATTGAACACTCAAGTTCC-TTTTTATCCCAAATTCACATAAC
2002271 ATTT
195 ATTT
*
2002275 CATATGAACACCATTACC-AA-ATATGCAAATTCAAACC-AAATGTTAGAATCTTACTAATATAG
1 CATATGAACACC-TTACCAAACATATGCAAATTCAAACCAAAAGGTTAGAATCTTACTAATATAG
*
2002337 GCATACTTTGGAAAATAAATTCCTAACAAAATTTTCCGACGCGATAAAATTTCCATGTCAAAACA
65 GCATACTTTGGAAAATAAATTCCTAACAAAATTTTCCGACCCGATAAAATTTCCATGTCAAAACA
*
2002402 TAAATGTTGACCTTAATACTTCTAATTGAACACTCAAGTTCCTTTTTATCCCAACTTCACATAAC
130 TAAATGTTGACCTTAATACTTCTAATTGAACACTCAAGTTCCTTTTTATCCCAAATTCACATAAC
2002467 ATTT
195 ATTT
2002471 CA
1 CA
2002473 CTTAAGCTCC
Statistics
Matches: 194, Mismatches: 3, Indels: 5
0.96 0.01 0.02
Matches are distributed among these distances:
196 28 0.14
197 130 0.67
198 17 0.09
199 14 0.07
200 5 0.03
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (198 bp):
CATATGAACACCTTACCAAACATATGCAAATTCAAACCAAAAGGTTAGAATCTTACTAATATAGG
CATACTTTGGAAAATAAATTCCTAACAAAATTTTCCGACCCGATAAAATTTCCATGTCAAAACAT
AAATGTTGACCTTAATACTTCTAATTGAACACTCAAGTTCCTTTTTATCCCAAATTCACATAACA
TTT
Found at i:2004019 original size:26 final size:27
Alignment explanation
Indices: 2003953--2004013 Score: 122
Period size: 27 Copynumber: 2.3 Consensus size: 27
2003943 CGATGGTGAC
2003953 AAAAATGATGATTATCATGAAAAAATA
1 AAAAATGATGATTATCATGAAAAAATA
2003980 AAAAATGATGATTATCATGAAAAAATA
1 AAAAATGATGATTATCATGAAAAAATA
2004007 AAAAATG
1 AAAAATG
2004014 TAATTACTCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.61, C:0.03, G:0.11, T:0.25
Consensus pattern (27 bp):
AAAAATGATGATTATCATGAAAAAATA
Found at i:2006679 original size:21 final size:21
Alignment explanation
Indices: 2006655--2006700 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
2006645 TTTCAAAGAG
2006655 GGGACGACCAGCCCTTGCTTT
1 GGGACGACCAGCCCTTGCTTT
2006676 GGGACGACCAGCCCTTGCTTT
1 GGGACGACCAGCCCTTGCTTT
2006697 GGGA
1 GGGA
2006701 AGAATCTGGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.15, C:0.30, G:0.33, T:0.22
Consensus pattern (21 bp):
GGGACGACCAGCCCTTGCTTT
Found at i:2014082 original size:36 final size:36
Alignment explanation
Indices: 2014040--2014165 Score: 173
Period size: 36 Copynumber: 3.5 Consensus size: 36
2014030 GGAGAAAAGT
*
2014040 CCATCTGAAGCCTTCACCGGAGAATAGTGAAGCAAT
1 CCATCTGAAGCCTTCACCGGAGAATAGTGAAGCAAA
*
2014076 CAATCTGAAGCCTTCACCGGAGAATAGTGAAGCAAA
1 CCATCTGAAGCCTTCACCGGAGAATAGTGAAGCAAA
* * *
2014112 CCATCAT-AAGTCTTCACCAGAGAGTAGTGAAGCAAA
1 CCATC-TGAAGCCTTCACCGGAGAATAGTGAAGCAAA
* *
2014148 CCATCTTAAGTCTTCACC
1 CCATCTGAAGCCTTCACC
2014166 AAAAGTAGTG
Statistics
Matches: 82, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
35 1 0.01
36 80 0.98
37 1 0.01
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.21
Consensus pattern (36 bp):
CCATCTGAAGCCTTCACCGGAGAATAGTGAAGCAAA
Found at i:2014166 original size:36 final size:36
Alignment explanation
Indices: 2014040--2014180 Score: 171
Period size: 36 Copynumber: 3.9 Consensus size: 36
2014030 GGAGAAAAGT
* *
2014040 CCATCTGAAGCCTTCACCGGAGAATAGTGAAGCAAT
1 CCATCTGAAGCCTTCACCAGAGAATAGTGAAGCAAA
* *
2014076 CAATCTGAAGCCTTCACCGGAGAATAGTGAAGCAAA
1 CCATCTGAAGCCTTCACCAGAGAATAGTGAAGCAAA
* *
2014112 CCATCAT-AAGTCTTCACCAGAGAGTAGTGAAGCAAA
1 CCATC-TGAAGCCTTCACCAGAGAATAGTGAAGCAAA
* *
2014148 CCATCTTAAGTCTTCACCA-A-AAGTAGTGAAGCA
1 CCATCTGAAGCCTTCACCAGAGAA-TAGTGAAGCA
2014181 TCCATTTTAA
Statistics
Matches: 95, Mismatches: 7, Indels: 7
0.87 0.06 0.06
Matches are distributed among these distances:
34 1 0.01
35 12 0.13
36 81 0.85
37 1 0.01
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.20
Consensus pattern (36 bp):
CCATCTGAAGCCTTCACCAGAGAATAGTGAAGCAAA
Found at i:2014570 original size:54 final size:54
Alignment explanation
Indices: 2014389--2015642 Score: 1115
Period size: 54 Copynumber: 23.7 Consensus size: 54
2014379 AAGATTATTT
* *
2014389 GAGTTCCATACTCCCTAGAGAGAGA-GGAGCGAACCCGTTTGAAG-AGATG-TC
1 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
* *
2014440 TGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAA-AA-TTGTTC
1 -GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
* * * *
2014493 GAGTTCTATACTCCCTAGAGAAAGAGAGAGCGAACTCGTTTGCAGAAGATATTC
1 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
* * * * ** *
2014547 GAGTTCCATAATCCCTAGAGAAAGAGGGAACGAACCCGATTGTTGAAGTTTGTTC
1 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAG-ATGTTC
* * * * * ** *
2014602 GAG-TCTTATACTCTCT-GAAAGAATAGGGAGC-AGACACGATTGTTGAAGATTATTC
1 GAGTTC-TATACTCCCTAGAGA-AAGAGGGAGCGA-ACCCGTTTGAAGAAGA-TGTTC
* * * * * * **
2014657 GAG-TCTCATACTCTCT-GAAAGAATAGGGAG-TAACACGATTGTCGAAGATTGTTC
1 GAGTTCT-ATACTCCCTAGAGA-AAGAGGGAGCGAACCCGTTTGAAGAAGA-TGTTC
* * * ** *
2014711 GAG-TCTCATACTCTCT-GAAGGAATAGGGAGC-ATACACATTTTCAA-AAGATGTTC
1 GAGTTCT-ATACTCCCTAG-AGAAAGAGGGAGCGA-AC-CCGTTTGAAGAAGATGTTC
* * * * *
2014765 GAGTTCCATACTCCTTAAAGGAAGAAGGAGCGAACCCGTTT---GAAGATGTTC
1 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
** * * * ** * *
2014816 GAGTTCTATACTCTTTAAAGAGAGAAGGAGCGAACCCGTAAGAAGAAGATTTTT
1 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
2014870 GAGTTCTATACTCCCT-GA-AGAAGAGGGAGCGAACCCAG-TT---GAAGATGTTC
1 GAGTTCTATACTCCCTAGAGA-AAGAGGGAGCGAACCC-GTTTGAAGAAGATGTTC
*
2014920 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAG-A-TTGTTC
1 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
* * ** *
2014972 GAGTTCTATACTTCCT-GAAGAAAGATGGAGCGAACTTGTTTGAAAAAGATGTTC
1 GAGTTCTATACTCCCTAG-AGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
* * *
2015026 GAGTTCTATACTTCCT-GAAGAAAGAGGGAGCGAACCCGTTTGAAGAATATGTCC
1 GAGTTCTATACTCCCTAG-AGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
* * * *
2015080 AAGTTCTATACTTCCT-GAAGAAAGAGGGAGCGAACCTGTTTGAAGAAGATGTCC
1 GAGTTCTATACTCCCTAG-AGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
* *
2015134 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAGGAATATGTTC
1 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
* * *
2015188 GAGTTCTATACTCCCTA-A-AGAGAGGGAGCGAACCCGTTTGAAG-A-TTGTTT
1 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
* ** *
2015238 GAG-T-TATACTCCCTAGAGAAAGAGGGAGCAAACCCGTAAGAAGAAGATGTTT
1 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
* * * * *
2015290 TAGTTCCATACTCCCT-GAAGAAAGAGGGAGCGAACCCATTTGAAGAATATGTCC
1 GAGTTCTATACTCCCTAG-AGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
* * * **
2015344 GAGTTCTATACTCCCTAGAGAAAGTGGGAGTGAACCCATAAGAAGAAGATGTTC
1 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
* * *
2015398 GAGTTCCATACTCCCTA-A-AGAGAGGGAGCGAACCCGTTTGAAG-A-TTGTTC
1 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
* *
2015448 GAGTTCTATACTTCCT-GAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTCC
1 GAGTTCTATACTCCCTAG-AGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
* * * * *
2015502 GAGTTCTATACTCCCTAGAGAAAGAGGGAACAAATCCGTTT---GAAGATTTTT
1 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
* * * * *
2015553 GAGTTGTATACTCCCTA-ATAAAGAGGGAGCAAACCCGTTTGCAGAAGAAGTTC
1 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
*
2015606 GAGTTCTATACTCCCTA-AAAAAGAGGGAGCGAACCCG
1 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCG
2015643 ATGGTTGAAG
Statistics
Matches: 1009, Mismatches: 141, Indels: 103
0.81 0.11 0.08
Matches are distributed among these distances:
48 11 0.01
49 2 0.00
50 92 0.09
51 92 0.09
52 184 0.18
53 90 0.09
54 454 0.45
55 82 0.08
56 2 0.00
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.24
Consensus pattern (54 bp):
GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
Found at i:2014630 original size:55 final size:55
Alignment explanation
Indices: 2014571--2014739 Score: 236
Period size: 55 Copynumber: 3.1 Consensus size: 55
2014561 CTAGAGAAAG
* * *
2014571 AGGGAACGAACCCGATTGTTGAAGTTTGTTCGAGTCTTATACTCTCTGAAAGAAT
1 AGGGAACGAACACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAAGAAT
* *
2014626 AGGGAGC-AGACACGATTGTTGAAGATTATTCGAGTCTCATACTCTCTGAAAGAAT
1 AGGGAACGA-ACACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAAGAAT
* *
2014681 AGGG-A-GTAACACGATTGTCGAAGATTGTTCGAGTCTCATACTCTCTGAAGGAAT
1 AGGGAACG-AACACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAAGAAT
2014735 AGGGA
1 AGGGA
2014740 GCATACACAT
Statistics
Matches: 101, Mismatches: 9, Indels: 8
0.86 0.08 0.07
Matches are distributed among these distances:
54 48 0.48
55 53 0.52
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (55 bp):
AGGGAACGAACACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAAGAAT
Found at i:2014924 original size:104 final size:104
Alignment explanation
Indices: 2014389--2015661 Score: 1153
Period size: 104 Copynumber: 12.0 Consensus size: 104
2014379 AAGATTATTT
* * * *
2014389 GAGTTCCATACTCCCTAGAGAGAGA-GGAGCGAACCCGTTTGAAG-AGATG-TCTGAGTTCCATA
1 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC-GAGTTCTATA
* *
2014451 CTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAAATTGTTC
65 CTCCCTAAAG-AAGAGGGAGCGAACCCGTTTGAAGA-TGTTC
* * * * * * *
2014493 GAGTTCTATACTCCCTAGAGAAAGAGAGAGCGAACTCGTTTGCAGAAGATATTCGAGTTCCATAA
1 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTCTATAC
* * *
2014558 TCCCTAGAGAAAGAGGGAACGAACCCGATTGTTGAAGTTTGTTC
66 TCCCTAAAG-AAGAGGGAGCGAACCCG--T-TTGAAG-ATGTTC
* * * * ** *
2014602 GAG-TCTTATACTCTCTGAAAG-AATAGGGAGC-AGACACGATTGTTGAAGATTATTCGAG-TCT
1 GAGTTC-TATACTCCCT-AAAGAAAGAGGGAGCGA-ACCCGTTTGAAGAAGA-TGTTCGAGTTCT
* * * *
2014663 CATACTCTCTGAAAGAATAGGGAG-TAACACGATTGTCGAAGATTGTTC
62 -ATACTCCCT-AAAGAAGAGGGAGCGAACCCG-TT-T-GAAGA-TGTTC
* * * * ** * *
2014711 GAG-TCTCATACTCTCTGAAGGAATAGGGAGC-ATACACATTTTCAA-AAGATGTTCGAGTTCCA
1 GAGTTCT-ATACTCCCTAAAGAAAGAGGGAGCGA-AC-CCGTTTGAAGAAGATGTTCGAGTTCTA
* *
2014773 TACTCCTTAAAGGAAGAAGGAGCGAACCCGTTTGAAGATGTTC
63 TACTCCCTAAA-GAAGAGGGAGCGAACCCGTTTGAAGATGTTC
** * * ** * *
2014816 GAGTTCTATACTCTTTAAAGAGAGAAGGAGCGAACCCGTAAGAAGAAGATTTTTGAGTTCTATAC
1 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTCTATAC
*
2014881 TCCCTGAAGAAGAGGGAGCGAACCCAG-TTGAAGATGTTC
66 TCCCTAAAGAAGAGGGAGCGAACCC-GTTTGAAGATGTTC
* *
2014920 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAG-A-TTGTTCGAGTTCTATAC
1 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTCTATAC
* * * **
2014983 TTCCTGAAGAAAGATGGAGCGAACTTGTTTGAAAAAGATGTTC
66 TCCCTAAAG-AAGAGGGAGCGAACCCGTTTG---AAGATGTTC
* * * * *
2015026 GAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAATATGTCCAAGTTCTATAC
1 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTCTATAC
* * * *
2015091 TTCCTGAAGAAAGAGGGAGCGAACCTGTTTGAAGAAGATGTCC
66 TCCCTAAAG-AAGAGGGAGCGAACCCGTTT---GAAGATGTTC
* * *
2015134 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAGGAATATGTTCGAGTTCTATAC
1 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTCTATAC
*
2015199 TCCCTAAAG-AGAGGGAGCGAACCCGTTTGAAGATTGTTT
66 TCCCTAAAGAAGAGGGAGCGAACCCGTTTGAAGA-TGTTC
* * ** ** *
2015238 GAG-T-TATACTCCCTAGAGAAAGAGGGAGCAAACCCGTAAGAAGAAGATGTTTTAGTTCCATAC
1 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTCTATAC
* * *
2015301 TCCCTGAAGAAAGAGGGAGCGAACCCATTTGAAGAATATGTCC
66 TCCCTAAAG-AAGAGGGAGCGAACCCGTTTGAAG---ATGTTC
* * * * ** *
2015344 GAGTTCTATACTCCCTAGAGAAAGTGGGAGTGAACCCATAAGAAGAAGATGTTCGAGTTCCATAC
1 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTCTATAC
2015409 TCCCTAAAG-AGAGGGAGCGAACCCGTTTGAAGATTGTTC
66 TCCCTAAAGAAGAGGGAGCGAACCCGTTTGAAGA-TGTTC
* * *
2015448 GAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTCCGAGTTCTATAC
1 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTCTATAC
* * * * * *
2015513 TCCCTAGAGAAAGAGGGAACAAATCCGTTTGAAGATTTTT
66 TCCCTAAAG-AAGAGGGAGCGAACCCGTTTGAAGATGTTC
* * * * *
2015553 GAGTTGTATACTCCCT-AATAAAGAGGGAGCAAACCCGTTTGCAGAAGAAGTTCGAGTTCTATAC
1 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTCTATAC
*
2015617 TCCCTAAAAAAGAGGGAGCGAACCCGATGGTTGAAGATTGTTC
66 TCCCTAAAGAAGAGGGAGCGAACCCG-T--TTGAAGA-TGTTC
2015660 GA
1 GA
2015662 ATCTTATACT
Statistics
Matches: 971, Mismatches: 147, Indels: 99
0.80 0.12 0.08
Matches are distributed among these distances:
102 82 0.08
103 38 0.04
104 239 0.25
105 85 0.09
106 174 0.18
107 15 0.02
108 211 0.22
109 96 0.10
110 27 0.03
111 4 0.00
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (104 bp):
GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTCTATAC
TCCCTAAAGAAGAGGGAGCGAACCCGTTTGAAGATGTTC
Found at i:2015087 original size:210 final size:208
Alignment explanation
Indices: 2014409--2015687 Score: 1135
Period size: 210 Copynumber: 6.0 Consensus size: 208
2014399 CTCCCTAGAG
* *
2014409 AGAGAGGAGCGAACCCGTTTGAAG-AGATGTCTGAGTTCCATACTCCCT-AGAGAAAGAGGGAGC
1 AGAG-GGAGCGAACCCGTTTGAAGAAGATGTCCGAGTTCTATACTCCCTGA-AGAAAGAGGGAGC
* * *
2014472 GAACCC-GTTTGAAAATTGTTCGAGTTCTATACTCCCTAGAGAAAGAGAGAGCGAACTCGTTTGC
64 GAACCCAGTTTGAAGA-TGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTT--
* * * *
2014536 AGAAGATATTCGAGTTCCATAATCCCTAGAGAAAGAGGGAACGAACCCGATTGTTGAAGTTTGTT
126 AGAAGATGTTCGAGTTCCATACTCCCTA-AGAAAGAGGGAGCGAACCCG--T-TTGAAG-ATGTT
2014601 CGAG-TCTTATAC-TCTCTGAA-AGA
186 CGAGTTC-TATACTTC-CTGAAGA-A
* * * ** * * * *
2014624 ATAGGGAGC-AGACACGATTGTTGAAGATTATTCGAG-TCTCATACTCTCTGAA-AGAATAGGGA
1 AGAGGGAGCGA-ACCCGTTTGAAGAAGA-TGTCCGAGTTCT-ATACTCCCTGAAGA-AAGAGGGA
* * * * *
2014686 G-TAACAC-GATTGTCGAAGATTGTTCGAG-TCTCATACTCTCT-GAAGGAATAGGGAGC-ATAC
62 GCGAACCCAG-TT-T-GAAGA-TGTTCGAGTTCT-ATACTCCCTAG-AGAAAGAGGGAGCGA-AC
** * * * *
2014746 ACATTTTCAAAAGATGTTCGAGTTCCATACTCCTTAAAGGAAGAAGGAGCGAACCCGTTTGAAGA
120 -CCGTTT-AGAAGATGTTCGAGTTCCATACTCCCT-AAGAAAGAGGGAGCGAACCCGTTTGAAGA
* * *
2014811 TGTTCGAGTTCTATAC-TCTTTAAAGAG
182 TGTTCGAGTTCTATACTTC-CTGAAGAA
* ** * **
2014838 AGAAGGAGCGAACCCGTAAGAAGAAGATTTTTGAGTTCTATACTCCCTGAAG-AAGAGGGAGCGA
1 AGAGGGAGCGAACCCGTTTGAAGAAGATGTCCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGA
2014902 ACCCAG-TTGAAGATGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTT-GAAG
66 ACCCAGTTTGAAGATGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTAGAAG
* * * **
2014965 ATTGTTCGAGTTCTATACTTCCTGAAGAAAGATGGAGCGAACTTGTTTGAAAAAGATGTTCGAGT
131 A-TGTTCGAGTTCCATACTCCCT-AAGAAAGAGGGAGCGAACCCGTTTG---AAGATGTTCGAGT
2015030 TCTATACTTCCTGAAGAA
191 TCTATACTTCCTGAAGAA
* * *
2015048 AGAGGGAGCGAACCCGTTTGAAGAATATGTCCAAGTTCTATACTTCCTGAAGAAAGAGGGAGCGA
1 AGAGGGAGCGAACCCGTTTGAAGAAGATGTCCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGA
* *
2015113 A-CCTGTTTGAAGAAGATGTCCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGA
66 ACCCAGTTT---GAAGATGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTT-A
* * * *
2015177 GGAATATGTTCGAGTTCTATACTCCCTAA-AGAGAGGGAGCGAACCCGTTTGAAGATTGTTTGAG
127 -GAAGATGTTCGAGTTCCATACTCCCTAAGAAAGAGGGAGCGAACCCGTTTGAAGA-TGTTCGAG
*
2015241 -T-TATACTCCCT-AGAGAA
190 TTCTATACTTCCTGA-AGAA
* ** *** *
2015258 AGAGGGAGCAAACCCGTAAGAAGAAGATGTTTTAGTTCCATACTCCCTGAAGAAAGAGGGAGCGA
1 AGAGGGAGCGAACCCGTTTGAAGAAGATGTCCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGA
* * * * **
2015323 ACCCA-TTTGAAGAATATGTCCGAGTTCTATACTCCCTAGAGAAAGTGGGAGTGAACCCATAAGA
66 ACCCAGTTTGAAG---ATGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGT--TT
*
2015387 AGAAGATGTTCGAGTTCCATACTCCCTAA-AGAGAGGGAGCGAACCCGTTTGAAGATTGTTCGAG
126 AGAAGATGTTCGAGTTCCATACTCCCTAAGAAAGAGGGAGCGAACCCGTTTGAAGA-TGTTCGAG
2015451 TTCTATACTTCCTGAAGAA
190 TTCTATACTTCCTGAAGAA
* *
2015470 AGAGGGAGCGAACCCGTTTGAAGAAGATGTCCGAGTTCTATACTCCCT-AGAGAAAGAGGGAACA
1 AGAGGGAGCGAACCCGTTTGAAGAAGATGTCCGAGTTCTATACTCCCTGA-AGAAAGAGGGAGCG
* * * * * *
2015534 AATCC-GTTTGAAGATTTTTGAGTTGTATACTCCCTA-ATAAAGAGGGAGCAAACCCGTTTGCAG
65 AACCCAGTTTGAAGATGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTT--AG
* * *
2015597 AAGAAGTTCGAGTTCTATACTCCCTAAAAAAGAGGGAGCGAACCCGATGGTTGAAGATTGTTCGA
128 AAGATGTTCGAGTTCCATACTCCCTAAGAAAGAGGGAGCGAACCCG-T--TTGAAGA-TGTTCGA
*
2015662 -ATCTTATAC-T-CTGAAGAA
189 GTTC-TATACTTCCTGAAGAA
*
2015680 ATAGGGAG
1 AGAGGGAG
2015688 TAGACACGAT
Statistics
Matches: 880, Mismatches: 127, Indels: 119
0.78 0.11 0.11
Matches are distributed among these distances:
206 4 0.00
207 43 0.05
208 47 0.05
209 66 0.08
210 272 0.31
211 31 0.04
212 113 0.13
213 23 0.03
214 121 0.14
215 26 0.03
216 45 0.05
217 11 0.01
218 74 0.08
219 4 0.00
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (208 bp):
AGAGGGAGCGAACCCGTTTGAAGAAGATGTCCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGA
ACCCAGTTTGAAGATGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTAGAAG
ATGTTCGAGTTCCATACTCCCTAAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTCGAGTTCTAT
ACTTCCTGAAGAA
Found at i:2015966 original size:53 final size:55
Alignment explanation
Indices: 2015602--2016017 Score: 429
Period size: 55 Copynumber: 7.6 Consensus size: 55
2015592 TGCAGAAGAA
* * * * *
2015602 GTTCGAGT-TCTATACTCCCT-AAAAAAGAGGGAGC-GAACCCGATGGTTGAAGATT
1 GTTCGAGTCT-TATACTCTCTGAAGAAATAGGGAGCAG-ACACGATTGTTGAAGATT
* * * *
2015656 GTTCGAATCTTATA--CTCTGAAGAAATAGGGAGTAGACACGATTATTAAAGATT
1 GTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGAAGATT
* *
2015709 GTTCAAATCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTTGAAGATT
1 GTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTG-TTGAAGATT
* * *
2015765 GTTCAAGTCTTATACTCTCTGAAGGAATAGGGAGCATACACGATTGTTGAAGATT
1 GTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGAAGATT
* * * * *
2015820 ATTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCATACGCGATCGTTGAAGATT
1 GTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGAAGATT
* * *
2015875 GTTCGAGTCTTATACTCTCTGAAGAAATAGGG-GACAGACGCGATTGATGAAGACT
1 GTTCGAGTCTTATACTCTCTGAAGAAATAGGGAG-CAGACACGATTGTTGAAGATT
* * * ***
2015930 G-T-GGGTCTTATACTCTCTTAAGAAATAGGGAGCAGACCCGATTACAGAAGATT
1 GTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGAAGATT
* * *
2015983 ATTTGAGT-TCTATACT-TCCTGAAGAAAGAGGGAGC
1 GTTCGAGTCT-TATACTCT-CTGAAGAAATAGGGAGC
2016018 GAACCCATAG
Statistics
Matches: 312, Mismatches: 38, Indels: 23
0.84 0.10 0.06
Matches are distributed among these distances:
52 3 0.01
53 80 0.26
54 18 0.06
55 160 0.51
56 51 0.16
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.28
Consensus pattern (55 bp):
GTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGAAGATT
Found at i:2015998 original size:108 final size:111
Alignment explanation
Indices: 2015647--2016014 Score: 371
Period size: 111 Copynumber: 3.4 Consensus size: 111
2015637 AACCCGATGG
* * *
2015647 TTGAAGATTGTTCGAATCTTATA--CTCTGAAGAAATA-GGGAGTAGACACGATT-ATTAAAGA-
1 TTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGAGCAGACACGATTGA-TGAAGAC
* * * *
2015707 TTGTTCAAATCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGT
65 TAG-TCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATT-A
* * * * *
2015756 TTGAAGATTGTTCAAGTCTTATACTCTCTGAAGGAATA-GGGAGCATACACGATTGTTGAAGATT
1 TTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGAGCAGACACGATTGATGAAGACT
* * * * **
2015820 ATTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCATACGCGATCG
66 AGTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTA
*
2015866 TTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGA-CAGACGCGATTGATGAAGACT
1 TTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGAGCAGACACGATTGATGAAGACT
* * *
2015930 -GT-GGGTCTTATACTCTCTTAAGAAATAGGGAGCAGACCCGATTA
66 AGTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTA
** * * *
2015974 CAGAAGATTATTTGAGT-TCTATACT-TCCTGAAGAAAGAGGG
1 TTGAAGATTGTTCGAGTCT-TATACTCT-CTGAAGAAATAGGG
2016015 AGCGAACCCA
Statistics
Matches: 217, Mismatches: 35, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
107 2 0.01
108 67 0.31
109 22 0.10
110 53 0.24
111 72 0.33
112 1 0.00
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.29
Consensus pattern (111 bp):
TTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGAGCAGACACGATTGATGAAGACT
AGTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTA
Found at i:2016038 original size:163 final size:166
Alignment explanation
Indices: 2015702--2016045 Score: 389
Period size: 163 Copynumber: 2.1 Consensus size: 166
2015692 CACGATTATT
* * * *
2015702 AAAGATTGTTCAAATCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTTGAAGATTGT
1 AAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTATGAAGACTGT
* * ***
2015767 TCAAGTCTTATACTCTCTGAAGGAATAGGGAGCATACACGATTGTTGAAGATTATTCGAGTCTTA
66 TCAAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTACAGAAGATTATTCGAGTCTTA
* * * **
2015832 TACTCTCTGAAGAAATAGGGGGCATACGCGATCGTT
131 TACTCTCTGAAGAAAGAGGGAGCATACGCCATCGCA
* *
2015868 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGG-GACAGACGCGATTG-ATGAAGACTG
1 AAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAG-CAGACACGATTGTATGAAGACTG
** * * *
2015931 -T-GGGTCTTATACTCTCTTAAGAAATAGGGAGCAGACCCGATTACAGAAGATTATTTGAGT-TC
65 TTCAAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTACAGAAGATTATTCGAGTCT-
*
2015993 TATACT-TCCTGAAGAAAGAGGGAGCGA-AC-CCATAGGCA
129 TATACTCT-CTGAAGAAAGAGGGAGC-ATACGCCAT-CGCA
2016031 AAAGATTGTTCGAGT
1 AAAGATTGTTCGAGT
2016046 TTTTTTTCCT
Statistics
Matches: 150, Mismatches: 23, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
162 5 0.03
163 87 0.58
164 2 0.01
165 9 0.06
166 47 0.31
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.28
Consensus pattern (166 bp):
AAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTATGAAGACTGT
TCAAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTACAGAAGATTATTCGAGTCTTA
TACTCTCTGAAGAAAGAGGGAGCATACGCCATCGCA
Found at i:2017312 original size:21 final size:21
Alignment explanation
Indices: 2017288--2017333 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
2017278 TTTCAAAGAG
2017288 GGGACGACCAGCCCTTGCTTT
1 GGGACGACCAGCCCTTGCTTT
2017309 GGGACGACCAGCCCTTGCTTT
1 GGGACGACCAGCCCTTGCTTT
2017330 GGGA
1 GGGA
2017334 AGAATCTGGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.15, C:0.30, G:0.33, T:0.22
Consensus pattern (21 bp):
GGGACGACCAGCCCTTGCTTT
Found at i:2021254 original size:22 final size:21
Alignment explanation
Indices: 2021225--2021267 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
2021215 GTTTTGTTTT
2021225 GTTTTAATTTAGTCACTGTTA
1 GTTTTAATTTAGTCACTGTTA
*
2021246 GTTTCTAATTTAGTCATTGTTA
1 GTTT-TAATTTAGTCACTGTTA
2021268 TATATTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.23, C:0.09, G:0.14, T:0.53
Consensus pattern (21 bp):
GTTTTAATTTAGTCACTGTTA
Found at i:2025939 original size:2 final size:2
Alignment explanation
Indices: 2025934--2025964 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2025924 TTTGTGTGTG
2025934 TA 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 TA T
2025965 TATTTGCTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2029259 original size:44 final size:44
Alignment explanation
Indices: 2029130--2029566 Score: 214
Period size: 45 Copynumber: 10.0 Consensus size: 44
2029120 GAAGTCGTCG
* ** * *
2029130 AAGAATCTTTCACTTGGGTTTAAACCCGCGATGA-GAGTCATCCA
1 AAGAATCATTCACTT-GACTTAAACCCGCGAAGAGGAGTCATCTA
* * * *
2029174 AAGAATCATTCACCT-ACCTTAAAACCCTCTAAGGGGAGTCATCTA
1 AAGAATCATTCACTTGA-CTT-AAACCCGCGAAGAGGAGTCATCTA
* * *
2029219 AAGAA-CATTTTACTTGGCTTAAACCCGCGAAGAGAAGTCATC--
1 AAGAATCA-TTCACTTGACTTAAACCCGCGAAGAGGAGTCATCTA
* * * *
2029261 CA-AATCACTCACTTGACTTAAACCCGCGAAGGGGAGTCTTCTA
1 AAGAATCATTCACTTGACTTAAACCCGCGAAGAGGAGTCATCTA
* * * **** * *
2029304 AAGAATCATTTCGCCTAACTTAAACTAATGAAG-GGA-TCTTCCA
1 AAGAATCA-TTCACTTGACTTAAACCCGCGAAGAGGAGTCATCTA
* * * * *
2029347 AATAATCATTTCACTTGACTTAAAACCACGAA-AGGGGGTCATCCA
1 AAGAATCA-TTCACTTGACTTAAACCCGCGAAGA-GGAGTCATCTA
* * ** *
2029392 AAGAATTC-TTCAC-CGGCTTAAACCAACGAAGGGGAGTCATCTA
1 AAGAA-TCATTCACTTGACTTAAACCCGCGAAGAGGAGTCATCTA
* * ** * *
2029435 AAGAATCATTTCACCTAACTTAAACCTACGAAGGGGAGTCATCCA
1 AAGAATCA-TTCACTTGACTTAAACCCGCGAAGAGGAGTCATCTA
* * * * * * * * *
2029480 AAGAATCCTTAACATGGCTTAAACCCACGAAGGGGAGTCGTATG
1 AAGAATCATTCACTTGACTTAAACCCGCGAAGAGGAGTCATCTA
* * *
2029524 AAGAATCATTTCACCTGACTTAAGCTCGCGAAG-GAGAGTCATC
1 AAGAATCA-TTCACTTGACTTAAACCCGCGAAGAG-GAGTCATC
2029567 CGAGAACATT
Statistics
Matches: 298, Mismatches: 75, Indels: 39
0.72 0.18 0.09
Matches are distributed among these distances:
41 30 0.10
42 5 0.02
43 60 0.20
44 97 0.33
45 104 0.35
46 2 0.01
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (44 bp):
AAGAATCATTCACTTGACTTAAACCCGCGAAGAGGAGTCATCTA
Found at i:2029305 original size:85 final size:88
Alignment explanation
Indices: 2029130--2029314 Score: 220
Period size: 85 Copynumber: 2.1 Consensus size: 88
2029120 GAAGTCGTCG
* * * *
2029130 AAGAATC-TTTCACTTGGGTTTAAACCCGCGATGAGAGTCATCCAAAGAATCATTCACCTACCTT
1 AAGAATCATTTTACTT-GGCTTAAACCCGCGAAGAGAGTCATCC-AAGAATCACTCACCTACCTT
* *
2029194 AAAACCCTCTAAGGGGAGTCATCTA
64 AAAACCCGCGAAGGGGAGTCATCTA
*
2029219 AAGAA-CATTTTACTTGGCTTAAACCCGCGAAGAGAAGTCATCC-A-AATCACTCACTTGA-CTT
1 AAGAATCATTTTACTTGGCTTAAACCCGCGAAGAG-AGTCATCCAAGAATCACTCACCT-ACCTT
*
2029280 -AAACCCGCGAAGGGGAGTCTTCTA
64 AAAACCCGCGAAGGGGAGTCATCTA
2029304 AAGAATCATTT
1 AAGAATCATTT
2029315 CGCCTAACTT
Statistics
Matches: 84, Mismatches: 8, Indels: 11
0.82 0.08 0.11
Matches are distributed among these distances:
85 26 0.31
86 18 0.21
87 2 0.02
88 18 0.21
89 20 0.24
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (88 bp):
AAGAATCATTTTACTTGGCTTAAACCCGCGAAGAGAGTCATCCAAGAATCACTCACCTACCTTAA
AACCCGCGAAGGGGAGTCATCTA
Found at i:2029368 original size:43 final size:45
Alignment explanation
Indices: 2029164--2029546 Score: 229
Period size: 45 Copynumber: 8.7 Consensus size: 45
2029154 CCCGCGATGA
* * ** *
2029164 GAGTCATCCAAAGAATCA-TTCACCT-ACCTTAAAACCCTCTAAGGG
1 GAGTCTTCCAAAGAATCATTTCACTTGA-CTT-AAACCAACGAAGGG
* * * * ** *
2029209 GAGTCATCTAAAGAA-CATTTTACTTGGCTTAAACCCGCGAAGAG
1 GAGTCTTCCAAAGAATCATTTCACTTGACTTAAACCAACGAAGGG
* * * **
2029253 AAGTCATCC--A-AATCA-CTCACTTGACTTAAACCCGCGAAGGG
1 GAGTCTTCCAAAGAATCATTTCACTTGACTTAAACCAACGAAGGG
* * * * * *
2029294 GAGTCTTCTAAAGAATCATTTCGCCTAACTTAAACTAATGAA-GG
1 GAGTCTTCCAAAGAATCATTTCACTTGACTTAAACCAACGAAGGG
*
2029338 GA-TCTTCCAAATAATCATTTCACTTGACTTAAAACC-ACGAAAGGG
1 GAGTCTTCCAAAGAATCATTTCACTTGACTT-AAACCAACG-AAGGG
* * *
2029383 G-GTCATCCAAAGAAT--TCTTCAC-CGGCTTAAACCAACGAAGGG
1 GAGTCTTCCAAAGAATCAT-TTCACTTGACTTAAACCAACGAAGGG
* * * * *
2029425 GAGTCATCTAAAGAATCATTTCACCTAACTTAAACCTACGAAGGG
1 GAGTCTTCCAAAGAATCATTTCACTTGACTTAAACCAACGAAGGG
* * * * * *
2029470 GAGTCATCCAAAGAATC-CTTAACATGGCTTAAACCCACGAAGGG
1 GAGTCTTCCAAAGAATCATTTCACTTGACTTAAACCAACGAAGGG
* *** *
2029514 GAGTCGTATGAAGAATCATTTCACCTGACTTAA
1 GAGTCTTCCAAAGAATCATTTCACTTGACTTAA
2029547 GCTCGCGAAG
Statistics
Matches: 265, Mismatches: 55, Indels: 36
0.74 0.15 0.10
Matches are distributed among these distances:
41 30 0.11
42 14 0.05
43 47 0.18
44 79 0.30
45 95 0.36
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.24
Consensus pattern (45 bp):
GAGTCTTCCAAAGAATCATTTCACTTGACTTAAACCAACGAAGGG
Found at i:2029395 original size:88 final size:89
Alignment explanation
Indices: 2029164--2029546 Score: 249
Period size: 88 Copynumber: 4.4 Consensus size: 89
2029154 CCCGCGATGA
* * * *
2029164 GAGTCATCCAAAGAATCA-TTCACCT-ACCTTAAAACCCTCTAAGGGGAGTCATCTAAAGAA-CA
1 GAGTCATCCAAAGAATCATTTCACTTGA-CTTAAAA-CCACGAAGGGGAGTCATCCAAAGAATC-
* *** ** *
2029226 T-TTTACTTGGCTTAAACCCGCGAAGAG
63 TCTTCAC-CAACTTAAACCAACGAAGGG
* * * * * *
2029253 AAGTCATCC--A-AATCA-CTCACTTGACTTAAACCCGCGAAGGGGAGTCTTCTAAAGAATCAT-
1 GAGTCATCCAAAGAATCATTTCACTTGACTTAAAACCACGAAGGGGAGTCATCCAAAGAATC-TC
* * *
2029313 TTCGCCTAACTTAAACTAATGAA-GG
65 TTCACC-AACTTAAACCAACGAAGGG
* *
2029338 GA-TCTTCCAAATAATCATTTCACTTGACTTAAAACCACGAAAGGGG-GTCATCCAAAGAAT-TC
1 GAGTCATCCAAAGAATCATTTCACTTGACTTAAAACCACG-AAGGGGAGTCATCCAAAGAATCTC
**
2029400 TTCACCGGCTTAAACCAACGAAGGG
65 TTCACCAACTTAAACCAACGAAGGG
* * *
2029425 GAGTCATCTAAAGAATCATTTCACCTAACTT-AAACCTACGAAGGGGAGTCATCCAAAGAATC-C
1 GAGTCATCCAAAGAATCATTTCACTTGACTTAAAACC-ACGAAGGGGAGTCATCCAAAGAATCTC
* * *
2029488 TT-AACATGGCTTAAACCCACGAAGGG
65 TTCACCA--ACTTAAACCAACGAAGGG
* *** *
2029514 GAGTCGTATGAAGAATCATTTCACCTGACTTAA
1 GAGTCATCCAAAGAATCATTTCACTTGACTTAA
2029547 GCTCGCGAAG
Statistics
Matches: 236, Mismatches: 41, Indels: 33
0.76 0.13 0.11
Matches are distributed among these distances:
84 5 0.02
85 24 0.10
86 46 0.19
87 29 0.12
88 73 0.31
89 58 0.25
90 1 0.00
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.24
Consensus pattern (89 bp):
GAGTCATCCAAAGAATCATTTCACTTGACTTAAAACCACGAAGGGGAGTCATCCAAAGAATCTCT
TCACCAACTTAAACCAACGAAGGG
Found at i:2029513 original size:131 final size:130
Alignment explanation
Indices: 2029164--2029514 Score: 358
Period size: 131 Copynumber: 2.7 Consensus size: 130
2029154 CCCGCGATGA
* * * *
2029164 GAGTCATCCAAAGAATCA-TTCACCTACCTTAAAACCCT-CTAAGGGGAGTCATCTAAAGAA-CA
1 GAGTCATCTAAAGAATCATTTCACCTAACTT-AAA-CCTACGAAGGGGAGTCATCCAAAGAATCA
* * ** ** * **
2029226 TTTTACTTGGCTTAAACCCGCGAAGAGAAGTCATCCAAATCACTCACTTGACTTAAACCCGCGAA
64 TTTAACTTGGCTTAAACCCACGAAG-GGGGTCATCCAAAGAACTCACTCGACTTAAACCAACGAA
2029291 GGG
128 GGG
* * * * *
2029294 GAGTCTTCTAAAGAATCATTTCGCCTAACTTAAA-CTAATGAA-GGGA-TCTTCCAAATAATCAT
1 GAGTCATCTAAAGAATCATTTCACCTAACTTAAACCT-ACGAAGGGGAGTCATCCAAAGAATCAT
* * * *
2029356 TTCACTTGACTTAAAACCACGAAAGGGGGTCATCCAAAGAATTCTTCAC-CGGCTTAAACCAACG
65 TTAACTTGGCTTAAACCCACG-AAGGGGGTCATCCAAAGAA--C-TCACTCGACTTAAACCAACG
2029420 AAGGG
126 AAGGG
*
2029425 GAGTCATCTAAAGAATCATTTCACCTAACTTAAACCTACGAAGGGGAGTCATCCAAAGAATC-CT
1 GAGTCATCTAAAGAATCATTTCACCTAACTTAAACCTACGAAGGGGAGTCATCCAAAGAATCATT
*
2029489 TAACATGGCTTAAACCCACGAAGGGG
66 TAACTTGGCTTAAACCCACGAAGGGG
2029515 AGTCGTATGA
Statistics
Matches: 179, Mismatches: 31, Indels: 21
0.77 0.13 0.09
Matches are distributed among these distances:
128 11 0.06
129 36 0.20
130 24 0.13
131 69 0.39
132 27 0.15
133 12 0.07
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.23
Consensus pattern (130 bp):
GAGTCATCTAAAGAATCATTTCACCTAACTTAAACCTACGAAGGGGAGTCATCCAAAGAATCATT
TAACTTGGCTTAAACCCACGAAGGGGGTCATCCAAAGAACTCACTCGACTTAAACCAACGAAGGG
Found at i:2029556 original size:89 final size:87
Alignment explanation
Indices: 2029350--2029567 Score: 276
Period size: 89 Copynumber: 2.5 Consensus size: 87
2029340 TCTTCCAAAT
* * *
2029350 AATCATTTCACTTGACTTAAAACCACGAAAGGGG-GTCATCCAAAGAATTCTTCACCGGCTTAAA
1 AATCATTTCACCTGACTT-AAACCACG-AAGGGGAGTCATCCAAAGAATCCTTAACCGGCTTAAA
*
2029414 CCAACGAAGGGGAGTCATCTAAAG
64 CCAACGAAGGGGAGTCATATAAAG
* *
2029438 AATCATTTCACCTAACTTAAACCTACGAAGGGGAGTCATCCAAAGAATCCTTAACATGGCTTAAA
1 AATCATTTCACCTGACTTAAACC-ACGAAGGGGAGTCATCCAAAGAATCCTTAAC-CGGCTTAAA
* * *
2029503 CCCACGAAGGGGAGTCGTATGAAG
64 CCAACGAAGGGGAGTCATATAAAG
* * *
2029527 AATCATTTCACCTGACTTAAGCTCGCGAAGGAGAGTCATCC
1 AATCATTTCACCTGACTTAAAC-CACGAAGGGGAGTCATCC
2029568 GAGAACATTC
Statistics
Matches: 113, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
87 11 0.10
88 38 0.34
89 63 0.56
90 1 0.01
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.22
Consensus pattern (87 bp):
AATCATTTCACCTGACTTAAACCACGAAGGGGAGTCATCCAAAGAATCCTTAACCGGCTTAAACC
AACGAAGGGGAGTCATATAAAG
Found at i:2030450 original size:38 final size:38
Alignment explanation
Indices: 2030407--2030483 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
2030397 TATATTTCAC
2030407 TTTAATTGAAACTTCAATTTAGTTTGATTTTATATTAG
1 TTTAATTGAAACTTCAATTTAGTTTGATTTTATATTAG
2030445 TTTAATTGAAACTTCAATTTAGTTTGATTTTATATTAG
1 TTTAATTGAAACTTCAATTTAGTTTGATTTTATATTAG
2030483 T
1 T
2030484 AAACTTTTAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.31, C:0.05, G:0.10, T:0.53
Consensus pattern (38 bp):
TTTAATTGAAACTTCAATTTAGTTTGATTTTATATTAG
Found at i:2030466 original size:22 final size:22
Alignment explanation
Indices: 2030407--2030469 Score: 59
Period size: 22 Copynumber: 3.1 Consensus size: 22
2030397 TATATTTCAC
2030407 TTTAATTGAAACTTCAATTTAG
1 TTTAATTGAAACTTCAATTTAG
*
2030429 TTTGATT-----TT--ATATTAG
1 TTTAATTGAAACTTCAAT-TTAG
2030445 TTTAATTGAAACTTCAATTTAG
1 TTTAATTGAAACTTCAATTTAG
2030467 TTT
1 TTT
2030470 GATTTTATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 16
0.63 0.04 0.33
Matches are distributed among these distances:
15 2 0.06
16 10 0.32
17 2 0.06
21 2 0.06
22 13 0.42
23 2 0.06
ACGTcount: A:0.32, C:0.06, G:0.10, T:0.52
Consensus pattern (22 bp):
TTTAATTGAAACTTCAATTTAG
Found at i:2034386 original size:36 final size:37
Alignment explanation
Indices: 2034342--2034423 Score: 98
Period size: 36 Copynumber: 2.3 Consensus size: 37
2034332 TTTCAAAATA
*
2034342 TTTTTGAAAAACGTATAT-ATAGTTTTCAAA-AAACGG
1 TTTTTGAAAAACATATATGAT-GTTTTCAAATAAACGG
* * *
2034378 TTTTTG-AAAACATATATGATTTTTTGAAATAATCGG
1 TTTTTGAAAAACATATATGATGTTTTCAAATAAACGG
2034414 TTTTTGAAAA
1 TTTTTGAAAA
2034424 TATATGTAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
35 17 0.44
36 19 0.49
37 3 0.08
ACGTcount: A:0.39, C:0.06, G:0.13, T:0.41
Consensus pattern (37 bp):
TTTTTGAAAAACATATATGATGTTTTCAAATAAACGG
Found at i:2034570 original size:75 final size:73
Alignment explanation
Indices: 2034484--2034659 Score: 257
Period size: 73 Copynumber: 2.4 Consensus size: 73
2034474 TTTTAATTTT
* * *
2034484 TTTTAAAAATATATATAATATATAGTTTTGAAAATA-TTTTGAATATATATATATATATATATAG
1 TTTTAAAAATATATATAATATATAGTTTTGAAAACATTTTTCAA-A-AAATATATA-ATATATAG
2034548 TTTTGAAAAC-A
63 TTTT-AAAACGA
2034559 TTTTAAAAATATATATAATATATAGTTTTGAAAACATTTTTCAAAAAATATATAATATATAGTTT
1 TTTTAAAAATATATATAATATATAGTTTTGAAAACATTTTTCAAAAAATATATAATATATAGTTT
*
2034624 TAAAACGT
66 TAAAACGA
*
2034632 TTTTGAAAATATATATAATATATAGTTT
1 TTTTAAAAATATATATAATATATAGTTT
2034660 GATATATAGG
Statistics
Matches: 94, Mismatches: 5, Indels: 6
0.90 0.05 0.06
Matches are distributed among these distances:
72 5 0.05
73 39 0.41
74 8 0.09
75 36 0.38
76 6 0.06
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (73 bp):
TTTTAAAAATATATATAATATATAGTTTTGAAAACATTTTTCAAAAAATATATAATATATAGTTT
TAAAACGA
Found at i:2034587 original size:36 final size:36
Alignment explanation
Indices: 2034484--2034659 Score: 248
Period size: 36 Copynumber: 4.8 Consensus size: 36
2034474 TTTTAATTTT
*
2034484 TTTTAAAAATATATATAATATATAGTTTTGAAAATA
1 TTTTAAAAATATATATAATATATAGTTTTGAAAACA
*
2034520 TTTTGAATATATATATATATATATATAGTTTTGAAAACA
1 TTTT-AA-AAATATATATA-ATATATAGTTTTGAAAACA
2034559 TTTTAAAAATATATATAATATATAGTTTTGAAAACA
1 TTTTAAAAATATATATAATATATAGTTTTGAAAACA
*
2034595 TTTTTCAAAAA-ATATATAATATATAGTTTT-AAAACGT
1 -TTTT-AAAAATATATATAATATATAGTTTTGAAAAC-A
*
2034632 TTTTGAAAATATATATAATATATAGTTT
1 TTTTAAAAATATATATAATATATAGTTT
2034660 GATATATAGG
Statistics
Matches: 128, Mismatches: 5, Indels: 14
0.87 0.03 0.10
Matches are distributed among these distances:
35 4 0.03
36 50 0.39
37 35 0.27
38 17 0.13
39 22 0.17
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (36 bp):
TTTTAAAAATATATATAATATATAGTTTTGAAAACA
Found at i:2034636 original size:48 final size:49
Alignment explanation
Indices: 2034584--2034689 Score: 117
Period size: 48 Copynumber: 2.2 Consensus size: 49
2034574 TAATATATAG
* *
2034584 TTTTGAAAACATTTTTCAAAAAATA-TATAATATATA-GTTTTAAAACGT
1 TTTTGAAAACATATAT-AAAAAATAGTATAATATATAGGTTTTAAAACGT
* * * * *
2034632 TTTTGAAAATATATATAATATATAGTTTGATATATAGGTTTTAAAACGT
1 TTTTGAAAACATATATAAAAAATAGTATAATATATAGGTTTTAAAACGT
2034681 TTTTCGAAA
1 TTTT-GAAA
2034690 TATATTTTAT
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
47 6 0.12
48 22 0.46
49 16 0.33
50 4 0.08
ACGTcount: A:0.42, C:0.05, G:0.09, T:0.43
Consensus pattern (49 bp):
TTTTGAAAACATATATAAAAAATAGTATAATATATAGGTTTTAAAACGT
Found at i:2036098 original size:10 final size:10
Alignment explanation
Indices: 2036035--2036092 Score: 55
Period size: 10 Copynumber: 5.7 Consensus size: 10
2036025 ATAACCCCTC
2036035 TTAATTTGAAT
1 TTAATTT-AAT
*
2036046 GTT-ATTTTAT
1 -TTAATTTAAT
* *
2036056 TTCATTTATT
1 TTAATTTAAT
*
2036066 TTAACTTAAT
1 TTAATTTAAT
2036076 TTAATTTAAT
1 TTAATTTAAT
2036086 TTAATTT
1 TTAATTT
2036093 TTTTTATTTA
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
9 2 0.05
10 30 0.79
11 4 0.11
12 2 0.05
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.62
Consensus pattern (10 bp):
TTAATTTAAT
Found at i:2036098 original size:15 final size:15
Alignment explanation
Indices: 2036035--2036102 Score: 68
Period size: 15 Copynumber: 4.5 Consensus size: 15
2036025 ATAACCCCTC
2036035 TTAATTTGAATGTTATT
1 TTAATTT-AAT-TTATT
*
2036052 TT-ATTTCATTTATT
1 TTAATTTAATTTATT
* *
2036066 TTAACTTAATTTAAT
1 TTAATTTAATTTATT
2036081 TTAATTTAATTT-TT
1 TTAATTTAATTTATT
*
2036095 TTTATTTA
1 TTAATTTA
2036103 TTCTAACCCT
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
14 15 0.35
15 22 0.51
16 4 0.09
17 2 0.05
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (15 bp):
TTAATTTAATTTATT
Found at i:2043048 original size:38 final size:37
Alignment explanation
Indices: 2042925--2043293 Score: 369
Period size: 38 Copynumber: 9.8 Consensus size: 37
2042915 AAATAATCGG
* *
2042925 TTTTTGAAAATATATGT-A-ATATGGTTTTGAAAATACA
1 TTTTTGAAAATATATATAATATATAGTTTTG-AAA-ACA
* * * *
2042962 -ATTT-AAAA-ACATATATTATATAATTTTGAAAACA
1 TTTTTGAAAATATATATAATATATAGTTTTGAAAACA
*
2042996 ATTTTGAAAATATATATAAT-TAATAGTTTTGAAAACA
1 TTTTTGAAAATATATATAATAT-ATAGTTTTGAAAACA
2043033 TTTTTTGAAAATATATATAATATATAGTTTTGAAAACA
1 -TTTTTGAAAATATATATAATATATAGTTTTGAAAACA
*
2043071 -TTTTGAATATATATATATATATAATATATGATTTTGAATACA
1 TTTTTGAA-A-ATATATATA-AT-ATATA-G-TTTTGAAAACA
*
2043113 TTTTTTTGAAAATATATATAACATATAGTTTTGAAAACA
1 --TTTTTGAAAATATATATAATATATAGTTTTGAAAACA
* * *
2043152 -TTTTGAAATCAAATATATTATATTTAGTTTTGAAAAACA
1 TTTTTGAAA--ATATATATAATATATAGTTTTG-AAAACA
*
2043191 TTTTTGAAAATATATATAATATATAGTTTGGAAAACA
1 TTTTTGAAAATATATATAATATATAGTTTTGAAAACA
* * * *
2043228 TTTTTCAAAAAAATATATAATACATAGTTTT-AAAACG
1 TTTTT-GAAAATATATATAATATATAGTTTTGAAAACA
*
2043265 TTTTTGAAAATTTATATAATATATAGTTT
1 TTTTTGAAAATATATATAATATATAGTTT
2043294 GATATATAGG
Statistics
Matches: 279, Mismatches: 31, Indels: 45
0.79 0.09 0.13
Matches are distributed among these distances:
34 7 0.03
35 10 0.04
36 52 0.19
37 43 0.15
38 100 0.36
39 19 0.07
40 14 0.05
41 6 0.02
42 11 0.04
43 9 0.03
44 1 0.00
45 7 0.03
ACGTcount: A:0.45, C:0.04, G:0.08, T:0.43
Consensus pattern (37 bp):
TTTTTGAAAATATATATAATATATAGTTTTGAAAACA
Found at i:2043342 original size:12 final size:13
Alignment explanation
Indices: 2043324--2043362 Score: 53
Period size: 12 Copynumber: 3.0 Consensus size: 13
2043314 GTTTTTCGAA
2043324 ATATATTTTTT-T
1 ATATATTTTTTAT
*
2043336 GTATATTTTTTAT
1 ATATATTTTTTAT
2043349 ATATATTTATTTAT
1 ATATATTT-TTTAT
2043363 TTGTTTGTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
12 10 0.43
13 8 0.35
14 5 0.22
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (13 bp):
ATATATTTTTTAT
Found at i:2044685 original size:5 final size:5
Alignment explanation
Indices: 2044675--2044708 Score: 59
Period size: 5 Copynumber: 6.6 Consensus size: 5
2044665 ATGTTATTTT
2044675 TTTAA TTTAA TTTAA TTTAA CTTTAA TTTAA TTT
1 TTTAA TTTAA TTTAA TTTAA -TTTAA TTTAA TTT
2044709 TTATTTGTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 23 0.82
6 5 0.18
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (5 bp):
TTTAA
Found at i:2044701 original size:16 final size:15
Alignment explanation
Indices: 2044675--2044708 Score: 59
Period size: 16 Copynumber: 2.2 Consensus size: 15
2044665 ATGTTATTTT
2044675 TTTAATTTAATTTAA
1 TTTAATTTAATTTAA
2044690 TTTAACTTTAATTTAA
1 TTTAA-TTTAATTTAA
2044706 TTT
1 TTT
2044709 TTATTTGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (15 bp):
TTTAATTTAATTTAA
Found at i:2044714 original size:11 final size:11
Alignment explanation
Indices: 2044654--2044714 Score: 58
Period size: 11 Copynumber: 5.8 Consensus size: 11
2044644 GTATAACCCC
2044654 TTTTAATTTGAA
1 TTTTAATTT-AA
*
2044666 TGTT-ATTT--
1 TTTTAATTTAA
2044674 TTTTAATTTAA
1 TTTTAATTTAA
2044685 -TTTAATTTAA
1 TTTTAATTTAA
*
2044695 CTTTAATTTAA
1 TTTTAATTTAA
*
2044706 TTTTTATTT
1 TTTTAATTT
2044715 GTTTTATTCT
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
8 3 0.07
9 4 0.10
10 10 0.24
11 21 0.51
12 3 0.07
ACGTcount: A:0.30, C:0.02, G:0.03, T:0.66
Consensus pattern (11 bp):
TTTTAATTTAA
Found at i:2051194 original size:14 final size:14
Alignment explanation
Indices: 2051175--2051207 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
2051165 AAAAAATATA
2051175 GCAATAAGTAAGAT
1 GCAATAAGTAAGAT
2051189 GCAATAAGTAAGAT
1 GCAATAAGTAAGAT
2051203 GCAAT
1 GCAAT
2051208 GGTTATAGCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.48, C:0.09, G:0.21, T:0.21
Consensus pattern (14 bp):
GCAATAAGTAAGAT
Found at i:2054828 original size:22 final size:22
Alignment explanation
Indices: 2054803--2054844 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
2054793 AAACAACGGC
*
2054803 TAACCTAGCATAGGGAGAAGGT
1 TAACCTAGCATACGGAGAAGGT
*
2054825 TAACCTAGCGTACGGAGAAG
1 TAACCTAGCATACGGAGAAG
2054845 TTATATGGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.36, C:0.17, G:0.31, T:0.17
Consensus pattern (22 bp):
TAACCTAGCATACGGAGAAGGT
Found at i:2055567 original size:18 final size:19
Alignment explanation
Indices: 2055541--2055600 Score: 61
Period size: 18 Copynumber: 3.1 Consensus size: 19
2055531 GTTATAATAA
2055541 AATATTAATTATGATAATT
1 AATATTAATTATGATAATT
* *
2055560 AA-ATTAATAAAT-ATACTT
1 AATATTAAT-TATGATAATT
2055578 AATATATTAATTATGATAATT
1 -A-ATATTAATTATGATAATT
2055599 AA
1 AA
2055601 CATACTTTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
18 11 0.34
19 6 0.19
20 4 0.12
21 11 0.34
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (19 bp):
AATATTAATTATGATAATT
Found at i:2055600 original size:21 final size:20
Alignment explanation
Indices: 2055534--2055600 Score: 68
Period size: 21 Copynumber: 3.4 Consensus size: 20
2055524 TTTAAATGTT
*
2055534 ATAATAAAATATTAATTATG
1 ATAATTAAATATTAATTATG
*
2055554 ATAATT-AA-ATTAATAAAT-
1 ATAATTAAATATTAAT-TATG
*
2055572 ATACTTAATATATTAATTATG
1 ATAATTAA-ATATTAATTATG
2055593 ATAATTAA
1 ATAATTAA
2055601 CATACTTTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 9
0.73 0.10 0.18
Matches are distributed among these distances:
18 11 0.30
19 5 0.14
20 8 0.22
21 13 0.35
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (20 bp):
ATAATTAAATATTAATTATG
Found at i:2055634 original size:8 final size:8
Alignment explanation
Indices: 2055621--2055750 Score: 51
Period size: 8 Copynumber: 16.5 Consensus size: 8
2055611 ATTTAATACT
2055621 TATATTTA
1 TATATTTA
2055629 TATATTTA
1 TATATTTA
*
2055637 -ATACTTA
1 TATATTTA
*
2055644 TAT-TATA
1 TATATTTA
2055651 TA-ATTTA
1 TATATTTA
*
2055658 -ATACTT-
1 TATATTTA
2055664 TATA-TTA
1 TATATTTA
*
2055671 TATACTTTCG
1 TATA-TTT-A
*
2055681 TACTTATGTA
1 TA--TATTTA
2055691 CTTATATTTA
1 --TATATTTA
*
2055701 TATATATA
1 TATATTTA
*
2055709 TATACTTA
1 TATATTTA
*
2055717 TA-CTTTA
1 TATATTTA
*
2055724 TA-GTTTA
1 TATATTTA
*
2055731 TATATATA
1 TATATTTA
*
2055739 TATATATA
1 TATATTTA
2055747 TATA
1 TATA
2055751 AAGTACCAAA
Statistics
Matches: 92, Mismatches: 17, Indels: 26
0.68 0.13 0.19
Matches are distributed among these distances:
6 3 0.03
7 34 0.37
8 40 0.43
9 2 0.02
10 7 0.08
11 2 0.02
12 4 0.04
ACGTcount: A:0.38, C:0.06, G:0.02, T:0.54
Consensus pattern (8 bp):
TATATTTA
Found at i:2055676 original size:56 final size:58
Alignment explanation
Indices: 2055570--2055677 Score: 143
Period size: 56 Copynumber: 1.9 Consensus size: 58
2055560 AAATTAATAA
2055570 ATATACTTAATATATTAATTATGATAATTAACATACTTTATATTTAATACTTATATTT
1 ATATACTTAATATATTAATTATGATAATTAACATACTTTATATTTAATACTTATATTT
* * *
2055628 ATATATTTAATA-CTTATATTAT-ATAATTTA-ATACTTTATA-TTATATACTT
1 ATATACTTAATATATTA-ATTATGATAATTAACATACTTTATATTTA-ATACTT
2055678 TCGTACTTAT
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
55 3 0.07
56 16 0.36
57 10 0.22
58 16 0.36
ACGTcount: A:0.41, C:0.06, G:0.01, T:0.52
Consensus pattern (58 bp):
ATATACTTAATATATTAATTATGATAATTAACATACTTTATATTTAATACTTATATTT
Found at i:2055685 original size:22 final size:21
Alignment explanation
Indices: 2055608--2055674 Score: 102
Period size: 21 Copynumber: 3.2 Consensus size: 21
2055598 TAACATACTT
2055608 TATATTTAATAC-TTATATTTA
1 TATATTTAATACTTTATA-TTA
2055629 TATATTTAATAC-TTATATTA
1 TATATTTAATACTTTATATTA
2055649 TATAATTTAATACTTTATATTA
1 TAT-ATTTAATACTTTATATTA
2055671 TATA
1 TATA
2055675 CTTTCGTACT
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
20 6 0.14
21 27 0.61
22 11 0.25
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.55
Consensus pattern (21 bp):
TATATTTAATACTTTATATTA
Found at i:2055706 original size:2 final size:2
Alignment explanation
Indices: 2055693--2055750 Score: 55
Period size: 2 Copynumber: 28.0 Consensus size: 2
2055683 CTTATGTACT
* * *
2055693 TA TA TT TA TA TA TA TA TA TA CT- TA TA CTT TA TA GTT TA TA TA
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA -TA TA TA TA
2055735 TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA
2055751 AAGTACCAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
1 1 0.02
2 42 0.91
3 3 0.07
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.53
Consensus pattern (2 bp):
TA
Found at i:2056908 original size:128 final size:130
Alignment explanation
Indices: 2056728--2056966 Score: 301
Period size: 129 Copynumber: 1.8 Consensus size: 130
2056718 CCGTTGACCG
* * *
2056728 TTGACTTTGACCAAAAAGTCAAAATTTTGAAAAGTCTATTTTATGTTATTCGATG-TCTGAGTCT
1 TTGACTTTGACCAAAAAGTC-AAATTTTGAAAAGACTATTTTATGTTATTCGATGTTCTAAGTCC
2056792 GAATCCGAAGTCCGTTTTGCCAAATTCGAA-CCTGAAACCCTCGAAATGGTCAGCCAAACCCGTA
65 GAATCCGAAGTCCGTTTTGCCAAATTCGAAGCC--AAACCCTCGAAATGGTCAGCCAAACCCGTA
2056856 ACT
128 ACT
* * *
2056859 TTGAC-TTGACCAAAAAGTC-AATTTTCGAAAAGAC-ATTTTGT-TCTTTTCGATGTTCTAATTC
1 TTGACTTTGACCAAAAAGTCAAATTTT-GAAAAGACTATTTTATGT-TATTCGATGTTCTAAGTC
* * * *
2056920 CGATTTCGTAGTCCGTTTTGCCAAATTCGAAGCCAAAGCCTCGAAAT
64 CGAATCCGAAGTCCGTTTTGCCAAATTCGAAGCCAAACCCTCGAAAT
2056967 TGTGAGTCAA
Statistics
Matches: 94, Mismatches: 10, Indels: 11
0.82 0.09 0.10
Matches are distributed among these distances:
127 1 0.01
128 32 0.34
129 40 0.43
130 16 0.17
131 5 0.05
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (130 bp):
TTGACTTTGACCAAAAAGTCAAATTTTGAAAAGACTATTTTATGTTATTCGATGTTCTAAGTCCG
AATCCGAAGTCCGTTTTGCCAAATTCGAAGCCAAACCCTCGAAATGGTCAGCCAAACCCGTAACT
Found at i:2064106 original size:12 final size:13
Alignment explanation
Indices: 2064083--2064420 Score: 78
Period size: 13 Copynumber: 24.8 Consensus size: 13
2064073 AAAAAAGTAT
2064083 AAGTATATATATA
1 AAGTATATATATA
2064096 AAGTATAATATGTATA
1 AAGTAT-ATA--TATA
2064112 TATA-TATATATATA
1 -A-AGTATATATATA
*
2064126 AACTATAAGGTATATA
1 AAGTAT-A--TATATA
* * * *
2064142 TACTTTAAAGTATA
1 AAGTATATA-TATA
2064156 AAGTATATATATA
1 AAGTATATATATA
2064169 CATA-TATATAACTATA
1 -A-AGTATAT-A-TATA
*
2064185 AAGTATAAAGTAT-
1 AAGTATATA-TATA
2064198 AAGTATAT-TAT-
1 AAGTATATATATA
*
2064209 AACTATATATATA
1 AAGTATATATATA
*
2064222 AATTGTAAAGTATATA
1 AA--GTATA-TATATA
* * *
2064238 TACTTTATACTA-A
1 AAGTATATA-TATA
*
2064251 AACT-T-TATATA
1 AAGTATATATATA
*
2064262 AATTATATACT-TA
1 AAGTATATA-TATA
*
2064275 TA-TATATATATA
1 AAGTATATATATA
*
2064287 AAGT-TTTAGTATA
1 AAGTATATA-TATA
* * *
2064300 AATTTTATATACA
1 AAGTATATATATA
*
2064313 TA-TATAATAATATA
1 AAGTAT-AT-ATATA
2064327 AAGTATA-AGTAT-
1 AAGTATATA-TATA
*
2064339 -ATTATATATATA
1 AAGTATATATATA
*
2064351 AAATATA-ATTATA
1 AAGTATATA-TATA
* *
2064364 AAGAATAAAGTATA
1 AAGTATATA-TATA
2064378 TAAGTATATAATATA
1 -AAGTATAT-ATATA
2064393 AAGTATATAAGTATATA
1 AAG--TAT-A-TATATA
2064410 AAGTATATATA
1 AAGTATATATA
2064421 CATATAAAGT
Statistics
Matches: 245, Mismatches: 36, Indels: 88
0.66 0.10 0.24
Matches are distributed among these distances:
10 2 0.01
11 25 0.10
12 23 0.09
13 70 0.29
14 51 0.21
15 27 0.11
16 32 0.13
17 13 0.05
18 2 0.01
ACGTcount: A:0.51, C:0.03, G:0.07, T:0.40
Consensus pattern (13 bp):
AAGTATATATATA
Found at i:2064117 original size:53 final size:52
Alignment explanation
Indices: 2064060--2064176 Score: 118
Period size: 49 Copynumber: 2.2 Consensus size: 52
2064050 ACACATTTAA
*
2064060 ATATACACATATAAAAAAAGTATAA-GTATATATA-TAAAGTATAATATGTATAT
1 ATATACA-ATATAAAAAAACTATAAGGTATATATATTAAAGTATAA-A-GTATAT
* *
2064113 ATAT---ATATATATAAACTATAAGGTATATATACTTTAAAGTATAAAGTATAT
1 ATATACAATATAAAAAAACTATAAGGTATATATA--TTAAAGTATAAAGTATAT
2064164 ATATACATATATA
1 ATATACA-ATATA
2064177 TAACTATAAA
Statistics
Matches: 53, Mismatches: 3, Indels: 14
0.76 0.04 0.20
Matches are distributed among these distances:
49 14 0.26
50 9 0.17
51 10 0.19
52 1 0.02
53 14 0.26
55 5 0.09
ACGTcount: A:0.52, C:0.04, G:0.07, T:0.37
Consensus pattern (52 bp):
ATATACAATATAAAAAAACTATAAGGTATATATATTAAAGTATAAAGTATAT
Found at i:2064155 original size:23 final size:22
Alignment explanation
Indices: 2064114--2064168 Score: 74
Period size: 23 Copynumber: 2.5 Consensus size: 22
2064104 TATGTATATA
*
2064114 TATATATATATAAACTATAAGG
1 TATATATATATAAACTATAAAG
* *
2064136 TATATATACTTTAAAGTATAAAG
1 TATATATA-TATAAACTATAAAG
2064159 TATATATATA
1 TATATATATA
2064169 CATATATATA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 9 0.32
23 19 0.68
ACGTcount: A:0.49, C:0.04, G:0.07, T:0.40
Consensus pattern (22 bp):
TATATATATATAAACTATAAAG
Found at i:2064157 original size:7 final size:7
Alignment explanation
Indices: 2064147--2064204 Score: 50
Period size: 7 Copynumber: 8.3 Consensus size: 7
2064137 ATATATACTT
2064147 TAAAGTA
1 TAAAGTA
2064154 TAAAGTA
1 TAAAGTA
*
2064161 TATA-TA
1 TAAAGTA
2064167 TACATA-TA
1 TA-A-AGTA
*
2064175 TATAACTA
1 TA-AAGTA
2064183 TAAAGTA
1 TAAAGTA
2064190 TAAAGTA
1 TAAAGTA
2064197 T-AAGTA
1 TAAAGTA
2064203 TA
1 TA
2064205 TTATAACTAT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
6 10 0.23
7 23 0.53
8 10 0.23
ACGTcount: A:0.53, C:0.03, G:0.09, T:0.34
Consensus pattern (7 bp):
TAAAGTA
Found at i:2064177 original size:53 final size:51
Alignment explanation
Indices: 2064060--2064204 Score: 149
Period size: 53 Copynumber: 2.8 Consensus size: 51
2064050 ACACATTTAA
* * * *
2064060 ATATACACATATAAAAAAAGTATAAGTATATATATAAAGTATAATATGTAT
1 ATATATACATATATATAAACTATAAGTATATATATAAAGTATAATATGTAT
2064111 ATATAT--ATATATATAAACTATAAGGTATATATACTTTAAAGTATAA-A-GTAT
1 ATATATACATATATATAAACTATAA-GTATATATA---TAAAGTATAATATGTAT
*
2064162 ATATATACATATATAT-AACTATAAAGTATAAAGTAT-AAGTATA
1 ATATATACATATATATAAACTAT-AAGTATATA-TATAAAGTATA
2064205 TTATAACTAT
Statistics
Matches: 81, Mismatches: 5, Indels: 18
0.78 0.05 0.17
Matches are distributed among these distances:
49 21 0.26
50 10 0.12
51 15 0.19
52 13 0.16
53 22 0.27
ACGTcount: A:0.52, C:0.04, G:0.08, T:0.36
Consensus pattern (51 bp):
ATATATACATATATATAAACTATAAGTATATATATAAAGTATAATATGTAT
Found at i:2064222 original size:30 final size:31
Alignment explanation
Indices: 2064080--2064239 Score: 125
Period size: 30 Copynumber: 5.1 Consensus size: 31
2064070 ATAAAAAAAG
* *
2064080 TATAAGTATATATATAAAGTATAA-TATGTA
1 TATAACTATATATATAAAGTATAAGTATATA
* *
2064110 TATATA-TATATATATAAACTATAAG-GTATA
1 TATA-ACTATATATATAAAGTATAAGTATATA
* * *
2064140 TAT-ACTTTAAAGTATAAAGTATATATATACATATA
1 TATAACTATATA-TATAAAGTATA-A-GT--ATATA
*
2064175 TATAACTATAAAGTATAAAGTATAAGTATAT-
1 TATAACTATATA-TATAAAGTATAAGTATATA
2064206 TATAACTATATATATAAATTGTA-AAGTATATA
1 TATAACTATATATATAAA--GTATAAGTATATA
2064238 TA
1 TA
2064240 CTTTATACTA
Statistics
Matches: 106, Mismatches: 11, Indels: 24
0.75 0.08 0.17
Matches are distributed among these distances:
28 1 0.01
29 4 0.04
30 43 0.41
31 21 0.20
32 9 0.08
34 1 0.01
35 8 0.08
36 19 0.18
ACGTcount: A:0.50, C:0.03, G:0.07, T:0.39
Consensus pattern (31 bp):
TATAACTATATATATAAAGTATAAGTATATA
Found at i:2064236 original size:142 final size:134
Alignment explanation
Indices: 2064090--2064481 Score: 313
Period size: 142 Copynumber: 2.9 Consensus size: 134
2064080 TATAAGTATA
*
2064090 TATATAAAGTATAATATGTATATATATATATATATAAACTATAAGGTATATATACTTTAAAGTAT
1 TATATAAAGTAT-ATATGTATATATATATATATATAAACTATAAAGTATATATACTTTAAAGTAT
*
2064155 AAAGTATATATATACATATATATAACTATAAAGTATAAAGTATAAGTATATTATAACTATATATA
65 AAAGTATATATATACATATATATAACTATAAAGTAT-AAGTAT-AGTATA-TAT-A-TA-AAATA
*
2064220 TAAATTGTAAAG
124 T-AATTATAAAG
* * * * * * * * * * *
2064232 TATATATACTTTATACT-AAAACTTTATATAAATTATATACTTATATATA-TATATAAAGTTT-T
1 TATATAAAGTATATA-TGTATA-TATATATATA-TATAAAC-TATA-A-AGTATATATACTTTAA
* *
2064294 AGTATAAA-T-TTTATATACATATATAATAA-TATAAAGTATAAGTATATTATATATATAAAATA
60 AGTATAAAGTATATATATACATATAT-ATAACTATAAAGTATAAGTATAGTATATATATAAAATA
2064356 TAATTATAAAG
124 TAATTATAAAG
* * *
2064367 -A-ATAAAGTATATAAGTATATAATATAAAGTATATAAGTA-TATAAAGTATATATACATATAAA
1 TATATAAAGTATATATGTATAT-ATATATA-TATATAA--ACTATAAAGTATATATAC-TTTAAA
* * * *
2064429 GTA-CAAGTATATATATATATATATA-AACTACAAAGTACAAGTAT-GTATATATA
61 GTATAAAGTATATATATACATATATATAACTATAAAGTATAAGTATAGTATATATA
2064482 GATATAAAGT
Statistics
Matches: 196, Mismatches: 36, Indels: 45
0.71 0.13 0.16
Matches are distributed among these distances:
131 1 0.01
132 9 0.05
133 38 0.19
134 22 0.11
135 23 0.12
136 5 0.03
137 2 0.01
138 1 0.01
139 3 0.02
140 5 0.03
141 11 0.06
142 42 0.21
143 11 0.06
144 12 0.06
145 11 0.06
ACGTcount: A:0.51, C:0.04, G:0.07, T:0.39
Consensus pattern (134 bp):
TATATAAAGTATATATGTATATATATATATATATAAACTATAAAGTATATATACTTTAAAGTATA
AAGTATATATATACATATATATAACTATAAAGTATAAGTATAGTATATATATAAAATATAATTAT
AAAG
Found at i:2064311 original size:40 final size:40
Alignment explanation
Indices: 2064264--2064339 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
2064254 TTTATATAAA
* * *
2064264 TTATATACTTATAT-ATATATATAAAGTTTTAGTATAAATT
1 TTATATACATATATAATA-ATATAAAGTATAAGTATAAATT
2064304 TTATATACATATATAATAATATAAAGTATAAGTATA
1 TTATATACATATATAATAATATAAAGTATAAGTATA
2064340 TTATATATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
40 29 0.91
41 3 0.09
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (40 bp):
TTATATACATATATAATAATATAAAGTATAAGTATAAATT
Found at i:2064332 original size:34 final size:31
Alignment explanation
Indices: 2064305--2064472 Score: 90
Period size: 34 Copynumber: 5.1 Consensus size: 31
2064295 GTATAAATTT
2064305 TATA-TACATATATAATAATATAAAGTATAAG
1 TATATTACATATATAA-AATATAAAGTATAAG
* *
2064336 TATATTATATATATAAAATAT-AATTATAAAG
1 TATATTACATATATAAAATATAAAGTAT-AAG
* * * *
2064367 AATAAAGTATATAAGTATATAATATAAAGTATATAAG
1 --TATATTACAT-A-TATAAAATATAAAG--TATAAG
* * *
2064404 TATA-TAAAGTATATATACATATAAAGTACAAG
1 TATATTACA-TATATA-AAATATAAAGTATAAG
* * *
2064436 TATATATATATATATATAAACTACAAAGTACAAG
1 TATAT-TACATATATA-AAA-TATAAAGTATAAG
2064470 TAT
1 TAT
2064473 GTATATATAG
Statistics
Matches: 109, Mismatches: 14, Indels: 25
0.74 0.09 0.17
Matches are distributed among these distances:
30 5 0.05
31 12 0.11
32 19 0.17
33 21 0.19
34 31 0.28
35 13 0.12
36 2 0.02
37 3 0.03
38 3 0.03
ACGTcount: A:0.54, C:0.04, G:0.07, T:0.35
Consensus pattern (31 bp):
TATATTACATATATAAAATATAAAGTATAAG
Found at i:2064333 original size:17 final size:17
Alignment explanation
Indices: 2064313--2064431 Score: 62
Period size: 17 Copynumber: 7.1 Consensus size: 17
2064303 TTTATATACA
2064313 TATATAATAATATAAAG
1 TATATAATAATATAAAG
* *
2064330 TATA-AGT-ATATTATA-
1 TATATAATAATA-TAAAG
2064345 TATATAA-AATAT-AA-
1 TATATAATAATATAAAG
2064359 T-TATAA-AGA-ATAAAG
1 TATATAATA-ATATAAAG
2064374 TATATAAGTATATAATATAAAG
1 TATAT-A--A--TAATATAAAG
2064396 TATATAAGT-ATATAAAG
1 TATATAA-TAATATAAAG
2064413 TATAT-ATACATATAAAG
1 TATATAATA-ATATAAAG
2064430 TA
1 TA
2064432 CAAGTATATA
Statistics
Matches: 81, Mismatches: 5, Indels: 32
0.69 0.04 0.27
Matches are distributed among these distances:
13 8 0.10
14 5 0.06
15 10 0.12
16 13 0.16
17 28 0.35
18 1 0.01
19 2 0.02
21 2 0.02
22 12 0.15
ACGTcount: A:0.55, C:0.01, G:0.08, T:0.36
Consensus pattern (17 bp):
TATATAATAATATAAAG
Found at i:2064357 original size:24 final size:23
Alignment explanation
Indices: 2064313--2064410 Score: 87
Period size: 22 Copynumber: 4.3 Consensus size: 23
2064303 TTTATATACA
*
2064313 TATATAATAATATAAAGTATAAG
1 TATATAATAATATAAAATATAAG
* *
2064336 TATATTATATATATAAAATATAAT
1 TATATAATA-ATATAAAATATAAG
* *
2064360 TATA-AAGAATA-AAGTATATAAG
1 TATATAATAATATAA-AATATAAG
*
2064382 TATATAAT-ATA-AAGTATATAAG
1 TATATAATAATATAA-AATATAAG
2064404 TATATAA
1 TATATAA
2064411 AGTATATATA
Statistics
Matches: 64, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
21 2 0.03
22 34 0.53
23 12 0.19
24 16 0.25
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (23 bp):
TATATAATAATATAAAATATAAG
Found at i:2064442 original size:17 final size:17
Alignment explanation
Indices: 2064382--2064445 Score: 58
Period size: 17 Copynumber: 3.6 Consensus size: 17
2064372 AGTATATAAG
*
2064382 TATATAATATAAAGTATA
1 TATAT-ATATAAAGTACA
*
2064400 TA-AGTATATAAAGTATA
1 TATA-TATATAAAGTACA
*
2064417 TATACATATAAAGTACAA
1 TATATATATAAAGTAC-A
2064435 GTATATATATA
1 -TATATATATA
2064446 TATATATAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
17 25 0.64
18 5 0.13
19 9 0.23
ACGTcount: A:0.53, C:0.03, G:0.08, T:0.36
Consensus pattern (17 bp):
TATATATATAAAGTACA
Found at i:2064478 original size:34 final size:35
Alignment explanation
Indices: 2064403--2064489 Score: 113
Period size: 34 Copynumber: 2.5 Consensus size: 35
2064393 AAGTATATAA
* * *
2064403 GTATATAAAGTATATATACATATAAAGTACAAGTAT
1 GTATATATA-TATATAAACATACAAAGTACAAGTAT
*
2064439 ATATATATATATATAAAC-TACAAAGTACAAGTAT
1 GTATATATATATATAAACATACAAAGTACAAGTAT
*
2064473 GTATATATAGATATAAA
1 GTATATATATATATAAA
2064490 GTTTTAGTAT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
34 30 0.67
35 8 0.18
36 7 0.16
ACGTcount: A:0.52, C:0.06, G:0.09, T:0.33
Consensus pattern (35 bp):
GTATATATATATATAAACATACAAAGTACAAGTAT
Found at i:2065625 original size:24 final size:24
Alignment explanation
Indices: 2065598--2065645 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
2065588 GTAAACTTCA
2065598 CTATCAGACTACTCAGACTGATAC
1 CTATCAGACTACTCAGACTGATAC
2065622 CTATCAGACTACTCAGACTGATAC
1 CTATCAGACTACTCAGACTGATAC
2065646 AAGTGTGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.29, G:0.12, T:0.25
Consensus pattern (24 bp):
CTATCAGACTACTCAGACTGATAC
Found at i:2066022 original size:39 final size:39
Alignment explanation
Indices: 2065968--2066069 Score: 125
Period size: 39 Copynumber: 2.6 Consensus size: 39
2065958 CTTTCCACAT
*
2065968 GCTCCTC-ATCTTTGTGCTCAGGGTAACTCTTTACCGCAG
1 GCTCCTCGA-CTTTGTGCTCAGGGTAACTCCTTACCGCAG
* * * * *
2066007 GCTCCTCGGCTTTGTGCTCTGTGTAAGTCCTTACTGCAG
1 GCTCCTCGACTTTGTGCTCAGGGTAACTCCTTACCGCAG
*
2066046 GCTCCTCGACTTTGTGCACAGGGT
1 GCTCCTCGACTTTGTGCTCAGGGT
2066070 GAGCCTTACT
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
39 52 1.00
ACGTcount: A:0.13, C:0.29, G:0.25, T:0.33
Consensus pattern (39 bp):
GCTCCTCGACTTTGTGCTCAGGGTAACTCCTTACCGCAG
Found at i:2066648 original size:21 final size:21
Alignment explanation
Indices: 2066616--2066667 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
2066606 GGGTTACATA
* *
2066616 TATAATAATATAAAGTAATAAG
1 TATAATTATATAAA-TAAAAAG
*
2066638 TAT-ATTATATATATAAAAAG
1 TATAATTATATAAATAAAAAG
2066658 TATAATTATA
1 TATAATTATA
2066668 AAGACTAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 9 0.35
21 14 0.54
22 3 0.12
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (21 bp):
TATAATTATATAAATAAAAAG
Found at i:2066683 original size:22 final size:22
Alignment explanation
Indices: 2066658--2066705 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
2066648 ATATAAAAAG
*
2066658 TATAATTA-TAAAGACTAAAGTA
1 TATAAGTATTAAAGA-TAAAGTA
*
2066680 TATAAGTATTAAATATAAAGTA
1 TATAAGTATTAAAGATAAAGTA
2066702 TATA
1 TATA
2066706 TATATATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.54, C:0.02, G:0.08, T:0.35
Consensus pattern (22 bp):
TATAAGTATTAAAGATAAAGTA
Found at i:2066707 original size:2 final size:2
Alignment explanation
Indices: 2066700--2067207 Score: 261
Period size: 2 Copynumber: 257.5 Consensus size: 2
2066690 AAATATAAAG
2066700 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A 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
* * * * *
2066741 TA TA TA TA AA GT- TT TA -A TA TA AA GTA TA TA TA CA TA TA CA -A
1 TA TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
* *
2066782 TA -A TA TA AA GTA TA -A GTA TA T- TA TA TA TA TA TA TA TA AA GTA
1 TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA -TA
* * * * *
2066824 TA -A T- TA TA AA GA T- TA AA GTA T- TA GCA TA TA -A TA TA AA GTA
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA -TA
* * *
2066864 TG TA -A GTA T- TA AA TA TA AA GTA 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
2066906 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A GTA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
* * * *
2066948 TA -A TA TA TA TA AA CTA TA AA GTA TA TA TA TA AA GT- TT TA GTA
1 TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA -TA TA TA -TA
* * *
2066990 TA AA GTA TA TA TA CA TA TA TA -A TA -A TA TA -A AA TA TA -A GTA
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA
* * * * * *
2067030 TA T- TA TA TA TA TA TA TA GA GA GA GA GA GTA TA -A T- TA TA AA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA
* * *
2067070 GA -A TA AA GTA TA TA -A GTA TA TA TA TA AA GTA 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
*
2067111 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T- TA TA TA TT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
2067151 TA TA TA TA CT- TA TA TA -A TA TA TA CTT TA TA TA TA -A TA TT TA
1 TA TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
2067192 TA CT- TA TA TA CTA TA T
1 TA -TA TA TA TA -TA TA T
2067208 TTAATACGTA
Statistics
Matches: 396, Mismatches: 53, Indels: 114
0.70 0.09 0.20
Matches are distributed among these distances:
1 32 0.08
2 339 0.86
3 25 0.06
ACGTcount: A:0.50, C:0.02, G:0.06, T:0.43
Consensus pattern (2 bp):
TA
Found at i:2066807 original size:20 final size:20
Alignment explanation
Indices: 2066635--2067154 Score: 208
Period size: 20 Copynumber: 26.0 Consensus size: 20
2066625 ATAAAGTAAT
* *
2066635 AAGTATATTATATATATAAA
1 AAGTATAATATATATATATA
* *
2066655 AAGTATAAT-TATAAAGACTA
1 AAGTATAATATATATATA-TA
*
2066675 AAGTAT-ATAAGTATTAAATATA
1 AAGTATAAT-A-TA-TATATATA
2066697 AAGTAT-ATATATATATAT-
1 AAGTATAATATATATATATA
2066715 -A-TAT-ATATATATATAT-
1 AAGTATAATATATATATATA
2066731 AA-TAT-ATATATATATATA
1 AAGTATAATATATATATATA
*
2066749 AAGTTTTAATATAAAGTATATATA
1 AAG-TATAATAT--A-TATATATA
* *
2066773 CA-TATACA-ATAATATAAAGTA
1 AAGTATA-ATAT-ATATATA-TA
2066794 TAAGTATATTATATATATATATATA
1 -AAG--TA-TA-ATATATATATATA
* *
2066819 AAGTATAAT-TATAAAGATTA
1 AAGTATAATATATATATA-TA
**
2066839 AAGTATTAGCATATA-ATATA
1 AAGTA-TAATATATATATATA
*
2066859 AAGTATGTAAGTAT-TAAATATA
1 AAGTA--TAA-TATATATATATA
2066881 AAGTAT-ATATATATATATA
1 AAGTATAATATATATATATA
*
2066900 TA-TATATATATATATATATA
1 AAGTATA-ATATATATATATA
*
2066920 TA-TATATATATATATATATA
1 AAGTATA-ATATATATATATA
2066940 TAAGTAT-ATA-ATATATATA
1 -AAGTATAATATATATATATA
*
2066959 AACTATAA-AGTATATATATA
1 AAGTATAATA-TATATATATA
* *
2066979 AAGTTTTAGTATAAAGTATATATA
1 AAG-TATA--ATATA-TATATATA
*
2067003 CA-TAT-ATA-ATA-ATATA
1 AAGTATAATATATATATATA
*
2067019 AAATATAAGTATAT-TATAT-
1 AAGTATAA-TATATATATATA
* * * *
2067038 -A-TAT-ATATAGAGAGAGA
1 AAGTATAATATATATATATA
* * *
2067055 GAGTATAAT-TATAAAGAATA
1 AAGTATAATATATATA-TATA
2067075 AAGTAT-ATAAGTATATATATA
1 AAGTATAAT-A-TATATATATA
2067096 AAGTAT-ATATATATATATA
1 AAGTATAATATATATATATA
*
2067115 TA-TATATATATATATATATA
1 AAGTATA-ATATATATATATA
* * * *
2067135 TATTATATTATATATTTATA
1 AAGTATAATATATATATATA
2067155 TATACTTATA
Statistics
Matches: 398, Mismatches: 45, Indels: 114
0.71 0.08 0.20
Matches are distributed among these distances:
15 4 0.01
16 24 0.06
17 25 0.06
18 21 0.05
19 64 0.16
20 130 0.33
21 38 0.10
22 46 0.12
23 9 0.02
24 22 0.06
25 4 0.01
26 9 0.02
27 2 0.01
ACGTcount: A:0.52, C:0.01, G:0.07, T:0.41
Consensus pattern (20 bp):
AAGTATAATATATATATATA
Found at i:2067155 original size:20 final size:20
Alignment explanation
Indices: 2067101--2067317 Score: 122
Period size: 22 Copynumber: 10.2 Consensus size: 20
2067091 ATATAAAGTA
*
2067101 TATATATATATATATATATAT
1 TATATATTTATATAT-TATAT
*
2067122 ATATATATATATATATTATAT
1 -TATATATTTATATATTATAT
2067143 TATATATTTATATATACTTATAT
1 TATATA-TT-TATATA-TTATAT
*
2067166 AATATATACTTTATATATAATAT
1 --TATATA-TTTATATATTATAT
* *
2067189 T-TATACTTATATACTATAT
1 TATATATTTATATATTATAT
**
2067208 T-TAATACGTATATACTT-TAT
1 TAT-ATATTTATATA-TTATAT
* *
2067228 TGTATACTTATACT-TTATAT
1 TATATATTTATA-TATTATAT
*
2067248 TA-ATATTTGTATACTTTATAT
1 TATATATTTATATA--TTATAT
*
2067269 T-TAATACTTATATATTTTATAT
1 TAT-ATA-TT-TATATATTATAT
*
2067291 TATATACTTATATACTTTATAT
1 TATATATTTATATA--TTATAT
2067313 TATAT
1 TATAT
2067318 GCTTATATAC
Statistics
Matches: 159, Mismatches: 16, Indels: 40
0.74 0.07 0.19
Matches are distributed among these distances:
18 1 0.01
19 22 0.14
20 41 0.26
21 18 0.11
22 45 0.28
23 14 0.09
24 10 0.06
25 8 0.05
ACGTcount: A:0.39, C:0.06, G:0.01, T:0.54
Consensus pattern (20 bp):
TATATATTTATATATTATAT
Found at i:2067246 original size:27 final size:27
Alignment explanation
Indices: 2067216--2067310 Score: 72
Period size: 27 Copynumber: 3.4 Consensus size: 27
2067206 ATTTAATACG
2067216 TATATACTTTATTGTATACTTATACTT
1 TATATACTTTATTGTATACTTATACTT
* *
2067243 TATATTAATAT-TTGTATACTTTATA-TT
1 TATA-TACTTTATTGTATAC-TTATACTT
* *
2067270 TA-ATACTTATATATTTTATATTATATAC-T
1 TATATAC-T-T-TATTGTATACT-TATACTT
2067299 TATATACTTTAT
1 TATATACTTTAT
2067311 ATTATATGCT
Statistics
Matches: 53, Mismatches: 6, Indels: 18
0.69 0.08 0.23
Matches are distributed among these distances:
25 2 0.04
26 2 0.04
27 19 0.36
28 12 0.23
29 14 0.26
30 4 0.08
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.57
Consensus pattern (27 bp):
TATATACTTTATTGTATACTTATACTT
Found at i:2067282 original size:22 final size:22
Alignment explanation
Indices: 2067185--2067331 Score: 152
Period size: 22 Copynumber: 7.0 Consensus size: 22
2067175 TTTATATATA
2067185 ATATTT-ATACTTATATAC--T
1 ATATTTAATACTTATATACTTT
*
2067204 ATATTTAATACGTATATACTTT
1 ATATTTAATACTTATATACTTT
*
2067226 AT-TGT-ATAC-T-TATACTTT
1 ATATTTAATACTTATATACTTT
* *
2067244 ATA-TTAATATTTGTATACTTT
1 ATATTTAATACTTATATACTTT
*
2067265 ATATTTAATACTTATATATTTT
1 ATATTTAATACTTATATACTTT
2067287 ATA-TTATATACTTATATACTTT
1 ATATTTA-ATACTTATATACTTT
*
2067309 ATA-TTATATGCTTATATACTTT
1 ATATTTA-ATACTTATATACTTT
2067331 A
1 A
2067332 GTCCTTATAA
Statistics
Matches: 110, Mismatches: 9, Indels: 15
0.82 0.07 0.11
Matches are distributed among these distances:
18 11 0.10
19 10 0.09
20 16 0.15
21 16 0.15
22 57 0.52
ACGTcount: A:0.35, C:0.08, G:0.03, T:0.54
Consensus pattern (22 bp):
ATATTTAATACTTATATACTTT
Found at i:2067346 original size:30 final size:30
Alignment explanation
Indices: 2067264--2067329 Score: 82
Period size: 29 Copynumber: 2.2 Consensus size: 30
2067254 TTGTATACTT
* * *
2067264 TATATTTA-ATACTTATATATTTTAT-ATTA
1 TATACTTATATACTT-TATATTATATGCTTA
2067293 TATACTTATATACTTTATATTATATGCTTA
1 TATACTTATATACTTTATATTATATGCTTA
2067323 TATACTT
1 TATACTT
2067330 TAGTCCTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 16 0.50
30 16 0.50
ACGTcount: A:0.35, C:0.08, G:0.02, T:0.56
Consensus pattern (30 bp):
TATACTTATATACTTTATATTATATGCTTA
Found at i:2067346 original size:44 final size:42
Alignment explanation
Indices: 2067137--2067752 Score: 171
Period size: 41 Copynumber: 14.7 Consensus size: 42
2067127 TATATATATA
* *
2067137 TTATATTATATATTTATATATACTTATATAATATATACTTTATA-T
1 TTATATTATATA-CT-TATATACTT-TATATTATATAC-TTATACT
* *
2067182 ATAATATT-TATACTTATATACTATAT-TTA-ATACGTATATAC-
1 -TTATATTATATACTTATATACTTTATATTATATAC-T-TATACT
* *
2067223 TT-TATTGTATAC-T-TATACTTTATATTA-ATATTTGTATACT
1 TTATATTATATACTTATATACTTTATATTATATA-CT-TATACT
*
2067263 TTATATT-TAATACTTATATATTTTATATTATATACTTATATACT
1 TTATATTAT-ATACTTATATACTTTATATTATATAC-T-TATACT
* *
2067307 TTATATTATATGCTTATATACTTTAGTCCTTATA-A-TTATACT
1 TTATATTATATACTTATATACTTTA-T-ATTATATACTTATACT
*
2067349 TTATATATATATACACTTA-A-A-GTT-TA-TATATACTTAT--T
1 TTATAT-TATAT--ACTTATATACTTTATATTATATACTTATACT
*
2067387 TTATAGTTATATAC-T-TATACTTTATATGTATATATATTATACT
1 TTATA-TTATATACTTATATACTTTATAT-TATATA-CTTATACT
* * * *
2067430 GATATACTTTATTATTAC-TATATACATTAGTCTT-TATAATTATACT
1 -TTATA--TTA-TA-TACTTATATACTTTA-TATTATATACTTATACT
* *
2067476 ATATATATATATAC-T-TATACTTTAATTATTATATATATATATACT
1 TTATAT-TATATACTTATATACTTT-A-TATTATATA-CT-TATACT
* * *
2067521 TATAAAAAATTATATA--TATATACTTTATTAGTTTTATACATATA-T
1 T-T---ATATTATATACTTATATACTTTA-TA-TTATATACTTATACT
* * *
2067566 ATATACTT-TATAC--AAAAACTTTATA-TATATA-TATATACCT
1 TTATA-TTATATACTTATATACTTTATATTATATACT-TATA-CT
* *
2067606 TTACT-TTATAGT--TTATATAC-ATATATATACATACTTATA-T
1 TTA-TATTATA-TACTTATATACTTTATAT-TATATACTTATACT
*
2067646 TT-TA-TATGTA--TATATACTTTATACACTTATATACTT-TAGTCT
1 TTATATTATATACTTATATACTTTAT--A-TTATATACTTATA--CT
* * * *
2067688 TTATAAT-TATACTT-TATA---TATATT-TGTAGTTTATAGT
1 TTATATTATATACTTATATACTTTATATTATATA-CTTATACT
2067725 TTATA-TATATACTTATATACTTTATATT
1 TTATATTATATACTTATATACTTTATATT
2067753 TAAACTATAT
Statistics
Matches: 440, Mismatches: 50, Indels: 165
0.67 0.08 0.25
Matches are distributed among these distances:
35 2 0.00
36 4 0.01
37 26 0.06
38 50 0.11
39 26 0.06
40 48 0.11
41 55 0.12
42 40 0.09
43 42 0.10
44 47 0.11
45 27 0.06
46 26 0.06
47 13 0.03
48 29 0.07
49 5 0.01
ACGTcount: A:0.37, C:0.08, G:0.03, T:0.52
Consensus pattern (42 bp):
TTATATTATATACTTATATACTTTATATTATATACTTATACT
Found at i:2067399 original size:19 final size:22
Alignment explanation
Indices: 2067373--2067427 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 22
2067363 ACTTAAAGTT
2067373 TATATATACTTAT-TTTATA-G
1 TATATATACTTATATTTATATG
2067393 T-TATATACTTATACTTTATATG
1 TATATATACTTATA-TTTATATG
2067415 TATATATA-TTATA
1 TATATATACTTATA
2067428 CTGATATACT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
19 11 0.35
20 1 0.03
21 6 0.19
22 7 0.23
23 6 0.19
ACGTcount: A:0.36, C:0.05, G:0.04, T:0.55
Consensus pattern (22 bp):
TATATATACTTATATTTATATG
Found at i:2067436 original size:89 final size:88
Alignment explanation
Indices: 2067343--2067543 Score: 205
Period size: 89 Copynumber: 2.2 Consensus size: 88
2067333 TCCTTATAAT
* *
2067343 TATACTTTATATATATATACACTTAAAGTTTAT-A-TATACTTATTTTATAGTTATATACTTATA
1 TATACTTTATATATATATACA-TTAAACTTTATAATTATAC-TA-TATATA--TATATACTTATA
2067406 CTTT-A-TATGTATATATAT-TATACTGA
61 CTTTAATTAT-TATATATATATATACTGA
**
2067432 TATACTTTATTATTACTATATACATTAGTCTTTATAATTATACTATATATATATATACTTATACT
1 TATACTTTA-TA-TA-TATATACATTAAACTTTATAATTATACTATATATATATATACTTATACT
*
2067497 TTAATTATTATATATATATATACTTA
63 TTAATTATTATATATATATATACTGA
* **
2067523 TAAAAAATTATATATATATAC
1 T-ATACTTTATATATATATAC
2067544 TTTATTAGTT
Statistics
Matches: 95, Mismatches: 8, Indels: 18
0.79 0.07 0.15
Matches are distributed among these distances:
89 32 0.34
90 14 0.15
91 28 0.29
92 16 0.17
93 5 0.05
ACGTcount: A:0.40, C:0.08, G:0.02, T:0.50
Consensus pattern (88 bp):
TATACTTTATATATATATACATTAAACTTTATAATTATACTATATATATATATACTTATACTTTA
ATTATTATATATATATATACTGA
Found at i:2067511 original size:30 final size:29
Alignment explanation
Indices: 2067394--2067669 Score: 124
Period size: 30 Copynumber: 9.4 Consensus size: 29
2067384 ATTTTATAGT
*
2067394 TATATACTTATACTTTA-TATGTATATATA
1 TATATACTTATACTTAATTAT-TATATATA
*
2067423 T-TATACTGATATACTTTATTATTACTATATA
1 TATATACT--TATACTTAATTATTA-TATATA
*
2067454 CAT-TAGTCTT-TA--TAATTATACTATATATA
1 TATATA--CTTATACTTAATTAT--TATATATA
2067483 TATATACTTATACTTTAATTATTATATATA
1 TATATACTTATAC-TTAATTATTATATATA
* *
2067513 TATATACTTATA---AA-AAAT-TATATA
1 TATATACTTATACTTAATTATTATATATA
*
2067537 TATATACTT-TA-TTAGTT-TTATACATATA
1 TATATACTTATACTTAATTATTAT--ATATA
**
2067565 TATATACTTTATACAAAAACTT-TATATATATA
1 TATATAC-TTATAC-TTAA-TTAT-TATATATA
*
2067597 TATATACCTT-TACTTTATAGTT-TATATACATA
1 TATATA-CTTATAC-TTA-A-TTAT-TATATATA
*
2067629 TATATAC--ATACTTATATT-TTATATGTA
1 TATATACTTATACTTA-ATTATTATATATA
2067656 TATATACTTTATAC
1 TATATAC-TTATAC
2067670 ACTTATATAC
Statistics
Matches: 197, Mismatches: 18, Indels: 63
0.71 0.06 0.23
Matches are distributed among these distances:
23 2 0.01
24 15 0.08
25 4 0.02
26 3 0.02
27 13 0.07
28 30 0.15
29 18 0.09
30 46 0.23
31 17 0.09
32 40 0.20
33 6 0.03
34 3 0.02
ACGTcount: A:0.39, C:0.09, G:0.02, T:0.50
Consensus pattern (29 bp):
TATATACTTATACTTAATTATTATATATA
Found at i:2067557 original size:24 final size:23
Alignment explanation
Indices: 2067481--2067566 Score: 73
Period size: 24 Copynumber: 3.5 Consensus size: 23
2067471 ATACTATATA
*
2067481 TATATATACTTATACTTTAATTATTA
1 TATATATA--TATACTTT-ATTATTT
** **
2067507 TATATATATATACTTATAAAAAAT
1 TATATATATATACTT-TATTATTT
2067531 TATATATATATACTTTATTAGTTT
1 TATATATATATACTTTATTA-TTT
*
2067555 TATACATATATA
1 TATATATATATA
2067567 TATACTTTAT
Statistics
Matches: 48, Mismatches: 10, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
23 3 0.06
24 36 0.75
25 1 0.02
26 8 0.17
ACGTcount: A:0.43, C:0.06, G:0.01, T:0.50
Consensus pattern (23 bp):
TATATATATATACTTTATTATTT
Found at i:2067807 original size:17 final size:17
Alignment explanation
Indices: 2067781--2067854 Score: 60
Period size: 17 Copynumber: 4.2 Consensus size: 17
2067771 TAATTTATAC
2067781 ATAG-TATATATAATTT
1 ATAGTTATATATAATTT
*
2067797 ATAGTTATATATAGTTT
1 ATAGTTATATATAATTT
*
2067814 ATATTATAAACTATATAATTT
1 ATAGT-T--A-TATATAATTT
* * *
2067835 ATAATTATACATAATAT
1 ATAGTTATATATAATTT
2067852 ATA
1 ATA
2067855 AATATAAGCT
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
16 4 0.09
17 26 0.55
18 2 0.04
20 2 0.04
21 13 0.28
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (17 bp):
ATAGTTATATATAATTT
Found at i:2067828 original size:21 final size:20
Alignment explanation
Indices: 2067804--2067944 Score: 96
Period size: 21 Copynumber: 6.9 Consensus size: 20
2067794 TTTATAGTTA
2067804 TATATAGTTTATATTATAAAC
1 TATATA-TTTATATTATAAAC
*
2067825 TATATAATTTATAATTATACA-
1 TATAT-ATTTAT-ATTATAAAC
* * *
2067846 TA-ATATATA-AATATAAGC
1 TATATATTTATATTATAAAC
* *
2067864 TATATATATT-TAAATATAATTC
1 TATATAT-TTAT-ATTATAA-AC
*
2067886 ATATATATTTATA-GATAAAC
1 -TATATATTTATATTATAAAC
2067906 TATATAATTTATATTAATAAAC
1 TATAT-ATTTATATT-ATAAAC
2067928 TATATATTTATA-TATAA
1 TATATATTTATATTATAA
2067945 TTCAATAGTT
Statistics
Matches: 97, Mismatches: 10, Indels: 28
0.72 0.07 0.21
Matches are distributed among these distances:
17 5 0.05
18 2 0.02
19 17 0.18
20 12 0.12
21 30 0.31
22 23 0.24
23 8 0.08
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.45
Consensus pattern (20 bp):
TATATATTTATATTATAAAC
Done.