Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006423.1 Hibiscus syriacus cultivar Beakdansim tig00015498_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: 772901
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 4
Found at i:493784 original size:11 final size:11
Alignment explanation
Indices: 493768--493806 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
493758 TAATTATAAT
493768 TATTATTATTA
1 TATTATTATTA
493779 TATTATTA-T-
1 TATTATTATTA
493788 TATTA-TATTA
1 TATTATTATTA
493798 TATTATTAT
1 TATTATTAT
493807 GCTTATTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
8 2 0.08
9 6 0.24
10 6 0.24
11 11 0.44
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
TATTATTATTA
Found at i:493785 original size:14 final size:14
Alignment explanation
Indices: 493760--493806 Score: 78
Period size: 14 Copynumber: 3.4 Consensus size: 14
493750 TCTAATTGTA
493760 ATTATAATTATTATT
1 ATTAT-ATTATTATT
493775 ATTATATTATTATT
1 ATTATATTATTATT
493789 ATTATATTA-TATT
1 ATTATATTATTATT
493802 ATTAT
1 ATTAT
493807 GCTTATTTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.28
14 18 0.56
15 5 0.16
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
ATTATATTATTATT
Found at i:493812 original size:19 final size:19
Alignment explanation
Indices: 493769--493816 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
493759 AATTATAATT
*
493769 ATTATTATTATATTATTATT
1 ATTA-TATTATATTATTATG
493789 ATTATATTATATTATTATG
1 ATTATATTATATTATTATG
*
493808 CTTAT-TTAT
1 ATTATATTAT
493817 TGTTCTTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 4 0.15
19 18 0.69
20 4 0.15
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (19 bp):
ATTATATTATATTATTATG
Found at i:495678 original size:22 final size:19
Alignment explanation
Indices: 495653--495699 Score: 67
Period size: 22 Copynumber: 2.3 Consensus size: 19
495643 TTGTTGTAAA
495653 TATTTATTTCACATATTTCTAT
1 TATTTATTTC-CAT-TTTCT-T
495675 TATTTATTTCCATTTTCTT
1 TATTTATTTCCATTTTCTT
495694 TATTTA
1 TATTTA
495700 AATATATCCA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 7 0.28
20 5 0.20
21 3 0.12
22 10 0.40
ACGTcount: A:0.23, C:0.13, G:0.00, T:0.64
Consensus pattern (19 bp):
TATTTATTTCCATTTTCTT
Found at i:496638 original size:22 final size:22
Alignment explanation
Indices: 496613--496655 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
496603 ATAATCATTT
*
496613 TATTACAAATTTATAATGTTAG
1 TATTACAAATTGATAATGTTAG
*
496635 TATTATAAATTGATAATGTTA
1 TATTACAAATTGATAATGTTA
496656 ATTACCAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.42, C:0.02, G:0.09, T:0.47
Consensus pattern (22 bp):
TATTACAAATTGATAATGTTAG
Found at i:496709 original size:18 final size:18
Alignment explanation
Indices: 496677--496711 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
496667 ATTATTTTCG
*
496677 AAAATTTAGTAAAAAATA
1 AAAATTTACTAAAAAATA
*
496695 AAAATTTACTTAAAAAT
1 AAAATTTACTAAAAAAT
496712 CATTCATCAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (18 bp):
AAAATTTACTAAAAAATA
Found at i:497049 original size:47 final size:47
Alignment explanation
Indices: 496913--497037 Score: 241
Period size: 47 Copynumber: 2.7 Consensus size: 47
496903 TCCTACCACC
496913 CATTCAATTATTTTAATCGGACGGTCATAAACATCACCAGCTAGCTA
1 CATTCAATTATTTTAATCGGACGGTCATAAACATCACCAGCTAGCTA
*
496960 CATTCAATTATTTTAATCGGACGGTCATAAACATCACCAGCTAGCTG
1 CATTCAATTATTTTAATCGGACGGTCATAAACATCACCAGCTAGCTA
497007 CATTCAATTATTTTAATCGGACGGTCATAAA
1 CATTCAATTATTTTAATCGGACGGTCATAAA
497038 TCTCGCCAGC
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
47 77 1.00
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.31
Consensus pattern (47 bp):
CATTCAATTATTTTAATCGGACGGTCATAAACATCACCAGCTAGCTA
Found at i:499987 original size:62 final size:61
Alignment explanation
Indices: 499890--500084 Score: 335
Period size: 57 Copynumber: 3.2 Consensus size: 61
499880 GCGTTGAATC
*
499890 TGAATGTTATTATTTGGATTCGAGTTAAATATTATTATAGATAAATATTATCTATAAATATA
1 TGAATATTATTATTTGGATTCGAGTTAAATATTATTATAGAT-AATATTATCTATAAATATA
499952 TGAATATTATTATTTGGATTCGAGTTAAATATTATTATAGATAATATTATCTAT-AA-ATA
1 TGAATATTATTATTTGGATTCGAGTTAAATATTATTATAGATAATATTATCTATAAATATA
500011 T--ATATTATTATTTGGATTCGAGTTAAATATTATTATAGATAATATTATCTATAAATATA
1 TGAATATTATTATTTGGATTCGAGTTAAATATTATTATAGATAATATTATCTATAAATATA
*
500070 TGAATGTTATTATTT
1 TGAATATTATTATTT
500085 AAATTTTTTA
Statistics
Matches: 127, Mismatches: 2, Indels: 9
0.92 0.01 0.07
Matches are distributed among these distances:
57 51 0.40
58 2 0.02
59 8 0.06
60 2 0.02
61 23 0.18
62 41 0.32
ACGTcount: A:0.39, C:0.03, G:0.10, T:0.47
Consensus pattern (61 bp):
TGAATATTATTATTTGGATTCGAGTTAAATATTATTATAGATAATATTATCTATAAATATA
Found at i:500179 original size:16 final size:16
Alignment explanation
Indices: 500158--500190 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
500148 AAATTAAGAA
500158 AAAATTAAACTTTTTC
1 AAAATTAAACTTTTTC
*
500174 AAAATTAAATTTTTTC
1 AAAATTAAACTTTTTC
500190 A
1 A
500191 CCTCTCACAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.45, C:0.09, G:0.00, T:0.45
Consensus pattern (16 bp):
AAAATTAAACTTTTTC
Found at i:513563 original size:18 final size:18
Alignment explanation
Indices: 513540--513582 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
513530 TGTTTATGAG
513540 GGAATTGAAATCTGTGAA
1 GGAATTGAAATCTGTGAA
513558 GGAATTGAAATCTGTGAA
1 GGAATTGAAATCTGTGAA
513576 GGAATTG
1 GGAATTG
513583 CAATATGTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.37, C:0.05, G:0.30, T:0.28
Consensus pattern (18 bp):
GGAATTGAAATCTGTGAA
Found at i:514801 original size:2 final size:2
Alignment explanation
Indices: 514755--514790 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
514745 TATTTTTAAA
514755 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
514791 TGATCATATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:514948 original size:31 final size:30
Alignment explanation
Indices: 514877--514949 Score: 76
Period size: 31 Copynumber: 2.4 Consensus size: 30
514867 TTAAAAGTGA
514877 TTAA-TTTTAAATTTAAATAAAATATCAAT
1 TTAATTTTTAAATTTAAATAAAATATCAAT
** * * *
514906 TTAATCCTTAAACTTTATATAAAATTTTAAT
1 TTAATTTTTAAA-TTTAAATAAAATATCAAT
*
514937 TTGATTTTTAAAT
1 TTAATTTTTAAAT
514950 CCAATAAAAA
Statistics
Matches: 34, Mismatches: 8, Indels: 3
0.76 0.18 0.07
Matches are distributed among these distances:
29 4 0.12
30 6 0.18
31 24 0.71
ACGTcount: A:0.44, C:0.05, G:0.01, T:0.49
Consensus pattern (30 bp):
TTAATTTTTAAATTTAAATAAAATATCAAT
Found at i:516499 original size:13 final size:13
Alignment explanation
Indices: 516481--516507 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
516471 CCTACGTCAG
516481 TATTGACCATAAT
1 TATTGACCATAAT
516494 TATTGACCATAAT
1 TATTGACCATAAT
516507 T
1 T
516508 CCGAAGCAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.15, G:0.07, T:0.41
Consensus pattern (13 bp):
TATTGACCATAAT
Found at i:519409 original size:35 final size:35
Alignment explanation
Indices: 519370--519438 Score: 129
Period size: 35 Copynumber: 2.0 Consensus size: 35
519360 CATTCACACT
*
519370 TTTCTTATTTCCCTTCTTCTTCCACGCCTAATTCC
1 TTTCTTATTTCCCTTCTTCTTCCACGCATAATTCC
519405 TTTCTTATTTCCCTTCTTCTTCCACGCATAATTC
1 TTTCTTATTTCCCTTCTTCTTCCACGCATAATTC
519439 TTGTTAATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.13, C:0.35, G:0.03, T:0.49
Consensus pattern (35 bp):
TTTCTTATTTCCCTTCTTCTTCCACGCATAATTCC
Found at i:522406 original size:35 final size:36
Alignment explanation
Indices: 522349--522416 Score: 120
Period size: 35 Copynumber: 1.9 Consensus size: 36
522339 ATCACCACCT
*
522349 TCCATCACCATTATCACGCCTATATCATCACCATAG
1 TCCATCACCATTATCACACCTATATCATCACCATAG
522385 TCCATCACCA-TATCACACCTATATCATCACCA
1 TCCATCACCATTATCACACCTATATCATCACCA
522417 ACTTCTAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
35 21 0.68
36 10 0.32
ACGTcount: A:0.32, C:0.38, G:0.03, T:0.26
Consensus pattern (36 bp):
TCCATCACCATTATCACACCTATATCATCACCATAG
Found at i:522410 original size:11 final size:11
Alignment explanation
Indices: 522351--522416 Score: 64
Period size: 11 Copynumber: 5.7 Consensus size: 11
522341 CACCACCTTC
522351 CATCACCATTAT
1 CATCACCA-TAT
*
522363 CA-CGCCTATAT
1 CATCACC-ATAT
522374 CATCACCATAGT
1 CATCACCATA-T
522386 CCATCACCATAT
1 -CATCACCATAT
522398 CA-CACCTATAT
1 CATCACC-ATAT
522409 CATCACCA
1 CATCACCA
522417 ACTTCTAAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 13
0.75 0.03 0.21
Matches are distributed among these distances:
10 4 0.09
11 20 0.43
12 12 0.26
13 10 0.22
ACGTcount: A:0.33, C:0.38, G:0.03, T:0.26
Consensus pattern (11 bp):
CATCACCATAT
Found at i:522414 original size:22 final size:24
Alignment explanation
Indices: 522370--522416 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
522360 TATCACGCCT
522370 ATATCATCACCATAGTCCATCACC
1 ATATCATCACCATAGTCCATCACC
522394 ATATCA-CACCTATA-T-CATCACC
1 ATATCATCACC-ATAGTCCATCACC
522416 A
1 A
522417 ACTTCTAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 8 0.36
23 5 0.23
24 9 0.41
ACGTcount: A:0.36, C:0.36, G:0.02, T:0.26
Consensus pattern (24 bp):
ATATCATCACCATAGTCCATCACC
Found at i:523074 original size:16 final size:18
Alignment explanation
Indices: 523043--523077 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
523033 GAGTTGTAAG
523043 TTATCTTCACTTTCTTAT
1 TTATCTTCACTTTCTTAT
523061 TTAT-TTCA-TTTCTTAT
1 TTATCTTCACTTTCTTAT
523077 T
1 T
523078 CTTTCATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.53
17 4 0.24
18 4 0.24
ACGTcount: A:0.17, C:0.17, G:0.00, T:0.66
Consensus pattern (18 bp):
TTATCTTCACTTTCTTAT
Found at i:529688 original size:26 final size:26
Alignment explanation
Indices: 529656--529708 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
529646 CCGAACATTC
529656 TCGGATCTTGAAATGATTGATTAACA
1 TCGGATCTTGAAATGATTGATTAACA
529682 TCGGATCTTGAAATGATTGATTAACA
1 TCGGATCTTGAAATGATTGATTAACA
529708 T
1 T
529709 ACTTCTAGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.36
Consensus pattern (26 bp):
TCGGATCTTGAAATGATTGATTAACA
Found at i:543151 original size:36 final size:35
Alignment explanation
Indices: 543076--543474 Score: 297
Period size: 38 Copynumber: 11.3 Consensus size: 35
543066 TTTTTGAAAG
543076 TATATTATATAGTTTTGAAAATTATTTTTGAAAATATA
1 TATATTATATAGTTTTGAAAA-TATTTTTG-AAA-ATA
* *
543114 TATATTGTATGGTTTTGAAAATGATTTTTGAAAATA
1 TATATTATATAGTTTTGAAAAT-ATTTTTGAAAATA
543150 TATA-T-TATAGTTTTGAAAATTATTTTTGAAAATA
1 TATATTATATAGTTTTGAAAA-TATTTTTGAAAATA
* * * *
543184 TATAGTATATAGTTTTTGAAAACA--TAT--ATATA
1 TATATTATATAG-TTTTGAAAATATTTTTGAAAATA
*
543216 -ATA-TATA-ATTTTTGAAAATA-TTTTGAAATATA
1 TATATTATATAGTTTTGAAAATATTTTTGAAA-ATA
* **
543248 TATAATATATATAGTTTTTG-AAACATTTTAAAAACATA
1 TAT-AT-TATATAG-TTTTGAAAATATTTTTGAAA-ATA
* ** * *
543286 TATATAATATATAGTTTTAAAAACGTTTTTAAAAAAA
1 TATAT--TATATAGTTTTGAAAATATTTTTGAAAATA
* *
543323 TATAATATATAGTTTT-AAAATATTTTTAAAAATA
1 TATATTATATAGTTTTGAAAATATTTTTGAAAATA
* *
543357 TATATAATATATAGTTTTAAAAATATTTTT-AAAACA
1 TATAT--TATATAGTTTTGAAAATATTTTTGAAAATA
* *
543393 TATAATGTATAGTTTT-AAAATATTTTTGAATATATA
1 TATATTATATAGTTTTGAAAATATTTTTGAA-A-ATA
* * *
543429 TATATACTATATAATTTTGGAACTATTTTTG-AAATA
1 TATAT--TATATAGTTTTGAAAATATTTTTGAAAATA
*
543465 TATAATATAT
1 TATATTATAT
543475 TATTATTCAT
Statistics
Matches: 300, Mismatches: 34, Indels: 58
0.77 0.09 0.15
Matches are distributed among these distances:
28 10 0.03
29 3 0.01
30 4 0.01
31 4 0.01
32 7 0.02
33 13 0.04
34 69 0.23
35 15 0.05
36 50 0.17
37 42 0.14
38 73 0.24
39 10 0.03
ACGTcount: A:0.45, C:0.02, G:0.07, T:0.46
Consensus pattern (35 bp):
TATATTATATAGTTTTGAAAATATTTTTGAAAATA
Found at i:543219 original size:26 final size:24
Alignment explanation
Indices: 543172--543236 Score: 76
Period size: 28 Copynumber: 2.5 Consensus size: 24
543162 TTGAAAATTA
543172 TTTTTGAAAATATATAGTATATAG
1 TTTTTGAAAATATATAGTATATAG
* *
543196 TTTTTGAAAACATATATATAATATATAA
1 TTTTTG--AA-A-ATATATAGTATATAG
543224 TTTTTGAAAATAT
1 TTTTTGAAAATAT
543237 TTTGAAATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
24 10 0.29
25 1 0.03
26 4 0.11
27 1 0.03
28 19 0.54
ACGTcount: A:0.45, C:0.02, G:0.08, T:0.46
Consensus pattern (24 bp):
TTTTTGAAAATATATAGTATATAG
Found at i:543474 original size:34 final size:33
Alignment explanation
Indices: 543066--543474 Score: 223
Period size: 34 Copynumber: 11.6 Consensus size: 33
543056 TTTAAATCGG
543066 TTTTTGAAAGTATAT--TATATAGTTTTGAAAATTA
1 TTTTTGAAA-TATATAATATATAGTTTT-AAAA-TA
* *
543100 TTTTTGAAAATATATATATTGTATGGTTTTGAAAATGA
1 TTTTTG-AAATATATA-A-TATATAGTTTT-AAAAT-A
543138 TTTTTGAAA-ATAT-ATATTATAGTTTTGAAAATTA
1 TTTTTGAAATATATAATA-TATAGTTTT-AAAA-TA
* *
543172 TTTTTGAAAATATATAGTATATAGTTTTTGAAAACA
1 TTTTTG-AAATATATAATATATAG-TTTT-AAAATA
*
543208 ----T---ATATATAATATATAATTTTTGAAAATA
1 TTTTTGAAATATATAATATAT-AGTTTT-AAAATA
* *
543236 -TTTTGAAATATATATAATATATATAGTTTTTGAAACA
1 TTTTTG-AA-ATATAT-A-ATATATAG-TTTTAAAATA
**
543273 TTTTAAAAACATATATATAATATATAGTTTTAAAA-A
1 TTTT--TGA-A-ATATATAATATATAGTTTTAAAATA
* *
543309 CGTTTTTAAAAAAATATAATATATAGTTTTAAAATA
1 --TTTTT-GAAATATATAATATATAGTTTTAAAATA
*
543345 TTTTTAAAAATATATATAATATATAGTTTTAAAAATA
1 TTTTT--GAA-ATATATAATATATAGTTTT-AAAATA
* * *
543382 TTTTTAAAACATATAATGTATAGTTTTAAAATA
1 TTTTTGAAATATATAATATATAGTTTTAAAATA
* * *
543415 TTTTTGAATATATATATATACTATATAATTTTGGAACTA
1 TTTTTG-A-A-ATATATA-A-TATATAGTTTT-AAAATA
543454 TTTTTGAAATATATAATATAT
1 TTTTTGAAATATATAATATAT
543475 TATTATTCAT
Statistics
Matches: 308, Mismatches: 26, Indels: 82
0.74 0.06 0.20
Matches are distributed among these distances:
28 22 0.07
29 1 0.00
31 1 0.00
32 1 0.00
33 12 0.04
34 60 0.19
35 38 0.12
36 54 0.18
37 43 0.14
38 56 0.18
39 12 0.04
40 8 0.03
ACGTcount: A:0.44, C:0.02, G:0.08, T:0.46
Consensus pattern (33 bp):
TTTTTGAAATATATAATATATAGTTTTAAAATA
Found at i:543504 original size:18 final size:18
Alignment explanation
Indices: 543483--543522 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
543473 ATTATTATTC
* *
543483 ATTTTATTGTTATTTTTT
1 ATTTTATTATTAATTTTT
*
543501 ATTTTTTTATTAATTTTT
1 ATTTTATTATTAATTTTT
543519 ATTT
1 ATTT
543523 CTTATTTCCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.78
Consensus pattern (18 bp):
ATTTTATTATTAATTTTT
Found at i:544935 original size:14 final size:14
Alignment explanation
Indices: 544900--544937 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
544890 AATATTTAAC
544900 ATTTTTTA-TTTTA
1 ATTTTTTATTTTTA
*
544913 TTTTATTTATTTTTA
1 ATTT-TTTATTTTTA
544928 ATTTTTTATT
1 ATTTTTTATT
544938 CCTTTTTTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
13 3 0.14
14 10 0.48
15 8 0.38
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (14 bp):
ATTTTTTATTTTTA
Found at i:545132 original size:13 final size:14
Alignment explanation
Indices: 545105--545137 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
545095 CCTCATTTGA
*
545105 TTTATTTATTTATT
1 TTTATTTATTAATT
545119 TTTATTT-TTAATT
1 TTTATTTATTAATT
545132 TTTATT
1 TTTATT
545138 CGATATTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTATTTATTAATT
Found at i:546144 original size:2 final size:2
Alignment explanation
Indices: 546137--546177 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
546127 ATAATTAGGA
546137 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
546178 ATAATGTTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:547281 original size:47 final size:47
Alignment explanation
Indices: 547212--547384 Score: 257
Period size: 47 Copynumber: 3.8 Consensus size: 47
547202 TATAAAATCC
*
547212 CTTACCATTT--ATCCCATAAGCTCGTAAGCTTATTTTACCAAAATA
1 CTTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
*
547257 CTTACAATTTAAATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
1 CTTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
* *
547304 CTTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTACCCATATA
1 CTTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
* *
547351 CTTGCCA-TT--ATTCCAAAAGCTCGTAAGCTTATTT
1 CTTACCATTTAAATTCCATAAGCTCGTAAGCTTATTT
547385 GTATGCTTAC
Statistics
Matches: 119, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
44 24 0.20
45 9 0.08
46 2 0.02
47 84 0.71
ACGTcount: A:0.33, C:0.23, G:0.08, T:0.37
Consensus pattern (47 bp):
CTTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
Found at i:547544 original size:40 final size:40
Alignment explanation
Indices: 547489--547570 Score: 146
Period size: 40 Copynumber: 2.0 Consensus size: 40
547479 ACCGTAGTGC
**
547489 TACACATAAGGTCGTGCCCACCATATACATTGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
547529 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
547569 TA
1 TA
547571 TAAACCTGCA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
Found at i:551140 original size:18 final size:18
Alignment explanation
Indices: 551119--551215 Score: 72
Period size: 18 Copynumber: 5.1 Consensus size: 18
551109 TCTCATATTT
551119 TTTCTCTTTTTTCTTTTC
1 TTTCTCTTTTTTCTTTTC
* * *
551137 TTTCTCATTTTTATTTTT
1 TTTCTCTTTTTTCTTTTC
551155 TTTCTTCTTCGTTTTCATTTTC
1 TTTC-TCTT--TTTTC-TTTTC
*
551177 TTTTTCTATTTTT-TTCTTC
1 TTTCTCT-TTTTTCTT-TTC
*
551196 -TTCTGTTTTTTCTTCTTC
1 TTTCTCTTTTTTCTT-TTC
551214 TT
1 TT
551216 ATAATATATA
Statistics
Matches: 62, Mismatches: 9, Indels: 15
0.72 0.10 0.17
Matches are distributed among these distances:
17 5 0.08
18 31 0.50
19 7 0.11
20 4 0.06
21 7 0.11
22 8 0.13
ACGTcount: A:0.04, C:0.19, G:0.02, T:0.75
Consensus pattern (18 bp):
TTTCTCTTTTTTCTTTTC
Found at i:551153 original size:34 final size:35
Alignment explanation
Indices: 551114--551215 Score: 91
Period size: 37 Copynumber: 2.7 Consensus size: 35
551104 TCATCTCTCA
551114 TATTTTTTCTCTTTTTTCTTTTCTTTCTC-ATTTT
1 TATTTTTTCTCTTTTTTCTTTTCTTTCTCTATTTT
*
551148 TATTTTTTTTCTTCTTCGTTTTCATTTTCTTTTTCTATTTT
1 TA--TTTTTTC-TCTT--TTTTC-TTTTCTTTCTCTATTTT
*
551189 T-TTCTTCTTCTGTTTTTTCTTCTTCTT
1 TATT-TT-TTCTCTTTTTTCTT-TTCTT
551216 ATAATATATA
Statistics
Matches: 56, Mismatches: 2, Indels: 17
0.75 0.03 0.23
Matches are distributed among these distances:
34 2 0.04
36 9 0.16
37 14 0.25
38 2 0.04
39 10 0.18
40 13 0.23
41 6 0.11
ACGTcount: A:0.05, C:0.18, G:0.02, T:0.75
Consensus pattern (35 bp):
TATTTTTTCTCTTTTTTCTTTTCTTTCTCTATTTT
Found at i:551169 original size:22 final size:23
Alignment explanation
Indices: 551127--551180 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
551117 TTTTTCTCTT
*
551127 TTTTCTTTTCTTTCTCATTTTTA
1 TTTTCTTTTCTTTCTCATTTTCA
*
551150 TTTT-TTTTC-TTCTTCGTTTTCA
1 TTTTCTTTTCTTTC-TCATTTTCA
551172 TTTTCTTTT
1 TTTTCTTTT
551181 TCTATTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 3 0.11
22 16 0.59
23 8 0.30
ACGTcount: A:0.06, C:0.17, G:0.02, T:0.76
Consensus pattern (23 bp):
TTTTCTTTTCTTTCTCATTTTCA
Found at i:554088 original size:47 final size:47
Alignment explanation
Indices: 554024--554196 Score: 248
Period size: 47 Copynumber: 3.8 Consensus size: 47
554014 TATAAAATCC
*
554024 CTTACCATTT--ATCCCATAAGCTCGTAAGCTTATTTTACCAAAATA
1 CTTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
* *
554069 TTTACAATTTAAATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
1 CTTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
* *
554116 CTTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTACCCATATA
1 CTTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
* *
554163 CTTGCCA-TT--ATTCCAAAAGCTCGTAAGCTTATTT
1 CTTACCATTTAAATTCCATAAGCTCGTAAGCTTATTT
554197 GTATGCTTAC
Statistics
Matches: 117, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
44 24 0.21
45 8 0.07
46 2 0.02
47 83 0.71
ACGTcount: A:0.33, C:0.22, G:0.08, T:0.38
Consensus pattern (47 bp):
CTTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
Found at i:554345 original size:40 final size:40
Alignment explanation
Indices: 554301--554382 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
554291 ACCGTAGTGC
554301 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
554341 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
554381 TA
1 TA
554383 TAAACCTGCA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
Found at i:557637 original size:21 final size:20
Alignment explanation
Indices: 557611--557669 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
557601 AAGCGTATTA
557611 AAAGATAGAAAAATATATCAT
1 AAAGATA-AAAAATATATCAT
* * *
557632 AAAGATAAAAAAAACATGAT
1 AAAGATAAAAAATATATCAT
*
557652 AAAGACAAAGAAATATAT
1 AAAGATAAA-AAATATAT
557670 GGTCCATGGA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
20 18 0.58
21 13 0.42
ACGTcount: A:0.66, C:0.05, G:0.10, T:0.19
Consensus pattern (20 bp):
AAAGATAAAAAATATATCAT
Found at i:559089 original size:35 final size:34
Alignment explanation
Indices: 559043--559155 Score: 154
Period size: 35 Copynumber: 3.2 Consensus size: 34
559033 AAAACAATCC
*
559043 TCAATTTCATTCTAAACCACAAATTCCAAAGTAAT
1 TCAATTTCATTCTAAACC-CAAATTCCAAAATAAT
559078 TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
1 TCAATTTCATTCTAAACCC-AAATTCCAAAATAAT
* * * *
559113 TCAATTACATTCTAAAACCTAAATTCTAAAATACT
1 TCAATTTCATTCT-AAACCCAAATTCCAAAATAAT
559148 TCAATTTC
1 TCAATTTC
559156 TGTCTTTTTT
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
34 1 0.01
35 64 0.91
36 5 0.07
ACGTcount: A:0.42, C:0.22, G:0.01, T:0.35
Consensus pattern (34 bp):
TCAATTTCATTCTAAACCCAAATTCCAAAATAAT
Found at i:560253 original size:35 final size:34
Alignment explanation
Indices: 560205--560316 Score: 170
Period size: 35 Copynumber: 3.2 Consensus size: 34
560195 ATTCCTCCTT
*
560205 AAATTGAAATATTTTAGAATTTGGGTTTTAGAATG
1 AAATTGAATTATTTTAGAATTTGGG-TTTAGAATG
*
560240 TAATTGAATTATTTTAGAATTTAGGGTTTAGAATG
1 AAATTGAATTATTTTAGAATTT-GGGTTTAGAATG
*
560275 AAATTGAATTACTTTAGAATTTGGGGTTTAGAATG
1 AAATTGAATTATTTTAGAATTT-GGGTTTAGAATG
560310 AAATTGA
1 AAATTGA
560317 TGAATGTTTT
Statistics
Matches: 71, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
35 68 0.96
36 3 0.04
ACGTcount: A:0.37, C:0.01, G:0.21, T:0.42
Consensus pattern (34 bp):
AAATTGAATTATTTTAGAATTTGGGTTTAGAATG
Found at i:572402 original size:21 final size:21
Alignment explanation
Indices: 572378--572443 Score: 56
Period size: 21 Copynumber: 3.5 Consensus size: 21
572368 AACTTTGAAA
572378 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
*
572399 AAAT-G-TTTC----TTT-GA
1 AAATGGTTTTCAAAGTTTGGT
*
572413 AAATGGTTTTCAAAGTTTGAT
1 AAATGGTTTTCAAAGTTTGGT
*
572434 AAATGTTTTT
1 AAATGGTTTT
572444 TTGAAAAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 14
0.65 0.08 0.27
Matches are distributed among these distances:
14 5 0.15
15 4 0.12
16 4 0.12
19 4 0.12
20 4 0.12
21 13 0.38
ACGTcount: A:0.30, C:0.05, G:0.18, T:0.47
Consensus pattern (21 bp):
AAATGGTTTTCAAAGTTTGGT
Found at i:572484 original size:36 final size:35
Alignment explanation
Indices: 572371--572489 Score: 159
Period size: 35 Copynumber: 3.3 Consensus size: 35
572361 GGTAACCAAC
572371 TTTGAAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
1 TTTG-AAAAATGGTTTTCAAAGTTTGGTAAATGTTT
*
572407 CTTTG-AAAATGGTTTTCAAAGTTTGATAAATGTTTT
1 -TTTGAAAAATGGTTTTCAAAGTTTGGTAAATG-TTT
* *
572443 TTTGAAAAATAGTTTTTCAAAGTTTGGTAGATGTTT
1 TTTGAAAAAT-GGTTTTCAAAGTTTGGTAAATGTTT
*
572479 GTTGAAAAATG
1 TTTGAAAAATG
572490 ATAATGGGAT
Statistics
Matches: 74, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
35 31 0.42
36 20 0.27
37 23 0.31
ACGTcount: A:0.33, C:0.03, G:0.19, T:0.45
Consensus pattern (35 bp):
TTTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
Found at i:574581 original size:20 final size:20
Alignment explanation
Indices: 574556--574603 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
574546 GATACCTTCA
*
574556 GAAAATGGAAGGCCATGGTG
1 GAAAATGAAAGGCCATGGTG
574576 GAAAATGAAAGGCCATGGTG
1 GAAAATGAAAGGCCATGGTG
574596 GAAAATGA
1 GAAAATGA
574604 GACTGGTCTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.42, C:0.08, G:0.35, T:0.15
Consensus pattern (20 bp):
GAAAATGAAAGGCCATGGTG
Found at i:577077 original size:36 final size:36
Alignment explanation
Indices: 576963--577081 Score: 152
Period size: 35 Copynumber: 3.3 Consensus size: 36
576953 TGGTAACCAA
*
576963 CTTTGAAAAAATGGTTTTCAAAGTTTGGTACATGTTT
1 CTTTG-AAAAATGGTTTTCAAAGTTTGGTAAATGTTT
* *
577000 CTTTG-AAAATGGTTTACAAACTTTGGTAAATGTTT
1 CTTTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
* *
577035 CTTTGAAAAATAGTTTTTCAAAGTTTGGTAGATGTTT
1 CTTTGAAAAAT-GGTTTTCAAAGTTTGGTAAATGTTT
*
577072 -GTTGAAAAAT
1 CTTTGAAAAAT
577082 AATAATGGGA
Statistics
Matches: 72, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
35 32 0.44
36 14 0.19
37 26 0.36
ACGTcount: A:0.32, C:0.07, G:0.18, T:0.43
Consensus pattern (36 bp):
CTTTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
Found at i:581242 original size:14 final size:14
Alignment explanation
Indices: 581223--581252 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
581213 TTAATTTACT
581223 GACAAACTGTACAA
1 GACAAACTGTACAA
581237 GACAAACTGTACAA
1 GACAAACTGTACAA
581251 GA
1 GA
581253 TTTAATATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.50, C:0.20, G:0.17, T:0.13
Consensus pattern (14 bp):
GACAAACTGTACAA
Found at i:598727 original size:19 final size:19
Alignment explanation
Indices: 598694--598746 Score: 79
Period size: 19 Copynumber: 2.7 Consensus size: 19
598684 TTGAGCGACG
*
598694 TGACTCGGTTTAATTCGATT
1 TGACT-GGTTCAATTCGATT
*
598714 TGATTGGTTCAATTCGATT
1 TGACTGGTTCAATTCGATT
598733 TGACTGGTTCAATT
1 TGACTGGTTCAATT
598747 TGGTTTAGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 26 0.87
20 4 0.13
ACGTcount: A:0.21, C:0.13, G:0.21, T:0.45
Consensus pattern (19 bp):
TGACTGGTTCAATTCGATT
Found at i:599666 original size:41 final size:41
Alignment explanation
Indices: 599613--599966 Score: 272
Period size: 41 Copynumber: 8.6 Consensus size: 41
599603 ATTCATCGAC
*
599613 AGTGGCGTTTTT-TCAACAAACGCCGCAAAAGAGC-AGTACTTT
1 AGTGGCGTTTTTAT--ACAAACGCCGCTAAAGA-CTAGTACTTT
* * * *
599655 AGTGGCGTTTTTATATAAAAGCCACTAAAGACTCGTACTTT
1 AGTGGCGTTTTTATACAAACGCCGCTAAAGACTAGTACTTT
* * *
599696 AGTGGCGTTTTTATACAAACGCTGCTATAGACTTGTACTTT
1 AGTGGCGTTTTTATACAAACGCCGCTAAAGACTAGTACTTT
* * * * * *
599737 AGTGGCGTTTTTATACAAACGTCGTTATACACTTGTACTAT
1 AGTGGCGTTTTTATACAAACGCCGCTAAAGACTAGTACTTT
* * *
599778 AGTGGCGTTTGTGTTTACAAACGCCGCTAAAGACTCGTACATT
1 AGTGGCGTTT-T-TATACAAACGCCGCTAAAGACTAGTACTTT
* * * *
599821 AATGACGTTTTTATACAAA---CACT-AAGACTCGTACTTT
1 AGTGGCGTTTTTATACAAACGCCGCTAAAGACTAGTACTTT
* * ** * *
599858 AGTGGCATTTTTATACAAATGCATCTATACACTCA-TACTTT
1 AGTGGCGTTTTTATACAAACGCCGCTAAAGACT-AGTACTTT
* * * * * * *
599899 AGTAGTGTTTTTATTCAAACGCCGCTATACACTTGTACTAT
1 AGTGGCGTTTTTATACAAACGCCGCTAAAGACTAGTACTTT
*
599940 AGTGGCGTTTGTGTTTACAAACGCCGC
1 AGTGGCGTTT-T-TATACAAACGCCGC
599967 AAGTTTACAA
Statistics
Matches: 250, Mismatches: 50, Indels: 23
0.77 0.15 0.07
Matches are distributed among these distances:
37 29 0.12
38 3 0.01
40 3 0.01
41 157 0.63
42 15 0.06
43 43 0.17
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (41 bp):
AGTGGCGTTTTTATACAAACGCCGCTAAAGACTAGTACTTT
Found at i:599871 original size:162 final size:165
Alignment explanation
Indices: 599568--599968 Score: 487
Period size: 162 Copynumber: 2.5 Consensus size: 165
599558 CAAAATGGTA
* * * * * * *
599568 ACTTTAGTAGCGTTTTTATAAAAACGCCGCAATAGA-TT-CATCGACAGTGGCGTTT-T-TTCAA
1 ACTTTAGTAGCGTTTTTATACAAACGCCGCTATACACTTGTA-CTATAGTGGCGTTTGTGTT-TA
* * *
599629 CAAACGCCGCAAAAGAGCAGTACTTTAGTGGCGTTTTTATATAAAAGCCACTAAAGACTCGTACT
64 CAAACGCCGCAAAAGAGCAGTACATTAATGACGTTTTTATATAAAA-CCACTAAAGACTCGTACT
* * **
599694 TTAGTGGCGTTTTTATACAAACGC-TGCTATAGACTTGT
128 TTAGTGGCATTTTTATACAAACGCAT-CTATACACTCAT
* * *
599732 ACTTTAGTGGCGTTTTTATACAAACGTCGTTATACACTTGTACTATAGTGGCGTTTGTGTTTACA
1 ACTTTAGTAGCGTTTTTATACAAACGCCGCTATACACTTGTACTATAGTGGCGTTTGTGTTTACA
* * *
599797 AACGCCGCTAAAGA-CTCGTACATTAATGACGTTTTTATA-CAAA-CACT-AAGACTCGTACTTT
66 AACGCCGCAAAAGAGC-AGTACATTAATGACGTTTTTATATAAAACCACTAAAGACTCGTACTTT
*
599858 AGTGGCATTTTTATACAAATGCATCTATACACTCAT
130 AGTGGCATTTTTATACAAACGCATCTATACACTCAT
* *
599894 ACTTTAGTAGTGTTTTTATTCAAACGCCGCTATACACTTGTACTATAGTGGCGTTTGTGTTTACA
1 ACTTTAGTAGCGTTTTTATACAAACGCCGCTATACACTTGTACTATAGTGGCGTTTGTGTTTACA
599959 AACGCCGCAA
66 AACGCCGCAA
599969 GTTTACAAAT
Statistics
Matches: 204, Mismatches: 27, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
162 112 0.55
163 5 0.02
164 30 0.15
165 18 0.09
166 37 0.18
167 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.34
Consensus pattern (165 bp):
ACTTTAGTAGCGTTTTTATACAAACGCCGCTATACACTTGTACTATAGTGGCGTTTGTGTTTACA
AACGCCGCAAAAGAGCAGTACATTAATGACGTTTTTATATAAAACCACTAAAGACTCGTACTTTA
GTGGCATTTTTATACAAACGCATCTATACACTCAT
Found at i:599961 original size:121 final size:121
Alignment explanation
Indices: 599679--599936 Score: 281
Period size: 121 Copynumber: 2.1 Consensus size: 121
599669 ATAAAAGCCA
* * * * * * *
599679 CTAAAGACTCGTACTTTAGTGGCGTTTTTATACAAACGCTGCTATAGACTTGTACTTTAGTGGCG
1 CTAAACACTCGTACATTAATGACGTTTTTATACAAA--C-ACTA-AGACTCGTACTTTAGTGGCA
* ** *
599744 TTTTTATACAAACGTCGTTATACACTTGTACTATAGTGGCGTTTGTGTTTACAAACGCCG
62 TTTTTATACAAACGTCATTATACACTCATACTATAGTAGCGTTTGTGTTTACAAACGCCG
*
599804 CTAAAGACTCGTACATTAATGACGTTTTTATACAAACACTAAGACTCGTACTTTAGTGGCATTTT
1 CTAAACACTCGTACATTAATGACGTTTTTATACAAACACTAAGACTCGTACTTTAGTGGCATTTT
* * *
599869 TATACAAATG-CATCTATACACTCATACTTTAGTAGTGTTT-T-TATT-CAAACGCCG
66 TATACAAACGTCAT-TATACACTCATACTATAGTAGCGTTTGTGT-TTACAAACGCCG
* *
599923 CTATACACTTGTAC
1 CTAAACACTCGTAC
599937 TATAGTGGCG
Statistics
Matches: 115, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
119 21 0.18
120 5 0.04
121 52 0.45
122 3 0.03
123 1 0.01
125 33 0.29
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.36
Consensus pattern (121 bp):
CTAAACACTCGTACATTAATGACGTTTTTATACAAACACTAAGACTCGTACTTTAGTGGCATTTT
TATACAAACGTCATTATACACTCATACTATAGTAGCGTTTGTGTTTACAAACGCCG
Found at i:603841 original size:42 final size:41
Alignment explanation
Indices: 603780--604207 Score: 488
Period size: 42 Copynumber: 10.1 Consensus size: 41
603770 AAATTAGCGT
*
603780 CGTTTGTATC-AAAACGCCGCTATAGATATGACTTTTGCGG
1 CGTTTGTATCAAAAACGCCGCTATAGATCTGACTTTTGCGG
* *
603820 CGTTTGTATCCAAAAACGCCGCTATAGATCTGACTTTTTACAG
1 CGTTTGTAT-CAAAAACGCCGCTATAGATCTGAC-TTTTGCGG
* *
603863 CGTTTGTATAAAAAACGCCGCTATAGATATGACCTTTTGCGG
1 CGTTTGTATCAAAAACGCCGCTATAGATCTGA-CTTTTGCGG
* * *
603905 TGTTTGTATACAAAAGCGTCGCTATAGATCTGACCTTTTGCGG
1 CGTTTGTAT-CAAAAACGCCGCTATAGATCTGA-CTTTTGCGG
* *
603948 CGTTTGT-TGCAAAAATGCCGCTATAGATCTTGACTTTTTGTGG
1 CGTTTGTAT-CAAAAACGCCGCTATAGATC-TGAC-TTTTGCGG
* *
603991 CATTTGT-TCAAAAACACCGCTATAGATCTCGACTTTTGCGG
1 CGTTTGTATCAAAAACGCCGCTATAGATCT-GACTTTTGCGG
*
604032 CGTTTGTATCCAAAAACACCGCTATAGATCTGACCTTTTGCGG
1 CGTTTGTAT-CAAAAACGCCGCTATAGATCTGA-CTTTTGCGG
604075 CGTTTGT-TGCAAAAACGCCGCTATAGATCTCGAACTTTTGCGG
1 CGTTTGTAT-CAAAAACGCCGCTATAGATCT-G-ACTTTTGCGG
**
604118 CGTTTGTATCCAAAAACGTTGCTATAGATCTGACCTTTTGCGG
1 CGTTTGTAT-CAAAAACGCCGCTATAGATCTGA-CTTTTGCGG
* * *
604161 CG-TTGTTTCAAAAACGCCACGATAGATCTTGACTTTTTGCGG
1 CGTTTGTATCAAAAACGCCGCTATAGATC-TGAC-TTTTGCGG
*
604203 TGTTT
1 CGTTT
604208 TTATTTTACA
Statistics
Matches: 336, Mismatches: 34, Indels: 33
0.83 0.08 0.08
Matches are distributed among these distances:
40 9 0.03
41 32 0.10
42 138 0.41
43 136 0.40
44 21 0.06
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.34
Consensus pattern (41 bp):
CGTTTGTATCAAAAACGCCGCTATAGATCTGACTTTTGCGG
Found at i:604027 original size:127 final size:126
Alignment explanation
Indices: 603780--604207 Score: 535
Period size: 127 Copynumber: 3.4 Consensus size: 126
603770 AAATTAGCGT
* *
603780 CGTTTGTATCAAAACGCCGCTATAGATATGA-CTTTTGCGGCGTTTGTATCCAAAAACGCCGCTA
1 CGTTTGTATCAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGT-TGCAAAAACGCCGCTA
* * * *
603844 TAGATC-TGACTTTTTACAGCGTTTGTATAAAAAACGCCGCTATAGATATGACCTTTTGCGG
65 TAGATCTTGACTTTTTGCGGCGTTTGTATCAAAAACGCCGCTATAGATCTGACCTTTTGCGG
* * *
603905 TGTTTGTATACAAAAGCGTCGCTATAGATCTGACCTTTTGCGGCGTTTGTTGCAAAAATGCCGCT
1 CGTTTGTAT-CAAAA-CGCCGCTATAGATCTGACCTTTTGCGGCGTTTGTTGCAAAAACGCCGCT
* * *
603970 ATAGATCTTGACTTTTTGTGGCATTTGT-TCAAAAACACCGCTATAGATCTCGA-CTTTTGCGG
64 ATAGATCTTGACTTTTTGCGGCGTTTGTATCAAAAACGCCGCTATAGATCT-GACCTTTTGCGG
*
604032 CGTTTGTATCCAAAAACACCGCTATAGATCTGACCTTTTGCGGCGTTTGTTGCAAAAACGCCGCT
1 CGTTTGTAT-C-AAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGTTGCAAAAACGCCGCT
* **
604097 ATAGATCTCGAAC-TTTTGCGGCGTTTGTATCCAAAAACGTTGCTATAGATCTGACCTTTTGCGG
64 ATAGATCTTG-ACTTTTTGCGGCGTTTGTAT-CAAAAACGCCGCTATAGATCTGACCTTTTGCGG
* * * * *
604161 CG-TTGTTTCAAAAACGCCACGATAGATCTTGACTTTTTGCGGTGTTT
1 CGTTTGTATC-AAAACGCCGCTATAGATC-TGACCTTTTGCGGCGTTT
604208 TTATTTTACA
Statistics
Matches: 263, Mismatches: 29, Indels: 19
0.85 0.09 0.06
Matches are distributed among these distances:
125 8 0.03
126 5 0.02
127 157 0.60
128 64 0.24
129 29 0.11
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.34
Consensus pattern (126 bp):
CGTTTGTATCAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGTTGCAAAAACGCCGCTAT
AGATCTTGACTTTTTGCGGCGTTTGTATCAAAAACGCCGCTATAGATCTGACCTTTTGCGG
Found at i:604173 original size:85 final size:84
Alignment explanation
Indices: 603780--604207 Score: 503
Period size: 85 Copynumber: 5.1 Consensus size: 84
603770 AAATTAGCGT
* *
603780 CGTTTGTATC-AAAACGCCGCTATAGATATGA-CTTTTGCGGCGTTTGTATCCAAAAACGCCGCT
1 CGTTTGTATCAAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGTATTCAAAAACGCCGCT
* *
603843 ATAGATCTGACTTTTTACAG
66 ATAGATCTGAC-TTTTGCGG
* * * * * *
603863 CGTTTGTATAAAAAACGCCGCTATAGATATGACCTTTTGCGGTGTTTGTATACAAAAGCGTCGCT
1 CGTTTGTATCAAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGTATTCAAAAACGCCGCT
603928 ATAGATCTGACCTTTTGCGG
66 ATAGATCTGA-CTTTTGCGG
* * * * *
603948 CGTTTGT-TGCAAAAATGCCGCTATAGATCTTGACTTTTTGTGGCATTTG--TTCAAAAACACCG
1 CGTTTGTAT-CAAAAACGCCGCTATAGATC-TGACCTTTTGCGGCGTTTGTATTCAAAAACGCCG
604010 CTATAGATCTCGACTTTTGCGG
64 CTATAGATCT-GACTTTTGCGG
* *
604032 CGTTTGTATCCAAAAACACCGCTATAGATCTGACCTTTTGCGGCGTTTGT-TGCAAAAACGCCGC
1 CGTTTGTAT-CAAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGTATTCAAAAACGCCGC
604096 TATAGATCTCGAACTTTTGCGG
65 TATAGATCT-G-ACTTTTGCGG
** *
604118 CGTTTGTATCCAAAAACGTTGCTATAGATCTGACCTTTTGCGGCG-TTGT-TTCAAAAACGCCAC
1 CGTTTGTAT-CAAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGTATTCAAAAACGCCGC
*
604181 GATAGATCTTGACTTTTTGCGG
65 TATAGATC-TGAC-TTTTGCGG
*
604203 TGTTT
1 CGTTT
604208 TTATTTTACA
Statistics
Matches: 301, Mismatches: 33, Indels: 20
0.85 0.09 0.06
Matches are distributed among these distances:
83 9 0.03
84 75 0.25
85 148 0.49
86 69 0.23
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.34
Consensus pattern (84 bp):
CGTTTGTATCAAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGTATTCAAAAACGCCGCT
ATAGATCTGACTTTTGCGG
Found at i:610304 original size:30 final size:30
Alignment explanation
Indices: 610268--610396 Score: 258
Period size: 30 Copynumber: 4.3 Consensus size: 30
610258 TAGAAGGAAC
610268 GAAAAAACGGAAAATAAATAAAACTATAAG
1 GAAAAAACGGAAAATAAATAAAACTATAAG
610298 GAAAAAACGGAAAATAAATAAAACTATAAG
1 GAAAAAACGGAAAATAAATAAAACTATAAG
610328 GAAAAAACGGAAAATAAATAAAACTATAAG
1 GAAAAAACGGAAAATAAATAAAACTATAAG
610358 GAAAAAACGGAAAATAAATAAAACTATAAG
1 GAAAAAACGGAAAATAAATAAAACTATAAG
610388 GAAAAAACG
1 GAAAAAACG
610397 ATTAATGATT
Statistics
Matches: 99, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 99 1.00
ACGTcount: A:0.67, C:0.07, G:0.14, T:0.12
Consensus pattern (30 bp):
GAAAAAACGGAAAATAAATAAAACTATAAG
Found at i:613113 original size:32 final size:32
Alignment explanation
Indices: 613067--613268 Score: 305
Period size: 32 Copynumber: 6.3 Consensus size: 32
613057 CAATATTACT
* *
613067 TTCAAATAATGCATAGCAGAGTTAGTGTTGCA
1 TTCAGATAATGCATAGCAGAGTCAGTGTTGCA
*
613099 ATCAGATAATGCATAGCAGAGTCAGTGTTGCA
1 TTCAGATAATGCATAGCAGAGTCAGTGTTGCA
* *
613131 ATCAGATAATGCATAGCATAGTCAGTGTTGCA
1 TTCAGATAATGCATAGCAGAGTCAGTGTTGCA
613163 TTCAGATAATGCATAGCAGAGTCAGTGTTGCA
1 TTCAGATAATGCATAGCAGAGTCAGTGTTGCA
*
613195 TTCAGATAATGCATAGTAGAGTCAGTGTTGCA
1 TTCAGATAATGCATAGCAGAGTCAGTGTTGCA
* ** * *
613227 TTCAGATAATGCACAATAGAGTTAGGGTTGCA
1 TTCAGATAATGCATAGCAGAGTCAGTGTTGCA
613259 TTCAGATAAT
1 TTCAGATAAT
613269 ATACATGACT
Statistics
Matches: 159, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 159 1.00
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (32 bp):
TTCAGATAATGCATAGCAGAGTCAGTGTTGCA
Found at i:625296 original size:21 final size:21
Alignment explanation
Indices: 625252--625297 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
625242 CATATTTTTA
*
625252 AATA-ATTTTTAACATAAAGT
1 AATATATTTTTAACATAAAAT
625272 -ATATATTTTTAA-ATAAAAAT
1 AATATATTTTTAACAT-AAAAT
625292 AATATA
1 AATATA
625298 AAATATTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
19 5 0.23
20 12 0.55
21 5 0.23
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (21 bp):
AATATATTTTTAACATAAAAT
Found at i:625303 original size:26 final size:26
Alignment explanation
Indices: 625274--625378 Score: 92
Period size: 25 Copynumber: 4.1 Consensus size: 26
625264 CATAAAGTAT
*
625274 ATATTTTTAAATAAAAATAATATAAA
1 ATATTTTTAAATTAAAATAATATAAA
**
625300 ATA-TTTTAAATTAAGTTAATACTAAA
1 ATATTTTTAAATTAAAATAATA-TAAA
**
625326 ATATTTTT-AA-TAAGTTAATATAAAA
1 ATATTTTTAAATTAAAATAATAT-AAA
* *
625351 ATGGTTTTTAAGTTAAAAT-ATATAAA
1 AT-ATTTTTAAATTAAAATAATATAAA
625377 AT
1 AT
625379 GTTATGAATT
Statistics
Matches: 66, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
24 1 0.02
25 30 0.45
26 22 0.33
27 9 0.14
28 4 0.06
ACGTcount: A:0.52, C:0.01, G:0.05, T:0.42
Consensus pattern (26 bp):
ATATTTTTAAATTAAAATAATATAAA
Found at i:625352 original size:25 final size:25
Alignment explanation
Indices: 625291--625350 Score: 95
Period size: 25 Copynumber: 2.4 Consensus size: 25
625281 TAAATAAAAA
*
625291 TAATATAAAATATTTTAAATTAAGT
1 TAATATAAAATATTTTTAATTAAGT
625316 TAATACTAAAATATTTTTAA-TAAGT
1 TAATA-TAAAATATTTTTAATTAAGT
625341 TAATATAAAA
1 TAATATAAAA
625351 ATGGTTTTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
24 5 0.15
25 15 0.45
26 13 0.39
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.42
Consensus pattern (25 bp):
TAATATAAAATATTTTTAATTAAGT
Found at i:625981 original size:14 final size:14
Alignment explanation
Indices: 625964--625991 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
625954 AACCGTTTCC
625964 GAAAAATAAATTAT
1 GAAAAATAAATTAT
625978 GAAAAATAAATTAT
1 GAAAAATAAATTAT
625992 ATTTCCTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (14 bp):
GAAAAATAAATTAT
Found at i:626156 original size:14 final size:14
Alignment explanation
Indices: 626137--626163 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
626127 TTTTGTATCT
626137 TTTAATTTTATTAA
1 TTTAATTTTATTAA
626151 TTTAATTTTATTA
1 TTTAATTTTATTA
626164 TTATAAGATT
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:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTAATTTTATTAA
Found at i:627315 original size:29 final size:31
Alignment explanation
Indices: 627283--627340 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
627273 AAGGTCCTTG
* *
627283 AACTTTTAAAA-AAA-TCAATGTGGCCCTCC
1 AACTTATAAAACAAACTCAATGTGACCCTCC
627312 AACTTATAAAACAAACTCAATGTGACCCT
1 AACTTATAAAACAAACTCAATGTGACCCT
627341 TTGACCAACG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 10 0.40
30 3 0.12
31 12 0.48
ACGTcount: A:0.41, C:0.24, G:0.09, T:0.26
Consensus pattern (31 bp):
AACTTATAAAACAAACTCAATGTGACCCTCC
Found at i:627574 original size:15 final size:14
Alignment explanation
Indices: 627556--627589 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
627546 ACTCAATATA
627556 AAAAATAATAAAATT
1 AAAAATAA-AAAATT
*
627571 AAAAATTAAAAATT
1 AAAAATAAAAAATT
627585 AAAAA
1 AAAAA
627590 AAATTATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (14 bp):
AAAAATAAAAAATT
Found at i:627581 original size:6 final size:7
Alignment explanation
Indices: 627565--627589 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
627555 AAAAAATAAT
627565 AAAATTA
1 AAAATTA
627572 AAAATTA
1 AAAATTA
627579 AAAATTA
1 AAAATTA
627586 AAAA
1 AAAA
627590 AAATTATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (7 bp):
AAAATTA
Found at i:628074 original size:14 final size:14
Alignment explanation
Indices: 628053--628107 Score: 58
Period size: 14 Copynumber: 3.8 Consensus size: 14
628043 AATAATTTAA
628053 TTTT-TATTTAATT
1 TTTTATATTTAATT
628066 TTTTATATTTAATT
1 TTTTATATTTAATT
* *
628080 TTTAAATATTTGAATAA
1 TTT-TATATTT-AAT-T
628097 TTTTATATTTA
1 TTTTATATTTA
628108 TAATTTAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
13 4 0.11
14 12 0.34
15 7 0.20
16 9 0.26
17 3 0.09
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (14 bp):
TTTTATATTTAATT
Found at i:628088 original size:15 final size:14
Alignment explanation
Indices: 628038--628090 Score: 58
Period size: 14 Copynumber: 3.9 Consensus size: 14
628028 ATATACAATT
628038 TTTTTAATAATTTAA
1 TTTTTAAT-ATTTAA
628053 -TTTT--TATTTAA
1 TTTTTAATATTTAA
*
628064 TTTTTTATATTTAA
1 TTTTTAATATTTAA
628078 TTTTTAAATATTT
1 TTTTT-AATATTT
628091 GAATAATTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
11 6 0.18
12 5 0.15
14 16 0.48
15 6 0.18
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TTTTTAATATTTAA
Found at i:629959 original size:26 final size:24
Alignment explanation
Indices: 629900--629959 Score: 59
Period size: 27 Copynumber: 2.4 Consensus size: 24
629890 TTATTTATTC
*
629900 TATTAAT-TATGCTTCATTTAAAT
1 TATTAATATATGCTTAATTTAAAT
* *
629923 TATTATCTATATGCATTAATTTTATAT
1 TATTA-ATATATGC-TTAA-TTTAAAT
629950 TATTAATATA
1 TATTAATATA
629960 CATATATATA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
23 5 0.17
24 1 0.03
25 5 0.17
26 7 0.24
27 11 0.38
ACGTcount: A:0.37, C:0.07, G:0.03, T:0.53
Consensus pattern (24 bp):
TATTAATATATGCTTAATTTAAAT
Found at i:634370 original size:317 final size:314
Alignment explanation
Indices: 633792--634494 Score: 1074
Period size: 317 Copynumber: 2.2 Consensus size: 314
633782 ATTTTTAGTA
* * ** * *
633792 AAAAAGTAAGAATTG-AAGTTATATAGGTATTCTATTG-TGGTACATGAGCATGTGGTTTAAATT
1 AAAAAG-AAGAATTGAAAG-TACATATGTATTCTA-TGATGGTTTAGGAGCATGTGGTTCAAATT
* *
633855 TGGT-AAAAACAGACTTAAAATAAGGATGAATTGAAGAAATAAGGAAATTATGAAAAATTAAGGG
63 TAGTAAAAAACAGACTTAAAATAAGGATGAATTGAAGAAATAAGGAAATTATAAAAAATTAAGGG
* *
633919 ACTAAATTGAAAAATAGATAATTTGTTATAAAAAGAGGAATTGAAAGTACATATGTATTCTACGA
128 ACTAAATTGAAAAATAGACAATTTGTTATAAAAAGAAGAATTGAAAGTACATATGTATTCTACGA
*
633984 TAGTTTAAGAGCATGTGGTTCAAATTTGGTAAAAATATGACTTAAACTAAAGGATGAATTTAAGA
193 TAGTTTAAGAGCATGTGGTTCAAATTTGGTAAAAAAATGACTTAAACTAAAGGATGAATTTAAGA
* * *
634049 AATAAGAAAATTATAAAAAATTGAGGGGCTAAATTGAAAATTAGACAATTTGTTATC
258 AATAAGAAAATTATAAAAAATTGAGAGACTAAATTGAAAAATAGACAATTTGTTATC
634106 AAAAAGAAGAATTGAAAGTACATATGTATTCTATGATGGTTTAGGAGCATGTGGTTCAAATTTAG
1 AAAAAGAAGAATTGAAAGTACATATGTATTCTATGATGGTTTAGGAGCATGTGGTTCAAATTTAG
* * * *
634171 TAAAAAATAGACTTAAATTAAATGG-TGAATTTAAGAAATAAGGAAATTATAAAAACATTGAGGG
66 TAAAAAACAGACTTAAAAT-AA-GGATGAATTGAAGAAATAAGGAAATTATAAAAA-ATTAAGGG
* *
634235 GCTAAATTGAAAAATAGACAATTTGTTATCAAAAAGAAGAATTGAAAGTACATATGTATTCTAGG
128 ACTAAATTGAAAAATAGACAATTTGTTAT-AAAAAGAAGAATTGAAAGTACATATGTATTCTACG
634300 AT-GATTTAAGAGCATGTGGTTCAAATTTGGTAAAAAAATGACTTAAACTAAAGGATGAATTTAA
192 ATAG-TTTAAGAGCATGTGGTTCAAATTTGGTAAAAAAATGACTTAAACTAAAGGATGAATTTAA
* * *
634364 GAAATAAGGAAATTATAAAAATTTGAGAGACTAAATTGAAAAATAGACAATTTGTTATT
256 GAAATAAGAAAATTATAAAAAATTGAGAGACTAAATTGAAAAATAGACAATTTGTTATC
* *
634423 AAAAAGAAGAATTGAAAGTACATATGTATTCTACGATAGTTTAGGAGCATGTGGTTCAAATTTAG
1 AAAAAGAAGAATTGAAAGTACATATGTATTCTATGATGGTTTAGGAGCATGTGGTTCAAATTTAG
634488 TAAAAAA
66 TAAAAAA
634495 AACGAATATA
Statistics
Matches: 356, Mismatches: 25, Indels: 13
0.90 0.06 0.03
Matches are distributed among these distances:
312 2 0.01
313 46 0.13
314 24 0.07
315 30 0.08
316 37 0.10
317 217 0.61
ACGTcount: A:0.46, C:0.05, G:0.19, T:0.30
Consensus pattern (314 bp):
AAAAAGAAGAATTGAAAGTACATATGTATTCTATGATGGTTTAGGAGCATGTGGTTCAAATTTAG
TAAAAAACAGACTTAAAATAAGGATGAATTGAAGAAATAAGGAAATTATAAAAAATTAAGGGACT
AAATTGAAAAATAGACAATTTGTTATAAAAAGAAGAATTGAAAGTACATATGTATTCTACGATAG
TTTAAGAGCATGTGGTTCAAATTTGGTAAAAAAATGACTTAAACTAAAGGATGAATTTAAGAAAT
AAGAAAATTATAAAAAATTGAGAGACTAAATTGAAAAATAGACAATTTGTTATC
Found at i:634495 original size:158 final size:158
Alignment explanation
Indices: 633837--634495 Score: 1024
Period size: 158 Copynumber: 4.2 Consensus size: 158
633827 TGTGGTACAT
* * * *
633837 GAGCATGTGGTTTAAATTTGGTAAAAACA-GACTTAAAAT-AAGGATGAATTGAAGAAATAAGGA
1 GAGCATGTGGTTCAAATTTGGTAAAAAAATGACTTAAACTAAAGGATGAATTTAAGAAATAAGGA
* * * *
633900 AATTATGAAAAATTAAGGGACTAAATTGAAAAATAGATAATTTGTTAT-AAAAAGAGGAATTGAA
66 AATTATAAAAAATTGAGGGACTAAATTGAAAAATAGACAATTTGTTATCAAAAAGAAGAATTGAA
633964 AGTACATATGTATTCTACGATAGTTTAA
131 AGTACATATGTATTCTACGATAGTTTAA
* *
633992 GAGCATGTGGTTCAAATTTGGTAAAAATATGACTTAAACTAAAGGATGAATTTAAGAAATAAGAA
1 GAGCATGTGGTTCAAATTTGGTAAAAAAATGACTTAAACTAAAGGATGAATTTAAGAAATAAGGA
* *
634057 AATTATAAAAAATTGAGGGGCTAAATTGAAAATTAGACAATTTGTTATCAAAAAGAAGAATTGAA
66 AATTATAAAAAATTGAGGGACTAAATTGAAAAATAGACAATTTGTTATCAAAAAGAAGAATTGAA
* * *
634122 AGTACATATGTATTCTATGATGGTTTAG
131 AGTACATATGTATTCTACGATAGTTTAA
* *
634150 GAGCATGTGGTTCAAATTTAGT-AAAAAATAGACTTAAATTAAATGG-TGAATTTAAGAAATAAG
1 GAGCATGTGGTTCAAATTTGGTAAAAAAAT-GACTTAAACTAAA-GGATGAATTTAAGAAATAAG
*
634213 GAAATTATAAAAACATTGAGGGGCTAAATTGAAAAATAGACAATTTGTTATCAAAAAGAAGAATT
64 GAAATTATAAAAA-ATTGAGGGACTAAATTGAAAAATAGACAATTTGTTATCAAAAAGAAGAATT
*
634278 GAAAGTACATATGTATTCTAGGAT-GATTTAA
128 GAAAGTACATATGTATTCTACGATAG-TTTAA
634309 GAGCATGTGGTTCAAATTTGGTAAAAAAATGACTTAAACTAAAGGATGAATTTAAGAAATAAGGA
1 GAGCATGTGGTTCAAATTTGGTAAAAAAATGACTTAAACTAAAGGATGAATTTAAGAAATAAGGA
* * *
634374 AATTATAAAAATTTGAGAGACTAAATTGAAAAATAGACAATTTGTTATTAAAAAGAAGAATTGAA
66 AATTATAAAAAATTGAGGGACTAAATTGAAAAATAGACAATTTGTTATCAAAAAGAAGAATTGAA
*
634439 AGTACATATGTATTCTACGATAGTTTAG
131 AGTACATATGTATTCTACGATAGTTTAA
*
634467 GAGCATGTGGTTCAAATTTAGTAAAAAAA
1 GAGCATGTGGTTCAAATTTGGTAAAAAAA
634496 ACGAATATAA
Statistics
Matches: 464, Mismatches: 30, Indels: 17
0.91 0.06 0.03
Matches are distributed among these distances:
155 27 0.06
156 9 0.02
157 71 0.15
158 207 0.45
159 143 0.31
160 7 0.02
ACGTcount: A:0.46, C:0.05, G:0.19, T:0.30
Consensus pattern (158 bp):
GAGCATGTGGTTCAAATTTGGTAAAAAAATGACTTAAACTAAAGGATGAATTTAAGAAATAAGGA
AATTATAAAAAATTGAGGGACTAAATTGAAAAATAGACAATTTGTTATCAAAAAGAAGAATTGAA
AGTACATATGTATTCTACGATAGTTTAA
Found at i:639901 original size:21 final size:21
Alignment explanation
Indices: 639875--639917 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
639865 TTCGTGAGTT
639875 TTTGGGTAAGAGTATCGAAAC
1 TTTGGGTAAGAGTATCGAAAC
* * *
639896 TTTGGGTCATAGTTTCGAAAC
1 TTTGGGTAAGAGTATCGAAAC
639917 T
1 T
639918 CCTAGAAAGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.28, C:0.12, G:0.26, T:0.35
Consensus pattern (21 bp):
TTTGGGTAAGAGTATCGAAAC
Found at i:641528 original size:23 final size:23
Alignment explanation
Indices: 641463--641528 Score: 60
Period size: 23 Copynumber: 2.8 Consensus size: 23
641453 ATTTCAATGA
* *
641463 AAAATAATTAATCAAAATTTAAAGT
1 AAAAT-ATTAAT-TAAATTAAAAGT
* * **
641488 AAAATAATATTTTTATTAAAAGT
1 AAAATATTAATTAAATTAAAAGT
641511 AAAATATTAATTAAATTA
1 AAAATATTAATTAAATTA
641529 TTATAATTAT
Statistics
Matches: 31, Mismatches: 10, Indels: 2
0.72 0.23 0.05
Matches are distributed among these distances:
23 22 0.71
24 4 0.13
25 5 0.16
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.38
Consensus pattern (23 bp):
AAAATATTAATTAAATTAAAAGT
Found at i:648834 original size:20 final size:20
Alignment explanation
Indices: 648796--648834 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
648786 ATGAAGAACA
*
648796 AGTATCAATACTAGCCCTAT
1 AGTATCAATACTAGACCTAT
* *
648816 AGTATCTATACTTGACCTA
1 AGTATCAATACTAGACCTA
648835 CAAAAGACTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.33, C:0.23, G:0.10, T:0.33
Consensus pattern (20 bp):
AGTATCAATACTAGACCTAT
Found at i:659853 original size:39 final size:39
Alignment explanation
Indices: 659799--659876 Score: 113
Period size: 41 Copynumber: 2.0 Consensus size: 39
659789 TTTTAAAAAA
*
659799 AAAAAACCAGA-TTTTTTCGGATAAAAATCCAGTTTTTTT
1 AAAAAACCAGATTTTTTTCGGATAAAAA-ACAGTTTTTTT
*
659838 AAAAAACCGGATTTTTTTTCGGATAAAAAACAGTTTTTT
1 AAAAAACCAGA-TTTTTTTCGGATAAAAAACAGTTTTTT
659877 ATCCGGTTTG
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
39 10 0.29
40 9 0.26
41 16 0.46
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (39 bp):
AAAAAACCAGATTTTTTTCGGATAAAAAACAGTTTTTTT
Found at i:659901 original size:27 final size:26
Alignment explanation
Indices: 659838--659960 Score: 141
Period size: 24 Copynumber: 4.9 Consensus size: 26
659828 CAGTTTTTTT
* *
659838 AAAAAACCGGATTTTTT-TTCGG-AT-
1 AAAAAACCGG-TTTTTTATCCGGTTTG
*
659862 AAAAAA-CAGTTTTTTATCCGGTTTG
1 AAAAAACCGGTTTTTTATCCGGTTTG
*
659887 AAAAAACCGGTTTTTTATCCGG-AT-
1 AAAAAACCGGTTTTTTATCCGGTTTG
659911 AAAAAACCGGTTTTTTATCCGGTTTG
1 AAAAAACCGGTTTTTTATCCGGTTTG
*
659937 AAAAATACCGGTTTTTAATCCGGT
1 AAAAA-ACCGGTTTTTTATCCGGT
659961 AAAAAAATCG
Statistics
Matches: 85, Mismatches: 7, Indels: 11
0.83 0.07 0.11
Matches are distributed among these distances:
22 6 0.07
23 6 0.07
24 29 0.34
25 8 0.09
26 19 0.22
27 17 0.20
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.37
Consensus pattern (26 bp):
AAAAAACCGGTTTTTTATCCGGTTTG
Found at i:659924 original size:50 final size:49
Alignment explanation
Indices: 659838--659966 Score: 190
Period size: 50 Copynumber: 2.6 Consensus size: 49
659828 CAGTTTTTTT
*
659838 AAAAAACCGGATTTTTT-TTCGGATAAAAAACAGTTTTTTATCCGGTTTG
1 AAAAAACCGG-TTTTTTATCCGGATAAAAAACAGTTTTTTATCCGGTTTG
*
659887 AAAAAACCGGTTTTTTATCCGGATAAAAAACCGGTTTTTTATCCGGTTTG
1 AAAAAACCGGTTTTTTATCCGGATAAAAAA-CAGTTTTTTATCCGGTTTG
*
659937 AAAAATACCGGTTTTTAATCCGG-TAAAAAA
1 AAAAA-ACCGGTTTTTTATCCGGATAAAAAA
659967 ATCGGTCGTT
Statistics
Matches: 74, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
48 6 0.08
49 22 0.30
50 30 0.41
51 16 0.22
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (49 bp):
AAAAAACCGGTTTTTTATCCGGATAAAAAACAGTTTTTTATCCGGTTTG
Found at i:660690 original size:37 final size:36
Alignment explanation
Indices: 660614--660690 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 36
660604 TTTTTATATT
*
660614 TTTAATTTTGTAAAAAAATTTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAA-TTATATAAATATTATCAA
* *
660651 TTTAATTTTTTAAAGAAAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAA-AAAATTATATAAATATTAT-CAA
660688 TTT
1 TTT
660691 GTAATATTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
36 13 0.37
37 18 0.51
38 4 0.11
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.48
Consensus pattern (36 bp):
TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
Found at i:660873 original size:19 final size:18
Alignment explanation
Indices: 660831--660873 Score: 50
Period size: 20 Copynumber: 2.3 Consensus size: 18
660821 CAGTAATCCT
**
660831 ATTCCCTGGTAATCTTTT
1 ATTCCCTGGTAATCTTAC
660849 ATTTCCACTGGTAATCTTAC
1 A-TTCC-CTGGTAATCTTAC
660869 ATTCC
1 ATTCC
660874 GTGAACCAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 1 0.05
19 8 0.38
20 12 0.57
ACGTcount: A:0.21, C:0.26, G:0.09, T:0.44
Consensus pattern (18 bp):
ATTCCCTGGTAATCTTAC
Found at i:664665 original size:159 final size:159
Alignment explanation
Indices: 664376--664702 Score: 636
Period size: 159 Copynumber: 2.1 Consensus size: 159
664366 TTCTCTCTTA
*
664376 CAAAATCTCTTTCCTTCCTTTTCTCTTCCCTCCTTACCACCCCATCTCTCAATTCCAATACTTGT
1 CAAAATCACTTTCCTTCCTTTTCTCTTCCCTCCTTACCACCCCATCTCTCAATTCCAATACTTGT
664441 GTTCCAAGCAATCCGAAACCCTTACTTCCTCCTACATTTTTTCTCGATTTTTGAACTCGAGAAAC
66 GTTCCAAGCAATCCGAAACCCTTACTTCCTCCTACATTTTTTCTCGATTTTTGAACTCGAGAAAC
*
664506 ACCGATGTCTGCGAATTCCCTCTCCCCTC
131 ACCGATGTCTGCAAATTCCCTCTCCCCTC
664535 CAAAATCACTTTCCTTCCTTTTCTCTTCCCTCCTTACCACCCCATCTCTCAATTCCAATACTTGT
1 CAAAATCACTTTCCTTCCTTTTCTCTTCCCTCCTTACCACCCCATCTCTCAATTCCAATACTTGT
664600 GTTCCAAGCAATCCGAAACCCTTACTTCCTCCTACATTTTTTCTCGATTTTTGAACTCGAGAAAC
66 GTTCCAAGCAATCCGAAACCCTTACTTCCTCCTACATTTTTTCTCGATTTTTGAACTCGAGAAAC
664665 ACCGATGTCTGCAAATTCCCTCTCCCCTC
131 ACCGATGTCTGCAAATTCCCTCTCCCCTC
664694 CAAAATCAC
1 CAAAATCAC
664703 CCTCAGGGCC
Statistics
Matches: 166, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
159 166 1.00
ACGTcount: A:0.22, C:0.36, G:0.07, T:0.34
Consensus pattern (159 bp):
CAAAATCACTTTCCTTCCTTTTCTCTTCCCTCCTTACCACCCCATCTCTCAATTCCAATACTTGT
GTTCCAAGCAATCCGAAACCCTTACTTCCTCCTACATTTTTTCTCGATTTTTGAACTCGAGAAAC
ACCGATGTCTGCAAATTCCCTCTCCCCTC
Found at i:687429 original size:21 final size:21
Alignment explanation
Indices: 687405--687449 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
687395 CAAAAACCCT
687405 AAAAGACACATT-TAAAATAAA
1 AAAAGACA-ATTCTAAAATAAA
*
687426 AAAAGATAATTCCTAAAATAAA
1 AAAAGACAATT-CTAAAATAAA
687448 AA
1 AA
687450 TTAAATAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 3 0.14
21 7 0.33
22 11 0.52
ACGTcount: A:0.67, C:0.09, G:0.04, T:0.20
Consensus pattern (21 bp):
AAAAGACAATTCTAAAATAAA
Found at i:688339 original size:16 final size:14
Alignment explanation
Indices: 688279--688343 Score: 78
Period size: 15 Copynumber: 4.5 Consensus size: 14
688269 ATTCACTCTA
688279 TTTTTCTTTTC-TT
1 TTTTTCTTTTCTTT
688292 TTTTTCTTTTCTTT
1 TTTTTCTTTTCTTT
*
688306 TTTTTAATGTTTCTTT
1 TTTTT-CT-TTTCTTT
*
688322 TTTTTCTTTTTCTAT
1 TTTTTC-TTTTCTTT
688337 TTTTTCT
1 TTTTTCT
688344 GCTAGAACCA
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
13 11 0.24
14 8 0.18
15 13 0.29
16 13 0.29
ACGTcount: A:0.05, C:0.12, G:0.02, T:0.82
Consensus pattern (14 bp):
TTTTTCTTTTCTTT
Found at i:688342 original size:15 final size:15
Alignment explanation
Indices: 688275--688343 Score: 65
Period size: 13 Copynumber: 4.8 Consensus size: 15
688265 CTTTATTCAC
688275 TCTA-TTTTTC-TTT
1 TCTATTTTTTCTTTT
688288 TCT-TTTTTTC-TTT
1 TCTATTTTTTCTTTT
* * *
688301 TCTTTTTTTTAATGTT
1 TCTATTTTTT-CTTTT
*
688317 TCTTTTTTTTCTTTT
1 TCTATTTTTTCTTTT
688332 TCTATTTTTTCT
1 TCTATTTTTTCT
688344 GCTAGAACCA
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
13 15 0.32
14 6 0.13
15 14 0.30
16 12 0.26
ACGTcount: A:0.06, C:0.13, G:0.01, T:0.80
Consensus pattern (15 bp):
TCTATTTTTTCTTTT
Found at i:693222 original size:21 final size:19
Alignment explanation
Indices: 693186--693229 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 19
693176 CAAAAACCTT
693186 AAAAGATACATTTAAAATTA
1 AAAAGATACATTTAAAA-TA
693206 AAAAGATA-ATTCCTAAAATA
1 AAAAGATACATT--TAAAATA
693226 AAAA
1 AAAA
693230 TAAAAGTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 3 0.14
20 14 0.64
21 5 0.23
ACGTcount: A:0.64, C:0.07, G:0.05, T:0.25
Consensus pattern (19 bp):
AAAAGATACATTTAAAATA
Found at i:694132 original size:43 final size:43
Alignment explanation
Indices: 694071--694377 Score: 343
Period size: 43 Copynumber: 7.2 Consensus size: 43
694061 TGTGAACAAA
* *
694071 AAACGCCGCAATATGTCGAGATCTATAGCGGCGTTTTTGGGAC
1 AAACGCCGCAATAGGTCGAGATCTATAGCGGCGTTTTTGGAAC
* * *
694114 AAACGCCGTAATAGGTCGAGATCTATAGCGGTGTTTTTGGGAC
1 AAACGCCGCAATAGGTCGAGATCTATAGCGGCGTTTTTGGAAC
* * *
694157 AAACGACGCAATAGGTCGAGATCTATAGCGACG-TTTTGGGAC
1 AAACGCCGCAATAGGTCGAGATCTATAGCGGCGTTTTTGGAAC
* *
694199 AAACGCCGTAATAGGTCGAGATCTATAGCGGCATTTTTGGAAC
1 AAACGCCGCAATAGGTCGAGATCTATAGCGGCGTTTTTGGAAC
* * *
694242 AAACGCCGCAATAGATCGATATCTATAGCGGCATTTTTGGAAC
1 AAACGCCGCAATAGGTCGAGATCTATAGCGGCGTTTTTGGAAC
* * * ** * *
694285 AAACACCGTAA-ATGTC-AGATCTATAGCGATGTTTTTGAAAT
1 AAACGCCGCAATAGGTCGAGATCTATAGCGGCGTTTTTGGAAC
* * * * * *
694326 AAACGCCACAAAAGGT-TAGATCTATAGTGGCGTTTTTTGATAT
1 AAACGCCGCAATAGGTCGAGATCTATAGCGGCGTTTTTGGA-AC
694369 AAACGCCGC
1 AAACGCCGC
694378 TAATGACCGT
Statistics
Matches: 225, Mismatches: 35, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
41 27 0.12
42 62 0.28
43 136 0.60
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (43 bp):
AAACGCCGCAATAGGTCGAGATCTATAGCGGCGTTTTTGGAAC
Found at i:694223 original size:85 final size:85
Alignment explanation
Indices: 694071--694361 Score: 372
Period size: 85 Copynumber: 3.4 Consensus size: 85
694061 TGTGAACAAA
*
694071 AAACGCCGCAATATGTCGAGATCTATAGCGGCGTTTTTGGGACAAACGCCGTAATAGGTCGAGAT
1 AAACGCCGCAATAGGTCGAGATCTATAGCGGCG-TTTTGGGACAAACGCCGTAATAGGTCGAGAT
*
694136 CTATAGCGGTGTTTTTGGGAC
65 CTATAGCGGTGTTTTTGGAAC
* *
694157 AAACGACGCAATAGGTCGAGATCTATAGCGACGTTTTGGGACAAACGCCGTAATAGGTCGAGATC
1 AAACGCCGCAATAGGTCGAGATCTATAGCGGCGTTTTGGGACAAACGCCGTAATAGGTCGAGATC
**
694222 TATAGCGGCATTTTTGGAAC
66 TATAGCGGTGTTTTTGGAAC
* * * * * *
694242 AAACGCCGCAATAGATCGATATCTATAGCGGCATTTTTGGAACAAACACCGTAA-ATGTC-AGAT
1 AAACGCCGCAATAGGTCGAGATCTATAGCGGC-GTTTTGGGACAAACGCCGTAATAGGTCGAGAT
* * *
694305 CTATAGCGATGTTTTTGAAAT
65 CTATAGCGGTGTTTTTGGAAC
* * * *
694326 AAACGCCACAAAAGGT-TAGATCTATAGTGGCGTTTT
1 AAACGCCGCAATAGGTCGAGATCTATAGCGGCGTTTT
694362 TTGATATAAA
Statistics
Matches: 178, Mismatches: 26, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
82 4 0.02
83 12 0.07
84 33 0.19
85 81 0.46
86 48 0.27
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (85 bp):
AAACGCCGCAATAGGTCGAGATCTATAGCGGCGTTTTGGGACAAACGCCGTAATAGGTCGAGATC
TATAGCGGTGTTTTTGGAAC
Found at i:694227 original size:128 final size:126
Alignment explanation
Indices: 694071--694377 Score: 348
Period size: 128 Copynumber: 2.4 Consensus size: 126
694061 TGTGAACAAA
* * * * *
694071 AAACGCCGCAATATGTCGAGATCTATAGCGGCGTTTTTGGGACAAACGCCGTAATAGGTCGAGAT
1 AAACGCCGCAATAGGTCGAGATCTATAGCGGCATTTTTGGAACAAACGCCGCAATAGATCGAGAT
** *
694136 CTATAGCGGTGTTTTTGGGACAAACGA-CGCAATAGGTCGAGATCTATAGCGACGTTTTGGGAC
66 CTATAGCGGCATTTTTGGAACAAAC-ACCGCAA-AGGTC-AGATCTATAGCGACGTTTTGGGAC
* *
694199 AAACGCCGTAATAGGTCGAGATCTATAGCGGCATTTTTGGAACAAACGCCGCAATAGATCGATAT
1 AAACGCCGCAATAGGTCGAGATCTATAGCGGCATTTTTGGAACAAACGCCGCAATAGATCGAGAT
* * * ** *
694264 CTATAGCGGCATTTTTGGAACAAACACCGTAAATGTCAGATCTATAGCGATGTTTTTGAAAT
66 CTATAGCGGCATTTTTGGAACAAACACCGCAAAGGTCAGATCTATAGCGACG-TTTTGGGAC
* * * * * * *
694326 AAACGCCACAAAAGGT-TAGATCTATAGTGGCGTTTTTTGATATAAACGCCGC
1 AAACGCCGCAATAGGTCGAGATCTATAGCGGCATTTTTGGA-ACAAACGCCGC
694378 TAATGACCGT
Statistics
Matches: 152, Mismatches: 24, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
126 34 0.22
127 34 0.22
128 84 0.55
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (126 bp):
AAACGCCGCAATAGGTCGAGATCTATAGCGGCATTTTTGGAACAAACGCCGCAATAGATCGAGAT
CTATAGCGGCATTTTTGGAACAAACACCGCAAAGGTCAGATCTATAGCGACGTTTTGGGAC
Found at i:695526 original size:104 final size:104
Alignment explanation
Indices: 695346--695557 Score: 397
Period size: 104 Copynumber: 2.0 Consensus size: 104
695336 TGATCGAGTT
*
695346 TATAAATCTTCTCTTATATACCTCATTGTTTCAATTAAAGAGCAGCACAAAAAACGCGCATTTGA
1 TATAAATCTTCTCTTATATACCTCATTGTTTCAATTAAAGAGCAGCACAAAAAACGCGCATTTCA
695411 AATGAAGTAAACAAAGGAAATAAAGTAACTCAGAGGATA
66 AATGAAGTAAACAAAGGAAATAAAGTAACTCAGAGGATA
*
695450 TATAAATCTTCTCTTATATACCTCATTGTTTCAGTTAAAGAGCAGCACAAAAAACGCGCATTTCA
1 TATAAATCTTCTCTTATATACCTCATTGTTTCAATTAAAGAGCAGCACAAAAAACGCGCATTTCA
*
695515 AATGAAGTAAACAAAGGAAATAAAGTAACTCAGAGGTTA
66 AATGAAGTAAACAAAGGAAATAAAGTAACTCAGAGGATA
695554 TATA
1 TATA
695558 TCCTTAGTTA
Statistics
Matches: 105, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
104 105 1.00
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.27
Consensus pattern (104 bp):
TATAAATCTTCTCTTATATACCTCATTGTTTCAATTAAAGAGCAGCACAAAAAACGCGCATTTCA
AATGAAGTAAACAAAGGAAATAAAGTAACTCAGAGGATA
Found at i:698571 original size:80 final size:81
Alignment explanation
Indices: 698329--698653 Score: 341
Period size: 82 Copynumber: 4.0 Consensus size: 81
698319 ATCTGGGCTA
* * * * * * *
698329 TTACATAAACGCCATTAAAGTACGCGTTTTTAGCGGCGTTTTCACAAAAAACGGCGCTATATATT
1 TTACATAAATGTCACTAAAGTACGCATTTTTAGCGGCG-TTTGAC-AAAAACGCCACTATATATT
698394 CGGATATTGCGGCGTTTT
64 CGGATATTGCGGCGTTTT
* * *
698412 TTACATAAATGCCACTAAAGTACGCATTTTTAGCGGCGTTTGCACAAAAACGCCATTATATATTT
1 TTACATAAATGTCACTAAAGTACGCATTTTTAGCGGCGTTTG-ACAAAAACGCCACTATATATTC
*
698477 GGATATCGCGGCG-TTT
65 GGATATTGCGGCGTTTT
* * * * * ** *
698493 GTCCAAAAATGTCACTAAAGTACGTGA-TTTTAGCGGCTTTTTG-TGAAAACGTCACTATATATT
1 TTACATAAATGTCACTAAAGTACG-CATTTTTAGCGGC-GTTTGACAAAAACGCCACTATATATT
*
698556 CAGATATTGCGGCGTTTTT
64 CGGATATTGCGGCG-TTTT
* * * *
698575 TTACATAAATGTCACTAAAGTACACGTTTTTAGTGGCGTTTGCACAAAAACGCCACTATATATTT
1 TTACATAAATGTCACTAAAGTACGCATTTTTAGCGGCGTTTG-ACAAAAACGCCACTATATATTC
*
698640 GGATATCGCGGCGT
65 GGATATTGCGGCGT
698654 CTACATGTAA
Statistics
Matches: 198, Mismatches: 36, Indels: 17
0.79 0.14 0.07
Matches are distributed among these distances:
80 27 0.14
81 37 0.19
82 69 0.35
83 65 0.33
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.33
Consensus pattern (81 bp):
TTACATAAATGTCACTAAAGTACGCATTTTTAGCGGCGTTTGACAAAAACGCCACTATATATTCG
GATATTGCGGCGTTTT
Found at i:698651 original size:83 final size:82
Alignment explanation
Indices: 698329--698653 Score: 377
Period size: 83 Copynumber: 4.0 Consensus size: 82
698319 ATCTGGGCTA
* * * * *
698329 TTACATAAACGCCATTAAAGTACGCGTTTTTAGCGGCGTTTTCACAAAAAACGGCGCTATATATT
1 TTACATAAATGCCACTAAAGTACGCGTTTTTAGCGGCGTTTGCAC-AAAAACGCCACTATATATT
*
698394 CGGATATTGCGGCGTTTT
65 CGGATATCGCGGCGTTTT
* * *
698412 TTACATAAATGCCACTAAAGTACGCATTTTTAGCGGCGTTTGCACAAAAACGCCATTATATATTT
1 TTACATAAATGCCACTAAAGTACGCGTTTTTAGCGGCGTTTGCACAAAAACGCCACTATATATTC
698477 GGATATCGCGGCG-TTT
66 GGATATCGCGGCGTTTT
* * * * * * * ** *
698493 GTCCAAAAATGTCACTAAAGTACGTGATTTTAGCGGCTTTTTG--TGAAAACGTCACTATATATT
1 TTACATAAATGCCACTAAAGTACGCGTTTTTAGCGGC-GTTTGCACAAAAACGCCACTATATATT
* *
698556 CAGATATTGCGGCGTTTTT
65 CGGATATCGCGGCG-TTTT
* * * *
698575 TTACATAAATGTCACTAAAGTACACGTTTTTAGTGGCGTTTGCACAAAAACGCCACTATATATTT
1 TTACATAAATGCCACTAAAGTACGCGTTTTTAGCGGCGTTTGCACAAAAACGCCACTATATATTC
698640 GGATATCGCGGCGT
66 GGATATCGCGGCGT
698654 CTACATGTAA
Statistics
Matches: 199, Mismatches: 38, Indels: 11
0.80 0.15 0.04
Matches are distributed among these distances:
80 27 0.14
81 37 0.19
82 66 0.33
83 69 0.35
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.33
Consensus pattern (82 bp):
TTACATAAATGCCACTAAAGTACGCGTTTTTAGCGGCGTTTGCACAAAAACGCCACTATATATTC
GGATATCGCGGCGTTTT
Found at i:701182 original size:13 final size:13
Alignment explanation
Indices: 701158--701190 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
701148 CGTTTGTAAG
701158 AATATT-TAAATA
1 AATATTATAAATA
*
701170 ATTATTATAAATA
1 AATATTATAAATA
701183 AATATTAT
1 AATATTAT
701191 CTTATTAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 5 0.28
13 13 0.72
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
AATATTATAAATA
Found at i:701195 original size:21 final size:21
Alignment explanation
Indices: 701171--701220 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
701161 ATTTAAATAA
701171 TTATTATA-AATAAAT-ATTAT
1 TTATTATATAA-AAATAATTAT
701191 CTTATTA-ATAAAAATAATTAT
1 -TTATTATATAAAAATAATTAT
701212 TTATTATAT
1 TTATTATAT
701221 GTATACATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (21 bp):
TTATTATATAAAAATAATTAT
Found at i:701417 original size:2 final size:2
Alignment explanation
Indices: 701410--701442 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
701400 CTAATAAATT
701410 TA 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 TA T
701443 CCTCTTTTTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:708642 original size:21 final size:21
Alignment explanation
Indices: 708618--708658 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
708608 AGTACCCAAC
708618 AATAACAAAAAC-GATAGAAAA
1 AATAAC-AAAACTGATAGAAAA
708639 AATAACAAAACTGATAGAAA
1 AATAACAAAACTGATAGAAA
708659 TATTAATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.68, C:0.10, G:0.10, T:0.12
Consensus pattern (21 bp):
AATAACAAAACTGATAGAAAA
Found at i:709250 original size:2 final size:2
Alignment explanation
Indices: 709243--709286 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
709233 AGTATGAATA
*
709243 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
709285 AT
1 AT
709287 CTTATATTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:713891 original size:14 final size:14
Alignment explanation
Indices: 713872--713907 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
713862 TATATGTTTG
713872 TTTATGTTCATTCA
1 TTTATGTTCATTCA
*
713886 TTTATGTTCGTTCA
1 TTTATGTTCATTCA
713900 TTTATGTT
1 TTTATGTT
713908 TGAACAAATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.17, C:0.11, G:0.11, T:0.61
Consensus pattern (14 bp):
TTTATGTTCATTCA
Found at i:716738 original size:73 final size:73
Alignment explanation
Indices: 716619--716764 Score: 292
Period size: 73 Copynumber: 2.0 Consensus size: 73
716609 CCTGGTGTTG
716619 GGGGTAGCCTACTATCTTACCTCCTCTTTACCCCATACATATGGGAAAAAGGGACAGCCATTAGA
1 GGGGTAGCCTACTATCTTACCTCCTCTTTACCCCATACATATGGGAAAAAGGGACAGCCATTAGA
716684 AGACTATA
66 AGACTATA
716692 GGGGTAGCCTACTATCTTACCTCCTCTTTACCCCATACATATGGGAAAAAGGGACAGCCATTAGA
1 GGGGTAGCCTACTATCTTACCTCCTCTTTACCCCATACATATGGGAAAAAGGGACAGCCATTAGA
716757 AGACTATA
66 AGACTATA
716765 TCTAGAGACG
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 73 1.00
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (73 bp):
GGGGTAGCCTACTATCTTACCTCCTCTTTACCCCATACATATGGGAAAAAGGGACAGCCATTAGA
AGACTATA
Found at i:722806 original size:6 final size:6
Alignment explanation
Indices: 722781--722813 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
722771 CATATATATA
*
722781 CGTATG CGTATG CGTATG CGTATG CGTGTG CGT
1 CGTATG CGTATG CGTATG CGTATG CGTATG CGT
722814 TTGTGTATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.12, C:0.18, G:0.36, T:0.33
Consensus pattern (6 bp):
CGTATG
Found at i:729706 original size:20 final size:19
Alignment explanation
Indices: 729659--729718 Score: 66
Period size: 20 Copynumber: 3.1 Consensus size: 19
729649 TTTATATAAA
*
729659 AATTAAATATTTTATAATT
1 AATTAAATAATTTATAATT
**
729678 CAAAAAAATAATTTATAATT
1 -AATTAAATAATTTATAATT
*
729698 AATTTAAATAATATATAATT
1 AA-TTAAATAATTTATAATT
729718 A
1 A
729719 TAAAGTAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
19 2 0.06
20 31 0.94
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (19 bp):
AATTAAATAATTTATAATT
Found at i:729961 original size:184 final size:185
Alignment explanation
Indices: 729673--730035 Score: 649
Period size: 184 Copynumber: 2.0 Consensus size: 185
729663 AAATATTTTA
* *
729673 TAATTCAAAAAAATAATTTATAATTAATTTAAATAATATATAATTATAAAGTAAAAATTTTATAT
1 TAATTCAAAAAAATAATTTAAAATTAATTTAAATAATATATAATTATAAAATAAAAATTTTATAT
729738 AAATTTTTTAATTAATTAATATTGATATAGGTTTAAAAGTTATTGGATCTTAAATTATTAATTGG
66 AAATTTTTTAATTAATTAATATTGATATAGGTTTAAAAGTTATTGGATCTTAAATTATTAATTGG
*
729803 ATTTTAAATGGTTTGGGTTGAGCCCATATGTTATATATAATATATTTAAAAAATT
131 ATTTTAAATGGTTTGGGCTGAGCCCATATGTTATATATAATATATTTAAAAAATT
*
729858 TAATTCAAAAAAA-AGTTTAAAATTAATTTAAATAATATATAATTATAAAATAAAAATTTTATAT
1 TAATTCAAAAAAATAATTTAAAATTAATTTAAATAATATATAATTATAAAATAAAAATTTTATAT
*
729922 -AATTTTTTAAATTAATTAATATTGATTTAGGTTTAAAAGTTATTGGATCTTAAATTATTAATTG
66 AAATTTTTT-AATTAATTAATATTGATATAGGTTTAAAAGTTATTGGATCTTAAATTATTAATTG
*
729986 GGTTTTAAATGGTTTGGGCTGAGCCCATATGTTATATATAATATATTTAA
130 GATTTTAAATGGTTTGGGCTGAGCCCATATGTTATATATAATATATTTAA
730036 TATTTAAAAT
Statistics
Matches: 171, Mismatches: 6, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
183 8 0.05
184 150 0.88
185 13 0.08
ACGTcount: A:0.43, C:0.03, G:0.10, T:0.44
Consensus pattern (185 bp):
TAATTCAAAAAAATAATTTAAAATTAATTTAAATAATATATAATTATAAAATAAAAATTTTATAT
AAATTTTTTAATTAATTAATATTGATATAGGTTTAAAAGTTATTGGATCTTAAATTATTAATTGG
ATTTTAAATGGTTTGGGCTGAGCCCATATGTTATATATAATATATTTAAAAAATT
Found at i:733686 original size:24 final size:24
Alignment explanation
Indices: 733571--733686 Score: 146
Period size: 24 Copynumber: 4.8 Consensus size: 24
733561 AATAATTCAA
*
733571 GTCAAGTATCATATCAGAAAT-CAG
1 GTCAAGTATCATATCAG-AATCCAT
* * * *
733595 GTCAAGTAACAGATCAAAATCCAA
1 GTCAAGTATCATATCAGAATCCAT
*
733619 GTCAAGTATCAGATCAGAATCCAT
1 GTCAAGTATCATATCAGAATCCAT
733643 GTC-AGATATCATATCAGAATCCAT
1 GTCAAG-TATCATATCAGAATCCAT
733667 GTCAAGTATCATATCAGAAT
1 GTCAAGTATCATATCAGAAT
733687 TCAAATCATA
Statistics
Matches: 81, Mismatches: 8, Indels: 6
0.85 0.08 0.06
Matches are distributed among these distances:
23 5 0.06
24 74 0.91
25 2 0.02
ACGTcount: A:0.41, C:0.19, G:0.15, T:0.25
Consensus pattern (24 bp):
GTCAAGTATCATATCAGAATCCAT
Found at i:736143 original size:18 final size:18
Alignment explanation
Indices: 736120--736158 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
736110 AGTGGTCAAC
736120 GGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
736138 GGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
736156 GGT
1 GGT
736159 TGTGACCGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.10, C:0.21, G:0.51, T:0.18
Consensus pattern (18 bp):
GGTCAACGGGTCGGGTCG
Found at i:739227 original size:2 final size:2
Alignment explanation
Indices: 739220--739284 Score: 130
Period size: 2 Copynumber: 32.5 Consensus size: 2
739210 GATTTCTGGT
739220 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
739262 TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA T
739285 TCTTGTAACG
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 63 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:741697 original size:28 final size:28
Alignment explanation
Indices: 741664--741729 Score: 107
Period size: 28 Copynumber: 2.4 Consensus size: 28
741654 TCAAAATACA
741664 TAACATTTCAAACTCAACAAAAT-TTCCT
1 TAACATTTCAAACTCAACAAAATATT-CT
*
741692 TAACATTTCAAACTTAACAAAATATTCT
1 TAACATTTCAAACTCAACAAAATATTCT
741720 TAACATTTCA
1 TAACATTTCA
741730 GCACCCGAAC
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
28 34 0.94
29 2 0.06
ACGTcount: A:0.44, C:0.21, G:0.00, T:0.35
Consensus pattern (28 bp):
TAACATTTCAAACTCAACAAAATATTCT
Found at i:748294 original size:31 final size:31
Alignment explanation
Indices: 748221--748284 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
748211 AGTTATGTCG
*
748221 GGGATCATATTGCAAACAGACTAAATGTTGA
1 GGGATCATATTGCAAACAGACTAAATATTGA
*
748252 GGGATCATATTGCAAACGGACTAAATATT-A
1 GGGATCATATTGCAAACAGACTAAATATTGA
748282 GGG
1 GGG
748285 TATTGTATTG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 4 0.13
31 27 0.87
ACGTcount: A:0.38, C:0.12, G:0.25, T:0.25
Consensus pattern (31 bp):
GGGATCATATTGCAAACAGACTAAATATTGA
Found at i:750226 original size:16 final size:16
Alignment explanation
Indices: 750196--750225 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
750186 TAATATTGAA
750196 ACTTGAACTCAAAAAG
1 ACTTGAACTCAAAAAG
750212 ACTT-AACTCAAAAA
1 ACTTGAACTCAAAAA
750226 AAATTTAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.53, C:0.20, G:0.07, T:0.20
Consensus pattern (16 bp):
ACTTGAACTCAAAAAG
Found at i:751704 original size:31 final size:31
Alignment explanation
Indices: 751634--751697 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
751624 TTACGTCAGA
*
751634 GACCATATTGCAAACTGACTAAATGTTGAGG
1 GACCATATTGCAAACGGACTAAATGTTGAGG
751665 GACCATATTGCAAACGGACTAAATGTTGAGG
1 GACCATATTGCAAACGGACTAAATGTTGAGG
751696 GA
1 GA
751698 TTATATTACA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (31 bp):
GACCATATTGCAAACGGACTAAATGTTGAGG
Found at i:756444 original size:36 final size:36
Alignment explanation
Indices: 756404--756521 Score: 200
Period size: 36 Copynumber: 3.3 Consensus size: 36
756394 AAAGAAAGAA
*
756404 AACGGAATGAGGCATCGGCACTTCCGATTCAAGTCG
1 AACGGAAGGAGGCATCGGCACTTCCGATTCAAGTCG
*
756440 AACGGAAGGAGGCATCGACACTTCCGATTCAAGTCG
1 AACGGAAGGAGGCATCGGCACTTCCGATTCAAGTCG
* *
756476 AACGGAAGGAAGTATCGGCACTTCCGATTCAAGTCG
1 AACGGAAGGAGGCATCGGCACTTCCGATTCAAGTCG
756512 AACGGAAGGA
1 AACGGAAGGA
756522 TGTATCGCAC
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 77 1.00
ACGTcount: A:0.31, C:0.23, G:0.29, T:0.17
Consensus pattern (36 bp):
AACGGAAGGAGGCATCGGCACTTCCGATTCAAGTCG
Found at i:756527 original size:36 final size:36
Alignment explanation
Indices: 756417--756533 Score: 191
Period size: 36 Copynumber: 3.3 Consensus size: 36
756407 GGAATGAGGC
* *
756417 ATCGGCACTTCCGATTCAAGTCGAACGGAAGGAGGC
1 ATCGGCACTTCCGATTCAAGTCGAACGGAAGGAAGT
*
756453 ATCGACACTTCCGATTCAAGTCGAACGGAAGGAAGT
1 ATCGGCACTTCCGATTCAAGTCGAACGGAAGGAAGT
*
756489 ATCGGCACTTCCGATTCAAGTCGAACGGAAGGATGT
1 ATCGGCACTTCCGATTCAAGTCGAACGGAAGGAAGT
756525 ATC-GCACTT
1 ATCGGCACTT
756534 TTGTTTCAAG
Statistics
Matches: 76, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
35 6 0.08
36 70 0.92
ACGTcount: A:0.29, C:0.24, G:0.26, T:0.21
Consensus pattern (36 bp):
ATCGGCACTTCCGATTCAAGTCGAACGGAAGGAAGT
Found at i:764580 original size:23 final size:23
Alignment explanation
Indices: 764554--764598 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
764544 CTCTCTTTTT
764554 TTGTCCCTCTC-ATTTAATCCTTC
1 TTGTCCCTC-CAATTTAATCCTTC
*
764577 TTGTCTCTCCAATTTAATCCTT
1 TTGTCCCTCCAATTTAATCCTT
764599 TTCCCATGGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 1 0.05
23 19 0.95
ACGTcount: A:0.16, C:0.31, G:0.04, T:0.49
Consensus pattern (23 bp):
TTGTCCCTCCAATTTAATCCTTC
Found at i:768551 original size:35 final size:35
Alignment explanation
Indices: 768505--768572 Score: 136
Period size: 35 Copynumber: 1.9 Consensus size: 35
768495 AAACAGTACA
768505 GAGGCAGAGTATCAAGCATTATCCCATGGTATAAG
1 GAGGCAGAGTATCAAGCATTATCCCATGGTATAAG
768540 GAGGCAGAGTATCAAGCATTATCCCATGGTATA
1 GAGGCAGAGTATCAAGCATTATCCCATGGTATA
768573 TGCGAAGGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.24
Consensus pattern (35 bp):
GAGGCAGAGTATCAAGCATTATCCCATGGTATAAG
Done.