Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168159.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_4, 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: 33012953
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 65000 characters in sequence are not A, C, G, or T
File 130 of 160
Found at i:24298306 original size:132 final size:132
Alignment explanation
Indices: 24298122--24298700 Score: 700
Period size: 132 Copynumber: 4.4 Consensus size: 132
24298112 AAATGTCAGC
* * * * ** *
24298122 TAAACTGGACTTAAAT-ATCA-TTGATGGCCAGATAACCTGGGCTTAAATCTTCATTGTTGGCTA
1 TAAACTGGGCTTAAATCTTCATTTGA-GGCCAGATAAACTGGGCTTAAAGCTTCATTAATGGCCA
* * ** * * **
24298185 GATAAACTGGGTTTAAAACTTCATTGTTGGTCAGATAAATTGGGCTTAAAACCTCATTGATG-GC
65 GATAAACTGGGCTTAAAGCTTCATTAATGGCCAGATAAACTGGGCTTAAAATTTCATTGA-GAGC
24298249 CAGA
129 CAGA
* * * * * *
24298253 TAAGCTAGGCTTAAAGCTTCA-TTAATGGTCAGATAAACTGGGCTTAAAGCTTCATTAATAGCCA
1 TAAACTGGGCTTAAATCTTCATTTGA-GGCCAGATAAACTGGGCTTAAAGCTTCATTAATGGCCA
* * * * * * *
24298317 GATAAACTGGGTTTAAATCTTCATTAATAGCCAGATAAACTGAGTTTAAAATTTCATTAATG-GT
65 GATAAACTGGGCTTAAAGCTTCATTAATGGCCAGATAAACTGGGCTTAAAATTTCATTGA-GAGC
24298381 CAGA
129 CAGA
* ** * *
24298385 TAAACTGGGCTTAAATCTTCATTTAAGGTTAAATAAACTGGGCTTAAAGCTTCATTGATGGCCAG
1 TAAACTGGGCTTAAATCTTCATTTGAGGCCAGATAAACTGGGCTTAAAGCTTCATTAATGGCCAG
* * * *
24298450 ATAAGCTGGGCTTAAAGCTTCATTAATGGTCAAATAAACTGGGCTTAAAGTTTCATTGAGAGCCA
66 ATAAACTGGGCTTAAAGCTTCATTAATGGCCAGATAAACTGGGCTTAAAATTTCATTGAGAGCCA
24298515 GA
131 GA
* *
24298517 TAAATTGGGCTTAAATCTTCATTTGAGGCCAGATAAACTGGGCTTAAAGCCTCATTAATGGCCAG
1 TAAACTGGGCTTAAATCTTCATTTGAGGCCAGATAAACTGGGCTTAAAGCTTCATTAATGGCCAG
* *
24298582 ATAAGCTGGGCTTAAAGCTTCATTAATGGCCAGATAAACTGGGCTTAAAGTTTCATTGAGAGCCA
66 ATAAACTGGGCTTAAAGCTTCATTAATGGCCAGATAAACTGGGCTTAAAATTTCATTGAGAGCCA
*
24298647 AA
131 GA
*
24298649 TAAATTGGGCTTAAATCTTCATTTGAGGCCAGATAAACTGGGCTTAAAGCTT
1 TAAACTGGGCTTAAATCTTCATTTGAGGCCAGATAAACTGGGCTTAAAGCTT
24298701 TTTTTTTTTT
Statistics
Matches: 391, Mismatches: 54, Indels: 5
0.87 0.12 0.01
Matches are distributed among these distances:
131 13 0.03
132 374 0.96
133 4 0.01
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (132 bp):
TAAACTGGGCTTAAATCTTCATTTGAGGCCAGATAAACTGGGCTTAAAGCTTCATTAATGGCCAG
ATAAACTGGGCTTAAAGCTTCATTAATGGCCAGATAAACTGGGCTTAAAATTTCATTGAGAGCCA
GA
Found at i:24299544 original size:11 final size:11
Alignment explanation
Indices: 24299528--24299562 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
24299518 CACCCATTCA
24299528 TTTCTTTTTTT
1 TTTCTTTTTTT
24299539 TTTC-TTTTTT
1 TTTCTTTTTTT
*
24299549 TTCCTTTTTTT
1 TTTCTTTTTTT
24299560 TTT
1 TTT
24299563 GCATCTTTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (11 bp):
TTTCTTTTTTT
Found at i:24299548 original size:10 final size:10
Alignment explanation
Indices: 24299528--24299561 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
24299518 CACCCATTCA
24299528 TTTCTTTTTTT
1 TTTC-TTTTTT
24299539 TTTCTTTTTT
1 TTTCTTTTTT
*
24299549 TTCCTTTTTT
1 TTTCTTTTTT
24299559 TTT
1 TTT
24299562 TGCATCTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 17 0.81
11 4 0.19
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (10 bp):
TTTCTTTTTT
Found at i:24305823 original size:16 final size:16
Alignment explanation
Indices: 24305797--24305876 Score: 54
Period size: 16 Copynumber: 4.9 Consensus size: 16
24305787 TCACACGTGT
24305797 CTTTAGGATTTTTAGGA
1 CTTT-GGATTTTTAGGA
**
24305814 CTTTGGATTTCAAGGA
1 CTTTGGATTTTTAGGA
* * *
24305830 TTTTGAATTTTTAGGG
1 CTTTGGATTTTTAGGA
* *
24305846 GTTTAGA-TTTTAGGGA
1 CTTTGGATTTTTA-GGA
* *
24305862 TTTTGAATTTTTAGG
1 CTTTGGATTTTTAGG
24305877 GGTTTTAAAA
Statistics
Matches: 47, Mismatches: 14, Indels: 5
0.71 0.21 0.08
Matches are distributed among these distances:
15 5 0.11
16 33 0.70
17 9 0.19
ACGTcount: A:0.23, C:0.04, G:0.25, T:0.49
Consensus pattern (16 bp):
CTTTGGATTTTTAGGA
Found at i:24305858 original size:15 final size:17
Alignment explanation
Indices: 24305834--24305881 Score: 64
Period size: 15 Copynumber: 2.9 Consensus size: 17
24305824 CAAGGATTTT
24305834 GAATTTTTAGGGGTTTA
1 GAATTTTTAGGGGTTTA
* *
24305851 G-A-TTTTAGGGATTTT
1 GAATTTTTAGGGGTTTA
24305866 GAATTTTTAGGGGTTT
1 GAATTTTTAGGGGTTT
24305882 TAAAAACTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 12 0.46
16 2 0.08
17 12 0.46
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.50
Consensus pattern (17 bp):
GAATTTTTAGGGGTTTA
Found at i:24305875 original size:17 final size:17
Alignment explanation
Indices: 24305827--24305882 Score: 71
Period size: 17 Copynumber: 3.4 Consensus size: 17
24305817 TGGATTTCAA
24305827 GGATTTTGAATTTTTAG
1 GGATTTTGAATTTTTAG
* *
24305844 GGGTTTAG-A-TTTTAG
1 GGATTTTGAATTTTTAG
24305859 GGATTTTGAATTTTTAG
1 GGATTTTGAATTTTTAG
*
24305876 GGGTTTT
1 GGATTTT
24305883 AAAAACTTAG
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
15 12 0.38
16 2 0.06
17 18 0.56
ACGTcount: A:0.20, C:0.00, G:0.29, T:0.52
Consensus pattern (17 bp):
GGATTTTGAATTTTTAG
Found at i:24305877 original size:32 final size:32
Alignment explanation
Indices: 24305804--24305881 Score: 111
Period size: 32 Copynumber: 2.4 Consensus size: 32
24305794 TGTCTTTAGG
** *
24305804 ATTTTTAGGACTTTGGATTTCAAGGATTTTGA
1 ATTTTTAGGGGTTTAGATTTCAAGGATTTTGA
* *
24305836 ATTTTTAGGGGTTTAGATTTTAGGGATTTTGA
1 ATTTTTAGGGGTTTAGATTTCAAGGATTTTGA
24305868 ATTTTTAGGGGTTT
1 ATTTTTAGGGGTTT
24305882 TAAAAACTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.22, C:0.03, G:0.26, T:0.50
Consensus pattern (32 bp):
ATTTTTAGGGGTTTAGATTTCAAGGATTTTGA
Found at i:24306980 original size:17 final size:15
Alignment explanation
Indices: 24306955--24306996 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 15
24306945 GTGAAGACTG
*
24306955 TGTTATTTTTTTGTTTA
1 TGTT-TTTTTTT-TTTT
24306972 TGTTTTTTTTTTTTT
1 TGTTTTTTTTTTTTT
24306987 T-TTTTTTTTT
1 TGTTTTTTTTT
24306997 AGTTGGTGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 9 0.38
15 4 0.17
16 7 0.29
17 4 0.17
ACGTcount: A:0.05, C:0.00, G:0.07, T:0.88
Consensus pattern (15 bp):
TGTTTTTTTTTTTTT
Found at i:24312182 original size:33 final size:33
Alignment explanation
Indices: 24312139--24312213 Score: 93
Period size: 32 Copynumber: 2.3 Consensus size: 33
24312129 ATAAATATGA
24312139 GTAAA-ATATTAAAATATTATATTATA-TTTTAT
1 GTAAATATATTAAAATA-TATATTATATTTTTAT
* *
24312171 GTAAATATATTAAAATATATTTTTTATTTTTAT
1 GTAAATATATTAAAATATATATTATATTTTTAT
*
24312204 -TAAATTTATT
1 GTAAATATATT
24312214 TACACATTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
32 21 0.55
33 17 0.45
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.55
Consensus pattern (33 bp):
GTAAATATATTAAAATATATATTATATTTTTAT
Found at i:24312785 original size:2 final size:2
Alignment explanation
Indices: 24312778--24312811 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
24312768 GCCAAAAGAA
*
24312778 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24312812 CATACCATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:24313034 original size:21 final size:20
Alignment explanation
Indices: 24313005--24313043 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
24312995 TTGTTAATAA
*
24313005 AATATTAAAATTTTAATTTT
1 AATATTAAAATTTAAATTTT
24313025 AATATCTAAAATTTAAATT
1 AATAT-TAAAATTTAAATT
24313044 CTGATAACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
AATATTAAAATTTAAATTTT
Found at i:24314349 original size:2 final size:2
Alignment explanation
Indices: 24314342--24314388 Score: 67
Period size: 2 Copynumber: 22.5 Consensus size: 2
24314332 TATAAAGAGC
*
24314342 AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT AT AT AT ACT CAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T -AT AT
24314386 AT A
1 AT A
24314389 CATTTGAGTC
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
2 38 0.93
3 2 0.05
4 1 0.02
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:24317102 original size:539 final size:533
Alignment explanation
Indices: 24315920--24317899 Score: 2297
Period size: 539 Copynumber: 3.7 Consensus size: 533
24315910 TATTTCTTTT
* * * *
24315920 TAAATTGATTTGCTTTTATATAAAATTCAAAATATTTCAATGTATTAATTATATTATTTT-TCTT
1 TAAATTGATTTGCTTTCATATAAATTTTAAAATATTTCAATGCATTAATTATATTATTTTCT-TT
* * *
24315984 TAAATTTTCAATTAACTTACATTTTATTTTCAATAAAATGTCTTAAATTACAAATCAAAACTAAA
65 TAAATTTTCAATTGACTTAC-TTTTATTTTCAATAAAATGTCCTAAATTATAAATCAAAACTAAA
* * * * * **
24316049 TCAATAATACATTATCATAAAAAAATTTCTTAATGGTTCACAGAATTAATAAATATTATAATTAC
129 TCAATGATACATTATAATCAAAGAATTTTTTAATAATTCACAGAATTAATAAATATTATAATTAC
* * * * * *
24316114 AATCATTAAATACGTTTTTAATGATTCAAATAACTTTTACTGAAATCTAATAAGAAATATTACAA
194 GATCATTAAAT-CATTTTTAATGATTCAAATAACTTATATTGAAATCTAATTAGAAATATT--AT
* *
24316179 AAAAAAATTTAATAACTACTAAAATTACGATCAAGAGTTGATTCATTAATCAATTATTTGATTCA
256 AAAAAAATTTAATAACCACTAAAATTACGATCAAGAGTTGATTCATTAATCAATTATTTGATCCA
* * *
24316244 TTCATATTTGATTAAATATAATTTTCAATTGAGTAATAGATGTTATTCATATATAAATCTTGCAT
321 TTCATATTTGATTAAATATAATATCCAATTGAGTAATAGATGTTATTCATGTAT-AA------AT
* * * **
24316309 CTTATATCTTACATAAATATATAAAA-ACCAAA-TTTTTAGCAAAAAAGGAAAATATCCAATGTG
379 CTTATATCTTATATAAATATATAAAAGACAAAACTTTTGAG-AAAAAA--AAAA-ATCCAATAAG
* * * * ** * *
24316372 CATGGCTTATAATATTAAAATATGGACAATTTTTATCAATCGTCATGTGTCCTATCTTAATTATA
440 GATGGC-TATAATATTGACATATAGACAACATTTATCAATCATCACGTGTCCTATCTTAATTATA
*
24316437 TTTATTCATATTTATTTTTTAAAAATTGATA
504 TTTATTCATATTTATTTTTT-TAAATTGATA
* * *
24316468 TAAATTGATTTACTTTCATGTAAATTTTAAAATATTTCAAAGCATTAATTATATTATTTTCTTTT
1 TAAATTGATTTGCTTTCATATAAATTTTAAAATATTTCAATGCATTAATTATATTATTTTCTTTT
*
24316533 AAATTTAT-AATT-A--TA---TTATTTTCGATAAAATGTCCTAAATTATAAATCAAAACTAAAT
66 AAATTT-TCAATTGACTTACTTTTATTTTCAATAAAATGTCCTAAATTATAAATCAAAACTAAAT
* *
24316591 CGATGATACATTATAATCAAAGAATTTTTTAATAATTCATAGAATTAATAAATATTATAATTACG
130 CAATGATACATTATAATCAAAGAATTTTTTAATAATTCACAGAATTAATAAATATTATAATTACG
*
24316656 GTCATTAAATACATTTTTAATGATTCAAATAACTTATATTGAAATCTAATTAGAAATATTATAAA
195 ATCATTAAAT-CATTTTTAATGATTCAAATAACTTATATTGAAATCTAATTAGAAATATTATAAA
* * * * *
24316721 AAAATTTAATAACCACTAAAATTATGGTTAAGAGTTAATTCATTAATCAATTATTTGAACCATTC
259 AAAATTTAATAACCACTAAAATTACGATCAAGAGTTGATTCATTAATCAATTATTTGATCCATTC
* *
24316786 ATATTTGATTAAATATAATATCTAATTGAGTAATAGATGTTATTTATGTATAAATCTTATATCTT
324 ATATTTGATTAAATATAATATCCAATTGAGTAATAGATGTTATTCATGTATAAATCTTATATCTT
** *
24316851 ATATAAATATATAAAAGTTAAAACTTTTGACGAAAAAAAAAAGTCCAATAAGGATGGTCTATAAT
389 ATATAAATATATAAAAGACAAAACTTTTGA-GAAAAAAAAAAATCCAATAAGGATGG-CTATAAT
* * * * * *
24316916 ATTGACATGTAGACAACCTTTATCAATCATCACATGTCTTGTCTTAATTATAGTTATTCATATTT
452 ATTGACATATAGACAACATTTATCAATCATCACGTGTCCTATCTTAATTATATTTATTCATATTT
*
24316981 GTTTCTCTTTAAATTGATA
517 ATTT-T-TTTAAATTGATA
* *
24317000 TAAATTGATTTGCTTTCATATAAATTTTAAGATATTTTAATGCATTAATTATATTATTTTCTTTT
1 TAAATTGATTTGCTTTCATATAAATTTTAAAATATTTCAATGCATTAATTATATTATTTTCTTTT
* * *
24317065 AAATTTTTAATTGATTTATCTTTTATTTTCAATAAAATGTCCTAAATTATAAATCAAAAGTAAAT
66 AAATTTTCAATTGACTTA-CTTTTATTTTCAATAAAATGTCCTAAATTATAAATCAAAACTAAAT
*
24317130 CAATGATACATTATAATCAAAGAATTTTTTAATGATTCACAG------------------TTACG
130 CAATGATACATTATAATCAAAGAATTTTTTAATAATTCACAGAATTAATAAATATTATAATTACG
* ** * * *
24317177 GTCATT-AATTTTTTTTAATAATTCAAATAATTTCTATTGAAATCTAATTAGAAATATTATAAAA
195 ATCATTAAATCATTTTTAATGATTCAAATAACTTATATTGAAATCTAATTAGAAATATTAT-AAA
* * **
24317241 AAAATTTAATAACCATTAAAATTAC-AGTTAAGAGTTGATTCATTAATCAATTATTTGATCTGTT
259 AAAATTTAATAACCACTAAAATTACGA-TCAAGAGTTGATTCATTAATCAATTATTTGATCCATT
* * * *
24317305 CATATTTGATTAAATATAATATCCAATTGAATAATAAAAGTTATTTATGTATAAATCTTATATCT
323 CATATTTGATTAAATATAATATCCAATTGAGTAATAGATGTTATTCATGTATAAATCTTATATCT
* * * *
24317370 TATATAAATATATAAAAGCCAACACTTTTGGTAAAAAAAAAAAAATCCAATCCAATTTGGATGAC
388 TATATAAATATATAAAAGACAAAACTTTT-G-AGAAAAAAAAAAATCCAAT--AA---GGATG-G
* *
24317435 CTATAATATTGACGTATAGACAACATTTATCAATCATCACGTGTCCTATGTTAATTATATTTATT
445 CTATAATATTGACATATAGACAACATTTATCAATCATCACGTGTCCTATCTTAATTATATTTATT
24317500 CATATTTATTTTTTTTTAAATTGATA
510 CATATTTA--TTTTTTTAAATTGATA
*
24317526 TAAATTGATTTGACTTT-ATAAAAATTTTAAAATATTTCAATGCATTAATTATATTATTTTCTTT
1 TAAATTGATTTG-CTTTCATATAAATTTTAAAATATTTCAATGCATTAATTATATTATTTTCTTT
* * * *
24317590 TAAATTTTCAATTGACTTACTATTTATTTCCAATAAAATATCATAAATTATAAATAAAAACTAAA
65 TAAATTTTCAATTGACTTACT-TTTATTTTCAATAAAATGTCCTAAATTATAAATCAAAACTAAA
* * * * *
24317655 TCAATGACACATTATAATTAAA-ATTTTTTTTAATAATTCATAGAATTAATAAATACTATAATTA
129 TCAATGATACATTATAATCAAAGA-ATTTTTTAATAATTCACAGAATTAATAAATATTATAATTA
* * * * * * * * *
24317719 -TAACATTAAAT-ATTTTT--TTA-ACAAAGAATTTATATTAAAATCTAATCAAAAATATTATAA
193 CGATCATTAAATCATTTTTAATGATTCAAATAACTTATATTGAAATCTAATTAGAAATATTATAA
* * * *
24317779 AAAAATTTTATACCCACTAAAATTACGATCAAGAGTTTATTCTTTAATCAATTATTTGATCCATT
258 AAAAATTTAATAACCACTAAAATTACGATCAAGAGTTGATTCATTAATCAATTATTTGATCCATT
* * * *
24317844 CATGTTTGATTAAATATAATATCCAACTAAGCAATAGATGTTATTCATGTATAAAT
323 CATATTTGATTAAATATAATATCCAATTGAGTAATAGATGTTATTCATGTATAAAT
24317900 ATATAAAAAT
Statistics
Matches: 1237, Mismatches: 144, Indels: 111
0.83 0.10 0.07
Matches are distributed among these distances:
519 46 0.04
520 149 0.12
521 28 0.02
522 1 0.00
523 2 0.00
525 3 0.00
526 228 0.18
527 5 0.00
528 3 0.00
531 74 0.06
532 112 0.09
533 6 0.00
534 11 0.01
535 3 0.00
538 2 0.00
539 293 0.24
540 33 0.03
541 152 0.12
543 9 0.01
544 6 0.00
545 2 0.00
547 1 0.00
548 66 0.05
549 2 0.00
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.42
Consensus pattern (533 bp):
TAAATTGATTTGCTTTCATATAAATTTTAAAATATTTCAATGCATTAATTATATTATTTTCTTTT
AAATTTTCAATTGACTTACTTTTATTTTCAATAAAATGTCCTAAATTATAAATCAAAACTAAATC
AATGATACATTATAATCAAAGAATTTTTTAATAATTCACAGAATTAATAAATATTATAATTACGA
TCATTAAATCATTTTTAATGATTCAAATAACTTATATTGAAATCTAATTAGAAATATTATAAAAA
AATTTAATAACCACTAAAATTACGATCAAGAGTTGATTCATTAATCAATTATTTGATCCATTCAT
ATTTGATTAAATATAATATCCAATTGAGTAATAGATGTTATTCATGTATAAATCTTATATCTTAT
ATAAATATATAAAAGACAAAACTTTTGAGAAAAAAAAAAATCCAATAAGGATGGCTATAATATTG
ACATATAGACAACATTTATCAATCATCACGTGTCCTATCTTAATTATATTTATTCATATTTATTT
TTTTAAATTGATA
Found at i:24319508 original size:21 final size:23
Alignment explanation
Indices: 24319484--24319532 Score: 66
Period size: 21 Copynumber: 2.2 Consensus size: 23
24319474 TTTTACATTG
*
24319484 AAATTTTTTATTT-T-TTATATA
1 AAATTTATTATTTGTATTATATA
24319505 AAATTTATTATTTGTATTATATA
1 AAATTTATTATTTGTATTATATA
*
24319528 TAATT
1 AAATT
24319533 AAGTTATATG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 12 0.50
22 1 0.04
23 11 0.46
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (23 bp):
AAATTTATTATTTGTATTATATA
Found at i:24319544 original size:24 final size:23
Alignment explanation
Indices: 24319498--24319545 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
24319488 TTTTTATTTT
* *
24319498 TTATATAAAATTTATTATTTGTA
1 TTATATAAAATTAATTATATGTA
*
24319521 TTATATATAATTAAGTTATATGTA
1 TTATATAAAATTAA-TTATATGTA
24319545 T
1 T
24319546 AATTACATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 12 0.57
24 9 0.43
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (23 bp):
TTATATAAAATTAATTATATGTA
Found at i:24320982 original size:19 final size:18
Alignment explanation
Indices: 24320955--24320994 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
24320945 ACACCAACAA
*
24320955 AAATCATAAAAAAAATCTG
1 AAATAATAAAAAAAAT-TG
*
24320974 AAATAATAAATAAAATTG
1 AAATAATAAAAAAAATTG
24320992 AAA
1 AAA
24320995 AAGAGACTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.23
Consensus pattern (18 bp):
AAATAATAAAAAAAATTG
Found at i:24326490 original size:23 final size:24
Alignment explanation
Indices: 24326444--24326499 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 24
24326434 CAACTTTGAC
* *
24326444 TATTAATTTTGAAAATTTTGAAA-
1 TATTAATTTTGAAAATCTTAAAAT
24326467 TATTAATTTT-ACAAATCTTAAAAT
1 TATTAATTTTGA-AAATCTTAAAAT
*
24326491 TTTTAATTT
1 TATTAATTT
24326500 CATGATTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 1 0.04
23 19 0.68
24 8 0.29
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.52
Consensus pattern (24 bp):
TATTAATTTTGAAAATCTTAAAAT
Found at i:24330558 original size:20 final size:20
Alignment explanation
Indices: 24330535--24330573 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
24330525 TATTTTCAGA
24330535 ATTAAATTTTTAAAAATTAT
1 ATTAAATTTTTAAAAATTAT
*
24330555 ATTATATTTTTAAAAATTA
1 ATTAAATTTTTAAAAATTA
24330574 AGTTTCTAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
ATTAAATTTTTAAAAATTAT
Found at i:24349214 original size:19 final size:20
Alignment explanation
Indices: 24349190--24349229 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
24349180 TATTTATATA
24349190 TATTTAACAA-ATAAAATTT
1 TATTTAACAATATAAAATTT
*
24349209 TATTTAATAATATAAAATTT
1 TATTTAACAATATAAAATTT
24349229 T
1 T
24349230 GTTTTAGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (20 bp):
TATTTAACAATATAAAATTT
Found at i:24349272 original size:18 final size:19
Alignment explanation
Indices: 24349249--24349293 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
24349239 TAACTAAACT
*
24349249 AATATAT-TTTATATAAAA
1 AATATATATTTATAAAAAA
24349267 AATATATATTTATAAAAAA
1 AATATATATTTATAAAAAA
24349286 AAT-TATAT
1 AATATATAT
24349294 AAATATATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 12 0.48
19 13 0.52
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
AATATATATTTATAAAAAA
Found at i:24349293 original size:22 final size:24
Alignment explanation
Indices: 24349283--24349329 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
24349273 TATTTATAAA
24349283 AAAAATTATATAAATATATAAGAT
1 AAAAATTATATAAATATATAAGAT
24349307 AAAAATTA-A-AAATA-ATAA-AT
1 AAAAATTATATAAATATATAAGAT
24349327 AAA
1 AAA
24349330 TTTTATATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 5 0.22
21 4 0.17
22 5 0.22
23 1 0.04
24 8 0.35
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (24 bp):
AAAAATTATATAAATATATAAGAT
Found at i:24349300 original size:20 final size:19
Alignment explanation
Indices: 24349258--24349300 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
24349248 TAATATATTT
* **
24349258 TATATAAAAAATATATATT
1 TATAAAAAAAATATATAAA
24349277 TATAAAAAAAATTATATAAA
1 TATAAAAAAAA-TATATAAA
24349297 TATA
1 TATA
24349301 TAAGATAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
TATAAAAAAAATATATAAA
Found at i:24349467 original size:18 final size:18
Alignment explanation
Indices: 24349430--24349465 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
24349420 TTTATTGAAT
24349430 ATAAATATAAGTATAAAA
1 ATAAATATAAGTATAAAA
24349448 ATAAATATAA-TATAAAA
1 ATAAATATAAGTATAAAA
24349465 A
1 A
24349466 ATTGAAGATG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (18 bp):
ATAAATATAAGTATAAAA
Found at i:24356681 original size:11 final size:11
Alignment explanation
Indices: 24356667--24356696 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
24356657 TTTTTGAATT
24356667 TTTATATTATA
1 TTTATATTATA
*
24356678 TTTATTTTATA
1 TTTATATTATA
24356689 TTTATATT
1 TTTATATT
24356697 TTATAGGTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (11 bp):
TTTATATTATA
Found at i:24356684 original size:17 final size:17
Alignment explanation
Indices: 24356666--24356697 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
24356656 TTTTTTGAAT
24356666 TTTTATA-TTATATTTA
1 TTTTATATTTATATTTA
24356682 TTTTATATTTATATTT
1 TTTTATATTTATATTT
24356698 TATAGGTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (17 bp):
TTTTATATTTATATTTA
Found at i:24356691 original size:24 final size:24
Alignment explanation
Indices: 24356658--24356717 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 24
24356648 TTTTTTTTTT
* * **
24356658 TTTTGAATTTTTATATTATATTTA
1 TTTTAAATTTATATATTATAGGTA
* *
24356682 TTTTATATTTATATTTTATAGGTA
1 TTTTAAATTTATATATTATAGGTA
24356706 TTTTAAATTTAT
1 TTTTAAATTTAT
24356718 TTGCATTCTC
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (24 bp):
TTTTAAATTTATATATTATAGGTA
Found at i:24365444 original size:2 final size:2
Alignment explanation
Indices: 24365437--24365464 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
24365427 AAGCTTAGCA
24365437 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
24365465 GTATGTATGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24365505 original size:3 final size:3
Alignment explanation
Indices: 24365499--24365528 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
24365489 AGAGTTGTTG
24365499 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
24365529 ACTATCATAA
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):
TAA
Found at i:24366928 original size:39 final size:37
Alignment explanation
Indices: 24366885--24366958 Score: 85
Period size: 39 Copynumber: 1.9 Consensus size: 37
24366875 AAATTAACAA
* *
24366885 AAAAATAAAAAATAAAGAAAAAATATATAAAAAAATCAT
1 AAAAAGAAAAAATAAAGAAAAAA-A-AAAAAAAAATCAT
** *
24366924 AAAAAGCTAAAATAAATAAAAAAAAAAAAAAAATC
1 AAAAAGAAAAAATAAAGAAAAAAAAAAAAAAAATC
24366959 TGCAGAACGG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
37 10 0.33
38 1 0.03
39 19 0.63
ACGTcount: A:0.78, C:0.04, G:0.03, T:0.15
Consensus pattern (37 bp):
AAAAAGAAAAAATAAAGAAAAAAAAAAAAAAAATCAT
Found at i:24369292 original size:13 final size:13
Alignment explanation
Indices: 24369274--24369312 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
24369264 AAATACTTTA
*
24369274 AAAATAAGTAAAC
1 AAAATAAATAAAC
*
24369287 AAAATAAATAAAT
1 AAAATAAATAAAC
24369300 AAAATAAAATAAA
1 AAAAT-AAATAAA
24369313 ACCAAAACAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 16 0.70
14 7 0.30
ACGTcount: A:0.77, C:0.03, G:0.03, T:0.18
Consensus pattern (13 bp):
AAAATAAATAAAC
Found at i:24370346 original size:44 final size:44
Alignment explanation
Indices: 24370279--24370410 Score: 160
Period size: 43 Copynumber: 3.0 Consensus size: 44
24370269 AATATAAAAA
* * *
24370279 CTCCTCTAAGCAGAGGCTC-ACAACTTTTGGAAAATATATAAGG
1 CTCCTCTAAACAGAGGCTCTACAACTTTTGAAAAATAAATAAGG
* * * *
24370322 TTCCTTTAAACAGAAGCTCTACAACTTTTGAAAAATAAATAAAG
1 CTCCTCTAAACAGAGGCTCTACAACTTTTGAAAAATAAATAAGG
* * *
24370366 CTCCTCTGAATAGAGGCT-TACAACTTTTGAAAAATACATAAGG
1 CTCCTCTAAACAGAGGCTCTACAACTTTTGAAAAATAAATAAGG
24370409 CT
1 CT
24370411 TTTTTTTTAA
Statistics
Matches: 74, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
43 40 0.54
44 34 0.46
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (44 bp):
CTCCTCTAAACAGAGGCTCTACAACTTTTGAAAAATAAATAAGG
Found at i:24370389 original size:43 final size:42
Alignment explanation
Indices: 24370261--24370406 Score: 143
Period size: 44 Copynumber: 3.4 Consensus size: 42
24370251 TACTCAAACT
* *
24370261 TTTTGAATAATATAA-AAA-CTCCTCTAAGCAGAGGCTCACAAC
1 TTTTGAAAAATA-AATAAAGCTCCTCTAA-CAGAGGCTTACAAC
* * * * * *
24370303 TTTTGGAAAATATATAAGGTTCCTTTAAACAGAAGCTCTACAAC
1 TTTTGAAAAATAAATAAAGCTCCTCT-AACAGAGGCT-TACAAC
*
24370347 TTTTGAAAAATAAATAAAGCTCCTCTGAATAGAGGCTTACAAC
1 TTTTGAAAAATAAATAAAGCTCCTCT-AACAGAGGCTTACAAC
*
24370390 TTTTGAAAAATACATAA
1 TTTTGAAAAATAAATAA
24370407 GGCTTTTTTT
Statistics
Matches: 83, Mismatches: 17, Indels: 7
0.78 0.16 0.07
Matches are distributed among these distances:
41 1 0.01
42 12 0.14
43 34 0.41
44 36 0.43
ACGTcount: A:0.42, C:0.16, G:0.12, T:0.29
Consensus pattern (42 bp):
TTTTGAAAAATAAATAAAGCTCCTCTAACAGAGGCTTACAAC
Found at i:24371504 original size:9 final size:9
Alignment explanation
Indices: 24371476--24371511 Score: 54
Period size: 9 Copynumber: 3.8 Consensus size: 9
24371466 GATTTAAGTT
24371476 TTTTTTTTA
1 TTTTTTTTA
24371485 TTTTTCATTTA
1 TTTTT--TTTA
24371496 TTTTTTTTA
1 TTTTTTTTA
24371505 TTTTTTT
1 TTTTTTT
24371512 AAGCGTAGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 16 0.64
11 9 0.36
ACGTcount: A:0.11, C:0.03, G:0.00, T:0.86
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:24378279 original size:26 final size:27
Alignment explanation
Indices: 24378226--24378286 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
24378216 TTGGGATAAA
* *
24378226 TTTAGAGAAATTTCTCACTTAGAGATTT
1 TTTAGA-AAATTTATCACTTAGAAATTT
*
24378254 TTTAGAAAATTTATCATTTA-AAATTT
1 TTTAGAAAATTTATCACTTAGAAATTT
*
24378280 TTAAGAA
1 TTTAGAA
24378287 TCTCATCATT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 11 0.38
27 12 0.41
28 6 0.21
ACGTcount: A:0.39, C:0.07, G:0.10, T:0.44
Consensus pattern (27 bp):
TTTAGAAAATTTATCACTTAGAAATTT
Found at i:24379199 original size:18 final size:19
Alignment explanation
Indices: 24379171--24379217 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
24379161 CTTTAAATTT
24379171 CAACTTCAAACCTTA-AATC
1 CAAC-TCAAACCTTATAATC
* *
24379190 CAACTCAAACTTTATAGTC
1 CAACTCAAACCTTATAATC
24379209 CAA-TCAAAC
1 CAACTCAAAC
24379218 AATTTCTTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 15 0.60
19 10 0.40
ACGTcount: A:0.43, C:0.30, G:0.02, T:0.26
Consensus pattern (19 bp):
CAACTCAAACCTTATAATC
Found at i:24382476 original size:25 final size:23
Alignment explanation
Indices: 24382443--24382490 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
24382433 ATTATTAATG
*
24382443 TTTTATTTTGTTATATTTTTTTTAA
1 TTTTATTTT-CTA-ATTTTTTTTAA
*
24382468 TTTTCTTTTCTAATTTTTTTTAA
1 TTTTATTTTCTAATTTTTTTTAA
24382491 AATTTAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 11 0.52
24 2 0.10
25 8 0.38
ACGTcount: A:0.19, C:0.04, G:0.02, T:0.75
Consensus pattern (23 bp):
TTTTATTTTCTAATTTTTTTTAA
Found at i:24397827 original size:23 final size:24
Alignment explanation
Indices: 24397781--24397827 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
24397771 TATTTTTATC
*
24397781 AAAAATAACTTTCTCTTTTATTTT
1 AAAAATAACTTTCTCTTCTATTTT
*
24397805 AAAAATAA-TTTCTCTTCTCTTTT
1 AAAAATAACTTTCTCTTCTATTTT
24397828 TTTAAATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 13 0.62
24 8 0.38
ACGTcount: A:0.32, C:0.15, G:0.00, T:0.53
Consensus pattern (24 bp):
AAAAATAACTTTCTCTTCTATTTT
Found at i:24398184 original size:55 final size:55
Alignment explanation
Indices: 24398125--24398235 Score: 152
Period size: 55 Copynumber: 2.0 Consensus size: 55
24398115 TTGAAACATA
* * *
24398125 AAATTAAGATGAGATA-GAATAAGATAATATTATAAATAAAATTAGATTAAATAAT
1 AAATTAAGATAAAATATGAATAA-ATAATATTATAAATAAAATTAGATAAAATAAT
* * *
24398180 AAATTAAGATAAAATATGATTAAATGATATTATAAATAAGATTAGATAAAATAAT
1 AAATTAAGATAAAATATGAATAAATAATATTATAAATAAAATTAGATAAAATAAT
24398235 A
1 A
24398236 TTATTTTATT
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
55 44 0.90
56 5 0.10
ACGTcount: A:0.59, C:0.00, G:0.10, T:0.32
Consensus pattern (55 bp):
AAATTAAGATAAAATATGAATAAATAATATTATAAATAAAATTAGATAAAATAAT
Found at i:24398191 original size:28 final size:28
Alignment explanation
Indices: 24398139--24398239 Score: 95
Period size: 27 Copynumber: 3.7 Consensus size: 28
24398129 TAAGATGAGA
*
24398139 TAGAATAAGATAAT-ATTATAAATAAAAT
1 TAGATTAA-ATAATAATTATAAATAAAAT
*
24398167 TAGATTAAATAATAAATTA-AGATAAAA-
1 TAGATTAAATAAT-AATTATAAATAAAAT
* *
24398194 TATGATTAAATGAT-ATTATAAATAAGAT
1 TA-GATTAAATAATAATTATAAATAAAAT
*
24398222 TAGATAAAATAAT-ATTAT
1 TAGATTAAATAATAATTAT
24398240 TTTATTTTGA
Statistics
Matches: 61, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
26 4 0.07
27 27 0.44
28 26 0.43
29 4 0.07
ACGTcount: A:0.57, C:0.00, G:0.08, T:0.35
Consensus pattern (28 bp):
TAGATTAAATAATAATTATAAATAAAAT
Found at i:24398723 original size:30 final size:30
Alignment explanation
Indices: 24398683--24398765 Score: 98
Period size: 30 Copynumber: 2.7 Consensus size: 30
24398673 TATTATTTTA
* *
24398683 TTATACTCAAATAAATCTTTAATTTTTAAT
1 TTATATTCAAATAAATCTTTAACTTTTAAT
24398713 TTATATTCAAATAAAT-TCTTAACTTTTAAT
1 TTATATTCAAATAAATCT-TTAACTTTTAAT
*
24398743 TTAAACTT-AAATAAATACTTTAA
1 TTATA-TTCAAATAAAT-CTTTAA
24398766 ATAAATCAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
29 1 0.02
30 38 0.83
31 6 0.13
32 1 0.02
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.47
Consensus pattern (30 bp):
TTATATTCAAATAAATCTTTAACTTTTAAT
Found at i:24399121 original size:10 final size:10
Alignment explanation
Indices: 24399106--24399137 Score: 64
Period size: 10 Copynumber: 3.2 Consensus size: 10
24399096 TTGACAACCA
24399106 TGTTCACATT
1 TGTTCACATT
24399116 TGTTCACATT
1 TGTTCACATT
24399126 TGTTCACATT
1 TGTTCACATT
24399136 TG
1 TG
24399138 ATGCAGCAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.19, C:0.19, G:0.12, T:0.50
Consensus pattern (10 bp):
TGTTCACATT
Found at i:24406465 original size:21 final size:21
Alignment explanation
Indices: 24406439--24406480 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
24406429 ATAAACCGAT
*
24406439 CATAACTCATCTCATTAATGC
1 CATAACTCATATCATTAATGC
24406460 CATAACTCATATCATTAATGC
1 CATAACTCATATCATTAATGC
24406481 ATTACAGCGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.36, C:0.26, G:0.05, T:0.33
Consensus pattern (21 bp):
CATAACTCATATCATTAATGC
Found at i:24408380 original size:74 final size:72
Alignment explanation
Indices: 24408301--24408436 Score: 164
Period size: 74 Copynumber: 1.9 Consensus size: 72
24408291 GTATAAAAAT
* * * * * * *
24408301 TACATTTTTTATATTAGAAACATTGTTTTTGTTAAATTTTGAAATATATATTTTTTCATCTTTTC
1 TACATTTTCTATATTAAAAACATCGTCTTTATTAAATTTTAAAAAATAT-TTTTTTCAT-TTTTC
24408366 AATAAAGAC
64 AATAAAGAC
* * *
24408375 TACATTTTCTATCTTAAAAATATCGTCTTTATTGAATTTTAAAAAATATTTTTTTCATTTTT
1 TACATTTTCTATATTAAAAACATCGTCTTTATTAAATTTTAAAAAATATTTTTTTCATTTTT
24408437 ATAACAAAAA
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
72 4 0.08
73 9 0.17
74 39 0.75
ACGTcount: A:0.33, C:0.09, G:0.05, T:0.53
Consensus pattern (72 bp):
TACATTTTCTATATTAAAAACATCGTCTTTATTAAATTTTAAAAAATATTTTTTTCATTTTTCAA
TAAAGAC
Found at i:24408570 original size:114 final size:114
Alignment explanation
Indices: 24408361--24408570 Score: 255
Period size: 114 Copynumber: 1.8 Consensus size: 114
24408351 TTTTTTCATC
* * *
24408361 TTTTCAATAAAGACTACATTTTCTATCTTAAAAATATCGTCTTTATTGAATTTTAAAAAATATTT
1 TTTTCAATAAAGACTACATTTTCTATCTTAAAAACATCGTCTTTATTAAATTCTAAAAAATATTT
* **
24408426 TTTTCATTTTTATAACAAAAATTATGTTTTTATTTTAGAAATATTATTT
66 TTTTCATTTTTATAACAAAAACTACATTTTTATTTTAGAAATATTATTT
* ** * * *
24408475 TTTTCAATAAATACTATGTTTTGTTATCTTAAAAGCAT-GTCTTTATTAAATTCTGAAAAATAAT
1 TTTTCAATAAAGACTACATTTT-CTATCTTAAAAACATCGTCTTTATTAAATTCTAAAAAAT-AT
*
24408539 TTTTTT-ATATTTT-TAACAAAGACTACATTTTT
64 TTTTTTCAT-TTTTATAACAAAAACTACATTTTT
24408571 TTAAAAAAGA
Statistics
Matches: 80, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
114 56 0.70
115 24 0.30
ACGTcount: A:0.36, C:0.09, G:0.05, T:0.50
Consensus pattern (114 bp):
TTTTCAATAAAGACTACATTTTCTATCTTAAAAACATCGTCTTTATTAAATTCTAAAAAATATTT
TTTTCATTTTTATAACAAAAACTACATTTTTATTTTAGAAATATTATTT
Found at i:24408735 original size:11 final size:11
Alignment explanation
Indices: 24408719--24408770 Score: 54
Period size: 11 Copynumber: 4.7 Consensus size: 11
24408709 AATATTCTCT
24408719 AAATCAATATC
1 AAATCAATATC
24408730 AAATCAATAT-
1 AAATCAATATC
* *
24408740 ATAAT-ATTATTT
1 A-AATCAATA-TC
24408752 AAATCAATATC
1 AAATCAATATC
24408763 AAATCAAT
1 AAATCAAT
24408771 TTAGAATATT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
10 4 0.12
11 26 0.76
12 4 0.12
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.35
Consensus pattern (11 bp):
AAATCAATATC
Found at i:24408735 original size:33 final size:33
Alignment explanation
Indices: 24408698--24408781 Score: 114
Period size: 33 Copynumber: 2.5 Consensus size: 33
24408688 ATAATCACCT
* * *
24408698 AATCAATCTCTAATATTCTCTAAATCAATATCA
1 AATCAATATATAATATTATCTAAATCAATATCA
*
24408731 AATCAATATATAATATTATTTAAATCAATATCA
1 AATCAATATATAATATTATCTAAATCAATATCA
* *
24408764 AATCAATTTAGAATATTA
1 AATCAATATATAATATTA
24408782 CTGAAATATT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.38
Consensus pattern (33 bp):
AATCAATATATAATATTATCTAAATCAATATCA
Found at i:24412964 original size:19 final size:19
Alignment explanation
Indices: 24412940--24412976 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
24412930 GAAAGAAAAA
24412940 CAAAAA-AAAAATTGAAGTG
1 CAAAAACAAAAA-TGAAGTG
24412959 CAAAAACAAAAATGAAGT
1 CAAAAACAAAAATGAAGT
24412977 TAGAAATGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.65, C:0.08, G:0.14, T:0.14
Consensus pattern (19 bp):
CAAAAACAAAAATGAAGTG
Found at i:24412988 original size:25 final size:24
Alignment explanation
Indices: 24412930--24412988 Score: 57
Period size: 25 Copynumber: 2.4 Consensus size: 24
24412920 CTTGAATATG
24412930 GAAA-GAAAAACAAAAAAAAAATT
1 GAAATGAAAAACAAAAAAAAAATT
* ** *
24412953 GAAGTGCAAAAACAAAAATGAAGTT
1 GAAATG-AAAAACAAAAAAAAAATT
24412978 AGAAATGAAAA
1 -GAAATGAAAA
24412989 TCAACCAAGG
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
23 3 0.11
24 1 0.04
25 19 0.68
26 5 0.18
ACGTcount: A:0.68, C:0.05, G:0.15, T:0.12
Consensus pattern (24 bp):
GAAATGAAAAACAAAAAAAAAATT
Found at i:24417700 original size:21 final size:21
Alignment explanation
Indices: 24417676--24417728 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
24417666 ATTCAAAAAC
*
24417676 CAATCGATCCTCTATCAATAA
1 CAATCGATCCCCTATCAATAA
24417697 CAATCGATCCCCTATCAATAA
1 CAATCGATCCCCTATCAATAA
24417718 CAATCGATCCC
1 CAATCGATCCC
24417729 TTTGTCCCAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.36, C:0.34, G:0.06, T:0.25
Consensus pattern (21 bp):
CAATCGATCCCCTATCAATAA
Found at i:24422900 original size:16 final size:16
Alignment explanation
Indices: 24422881--24422911 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
24422871 TTGTGATAAC
*
24422881 ATATCTTTAACAATTT
1 ATATCCTTAACAATTT
24422897 ATATCCTTAACAATT
1 ATATCCTTAACAATT
24422912 GGTATGAGCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.16, G:0.00, T:0.45
Consensus pattern (16 bp):
ATATCCTTAACAATTT
Found at i:24427577 original size:12 final size:12
Alignment explanation
Indices: 24427552--24427637 Score: 50
Period size: 12 Copynumber: 7.1 Consensus size: 12
24427542 ATTATAAAAT
24427552 TTTAAATTTTAA
1 TTTAAATTTTAA
* *
24427564 TTTTAATTTAAA
1 TTTAAATTTTAA
* * *
24427576 TTGAATTTTTTTA
1 TTTAA-ATTTTAA
*
24427589 TTTTAATTTTAA
1 TTTAAATTTTAA
*
24427601 TTTTAATTTTTAA
1 -TTTAAATTTTAA
24427614 TATT--ATTTTAA
1 T-TTAAATTTTAA
* *
24427625 TATAATTTTTAA
1 TTTAAATTTTAA
24427637 T
1 T
24427638 ATGTTTAAAT
Statistics
Matches: 53, Mismatches: 16, Indels: 10
0.67 0.20 0.13
Matches are distributed among these distances:
10 1 0.02
11 7 0.13
12 26 0.49
13 19 0.36
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.64
Consensus pattern (12 bp):
TTTAAATTTTAA
Found at i:24427586 original size:25 final size:24
Alignment explanation
Indices: 24427558--24427637 Score: 74
Period size: 25 Copynumber: 3.3 Consensus size: 24
24427548 AAATTTTAAA
24427558 TTTTAATTTTAATTTAAATTGAATT
1 TTTTAATTTTAATTTAAATTGAA-T
* * *
24427583 TTTTTATTTTAATTTTAATTTTAAT
1 TTTTAATTTTAA-TTTAAATTGAAT
* *
24427608 TTTTAATATT-ATTTTAATAT-AAT
1 TTTTAATTTTAATTTAAAT-TGAAT
24427631 TTTTAAT
1 TTTTAAT
24427638 ATGTTTAAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
23 15 0.33
24 2 0.04
25 20 0.43
26 9 0.20
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.65
Consensus pattern (24 bp):
TTTTAATTTTAATTTAAATTGAAT
Found at i:24427593 original size:20 final size:20
Alignment explanation
Indices: 24427564--24427604 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
24427554 TAAATTTTAA
24427564 TTTTAATTTAAATTGAATTT
1 TTTTAATTTAAATTGAATTT
* * *
24427584 TTTTATTTTAATTTTAATTT
1 TTTTAATTTAAATTGAATTT
24427604 T
1 T
24427605 AATTTTTAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.68
Consensus pattern (20 bp):
TTTTAATTTAAATTGAATTT
Found at i:24427614 original size:7 final size:6
Alignment explanation
Indices: 24427549--24427625 Score: 68
Period size: 6 Copynumber: 12.5 Consensus size: 6
24427539 GAAATTATAA
* * *
24427549 AATTTT AAATTTT AATTTT AA-TTT AAATTG AATTTTTT TATTTT AATTTT
1 AATTTT -AATTTT AATTTT AATTTT AATTTT AA--TTTT AATTTT AATTTT
*
24427599 AATTTT AATTTTT AATATT -ATTTT AAT
1 AATTTT AA-TTTT AATTTT AATTTT AAT
24427626 ATAATTTTTA
Statistics
Matches: 58, Mismatches: 7, Indels: 11
0.76 0.09 0.14
Matches are distributed among these distances:
5 9 0.16
6 34 0.59
7 12 0.21
8 3 0.05
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.64
Consensus pattern (6 bp):
AATTTT
Found at i:24427630 original size:23 final size:24
Alignment explanation
Indices: 24427594--24427639 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
24427584 TTTTATTTTA
*
24427594 ATTTTAATTTTAATTTTTAATATT
1 ATTTTAATTATAATTTTTAATATT
24427618 ATTTTAA-TATAATTTTTAATAT
1 ATTTTAATTATAATTTTTAATAT
24427640 GTTTAAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 14 0.67
24 7 0.33
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (24 bp):
ATTTTAATTATAATTTTTAATATT
Found at i:24427638 original size:12 final size:12
Alignment explanation
Indices: 24427604--24427639 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
24427594 ATTTTAATTT
24427604 TAATTTTTAATA
1 TAATTTTTAATA
*
24427616 TTA-TTTTAATA
1 TAATTTTTAATA
24427627 TAATTTTTAATA
1 TAATTTTTAATA
24427639 T
1 T
24427640 GTTTAAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (12 bp):
TAATTTTTAATA
Found at i:24427653 original size:50 final size:50
Alignment explanation
Indices: 24427548--24427653 Score: 110
Period size: 50 Copynumber: 2.1 Consensus size: 50
24427538 TGAAATTATA
* * *
24427548 AAATTTTAAATTTTAATTTTAATTTAAATTGAATTTTTTTATTTTAATTT
1 AAATTTTAAATTTTAATATTAATTTAAATTGAATTTTTATATTTTAATAT
* * *
24427598 TAATTTTAATTTTTAATATT-ATTTTAATAT-AATTTTTAATATGTTTAA-AT
1 AAATTTTAAATTTTAATATTAATTTAAAT-TGAATTTTT-ATAT-TTTAATAT
24427648 AAATTT
1 AAATTT
24427654 AAGTATAAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
49 14 0.30
50 27 0.59
51 5 0.11
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (50 bp):
AAATTTTAAATTTTAATATTAATTTAAATTGAATTTTTATATTTTAATAT
Found at i:24427699 original size:17 final size:19
Alignment explanation
Indices: 24427679--24427720 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
24427669 ATTTTTATTT
24427679 TATAAAAAT-T-TAAAATA
1 TATAAAAATCTATAAAATA
24427696 TATAAAAATCTAATAAAATA
1 TATAAAAATCT-ATAAAATA
24427716 TATAA
1 TATAA
24427721 TTCAATTTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.41
18 1 0.05
20 12 0.55
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
TATAAAAATCTATAAAATA
Found at i:24431624 original size:3 final size:3
Alignment explanation
Indices: 24431616--24431645 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
24431606 AATTTTTAGT
24431616 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
24431646 GCAATGTTCA
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):
ATA
Found at i:24436048 original size:13 final size:11
Alignment explanation
Indices: 24436022--24436055 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 11
24436012 TTAATATTGA
24436022 AATTAATAAAT
1 AATTAATAAAT
24436033 AATTAAGTATAAT
1 AATTAA-TA-AAT
24436046 AATTAATAAA
1 AATTAATAAA
24436056 AATGAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
11 8 0.38
12 4 0.19
13 9 0.43
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (11 bp):
AATTAATAAAT
Found at i:24437267 original size:19 final size:20
Alignment explanation
Indices: 24437243--24437282 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
24437233 TATTTGTTAT
24437243 TTTATAATAAT-AATAATAA
1 TTTATAATAATAAATAATAA
*
24437262 TTTATAATAGTAAATAATAA
1 TTTATAATAATAAATAATAA
24437282 T
1 T
24437283 AAAATGAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (20 bp):
TTTATAATAATAAATAATAA
Found at i:24437542 original size:21 final size:22
Alignment explanation
Indices: 24437483--24437542 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
24437473 AAAGATAACA
24437483 AATAATAAAACAATAATAAATTT
1 AATAATAAAACAA-AATAAATTT
* *
24437506 AATAATAAAA-ATAATAATTTT
1 AATAATAAAACAAAATAAATTT
*
24437527 CATAA-AAAACAAAATA
1 AATAATAAAACAAAATA
24437543 CATGAAAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 4 0.12
21 17 0.53
22 1 0.03
23 10 0.31
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (22 bp):
AATAATAAAACAAAATAAATTT
Found at i:24437701 original size:22 final size:22
Alignment explanation
Indices: 24437673--24437730 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 22
24437663 CTAAAACTTT
* * *
24437673 AAACCTTTTAACTCTAAAATCG
1 AAACCTTTAAACCCTAAAATCA
24437695 AAACCTTTAAACCCTAAAATCA
1 AAACCTTTAAACCCTAAAATCA
*
24437717 AAACC-CTAAACCCT
1 AAACCTTTAAACCCT
24437731 CCAAACCCTA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 8 0.25
22 24 0.75
ACGTcount: A:0.45, C:0.29, G:0.02, T:0.24
Consensus pattern (22 bp):
AAACCTTTAAACCCTAAAATCA
Found at i:24437878 original size:13 final size:13
Alignment explanation
Indices: 24437860--24437893 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
24437850 TTAAGCCCTC
24437860 AAACCCTATGACT
1 AAACCCTATGACT
24437873 AAACCCTATGACT
1 AAACCCTATGACT
24437886 AAACCCTA
1 AAACCCTA
24437894 AAACCCTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.41, C:0.32, G:0.06, T:0.21
Consensus pattern (13 bp):
AAACCCTATGACT
Found at i:24437930 original size:15 final size:15
Alignment explanation
Indices: 24437920--24437949 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
24437910 AACCAAAATC
24437920 CTAAAATCCAAAACT
1 CTAAAATCCAAAACT
24437935 CTAAAATCTCAAAAC
1 CTAAAATC-CAAAAC
24437950 CTTGACCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.53, C:0.27, G:0.00, T:0.20
Consensus pattern (15 bp):
CTAAAATCCAAAACT
Found at i:24440131 original size:52 final size:52
Alignment explanation
Indices: 24440036--24440137 Score: 152
Period size: 52 Copynumber: 2.0 Consensus size: 52
24440026 TATAACCATA
* *
24440036 CAAACTTACCTATTAAGAATCATTTTCTATTTAGAATTTTTCTTCTGCAAGT
1 CAAACTTACCTATTAAGAATCATTTTCTATTTAAAATTCTTCTTCTGCAAGT
* *
24440088 CAAACTTACCTCTTAAGAATCTATTTTCT-TTTAAAATTCTTCTTTTGCAA
1 CAAACTTACCTATTAAGAATC-ATTTTCTATTTAAAATTCTTCTTCTGCAA
24440138 ATCTTTTTGT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
52 38 0.84
53 7 0.16
ACGTcount: A:0.30, C:0.19, G:0.06, T:0.45
Consensus pattern (52 bp):
CAAACTTACCTATTAAGAATCATTTTCTATTTAAAATTCTTCTTCTGCAAGT
Found at i:24441976 original size:27 final size:26
Alignment explanation
Indices: 24441941--24441995 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 26
24441931 GATATACAAG
24441941 ATTATAATAAGA-TAAGATAAAATAAT
1 ATTATAATAAGATTAA-ATAAAATAAT
*
24441967 ATTATAAATAAGATTAAATTAAATAAT
1 ATTAT-AATAAGATTAAATAAAATAAT
24441994 AT
1 AT
24441996 AATTTTATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 5 0.19
27 18 0.69
28 3 0.12
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (26 bp):
ATTATAATAAGATTAAATAAAATAAT
Found at i:24453697 original size:29 final size:29
Alignment explanation
Indices: 24453654--24453711 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
24453644 AACAGATGCA
*
24453654 AAGTTATCTACCAACCGATCCAAATTGGC
1 AAGTAATCTACCAACCGATCCAAATTGGC
* * * *
24453683 AAGTAATCTATCAACTGTTCCAACTTGGC
1 AAGTAATCTACCAACCGATCCAAATTGGC
24453712 GTATCCCTAC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.28
Consensus pattern (29 bp):
AAGTAATCTACCAACCGATCCAAATTGGC
Found at i:24456913 original size:11 final size:11
Alignment explanation
Indices: 24456897--24456938 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
24456887 AATCGCATAA
24456897 GAGATTTGTTT
1 GAGATTTGTTT
*
24456908 GAGATTTGTTA
1 GAGATTTGTTT
*
24456919 GAGATTTATTT
1 GAGATTTGTTT
*
24456930 GGGATTTGT
1 GAGATTTGT
24456939 CAGATATTGC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.50
Consensus pattern (11 bp):
GAGATTTGTTT
Found at i:24456924 original size:22 final size:22
Alignment explanation
Indices: 24456896--24456938 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
24456886 AAATCGCATA
*
24456896 AGAGATTTGTTTGAGATTTGTT
1 AGAGATTTATTTGAGATTTGTT
*
24456918 AGAGATTTATTTGGGATTTGT
1 AGAGATTTATTTGAGATTTGT
24456939 CAGATATTGC
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:0.23, C:0.00, G:0.28, T:0.49
Consensus pattern (22 bp):
AGAGATTTATTTGAGATTTGTT
Found at i:24457088 original size:52 final size:53
Alignment explanation
Indices: 24456978--24457118 Score: 153
Period size: 52 Copynumber: 2.7 Consensus size: 53
24456968 GAAAAAAAAG
* * * * *
24456978 AATTCCAAAA-AAAAAGGATTCTTAATAGGTAAGTTTGACTTGCAAGATAAGA
1 AATTCTAAAAGAAAAGGGATTCTTAATAGGCAAGTTTGACTTACAAGAGAAGA
* * *
24457030 AA-TCTAAAAGAAAAGGGATTCTTAATAAGCAAGTTTGACTTATATGAGAA-A
1 AATTCTAAAAGAAAAGGGATTCTTAATAGGCAAGTTTGACTTACAAGAGAAGA
* * * *
24457081 AATTCTAAGAGGAGAGGGATTCTTAATGGGCAAGTTTG
1 AATTCTAAAAGAAAAGGGATTCTTAATAGGCAAGTTTG
24457119 TATGGTTATA
Statistics
Matches: 74, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
51 9 0.12
52 65 0.88
ACGTcount: A:0.43, C:0.09, G:0.21, T:0.28
Consensus pattern (53 bp):
AATTCTAAAAGAAAAGGGATTCTTAATAGGCAAGTTTGACTTACAAGAGAAGA
Found at i:24457702 original size:25 final size:25
Alignment explanation
Indices: 24457674--24457750 Score: 68
Period size: 25 Copynumber: 3.0 Consensus size: 25
24457664 AAAACGTAAG
24457674 AAGAGTTGAAGATTCAAGATGTGGA
1 AAGAGTTGAAGATTCAAGATGTGGA
** * *
24457699 AAGAGCCGAAGGTTCGAA-AGGT-GA
1 AAGAGTTGAAGATTC-AAGATGTGGA
*
24457723 GAAGAGTTAAAGATTCAAGATGTAGGA
1 -AAGAGTTGAAGATTCAAGATGT-GGA
24457750 A
1 A
24457751 GAGCCAATGG
Statistics
Matches: 38, Mismatches: 9, Indels: 9
0.68 0.16 0.16
Matches are distributed among these distances:
24 4 0.11
25 29 0.76
26 3 0.08
27 2 0.05
ACGTcount: A:0.42, C:0.06, G:0.32, T:0.19
Consensus pattern (25 bp):
AAGAGTTGAAGATTCAAGATGTGGA
Found at i:24457777 original size:50 final size:49
Alignment explanation
Indices: 24457673--24457825 Score: 134
Period size: 50 Copynumber: 3.1 Consensus size: 49
24457663 CAAAACGTAA
* * * ** *
24457673 GAAGAGTTGAAGATTCAAGATGTGGAAAGAGCCGAA-GGTTCGAAAGGTGA
1 GAAGAGTTAAAGATTCAAGATGTGG-AAGAGCC-AATGGTTTGAGACATGG
24457723 GAAGAGTTAAAGATTCAAGATGTAGGAAGAGCCAATGGTTTGAGACATGG
1 GAAGAGTTAAAGATTCAAGATGT-GGAAGAGCCAATGGTTTGAGACATGG
* * * * *
24457773 GAAGAGTTGACAG-TTCGAGATATGGGAAGAG-C-TTGGTTTGAGATATGG
1 GAAGAGTT-AAAGATTCAAGATGT-GGAAGAGCCAATGGTTTGAGACATGG
24457821 GAAGA
1 GAAGA
24457826 AGTAAGTCCA
Statistics
Matches: 88, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
48 19 0.22
49 3 0.03
50 61 0.69
51 5 0.06
ACGTcount: A:0.36, C:0.07, G:0.35, T:0.22
Consensus pattern (49 bp):
GAAGAGTTAAAGATTCAAGATGTGGAAGAGCCAATGGTTTGAGACATGG
Found at i:24457819 original size:23 final size:22
Alignment explanation
Indices: 24457758--24457825 Score: 82
Period size: 23 Copynumber: 2.9 Consensus size: 22
24457748 GAAGAGCCAA
*
24457758 TGGTTTGAGACATGGGAAGAGT
1 TGGTTTGAGATATGGGAAGAGT
*
24457780 TGACAGTTCGAGATATGGGAAGAGCT
1 TG---GTTTGAGATATGGGAAGAG-T
24457806 TGGTTTGAGATATGGGAAGA
1 TGGTTTGAGATATGGGAAGA
24457826 AGTAAGTCCA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
22 2 0.05
23 17 0.44
25 17 0.44
26 3 0.08
ACGTcount: A:0.29, C:0.06, G:0.38, T:0.26
Consensus pattern (22 bp):
TGGTTTGAGATATGGGAAGAGT
Found at i:24458059 original size:11 final size:11
Alignment explanation
Indices: 24458043--24458074 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
24458033 AATCCCATAA
24458043 GAGATTTGTTT
1 GAGATTTGTTT
24458054 GAGATTTGTTT
1 GAGATTTGTTT
*
24458065 GGGATTTGTT
1 GAGATTTGTT
24458075 AGATATTGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.16, C:0.00, G:0.31, T:0.53
Consensus pattern (11 bp):
GAGATTTGTTT
Found at i:24458178 original size:52 final size:53
Alignment explanation
Indices: 24458110--24458253 Score: 188
Period size: 52 Copynumber: 2.8 Consensus size: 53
24458100 CTTGAAAAAA
* * *
24458110 AAGAATTCCAAGAGAAAGA-GGATTCTTAATAGGTAAGTTTGACTTGCAAGAG
1 AAGAATTCTAAGAGAAAGAGGGATTCTTAATAGGCAAGTTTGACTTACAAGAG
* * *
24458162 AAGAATTCTAAAAGAAA-AGGGATTCTTAATAGGCAAGTTTGACTTATATGAG
1 AAGAATTCTAAGAGAAAGAGGGATTCTTAATAGGCAAGTTTGACTTACAAGAG
* *
24458214 AA-AATTCTAAGAG-GAGAGGGATTCTTAATGGGCAAGTTTG
1 AAGAATTCTAAGAGAAAGAGGGATTCTTAATAGGCAAGTTTG
24458254 TATGGTTATA
Statistics
Matches: 81, Mismatches: 9, Indels: 5
0.85 0.09 0.05
Matches are distributed among these distances:
50 1 0.01
51 34 0.42
52 46 0.57
ACGTcount: A:0.40, C:0.08, G:0.25, T:0.27
Consensus pattern (53 bp):
AAGAATTCTAAGAGAAAGAGGGATTCTTAATAGGCAAGTTTGACTTACAAGAG
Found at i:24476108 original size:17 final size:17
Alignment explanation
Indices: 24476086--24476121 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
24476076 AAGTGGTATC
24476086 AGAGAGAAGAAAAGACA
1 AGAGAGAAGAAAAGACA
*
24476103 AGAGAGAAGAAGAGACA
1 AGAGAGAAGAAAAGACA
24476120 AG
1 AG
24476122 TCCAATAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.61, C:0.06, G:0.33, T:0.00
Consensus pattern (17 bp):
AGAGAGAAGAAAAGACA
Found at i:24483882 original size:26 final size:26
Alignment explanation
Indices: 24483841--24483890 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
24483831 CACTTTTGGA
* * *
24483841 AAAAATTTTTAGAAAATTTATCATCT
1 AAAAATTTTAAAAAAATTCATCATCT
24483867 AAAAATTTTAAAAAAATTCATCAT
1 AAAAATTTTAAAAAAATTCATCAT
24483891 TTATAATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.52, C:0.08, G:0.02, T:0.38
Consensus pattern (26 bp):
AAAAATTTTAAAAAAATTCATCATCT
Found at i:24490117 original size:15 final size:15
Alignment explanation
Indices: 24490087--24490128 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
24490077 TATTTTTATA
*
24490087 TTTATAT-TTAATTT
1 TTTATATATTAAATT
24490101 TTTATATATTAAATT
1 TTTATATATTAAATT
*
24490116 TTTA-AAATTAAAT
1 TTTATATATTAAAT
24490129 AAAAATAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 15 0.60
15 10 0.40
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TTTATATATTAAATT
Found at i:24490251 original size:31 final size:31
Alignment explanation
Indices: 24490213--24490279 Score: 125
Period size: 31 Copynumber: 2.2 Consensus size: 31
24490203 ATTCATGTTT
24490213 AGCTTTCAATTCGAATCGAGCCAATTCTGTG
1 AGCTTTCAATTCGAATCGAGCCAATTCTGTG
24490244 AGCTTTCAATTCGAATCGAGCCAATTCTGTG
1 AGCTTTCAATTCGAATCGAGCCAATTCTGTG
*
24490275 GGCTT
1 AGCTT
24490280 ATAGACAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (31 bp):
AGCTTTCAATTCGAATCGAGCCAATTCTGTG
Found at i:24490578 original size:26 final size:26
Alignment explanation
Indices: 24490548--24490598 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
24490538 TAATTTAATA
*
24490548 ATTAAAATTTATAATCATTTTCTTAT
1 ATTAAAATTTATAACCATTTTCTTAT
24490574 ATTAAAATTTATAACCATTTTCTTA
1 ATTAAAATTTATAACCATTTTCTTA
24490599 CTTTATAACT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.51
Consensus pattern (26 bp):
ATTAAAATTTATAACCATTTTCTTAT
Found at i:24492635 original size:30 final size:30
Alignment explanation
Indices: 24492600--24492668 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 30
24492590 ATTTAAGATG
24492600 AAAATTTTTTGAATTTTCAAAATCTTACAT
1 AAAATTTTTTGAATTTTCAAAATCTTACAT
* * * *
24492630 AAAATTTTTTGAATTTTTAAATTTTTACGT
1 AAAATTTTTTGAATTTTCAAAATCTTACAT
24492660 -AAATTTTTT
1 AAAATTTTTT
24492669 AAAAAGATAT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
29 9 0.26
30 26 0.74
ACGTcount: A:0.36, C:0.06, G:0.04, T:0.54
Consensus pattern (30 bp):
AAAATTTTTTGAATTTTCAAAATCTTACAT
Found at i:24492917 original size:17 final size:17
Alignment explanation
Indices: 24492895--24492927 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
24492885 TTTAATTATA
*
24492895 ATTTGAATAATTTTAAT
1 ATTTGAATAAATTTAAT
24492912 ATTTGAATAAATTTAA
1 ATTTGAATAAATTTAA
24492928 AATTATCTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (17 bp):
ATTTGAATAAATTTAAT
Found at i:24493037 original size:2 final size:2
Alignment explanation
Indices: 24493026--24493069 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
24493016 TGTATGTTGT
24493026 TA TA -A 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
24493067 TA T
1 TA T
24493070 TAGATTTGAA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:24494966 original size:34 final size:34
Alignment explanation
Indices: 24494895--24494983 Score: 99
Period size: 33 Copynumber: 2.6 Consensus size: 34
24494885 TTTTTATCAT
* *
24494895 AAAATACCGTTAAATTTAGCAGCGTTTATAGTAA
1 AAAATACCGCTAAATTTAGCAGCATTTATAGTAA
**
24494929 AAAATACC-CTAAATTTAGTTGCATTTATAGTAA
1 AAAATACCGCTAAATTTAGCAGCATTTATAGTAA
* * *
24494962 AAAAAACTGCTATATTTTAGCA
1 AAAATACCGCTA-AATTTAGCA
24494984 TTTAGCGACG
Statistics
Matches: 44, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
33 27 0.61
34 11 0.25
35 6 0.14
ACGTcount: A:0.43, C:0.12, G:0.11, T:0.34
Consensus pattern (34 bp):
AAAATACCGCTAAATTTAGCAGCATTTATAGTAA
Found at i:24496492 original size:60 final size:60
Alignment explanation
Indices: 24496413--24496540 Score: 186
Period size: 60 Copynumber: 2.1 Consensus size: 60
24496403 TGCCTTTAAA
* * * *
24496413 ATCAAAAACGCTTTTAATAA-TCTCTTTCAATTTTTTTTTGGATTATTCAAGGTGTTTCTG
1 ATCAAAAACGCATTAAATAATTCCCTTTC-ATTTTTTTTTGGATTATTCAAGATGTTTCTG
* *
24496473 ATCAAAAACGCATTAAATAATTCCCTTTCATTTTTTTTTGGATTATTCAAGATGTTTTTT
1 ATCAAAAACGCATTAAATAATTCCCTTTCATTTTTTTTTGGATTATTCAAGATGTTTCTG
24496533 ATCAAAAA
1 ATCAAAAA
24496541 TATTTTCAGT
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
60 54 0.89
61 7 0.11
ACGTcount: A:0.31, C:0.13, G:0.09, T:0.46
Consensus pattern (60 bp):
ATCAAAAACGCATTAAATAATTCCCTTTCATTTTTTTTTGGATTATTCAAGATGTTTCTG
Found at i:24501946 original size:13 final size:13
Alignment explanation
Indices: 24501928--24501953 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
24501918 CAAGGATCAT
24501928 ATGATAGATACAA
1 ATGATAGATACAA
24501941 ATGATAGATACAA
1 ATGATAGATACAA
24501954 GTTTGTTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.08, G:0.15, T:0.23
Consensus pattern (13 bp):
ATGATAGATACAA
Found at i:24503756 original size:14 final size:14
Alignment explanation
Indices: 24503737--24503763 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
24503727 TTTGAACTCT
24503737 TAATTTAATTTATA
1 TAATTTAATTTATA
24503751 TAATTTAATTTAT
1 TAATTTAATTTAT
24503764 TATAGCTACA
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:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TAATTTAATTTATA
Found at i:24504130 original size:6 final size:7
Alignment explanation
Indices: 24504114--24504139 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
24504104 CTTAAAACAC
24504114 AAAAAGA
1 AAAAAGA
24504121 AAAAAGA
1 AAAAAGA
24504128 AAAAAGA
1 AAAAAGA
24504135 AAAAA
1 AAAAA
24504140 ACCCTCTCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:24505821 original size:2 final size:2
Alignment explanation
Indices: 24505816--24505845 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
24505806 ATCTACCATC
*
24505816 AT AT AT AA 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
24505846 TACAATATAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:24509756 original size:2 final size:2
Alignment explanation
Indices: 24509749--24509773 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
24509739 AAGACAATTT
24509749 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
24509774 AGTGAAAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:24511077 original size:21 final size:21
Alignment explanation
Indices: 24511034--24511082 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
24511024 TTTGATGTAT
* *
24511034 TATTAATATATAAATTTTATA
1 TATTATTATATAAATTATATA
24511055 TATTATTA-ATAAATTATATTA
1 TATTATTATATAAATTATA-TA
24511076 TATTATT
1 TATTATT
24511083 TTATTAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 9 0.36
21 16 0.64
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
TATTATTATATAAATTATATA
Found at i:24511079 original size:18 final size:20
Alignment explanation
Indices: 24511043--24511082 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
24511033 TTATTAATAT
*
24511043 ATAAATTTTATATATTATTA
1 ATAAATTATATATATTATTA
24511063 ATAAATTATATTATATTATT
1 ATAAATTATA-TATATTATT
24511083 TTATTAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
ATAAATTATATATATTATTA
Found at i:24511082 original size:24 final size:24
Alignment explanation
Indices: 24511031--24511103 Score: 76
Period size: 24 Copynumber: 3.0 Consensus size: 24
24511021 ATATTTGATG
* *
24511031 TATTATTAATATATAAATTTTATA
1 TATTATTAATAAATAAATTATATA
*
24511055 TATTATTAATAAATTATATTATATTA
1 TATTATTAATAAA-TAAATTATA-TA
* *
24511081 TTTTATTAAAAAATAAA-TATATA
1 TATTATTAATAAATAAATTATATA
24511104 AAAATTTATT
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
23 2 0.05
24 16 0.39
25 10 0.24
26 13 0.32
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (24 bp):
TATTATTAATAAATAAATTATATA
Found at i:24518503 original size:224 final size:224
Alignment explanation
Indices: 24518113--24518561 Score: 738
Period size: 224 Copynumber: 2.0 Consensus size: 224
24518103 TGTTCATCTG
* *
24518113 TCTAACTAATTGTTGTATTTCTTGCCAATATATTATTGAGTATTTATTATTTTTTATTGATTTGT
1 TCTAACTAATTGTTGTATTTCTTGCCAATATATTATTGAGTACTTATTATTTTTTATTGATATGT
* * * *
24518178 TGATAAATGACTACTCTGAGACATCGGTCCGGAACTCATGGTTTATTAGTTGGATGCTGCATATT
66 TGATAAATGACTACTCTGAGACATCAGTCAGGAACTCATGATTTATTAGTTGGACGCTGCATATT
* * *
24518243 GTTTTTTTTACATGGGAATTGGATTCTTTTCCTGAAGGCGTATTGCATATTGACCTTGTAGCTTA
131 GTTTTTTCTACATGGGAATTGGATTCTTTTCCTGAAGGCATATTGCATATCGACCTTGTAGCTTA
24518308 GTGCCCT-ATGAGAGCCTTTATGGGTTGCT
196 GTGCCCTGA-GAGAGCCTTTATGGGTTGCT
* * *
24518337 TCTAACTAGTTGTTGTATTTCTTGCTAATATATTATTGAGTACTTATTATTTTTTATTGGTATGT
1 TCTAACTAATTGTTGTATTTCTTGCCAATATATTATTGAGTACTTATTATTTTTTATTGATATGT
* * *
24518402 TGATAAATGACTACTCTGAGACATTAGTCAGGAACTCGTGATTTATTAGTTGGACGTTGCATATT
66 TGATAAATGACTACTCTGAGACATCAGTCAGGAACTCATGATTTATTAGTTGGACGCTGCATATT
*
24518467 GTTTTTTCTACATGGGAATTGGATTCTTTTCCTGAAGGCATATTGTATATCGACCTTGTAGCTTA
131 GTTTTTTCTACATGGGAATTGGATTCTTTTCCTGAAGGCATATTGCATATCGACCTTGTAGCTTA
24518532 GTGCCCTGAGAGAGCCTTTATGGGTTGCT
196 GTGCCCTGAGAGAGCCTTTATGGGTTGCT
24518561 T
1 T
24518562 TATTGCAGAA
Statistics
Matches: 208, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
224 207 1.00
225 1 0.00
ACGTcount: A:0.23, C:0.14, G:0.20, T:0.43
Consensus pattern (224 bp):
TCTAACTAATTGTTGTATTTCTTGCCAATATATTATTGAGTACTTATTATTTTTTATTGATATGT
TGATAAATGACTACTCTGAGACATCAGTCAGGAACTCATGATTTATTAGTTGGACGCTGCATATT
GTTTTTTCTACATGGGAATTGGATTCTTTTCCTGAAGGCATATTGCATATCGACCTTGTAGCTTA
GTGCCCTGAGAGAGCCTTTATGGGTTGCT
Found at i:24518901 original size:3 final size:3
Alignment explanation
Indices: 24518893--24519017 Score: 124
Period size: 3 Copynumber: 41.7 Consensus size: 3
24518883 GAGGCATGCT
* * * *
24518893 CAG CAG CAG CAA CAG CAA CAG CAG CAG CAG CAG CAG CAG CAG CAA CAA
1 CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG
* * * * *
24518941 CAA CAG CAG CAG CAG CAG CAA CAA CAG CAG CAG CAG CAG CAA CAG CAA
1 CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG
* * ** *
24518989 CAA CAG CAG CCG CCC CAG CAG CCG CAG CA
1 CAG CAG CAG CAG CAG CAG CAG CAG CAG CA
24519018 ACCCCAACAG
Statistics
Matches: 104, Mismatches: 18, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 104 1.00
ACGTcount: A:0.39, C:0.37, G:0.24, T:0.00
Consensus pattern (3 bp):
CAG
Found at i:24519019 original size:27 final size:27
Alignment explanation
Indices: 24518893--24519019 Score: 164
Period size: 27 Copynumber: 4.7 Consensus size: 27
24518883 GAGGCATGCT
*
24518893 CAGCAGCAGCAACAGCAACAGCAGCAG
1 CAGCAGCAGCAGCAGCAACAGCAGCAG
* *
24518920 CAGCAGCAGCAGCAGCAACAACAACAG
1 CAGCAGCAGCAGCAGCAACAGCAGCAG
*
24518947 CAGCAGCAGCAGCAACAACAGCAGCAG
1 CAGCAGCAGCAGCAGCAACAGCAGCAG
* * *
24518974 CAGCAGCAACAGCAACAACAGCAGCCG
1 CAGCAGCAGCAGCAGCAACAGCAGCAG
** *
24519001 CCCCAGCAGCCGCAGCAAC
1 CAGCAGCAGCAGCAGCAAC
24519020 CCCAACAGCG
Statistics
Matches: 87, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 87 1.00
ACGTcount: A:0.39, C:0.37, G:0.24, T:0.00
Consensus pattern (27 bp):
CAGCAGCAGCAGCAGCAACAGCAGCAG
Found at i:24530541 original size:15 final size:16
Alignment explanation
Indices: 24530521--24530550 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
24530511 ATTTTCTTAT
24530521 AATTTATC-CAATGAA
1 AATTTATCTCAATGAA
24530536 AATTTATCTCAATGA
1 AATTTATCTCAATGA
24530551 TTTATTAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.43, C:0.13, G:0.07, T:0.37
Consensus pattern (16 bp):
AATTTATCTCAATGAA
Found at i:24537484 original size:247 final size:246
Alignment explanation
Indices: 24537005--24537500 Score: 728
Period size: 247 Copynumber: 2.0 Consensus size: 246
24536995 CGATTTCTTG
* * * *
24537005 TATCAGGCCATATAAATAAGATAGGAACAAAGAAGATTATTGTAACCTATAACCACGACTTTGAT
1 TATCAGGCCACATAAAGAAGATAGGAACAAAGAAGATAATTGCAACCTATAACCACGACTTTGAT
* * * * *
24537070 CGAATTTGAAAATAAATAGGTGCTAGTAAAAGGGACTATTAAATTGTCAATCTTCTTGTGAACAT
66 CAAATTTAAAAATAAATAGGTGCTAGTAAAAGGGACTATTAAATTGTCAATCTCCTTATGAACAG
* * * * *
24537135 AACCAATGATAGTTACATCAGTCATAGAATTCATGGTCATAAATGTCCTATTTGTCTATAATATG
131 AACCAATGATAGTTACATCAGTCATAGAAGTCATGGTCATAAATGTCCCATTTGCCTACAACATG
24537200 ATATTAGGTCAACCTAGTTAGTTTGTTATTCAACTCATAGGCTCAACTCCA
196 ATATTAGGTCAACCTAGTTAGTTTGTTATTCAACTCATAGGCTCAACTCCA
* * * *
24537251 TATCATGCCACATAAAGAAGATGGGAAC-AAGAAAGATCAATTGCAACCTATCACCATGACTTTG
1 TATCAGGCCACATAAAGAAGATAGGAACAAAG-AAGAT-AATTGCAACCTATAACCACGACTTTG
* * * *
24537315 ATTAAATTTAAAAATAAGTAGGTGCTAGTCAAAGGGATTATTAAATTGTCAATCTCCTTATGAAC
64 ATCAAATTTAAAAATAAATAGGTGCTAGTAAAAGGGACTATTAAATTGTCAATCTCCTTATGAAC
24537380 AGAACCAA-GAATAGTTACATC-GATCATAGAAGTCATGGTCATAAATGTCCCATTTGCCTACAA
129 AGAACCAATG-ATAGTTACATCAG-TCATAGAAGTCATGGTCATAAATGTCCCATTTGCCTACAA
*
24537443 CATGATATTAGGTCAACCTAGTTAGTTTGTTATTCAACTCATAGGCTCAACTCTA
192 CATGATATTAGGTCAACCTAGTTAGTTTGTTATTCAACTCATAGGCTCAACTCCA
24537498 TAT
1 TAT
24537501 TTGAATGTAA
Statistics
Matches: 223, Mismatches: 23, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
245 3 0.01
246 31 0.14
247 189 0.85
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.31
Consensus pattern (246 bp):
TATCAGGCCACATAAAGAAGATAGGAACAAAGAAGATAATTGCAACCTATAACCACGACTTTGAT
CAAATTTAAAAATAAATAGGTGCTAGTAAAAGGGACTATTAAATTGTCAATCTCCTTATGAACAG
AACCAATGATAGTTACATCAGTCATAGAAGTCATGGTCATAAATGTCCCATTTGCCTACAACATG
ATATTAGGTCAACCTAGTTAGTTTGTTATTCAACTCATAGGCTCAACTCCA
Found at i:24539950 original size:21 final size:22
Alignment explanation
Indices: 24539924--24539966 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
24539914 AGCTTTAAAC
* *
24539924 AATGAAAGAGGGAAATC-TGAA
1 AATGAAAAAGAGAAATCATGAA
24539945 AATGAAAAAGAGAAATCATGAA
1 AATGAAAAAGAGAAATCATGAA
24539967 GCAGTTTATG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.58, C:0.05, G:0.23, T:0.14
Consensus pattern (22 bp):
AATGAAAAAGAGAAATCATGAA
Found at i:24541100 original size:2 final size:2
Alignment explanation
Indices: 24541095--24541143 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
24541085 ATATATATAT
24541095 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
24541137 AG AG AG A
1 AG AG AG A
24541144 AGGCAATCTC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:24560268 original size:10 final size:9
Alignment explanation
Indices: 24560245--24560291 Score: 60
Period size: 9 Copynumber: 5.2 Consensus size: 9
24560235 AAAAATAATA
24560245 TTAAAAAA-
1 TTAAAAAAT
*
24560253 ATAAAAAAT
1 TTAAAAAAT
*
24560262 TCAAAAAATT
1 TTAAAAAA-T
24560272 TTAAAAAAT
1 TTAAAAAAT
24560281 TTAAAAAAT
1 TTAAAAAAT
24560290 TT
1 TT
24560292 TTACTTGAAC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
8 7 0.21
9 18 0.55
10 8 0.24
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (9 bp):
TTAAAAAAT
Found at i:24560289 original size:19 final size:19
Alignment explanation
Indices: 24560254--24560292 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
24560244 ATTAAAAAAA
24560254 TAAAAAATTCAAAAAATTT
1 TAAAAAATTCAAAAAATTT
*
24560273 TAAAAAATTTAAAAAATTT
1 TAAAAAATTCAAAAAATTT
24560292 T
1 T
24560293 TACTTGAACC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (19 bp):
TAAAAAATTCAAAAAATTT
Found at i:24561261 original size:22 final size:22
Alignment explanation
Indices: 24561218--24561264 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
24561208 AGATGACAGA
24561218 AAAAGTAAAAAATAAAAAAAAT
1 AAAAGTAAAAAATAAAAAAAAT
* *
24561240 AAAAG-AAATAATAATAATAAAT
1 AAAAGTAAAAAATAA-AAAAAAT
24561262 AAA
1 AAA
24561265 TAAAACAGTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.17
Consensus pattern (22 bp):
AAAAGTAAAAAATAAAAAAAAT
Found at i:24563631 original size:17 final size:17
Alignment explanation
Indices: 24563609--24563641 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
24563599 TGAAAATGCA
24563609 TAATAA-TAAAATAAAAC
1 TAATAATTAAAA-AAAAC
24563626 TAATAATTAAAAAAAA
1 TAATAATTAAAAAAAA
24563642 AAAAAAAAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (17 bp):
TAATAATTAAAAAAAAC
Found at i:24574734 original size:2 final size:2
Alignment explanation
Indices: 24574729--24574763 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
24574719 GGGTTTTTTT
24574729 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
24574764 GTTTGATTCG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:24576792 original size:2 final size:2
Alignment explanation
Indices: 24576785--24576816 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
24576775 CAATACGGAA
24576785 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
24576817 GAGGGGAATG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:24577539 original size:100 final size:100
Alignment explanation
Indices: 24577393--24577592 Score: 391
Period size: 100 Copynumber: 2.0 Consensus size: 100
24577383 TGTAAATGTT
*
24577393 AATGATATGACAGTCGATGTGGTAGCTGAAATATAAAAAAAAAATTGAAAAAAAAATTATACCAA
1 AATGACATGACAGTCGATGTGGTAGCTGAAATATAAAAAAAAAATTGAAAAAAAAATTATACCAA
24577458 AAAGAATGTTAATTTCCCTCTTTAACACAATAAAC
66 AAAGAATGTTAATTTCCCTCTTTAACACAATAAAC
24577493 AATGACATGACAGTCGATGTGGTAGCTGAAATATAAAAAAAAAATTGAAAAAAAAATTATACCAA
1 AATGACATGACAGTCGATGTGGTAGCTGAAATATAAAAAAAAAATTGAAAAAAAAATTATACCAA
24577558 AAAGAATGTTAATTTCCCTCTTTAACACAATAAAC
66 AAAGAATGTTAATTTCCCTCTTTAACACAATAAAC
24577593 TTTTTCCTTT
Statistics
Matches: 99, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
100 99 1.00
ACGTcount: A:0.50, C:0.12, G:0.12, T:0.26
Consensus pattern (100 bp):
AATGACATGACAGTCGATGTGGTAGCTGAAATATAAAAAAAAAATTGAAAAAAAAATTATACCAA
AAAGAATGTTAATTTCCCTCTTTAACACAATAAAC
Found at i:24577645 original size:52 final size:52
Alignment explanation
Indices: 24577562--24577667 Score: 194
Period size: 52 Copynumber: 2.0 Consensus size: 52
24577552 TACCAAAAAG
*
24577562 AATGTTAATTTCCCTCTTTAACACAATAAACTTTTTCCTTTTTGGTGGAACT
1 AATGTTAATTTCCCTCTTTAACACAACAAACTTTTTCCTTTTTGGTGGAACT
*
24577614 AATGTTAATTTCCCTCTTTAACACAGCAAACTTTTTCCTTTTTGGTGGAACT
1 AATGTTAATTTCCCTCTTTAACACAACAAACTTTTTCCTTTTTGGTGGAACT
24577666 AA
1 AA
24577668 CGCATGTACT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.27, C:0.20, G:0.10, T:0.42
Consensus pattern (52 bp):
AATGTTAATTTCCCTCTTTAACACAACAAACTTTTTCCTTTTTGGTGGAACT
Found at i:24591222 original size:10 final size:10
Alignment explanation
Indices: 24591209--24591250 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
24591199 GAAAAGACGC
*
24591209 AAAAATGAAA
1 AAAAAGGAAA
24591219 AAAAAGGAAA
1 AAAAAGGAAA
*
24591229 AAATA-GAAA
1 AAAAAGGAAA
24591238 AGAAAAGGAAA
1 A-AAAAGGAAA
24591249 AA
1 AA
24591251 CTTAGCTGTG
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
9 5 0.19
10 17 0.63
11 5 0.19
ACGTcount: A:0.79, C:0.00, G:0.17, T:0.05
Consensus pattern (10 bp):
AAAAAGGAAA
Found at i:24591243 original size:20 final size:18
Alignment explanation
Indices: 24591209--24591250 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 18
24591199 GAAAAGACGC
24591209 AAAAATGAAAAAAAAGGA
1 AAAAATGAAAAAAAAGGA
24591227 AAAAATAGAAAAGAAAAGGA
1 AAAAAT-GAAAA-AAAAGGA
24591247 AAAA
1 AAAA
24591251 CTTAGCTGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 6 0.27
19 5 0.23
20 11 0.50
ACGTcount: A:0.79, C:0.00, G:0.17, T:0.05
Consensus pattern (18 bp):
AAAAATGAAAAAAAAGGA
Found at i:24599352 original size:19 final size:19
Alignment explanation
Indices: 24599328--24599366 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
24599318 GTCAGGGGCA
24599328 TCGACTAGCATGAGAAGAT
1 TCGACTAGCATGAGAAGAT
* * *
24599347 TCGACTGGTATGAGGAGAT
1 TCGACTAGCATGAGAAGAT
24599366 T
1 T
24599367 TGTGGAGTAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.31, C:0.13, G:0.31, T:0.26
Consensus pattern (19 bp):
TCGACTAGCATGAGAAGAT
Found at i:24602961 original size:30 final size:29
Alignment explanation
Indices: 24602906--24602970 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
24602896 ACAACCACAT
*
24602906 CACCCAGAGTGACCACAGCGTAGCCATAC
1 CACCCAGACTGACCACAGCGTAGCCATAC
* *
24602935 CACCTAGACTGACTACAGCAGTAGCCA-AGC
1 CACCCAGACTGACCACAGC-GTAGCCATA-C
24602965 CACCCA
1 CACCCA
24602971 CAATGATCAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 17 0.57
30 13 0.43
ACGTcount: A:0.32, C:0.38, G:0.18, T:0.11
Consensus pattern (29 bp):
CACCCAGACTGACCACAGCGTAGCCATAC
Found at i:24603039 original size:30 final size:30
Alignment explanation
Indices: 24602956--24603067 Score: 134
Period size: 30 Copynumber: 3.6 Consensus size: 30
24602946 ACTACAGCAG
* * * *
24602956 TAGCCAAGCCACCCACAATGATCAATATAA
1 TAGCCAAGCCACCCACAATTACCAAAACAA
* *
24602986 TAGCAGCTAAGCCATCCATAATTACCAAAACAA
1 TAGC--C-AAGCCACCCACAATTACCAAAACAA
*
24603019 TAGCCAAGCCACCCACAATTACCACAACAA
1 TAGCCAAGCCACCCACAATTACCAAAACAA
24603049 TAGCCAAGCCACCCACAAT
1 TAGCCAAGCCACCCACAAT
24603068 AACTAGAGCA
Statistics
Matches: 70, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
30 45 0.64
31 1 0.01
32 1 0.01
33 23 0.33
ACGTcount: A:0.43, C:0.34, G:0.09, T:0.14
Consensus pattern (30 bp):
TAGCCAAGCCACCCACAATTACCAAAACAA
Found at i:24603068 original size:18 final size:18
Alignment explanation
Indices: 24603015--24603068 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
24603005 AATTACCAAA
24603015 ACAATAGCCAAGCCACCC
1 ACAATAGCCAAGCCACCC
24603033 ACAATTA-CC-A--CA---
1 ACAA-TAGCCAAGCCACCC
24603045 ACAATAGCCAAGCCACCC
1 ACAATAGCCAAGCCACCC
24603063 ACAATA
1 ACAATA
24603069 ACTAGAGCAG
Statistics
Matches: 28, Mismatches: 0, Indels: 16
0.64 0.00 0.36
Matches are distributed among these distances:
11 2 0.07
12 6 0.21
13 1 0.04
15 4 0.14
17 1 0.04
18 12 0.43
19 2 0.07
ACGTcount: A:0.44, C:0.39, G:0.07, T:0.09
Consensus pattern (18 bp):
ACAATAGCCAAGCCACCC
Found at i:24611870 original size:11 final size:11
Alignment explanation
Indices: 24611851--24611894 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
24611841 CAGGAGAAGG
*
24611851 AAAAAAAAAAT
1 AAAAGAAAAAT
*
24611862 AAAAGAAAAAAGG
1 AAAAG-AAAAA-T
24611875 AAAAGAAAAAT
1 AAAAGAAAAAT
24611886 AAAAGAAAA
1 AAAAGAAAA
24611895 TAATTAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
11 13 0.46
12 10 0.36
13 5 0.18
ACGTcount: A:0.84, C:0.00, G:0.11, T:0.05
Consensus pattern (11 bp):
AAAAGAAAAAT
Found at i:24611872 original size:13 final size:13
Alignment explanation
Indices: 24611854--24611916 Score: 51
Period size: 13 Copynumber: 4.9 Consensus size: 13
24611844 GAGAAGGAAA
24611854 AAAAAAATAAAAG
1 AAAAAAATAAAAG
**
24611867 AAAAAAGGAAAAG
1 AAAAAAATAAAAG
24611880 --AAAAATAAAAG
1 AAAAAAATAAAAG
*
24611891 AAAATAATTAAAA-
1 AAAA-AAATAAAAG
*
24611904 ATAACAAATAAAA
1 A-AAAAAATAAAA
24611917 ATATTTAGAT
Statistics
Matches: 39, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
11 9 0.23
13 21 0.54
14 9 0.23
ACGTcount: A:0.79, C:0.02, G:0.08, T:0.11
Consensus pattern (13 bp):
AAAAAAATAAAAG
Found at i:24611883 original size:24 final size:24
Alignment explanation
Indices: 24611847--24611894 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
24611837 GTGACAGGAG
24611847 AAGGAAAAAAAAAATAAAAGAAAA
1 AAGGAAAAAAAAAATAAAAGAAAA
*
24611871 AAGGAAAAGAAAAATAAAAGAAAA
1 AAGGAAAAAAAAAATAAAAGAAAA
24611895 TAATTAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.81, C:0.00, G:0.15, T:0.04
Consensus pattern (24 bp):
AAGGAAAAAAAAAATAAAAGAAAA
Found at i:24612016 original size:17 final size:17
Alignment explanation
Indices: 24611989--24612022 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
24611979 ATAATTTTAT
24611989 TTTTATAAATAATAATTA
1 TTTTATAAATAA-AATTA
24612007 TTTT-TAAATAAAATTA
1 TTTTATAAATAAAATTA
24612023 ATTAATTTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 7 0.44
18 4 0.25
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTTTATAAATAAAATTA
Found at i:24617557 original size:12 final size:13
Alignment explanation
Indices: 24617551--24617638 Score: 60
Period size: 12 Copynumber: 6.7 Consensus size: 13
24617541 ATAAATAAAT
24617551 AAATAAAATAATA
1 AAATAAAATAATA
*
24617564 AAATAAAAT-CTA
1 AAATAAAATAATA
*
24617576 AAATAAAAT--GA
1 AAATAAAATAATA
24617587 AAATAAAATAGGA-A
1 AAATAAAATA--ATA
24617601 AAATAAAATCAAAATA
1 AAATAAAAT---AATA
*
24617617 AAATCAAAACAA-A
1 AAAT-AAAATAATA
24617630 AAATAAAAT
1 AAATAAAAT
24617639 GAAAAAGGAA
Statistics
Matches: 62, Mismatches: 4, Indels: 19
0.73 0.05 0.22
Matches are distributed among these distances:
11 10 0.16
12 15 0.24
13 14 0.23
14 12 0.19
15 1 0.02
16 5 0.08
17 5 0.08
ACGTcount: A:0.74, C:0.05, G:0.03, T:0.18
Consensus pattern (13 bp):
AAATAAAATAATA
Done.