Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold174
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: 2085601
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 25 characters in sequence are not A, C, G, or T
File 7 of 15
Found at i:779537 original size:16 final size:15
Alignment explanation
Indices: 779474--779537 Score: 58
Period size: 16 Copynumber: 4.0 Consensus size: 15
779464 AAATAATTAA
779474 AATATATATAAAATAT
1 AATATATA-AAAATAT
*
779490 AATATAATAAAAAAAT
1 AATAT-ATAAAAATAT
*
779506 AATAT-TAATACGATAT
1 AATATATAA-A-AATAT
779522 AAATATATAAAAATAT
1 -AATATATAAAAATAT
779538 TAAAATTTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
14 3 0.08
15 1 0.03
16 23 0.59
17 9 0.23
18 3 0.08
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.33
Consensus pattern (15 bp):
AATATATAAAAATAT
Found at i:779550 original size:20 final size:21
Alignment explanation
Indices: 779525--779592 Score: 70
Period size: 20 Copynumber: 3.3 Consensus size: 21
779515 ACGATATAAA
779525 TATATAAAAATATTA-AAATT
1 TATATAAAAATATTATAAATT
* *
779545 TATATAACAAAAATTATTAATT
1 TATATAA-AAATATTATAAATT
* *
779567 TAT-TAAAATTAATATAAA-T
1 TATATAAAAATATTATAAATT
779586 TATATAA
1 TATATAA
779593 TATTTTAAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
19 4 0.10
20 18 0.46
21 10 0.26
22 7 0.18
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.41
Consensus pattern (21 bp):
TATATAAAAATATTATAAATT
Found at i:780348 original size:9 final size:9
Alignment explanation
Indices: 780314--780403 Score: 53
Period size: 9 Copynumber: 10.0 Consensus size: 9
780304 ATTAACAATT
*
780314 TATATTATA
1 TATATTTTA
*
780323 TAAATTTTA
1 TATATTTTA
780332 -ATATTTTTA
1 TATA-TTTTA
780341 TATATTTTA
1 TATATTTTA
*
780350 TTTATTTTA
1 TATATTTTA
* *
780359 TTTATATTA
1 TATATTTTA
780368 T-T-TTTTA
1 TATATTTTA
*
780375 -ATATTATA
1 TATATTTTA
*
780383 TTATAATTATA
1 -TAT-ATTTTA
780394 TTATATTTTA
1 -TATATTTTA
780404 CTTTTATATA
Statistics
Matches: 66, Mismatches: 8, Indels: 13
0.76 0.09 0.15
Matches are distributed among these distances:
7 5 0.08
8 7 0.11
9 34 0.52
10 10 0.15
11 10 0.15
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (9 bp):
TATATTTTA
Found at i:780357 original size:18 final size:18
Alignment explanation
Indices: 780336--780414 Score: 60
Period size: 18 Copynumber: 4.6 Consensus size: 18
780326 ATTTTAATAT
*
780336 TTTTATATATTTTATTTA
1 TTTTATATATATTATTTA
*
780354 TTTTATTTATATTATTT-
1 TTTTATATATATTATTTA
* *
780371 TTTAATATTATATTA-TAA
1 TTTTATA-TATATTATTTA
*
780389 TTATAT-TATA-T-TTTA
1 TTTTATATATATTATTTA
780404 CTTTTATATAT
1 -TTTTATATAT
780415 CATATTCATA
Statistics
Matches: 47, Mismatches: 9, Indels: 11
0.70 0.13 0.16
Matches are distributed among these distances:
15 3 0.06
16 9 0.19
17 9 0.19
18 26 0.55
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTATATATATTATTTA
Found at i:780889 original size:21 final size:20
Alignment explanation
Indices: 780850--780904 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
780840 TACTTAGATT
*
780850 AAATAATTAATATTTTAATA
1 AAATAATTATTATTTTAATA
*
780870 AAATTATTATTATATTTAATA
1 AAATAATTATTAT-TTTAATA
*
780891 ATATAATTA-TATTT
1 AAATAATTATTATTT
780905 ATTTTATATT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 2 0.07
20 14 0.47
21 14 0.47
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
AAATAATTATTATTTTAATA
Found at i:780898 original size:24 final size:22
Alignment explanation
Indices: 780865--780908 Score: 61
Period size: 24 Copynumber: 1.9 Consensus size: 22
780855 ATTAATATTT
780865 TAATAAAATTATTATTATATTTAA
1 TAATAAAATTA-TATT-TATTTAA
*
780889 TAATATAATTATATTTATTT
1 TAATAAAATTATATTTATTT
780909 TATATTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 5 0.26
23 4 0.21
24 10 0.53
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
TAATAAAATTATATTTATTTAA
Found at i:780933 original size:29 final size:30
Alignment explanation
Indices: 780873--780975 Score: 87
Period size: 30 Copynumber: 3.6 Consensus size: 30
780863 TTTAATAAAA
780873 TTATTATTATATTTAATAATATAATTATAT
1 TTATTATTATATTTAATAATATAATTATAT
780903 TTATT-TTATATTTAA-AATATTAAATTA-AT
1 TTATTATTATATTTAATAATA-T-AATTATAT
* * *
780932 TTAATATCT-TAATTAA-AA-ATAATAAT-T
1 TTATTAT-TATATTTAATAATATAATTATAT
*
780959 TTAATA-TATATTTAATA
1 TTATTATTATATTTAATA
780976 GTTAAAAATT
Statistics
Matches: 62, Mismatches: 4, Indels: 17
0.75 0.05 0.20
Matches are distributed among these distances:
25 1 0.02
26 6 0.10
27 12 0.19
28 5 0.08
29 18 0.29
30 19 0.31
31 1 0.02
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (30 bp):
TTATTATTATATTTAATAATATAATTATAT
Found at i:781017 original size:23 final size:27
Alignment explanation
Indices: 780982--781035 Score: 78
Period size: 24 Copynumber: 2.1 Consensus size: 27
780972 AATAGTTAAA
780982 AATTTTTTAAAA-TAAAA-A-ATAATT
1 AATTTTTTAAAATTAAAATATATAATT
*
781006 AATTTTTTAAATTTAAAATATATAATT
1 AATTTTTTAAAATTAAAATATATAATT
781033 AAT
1 AAT
781036 ATAAATAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 11 0.42
25 5 0.19
26 1 0.04
27 9 0.35
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (27 bp):
AATTTTTTAAAATTAAAATATATAATT
Found at i:781053 original size:23 final size:22
Alignment explanation
Indices: 781019--781075 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 22
781009 TTTTTAAATT
781019 TAAAATATATAATT-AATATAAA
1 TAAAATATATAATTAAAT-TAAA
781041 TAAAATATAATAATTAAATTAAA
1 TAAAATAT-ATAATTAAATTAAA
781064 T-AAATAT-TAATT
1 TAAAATATATAATT
781076 GTATAAAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
20 5 0.15
22 14 0.42
23 11 0.33
24 3 0.09
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (22 bp):
TAAAATATATAATTAAATTAAA
Found at i:781059 original size:13 final size:12
Alignment explanation
Indices: 781021--781075 Score: 50
Period size: 11 Copynumber: 5.0 Consensus size: 12
781011 TTTAAATTTA
781021 AAATATATAATT
1 AAATATATAATT
*
781033 -AATATA-AATA
1 AAATATATAATT
781043 AAATATAATAATT
1 AAATAT-ATAATT
781056 AAAT-TA-AA-T
1 AAATATATAATT
781065 AAATAT-TAATT
1 AAATATATAATT
781076 GTATAAAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 13
0.70 0.04 0.26
Matches are distributed among these distances:
9 5 0.14
10 8 0.23
11 13 0.37
12 2 0.06
13 7 0.20
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
AAATATATAATT
Found at i:781306 original size:26 final size:25
Alignment explanation
Indices: 781273--781336 Score: 83
Period size: 28 Copynumber: 2.4 Consensus size: 25
781263 ATAAAAAATT
*
781273 AAAATAAAATTTTATTGTATATTTTA
1 AAAATAAAATTTTAATGTATA-TTTA
781299 AAAATAAAAAATTTTAATGTATATTTA
1 AAAAT--AAAATTTTAATGTATATTTA
781326 AAAATATAAAT
1 AAAATA-AAAT
781337 ATAAAATAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
25 1 0.03
26 9 0.26
27 9 0.26
28 15 0.44
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (25 bp):
AAAATAAAATTTTAATGTATATTTA
Found at i:781325 original size:27 final size:28
Alignment explanation
Indices: 781278--781331 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
781268 AAATTAAAAT
*
781278 AAAATTTTATTGTATATTTTAAAAATAA
1 AAAATTTTAATGTATATTTTAAAAATAA
781306 AAAATTTTAATGTATA-TTTAAAAATA
1 AAAATTTTAATGTATATTTTAAAAATA
781332 TAAATATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 10 0.40
28 15 0.60
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (28 bp):
AAAATTTTAATGTATATTTTAAAAATAA
Found at i:781824 original size:3 final size:3
Alignment explanation
Indices: 781816--781842 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
781806 TAAGAGATGA
781816 GAG GAG GAG GAG GAG GAG GAG GAG GAG
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG
781843 AAGAAGAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.67, T:0.00
Consensus pattern (3 bp):
GAG
Found at i:782917 original size:2 final size:2
Alignment explanation
Indices: 782910--782937 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
782900 GGATGTGAGT
782910 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
782938 TTTATGTGTG
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:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:783167 original size:2 final size:2
Alignment explanation
Indices: 783160--783202 Score: 77
Period size: 2 Copynumber: 21.0 Consensus size: 2
783150 GTTCTTTTAC
783160 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GAT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT
783203 TTTGTTATTT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 38 0.95
3 2 0.05
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:786468 original size:2 final size:2
Alignment explanation
Indices: 786461--786489 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
786451 ATTGTTGCTG
786461 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
786490 CCTCCCCTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:793398 original size:12 final size:12
Alignment explanation
Indices: 793383--793407 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
793373 CTCAATCTCT
793383 CACTCTCACTCC
1 CACTCTCACTCC
793395 CACTCTCACTCC
1 CACTCTCACTCC
793407 C
1 C
793408 GCCTTTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.60, G:0.00, T:0.24
Consensus pattern (12 bp):
CACTCTCACTCC
Found at i:794476 original size:10 final size:10
Alignment explanation
Indices: 794461--794485 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
794451 CTTTAATTAA
794461 AGAGACAGAG
1 AGAGACAGAG
794471 AGAGACAGAG
1 AGAGACAGAG
794481 AGAGA
1 AGAGA
794486 AATAAATCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.52, C:0.08, G:0.40, T:0.00
Consensus pattern (10 bp):
AGAGACAGAG
Found at i:794917 original size:2 final size:2
Alignment explanation
Indices: 794910--794948 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
794900 TCATTTCTTT
794910 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
794949 TGACTATTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:798451 original size:24 final size:24
Alignment explanation
Indices: 798419--798469 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
798409 TTTGCCTCCA
798419 CTTTTCCTTGCTTAACTTAATTTC
1 CTTTTCCTTGCTTAACTTAATTTC
798443 CTTTTCCTTGCTTAACTTAATTTC
1 CTTTTCCTTGCTTAACTTAATTTC
798467 CTT
1 CTT
798470 CTTATAATCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.16, C:0.25, G:0.04, T:0.55
Consensus pattern (24 bp):
CTTTTCCTTGCTTAACTTAATTTC
Found at i:799407 original size:58 final size:59
Alignment explanation
Indices: 799329--799447 Score: 186
Period size: 58 Copynumber: 2.0 Consensus size: 59
799319 AGGTGATTCC
* * * * *
799329 TTGCTGCACCGTCTCATTCAGTTAGAAAGGTTTTGAATAAAAGATCGTACTTGGTTTGT
1 TTGCTGCACCGTCTCATTCAGTTAGAAAGGGTTTGAACAAAAGATCATACTTAGCTTGT
799388 TTGCTGCACC-TCTCATTCAGTTAGAAAGGGTTTGAACAAAAGATCATACTTAGCTTGT
1 TTGCTGCACCGTCTCATTCAGTTAGAAAGGGTTTGAACAAAAGATCATACTTAGCTTGT
799446 TT
1 TT
799448 ACAGAGTGAC
Statistics
Matches: 55, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
58 45 0.82
59 10 0.18
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (59 bp):
TTGCTGCACCGTCTCATTCAGTTAGAAAGGGTTTGAACAAAAGATCATACTTAGCTTGT
Found at i:801478 original size:2 final size:2
Alignment explanation
Indices: 801471--801499 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
801461 GCATCTTACC
801471 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 A
801500 CACATACACT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:801846 original size:2 final size:2
Alignment explanation
Indices: 801839--801870 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
801829 GCCGTAACCT
801839 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
801871 ACTTAGAATA
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:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:802542 original size:22 final size:23
Alignment explanation
Indices: 802489--802563 Score: 68
Period size: 22 Copynumber: 3.3 Consensus size: 23
802479 TCAATTTATA
* * *
802489 TAAATAAAAATAAATTTAAATTT
1 TAAATATAAATAAATTTTAATAT
802512 TGAAA-ATAAAT-AATTTTAATAT
1 T-AAATATAAATAAATTTTAATAT
802534 TAAATAT-AATAAATATTTAATA-
1 TAAATATAAATAAAT-TTTAATAT
*
802556 AAAATATA
1 TAAATATA
802564 TATGTAATTA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
21 6 0.14
22 21 0.49
23 13 0.30
24 3 0.07
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (23 bp):
TAAATATAAATAAATTTTAATAT
Found at i:803441 original size:9 final size:9
Alignment explanation
Indices: 803427--803490 Score: 53
Period size: 9 Copynumber: 7.1 Consensus size: 9
803417 GTTCGATTTT
*
803427 AAAATTTTA
1 AAAATTTAA
803436 AAAA-TTAA
1 AAAATTTAA
803444 ATAAATTTAA
1 A-AAATTTAA
803454 AAAA-TTAA
1 AAAATTTAA
*
803462 TTAAA-TTAA
1 -AAAATTTAA
*
803471 ATAAATTAAA
1 A-AAATTTAA
803481 AAAATTTAA
1 AAAATTTAA
803490 A
1 A
803491 TCAATTGATC
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
8 8 0.18
9 28 0.62
10 9 0.20
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (9 bp):
AAAATTTAA
Found at i:803451 original size:18 final size:18
Alignment explanation
Indices: 803428--803490 Score: 83
Period size: 18 Copynumber: 3.5 Consensus size: 18
803418 TTCGATTTTA
*
803428 AAATTTTAAAAATTAAAT
1 AAATTTAAAAAATTAAAT
*
803446 AAATTTAAAAAATTAATT
1 AAATTTAAAAAATTAAAT
*
803464 AAA-TTAAATAAATTAAAA
1 AAATTTAAA-AAATTAAAT
803482 AAATTTAAA
1 AAATTTAAA
803491 TCAATTGATC
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
17 5 0.13
18 29 0.74
19 5 0.13
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
AAATTTAAAAAATTAAAT
Found at i:803579 original size:21 final size:21
Alignment explanation
Indices: 803555--803596 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
803545 TAAAAATATT
803555 ATTATATATTATATAATATAA
1 ATTATATATTATATAATATAA
* *
803576 ATTATTTATTATATTATATAA
1 ATTATATATTATATAATATAA
803597 CTTTAAATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
ATTATATATTATATAATATAA
Found at i:804681 original size:13 final size:13
Alignment explanation
Indices: 804663--804692 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
804653 GTTTAAATAT
804663 TTTTATTATATAA
1 TTTTATTATATAA
*
804676 TTTTATTTTATAA
1 TTTTATTATATAA
804689 TTTT
1 TTTT
804693 TTTAATAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTTATTATATAA
Found at i:804733 original size:27 final size:27
Alignment explanation
Indices: 804654--804734 Score: 69
Period size: 26 Copynumber: 3.0 Consensus size: 27
804644 TCGATTAGTG
* * * *
804654 TTTAAATATTTTTATTATATAATTTTAT
1 TTTATATATTTTAATTAAAT-ATTATAT
*
804682 TTTATAATTTTTTTAA-TAAA-A-TATAT
1 TTTAT-A-TATTTTAATTAAATATTATAT
804708 TTTATATATTTTAATTAAATATTATAT
1 TTTATATATTTTAATTAAATATTATAT
804735 ATATAATATA
Statistics
Matches: 42, Mismatches: 6, Indels: 11
0.71 0.10 0.19
Matches are distributed among these distances:
24 7 0.17
25 5 0.12
26 10 0.24
27 6 0.14
28 4 0.10
29 4 0.10
30 6 0.14
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (27 bp):
TTTATATATTTTAATTAAATATTATAT
Found at i:804737 original size:24 final size:24
Alignment explanation
Indices: 804692--804739 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
804682 TTTATAATTT
*
804692 TTTTAATAAAATATATTTTATATA
1 TTTTAATAAAATATATTATATATA
*
804716 TTTTAATTAAATAT-TATATATATA
1 TTTTAATAAAATATAT-TATATATA
804740 ATATAAATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (24 bp):
TTTTAATAAAATATATTATATATA
Found at i:804746 original size:20 final size:20
Alignment explanation
Indices: 804709--804747 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
804699 AAAATATATT
*
804709 TTATATATTTTAATTAAATA
1 TTATATATTATAATTAAATA
804729 TTATATA-TATAATATAAAT
1 TTATATATTATAAT-TAAAT
804748 TAATAAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TTATATATTATAATTAAATA
Found at i:805025 original size:10 final size:10
Alignment explanation
Indices: 804971--805025 Score: 53
Period size: 10 Copynumber: 5.6 Consensus size: 10
804961 TTTTAATTAG
*
804971 ATATTATATT
1 ATATTTTATT
*
804981 ATATTATATT
1 ATATTTTATT
804991 ATATATTT-TT
1 ATAT-TTTATT
805001 -TATTTT-TT
1 ATATTTTATT
805009 ATTATTTTATT
1 A-TATTTTATT
805020 ATATTT
1 ATATTT
805026 AAGTGTATGT
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
8 5 0.12
9 3 0.08
10 27 0.68
11 5 0.12
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (10 bp):
ATATTTTATT
Found at i:805492 original size:22 final size:21
Alignment explanation
Indices: 805454--805494 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
805444 AAAAATAATA
* *
805454 AAAAATATCTTTTTTATTTTT
1 AAAAATATATTTATTATTTTT
805475 AAAAATATAATTTATTATTT
1 AAAAATAT-ATTTATTATTT
805495 ATTTTCTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (21 bp):
AAAAATATATTTATTATTTTT
Found at i:806612 original size:3 final size:3
Alignment explanation
Indices: 806604--806638 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
806594 ATGATACTTG
*
806604 AAT AAT AAT AAT AAT AAT AAT GAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
806639 ATTTGATGGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:807652 original size:15 final size:16
Alignment explanation
Indices: 807632--807661 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
807622 CAGTATCTTG
807632 ATAATA-TATTTTAAA
1 ATAATATTATTTTAAA
807647 ATAATATTATTTTAA
1 ATAATATTATTTTAA
807662 TAATTAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
ATAATATTATTTTAAA
Found at i:813065 original size:40 final size:38
Alignment explanation
Indices: 813020--813094 Score: 96
Period size: 40 Copynumber: 1.9 Consensus size: 38
813010 TATTATTTTT
* **
813020 ATATTAATATTTTTATATTTTATAATTAAATTTAAATAAA
1 ATATTAATATTTTAATATTAAATAA-T-AATTTAAATAAA
*
813060 ATATTATTATTTTAATATTAAATAATAATTTAAAT
1 ATATTAATATTTTAATATTAAATAATAATTTAAAT
813095 CGAATCAAGT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 9 0.29
39 1 0.03
40 21 0.68
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (38 bp):
ATATTAATATTTTAATATTAAATAATAATTTAAATAAA
Found at i:813786 original size:21 final size:20
Alignment explanation
Indices: 813762--813814 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 20
813752 ATTATTAGTT
* *
813762 TTTTAATATAATTTTAATATC
1 TTTTAATATAATTTAAATA-A
*
813783 TTTTATTATAATTTAAATAA
1 TTTTAATATAATTTAAATAA
813803 TTTT-ATATAATT
1 TTTTAATATAATT
813815 ATCGAATACA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 7 0.25
20 4 0.14
21 17 0.61
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (20 bp):
TTTTAATATAATTTAAATAA
Found at i:814042 original size:2 final size:2
Alignment explanation
Indices: 814035--814080 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
814025 TGTCAAAAAG
*
814035 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
814077 AT AT
1 AT AT
814081 TGATTCTATG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:822171 original size:16 final size:17
Alignment explanation
Indices: 822150--822181 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
822140 ATTAAAAAAT
822150 TAAATA-TTAAATATAG
1 TAAATATTTAAATATAG
822166 TAAATATTTAAATATA
1 TAAATATTTAAATATA
822182 TATATATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (17 bp):
TAAATATTTAAATATAG
Found at i:823356 original size:12 final size:12
Alignment explanation
Indices: 823339--823385 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 12
823329 AATTTAAAAG
*
823339 TTTATTCTATTA
1 TTTATTATATTA
823351 TTTATTATATTA
1 TTTATTATATTA
**
823363 -TTAAAATATTA
1 TTTATTATATTA
*
823374 TTTTTTATATTA
1 TTTATTATATTA
823386 ATATTAATAT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
11 9 0.32
12 19 0.68
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (12 bp):
TTTATTATATTA
Found at i:823380 original size:26 final size:26
Alignment explanation
Indices: 823346--823402 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
823336 AAGTTTATTC
*
823346 TATTATTTAT-TATATTATTAAAATAT
1 TATTATTTATAT-TAATATTAAAATAT
* *
823372 TATTTTTTATATTAATATTAATATAT
1 TATTATTTATATTAATATTAAAATAT
823398 T-TTAT
1 TATTAT
823403 AATTAAATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
25 3 0.12
26 22 0.85
27 1 0.04
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (26 bp):
TATTATTTATATTAATATTAAAATAT
Found at i:823636 original size:19 final size:20
Alignment explanation
Indices: 823612--823680 Score: 67
Period size: 19 Copynumber: 3.7 Consensus size: 20
823602 TATTGTAAAC
823612 AATATAA-AAATATAAAATA
1 AATATAATAAATATAAAATA
** **
823631 AATATAATACGT-TTTAATA
1 AATATAATAAATATAAAATA
823650 AATATAA-AAATA-AAAAT-
1 AATATAATAAATATAAAATA
823667 AATATAATAAATAT
1 AATATAATAAATAT
823681 GATACGATAT
Statistics
Matches: 38, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
17 7 0.18
18 10 0.26
19 19 0.50
20 2 0.05
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.32
Consensus pattern (20 bp):
AATATAATAAATATAAAATA
Found at i:824831 original size:2 final size:2
Alignment explanation
Indices: 824824--824867 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
824814 TAACAGGAAG
824824 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
824866 AT
1 AT
824868 GGCATTTGTA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:831866 original size:4 final size:4
Alignment explanation
Indices: 831859--831902 Score: 79
Period size: 4 Copynumber: 11.0 Consensus size: 4
831849 CACACACATA
*
831859 TATG TATG TATG TATG TATG TATG TATG TATG CATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
831903 ATGAAGTGAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 38 1.00
ACGTcount: A:0.25, C:0.02, G:0.25, T:0.48
Consensus pattern (4 bp):
TATG
Found at i:832422 original size:10 final size:10
Alignment explanation
Indices: 832404--832436 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
832394 AATATATATC
832404 ATATATAAAA
1 ATATATAAAA
832414 AGT-TATAAAA
1 A-TATATAAAA
832424 ATATATAAAA
1 ATATATAAAA
832434 ATA
1 ATA
832437 ATTAGATCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
9 1 0.05
10 19 0.90
11 1 0.05
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (10 bp):
ATATATAAAA
Found at i:833100 original size:21 final size:20
Alignment explanation
Indices: 833062--833101 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
833052 TTACTTCATA
* *
833062 ATTTTTTATTAGATAATTAT
1 ATTTTTTATTAAAAAATTAT
833082 ATTTTATTATTAAAAAATTA
1 ATTTT-TTATTAAAAAATTA
833102 AATAAATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (20 bp):
ATTTTTTATTAAAAAATTAT
Found at i:834572 original size:218 final size:219
Alignment explanation
Indices: 834180--834612 Score: 733
Period size: 218 Copynumber: 2.0 Consensus size: 219
834170 AGGCCGAAGA
* *
834180 AATCGTGCTAAAGCTTCATCACCGAATGATTCTGAGGCATCCCAGGTATTTTCTCATTCCTTTCC
1 AATCATGCTAAAGCTTCATCACCGAAAGATTCTGAGGCATCCCAGGTATTTTCTCATTCCTTTCC
*
834245 TATTACAGAAGTTATGTACTTGACATCAATGAGTGGAGGTGTTGATAATATCATTTTTCCCTTTT
66 TATTACAGAAGTTATGTACTTAACATCAATGAGTGGAGGTGTTGATAATATCATTTTTCCCTTTT
* * *
834310 GAAGTTTTCACCTAAGTTACCTGGACTTAGGTCGGATATGGCTATGTATATACTTAA-ATTTTTT
131 GAAGTTTTCACCTAAGTTACCCGGACTCAGGTCGGATATGGCTATGTATATACTCAATATTTTTT
*
834374 CGAAGTTTTTTTTCATATATACTC
196 CGAAGTTCTTTTTCATATATACTC
* * *
834398 AATCATGCTGAAGCTTCATCACCGAAAGATTCTGAGGCATCCCAGGTATTTTGTCATTTCTTTCC
1 AATCATGCTAAAGCTTCATCACCGAAAGATTCTGAGGCATCCCAGGTATTTTCTCATTCCTTTCC
*
834463 TATTACAGAAGTTATGTACTTAACATCACTGAGTGGAGGTGTTGATAATATCATTTTTCCCTTTT
66 TATTACAGAAGTTATGTACTTAACATCAATGAGTGGAGGTGTTGATAATATCATTTTTCCCTTTT
* *
834528 GAAGTTTTCACCTAAGTTACCCGGACTCAGGTCGGATGTGGCTATGTATATACTCAATTTTTTTT
131 GAAGTTTTCACCTAAGTTACCCGGACTCAGGTCGGATATGGCTATGTATATACTCAATATTTTTT
*
834593 CTAAGTTCTTTTTCATATAT
196 CGAAGTTCTTTTTCATATAT
834613 TTAGAGGATC
Statistics
Matches: 200, Mismatches: 14, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
218 176 0.88
219 24 0.12
ACGTcount: A:0.25, C:0.18, G:0.17, T:0.40
Consensus pattern (219 bp):
AATCATGCTAAAGCTTCATCACCGAAAGATTCTGAGGCATCCCAGGTATTTTCTCATTCCTTTCC
TATTACAGAAGTTATGTACTTAACATCAATGAGTGGAGGTGTTGATAATATCATTTTTCCCTTTT
GAAGTTTTCACCTAAGTTACCCGGACTCAGGTCGGATATGGCTATGTATATACTCAATATTTTTT
CGAAGTTCTTTTTCATATATACTC
Found at i:839300 original size:3 final size:3
Alignment explanation
Indices: 839294--839342 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
839284 AATAATAATA
*
839294 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AGT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
839342 A
1 A
839343 ATAAAAGATA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:839666 original size:2 final size:2
Alignment explanation
Indices: 839659--839689 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
839649 TGCAAGTCTA
839659 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 T
839690 ATATATATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:842905 original size:3 final size:3
Alignment explanation
Indices: 842897--842926 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
842887 AATTCAAAAA
842897 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
842927 AAAAAATAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:851552 original size:5 final size:5
Alignment explanation
Indices: 851542--851566 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
851532 ATTTGGGATA
851542 AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
851567 CCATTACATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:851726 original size:17 final size:19
Alignment explanation
Indices: 851704--851738 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
851694 ATTATATAAA
851704 TTAA-TTTAAATA-AATTT
1 TTAATTTTAAATATAATTT
851721 TTAATTTTAAATATAATT
1 TTAATTTTAAATATAATT
851739 CTTTTGTACG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 8 0.50
19 4 0.25
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
TTAATTTTAAATATAATTT
Found at i:852222 original size:10 final size:10
Alignment explanation
Indices: 852207--852232 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
852197 ATAACTTTTT
852207 AAAAATATTA
1 AAAAATATTA
852217 AAAAATATTA
1 AAAAATATTA
852227 AAAAAT
1 AAAAAT
852233 TAAATATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (10 bp):
AAAAATATTA
Found at i:852518 original size:2 final size:2
Alignment explanation
Indices: 852511--852541 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
852501 AATGCATGGC
852511 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 A
852542 GTATGGCCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:852834 original size:16 final size:16
Alignment explanation
Indices: 852813--852845 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
852803 GTAATTTTTT
852813 TTAAAAAATATTCATA
1 TTAAAAAATATTCATA
*
852829 TTAAAATATATTCATA
1 TTAAAAAATATTCATA
852845 T
1 T
852846 ATGACACTTA
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:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (16 bp):
TTAAAAAATATTCATA
Found at i:854106 original size:18 final size:18
Alignment explanation
Indices: 854043--854106 Score: 55
Period size: 18 Copynumber: 3.6 Consensus size: 18
854033 GAATAAAAAT
*
854043 ATTAAATTTAAAAAATAA
1 ATTAAATTTTAAAAATAA
854061 ATTTAAA--TTAAAAATTAA
1 A-TTAAATTTTAAAAA-TAA
*
854079 A--AATTATTTAAAAATAA
1 ATTAAAT-TTTAAAAATAA
854096 ATTAAATTTTA
1 ATTAAATTTTA
854107 GATTTAATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 14
0.68 0.06 0.26
Matches are distributed among these distances:
15 2 0.06
17 10 0.28
18 16 0.44
19 8 0.22
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
ATTAAATTTTAAAAATAA
Found at i:854252 original size:27 final size:28
Alignment explanation
Indices: 854222--854281 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
854212 ATTTATTATG
*
854222 TTATTAATATT-TTAAA-ATTTAATAAAA
1 TTATTAA-ATTATTAAATATTAAATAAAA
854249 TTATTAAATTATTAAATATTAAATAAAA
1 TTATTAAATTATTAAATATTAAATAAAA
*
854277 ATATT
1 TTATT
854282 TTTTATTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 3 0.10
27 12 0.41
28 14 0.48
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (28 bp):
TTATTAAATTATTAAATATTAAATAAAA
Found at i:854269 original size:18 final size:20
Alignment explanation
Indices: 854222--854269 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 20
854212 ATTTATTATG
854222 TTATT-AATATT-TTAAAAT
1 TTATTAAATATTATTAAAAT
*
854240 TTAATAAA-ATTATT-AAA-
1 TTATTAAATATTATTAAAAT
854257 TTATTAAATATTA
1 TTATTAAATATTA
854270 AATAAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
17 7 0.28
18 14 0.56
19 4 0.16
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TTATTAAATATTATTAAAAT
Found at i:854637 original size:16 final size:16
Alignment explanation
Indices: 854605--854636 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
854595 TTTTTAAAAA
854605 TAATATTTAATAATTT
1 TAATATTTAATAATTT
854621 TAATATTT-ATAATTT
1 TAATATTTAATAATTT
854636 T
1 T
854637 TTTAAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATATTTAATAATTT
Found at i:858734 original size:2 final size:2
Alignment explanation
Indices: 858716--858749 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
858706 TAAACAATTC
* *
858716 TA TA CA TA TA CA 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
858750 GGCTGGCACA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (2 bp):
TA
Found at i:859486 original size:30 final size:26
Alignment explanation
Indices: 859452--859521 Score: 72
Period size: 30 Copynumber: 2.6 Consensus size: 26
859442 TATTTTTTAA
859452 TTAATTATTAATTAATTTTATGTTAAATG
1 TTAATTATTAATTAATTTTAT-TT--ATG
*
859481 TTTAA-TATTATATCAATTTTATTTATG
1 -TTAATTATTA-ATTAATTTTATTTATG
859508 TTAATTATT-ATTAA
1 TTAATTATTAATTAA
859522 ATGTTATTGC
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
25 4 0.11
26 4 0.11
27 7 0.19
29 7 0.19
30 14 0.39
ACGTcount: A:0.37, C:0.01, G:0.04, T:0.57
Consensus pattern (26 bp):
TTAATTATTAATTAATTTTATTTATG
Found at i:859803 original size:3 final size:3
Alignment explanation
Indices: 859795--859831 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
859785 TTGGTTAGCA
*
859795 AAT AAT AAT AAT AAT AAT AAT AAT AAT ACT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
859832 TCCCACATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:859873 original size:15 final size:15
Alignment explanation
Indices: 859855--859902 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
859845 GATTTTATTT
*
859855 TTATGAATTTATATA
1 TTATAAATTTATATA
**
859870 TTATAAATTTGGATA
1 TTATAAATTTATATA
859885 TTATTAAATTTATTATA
1 TTA-TAAATTTA-TATA
859902 T
1 T
859903 GCAATAAATT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
15 15 0.58
16 7 0.27
17 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (15 bp):
TTATAAATTTATATA
Found at i:860502 original size:2 final size:2
Alignment explanation
Indices: 860495--860528 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
860485 GTTGGAAATG
860495 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
860529 TCTAAAATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:866032 original size:2 final size:2
Alignment explanation
Indices: 866025--866079 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
866015 TTTGTCTGTT
866025 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
866067 TC TC TC TC TC TC T
1 TC TC TC TC TC TC T
866080 ACGTGTGTAA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:872385 original size:15 final size:15
Alignment explanation
Indices: 872365--872393 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
872355 GAAAATCTAA
872365 AAATTTTATTGAGCG
1 AAATTTTATTGAGCG
872380 AAATTTTATTGAGC
1 AAATTTTATTGAGC
872394 AAAGAATTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.07, G:0.17, T:0.41
Consensus pattern (15 bp):
AAATTTTATTGAGCG
Found at i:874888 original size:20 final size:23
Alignment explanation
Indices: 874849--874891 Score: 65
Period size: 20 Copynumber: 2.0 Consensus size: 23
874839 AAAATAAAAA
874849 TTTTAATATTAATAATTTTTTAT
1 TTTTAATATTAATAATTTTTTAT
874872 TTTTAA-ATT-AT-ATTTTTTAT
1 TTTTAATATTAATAATTTTTTAT
874892 ATAAAAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 9 0.45
21 2 0.10
22 3 0.15
23 6 0.30
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (23 bp):
TTTTAATATTAATAATTTTTTAT
Found at i:874907 original size:29 final size:30
Alignment explanation
Indices: 874874--874938 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
874864 TTTTTTATTT
*
874874 TTAAATTAT-ATTTTT-TATATAAAAATAAA
1 TTAAATTATAATTTTTAAATATAAAAA-AAA
* *
874903 TTAAAATATAATTTTTAAATATATAAAAAA
1 TTAAATTATAATTTTTAAATATAAAAAAAA
874933 TTAAAT
1 TTAAAT
874939 AATTTCATAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 8 0.27
30 14 0.47
31 8 0.27
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (30 bp):
TTAAATTATAATTTTTAAATATAAAAAAAA
Found at i:875378 original size:19 final size:20
Alignment explanation
Indices: 875354--875392 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
875344 ATTTGATTGT
*
875354 ATAATATTTTTTAA-ATAAA
1 ATAATATATTTTAATATAAA
875373 ATAATATATTTTAATATAAA
1 ATAATATATTTTAATATAAA
875393 TTTAATTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
ATAATATATTTTAATATAAA
Found at i:875491 original size:13 final size:13
Alignment explanation
Indices: 875475--875507 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
875465 TTTATAAATT
875475 AAATTAAATTTAA
1 AAATTAAATTTAA
875488 AAA-TAAATTTAA
1 AAATTAAATTTAA
*
875500 AATTTAAA
1 AAATTAAA
875508 ATTTTTTAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
AAATTAAATTTAA
Found at i:875500 original size:18 final size:18
Alignment explanation
Indices: 875449--875508 Score: 70
Period size: 18 Copynumber: 3.3 Consensus size: 18
875439 TTAATAATAA
875449 TAAATAATAAATTT-AATT
1 TAAA-AATAAATTTAAATT
*
875467 TATAAATTAAA-TTAAATT
1 TA-AAAATAAATTTAAATT
875485 TAAAAATAAATTTAAAATT
1 TAAAAATAAATTT-AAATT
875504 TAAAA
1 TAAAA
875509 TTTTTTAGAC
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
17 9 0.25
18 15 0.42
19 12 0.33
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
TAAAAATAAATTTAAATT
Found at i:876771 original size:18 final size:18
Alignment explanation
Indices: 876748--876782 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
876738 TTTAGAGTAT
*
876748 ATTTAAATAATAAAATTA
1 ATTTAAAAAATAAAATTA
*
876766 ATTTAAAAAATGAAATT
1 ATTTAAAAAATAAAATT
876783 TATCATAATT
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:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (18 bp):
ATTTAAAAAATAAAATTA
Found at i:877154 original size:20 final size:20
Alignment explanation
Indices: 877116--877154 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
877106 AATTAACATA
*
877116 AATAAAATATAAAAGATAAT
1 AATAAAATATAAAAAATAAT
877136 AATAAAAT-TAAATAAATAA
1 AATAAAATATAAA-AAATAA
877155 AAATTATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.26
Consensus pattern (20 bp):
AATAAAATATAAAAAATAAT
Found at i:877624 original size:18 final size:18
Alignment explanation
Indices: 877601--877641 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
877591 TAATAGGGAT
*
877601 TTTTTTTTTGGATAGGTA
1 TTTTTTTTTGCATAGGTA
* *
877619 TTTTTTTTTTCATAGTTA
1 TTTTTTTTTGCATAGGTA
877637 TTTTT
1 TTTTT
877642 CACATTGCCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.15, C:0.02, G:0.12, T:0.71
Consensus pattern (18 bp):
TTTTTTTTTGCATAGGTA
Found at i:877640 original size:17 final size:19
Alignment explanation
Indices: 877593--877641 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
877583 CATTTATTTA
* *
877593 ATAGGGATTTTTTTTTTGG
1 ATAGGTATTTTTTTTTTGC
877612 ATAGGTATTTTTTTTTT-C
1 ATAGGTATTTTTTTTTTGC
*
877630 ATAGTTATTTTT
1 ATAGGTATTTTT
877642 CACATTGCCA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 11 0.41
19 16 0.59
ACGTcount: A:0.18, C:0.02, G:0.16, T:0.63
Consensus pattern (19 bp):
ATAGGTATTTTTTTTTTGC
Found at i:878053 original size:23 final size:22
Alignment explanation
Indices: 878008--878053 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
877998 GTATTTAAAA
*
878008 TTATTATTTTTATATTGATATT
1 TTATTATTTTTATATTGAAATT
878030 TTATATATTTTTATAATT-AAATT
1 TTAT-TATTTTTAT-ATTGAAATT
878053 T
1 T
878054 AAATAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 4 0.19
23 14 0.67
24 3 0.14
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (22 bp):
TTATTATTTTTATATTGAAATT
Found at i:878473 original size:20 final size:20
Alignment explanation
Indices: 878456--878494 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
878446 TAACATAATT
878456 ATATAATAAAAAAAATAAAA
1 ATATAATAAAAAAAATAAAA
*
878476 ATATGAT-AAAAAAATAAAA
1 ATATAATAAAAAAAATAAAA
878495 CATAAACGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.21
Consensus pattern (20 bp):
ATATAATAAAAAAAATAAAA
Found at i:880124 original size:22 final size:24
Alignment explanation
Indices: 880064--880130 Score: 66
Period size: 28 Copynumber: 2.6 Consensus size: 24
880054 TATTATATAA
880064 ATTTTAATATATTTTTATAATCATATT
1 ATTTTAAT-TATTTTTATAATC--ATT
880091 ATATTTATATTATTTTTAT-ATC-TT
1 AT-TTTA-ATTATTTTTATAATCATT
880115 ATTTTAATTAATTTTT
1 ATTTTAATT-ATTTTT
880131 TATGTCGTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
22 3 0.08
23 10 0.27
24 4 0.11
27 5 0.14
28 13 0.35
29 2 0.05
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (24 bp):
ATTTTAATTATTTTTATAATCATT
Found at i:881167 original size:17 final size:18
Alignment explanation
Indices: 881135--881168 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
881125 TTTTCTATGT
*
881135 TTAAGAGAGGAATTTTAG
1 TTAAGAGAGAAATTTTAG
881153 TTAAGAGA-AAATTTTA
1 TTAAGAGAGAAATTTTA
881169 AATATTTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.44, C:0.00, G:0.21, T:0.35
Consensus pattern (18 bp):
TTAAGAGAGAAATTTTAG
Found at i:881686 original size:168 final size:170
Alignment explanation
Indices: 881402--881736 Score: 566
Period size: 168 Copynumber: 2.0 Consensus size: 170
881392 AAAAAAGTCA
* *
881402 TTTTTAAATATCTTCATTGTTTATCTCTATAATTGCATAGAAAAAAACAATCTCAAATAGTCAAG
1 TTTTCAAATATCTTCATTGTTTATCTCTACAATTGCATAGAAAAAAACAATCTCAAATAGTCAAG
* * *
881467 TTGATGTAATGAGTTTAGATATTTTTAGATCGAGCCAACCTTGATCAAGTTCAGATAATAATA-A
66 TTGATGTAATGAGTTTAGATATCTTTAAATCGAGCCAACCTTGATCAAGTTCAAATAATAATATA
*
881531 AAAAATTTTTACTCAAATCCGGTTTAATTTAAAAGTTGAC
131 AAAAAATTTTACTCAAATCCGGTTTAATTTAAAAGTTGAC
*
881571 TTTTCAAATATCTTCATTGTTTATCTCTACAATTGCAT-GGAAAAAACAATCTCAAATAGTCAAG
1 TTTTCAAATATCTTCATTGTTTATCTCTACAATTGCATAGAAAAAAACAATCTCAAATAGTCAAG
* * *
881635 TTGATGTAATGAGTTTAGATATCTTTAAATCGAGCCGAGCTTTATCAAGTTCAAATAATAATATA
66 TTGATGTAATGAGTTTAGATATCTTTAAATCGAGCCAACCTTGATCAAGTTCAAATAATAATATA
881700 AAAAAATTTTACTCAAATCCGGTTTAATTTAAAAGTT
131 AAAAAATTTTACTCAAATCCGGTTTAATTTAAAAGTT
881737 ATTTTTATGT
Statistics
Matches: 155, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
168 82 0.53
169 73 0.47
ACGTcount: A:0.39, C:0.13, G:0.12, T:0.37
Consensus pattern (170 bp):
TTTTCAAATATCTTCATTGTTTATCTCTACAATTGCATAGAAAAAAACAATCTCAAATAGTCAAG
TTGATGTAATGAGTTTAGATATCTTTAAATCGAGCCAACCTTGATCAAGTTCAAATAATAATATA
AAAAAATTTTACTCAAATCCGGTTTAATTTAAAAGTTGAC
Found at i:882002 original size:16 final size:16
Alignment explanation
Indices: 881981--882011 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
881971 GATATATTTG
881981 TATATATATAAATAAA
1 TATATATATAAATAAA
*
881997 TATATATATATATAA
1 TATATATATAAATAA
882012 TACATATGTT
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:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TATATATATAAATAAA
Found at i:884252 original size:2 final size:2
Alignment explanation
Indices: 884245--884277 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
884235 ATTTCCAAAT
884245 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 T
884278 TTGGCAATGT
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:884654 original size:17 final size:17
Alignment explanation
Indices: 884632--884680 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 17
884622 TTAAGTATTC
* *
884632 AAAATTTATACAATTAA
1 AAAATTAATAAAATTAA
884649 AAAATTAATAAAATT-A
1 AAAATTAATAAAATTAA
**
884665 AATTTTAATAAAATTA
1 AAAATTAATAAAATTA
884681 TGATGGTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
16 14 0.52
17 13 0.48
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (17 bp):
AAAATTAATAAAATTAA
Found at i:885070 original size:2 final size:2
Alignment explanation
Indices: 885063--885106 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
885053 TGTATGTTTT
* *
885063 TA TA TA TA TA TA TA TA TA GA GA 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
885105 TA
1 TA
885107 GAGAGAGAGA
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:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (2 bp):
TA
Found at i:885111 original size:2 final size:2
Alignment explanation
Indices: 885106--885142 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
885096 ATATATATAT
885106 AG AG AG AG AG AG 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 AG AG AG AG AG AG A
885143 AAGATATATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:885151 original size:2 final size:2
Alignment explanation
Indices: 885146--885176 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
885136 AGAGAGAAAG
885146 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 A
885177 GAGAGAGAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:886642 original size:28 final size:26
Alignment explanation
Indices: 886584--886644 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
886574 ATATAAAAAA
886584 TTAAAATATATGAAATATAATTTTAT
1 TTAAAATATATGAAATATAATTTTAT
* *
886610 ATAAAATAATAT-AAATTTATATATTTAT
1 TTAAAAT-ATATGAAATATA-AT-TTTAT
886638 TTAAAAT
1 TTAAAAT
886645 TTAAATTTAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
26 12 0.41
27 6 0.21
28 11 0.38
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (26 bp):
TTAAAATATATGAAATATAATTTTAT
Found at i:886748 original size:22 final size:24
Alignment explanation
Indices: 886696--886755 Score: 70
Period size: 26 Copynumber: 2.5 Consensus size: 24
886686 TTTTGAATTT
*
886696 TATAAATATATAATATTTTTTTGAAA
1 TATAAATATATAACA-TTTTTT-AAA
886722 TATAAATATATAACA-TTTTT-AA
1 TATAAATATATAACATTTTTTAAA
*
886744 TATAATTATATA
1 TATAAATATATA
886756 TATAAATAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
22 13 0.41
24 5 0.16
26 14 0.44
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (24 bp):
TATAAATATATAACATTTTTTAAA
Found at i:886855 original size:25 final size:26
Alignment explanation
Indices: 886787--886857 Score: 67
Period size: 25 Copynumber: 2.8 Consensus size: 26
886777 TAATTTAAAA
* *
886787 AATAAAATAATTATTTTAAATATTAAT
1 AATAAAA-ATTTATTTAAAATATTAAT
886814 AATAAAAAATTTA--TAAAATATTAAT
1 AAT-AAAAATTTATTTAAAATATTAAT
* *
886839 AAT-TATATTTATTTAAAAT
1 AATAAAAATTTATTTAAAAT
886858 TTATTTTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
23 6 0.16
25 20 0.54
27 7 0.19
28 4 0.11
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (26 bp):
AATAAAAATTTATTTAAAATATTAAT
Found at i:891266 original size:25 final size:25
Alignment explanation
Indices: 891212--891267 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
891202 ATGTATTTAT
*
891212 AAATATTAATATAAAAATAAAATTT
1 AAATATTAATATAAAAATAAAATTA
* * *
891237 TAATATTATTTTAAATAATAAAA-TA
1 AAATATTAATATAAA-AATAAAATTA
891262 AAATAT
1 AAATAT
891268 AAATTTAATT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
25 18 0.72
26 7 0.28
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (25 bp):
AAATATTAATATAAAAATAAAATTA
Found at i:891290 original size:30 final size:31
Alignment explanation
Indices: 891225--891299 Score: 91
Period size: 30 Copynumber: 2.5 Consensus size: 31
891215 TATTAATATA
* * * *
891225 AAAATAAAATTTTAATATTATTTTAAATAAT
1 AAAATAAAATATAAATATTAATTTAAATAAG
*
891256 AAAATAAAATATAAAT-TTAATTTAAGTAAG
1 AAAATAAAATATAAATATTAATTTAAATAAG
891286 AAAATAAAA-ATAAA
1 AAAATAAAATATAAA
891300 AATGGGGCTA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
29 5 0.13
30 20 0.51
31 14 0.36
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.35
Consensus pattern (31 bp):
AAAATAAAATATAAATATTAATTTAAATAAG
Found at i:892149 original size:27 final size:29
Alignment explanation
Indices: 892104--892166 Score: 85
Period size: 28 Copynumber: 2.2 Consensus size: 29
892094 TTTAGTAAAT
892104 TTTTTTATTATAATAAAA-TAATTATTTTAA
1 TTTTTTATTAT-ATAAAATTAA-TATTTTAA
*
892134 TTTTTTATTAT-TAAATTTAATATTTTAA
1 TTTTTTATTATATAAAATTAATATTTTAA
892162 TTTTT
1 TTTTT
892167 ATACTTTTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 17 0.55
29 3 0.10
30 11 0.35
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (29 bp):
TTTTTTATTATATAAAATTAATATTTTAA
Found at i:892167 original size:15 final size:14
Alignment explanation
Indices: 892126--892176 Score: 59
Period size: 14 Copynumber: 3.6 Consensus size: 14
892116 ATAAAATAAT
892126 TATTTTAATTTTT-
1 TATTTTAATTTTTA
* *
892139 TATTATTAAATTTAA
1 TATT-TTAATTTTTA
892154 TATTTTAATTTTTA
1 TATTTTAATTTTTA
892168 TACTTTTAA
1 TA-TTTTAA
892177 AATTATAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
13 4 0.13
14 17 0.55
15 10 0.32
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (14 bp):
TATTTTAATTTTTA
Found at i:892432 original size:17 final size:15
Alignment explanation
Indices: 892409--892468 Score: 72
Period size: 15 Copynumber: 4.1 Consensus size: 15
892399 TCTTATTTGT
*
892409 TATAATTTTAAAATTA
1 TATAAATTTAAAA-TA
892425 TATAAA-TTAAAATA
1 TATAAATTTAAAATA
892439 T-TAAATTTAATAATA
1 TATAAATTTAA-AATA
892454 TATAAA-TTAAAATA
1 TATAAATTTAAAATA
892468 T
1 T
892469 TTTATTTCTT
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
13 4 0.10
14 12 0.30
15 15 0.38
16 9 0.22
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
TATAAATTTAAAATA
Found at i:892475 original size:29 final size:30
Alignment explanation
Indices: 892412--892493 Score: 96
Period size: 29 Copynumber: 2.7 Consensus size: 30
892402 TATTTGTTAT
892412 AATTTTAA-AATTATATAAATTAAAATATTA
1 AATTTTAATAA-TATATAAATTAAAATATTA
*
892442 AA-TTTAATAATATATAAATTAAAATATTT
1 AATTTTAATAATATATAAATTAAAATATTA
* * *
892471 TATTTCTTATAATATAAAAATTA
1 AATTT-TAATAATATATAAATTA
892494 TTAGTAAACA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
29 24 0.53
30 6 0.13
31 15 0.33
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (30 bp):
AATTTTAATAATATATAAATTAAAATATTA
Found at i:892914 original size:2 final size:2
Alignment explanation
Indices: 892903--892950 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
892893 TCAAGGCTTT
892903 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
892944 TA TA TA T
1 TA TA TA T
892951 TCCACCTACA
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 44 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:893222 original size:15 final size:17
Alignment explanation
Indices: 893202--893239 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
893192 TAAAAAAATT
893202 AAATATATA-T-ATATC
1 AAATATATACTAATATC
*
893217 AAATATATACTAATATT
1 AAATATATACTAATATC
893234 AAATAT
1 AAATAT
893240 TCACGAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 9 0.45
16 1 0.05
17 10 0.50
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.39
Consensus pattern (17 bp):
AAATATATACTAATATC
Found at i:894187 original size:2 final size:2
Alignment explanation
Indices: 894174--894203 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
894164 TAGTGCATAC
*
894174 AT AT AA 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
894204 GATCTTAATC
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:894438 original size:2 final size:2
Alignment explanation
Indices: 894431--894467 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
894421 TTGTAAACAA
894431 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 A
894468 AAGCTAAGGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:895766 original size:21 final size:21
Alignment explanation
Indices: 895719--895766 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 21
895709 ATTTATTAAT
895719 ATTAAAATTATTTTTTAAAATA
1 ATTAAAA-TATTTTTTAAAATA
* *
895741 TTTAAAA-ATTTATTTAAATTA
1 ATTAAAATATTT-TTTAAAATA
895762 ATTAA
1 ATTAA
895767 TTAATTAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 4 0.18
21 12 0.55
22 6 0.27
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
ATTAAAATATTTTTTAAAATA
Found at i:905202 original size:14 final size:14
Alignment explanation
Indices: 905183--905247 Score: 53
Period size: 14 Copynumber: 4.6 Consensus size: 14
905173 TTTATAATAA
905183 AAAAAAATTAAGTT
1 AAAAAAATTAAGTT
* *
905197 AAAAAATTTAAATT
1 AAAAAAATTAAGTT
*
905211 AAAAAAAGTGT-AGTG
1 AAAAAAA-T-TAAGTT
905226 AAAAAAA-TAAGATT
1 AAAAAAATTAAG-TT
*
905240 TAAAAAAT
1 AAAAAAAT
905248 ATTTAAATAT
Statistics
Matches: 39, Mismatches: 7, Indels: 9
0.71 0.13 0.16
Matches are distributed among these distances:
12 1 0.03
13 2 0.05
14 25 0.64
15 10 0.26
16 1 0.03
ACGTcount: A:0.65, C:0.00, G:0.09, T:0.26
Consensus pattern (14 bp):
AAAAAAATTAAGTT
Found at i:905606 original size:20 final size:19
Alignment explanation
Indices: 905577--905616 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
905567 TTTTTAGTTA
*
905577 TTCAATTCAATATGATTTAG
1 TTCAACTCAA-ATGATTTAG
*
905597 TTCAACTCAAATTATTTAG
1 TTCAACTCAAATGATTTAG
905616 T
1 T
905617 AGTAAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.35, C:0.12, G:0.07, T:0.45
Consensus pattern (19 bp):
TTCAACTCAAATGATTTAG
Found at i:906116 original size:27 final size:27
Alignment explanation
Indices: 906074--906175 Score: 99
Period size: 27 Copynumber: 3.8 Consensus size: 27
906064 AACCTTTATC
906074 TATAAATATATAAATATATTTAAATTTA
1 TATAAATATAT-AATATATTTAAATTTA
*
906102 TATAAGT-TATTAATATA-TTACAATTTA
1 TATAAATATA-TAATATATTTA-AATTTA
*
906129 TATAAATATATAATAT-TTTAAA-TAA
1 TATAAATATATAATATATTTAAATTTA
906154 TATTATAATATA-AATAT-TTTAA
1 TA-TA-AATATATAATATATTTAA
906176 GTAAAATATA
Statistics
Matches: 65, Mismatches: 3, Indels: 14
0.79 0.04 0.17
Matches are distributed among these distances:
25 4 0.06
26 17 0.26
27 35 0.54
28 9 0.14
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (27 bp):
TATAAATATATAATATATTTAAATTTA
Found at i:906155 original size:12 final size:13
Alignment explanation
Indices: 906136--906175 Score: 55
Period size: 12 Copynumber: 3.1 Consensus size: 13
906126 TTATATAAAT
906136 ATATAATATTTTA
1 ATATAATATTTTA
*
906149 A-ATAATATTATA
1 ATATAATATTTTA
906161 ATATAAATATTTTA
1 ATAT-AATATTTTA
906175 A
1 A
906176 GTAAAATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
12 11 0.48
13 3 0.13
14 9 0.39
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
ATATAATATTTTA
Found at i:906167 original size:17 final size:17
Alignment explanation
Indices: 906128--906169 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
906118 ATTACAATTT
906128 ATATAAAT-ATATAATA
1 ATATAAATAATATAATA
* * *
906144 TTTTAAATAATATTATA
1 ATATAAATAATATAATA
906161 ATATAAATA
1 ATATAAATA
906170 TTTTAAGTAA
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
ATATAAATAATATAATA
Found at i:906171 original size:14 final size:14
Alignment explanation
Indices: 906133--906184 Score: 56
Period size: 14 Copynumber: 3.8 Consensus size: 14
906123 AATTTATATA
906133 AATATATAATATTTT
1 AATATA-AATATTTT
*
906148 AA-AT-AATATTAT
1 AATATAAATATTTT
906160 AATATAAATATTTT
1 AATATAAATATTTT
906174 AAGTA-AAATAT
1 AA-TATAAATAT
906185 AAATATACGA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
12 9 0.28
13 2 0.06
14 17 0.53
15 4 0.12
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (14 bp):
AATATAAATATTTT
Found at i:906189 original size:26 final size:27
Alignment explanation
Indices: 906128--906191 Score: 87
Period size: 26 Copynumber: 2.4 Consensus size: 27
906118 ATTACAATTT
*
906128 ATATAAATATATAATATTTTAAATAAT
1 ATATAAATATATAATATTTTAAATAAA
*
906155 AT-TATAATATA-AATATTTTAAGTAAA
1 ATATA-AATATATAATATTTTAAATAAA
906181 ATATAAATATA
1 ATATAAATATA
906192 CGAGTTTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
26 23 0.70
27 10 0.30
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (27 bp):
ATATAAATATATAATATTTTAAATAAA
Found at i:906331 original size:2 final size:2
Alignment explanation
Indices: 906324--906380 Score: 66
Period size: 2 Copynumber: 29.0 Consensus size: 2
906314 TTTGACTTTG
*
906324 AT AT AT AT CAT CT CAT AT AT -T AT AT -T AT AT AT AT AT AT AT AT
1 AT AT AT AT -AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
906366 AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT
906381 TGGATTATCT
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
1 3 0.06
2 42 0.88
3 3 0.06
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:906416 original size:17 final size:17
Alignment explanation
Indices: 906396--906432 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
906386 TATCTAACTA
*
906396 AACTGAACTGATAACCT
1 AACTAAACTGATAACCT
*
906413 AACTAAACTGGTAACCT
1 AACTAAACTGATAACCT
906430 AAC
1 AAC
906433 CCTTGGATAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.43, C:0.24, G:0.11, T:0.22
Consensus pattern (17 bp):
AACTAAACTGATAACCT
Found at i:910044 original size:13 final size:13
Alignment explanation
Indices: 910015--910053 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
910005 TTATTTTTAT
910015 TTAAATAT--ATA
1 TTAAATATAAATA
*
910026 TCAAATATAAATA
1 TTAAATATAAATA
910039 TTAAATATAAATA
1 TTAAATATAAATA
910052 TT
1 TT
910054 TAAAAAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 7 0.29
13 17 0.71
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (13 bp):
TTAAATATAAATA
Found at i:911723 original size:21 final size:21
Alignment explanation
Indices: 911699--911814 Score: 66
Period size: 21 Copynumber: 5.5 Consensus size: 21
911689 AAAAATATCT
*
911699 TTATA-TTAATATTTATATAAA
1 TTATATTTAA-ATTTAAATAAA
911720 TTATATTTAAATTTAAATAAAA
1 TTATATTTAAATTTAAAT-AAA
* *
911742 ATATTATTTTATTATTTAAAT-AA
1 TTA-TA-TTTA-AATTTAAATAAA
911765 --ATATTTAAA-TTAAATTAAA
1 TTATATTTAAATTTAAA-TAAA
* *
911784 TTA-AATTAAATTATAAAT-TA
1 TTATATTTAAATT-TAAATAAA
*
911804 TTATACTTAAA
1 TTATATTTAAA
911815 CTCAACTTTA
Statistics
Matches: 76, Mismatches: 7, Indels: 24
0.71 0.07 0.22
Matches are distributed among these distances:
17 5 0.07
18 2 0.03
19 6 0.08
20 12 0.16
21 22 0.29
22 13 0.17
23 4 0.05
24 4 0.05
25 8 0.11
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (21 bp):
TTATATTTAAATTTAAATAAA
Found at i:911770 original size:43 final size:44
Alignment explanation
Indices: 911658--911779 Score: 119
Period size: 43 Copynumber: 2.8 Consensus size: 44
911648 TGATAACTCG
* *
911658 ATTTTATTATTT-AA-AAATATTAAAATATAAA-AAAAATATCTTT
1 ATTTTATTATTTAAATAAATATTTAAATTTAAATAAAAATA--TTT
* * *
911701 ATATTAATATTTATATAAATTATATTTAAATTTAAATAAAAATA-TT
1 ATTTTATTATTTAAAT-AA--ATATTTAAATTTAAATAAAAATATTT
911747 ATTTTATTATTTAAATAAATATTTAAA-TTAAAT
1 ATTTTATTATTTAAATAAATATTTAAATTTAAAT
911780 TAAATTAAAT
Statistics
Matches: 65, Mismatches: 8, Indels: 13
0.76 0.09 0.15
Matches are distributed among these distances:
42 6 0.09
43 19 0.29
44 1 0.02
45 2 0.03
46 17 0.26
48 13 0.20
49 7 0.11
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.48
Consensus pattern (44 bp):
ATTTTATTATTTAAATAAATATTTAAATTTAAATAAAAATATTT
Found at i:911779 original size:5 final size:5
Alignment explanation
Indices: 911769--911796 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
911759 AAATAAATAT
911769 TTAAA TTAAA TTAAA TTAAA TTAAA TTA
1 TTAAA TTAAA TTAAA TTAAA TTAAA TTA
911797 TAAATTATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
TTAAA
Found at i:913268 original size:18 final size:20
Alignment explanation
Indices: 913242--913278 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
913232 GTTCAAATTA
913242 TTTACTTTAA-ATTTAAAAT
1 TTTACTTTAATATTTAAAAT
913261 TTTA-TTTAATATTTAAAA
1 TTTACTTTAATATTTAAAA
913279 AAAATTAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (20 bp):
TTTACTTTAATATTTAAAAT
Found at i:913558 original size:45 final size:46
Alignment explanation
Indices: 913490--913577 Score: 135
Period size: 45 Copynumber: 1.9 Consensus size: 46
913480 TGAATTTTAC
*
913490 ATTAAATTAAATTTAAATATAAAATTTTATTTATA-CATAAAATCGA
1 ATTAAATTAAATTTAAATATAAAATTTT-TTAATATCATAAAATCGA
*
913536 ATTAAATTTAA-TTAAATATAAAATTTTTTAATATCATAAAAT
1 ATTAAATTAAATTTAAATATAAAATTTTTTAATATCATAAAAT
913578 AAATTTAAAC
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
44 5 0.13
45 24 0.62
46 10 0.26
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.43
Consensus pattern (46 bp):
ATTAAATTAAATTTAAATATAAAATTTTTTAATATCATAAAATCGA
Found at i:913586 original size:45 final size:45
Alignment explanation
Indices: 913490--913601 Score: 131
Period size: 45 Copynumber: 2.5 Consensus size: 45
913480 TGAATTTTAC
* * *
913490 ATTAAATTAAATTTAAATATAAAATTTTATTTATACATAAAATCGA
1 ATTAAATTTAA-TTAAATATAAAATTTTATTAATACATAAAATCAA
913536 ATTAAATTTAATTAAATATAAAATTTT-TTAATATCATAAAAT-AA
1 ATTAAATTTAATTAAATATAAAATTTTATTAATA-CATAAAATCAA
* *
913580 ATTTAAACTTAATTTAAT-TAAA
1 A-TTAAATTTAATTAAATATAAA
913602 TTAAATTTAT
Statistics
Matches: 59, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
44 11 0.19
45 38 0.64
46 10 0.17
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.43
Consensus pattern (45 bp):
ATTAAATTTAATTAAATATAAAATTTTATTAATACATAAAATCAA
Found at i:914023 original size:13 final size:13
Alignment explanation
Indices: 914005--914037 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
913995 AGGAAACACC
914005 AAGAAAAGAAAAA
1 AAGAAAAGAAAAA
914018 AAGAAAA-AAAAA
1 AAGAAAAGAAAAA
*
914030 AAAAAAAG
1 AAGAAAAG
914038 GATGAAGCGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (13 bp):
AAGAAAAGAAAAA
Found at i:919444 original size:2 final size:2
Alignment explanation
Indices: 919437--919486 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
919427 CAGATACTTC
919437 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
919479 AT AT AT AT
1 AT AT AT AT
919487 GGGAACTGAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:921731 original size:17 final size:17
Alignment explanation
Indices: 921689--921731 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
921679 ATTATAAAAT
* *
921689 ATAAAAATATTTTTTTA
1 ATAATAATATTTTTTAA
*
921706 ATATTTAATATTTTTTAA
1 ATA-ATAATATTTTTTAA
921724 ATAATAAT
1 ATAATAAT
921732 TTAAATCATC
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
ATAATAATATTTTTTAA
Found at i:921777 original size:13 final size:13
Alignment explanation
Indices: 921755--921788 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
921745 TTAAATTATA
921755 TTTAAATTTAATT
1 TTTAAATTTAATT
*
921768 TTTAATTTTAATTT
1 TTTAAATTTAA-TT
921782 TTTAAAT
1 TTTAAAT
921789 ACTACTTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (13 bp):
TTTAAATTTAATT
Done.