Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01014927.1 Kokia drynarioides strain JFW-HI SEQ_129970, 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: 457488
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 273 characters in sequence are not A, C, G, or T
File 2 of 2
Found at i:353068 original size:21 final size:21
Alignment explanation
Indices: 353042--353089 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
353032 AAAATAAAAT
* *
353042 TATTTTGAT-ATTATATTTATA
1 TATTTT-ATAATTAAATTTAAA
353063 TATTTTATAATTAAATTTAAA
1 TATTTTATAATTAAATTTAAA
353084 TATTTT
1 TATTTT
353090 TTAAAAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 2 0.08
21 22 0.92
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (21 bp):
TATTTTATAATTAAATTTAAA
Found at i:355467 original size:13 final size:12
Alignment explanation
Indices: 355437--355470 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
355427 AAATGTTTGG
355437 TATGAAAAATGC
1 TATGAAAAATGC
*
355449 TATGAAAATATGT
1 TATGAAAA-ATGC
355462 TATGAAAAA
1 TATGAAAAA
355471 GTGTGGTTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.53, C:0.03, G:0.15, T:0.29
Consensus pattern (12 bp):
TATGAAAAATGC
Found at i:358512 original size:10 final size:10
Alignment explanation
Indices: 358499--358720 Score: 80
Period size: 9 Copynumber: 22.5 Consensus size: 10
358489 TTTTTATGAT
358499 TTTTATATAA
1 TTTTATATAA
358509 TTTT-TATAA
1 TTTTATATAA
*
358518 GTTTATATCAA
1 TTTTATAT-AA
*
358529 TTTCA-ATAA
1 TTTTATATAA
358538 TTTTA-ATAA
1 TTTTATATAA
*
358547 TTTTTTTATAA
1 -TTTTATATAA
*
358558 TTTTTTATAA
1 TTTTATATAA
* *
358568 TTTTTTACAA
1 TTTTATATAA
* *
358578 TTTTTTCTGATACT
1 --TTTTAT-ATA-A
* *
358592 TTTTTTTTAAA
1 TTTTATAT-AA
358603 TTTTGA-AT-A
1 TTTT-ATATAA
*
358612 TTTTAAATAA
1 TTTTATATAA
358622 GTTTTAT-TAA
1 -TTTTATATAA
358632 TTTTATAT--
1 TTTTATATAA
*
358640 TTTTTTATAA
1 TTTTATATAA
358650 -TTTAT-TAGA
1 TTTTATATA-A
358659 -TTTAT-TATA
1 TTTTATATA-A
358668 TTTT-TATAA
1 TTTTATATAA
*
358677 TATTTATA-AG
1 T-TTTATATAA
358687 TTTT-TATAA
1 TTTTATATAA
*
358696 TTTT-GATAA
1 TTTTATATAA
*
358705 GTTTATATCAA
1 TTTTATAT-AA
358716 TTTTA
1 TTTTA
358721 ATATTTAATA
Statistics
Matches: 164, Mismatches: 24, Indels: 47
0.70 0.10 0.20
Matches are distributed among these distances:
8 12 0.07
9 62 0.38
10 49 0.30
11 28 0.17
12 11 0.07
13 2 0.01
ACGTcount: A:0.33, C:0.03, G:0.04, T:0.61
Consensus pattern (10 bp):
TTTTATATAA
Found at i:358514 original size:20 final size:19
Alignment explanation
Indices: 358489--358719 Score: 110
Period size: 20 Copynumber: 12.2 Consensus size: 19
358479 CTAGCTCAAG
*
358489 TTTTTATGATTTTTATATAA
1 TTTTTAT-AATTTTATATAA
*
358509 TTTTTATAAGTTTATATCAA
1 TTTTTATAATTTTATAT-AA
**
358529 TTTCAATAATTTTA-ATAA
1 TTTTTATAATTTTATATAA
*
358547 TTTTTTTATAATTTTTTATAA
1 --TTTTTATAATTTTATATAA
* * * *
358568 TTTTTTACAATTTTTTCTGA
1 -TTTTTATAATTTTATATAA
*
358588 TACTTT-T--TTTT-TA-AA
1 T-TTTTATAATTTTATATAA
* *
358603 TTTTGA-ATATTTTAAATAA
1 TTTTTATA-ATTTTATATAA
* *
358622 GTTTTATTAATTTTATAT-T
1 TTTTTA-TAATTTTATATAA
358641 TTTTTATAA-TTTAT-TAGA
1 TTTTTATAATTTTATATA-A
358659 TTTATTAT-ATTTT-TATAA
1 TTT-TTATAATTTTATATAA
*
358677 TATTTATAAGTTTT-TATAA
1 TTTTTATAA-TTTTATATAA
* *
358696 TTTTGATAAGTTTATATCAA
1 TTTTTATAATTTTATAT-AA
358716 TTTT
1 TTTT
358720 AATATTTAAT
Statistics
Matches: 161, Mismatches: 28, Indels: 44
0.69 0.12 0.19
Matches are distributed among these distances:
14 2 0.01
15 2 0.01
16 2 0.01
17 17 0.11
18 18 0.11
19 50 0.31
20 65 0.40
21 5 0.03
ACGTcount: A:0.32, C:0.03, G:0.04, T:0.61
Consensus pattern (19 bp):
TTTTTATAATTTTATATAA
Found at i:358681 original size:29 final size:28
Alignment explanation
Indices: 358632--358704 Score: 78
Period size: 29 Copynumber: 2.6 Consensus size: 28
358622 GTTTTATTAA
* *
358632 TTTTATATTTTT-TTATAATTTATTAGAT
1 TTTTATATTTTTATAATAATTTATAAG-T
358660 TTATTATATTTTTATAAT-ATTTATAAGT
1 TT-TTATATTTTTATAATAATTTATAAGT
*
358688 TTTTATAATTTTGATAA
1 TTTTAT-ATTTTTATAA
358705 GTTTATATCA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
27 4 0.10
28 14 0.36
29 18 0.46
30 3 0.08
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (28 bp):
TTTTATATTTTTATAATAATTTATAAGT
Found at i:358692 original size:19 final size:19
Alignment explanation
Indices: 358668--358719 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
358658 ATTTATTATA
358668 TTTTTATAATATTT-ATAAG
1 TTTTTATAAT-TTTGATAAG
358687 TTTTTATAATTTTGATAAG
1 TTTTTATAATTTTGATAAG
*
358706 TTTATATCAATTTT
1 TTTTTAT-AATTTT
358720 AATATTTAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 3 0.10
19 21 0.70
20 6 0.20
ACGTcount: A:0.33, C:0.02, G:0.06, T:0.60
Consensus pattern (19 bp):
TTTTTATAATTTTGATAAG
Found at i:358765 original size:10 final size:10
Alignment explanation
Indices: 358489--358699 Score: 84
Period size: 10 Copynumber: 21.3 Consensus size: 10
358479 CTAGCTCAAG
*
358489 TTTTTATGAT
1 TTTTTATAAT
358499 TTTTATATAA-
1 TTTT-TATAAT
*
358509 TTTTTATAAG
1 TTTTTATAAT
*
358519 TTTATATCAA-
1 TTTTTAT-AAT
**
358529 TTTCAATAA-
1 TTTTTATAAT
*
358538 TTTTAATAATT
1 TTTTTATAA-T
358549 TTTTTATAAT
1 TTTTTATAAT
358559 TTTTTATAAT
1 TTTTTATAAT
*
358569 TTTTTACAATT
1 TTTTTATAA-T
*
358580 TTTTCTGATACTT
1 TTTT-T-ATA-AT
* *
358593 TTTTTTTAAA
1 TTTTTATAAT
*
358603 TTTTGA-ATAT
1 TTTTTATA-AT
**
358613 TTTAAATAA-
1 TTTTTATAAT
*
358622 GTTTTATTAA-
1 TTTTTA-TAAT
*
358632 -TTTTATATT
1 TTTTTATAAT
358641 TTTTTATAAT
1 TTTTTATAAT
* *
358651 TTATTA-GAT
1 TTTTTATAAT
*
358660 TTATTAT-A-
1 TTTTTATAAT
358668 TTTTTATAA-
1 TTTTTATAAT
* *
358677 TATTTATAAG
1 TTTTTATAAT
358687 TTTTTATAAT
1 TTTTTATAAT
358697 TTT
1 TTT
358700 GATAAGTTTA
Statistics
Matches: 156, Mismatches: 28, Indels: 34
0.72 0.13 0.16
Matches are distributed among these distances:
8 8 0.05
9 42 0.27
10 75 0.48
11 22 0.14
12 2 0.01
13 7 0.04
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.63
Consensus pattern (10 bp):
TTTTTATAAT
Found at i:365766 original size:29 final size:29
Alignment explanation
Indices: 365718--365794 Score: 100
Period size: 29 Copynumber: 2.7 Consensus size: 29
365708 TTTACCTCAA
* * *
365718 GTTATATTTTAGTTATTTATATTTGAAAT
1 GTTACATTTTAGTCACTTATATTTGAAAT
*
365747 GTTACATTTTAGTCACTTATGTTTGAAAT
1 GTTACATTTTAGTCACTTATATTTGAAAT
* *
365776 GTTACGTTTTAATCACTTA
1 GTTACATTTTAGTCACTTA
365795 CGTTAACATG
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.29, C:0.08, G:0.12, T:0.52
Consensus pattern (29 bp):
GTTACATTTTAGTCACTTATATTTGAAAT
Found at i:369927 original size:18 final size:18
Alignment explanation
Indices: 369906--369940 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
369896 AAATTTTTTT
*
369906 TATTTCAATTATTTAAAA
1 TATTTCAATTAATTAAAA
*
369924 TATTTTAATTAATTAAA
1 TATTTCAATTAATTAAA
369941 TTTTATAAAA
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:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (18 bp):
TATTTCAATTAATTAAAA
Found at i:380255 original size:19 final size:20
Alignment explanation
Indices: 380233--380270 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
380223 GATATTTAAA
380233 TTATAG-ATATGTATTTTTT
1 TTATAGTATATGTATTTTTT
* *
380252 TTATTGTATCTGTATTTTT
1 TTATAGTATATGTATTTTT
380271 ATAAAATGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.21, C:0.03, G:0.11, T:0.66
Consensus pattern (20 bp):
TTATAGTATATGTATTTTTT
Found at i:381106 original size:32 final size:31
Alignment explanation
Indices: 381043--381106 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 31
381033 ATGCTCAAAT
*
381043 ATTATATATTATTAATTATAACTTTCAAAAAA
1 ATTATATATTATTAATTATAACTAT-AAAAAA
*
381075 ATTATATATTATGTAATTAATATCTATAAAAA
1 ATTATATATTAT-TAATT-ATAACTATAAAAA
381107 TTAAATCTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 12 0.43
33 10 0.36
34 6 0.21
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.44
Consensus pattern (31 bp):
ATTATATATTATTAATTATAACTATAAAAAA
Found at i:381122 original size:15 final size:16
Alignment explanation
Indices: 381089--381120 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
381079 TATATTATGT
381089 AATTAATATCTATAAA
1 AATTAATATCTATAAA
381105 AATTAA-ATCT-TAAA
1 AATTAATATCTATAAA
381119 AA
1 AA
381121 ATATTATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 4 0.25
16 6 0.38
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.34
Consensus pattern (16 bp):
AATTAATATCTATAAA
Found at i:384196 original size:6 final size:6
Alignment explanation
Indices: 384185--384218 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
384175 AAAACAAATA
* *
384185 AGTGTG AGTGTG AGTGTG AGTGAG AGTGAG AGTG
1 AGTGTG AGTGTG AGTGTG AGTGTG AGTGTG AGTG
384219 ACACTCATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.24, C:0.00, G:0.50, T:0.26
Consensus pattern (6 bp):
AGTGTG
Found at i:391318 original size:15 final size:15
Alignment explanation
Indices: 391295--391324 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
391285 ATTATGCATA
391295 ATGGATATGGAAATG
1 ATGGATATGGAAATG
*
391310 ATGGTTATGGAAATG
1 ATGGATATGGAAATG
391325 GAAATGTAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.33, T:0.30
Consensus pattern (15 bp):
ATGGATATGGAAATG
Found at i:393014 original size:30 final size:29
Alignment explanation
Indices: 392961--393026 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 29
392951 CGTTTAGGAA
* *
392961 CTTGAGAAGACCGATATCTTGTTCAAGAGT
1 CTTGGGAAGACCGACATCTTGTTCAAGA-T
*
392991 -TTGGGAAGACTCGACATTTTGTTCAAGAT
1 CTTGGGAAGAC-CGACATCTTGTTCAAGAT
393020 CTTGGGA
1 CTTGGGA
393027 TTGAGAAGAC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
29 10 0.32
30 21 0.68
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.32
Consensus pattern (29 bp):
CTTGGGAAGACCGACATCTTGTTCAAGAT
Found at i:393061 original size:66 final size:66
Alignment explanation
Indices: 392962--393131 Score: 234
Period size: 66 Copynumber: 2.6 Consensus size: 66
392952 GTTTAGGAAC
* * ** * *
392962 TTGAGAAGACC-GATATCTTGTTCAAGAGTTTGGGAAGACTCGACATTTTGTTCAAGATCTTGGG
1 TTGAGAAGACCTGATATCTAGTTCAAGAGCTTGGGAAGACTCGACATCGTGCTCAAGAGCTTGGG
393026 A
66 A
* * *
393027 TTGAGAAGACCTGATATCTAGTTTAGGAGCTTGGGAAGACTCGATATCGTGCTCAAGAGCTTGGG
1 TTGAGAAGACCTGATATCTAGTTCAAGAGCTTGGGAAGACTCGACATCGTGCTCAAGAGCTTGGG
393092 A
66 A
* *
393093 TTGAGAAGACATGATATCTCGTTCAAGAGCTTGGGAAGA
1 TTGAGAAGACCTGATATCTAGTTCAAGAGCTTGGGAAGA
393132 TCCAATATTT
Statistics
Matches: 91, Mismatches: 13, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
65 11 0.12
66 80 0.88
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (66 bp):
TTGAGAAGACCTGATATCTAGTTCAAGAGCTTGGGAAGACTCGACATCGTGCTCAAGAGCTTGGG
A
Found at i:394834 original size:17 final size:18
Alignment explanation
Indices: 394803--394836 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
394793 TTTTCAAATG
394803 TATTTTTGAGTTAAAAAA
1 TATTTTTGAGTTAAAAAA
394821 TATTTTTGAG-TAAAAA
1 TATTTTTGAGTTAAAAA
394837 TTAAAATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (18 bp):
TATTTTTGAGTTAAAAAA
Found at i:407832 original size:15 final size:15
Alignment explanation
Indices: 407812--407848 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
407802 TTTATACTAC
*
407812 AAAATATTTATTATT
1 AAAATATTTAATATT
407827 AAAATA-TTAATATT
1 AAAATATTTAATATT
407841 -AAATATTT
1 AAAATATTT
407849 TCAATAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 5 0.25
14 9 0.45
15 6 0.30
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
AAAATATTTAATATT
Found at i:408498 original size:27 final size:29
Alignment explanation
Indices: 408455--408508 Score: 94
Period size: 27 Copynumber: 1.9 Consensus size: 29
408445 TAAAAATTGG
408455 TAAAAAATAAAATTGAGACCCTTAAAAAT
1 TAAAAAATAAAATTGAGACCCTTAAAAAT
408484 TAAAAAA-AAAA-TGAGACCCTTAAAA
1 TAAAAAATAAAATTGAGACCCTTAAAA
408509 GTTGATAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 14 0.56
28 4 0.16
29 7 0.28
ACGTcount: A:0.61, C:0.11, G:0.07, T:0.20
Consensus pattern (29 bp):
TAAAAAATAAAATTGAGACCCTTAAAAAT
Found at i:413396 original size:15 final size:15
Alignment explanation
Indices: 413376--413406 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
413366 GATGAAGAAT
413376 ATTATTACGATGATG
1 ATTATTACGATGATG
*
413391 ATTATTATGATGATG
1 ATTATTACGATGATG
413406 A
1 A
413407 AGATGACGAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.03, G:0.19, T:0.42
Consensus pattern (15 bp):
ATTATTACGATGATG
Found at i:413405 original size:18 final size:18
Alignment explanation
Indices: 413361--413409 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
413351 GGTGATGACG
413361 ATGATGATGAAGAATATT
1 ATGATGATGAAGAATATT
* * * *
413379 ATTACGATGATGATTATT
1 ATGATGATGAAGAATATT
413397 ATGATGATGAAGA
1 ATGATGATGAAGA
413410 TGACGACGCT
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.41, C:0.02, G:0.22, T:0.35
Consensus pattern (18 bp):
ATGATGATGAAGAATATT
Found at i:413475 original size:18 final size:18
Alignment explanation
Indices: 413454--413488 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
413444 GAATATTATG
*
413454 ATGAGAAAGATAAGAAAA
1 ATGAGAAAGAGAAGAAAA
413472 ATGAGAAAGAGAAGAAA
1 ATGAGAAAGAGAAGAAA
413489 TAAAATTGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.66, C:0.00, G:0.26, T:0.09
Consensus pattern (18 bp):
ATGAGAAAGAGAAGAAAA
Found at i:414154 original size:14 final size:14
Alignment explanation
Indices: 414135--414170 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
414125 CATATACACA
*
414135 TTTTAATTTAATGT
1 TTTTAATTGAATGT
*
414149 TTTTAATTGAATTT
1 TTTTAATTGAATGT
414163 TTTTAATT
1 TTTTAATT
414171 CTCATCTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.67
Consensus pattern (14 bp):
TTTTAATTGAATGT
Found at i:414503 original size:7 final size:7
Alignment explanation
Indices: 414466--414508 Score: 50
Period size: 8 Copynumber: 5.7 Consensus size: 7
414456 ACTTTAATTT
414466 TTTAAAA
1 TTTAAAA
414473 TTATAAAA
1 TT-TAAAA
*
414481 TTATAAAC
1 TT-TAAAA
414489 TATTAAAA
1 T-TTAAAA
414497 TTTAAAA
1 TTTAAAA
414504 TTTAA
1 TTTAA
414509 TTTTGACCTC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
7 13 0.41
8 18 0.56
9 1 0.03
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (7 bp):
TTTAAAA
Found at i:417281 original size:6 final size:6
Alignment explanation
Indices: 417270--417297 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
417260 TGCGAGTGAT
417270 GGTGGC GGTGGC GGTGGC GGTGGC GGTG
1 GGTGGC GGTGGC GGTGGC GGTGGC GGTG
417298 AGAGAGTCGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.14, G:0.68, T:0.18
Consensus pattern (6 bp):
GGTGGC
Found at i:421148 original size:16 final size:17
Alignment explanation
Indices: 421127--421173 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
421117 TCTTAAGTTT
421127 TTGTAT-TTTTTATTTA
1 TTGTATATTTTTATTTA
421143 TTGTATCATTTTTATTTGA
1 TTGTAT-ATTTTTATTT-A
*
421162 TT-TAGATTTTTA
1 TTGTATATTTTTA
421174 CTACGTTTGT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 6 0.22
17 7 0.26
18 11 0.41
19 3 0.11
ACGTcount: A:0.21, C:0.02, G:0.09, T:0.68
Consensus pattern (17 bp):
TTGTATATTTTTATTTA
Found at i:423196 original size:72 final size:72
Alignment explanation
Indices: 423112--423248 Score: 247
Period size: 72 Copynumber: 1.9 Consensus size: 72
423102 ATCTTCACAA
* *
423112 AATAATGGATCTGAAATTTATTTGATTCGATTTAATTTAATTTTCAAAGATTTATCTCTTCATAA
1 AATAATAGATCTGAAATTTATTTAATTCGATTTAATTTAATTTTCAAAGATTTATCTCTTCATAA
423177 GATTGTG
66 GATTGTG
*
423184 AATAATAGATCTGAAATTTATTTAATTCGATTTAATTTAATTTTCAAAGATTTATCTCTTTATAA
1 AATAATAGATCTGAAATTTATTTAATTCGATTTAATTTAATTTTCAAAGATTTATCTCTTCATAA
423249 AATCGATTTT
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
72 62 1.00
ACGTcount: A:0.36, C:0.08, G:0.09, T:0.47
Consensus pattern (72 bp):
AATAATAGATCTGAAATTTATTTAATTCGATTTAATTTAATTTTCAAAGATTTATCTCTTCATAA
GATTGTG
Found at i:427446 original size:13 final size:13
Alignment explanation
Indices: 427428--427453 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
427418 AATACATTTT
427428 ATATAAGAGAAAA
1 ATATAAGAGAAAA
427441 ATATAAGAGAAAA
1 ATATAAGAGAAAA
427454 TACCATACAT
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:0.69, C:0.00, G:0.15, T:0.15
Consensus pattern (13 bp):
ATATAAGAGAAAA
Found at i:430031 original size:21 final size:21
Alignment explanation
Indices: 430007--430047 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
429997 TTCTGCTGAT
*
430007 ACAAGTGAGACTTCTACCGAA
1 ACAAGTCAGACTTCTACCGAA
*
430028 ACAAGTCATACTTCTACCGA
1 ACAAGTCAGACTTCTACCGA
430048 TACTAAAAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.37, C:0.27, G:0.15, T:0.22
Consensus pattern (21 bp):
ACAAGTCAGACTTCTACCGAA
Found at i:437521 original size:7 final size:7
Alignment explanation
Indices: 437509--437541 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
437499 GGACTTGGAC
437509 ATTTTTA
1 ATTTTTA
437516 ATTTTTA
1 ATTTTTA
437523 ATTTTTA
1 ATTTTTA
437530 ATTTTTA
1 ATTTTTA
437537 ATTTT
1 ATTTT
437542 GGATGGTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (7 bp):
ATTTTTA
Found at i:439052 original size:18 final size:19
Alignment explanation
Indices: 439026--439068 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
439016 CAAATAGTAA
439026 TAAAATAGG-AAAATTAAT
1 TAAAATAGGTAAAATTAAT
*
439044 TAAATTAGGTAAAATTAAT
1 TAAAATAGGTAAAATTAAT
*
439063 GAAAAT
1 TAAAAT
439069 CTAAAACTCT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.58, C:0.00, G:0.12, T:0.30
Consensus pattern (19 bp):
TAAAATAGGTAAAATTAAT
Found at i:439931 original size:18 final size:18
Alignment explanation
Indices: 439910--439949 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
439900 AATGATTAAG
439910 AAAAA-TCAAATTTTGTTT
1 AAAAATTCAAATTTT-TTT
*
439928 AAAAATTTAAATTTTTTT
1 AAAAATTCAAATTTTTTT
439946 AAAA
1 AAAA
439950 TGAATATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (18 bp):
AAAAATTCAAATTTTTTT
Found at i:439932 original size:19 final size:18
Alignment explanation
Indices: 439910--439949 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
439900 AATGATTAAG
439910 AAAAATCAAATTTTGTTTA
1 AAAAATCAAATTTT-TTTA
* *
439929 AAAATTTAAATTTTTTTA
1 AAAAATCAAATTTTTTTA
439947 AAA
1 AAA
439950 TGAATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (18 bp):
AAAAATCAAATTTTTTTA
Found at i:439970 original size:131 final size:130
Alignment explanation
Indices: 439824--440084 Score: 302
Period size: 131 Copynumber: 2.0 Consensus size: 130
439814 TGGTGGTCGA
* *
439824 ATTTTTTTTTAT-AAAA-TTAAAGTTT-TTTTTTAAACAAAATCACTAATTTTCTTAAAAATCAA
1 ATTTTTTTTTATAAAAACCTAAACTTTATTTTTT---CAAAAT-ACTAATTTTCTTAAAAATCAA
*
439886 AACTTTTATTTCAAAAT-GATTAAGAAAAATC-AAATTTTGTTTAAAAATTTAAA-TTTTTTTAA
62 AACTTTTATTTCAAAATAG-TT-A-AAAAATCAAAACTTTGTTTAAAAATTTAAATTTTTTTTAA
439948 AATGAAT
124 AATGAAT
** * * *
439955 ATTTTTATTTT-TAAAAAACCTAAACTTTATTTTTTTTAAATATTACTTTTCTTAAAAATTAAAA
1 ATTTTT-TTTTAT-AAAAACCTAAACTTTATTTTTTCAAAATACTAATTTTCTTAAAAATCAAAA
*
440019 CTTTTATTTCAAAATAGTTAAAAAATCAAAACTTTGTTTAAAATTTTAAATTTTTTTTTAAAATG
64 CTTTTATTTCAAAATAGTTAAAAAATCAAAACTTTGTTTAAAAATTTAAA-TTTTTTTTAAAATG
440084 A
128 A
440085 CTAAAAACAT
Statistics
Matches: 112, Mismatches: 9, Indels: 17
0.81 0.07 0.12
Matches are distributed among these distances:
129 7 0.06
130 21 0.19
131 44 0.39
132 23 0.21
133 4 0.04
134 7 0.06
135 6 0.05
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.48
Consensus pattern (130 bp):
ATTTTTTTTTATAAAAACCTAAACTTTATTTTTTCAAAATACTAATTTTCTTAAAAATCAAAACT
TTTATTTCAAAATAGTTAAAAAATCAAAACTTTGTTTAAAAATTTAAATTTTTTTTAAAATGAAT
Found at i:440151 original size:132 final size:132
Alignment explanation
Indices: 440001--440246 Score: 379
Period size: 132 Copynumber: 1.9 Consensus size: 132
439991 TAAATATTAC
* * *
440001 TTTTCTTAAAAATTAAAACTTTTATTTCAAAATAGTTAAAAAATCAAAACTTTGTTTAAAATTTT
1 TTTTCTTAAAAATCAAAACTTTTATTTCAAAATAGTTAAAAAATCAAAA-TTTATTTAAAAATTT
** *
440066 AAA-TTTTTTTTTAAAATGACT-AAAAACATATTTTTGTTTTTTAAAAATCTAAAAAGAAAATTA
65 AAACTTTTCCTTTAAAATGACTAAAAAACATATTTTT-ATTTTTAAAAATCTAAAAAGAAAATTA
440129 CTAT
129 CTAT
**
440133 TTTTCTTAAAAATCAAAACTTTTATTTTGAAATAGTTAAAAAATCAAAATTTATTTAAAAATTTA
1 TTTTCTTAAAAATCAAAACTTTTATTTCAAAATAGTTAAAAAATCAAAATTTATTTAAAAATTTA
440198 AACCTTTTCCTTTAAAATGACTAAAAAACATATTTTTATTTTTAAAAAT
66 AA-CTTTTCCTTTAAAATGACTAAAAAACATATTTTTATTTTTAAAAAT
440247 TTAATTTTTT
Statistics
Matches: 103, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
131 16 0.16
132 46 0.45
133 27 0.26
134 14 0.14
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.43
Consensus pattern (132 bp):
TTTTCTTAAAAATCAAAACTTTTATTTCAAAATAGTTAAAAAATCAAAATTTATTTAAAAATTTA
AACTTTTCCTTTAAAATGACTAAAAAACATATTTTTATTTTTAAAAATCTAAAAAGAAAATTACT
AT
Found at i:440275 original size:18 final size:18
Alignment explanation
Indices: 440254--440301 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
440244 AATTTAATTT
**
440254 TTTTTTTAAAATCACTAC
1 TTTTTTTAAAATCAAAAC
*
440272 TTTTCTTAAAAATCAAAAC
1 TTTT-TTTAAAATCAAAAC
*
440291 TTTGTTTAAAA
1 TTTTTTTAAAA
440302 ATTTAAAAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
18 10 0.42
19 14 0.58
ACGTcount: A:0.40, C:0.12, G:0.02, T:0.46
Consensus pattern (18 bp):
TTTTTTTAAAATCAAAAC
Found at i:440364 original size:108 final size:108
Alignment explanation
Indices: 440171--440371 Score: 314
Period size: 108 Copynumber: 1.9 Consensus size: 108
440161 GAAATAGTTA
** *
440171 AAAAATCAAAATTTATTTAAAAATTTAAACCTTTTCCTTTAAAATGACTAAAAAACATATTTTTA
1 AAAAATCAAAATTTATTTAAAAATTTAAAAATTTTCCTTTAAAATAACTAAAAAACATATTTTTA
* *
440236 TTTTTAAAAATTTAATTTTTTTTTTAAAATCACTACTTTTCTT
66 TTTTTAAAAATCTAAATTTTTTTTTAAAATCACTACTTTTCTT
* * *
440279 AAAAATCAAAACTTTGTTTAAAAATTTAAAAATTTTTCTTTAAAATAACT-GAAAACATATTTTT
1 AAAAATCAAAA-TTTATTTAAAAATTTAAAAATTTTCCTTTAAAATAACTAAAAAACATATTTTT
440343 ATTTTTAAAAATCTAAATTTTTTTTTAAA
65 ATTTTTAAAAATCTAAATTTTTTTTTAAA
440372 TTGTACTTTT
Statistics
Matches: 84, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
108 51 0.61
109 33 0.39
ACGTcount: A:0.44, C:0.08, G:0.01, T:0.46
Consensus pattern (108 bp):
AAAAATCAAAATTTATTTAAAAATTTAAAAATTTTCCTTTAAAATAACTAAAAAACATATTTTTA
TTTTTAAAAATCTAAATTTTTTTTTAAAATCACTACTTTTCTT
Found at i:446868 original size:13 final size:11
Alignment explanation
Indices: 446836--446883 Score: 53
Period size: 11 Copynumber: 4.3 Consensus size: 11
446826 CCATTTTCTA
*
446836 AATAAAATAAT
1 AATAAAATATT
446847 AAT-AAATATTT
1 AATAAAATA-TT
446858 AAGTAAAATATT
1 AA-TAAAATATT
*
446870 AATAAAATAAT
1 AATAAAATATT
446881 AAT
1 AAT
446884 TAATTAATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
10 5 0.16
11 17 0.53
12 5 0.16
13 5 0.16
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (11 bp):
AATAAAATATT
Found at i:448383 original size:34 final size:34
Alignment explanation
Indices: 448345--448413 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
448335 TTGATGGAAG
448345 AACACCAACAAAGCTTCTTGCCTAGCTCTCCACC
1 AACACCAACAAAGCTTCTTGCCTAGCTCTCCACC
448379 AACACCAACAAAGCTTCTTGCCTAGCTCTCCACC
1 AACACCAACAAAGCTTCTTGCCTAGCTCTCCACC
448413 A
1 A
448414 CTTTGCCTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.30, C:0.41, G:0.09, T:0.20
Consensus pattern (34 bp):
AACACCAACAAAGCTTCTTGCCTAGCTCTCCACC
Found at i:452856 original size:60 final size:59
Alignment explanation
Indices: 452775--453397 Score: 323
Period size: 61 Copynumber: 10.6 Consensus size: 59
452765 TGTTTACTAT
* * **
452775 TGCATGGCCGACACCACCTTTTTATCTGATAAAAAATTAAAACTTTTTTGTGTTGGCCA
1 TGCATGGTCGACACCATCTTTTTATCTGATAAAAAATTAAATTTTTTTTGTGTTGGCCA
* *
452834 TGCATTGGTCGACACCATCTTTTTAT-TAGATAAAAAA-T-AATTTTTTTTTTGTTCGCCA
1 TGCA-TGGTCGACACCATCTTTTTATCT-GATAAAAAATTAAATTTTTTTTGTGTTGGCCA
* * * * * *
452892 TTACATGATTGACACCACTTTTTTTATCTGAT-TAAAATTAAATTTTTTTTTGTGTCGG-C-
1 -TGCATGGTCGACACCA-TCTTTTTATCTGATAAAAAATTAAA-TTTTTTTTGTGTTGGCCA
* * * *
452951 --CAT-G-C--CA-C-TTTTTTTATCTGACAAAAAATTCAAAATTTTTTTGTGTTGGTCA
1 TGCATGGTCGACACCATCTTTTTATCTGATAAAAAATT-AAATTTTTTTTGTGTTGGCCA
* * * *
453003 TGTATTGGTCGACACCATTTTTTTATCTGATAAAAAAAATCAAA-TTTTTTGGTGTTGGCCA
1 TGCA-TGGTCGACACCATCTTTTTATCTGAT--AAAAAATTAAATTTTTTTTGTGTTGGCCA
* * * * * *
453064 TTGCATGATCGACACCACCTTTTTTATCTAACAAAAAATTCAAACTTTTTTGGTGTTGGCCA
1 -TGCATGGTCGACACCATC-TTTTTATCTGATAAAAAATT-AAATTTTTTTTGTGTTGGCCA
* * * * *
453126 CGCATTGG-CTGACACCAGTATTTTT-T-TTAT-CAGAATT---TTTTTTTTGTGTTGGCCA
1 TGCA-TGGTC-GACACCA-TCTTTTTATCTGATAAAAAATTAAATTTTTTTTGTGTTGGCCA
** * * * *
453181 TTGTTTGGTCGACACCACCTTTTTATCAGATAAAAAATTCAAATTTTTTTGGTGTTGGTCA
1 -TGCATGGTCGACACCATCTTTTTATCTGATAAAAAATT-AAATTTTTTTTGTGTTGGCCA
* * * ** * *
453242 TGCGTTGATCGACACCAGCATTTTT-T-T-AT-CTAGA-TAATTTTTTTTTG-GCATTGGCCA
1 TGC-ATGGTCGACACCATC-TTTTTATCTGATAAAAAATTAAATTTTTTTTGTG--TTGGCCA
* * * * *
453299 TTGCTTGGCCAACACCATCTTTTTTATCTGATAAAAAATTCAAA-TTTTTTGGTGTTGGCCT
1 -TGCATGGTCGACACCATC-TTTTTATCTGATAAAAAATT-AAATTTTTTTTGTGTTGGCCA
* * * **
453360 TGCATTGGTCAACACAACCTTTTTTATCAAATAAAAAA
1 TGCA-TGGTCGACACCATC-TTTTTATCTGATAAAAAA
453398 AATTTGATGT
Statistics
Matches: 432, Mismatches: 80, Indels: 102
0.70 0.13 0.17
Matches are distributed among these distances:
49 13 0.03
50 19 0.04
51 5 0.01
52 2 0.00
54 6 0.01
55 29 0.07
56 18 0.04
57 29 0.07
58 36 0.08
59 31 0.07
60 49 0.11
61 125 0.29
62 60 0.14
63 10 0.02
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.42
Consensus pattern (59 bp):
TGCATGGTCGACACCATCTTTTTATCTGATAAAAAATTAAATTTTTTTTGTGTTGGCCA
Found at i:452939 original size:59 final size:60
Alignment explanation
Indices: 452783--452953 Score: 172
Period size: 59 Copynumber: 2.9 Consensus size: 60
452773 ATTGCATGGC
* * * * *
452783 CGACACCAC-CTTTTTATCTGATAAAAAATTAAAACTTTTTTGTGTTGGCCA-TGCATTGGT
1 CGACACCACTCTTTTTATCTGAT-AAAAATT-AAATTTTTTTTTGTTCGCCATTACATTGAT
* *
452843 CGACACCA-TCTTTTTAT-TAGATAAAAAATAATTTTTTTTTTGTTCGCCATTACA-TGAT
1 CGACACCACTCTTTTTATCT-GATAAAAATTAAATTTTTTTTTGTTCGCCATTACATTGAT
* * *
452901 TGACACCACTTTTTTTATCTGATTAAAATTAAATTTTTTTTTGTGTCGGCCAT
1 CGACACCACTCTTTTTATCTGATAAAAATTAAATTTTTTTTTGT-TC-GCCAT
452954 GCCACTTTTT
Statistics
Matches: 92, Mismatches: 12, Indels: 13
0.79 0.10 0.11
Matches are distributed among these distances:
58 26 0.28
59 39 0.42
60 22 0.24
61 5 0.05
ACGTcount: A:0.28, C:0.16, G:0.12, T:0.44
Consensus pattern (60 bp):
CGACACCACTCTTTTTATCTGATAAAAATTAAATTTTTTTTTGTTCGCCATTACATTGAT
Found at i:453217 original size:117 final size:117
Alignment explanation
Indices: 453047--453367 Score: 384
Period size: 116 Copynumber: 2.7 Consensus size: 117
453037 AAAAATCAAA
* * * *
453047 TTTTTTGGTGTTGGCCATTGCATGATCGACACCACCTTTTTTATCTA-ACAAAAAATTCAAACTT
1 TTTTTTTGTGTTGGCCATTGCTTGGTCGACACCACC-TTTTTATC-AGATAAAAAATTCAAA-TT
* * * *
453111 TTTTGGTGTTGGCCACGCATTGGCT-GACACCAGTATTTTTTTTATC-AGA-ATTT
63 TTTTGGTGTTGGCCATGCATTGGATCGACACCAGCA-TTTTTTTATCTAGATAATT
*
453164 TTTTTTTGTGTTGGCCATTGTTTGGTCGACACCACCTTTTTATCAGATAAAAAATTCAAATTTTT
1 TTTTTTTGTGTTGGCCATTGCTTGGTCGACACCACCTTTTTATCAGATAAAAAATTCAAA-TTTT
* *
453229 TTGGTGTTGGTCATGCGTT-GATCGACACCAGCATTTTTTTATCTAGATAATT
65 TTGGTGTTGGCCATGCATTGGATCGACACCAGCATTTTTTTATCTAGATAATT
* * * *
453281 TTTTTTTG-GCATTGGCCATTGCTTGGCCAACACCATCTTTTTTATCTGATAAAAAATTCAAATT
1 TTTTTTTGTG--TTGGCCATTGCTTGGTCGACACCA-CCTTTTTATCAGATAAAAAATTCAAATT
*
453345 TTTTGGTGTTGGCCTTGCATTGG
63 TTTTGGTGTTGGCCATGCATTGG
453368 TCAACACAAC
Statistics
Matches: 176, Mismatches: 20, Indels: 14
0.84 0.10 0.07
Matches are distributed among these distances:
115 13 0.07
116 54 0.31
117 43 0.24
118 41 0.23
119 25 0.14
ACGTcount: A:0.23, C:0.17, G:0.17, T:0.43
Consensus pattern (117 bp):
TTTTTTTGTGTTGGCCATTGCTTGGTCGACACCACCTTTTTATCAGATAAAAAATTCAAATTTTT
TGGTGTTGGCCATGCATTGGATCGACACCAGCATTTTTTTATCTAGATAATT
Found at i:453349 original size:178 final size:178
Alignment explanation
Indices: 452960--453398 Score: 400
Period size: 178 Copynumber: 2.4 Consensus size: 178
452950 CCATGCCACT
* * **
452960 TTTTTTATCTGACAAAAAATTCAAAATTTTTTTGTGTTGGTCA-TGTATTGGTCGACACCATTTT
1 TTTTTTATCTGATAAAAAATTC-AAA-TTTTTTGTGTTGGCCATTGT-TTGGTCGACACCACCTT
*
453024 TTTATCTGATAAAAAAAATCAAATTTTTTGGTGTTGGCCATTGCATGATCGACACCACCTTTTTT
63 TTTATCAGAT-AAAAAAATCAAATTTTTTGGTGTTGGCCATTGCATGATCGACACCACCTTTTTT
** **
453089 ATCTAACAAAAAATTCAAACTTTTTTGGTGTTGGCCACGCATTGGCTGACACCAGTA
127 ATCT-A-AAAAAATT---ACTTTTTTGGCATTGGCCACGCATTGGCCAACACCAGTA
* * **
453146 TTTTTT-T-T-AT-CAGAATT--TTTTTTTTGTGTTGGCCATTGTTTGGTCGACACCACCTTTTT
1 TTTTTTATCTGATAAAAAATTCAAATTTTTTGTGTTGGCCATTGTTTGGTCGACACCACCTTTTT
* * * *
453205 ATCAGATAAAAAATTCAAATTTTTTTGGTGTTGGTCA-TGCGTTGATCGACACCAGCATTTTTTT
66 ATCAGATAAAAAAATCAAA-TTTTTTGGTGTTGGCCATTGC-ATGATCGACACCA-C-CTTTTTT
* * * * *
453269 ATCT-AGATAATT-TTTTTTTGGCATTGGCCATTGC-TTGGCCAACACCA-TC
127 ATCTAAAAAAATTACTTTTTTGGCATTGGCCA-CGCATTGGCCAACACCAGTA
* * *
453318 TTTTTTATCTGATAAAAAATTCAAATTTTTTGGTGTTGGCC-TTGCATTGGTCAACACAACCTTT
1 TTTTTTATCTGATAAAAAATTCAAATTTTTT-GTGTTGGCCATTG-TTTGGTCGACACCACC-TT
*
453382 TTTATCAAATAAAAAAA
63 TTTATCAGATAAAAAAA
453399 ATTTGATGTT
Statistics
Matches: 207, Mismatches: 31, Indels: 36
0.76 0.11 0.13
Matches are distributed among these distances:
172 7 0.03
173 27 0.13
174 3 0.01
175 2 0.01
176 5 0.02
177 20 0.10
178 76 0.37
179 26 0.13
180 27 0.13
182 5 0.02
183 1 0.00
184 1 0.00
185 1 0.00
186 6 0.03
ACGTcount: A:0.27, C:0.16, G:0.15, T:0.42
Consensus pattern (178 bp):
TTTTTTATCTGATAAAAAATTCAAATTTTTTGTGTTGGCCATTGTTTGGTCGACACCACCTTTTT
ATCAGATAAAAAAATCAAATTTTTTGGTGTTGGCCATTGCATGATCGACACCACCTTTTTTATCT
AAAAAAATTACTTTTTTGGCATTGGCCACGCATTGGCCAACACCAGTA
Found at i:453384 original size:118 final size:114
Alignment explanation
Indices: 452955--453384 Score: 362
Period size: 118 Copynumber: 3.6 Consensus size: 114
452945 GTCGGCCATG
* * * * * *
452955 CCACTTTTTTTATCTGACAAAAAATTCAAAATTTTTTTGTGTTGGTCATGTATTGGTCGACACCA
1 CCAC-TTTTTTATCTGATAAAAAATTCAAACTTTTTTGGTGTTGGCCATGCATTGGTCGACACAA
* * * * * * *
453020 -TTTTTTTATCTGATAAAAAAAATCAAATTTTTTGGTGTTGGCCATTGCATGATCGACA
65 CCTTTTTT-T-T-AT--CAGAAAT---TTTTTTTTG-GTTGGCCATTGCTTGGTCGACA
* * *
453078 CCACCTTTTTTATCTAACAAAAAATTCAAACTTTTTTGGTGTTGGCCACGCATTGG-CTGACACC
1 CCA-CTTTTTTATCTGATAAAAAATTCAAACTTTTTTGGTGTTGGCCATGCATTGGTC-GACA-C
*** * *
453142 AGTATTTTTTTTATCAGAATTTTTTTTTTGTGTTGGCCATTGTTTGGTCGACA
63 AACCTTTTTTTTATCAGAAATTTTTTTTTG-GTTGGCCATTGCTTGGTCGACA
* * * * * * * *
453195 CCACCTTTTTATCAGATAAAAAATTCAAATTTTTTTGGTGTTGGTCATGCGTTGATCGACACCAG
1 CCACTTTTTTATCTGATAAAAAATTCAAACTTTTTTGGTGTTGGCCATGCATTGGTCGACACAAC
* * *
453260 CATTTTTTTATCTAGATAATTTTTTTTTGGCATTGGCCATTGCTTGGCCAACA
66 CTTTTTTTTATC-AGA-AATTTTTTTTTGG--TTGGCCATTGCTTGGTCGACA
* *
453313 CCATCTTTTTTATCTGATAAAAAATTCAAA-TTTTTTGGTGTTGGCCTTGCATTGGTCAACACAA
1 CCA-CTTTTTTATCTGATAAAAAATTCAAACTTTTTTGGTGTTGGCCATGCATTGGTCGACACAA
453377 CCTTTTTT
65 CCTTTTTT
453385 ATCAAATAAA
Statistics
Matches: 252, Mismatches: 45, Indels: 25
0.78 0.14 0.08
Matches are distributed among these distances:
115 11 0.04
116 51 0.20
117 42 0.17
118 55 0.22
119 24 0.10
120 4 0.02
122 3 0.01
123 53 0.21
124 3 0.01
125 6 0.02
ACGTcount: A:0.25, C:0.17, G:0.15, T:0.43
Consensus pattern (114 bp):
CCACTTTTTTATCTGATAAAAAATTCAAACTTTTTTGGTGTTGGCCATGCATTGGTCGACACAAC
CTTTTTTTTATCAGAAATTTTTTTTTGGTTGGCCATTGCTTGGTCGACA
Found at i:457309 original size:12 final size:12
Alignment explanation
Indices: 457280--457310 Score: 55
Period size: 11 Copynumber: 2.7 Consensus size: 12
457270 TATTTATGTA
457280 AAAATTAATTTG
1 AAAATTAATTTG
457292 -AAATTAATTTG
1 AAAATTAATTTG
457303 AAAATTAA
1 AAAATTAA
457311 GGTACATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 11 0.61
12 7 0.39
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (12 bp):
AAAATTAATTTG
Found at i:457421 original size:11 final size:11
Alignment explanation
Indices: 457395--457432 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
457385 GAAGTTGAAA
457395 TTAAAATTATAT
1 TTAAAATTA-AT
457407 TTAAAATTAAT
1 TTAAAATTAAT
*
457418 TTAACATT-AT
1 TTAAAATTAAT
457428 TTAAA
1 TTAAA
457433 TAAAAAAGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 6 0.25
11 9 0.38
12 9 0.38
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (11 bp):
TTAAAATTAAT
Done.