Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167849.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_12, 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: 22966848
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 129000 characters in sequence are not A, C, G, or T
File 69 of 129
Found at i:10675369 original size:28 final size:28
Alignment explanation
Indices: 10675329--10675383 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
10675319 TCAATCGTTT
10675329 CTTTTCCAATTACTTTGACAAGAACATG
1 CTTTTCCAATTACTTTGACAAGAACATG
*
10675357 CTTTTCCAATTACTTTGACAGGAACAT
1 CTTTTCCAATTACTTTGACAAGAACAT
10675384 AATTTCTCAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.36
Consensus pattern (28 bp):
CTTTTCCAATTACTTTGACAAGAACATG
Found at i:10676492 original size:13 final size:14
Alignment explanation
Indices: 10676462--10676493 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
10676452 AATATATAAA
10676462 ATTAATAAAAAATG
1 ATTAATAAAAAATG
10676476 -TTAAT-AAAAATG
1 ATTAATAAAAAATG
10676488 ATTAAT
1 ATTAAT
10676494 TATTCGACCA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 7 0.41
13 10 0.59
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.34
Consensus pattern (14 bp):
ATTAATAAAAAATG
Found at i:10676996 original size:17 final size:17
Alignment explanation
Indices: 10676974--10677010 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
10676964 TGAATTTTGA
10676974 ATTTTTAAAATATTTAT
1 ATTTTTAAAATATTTAT
* *
10676991 ATTTTTATAATATTTTT
1 ATTTTTAAAATATTTAT
10677008 ATT
1 ATT
10677011 GAATCGATAA
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:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
ATTTTTAAAATATTTAT
Found at i:10681989 original size:28 final size:28
Alignment explanation
Indices: 10681922--10681989 Score: 66
Period size: 28 Copynumber: 2.4 Consensus size: 28
10681912 AATAGTTGAA
***
10681922 AAATTATAATAAATATTAAATATAATATTT
1 AAATTAT-A-AAATATTAAATATAATAAAC
*
10681952 AAACTT-TAAAATATTTAATATAATAAAC
1 AAA-TTATAAAATATTAAATATAATAAAC
10681980 AAATTATAAA
1 AAATTATAAA
10681990 TTTATTAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
27 2 0.06
28 23 0.72
29 1 0.03
30 4 0.12
31 2 0.06
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (28 bp):
AAATTATAAAATATTAAATATAATAAAC
Found at i:10682052 original size:27 final size:28
Alignment explanation
Indices: 10682022--10682088 Score: 68
Period size: 27 Copynumber: 2.5 Consensus size: 28
10682012 ATTTTTAAAT
10682022 ATATTA-ATTAATAAAT-TTATAAATTAA
1 ATATTACATTAA-AAATATTATAAATTAA
* * *
10682049 ATATCACA-TAAAATTATTATAATTTAA
1 ATATTACATTAAAAATATTATAAATTAA
*
10682076 ATATTATATTAAA
1 ATATTACATTAAA
10682089 TATTTTTTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
26 3 0.09
27 24 0.75
28 5 0.16
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (28 bp):
ATATTACATTAAAAATATTATAAATTAA
Found at i:10682162 original size:19 final size:18
Alignment explanation
Indices: 10682138--10682175 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
10682128 CTTAACTATG
*
10682138 AAAATAATATATAAATAAA
1 AAAATAATAAATAAA-AAA
10682157 AAAATAATAAATAAAAAA
1 AAAATAATAAATAAAAAA
10682175 A
1 A
10682176 GAAACAAACC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (18 bp):
AAAATAATAAATAAAAAA
Found at i:10682168 original size:15 final size:16
Alignment explanation
Indices: 10682138--10682175 Score: 60
Period size: 15 Copynumber: 2.4 Consensus size: 16
10682128 CTTAACTATG
*
10682138 AAAATAATATATAAAT
1 AAAAAAATATATAAAT
10682154 AAAAAAATA-ATAAAT
1 AAAAAAATATATAAAT
10682169 AAAAAAA
1 AAAAAAA
10682176 GAAACAAACC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (16 bp):
AAAAAAATATATAAAT
Found at i:10682425 original size:2 final size:2
Alignment explanation
Indices: 10682390--10682441 Score: 54
Period size: 2 Copynumber: 27.0 Consensus size: 2
10682380 TGCCAAAATG
* * * *
10682390 AT AT A- AT AT AT AC AT AT AC AT AC AT A- AC 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
10682430 AT AT AT AT AT AT
1 AT AT AT AT AT AT
10682442 GTTTGTCGTA
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
1 2 0.05
2 39 0.95
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (2 bp):
AT
Found at i:10684714 original size:5 final size:5
Alignment explanation
Indices: 10684698--10684749 Score: 59
Period size: 5 Copynumber: 10.2 Consensus size: 5
10684688 GTTTGAATTG
* * * *
10684698 AGGAA AGAGAA AGGAA AGGAA AGGAA AGTAA AGTAA AAGAA TGGAA AGGAA
1 AGGAA AG-GAA AGGAA AGGAA AGGAA AGGAA AGGAA AGGAA AGGAA AGGAA
10684749 A
1 A
10684750 CAAAACTTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
5 35 0.88
6 5 0.12
ACGTcount: A:0.62, C:0.00, G:0.33, T:0.06
Consensus pattern (5 bp):
AGGAA
Found at i:10686573 original size:2 final size:2
Alignment explanation
Indices: 10686566--10686590 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10686556 CAGAAAGGCT
10686566 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
10686591 TTATCGTTGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10687958 original size:153 final size:153
Alignment explanation
Indices: 10687680--10687967 Score: 531
Period size: 153 Copynumber: 1.9 Consensus size: 153
10687670 GATATATGCC
10687680 ATTTGAATAACATATGCATACTTAGTTCAACTCATTTTGAAAGAAATGAACCCAAAAAACTTTTC
1 ATTTGAATAACATATGCATACTTAGTTCAACTCATTTTGAAAGAAATGAACCCAAAAAACTTTTC
*
10687745 TTGTACAACAGCACCTCAATGTTTTAGGATCACAAAATGCATACCTGAGAAAGAGAGACATCAGG
66 TTGTACAACAGCACCTCAATGTTTTAAGATCACAAAATGCATACCTGAGAAAGAGAGACATCAGG
10687810 CTTCTACAGATATATGCTACATT
131 CTTCTACAGATATATGCTACATT
* * * *
10687833 ATTTGAATAACATATGCATACTTCGTTCTACTCATTTTGAAAGAAATGAACCCCAAAAAGTTTTC
1 ATTTGAATAACATATGCATACTTAGTTCAACTCATTTTGAAAGAAATGAACCCAAAAAACTTTTC
10687898 TTGTACAACAGCACCTCAATGTTTTAAGATCACAAAATGCATACCTGAGAAAGAGAGACATCAGG
66 TTGTACAACAGCACCTCAATGTTTTAAGATCACAAAATGCATACCTGAGAAAGAGAGACATCAGG
10687963 CTTCT
131 CTTCT
10687968 CCAGCTCATC
Statistics
Matches: 130, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
153 130 1.00
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.29
Consensus pattern (153 bp):
ATTTGAATAACATATGCATACTTAGTTCAACTCATTTTGAAAGAAATGAACCCAAAAAACTTTTC
TTGTACAACAGCACCTCAATGTTTTAAGATCACAAAATGCATACCTGAGAAAGAGAGACATCAGG
CTTCTACAGATATATGCTACATT
Found at i:10690940 original size:22 final size:22
Alignment explanation
Indices: 10690909--10690950 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
10690899 AAATCTCATT
* *
10690909 TTTTTTTCTTAGGATATTCAAC
1 TTTTTCTCTTAGAATATTCAAC
*
10690931 TTTTTCTCTTTGAATATTCA
1 TTTTTCTCTTAGAATATTCA
10690951 CATTTATCTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.21, C:0.14, G:0.07, T:0.57
Consensus pattern (22 bp):
TTTTTCTCTTAGAATATTCAAC
Found at i:10691912 original size:25 final size:26
Alignment explanation
Indices: 10691883--10691941 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 26
10691873 AACATAAATG
10691883 TTAAAATAT-TAAAAACTATTTATTA
1 TTAAAATATGTAAAAACTATTTATTA
* **
10691908 TTAAAATATGTTAAATTTATTTATTA
1 TTAAAATATGTAAAAACTATTTATTA
10691934 TTAAAATA
1 TTAAAATA
10691942 ATTATATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 9 0.30
26 21 0.70
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (26 bp):
TTAAAATATGTAAAAACTATTTATTA
Found at i:10691952 original size:26 final size:26
Alignment explanation
Indices: 10691899--10691950 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
10691889 TATTAAAAAC
*
10691899 TATTTATTATTAAAATATGTTAAATT
1 TATTTATTATTAAAATATATTAAATT
*
10691925 TATTTATTATTAAAATA-ATTATATT
1 TATTTATTATTAAAATATATTAAATT
10691950 T
1 T
10691951 TAATAATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (26 bp):
TATTTATTATTAAAATATATTAAATT
Found at i:10692985 original size:15 final size:15
Alignment explanation
Indices: 10692965--10693007 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
10692955 CATAAGACTT
10692965 CTAATATCATATATA
1 CTAATATCATATATA
10692980 CTAATATCATA-AT-
1 CTAATATCATATATA
10692993 CTATATAT-ATATATA
1 CTA-ATATCATATATA
10693008 TATGTATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
13 6 0.24
14 8 0.32
15 11 0.44
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.42
Consensus pattern (15 bp):
CTAATATCATATATA
Found at i:10698319 original size:20 final size:20
Alignment explanation
Indices: 10698296--10698345 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
10698286 TTATTATTAC
* *
10698296 TTGCTTGATTATATTTATTT
1 TTGCATGATTATATTCATTT
10698316 TTGCATGATTATATTCATTT
1 TTGCATGATTATATTCATTT
*
10698336 TTGTATGATT
1 TTGCATGATT
10698346 TATAATTGCA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.22, C:0.06, G:0.12, T:0.60
Consensus pattern (20 bp):
TTGCATGATTATATTCATTT
Found at i:10698376 original size:20 final size:19
Alignment explanation
Indices: 10698347--10698417 Score: 62
Period size: 20 Copynumber: 3.8 Consensus size: 19
10698337 TGTATGATTT
10698347 ATAA-TTGCATGTTTATTA
1 ATAATTTGCATGTTTATTA
*
10698365 ATACATTTGCATG---ATTT
1 ATA-ATTTGCATGTTTATTA
*
10698382 ATAA-TTGCATATTTATTA
1 ATAATTTGCATGTTTATTA
10698400 ATATATTTGCATGATTTA
1 ATA-ATTTGCATG-TTTA
10698418 AAATTGTATG
Statistics
Matches: 41, Mismatches: 4, Indels: 13
0.71 0.07 0.22
Matches are distributed among these distances:
15 6 0.15
16 1 0.02
17 6 0.15
18 9 0.22
19 2 0.05
20 13 0.32
21 4 0.10
ACGTcount: A:0.34, C:0.07, G:0.10, T:0.49
Consensus pattern (19 bp):
ATAATTTGCATGTTTATTA
Found at i:10698379 original size:35 final size:35
Alignment explanation
Indices: 10698335--10698442 Score: 162
Period size: 35 Copynumber: 3.1 Consensus size: 35
10698325 TATATTCATT
* *
10698335 TTTGTATGATTTATAATTGCATGTTTATTAATACA
1 TTTGCATGATTTATAATTGCATGTTTATTAATATA
*
10698370 TTTGCATGATTTATAATTGCATATTTATTAATATA
1 TTTGCATGATTTATAATTGCATGTTTATTAATATA
* * *
10698405 TTTGCATGATTTAAAATTGTATGATTATTAATATA
1 TTTGCATGATTTATAATTGCATGTTTATTAATATA
10698440 TTT
1 TTT
10698443 ATTAGTATCT
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 66 1.00
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.52
Consensus pattern (35 bp):
TTTGCATGATTTATAATTGCATGTTTATTAATATA
Found at i:10698401 original size:15 final size:15
Alignment explanation
Indices: 10698340--10698397 Score: 55
Period size: 15 Copynumber: 3.6 Consensus size: 15
10698330 TCATTTTTGT
10698340 ATGATTTATAATTGC
1 ATGATTTATAATTGC
*
10698355 ATGTTTATTAATACATTTGC
1 ATG---ATTTATA-A-TTGC
10698375 ATGATTTATAATTGC
1 ATGATTTATAATTGC
10698390 AT-ATTTAT
1 ATGATTTAT
10698398 TAATATATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 11
0.73 0.04 0.22
Matches are distributed among these distances:
14 6 0.17
15 9 0.25
16 1 0.03
17 6 0.17
18 6 0.17
19 1 0.03
20 7 0.19
ACGTcount: A:0.33, C:0.07, G:0.10, T:0.50
Consensus pattern (15 bp):
ATGATTTATAATTGC
Found at i:10698495 original size:20 final size:20
Alignment explanation
Indices: 10698455--10698592 Score: 85
Period size: 20 Copynumber: 7.1 Consensus size: 20
10698445 TAGTATCTAT
*
10698455 TTGCATGATATTTTAATATTA
1 TTGCATGATAATTT-ATATTA
10698476 TTGCATGATAATTTATATTAA
1 TTGCATGATAATTTATATT-A
* *
10698497 TAGTATGATAATGTTATA-T-
1 TTGCATGATAAT-TTATATTA
*
10698516 TTGCATGATTAA-TT-T-GT-
1 TTGCATGA-TAATTTATATTA
* *
10698533 TTGCATGGTAA-TTA-ATTT
1 TTGCATGATAATTTATATTA
* * *
10698551 TTACATGATATTTTATACTA
1 TTGCATGATAATTTATATTA
* *
10698571 TTGCATGATATTTTATAATA
1 TTGCATGATAATTTATATTA
10698591 TT
1 TT
10698593 TTATAATATT
Statistics
Matches: 94, Mismatches: 14, Indels: 19
0.74 0.11 0.15
Matches are distributed among these distances:
16 5 0.05
17 10 0.11
18 10 0.11
19 9 0.10
20 30 0.32
21 25 0.27
22 5 0.05
ACGTcount: A:0.33, C:0.05, G:0.12, T:0.51
Consensus pattern (20 bp):
TTGCATGATAATTTATATTA
Found at i:10698591 original size:10 final size:10
Alignment explanation
Indices: 10698558--10698602 Score: 54
Period size: 10 Copynumber: 4.5 Consensus size: 10
10698548 TTTTTACATG
10698558 ATATTTTATA
1 ATATTTTATA
* ** *
10698568 CTATTGCATG
1 ATATTTTATA
10698578 ATATTTTATA
1 ATATTTTATA
10698588 ATATTTTATA
1 ATATTTTATA
10698598 ATATT
1 ATATT
10698603 ATTGCATGTT
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
10 27 1.00
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.56
Consensus pattern (10 bp):
ATATTTTATA
Found at i:10698656 original size:35 final size:35
Alignment explanation
Indices: 10698569--10698660 Score: 100
Period size: 35 Copynumber: 2.7 Consensus size: 35
10698559 TATTTTATAC
* *
10698569 TATTGCAT-G-ATATTTTATAATATTTTATAATAT
1 TATTGCATGGTATATTTTATATTATTATATAATAT
* * *
10698602 TATTGCATGTTTATTTTTTATATTATTATATGAT-T
1 TATTGCATG-GTATATTTTATATTATTATATAATAT
10698637 TATTGCATGGTATGATTTTATATT
1 TATTGCATGGTAT-ATTTTATATT
10698661 TATTGCATGA
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
33 8 0.17
34 3 0.06
35 19 0.40
36 18 0.38
ACGTcount: A:0.29, C:0.03, G:0.10, T:0.58
Consensus pattern (35 bp):
TATTGCATGGTATATTTTATATTATTATATAATAT
Found at i:10703388 original size:20 final size:21
Alignment explanation
Indices: 10703350--10703389 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
10703340 TGTCTTCAAT
* *
10703350 GTATAAACATAAAGCAATAAA
1 GTATAAACAAAAAGAAATAAA
10703371 GTATAAA-AAAAAGAAATAA
1 GTATAAACAAAAAGAAATAA
10703390 GAGAACTCCC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.68, C:0.05, G:0.10, T:0.17
Consensus pattern (21 bp):
GTATAAACAAAAAGAAATAAA
Found at i:10706843 original size:59 final size:59
Alignment explanation
Indices: 10706751--10706868 Score: 200
Period size: 59 Copynumber: 2.0 Consensus size: 59
10706741 GTTATGGTGT
* *
10706751 GAGTTTGAGGCTGAATTTTTAATATGTTGTAGCTAATTGAAGTAGGAAACTATGAACAA
1 GAGTTTGAGGCTGAATTTATAATATGTTGTAGCTAATTGAAGTAGAAAACTATGAACAA
* *
10706810 GAGTTTGAGGTTGAATTTATAATATGTTGTAGCTAATTGAATTAGAAAACTATGAACAA
1 GAGTTTGAGGCTGAATTTATAATATGTTGTAGCTAATTGAAGTAGAAAACTATGAACAA
10706869 ACATTTGAAC
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
59 55 1.00
ACGTcount: A:0.37, C:0.06, G:0.22, T:0.35
Consensus pattern (59 bp):
GAGTTTGAGGCTGAATTTATAATATGTTGTAGCTAATTGAAGTAGAAAACTATGAACAA
Found at i:10706891 original size:59 final size:59
Alignment explanation
Indices: 10706770--10706893 Score: 133
Period size: 59 Copynumber: 2.1 Consensus size: 59
10706760 GCTGAATTTT
* * ***** ***
10706770 TAATATGTTGTAGCTAATTGAAGTAGGAAACTATGAACAAGAGTTTGAGGTTGAATTTA
1 TAATATGTTGTAGCTAATTGAAGTAGAAAACTATGAACAAGAATTTGAACAAAAACAAA
*
10706829 TAATATGTTGTAGCTAATTGAATTAGAAAACTATGAACAA-ACATTTGAACAAAAACAAA
1 TAATATGTTGTAGCTAATTGAAGTAGAAAACTATGAACAAGA-ATTTGAACAAAAACAAA
10706888 TAATAT
1 TAATAT
10706894 TTGAATGAGA
Statistics
Matches: 53, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
58 1 0.02
59 52 0.98
ACGTcount: A:0.44, C:0.07, G:0.17, T:0.31
Consensus pattern (59 bp):
TAATATGTTGTAGCTAATTGAAGTAGAAAACTATGAACAAGAATTTGAACAAAAACAAA
Found at i:10711273 original size:12 final size:12
Alignment explanation
Indices: 10711256--10711282 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
10711246 CTATTTAGTA
10711256 TTTTCATTTTTT
1 TTTTCATTTTTT
10711268 TTTTCATTTTTT
1 TTTTCATTTTTT
10711280 TTT
1 TTT
10711283 ATTTTCAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.07, C:0.07, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTCATTTTTT
Found at i:10718000 original size:12 final size:12
Alignment explanation
Indices: 10717985--10718014 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
10717975 CATTGTAATG
*
10717985 AATTTTGTTTCT
1 AATTTTGTTTAT
10717997 AATTTTGTTTAT
1 AATTTTGTTTAT
10718009 AATTTT
1 AATTTT
10718015 TTGATTTGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.03, G:0.07, T:0.67
Consensus pattern (12 bp):
AATTTTGTTTAT
Found at i:10734501 original size:21 final size:21
Alignment explanation
Indices: 10734462--10734501 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
10734452 TCTTTTAAGT
*
10734462 GATCGATCCCCTATGTGGGGG
1 GATCGATCCCCTATCTGGGGG
* *
10734483 GATCGATCCCTTTTCTGGG
1 GATCGATCCCCTATCTGGG
10734502 TTTCCACACT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.12, C:0.25, G:0.33, T:0.30
Consensus pattern (21 bp):
GATCGATCCCCTATCTGGGGG
Found at i:10735207 original size:20 final size:20
Alignment explanation
Indices: 10735182--10735220 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
10735172 TAATATATCC
*
10735182 ATCAATATCAAAGCATCATT
1 ATCAATATCAAAACATCATT
10735202 ATCAATATCAAAACATCAT
1 ATCAATATCAAAACATCAT
10735221 CAGATTTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.21, G:0.03, T:0.28
Consensus pattern (20 bp):
ATCAATATCAAAACATCATT
Found at i:10735237 original size:18 final size:18
Alignment explanation
Indices: 10735214--10735251 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
10735204 CAATATCAAA
*
10735214 ACATCATCAGATTTTCAT
1 ACATCATCAAATTTTCAT
10735232 ACATCATCAAATTTTCAT
1 ACATCATCAAATTTTCAT
10735250 AC
1 AC
10735252 CAATGTTGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.37, C:0.24, G:0.03, T:0.37
Consensus pattern (18 bp):
ACATCATCAAATTTTCAT
Found at i:10750611 original size:19 final size:19
Alignment explanation
Indices: 10750552--10750611 Score: 68
Period size: 20 Copynumber: 3.2 Consensus size: 19
10750542 TACATGAGAA
10750552 AAACG-ATGCAACTCAAGT
1 AAACGCATGCAACTCAAGT
* * * *
10750570 AAACGCATGGATCAGCCAGT
1 AAACGCATGCAAC-TCAAGT
10750590 AAACGCATGCAACTCAAGT
1 AAACGCATGCAACTCAAGT
10750609 AAA
1 AAA
10750612 GCCAGTTTAT
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
18 5 0.16
19 12 0.38
20 15 0.47
ACGTcount: A:0.43, C:0.23, G:0.18, T:0.15
Consensus pattern (19 bp):
AAACGCATGCAACTCAAGT
Found at i:10754120 original size:23 final size:24
Alignment explanation
Indices: 10754077--10754124 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
10754067 AGAGAATTTG
*
10754077 ATTTGTCTAGTTTTTAAAGAGAGA
1 ATTTGCCTAGTTTTTAAAGAGAGA
*
10754101 ATTTGCCTAG-TTTTAGAGAGAGA
1 ATTTGCCTAGTTTTTAAAGAGAGA
10754124 A
1 A
10754125 ATAATTGATG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 13 0.59
24 9 0.41
ACGTcount: A:0.33, C:0.06, G:0.23, T:0.38
Consensus pattern (24 bp):
ATTTGCCTAGTTTTTAAAGAGAGA
Found at i:10754279 original size:2 final size:2
Alignment explanation
Indices: 10754272--10754299 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
10754262 ATCGACATGA
10754272 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
10754300 TAGGGTAGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10756043 original size:20 final size:21
Alignment explanation
Indices: 10756009--10756052 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
10755999 TATTTATTTT
* *
10756009 AATCTAATCATTATAGTACTC
1 AATCTAATCACTATAATACTC
10756030 AATCT-ATCACTATAATACTC
1 AATCTAATCACTATAATACTC
10756050 AAT
1 AAT
10756053 TTGATTGGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.41, C:0.20, G:0.02, T:0.36
Consensus pattern (21 bp):
AATCTAATCACTATAATACTC
Found at i:10756195 original size:2 final size:2
Alignment explanation
Indices: 10756188--10756221 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
10756178 GGATTCTCAA
10756188 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
10756222 TTGAGACTTT
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:10777683 original size:20 final size:20
Alignment explanation
Indices: 10777658--10777699 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
10777648 TTCATTTATA
10777658 ATACTCATTCATGCGTATTC
1 ATACTCATTCATGCGTATTC
10777678 ATACTCATTCATGCGTATTC
1 ATACTCATTCATGCGTATTC
10777698 AT
1 AT
10777700 TCTATACCCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.26, C:0.24, G:0.10, T:0.40
Consensus pattern (20 bp):
ATACTCATTCATGCGTATTC
Found at i:10780624 original size:15 final size:15
Alignment explanation
Indices: 10780587--10780615 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
10780577 GCATGCAAGA
10780587 AAAAAAATTAAAAAG
1 AAAAAAATTAAAAAG
10780602 AAAAAAATTAAAAA
1 AAAAAAATTAAAAA
10780616 ATAGAAAATG
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:0.83, C:0.00, G:0.03, T:0.14
Consensus pattern (15 bp):
AAAAAAATTAAAAAG
Found at i:10785354 original size:109 final size:109
Alignment explanation
Indices: 10785157--10785368 Score: 336
Period size: 109 Copynumber: 1.9 Consensus size: 109
10785147 TGGCAGAGGG
* * *
10785157 TATTATGGAAATGAATGCTTGGTAGGATAAGTCAGGGTGTACGGAGGTGTTAAACTAAATGAATG
1 TATTATGGAAATGAATGCTCGATAGGATAAGTCAGGGTGTACGGAGGTGTTAAACTAAAGGAATG
*
10785222 CCTTAAACTAGTGTCTTACATGGTCTTAGGATAACCCTAGAGAT
66 CCTTAAACTAGTGTCCTACATGGTCTTAGGATAACCCTAGAGAT
** *
10785266 TATTATGGAAATGAATGCTCGATAGGATAAGTCAGGGTGTATTGAGGTGTTGAACTAAAGGAATG
1 TATTATGGAAATGAATGCTCGATAGGATAAGTCAGGGTGTACGGAGGTGTTAAACTAAAGGAATG
*
10785331 CCTCT-AACTAGTGTCCTATATGGTCTTAGGATAACCCT
66 CCT-TAAACTAGTGTCCTACATGGTCTTAGGATAACCCT
10785369 TTCAAGTTTG
Statistics
Matches: 94, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
109 93 0.99
110 1 0.01
ACGTcount: A:0.31, C:0.13, G:0.25, T:0.31
Consensus pattern (109 bp):
TATTATGGAAATGAATGCTCGATAGGATAAGTCAGGGTGTACGGAGGTGTTAAACTAAAGGAATG
CCTTAAACTAGTGTCCTACATGGTCTTAGGATAACCCTAGAGAT
Found at i:10786132 original size:181 final size:182
Alignment explanation
Indices: 10785813--10786168 Score: 608
Period size: 181 Copynumber: 2.0 Consensus size: 182
10785803 CAATATATAG
*
10785813 AAGAGTATGGTGAAGGACAATATTAACCTAAGATTTTTTATACCTAATCTCTGGTAATGGTGACA
1 AAGAGTATGGTGAAGGACAATATTAACCTAAGATTTTTTATACCTAATCTCTGGTAATGGCGACA
*
10785878 AAAACTTGATTGGAAAATTTTACAAATGCATAGGGAATTCTATAAGTAATAATAGAGACTATAAA
66 AAAACTTGATTGGAAAATTCTACAAATGCATAGGGAATTCTATAAGTAATAATAGAGACTATAAA
10785943 AATCTAGATGTCCATT-CTACTAGGATTAGTTGAAGAGATTCCTAAATTAAGT
131 AATCTAGATGTCCATTAC-ACTAGGATTAGTTGAAGAGATTCCTAAATTAAGT
**
10785995 AAGAGTATGGTGAA-GACAATATTAGGCTAAGATTTTTTATACCTAATCTCTGGTAATGGCGACA
1 AAGAGTATGGTGAAGGACAATATTAACCTAAGATTTTTTATACCTAATCTCTGGTAATGGCGACA
* *
10786059 AAAACTTGATTGGAGAATTCTACAAGTGCATAGGGAATTCTATAAGTAATAATAGAGACTATAAA
66 AAAACTTGATTGGAAAATTCTACAAATGCATAGGGAATTCTATAAGTAATAATAGAGACTATAAA
* * *
10786124 AGTCTAGATGTCGATTACACTATGATTAGTTGAAGAGATTCCTAA
131 AATCTAGATGTCCATTACACTAGGATTAGTTGAAGAGATTCCTAA
10786169 GTACCTATTA
Statistics
Matches: 164, Mismatches: 9, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
181 149 0.91
182 15 0.09
ACGTcount: A:0.39, C:0.11, G:0.19, T:0.31
Consensus pattern (182 bp):
AAGAGTATGGTGAAGGACAATATTAACCTAAGATTTTTTATACCTAATCTCTGGTAATGGCGACA
AAAACTTGATTGGAAAATTCTACAAATGCATAGGGAATTCTATAAGTAATAATAGAGACTATAAA
AATCTAGATGTCCATTACACTAGGATTAGTTGAAGAGATTCCTAAATTAAGT
Found at i:10793672 original size:22 final size:22
Alignment explanation
Indices: 10793644--10793702 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
10793634 AAAGATGAGA
*
10793644 ATGATCTATAAAACCTCAGGGT
1 ATGATCTATAAAACCTCAGGGC
10793666 ATGATCTA-AAAGACCTCAGGGC
1 ATGATCTATAAA-ACCTCAGGGC
*
10793688 ATTAT-T-TAAAACCTC
1 ATGATCTATAAAACCTC
10793703 TAGGTACCTT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 5 0.15
21 7 0.21
22 21 0.64
ACGTcount: A:0.37, C:0.20, G:0.15, T:0.27
Consensus pattern (22 bp):
ATGATCTATAAAACCTCAGGGC
Found at i:10793839 original size:23 final size:23
Alignment explanation
Indices: 10793809--10793873 Score: 96
Period size: 22 Copynumber: 2.9 Consensus size: 23
10793799 TTGTAAGGCT
10793809 TCCAAGTATCATCTCTAAAAACC
1 TCCAAGTATCATCTCTAAAAACC
*
10793832 TCCAAGTATCATAT-TAAAAACC
1 TCCAAGTATCATCTCTAAAAACC
**
10793854 TTTAAGTATCATCTCTAAAA
1 TCCAAGTATCATCTCTAAAA
10793874 TTTTCAAGTA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
22 19 0.51
23 18 0.49
ACGTcount: A:0.42, C:0.23, G:0.05, T:0.31
Consensus pattern (23 bp):
TCCAAGTATCATCTCTAAAAACC
Found at i:10793882 original size:22 final size:23
Alignment explanation
Indices: 10793811--10793908 Score: 85
Period size: 22 Copynumber: 4.3 Consensus size: 23
10793801 GTAAGGCTTC
* *
10793811 CAAGTATCATCTCTAAAAACCTC
1 CAAGTATCATCTCTAAAAACTTT
*
10793834 CAAGTATCATAT-TAAAAACCTTT
1 CAAGTATCATCTCTAAAAA-CTTT
*
10793857 -AAGTATCATCTCT-AAAATTTT
1 CAAGTATCATCTCTAAAAACTTT
* * * *
10793878 CAAGTATCTTTTCAAAAAACCTT
1 CAAGTATCATCTCTAAAAACTTT
*
10793901 CGAGTATC
1 CAAGTATC
10793909 TCCTTTCTAA
Statistics
Matches: 60, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
21 3 0.05
22 30 0.50
23 27 0.45
ACGTcount: A:0.39, C:0.21, G:0.06, T:0.34
Consensus pattern (23 bp):
CAAGTATCATCTCTAAAAACTTT
Found at i:10793907 original size:45 final size:45
Alignment explanation
Indices: 10793811--10793946 Score: 118
Period size: 45 Copynumber: 3.0 Consensus size: 45
10793801 GTAAGGCTTC
10793811 CAAGTATCATCTCTAAAAACCTCCAAGTATCATATTAAAAACCTT
1 CAAGTATCATCTCTAAAAACCTCCAAGTATCATATTAAAAACCTT
* ** * *
10793856 TAAGTATCATCTCT-AAAATTTTCAAGTATC-TTTTCAAAAAACCTT
1 CAAGTATCATCTCTAAAAACCTCCAAGTATCATATT--AAAAACCTT
* * * *
10793901 CGAGTATC-TCCTTTCT-AAAACCTCCAATTATCATTTTTAAAACCTT
1 CAAGTATCAT-C--TCTAAAAACCTCCAAGTATCATATTAAAAACCTT
10793947 TGGATATCTA
Statistics
Matches: 73, Mismatches: 12, Indels: 11
0.76 0.12 0.11
Matches are distributed among these distances:
43 3 0.04
44 14 0.19
45 29 0.40
46 8 0.11
47 15 0.21
48 4 0.05
ACGTcount: A:0.37, C:0.23, G:0.04, T:0.36
Consensus pattern (45 bp):
CAAGTATCATCTCTAAAAACCTCCAAGTATCATATTAAAAACCTT
Found at i:10793978 original size:24 final size:23
Alignment explanation
Indices: 10793809--10793994 Score: 78
Period size: 22 Copynumber: 8.1 Consensus size: 23
10793799 TTGTAAGGCT
* *
10793809 TCCAAGTATC-ATCTCTAAAAACC
1 TCCAAGTATCTAT-TTTTAAAACC
* *
10793832 TCCAAGTATC-ATATTAAAAACC
1 TCCAAGTATCTATTTTTAAAACC
** * * **
10793854 TTTAAGTATC-ATCTCTAAAATT
1 TCCAAGTATCTATTTTTAAAACC
* **
10793876 TTCAAGTATCT-TTTCAAAAAACC
1 TCCAAGTATCTATTT-TTAAAACC
* * * *
10793899 TTCGAGTATCTCCTTTCTAAAACC
1 TCCAAGTATCT-ATTTTTAAAACC
*
10793923 TCCAATTATC-ATTTTTAAAACC
1 TCCAAGTATCTATTTTTAAAACC
***
10793945 T-TTGGATATCTATTTTTGAAAACC
1 TCCAAG-TATCTATTTTT-AAAACC
*
10793969 TCCAAGTATCTCATCTTTAAAACC
1 TCCAAGTATCT-ATTTTTAAAACC
10793993 TC
1 TC
10793995 TAGGTATATT
Statistics
Matches: 123, Mismatches: 31, Indels: 17
0.72 0.18 0.10
Matches are distributed among these distances:
22 49 0.40
23 32 0.26
24 33 0.27
25 9 0.07
ACGTcount: A:0.35, C:0.23, G:0.05, T:0.37
Consensus pattern (23 bp):
TCCAAGTATCTATTTTTAAAACC
Found at i:10794001 original size:24 final size:24
Alignment explanation
Indices: 10793931--10794001 Score: 74
Period size: 24 Copynumber: 3.0 Consensus size: 24
10793921 CCTCCAATTA
*
10793931 TCATTTTTAAAACCT-TTGGATATC
1 TCATTTTTAAAACCTCTAGG-TATC
* *
10793955 T-ATTTTTGAAAACCTCCAAGTATC
1 TCATTTTT-AAAACCTCTAGGTATC
*
10793979 TCATCTTTAAAACCTCTAGGTAT
1 TCATTTTTAAAACCTCTAGGTAT
10794002 ATTTTTAAGT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
23 6 0.16
24 26 0.68
25 6 0.16
ACGTcount: A:0.31, C:0.20, G:0.08, T:0.41
Consensus pattern (24 bp):
TCATTTTTAAAACCTCTAGGTATC
Found at i:10794005 original size:46 final size:45
Alignment explanation
Indices: 10793917--10794007 Score: 105
Period size: 46 Copynumber: 2.0 Consensus size: 45
10793907 TCTCCTTTCT
* *
10793917 AAAACCTCCAATTATCATTTTTAAAACCTTTGGATATCTATTTTTG
1 AAAACCTCCAATTATCATCTTTAAAACCTTAGGATA-CTATTTTTG
*
10793963 AAAACCTCCAAGTATCTCATCTTTAAAACCTCTAGG-TA-TATTTTT
1 AAAACCTCCAA-T-TATCATCTTTAAAACCT-TAGGATACTATTTTT
10794008 AAGTGTATTG
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
46 18 0.46
47 1 0.03
48 17 0.44
49 3 0.08
ACGTcount: A:0.33, C:0.20, G:0.07, T:0.41
Consensus pattern (45 bp):
AAAACCTCCAATTATCATCTTTAAAACCTTAGGATACTATTTTTG
Found at i:10804961 original size:28 final size:29
Alignment explanation
Indices: 10804930--10804998 Score: 72
Period size: 28 Copynumber: 2.4 Consensus size: 29
10804920 TAAATTCCAC
10804930 AAATTTCACAAATTCAACAATAAATTA-A-
1 AAATTTCACAAATTCAACAAT-AATTATAT
* * *
10804958 AAATTTTCA-AATTTCCACTATAATTATAT
1 AAA-TTTCACAAATTCAACAATAATTATAT
10804987 AAATTTCACAAA
1 AAATTTCACAAA
10804999 AACACAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
27 5 0.15
28 18 0.55
29 10 0.30
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (29 bp):
AAATTTCACAAATTCAACAATAATTATAT
Found at i:10819692 original size:16 final size:16
Alignment explanation
Indices: 10819661--10819709 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
10819651 GCATTAAAGC
*
10819661 TTACTAAATATAGAAA
1 TTACTAAAAATAGAAA
*
10819677 TTACTAAAAATGGAAA
1 TTACTAAAAATAGAAA
**
10819693 GTTGTTAAAAATAGAAA
1 -TTACTAAAAATAGAAA
10819710 ATTAAACAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
16 14 0.52
17 13 0.48
ACGTcount: A:0.55, C:0.04, G:0.12, T:0.29
Consensus pattern (16 bp):
TTACTAAAAATAGAAA
Found at i:10832994 original size:41 final size:40
Alignment explanation
Indices: 10832942--10833028 Score: 102
Period size: 41 Copynumber: 2.1 Consensus size: 40
10832932 AATACTATTT
* * * *
10832942 TTTTTATATAAAAACGGAATGTTTGCTAACAAAAATTATA
1 TTTTTACATAAAAACAGAATATTTGCTAACAAAAATTACA
* * *
10832982 TTATTTACATAAAAACATAGTATTTGTTAACAAAAATTACA
1 TT-TTTACATAAAAACAGAATATTTGCTAACAAAAATTACA
10833023 TTTTTA
1 TTTTTA
10833029 TTTAAAAGAA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
40 6 0.15
41 33 0.85
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.40
Consensus pattern (40 bp):
TTTTTACATAAAAACAGAATATTTGCTAACAAAAATTACA
Found at i:10838452 original size:6 final size:6
Alignment explanation
Indices: 10838441--10838466 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
10838431 AAACTCACTC
10838441 GATTTT GATTTT GATTTT GATTTT GA
1 GATTTT GATTTT GATTTT GATTTT GA
10838467 ACAAGATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.00, G:0.19, T:0.62
Consensus pattern (6 bp):
GATTTT
Found at i:10838572 original size:13 final size:13
Alignment explanation
Indices: 10838554--10838583 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
10838544 CTTTCCTCTG
10838554 TTTTTTTTCTTTC
1 TTTTTTTTCTTTC
*
10838567 TTTTTTTTTTTTC
1 TTTTTTTTCTTTC
10838580 TTTT
1 TTTT
10838584 GCATCTCTTT
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:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (13 bp):
TTTTTTTTCTTTC
Found at i:10842100 original size:17 final size:17
Alignment explanation
Indices: 10842080--10842145 Score: 55
Period size: 17 Copynumber: 3.9 Consensus size: 17
10842070 GTTATCATAT
10842080 TGATTTAATTATTATGA
1 TGATTTAATTATTATGA
** *
10842097 TGATAAAATTATTAAGA
1 TGATTTAATTATTATGA
* *
10842114 TAATTTGATTA-T-TGA
1 TGATTTAATTATTATGA
10842129 TGATTTCATATTATTAT
1 TGATTT-A-ATTATTAT
10842146 AGTTGGTATA
Statistics
Matches: 35, Mismatches: 10, Indels: 6
0.69 0.20 0.12
Matches are distributed among these distances:
15 7 0.20
16 1 0.03
17 25 0.71
18 1 0.03
19 1 0.03
ACGTcount: A:0.38, C:0.02, G:0.11, T:0.50
Consensus pattern (17 bp):
TGATTTAATTATTATGA
Found at i:10844191 original size:52 final size:52
Alignment explanation
Indices: 10844108--10844210 Score: 143
Period size: 52 Copynumber: 2.0 Consensus size: 52
10844098 ATAAGTATAT
* * * * *
10844108 AAACTTGCCTATTAAGAATCCTTTTCCTCTTAGAATTCTTCTTCTATAAGTC
1 AAACTTGCCTATTAAAAATCCATGTCATCTTAGAATTCTTCTTCTACAAGTC
* *
10844160 AAACTTGTCTATTAAAAATGCATGTCATCTTAGAATTCTTCTTCTACAAGT
1 AAACTTGCCTATTAAAAATCCATGTCATCTTAGAATTCTTCTTCTACAAGT
10844211 ATTCTTGTCC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
52 44 1.00
ACGTcount: A:0.30, C:0.20, G:0.09, T:0.41
Consensus pattern (52 bp):
AAACTTGCCTATTAAAAATCCATGTCATCTTAGAATTCTTCTTCTACAAGTC
Found at i:10844772 original size:929 final size:922
Alignment explanation
Indices: 10842720--10845086 Score: 2974
Period size: 929 Copynumber: 2.6 Consensus size: 922
10842710 TTTTAGATAA
* * * * *
10842720 ATTTGTTAGGCCAAATGGTTCTAATCTAATCACACTAGCAGAAACAAAATCAAATAATTAAT-TC
1 ATTTGTTAGGCCAAAT-GTCCCAATCTAATCACACTAGCGGAAATAAAATCAAACAATTAATCT-
* * * * ** * * *
10842784 ATCATACAAGAGACAACAATTTAACGTAATTTGGTCCAACTAACCTACATTTACAGCT-AAAAAA
64 ATCACACAAGAGATAACAATTTAACGTGATTCGGTCCAACTAACCTACATCCATAGATGAGAAAA
* * * *
10842848 AAAAT-TCAGTAGTTATAGAGAATTACAAACATACAATTAAATCATCAACCTAACTTAACAATCA
129 AAGATCT-ACTAGTTATAGAGAATTACAAACATACAATTAAATCATCAACCTCACTTAAAAATCA
* *
10842912 ATACTCATAA-A-ACTCTTAATCTCCTCTAGTCCTATGGAGTATTCTCAACCCAAACAAATACAT
193 ATACTCATAAGACCCTCTTAATCTCCTTTAGTCCTATGGAGTATTCTCAA-CC---CAAATA-A-
* * * * * *
10842975 ACCTATATCCTATATACACTCATACACCCATACCTATGTAGATCATCTTAATCTCCTCTAGTCTA
252 ACATATA-CCCATATACACTCATGCACTCATACCTATGTGGATCATCTTAGTCTCCTCTAGTCTA
* * * * *
10843040 CTTATAAACATTCAAACATACACACCCATAAGATGTAAATCCCCAGTAGTCTTATAGGGTGTCTA
316 CTCATAAATATTCAAACATACACACCCATAAGACGTAAATCCCCAATAGTCCTATAGGGTGTCTA
* * * * * *
10843105 TCCCATAAAA-TCT-TACAGCTCTTTTATGTTTTTTTCTCATACCTAATCTTGTAGAGACTTCAT
381 TCCCATAAAACTCTATA-A-CTCTCTTATATCTTTTT-TCATACCTAACCTTATAGAGACTTCAC
* * * *
10843168 CTATTTATAAGCATACAAACTTGCCTATTAAGAATCCATTTCCTTTTAGAATTCTTTTTCTGCAA
443 CTATTTATAAGCATACAAACTTGCCTATTAAGAATCCTTTTCCTCTTAGAATTCTTCTTCTACAA
* * * *
10843233 GTTAAACTTGCCTTTCAAAAATTCATCTTAGAATTTTTCTTCTACAAGTTTTCTTGTCCATCAAG
508 GTCAAACTTGCCTTTAAAAAATTCATCTTAGAATTCTTCTTCTACAAGTATTCTTGTCCATCAAG
* *
10843298 CAATATCTAACTAATCCTAAACAAATTTCTTATAGGATTTGAGTCATTATTCTTAACAATCCTCA
573 CAATATCTAACTAATCCTAAACAAATTTCTTATAGGATTTAAGTCATTATTCCTAACAATCCTCA
* *
10843363 CCTTGACTCAAATTTCATCAAATCATCTATTTTCATGCTAGACGTACTTGGCTCCACCTACAATG
638 CCTTGACTCAAATTTCATCAAATCATCTATTTTCATACTAGACATACTTGGCTCCACCTACAATG
* * * * *
10843428 GAAGTCTCACAATTATTTTTTTTTGTGTTTTCATACTTCACGCAAACTAATCTTTAAAATATGAA
703 GAAGTCTCACAATTAGTTTCTTGTGTGTTTTCATACTTCACGCAAACTAATCTTCAAAATACGAA
* * * * * *
10843493 CTCGAATTTCTTCATTGAGTCGAGCTCCTCTGGACTTACATTTTCTTATGGCTCAAACCATGCTT
768 CTCGAACTTCTTCATTAAGTCGAGCTCCTCTAGACTTACATCTTCTCATGGCTCAAACCATACTT
*
10843558 TAAAACCACATCTCAAACCTTTAGCTCTATTCATATCTTGAACTTTCAGCTTTGATACCACTTGT
833 TAAAACCACATCTCAAACCTTTAGCTCTATTCATATCTTGAACTTTCAACTTTGATACCACTTGT
* * *
10843623 TAGGGACTACCATAGCTCTAATACT
898 TAGAGACTACCACAGCTCTAATACC
* * * * *
10843648 ACTTGTTAGGTCAAATGGCCCTAATCTAATCACACTAGCGAAAATAAAATCAAACAATTAATCCA
1 ATTTGTTAGGCCAAATGTCCC-AATCTAATCACACTAGCGGAAATAAAATCAAACAATTAATCTA
* * * * * *
10843713 TCACATAAGAGATAAAAATTTAATGTGGTTCGGTCCAACTAACCTTCATCCATGGATGAGAAAAA
65 TCACACAAGAGATAACAATTTAACGTGATTCGGTCCAACTAACCTACATCCATAGATGAGAAAAA
* *
10843778 AGATCCACTAGTTATAGAGAATTACAAACATACAATCAAATCATCAACCTCACTTAACAAATCAA
130 AGATCTACTAGTTATAGAGAATTACAAACATACAATTAAATCATCAACCTCACTTAA-AAATCAA
* * *
10843843 TATTCATAAGACCCTCTTAATCTCCTTTAGTCCTATGGAGGT-TTTTCAATCCAAATAAACATAT
194 TACTCATAAGACCCTCTTAATCTCCTTTAGTCCTATGGA-GTATTCTCAACCCAAATAAACATAT
* * * *
10843907 ACCCATATACACTCATGTACTCATACCTATATGGACCATCTTAGTCTCCTCTAGTCCACTCATAA
258 ACCCATATACACTCATGCACTCATACCTATGTGGATCATCTTAGTCTCCTCTAGTCTACTCATAA
** *
10843972 ATATTCAAACATACACACTTATAAGACGTAAATCCCCAATAGTCCTGTAGGGTGTCTATCCCATA
323 ATATTCAAACATACACACCCATAAGACGTAAATCCCCAATAGTCCTATAGGGTGTCTATCCCATA
* * * * *
10844037 AAACTCTATAACTCTCTTACATCTTTTTTCATACCTAACCTTATAAAGATTTTACCAATTTATAA
388 AAACTCTATAACTCTCTTATATCTTTTTTCATACCTAACCTTATAGAGACTTCACCTATTTATAA
* * *
10844102 GTATATAAACTTGCCTATTAAGAATCCTTTTCCTCTTAGAATTCTTCTTCTATAAGTCAAACTTG
453 GCATACAAACTTGCCTATTAAGAATCCTTTTCCTCTTAGAATTCTTCTTCTACAAGTCAAACTTG
* *
10844167 TCTATTAAAAATGCATGTCATCTTAGAATTCTTCTTCTACAAGTATTCTTGTCCATTAAGCAATA
518 CCT-TTAAAAA---AT-TCATCTTAGAATTCTTCTTCTACAAGTATTCTTGTCCATCAAGCAAT-
* * *
10844232 AT-TAGCTAAT-CTCAAACAAATTTCTTATATGATTTAAGTTATTATTCCTAACAAT-CTCCACC
577 ATCTAACTAATCCT-AAACAAATTTCTTATAGGATTTAAGTCATTATTCCTAACAATCCT-CACC
*
10844294 TTGACTCAAATTTCATCAAATCATCTATTTTCATACTAGACATACTTGGCTCCACCTGCAATGGA
640 TTGACTCAAATTTCATCAAATCATCTATTTTCATACTAGACATACTTGGCTCCACCTACAATGGA
* * * *
10844359 AGTTTCACAATAATAGTTTCTTGTGTGTTTTCATGCTTCATGCAAATTAATCTTCAAAATACGAA
705 AGTCTCACAAT--TAGTTTCTTGTGTGTTTTCATACTTCACGCAAACTAATCTTCAAAATACGAA
* * * **
10844424 CTTGAACTTCTTCCTTAAGTCGAGCTCCTCTAGACTTACCTCTTCTCATGGCTTGAACCATACTT
768 CTCGAACTTCTTCATTAAGTCGAGCTCCTCTAGACTTACATCTTCTCATGGCTCAAACCATACTT
* ** * * * *
10844489 TAAAACCACGTCTTGAACCTTTAGCT-TTTTTATGTCTTG-ATTCTTCAACTTTGATACCACTTG
833 TAAAACCACATCTCAAACCTTTAGCTCTATTCATATCTTGAACT-TTCAACTTTGATACCACTTG
* * *
10844552 TTAGAGA-TCACCACAGCTTTGATTCC
897 TTAGAGACT-ACCACAGCTCTAATACC
* *
10844578 ATTTGTTAGGCCAAATGATCCCAATCTAATTACA-TCAGCGGAAATGAAATCAAACAATTAATCT
1 ATTTGTTAGGCCAAATG-TCCCAATCTAATCACACT-AGCGGAAATAAAATCAAACAATTAATCT
* * * *
10844642 ATTACACAAAAGATAACAATTTAACGTGATTCGATCCAACTAACCTACGTCCATAGATGAGAAAA
64 ATCACACAAGAGATAACAATTTAACGTGATTCGGTCCAACTAACCTACATCCATAGATGAGAAAA
* *
10844707 AAGATCTACTAGTTATAGAGGATTACAAACATACAATTAAATCATCAACCTCACTTAATAATCAA
129 AAGATCTACTAGTTATAGAGAATTACAAACATACAATTAAATCATCAACCTCACTTAAAAATCAA
* * * *
10844772 TACTCATAAGACCCTCTAAATCT-CTTCTAGTCTTATAGAGTATTCTCAACCCAAATAAACACAT
194 TACTCATAAGACCCTCTTAATCTCCTT-TAGTCCTATGGAGTATTCTCAACCCAAATAAACATAT
* * *
10844836 ATCCATATACACT-ATGCACTCATACCTATGTGGATCATCTCAGTCTCCTATAGTCTACTC--AA
258 ACCCATATACACTCATGCACTCATACCTATGTGGATCATCTTAGTCTCCTCTAGTCTACTCATAA
* * * **** * *
10844898 ATATTTAAACATACATACCCATAAAACGTAAATTTTTAATAGTCCTATGGGGTGTCTATCTCATA
323 ATATTCAAACATACACACCCATAAGACGTAAATCCCCAATAGTCCTATAGGGTGTCTATCCCATA
10844963 AAACTCTATAACTCTCTTATATCTTTTTTTCATACCTAACCTTATAGAGACTTCACCTATTTATA
388 AAACTCTATAACTCTCTTATATC-TTTTTTCATACCTAACCTTATAGAGACTTCACCTATTTATA
* * *
10845028 AGCATACAAACTTGCTTATTAAGAAT-CTCTTTCCTCTTAGAATTCTTCTTTTACGAGTC
452 AGCATACAAACTTGCCTATTAAGAATCCT-TTTCCTCTTAGAATTCTTCTTCTACAAGTC
10845087 TTCTTATCTA
Statistics
Matches: 1233, Mismatches: 178, Indels: 57
0.84 0.12 0.04
Matches are distributed among these distances:
924 89 0.07
925 134 0.11
926 89 0.07
927 92 0.07
928 152 0.12
929 294 0.24
930 224 0.18
931 126 0.10
932 31 0.03
933 2 0.00
ACGTcount: A:0.34, C:0.22, G:0.09, T:0.34
Consensus pattern (922 bp):
ATTTGTTAGGCCAAATGTCCCAATCTAATCACACTAGCGGAAATAAAATCAAACAATTAATCTAT
CACACAAGAGATAACAATTTAACGTGATTCGGTCCAACTAACCTACATCCATAGATGAGAAAAAA
GATCTACTAGTTATAGAGAATTACAAACATACAATTAAATCATCAACCTCACTTAAAAATCAATA
CTCATAAGACCCTCTTAATCTCCTTTAGTCCTATGGAGTATTCTCAACCCAAATAAACATATACC
CATATACACTCATGCACTCATACCTATGTGGATCATCTTAGTCTCCTCTAGTCTACTCATAAATA
TTCAAACATACACACCCATAAGACGTAAATCCCCAATAGTCCTATAGGGTGTCTATCCCATAAAA
CTCTATAACTCTCTTATATCTTTTTTCATACCTAACCTTATAGAGACTTCACCTATTTATAAGCA
TACAAACTTGCCTATTAAGAATCCTTTTCCTCTTAGAATTCTTCTTCTACAAGTCAAACTTGCCT
TTAAAAAATTCATCTTAGAATTCTTCTTCTACAAGTATTCTTGTCCATCAAGCAATATCTAACTA
ATCCTAAACAAATTTCTTATAGGATTTAAGTCATTATTCCTAACAATCCTCACCTTGACTCAAAT
TTCATCAAATCATCTATTTTCATACTAGACATACTTGGCTCCACCTACAATGGAAGTCTCACAAT
TAGTTTCTTGTGTGTTTTCATACTTCACGCAAACTAATCTTCAAAATACGAACTCGAACTTCTTC
ATTAAGTCGAGCTCCTCTAGACTTACATCTTCTCATGGCTCAAACCATACTTTAAAACCACATCT
CAAACCTTTAGCTCTATTCATATCTTGAACTTTCAACTTTGATACCACTTGTTAGAGACTACCAC
AGCTCTAATACC
Found at i:10846496 original size:52 final size:52
Alignment explanation
Indices: 10846413--10846516 Score: 156
Period size: 52 Copynumber: 2.0 Consensus size: 52
10846403 TATAAGCATA
* * * *
10846413 CAAACTTGCCTATTAAAAATTCTTTTTCTCTTAGAATTCTTCTTCTGCAAGT
1 CAAACTTGCCTATTAAAAATTCATGTCCTCTTAGAATTCTTCTTCTACAAGT
10846465 CAAACTTGCCTATTAAAAA-TCAATGTCCTCTTAGAATTCTTCTTCTACAAGT
1 CAAACTTGCCTATTAAAAATTC-ATGTCCTCTTAGAATTCTTCTTCTACAAGT
10846517 ATTCTTGTTC
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
51 2 0.04
52 45 0.96
ACGTcount: A:0.30, C:0.22, G:0.08, T:0.40
Consensus pattern (52 bp):
CAAACTTGCCTATTAAAAATTCATGTCCTCTTAGAATTCTTCTTCTACAAGT
Found at i:10850152 original size:21 final size:20
Alignment explanation
Indices: 10850128--10850187 Score: 102
Period size: 21 Copynumber: 2.9 Consensus size: 20
10850118 AATGTATTGT
10850128 TTTATCATTAAGCTTATATAG
1 TTTATCATTAAGCTTATAT-G
10850149 TTTATCATTAAGCTTATATG
1 TTTATCATTAAGCTTATATG
10850169 TGTTATCATTAAGCTTATA
1 T-TTATCATTAAGCTTATA
10850188 AAAGTCCTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
20 2 0.05
21 36 0.95
ACGTcount: A:0.32, C:0.10, G:0.10, T:0.48
Consensus pattern (20 bp):
TTTATCATTAAGCTTATATG
Found at i:10864026 original size:67 final size:67
Alignment explanation
Indices: 10863918--10864046 Score: 215
Period size: 67 Copynumber: 1.9 Consensus size: 67
10863908 ATGTGATAAA
* *
10863918 TACCATGTATATTTAAATGAGAATGATAGGATTACATATATGTGATACATGATGAATACTTAATA
1 TACCATGTATATTTAAATGAGAATGATAAGATTACATATATGTGATACATAATGAATACTTAATA
10863983 TG
66 TG
*
10863985 TACCATGTATATTTAAATGA-ACATGATAAGATTACATATATGTGATATATAATGAATACTTA
1 TACCATGTATATTTAAATGAGA-ATGATAAGATTACATATATGTGATACATAATGAATACTTA
10864047 TGCATGCTAT
Statistics
Matches: 58, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
66 1 0.02
67 57 0.98
ACGTcount: A:0.42, C:0.08, G:0.14, T:0.36
Consensus pattern (67 bp):
TACCATGTATATTTAAATGAGAATGATAAGATTACATATATGTGATACATAATGAATACTTAATA
TG
Found at i:10866344 original size:18 final size:20
Alignment explanation
Indices: 10866318--10866357 Score: 66
Period size: 18 Copynumber: 2.1 Consensus size: 20
10866308 AAAAAAACTA
10866318 AAAATCTAAAAAAAT-AGAG
1 AAAATCTAAAAAAATAAGAG
10866337 AAAA-CTAAAAAAATAAGAG
1 AAAATCTAAAAAAATAAGAG
10866356 AA
1 AA
10866358 GAATGAAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.72, C:0.05, G:0.10, T:0.12
Consensus pattern (20 bp):
AAAATCTAAAAAAATAAGAG
Found at i:10868355 original size:13 final size:13
Alignment explanation
Indices: 10868337--10868363 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
10868327 AAAGGAATAC
10868337 TCCCTCAATTGTT
1 TCCCTCAATTGTT
10868350 TCCCTCAATTGTT
1 TCCCTCAATTGTT
10868363 T
1 T
10868364 TCTTTAAAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.30, G:0.07, T:0.48
Consensus pattern (13 bp):
TCCCTCAATTGTT
Found at i:10875639 original size:19 final size:18
Alignment explanation
Indices: 10875615--10875653 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
10875605 TAATGTAGCT
*
10875615 ATTAAACCAAAAACTATAA
1 ATTAAAACAAAAACTA-AA
10875634 ATTAAAACAAAAACTAAA
1 ATTAAAACAAAAACTAAA
10875652 AT
1 AT
10875654 AGTACGCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.67, C:0.13, G:0.00, T:0.21
Consensus pattern (18 bp):
ATTAAAACAAAAACTAAA
Found at i:10876198 original size:11 final size:11
Alignment explanation
Indices: 10876182--10876220 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
10876172 ATTCAAATAC
10876182 TTGAAACTAAA
1 TTGAAACTAAA
10876193 TTGAAA-TAAA
1 TTGAAACTAAA
*
10876203 CTTGAACCTAAA
1 -TTGAAACTAAA
10876215 TTGAAA
1 TTGAAA
10876221 TTTTAATCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
10 4 0.17
11 16 0.67
12 4 0.17
ACGTcount: A:0.51, C:0.10, G:0.10, T:0.28
Consensus pattern (11 bp):
TTGAAACTAAA
Found at i:10876208 original size:22 final size:22
Alignment explanation
Indices: 10876180--10876221 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
10876170 GAATTCAAAT
10876180 ACTTGAAACTAAATTGAAATAA
1 ACTTGAAACTAAATTGAAATAA
*
10876202 ACTTGAACCTAAATTGAAAT
1 ACTTGAAACTAAATTGAAAT
10876222 TTTAATCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.29
Consensus pattern (22 bp):
ACTTGAAACTAAATTGAAATAA
Found at i:10877825 original size:77 final size:77
Alignment explanation
Indices: 10877698--10877851 Score: 290
Period size: 77 Copynumber: 2.0 Consensus size: 77
10877688 CTTAATCATA
*
10877698 CATCATATGTATTAGGTAATGCAATAAAATAATAAAACATACAAAATCAAAAATAACCACAGGAT
1 CATCATATGTATTAGGTAATGCAATAAAATAATAAAACATACAAAATCAAAAATAACCACAAGAT
10877763 CATACTTATGTT
66 CATACTTATGTT
*
10877775 CATCATATGTATTAGGTAATGCAATAAAATAATAAAACATACAAAATCAAAAATAATCACAAGAT
1 CATCATATGTATTAGGTAATGCAATAAAATAATAAAACATACAAAATCAAAAATAACCACAAGAT
10877840 CATACTTATGTT
66 CATACTTATGTT
10877852 TATGTATGTA
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
77 75 1.00
ACGTcount: A:0.50, C:0.14, G:0.08, T:0.28
Consensus pattern (77 bp):
CATCATATGTATTAGGTAATGCAATAAAATAATAAAACATACAAAATCAAAAATAACCACAAGAT
CATACTTATGTT
Found at i:10880098 original size:17 final size:18
Alignment explanation
Indices: 10880070--10880104 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
10880060 TTAGTTTTAG
10880070 GGTTTGAGGTTTGGGGTT
1 GGTTTGAGGTTTGGGGTT
10880088 GGTTT-AGGTTTGGGGTT
1 GGTTTGAGGTTTGGGGTT
10880105 TAGGGTTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.06, C:0.00, G:0.49, T:0.46
Consensus pattern (18 bp):
GGTTTGAGGTTTGGGGTT
Found at i:10880099 original size:24 final size:25
Alignment explanation
Indices: 10880065--10880111 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
10880055 AAGTGTTAGT
*
10880065 TTTAGGGTTTGAGGTTTGGGGTTGG
1 TTTAGGGTTTGAGGTTTAGGGTTGG
*
10880090 TTTA-GGTTTGGGGTTTAGGGTT
1 TTTAGGGTTTGAGGTTTAGGGTT
10880112 TGATTTTAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.09, C:0.00, G:0.45, T:0.47
Consensus pattern (25 bp):
TTTAGGGTTTGAGGTTTAGGGTTGG
Found at i:10880113 original size:14 final size:14
Alignment explanation
Indices: 10880065--10880155 Score: 59
Period size: 13 Copynumber: 6.9 Consensus size: 14
10880055 AAGTGTTAGT
*
10880065 TTTAGGGTTTGAGG
1 TTTAGGGTTTGGGG
*
10880079 TTT-GGGGTT--GG
1 TTTAGGGTTTGGGG
10880090 TTTA-GGTTTGGGG
1 TTTAGGGTTTGGGG
**
10880103 TTTAGGGTTT-GAT
1 TTTAGGGTTTGGGG
*
10880116 TTTA-GGTTTAGGG
1 TTTAGGGTTTGGGG
**
10880129 TTTAAGGGTTTGGTC
1 TTT-AGGGTTTGGGG
*
10880144 TTTAGAGTTTGG
1 TTTAGGGTTTGG
10880156 CTTATAGTTT
Statistics
Matches: 60, Mismatches: 10, Indels: 14
0.71 0.12 0.17
Matches are distributed among these distances:
11 9 0.15
12 5 0.08
13 20 0.33
14 17 0.28
15 9 0.15
ACGTcount: A:0.12, C:0.01, G:0.40, T:0.47
Consensus pattern (14 bp):
TTTAGGGTTTGGGG
Found at i:10880129 original size:26 final size:27
Alignment explanation
Indices: 10880090--10880140 Score: 86
Period size: 26 Copynumber: 1.9 Consensus size: 27
10880080 TTGGGGTTGG
*
10880090 TTTAGGTTTGGGGTTT-AGGGTTTGAT
1 TTTAGGTTTAGGGTTTAAGGGTTTGAT
10880116 TTTAGGTTTAGGGTTTAAGGGTTTG
1 TTTAGGTTTAGGGTTTAAGGGTTTG
10880141 GTCTTTAGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 15 0.65
27 8 0.35
ACGTcount: A:0.14, C:0.00, G:0.37, T:0.49
Consensus pattern (27 bp):
TTTAGGTTTAGGGTTTAAGGGTTTGAT
Found at i:10880148 original size:41 final size:41
Alignment explanation
Indices: 10880094--10880176 Score: 105
Period size: 41 Copynumber: 2.0 Consensus size: 41
10880084 GGTTGGTTTA
* * *
10880094 GGTTTGGGGTTTAGGGTTT-GATTTTAGGTTTAGGGTTTAAG
1 GGTTTGGGCTTTAGAGTTTGGATTATA-GTTTAGGGTTTAAG
* *
10880135 GGTTTGGTCTTTAGAGTTTGGCTTATAGTTTAGGGTTTAAG
1 GGTTTGGGCTTTAGAGTTTGGATTATAGTTTAGGGTTTAAG
10880176 G
1 G
10880177 TTTAGAATTT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
41 31 0.86
42 5 0.14
ACGTcount: A:0.16, C:0.02, G:0.36, T:0.46
Consensus pattern (41 bp):
GGTTTGGGCTTTAGAGTTTGGATTATAGTTTAGGGTTTAAG
Found at i:10880265 original size:24 final size:26
Alignment explanation
Indices: 10880212--10880269 Score: 75
Period size: 24 Copynumber: 2.3 Consensus size: 26
10880202 GTTTACGGTT
*
10880212 TGGTTTAAGGTTTAGGGTTTTGCATAG
1 TGGTTTGAGGTTTA-GGTTTTGCATAG
*
10880239 TGGTTTGAGGTTT-GG-TTTGCATGG
1 TGGTTTGAGGTTTAGGTTTTGCATAG
10880263 TGGTTTG
1 TGGTTTG
10880270 GGATTCAGGG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 15 0.52
25 2 0.07
27 12 0.41
ACGTcount: A:0.12, C:0.03, G:0.38, T:0.47
Consensus pattern (26 bp):
TGGTTTGAGGTTTAGGTTTTGCATAG
Found at i:10881917 original size:145 final size:144
Alignment explanation
Indices: 10881689--10882021 Score: 357
Period size: 145 Copynumber: 2.3 Consensus size: 144
10881679 ATTTTTATGA
* * * * ** * *
10881689 TTTTAATGCACCAAAAATTATAAAATAATAT-AAAACCATGATCTAAAATTTTTTGTGAAAAACT
1 TTTTAATGCATCAAAAATCATGAAATAATTTCAAAA-CATGATCTAAAACATTTCGTGAAAAACC
* * * ** *
10881753 AACCTTGGAAAGGTCAAATTACAAAAATACTCATAAAGGGCATTTTAATAATTTTACACCTTTC-
65 AACCTTAGAAAGGTCAAATTAAAAAAATACCCATAAAAAGCATTTTAATAATTTCACACCTTTCG
*
10881817 AAGA-AGAAACTAGGG
130 AAGAGAG-AACAAGGG
* * *
10881832 TTTTTAATGCATCAAAAATCATGAAATAATTTTCAAAACATGATCTAGAGCATTTCGTTAAAAAC
1 -TTTTAATGCATCAAAAATCATGAAATAA-TTTCAAAACATGATCTAAAACATTTCGTGAAAAAC
* * * * * *
10881897 CAACTTTAGAAAGGTTAAATTAAAAAAATACCCCTAAAAAGTATTTTAGTAATTTCATACCTTTC
64 CAACCTTAGAAAGGTCAAATTAAAAAAATACCCATAAAAAGCATTTTAATAATTTCACACCTTTC
* * *
10881962 GATGTGAGATCAAGGG
129 GAAGAGAGAACAAGGG
*
10881978 TTTTAATGTATCAAAAATCATGAAATAATTTCAAAACATGATCT
1 TTTTAATGCATCAAAAATCATGAAATAATTTCAAAACATGATCT
10882022 TAAGTGTTTT
Statistics
Matches: 157, Mismatches: 28, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
144 41 0.26
145 102 0.65
146 12 0.08
147 2 0.01
ACGTcount: A:0.44, C:0.13, G:0.11, T:0.32
Consensus pattern (144 bp):
TTTTAATGCATCAAAAATCATGAAATAATTTCAAAACATGATCTAAAACATTTCGTGAAAAACCA
ACCTTAGAAAGGTCAAATTAAAAAAATACCCATAAAAAGCATTTTAATAATTTCACACCTTTCGA
AGAGAGAACAAGGG
Found at i:10882096 original size:144 final size:143
Alignment explanation
Indices: 10881760--10882169 Score: 379
Period size: 144 Copynumber: 2.9 Consensus size: 143
10881750 ACTAACCTTG
* * * *
10881760 GAAAGGTCAAATTACAAAAATACTCATAAAGGGCATTTTAATAATTTTACACCTTTCAAG-AAGA
1 GAAAGGTCAAATTACAAAAATACTCATAAAGGGCATTTTAATAATTTCATACCTTTCATGTGAG-
* *
10881824 AACTAGGGTTTTTAATGCATCAAAAATCATGAAATAATTTTCAAAACATGATCTAGAGCATTTCG
65 ATCAAGGGTTTTTAATGCATCAAAAATCATGAAATAATTTTCAAAACATGATCTAGAG-ATTTC-
* **
10881889 TTAAAAACCAACTTTA
128 TTAAAAAACAACTCGA
* * * * ** * *
10881905 GAAAGGTTAAATTAAAAAAATACCCCTAAAAAGTATTTTAGTAATTTCATACCTTTCGATGTGAG
1 GAAAGGTCAAATTACAAAAATACTCATAAAGGGCATTTTAATAATTTCATACCTTTC-ATGTGAG
*
10881970 ATCAAGGG-TTTTAATGTATCAAAAATCATGAAATAA-TTTCAAAACATGATCTTA-AG-TGTT-
65 ATCAAGGGTTTTTAATGCATCAAAAATCATGAAATAATTTTCAAAACATGATC-TAGAGAT-TTC
10882030 TTACAAGAAACATACCTCGA
128 TTA-AA-AAACA-A-CTCGA
* * * *
10882050 G-AATGTCAAATTACAAAAATATTCATAAAGGGCATTTTAATAATTTCATACATTTCAATGTGCG
1 GAAAGGTCAAATTACAAAAATACTCATAAAGGGCATTTTAATAATTTCATACCTTTC-ATGTGAG
** * * * * * * *
10882114 ATCAA-AATTTTTAATACACCAAAAATTATAAAATGA-TGTCAAAACACGATCTAGAG
65 ATCAAGGGTTTTTAATGCATCAAAAATCATGAAATAATTTTCAAAACATGATCTAGAG
10882170 TGTTTCACAG
Statistics
Matches: 214, Mismatches: 41, Indels: 21
0.78 0.15 0.08
Matches are distributed among these distances:
141 3 0.01
142 3 0.01
143 8 0.04
144 110 0.51
145 80 0.37
146 8 0.04
147 2 0.01
ACGTcount: A:0.43, C:0.14, G:0.12, T:0.31
Consensus pattern (143 bp):
GAAAGGTCAAATTACAAAAATACTCATAAAGGGCATTTTAATAATTTCATACCTTTCATGTGAGA
TCAAGGGTTTTTAATGCATCAAAAATCATGAAATAATTTTCAAAACATGATCTAGAGATTTCTTA
AAAAACAACTCGA
Found at i:10883550 original size:13 final size:14
Alignment explanation
Indices: 10883522--10883550 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
10883512 TGTAAAACCT
10883522 AAAAAAAAAACTAA
1 AAAAAAAAAACTAA
10883536 AAAAAAAAAAC-AA
1 AAAAAAAAAACTAA
10883549 AA
1 AA
10883551 GGAAATCTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.27
14 11 0.73
ACGTcount: A:0.90, C:0.07, G:0.00, T:0.03
Consensus pattern (14 bp):
AAAAAAAAAACTAA
Found at i:10889849 original size:10 final size:9
Alignment explanation
Indices: 10889834--10889881 Score: 53
Period size: 10 Copynumber: 5.2 Consensus size: 9
10889824 AGAAATTATT
10889834 AAATAATTAA
1 AAATAA-TAA
10889844 AAATAA-AA
1 AAATAATAA
*
10889852 TAATAATAA
1 AAATAATAA
10889861 ATAATAATAA
1 A-AATAATAA
*
10889871 TAATAATAA
1 AAATAATAA
10889880 AA
1 AA
10889882 TTCAATGAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
8 7 0.22
9 11 0.34
10 14 0.44
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (9 bp):
AAATAATAA
Found at i:10889858 original size:3 final size:3
Alignment explanation
Indices: 10889835--10889879 Score: 56
Period size: 3 Copynumber: 14.7 Consensus size: 3
10889825 GAAATTATTA
*
10889835 AAT AATT AAA AAT AA- AAT AAT AAT AAAT AAT AAT AAT AAT AAT AA
1 AAT AA-T AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AA
10889880 AATTCAATGA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
2 2 0.05
3 29 0.78
4 6 0.16
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:10889987 original size:13 final size:13
Alignment explanation
Indices: 10889966--10890066 Score: 89
Period size: 13 Copynumber: 7.7 Consensus size: 13
10889956 TTAAAACCCT
*
10889966 AAACCCTAAAATA
1 AAACCCTAAAATG
*
10889979 AAACTCTAAAATTG
1 AAACCCTAAAA-TG
*
10889993 AAA-CCTAAAATT
1 AAACCCTAAAATG
*
10890005 AAACCCTTAAATG
1 AAACCCTAAAATG
*
10890018 AAACCCTAAAATT
1 AAACCCTAAAATG
10890031 AAGACCCT-AAATG
1 AA-ACCCTAAAATG
* * *
10890044 AAATCATAAAATTA
1 AAACCCTAAAA-TG
10890058 AAACCCTAA
1 AAACCCTAA
10890067 GAAAAACCCG
Statistics
Matches: 69, Mismatches: 14, Indels: 9
0.75 0.15 0.10
Matches are distributed among these distances:
12 7 0.10
13 45 0.65
14 17 0.25
ACGTcount: A:0.54, C:0.20, G:0.04, T:0.22
Consensus pattern (13 bp):
AAACCCTAAAATG
Found at i:10890008 original size:26 final size:25
Alignment explanation
Indices: 10889966--10890066 Score: 114
Period size: 26 Copynumber: 3.9 Consensus size: 25
10889956 TTAAAACCCT
* *
10889966 AAACCCTAAAATAAAACTCTAAAATTG
1 AAACCCTAAAATTAAACCCT-AAA-TG
10889993 AAA-CCTAAAATTAAACCCTTAAATG
1 AAACCCTAAAATTAAACCC-TAAATG
10890018 AAACCCTAAAATTAAGACCCTAAATG
1 AAACCCTAAAATTAA-ACCCTAAATG
* *
10890044 AAATCATAAAATTAAAACCCTAA
1 AAACCCTAAAATT-AAACCCTAA
10890067 GAAAAACCCG
Statistics
Matches: 66, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
25 5 0.08
26 51 0.77
27 10 0.15
ACGTcount: A:0.54, C:0.20, G:0.04, T:0.22
Consensus pattern (25 bp):
AAACCCTAAAATTAAACCCTAAATG
Found at i:10890074 original size:52 final size:53
Alignment explanation
Indices: 10889966--10890085 Score: 124
Period size: 52 Copynumber: 2.3 Consensus size: 53
10889956 TTAAAACCCT
* * *
10889966 AAACCCTAAAA-TAAAACTCTAAAATTGAAACCTAAAATTAAACCCTTAAATG
1 AAACCCTAAAATTAAAACCCTAAAATTGAAACATAAAATTAAACCCTTAAATA
*
10890018 AAACCCTAAAATTAAGACCCT-AAA-TGAAATCATAAAATTAAAACCC-TAAGA-A
1 AAACCCTAAAATTAAAACCCTAAAATTGAAA-CATAAAATT-AAACCCTTAA-ATA
* *
10890070 AAACCCGAAACTTAAA
1 AAACCCTAAAATTAAA
10890086 TCCTAGGTAG
Statistics
Matches: 57, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
51 5 0.09
52 38 0.67
53 14 0.25
ACGTcount: A:0.55, C:0.20, G:0.05, T:0.20
Consensus pattern (53 bp):
AAACCCTAAAATTAAAACCCTAAAATTGAAACATAAAATTAAACCCTTAAATA
Found at i:10890331 original size:15 final size:16
Alignment explanation
Indices: 10890313--10890359 Score: 62
Period size: 15 Copynumber: 3.1 Consensus size: 16
10890303 TTATTTTGTT
*
10890313 AAAATATCAAAT-ATA
1 AAAATATAAAATAATA
10890328 AAAATATAAAATAATA
1 AAAATATAAAATAATA
*
10890344 AAAA-ATAATATAATA
1 AAAATATAAAATAATA
10890359 A
1 A
10890360 GATTTTAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
15 22 0.76
16 7 0.24
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (16 bp):
AAAATATAAAATAATA
Found at i:10890571 original size:19 final size:20
Alignment explanation
Indices: 10890540--10890581 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 20
10890530 TTTACAACAT
10890540 AAAAAGTTCTTAAAAAAA-A
1 AAAAAGTTCTTAAAAAAATA
10890559 AAAACAGTT-TTAAAAAAATA
1 AAAA-AGTTCTTAAAAAAATA
10890579 AAA
1 AAA
10890582 TTAAAATAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.69, C:0.05, G:0.05, T:0.21
Consensus pattern (20 bp):
AAAAAGTTCTTAAAAAAATA
Found at i:10893162 original size:17 final size:17
Alignment explanation
Indices: 10893083--10893164 Score: 53
Period size: 17 Copynumber: 4.8 Consensus size: 17
10893073 CTCGTAAAAG
10893083 TTTAA-ATTTAAAAAATA
1 TTTAATATTT-AAAAATA
* *
10893100 TATATAATTTTTAAAAAAA
1 T-T-TAATATTTAAAAATA
* * *
10893119 TATT-ATATTCAAAATTT
1 T-TTAATATTTAAAAATA
*
10893136 TTTTAT-TTTAAAAATA
1 TTTAATATTTAAAAATA
10893152 TTTAATATTTAAA
1 TTTAATATTTAAA
10893165 TTCATTCATT
Statistics
Matches: 49, Mismatches: 11, Indels: 10
0.70 0.16 0.14
Matches are distributed among these distances:
16 14 0.29
17 18 0.37
18 2 0.04
19 12 0.24
20 3 0.06
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (17 bp):
TTTAATATTTAAAAATA
Found at i:10899392 original size:6 final size:6
Alignment explanation
Indices: 10899381--10899414 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
10899371 TTGAAAAGAC
10899381 TTTTTA TTTTTA TTTTTA TTTATT- TTTTTA TTTT
1 TTTTTA TTTTTA TTTTTA TTT-TTA TTTTTA TTTT
10899415 ATACCCATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 2 0.08
6 22 0.85
7 2 0.08
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTA
Found at i:10901147 original size:17 final size:17
Alignment explanation
Indices: 10901125--10901165 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
10901115 GATTCCAACC
*
10901125 TTCACAAAGGTTCTAGA
1 TTCACAAAGATTCTAGA
* *
10901142 TTCACAAAGATTTTAGG
1 TTCACAAAGATTCTAGA
10901159 TTCACAA
1 TTCACAA
10901166 GGACTTTCAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.32
Consensus pattern (17 bp):
TTCACAAAGATTCTAGA
Found at i:10902624 original size:58 final size:56
Alignment explanation
Indices: 10902549--10902656 Score: 153
Period size: 58 Copynumber: 1.9 Consensus size: 56
10902539 TTTCAAATAA
* *
10902549 AGTACATTGGCAGTTTGCCCCATCAATTTTTCTTTCAAATTTTTTTTCTTTTTTTTAG
1 AGTACATTAGCAGTTTGCCCCATCAATTTCTCTTTC--ATTTTTTTTCTTTTTTTTAG
* * *
10902607 AGTACATTAGCATTTTGCTCTATCAATTTCTCTTTCATTTTTTTTCTTTT
1 AGTACATTAGCAGTTTGCCCCATCAATTTCTCTTTCATTTTTTTTCTTTT
10902657 CTTTGTCATT
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
56 14 0.31
58 31 0.69
ACGTcount: A:0.19, C:0.18, G:0.08, T:0.56
Consensus pattern (56 bp):
AGTACATTAGCAGTTTGCCCCATCAATTTCTCTTTCATTTTTTTTCTTTTTTTTAG
Found at i:10909159 original size:19 final size:19
Alignment explanation
Indices: 10909118--10909160 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
10909108 AAATAAACTA
* * *
10909118 TGATTGAAGAAAGATATTT
1 TGATTGAAGAAAAAGATTG
*
10909137 TGATTGGAGAAAAAGATTG
1 TGATTGAAGAAAAAGATTG
10909156 TGATT
1 TGATT
10909161 AATAGGATTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.26, T:0.35
Consensus pattern (19 bp):
TGATTGAAGAAAAAGATTG
Found at i:10915928 original size:2 final size:2
Alignment explanation
Indices: 10915921--10915949 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
10915911 TCTAGTTATT
10915921 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10915950 TGTTTGTGAG
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10918501 original size:14 final size:14
Alignment explanation
Indices: 10918482--10918511 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
10918472 AATTTGATGA
10918482 AATAAAAGAAAAAT
1 AATAAAAGAAAAAT
10918496 AATAAAAGAAAAAT
1 AATAAAAGAAAAAT
10918510 AA
1 AA
10918512 AATGCATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.13
Consensus pattern (14 bp):
AATAAAAGAAAAAT
Found at i:10928188 original size:298 final size:286
Alignment explanation
Indices: 10927516--10928189 Score: 704
Period size: 298 Copynumber: 2.3 Consensus size: 286
10927506 ATTAAAGACT
* * * * * ** *
10927516 TTTTCTAGCTAAAAATGCTTTATATAACCCATGAATTATTCACTCATTGGGGATTATTGAAAGCA
1 TTTT-TAGCCAAAAACGCCTTATATAACCCATGAATTATTCATTCATTAGAAATTATTGAAGGCA
* * * ** ** **
10927581 TTTACTATAAAAAAAATGCCTTAAATAAT-CTTA-G--CATTTTTTTGGAATAATCAAG--GATT
65 TTTTCTAT--CAAAAATGCCTTCAATAATCCCAATGTTTTTTTTTTTCAAATAATCAAGATG-TT
* * * *
10927640 TTTGG-CTAGAAAACACATTCAATAATCCTTTTCAATTTTTTACATGAGATTATTGAAGGCATTT
127 TTTGGCCAAAAAAATACCTTCAATAATCCTTTTCAATTTTTTACATGAGATTATTGAAGGCATTT
* * * *
10927704 TTAGCCAGAAAATACCTTGAATAATCCTTTACAAAATATTGAATGGAGTTATTGAAGGCGTTTCT
192 TTAGCCAGAAAAAACCTTAAATAATCCCTTACAAAATATTAAATGGAGTTATTGAAGGCGTTTCT
* * *
10927769 AGTTAAAAATGTCTTGAATAATTCGTGAAA
257 AGCTAAAAATGCCTTGAATAATTCGTAAAA
* * **
10927799 TTTTTAGCCAAAAATGCCTTATATAACCCATGAATTATTTATTCATTAGGGATTATTGAAGGCAT
1 TTTTTAGCCAAAAACGCCTTATATAACCCATGAATTATTCATTCATTAGAAATTATTGAAGGCAT
*
10927864 TTTCTATCAAAAATGCCTTTAATAATCCCAATGTTTTTTTTTTTCAAATAATCAAGATGTTTTTG
66 TTTCTATCAAAAATGCCTTCAATAATCCCAATGTTTTTTTTTTTCAAATAATCAAGATGTTTTTG
* **
10927929 GCCAAAAAAATACCTTCAATAAT-CTCTTTCAATTTTTTAGATGAGATTATTGAAGGTGTTTTTA
131 GCCAAAAAAATACCTTCAATAATCCT-TTTCAATTTTTTACATGAGATTATTGAAGGCATTTTTA
* * *
10927993 GCCA-AAAAAACGTCTTAAATAATCCCTTATAAAATATTAAATGTAGTTATTGCAA-GTGTTTCT
195 GCCAGAAAAAAC--CTTAAATAATCCCTTACAAAATATTAAATGGAGTTATTG-AAGGCGTTTCT
*
10928056 -GACTCAAAATGCCTTGAATAATTCATGGATTATTTAAAGCA
257 AG-CTAAAAATGCCTTGAATAATTC---G------TAAA--A
* * *
10928097 TTTTTTGCCAAAAACGCCTTATATAACCTATGAATTATTCATTCATTCGAAATTATTGAAGGCAT
1 TTTTTAGCCAAAAACGCCTTATATAACCCATGAATTATTCATTCATTAGAAATTATTGAAGGCAT
10928162 TTTCTATCAAAAATGCCTTCAATAATCC
66 TTTCTATCAAAAATGCCTTCAATAATCC
10928190 TTGCATTTGT
Statistics
Matches: 327, Mismatches: 41, Indels: 31
0.82 0.10 0.08
Matches are distributed among these distances:
280 17 0.05
281 2 0.01
282 62 0.19
283 4 0.01
284 17 0.05
285 15 0.05
286 58 0.18
287 60 0.18
288 2 0.01
290 1 0.00
296 3 0.01
298 86 0.26
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (286 bp):
TTTTTAGCCAAAAACGCCTTATATAACCCATGAATTATTCATTCATTAGAAATTATTGAAGGCAT
TTTCTATCAAAAATGCCTTCAATAATCCCAATGTTTTTTTTTTTCAAATAATCAAGATGTTTTTG
GCCAAAAAAATACCTTCAATAATCCTTTTCAATTTTTTACATGAGATTATTGAAGGCATTTTTAG
CCAGAAAAAACCTTAAATAATCCCTTACAAAATATTAAATGGAGTTATTGAAGGCGTTTCTAGCT
AAAAATGCCTTGAATAATTCGTAAAA
Found at i:10928358 original size:49 final size:49
Alignment explanation
Indices: 10928303--10928400 Score: 187
Period size: 49 Copynumber: 2.0 Consensus size: 49
10928293 AAAATGCCTT
*
10928303 GAATAATTTATGAATTATTCATTCATTGGGGATTATTGAAGGTGTTTTC
1 GAATAATTTATGAAATATTCATTCATTGGGGATTATTGAAGGTGTTTTC
10928352 GAATAATTTATGAAATATTCATTCATTGGGGATTATTGAAGGTGTTTTC
1 GAATAATTTATGAAATATTCATTCATTGGGGATTATTGAAGGTGTTTTC
10928401 TATCAAAAAC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.30, C:0.06, G:0.20, T:0.44
Consensus pattern (49 bp):
GAATAATTTATGAAATATTCATTCATTGGGGATTATTGAAGGTGTTTTC
Found at i:10930937 original size:21 final size:21
Alignment explanation
Indices: 10930869--10930937 Score: 50
Period size: 21 Copynumber: 3.1 Consensus size: 21
10930859 ATGCAATCAT
10930869 TGACCAAGAGTAATGCCTGAA
1 TGACCAAGAGTAATGCCTGAA
* * ** *
10930890 TGAGCAACAACAATAGAAACTTG-A
1 TGA-C--CAAGAGTA-ATGCCTGAA
10930914 TGACCAAGAGTAATGCCTGAA
1 TGACCAAGAGTAATGCCTGAA
10930935 TGA
1 TGA
10930938 GCAACAACAA
Statistics
Matches: 33, Mismatches: 10, Indels: 10
0.62 0.19 0.19
Matches are distributed among these distances:
20 4 0.12
21 13 0.39
22 1 0.03
23 1 0.03
24 10 0.30
25 4 0.12
ACGTcount: A:0.42, C:0.17, G:0.22, T:0.19
Consensus pattern (21 bp):
TGACCAAGAGTAATGCCTGAA
Found at i:10930949 original size:21 final size:21
Alignment explanation
Indices: 10930880--10930949 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
10930870 GACCAAGAGT
10930880 AATGCCTGAATGAGCAACAAC
1 AATGCCTGAATGAGCAACAAC
* * * **
10930901 AATAGAAACTTG-ATGACCAAGAGT
1 AAT-G---CCTGAATGAGCAACAAC
10930925 AATGCCTGAATGAGCAACAAC
1 AATGCCTGAATGAGCAACAAC
10930946 AATG
1 AATG
10930950 ACTCGTAACT
Statistics
Matches: 34, Mismatches: 10, Indels: 10
0.63 0.19 0.19
Matches are distributed among these distances:
20 3 0.09
21 15 0.44
22 1 0.03
23 1 0.03
24 11 0.32
25 3 0.09
ACGTcount: A:0.44, C:0.19, G:0.20, T:0.17
Consensus pattern (21 bp):
AATGCCTGAATGAGCAACAAC
Found at i:10932787 original size:14 final size:14
Alignment explanation
Indices: 10932768--10932794 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
10932758 AAAAAATTAA
10932768 ATATTTATATGAAT
1 ATATTTATATGAAT
10932782 ATATTTATATGAA
1 ATATTTATATGAA
10932795 CATAGAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.48
Consensus pattern (14 bp):
ATATTTATATGAAT
Found at i:10932947 original size:109 final size:109
Alignment explanation
Indices: 10932804--10933020 Score: 389
Period size: 109 Copynumber: 2.0 Consensus size: 109
10932794 ACATAGAAAA
10932804 ATATTTATATGAATATAAATACTACTATATATGTAGATTATTTATAATTTCACTTTCGATCTAGA
1 ATATTTATATGAATATAAATACTACTATATATGTAGATTATTTATAATTTCACTTTCGATCTAGA
*
10932869 ATGATTTTAAAATTTTATAAAACCATATTAAAATTGAAATATTT
66 ATGATTTTAAAATTTTATAAAACCATATTAAAACTGAAATATTT
* *
10932913 ATATTTATATGAATATAAATACTACTATATATGTAGATTATTTATAATTTGACTTTTGATCTAGA
1 ATATTTATATGAATATAAATACTACTATATATGTAGATTATTTATAATTTCACTTTCGATCTAGA
* *
10932978 ATGATTTTAAAATTTTATGAAACTATATTAAAACTGAAATATT
66 ATGATTTTAAAATTTTATAAAACCATATTAAAACTGAAATATT
10933021 AATTGAAGGT
Statistics
Matches: 103, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
109 103 1.00
ACGTcount: A:0.42, C:0.06, G:0.07, T:0.44
Consensus pattern (109 bp):
ATATTTATATGAATATAAATACTACTATATATGTAGATTATTTATAATTTCACTTTCGATCTAGA
ATGATTTTAAAATTTTATAAAACCATATTAAAACTGAAATATTT
Found at i:10940223 original size:48 final size:48
Alignment explanation
Indices: 10940152--10940246 Score: 154
Period size: 48 Copynumber: 2.0 Consensus size: 48
10940142 GGTTCCATTT
10940152 AAATCCATTAACATGAAAACATATGAGAAATGGAATGGCAAGATGCCC
1 AAATCCATTAACATGAAAACATATGAGAAATGGAATGGCAAGATGCCC
* * * *
10940200 AAATCCATTGACATTATAACATATGAGATATGGAATGGCAAGATGCC
1 AAATCCATTAACATGAAAACATATGAGAAATGGAATGGCAAGATGCC
10940247 ATACATGTCA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.43, C:0.16, G:0.19, T:0.22
Consensus pattern (48 bp):
AAATCCATTAACATGAAAACATATGAGAAATGGAATGGCAAGATGCCC
Found at i:10944781 original size:45 final size:45
Alignment explanation
Indices: 10944730--10944819 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
10944720 AAGATCTATC
10944730 ATAGCATATATAGGATAGATCCCATAACTTTCAAAAGCTCATCCT
1 ATAGCATATATAGGATAGATCCCATAACTTTCAAAAGCTCATCCT
10944775 ATAGCATATATAGGATAGATCCCATAACTTTCAAAAGCTCATCCT
1 ATAGCATATATAGGATAGATCCCATAACTTTCAAAAGCTCATCCT
10944820 CTATTTTTCC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.38, C:0.22, G:0.11, T:0.29
Consensus pattern (45 bp):
ATAGCATATATAGGATAGATCCCATAACTTTCAAAAGCTCATCCT
Found at i:10944818 original size:22 final size:22
Alignment explanation
Indices: 10944748--10944818 Score: 54
Period size: 22 Copynumber: 3.2 Consensus size: 22
10944738 TATAGGATAG
10944748 ATCCCATAACTTTCAAAAGCTC
1 ATCCCATAACTTTCAAAAGCTC
* * * * * * *
10944770 ATCCTATAGCATAT-ATAGGATAG
1 ATCCCATAAC-TTTCAAAAGCT-C
10944793 ATCCCATAACTTTCAAAAGCTC
1 ATCCCATAACTTTCAAAAGCTC
10944815 ATCC
1 ATCC
10944819 TCTATTTTTC
Statistics
Matches: 32, Mismatches: 14, Indels: 6
0.62 0.27 0.12
Matches are distributed among these distances:
22 18 0.56
23 14 0.44
ACGTcount: A:0.37, C:0.27, G:0.08, T:0.28
Consensus pattern (22 bp):
ATCCCATAACTTTCAAAAGCTC
Found at i:10946463 original size:103 final size:103
Alignment explanation
Indices: 10946351--10946546 Score: 268
Period size: 103 Copynumber: 1.9 Consensus size: 103
10946341 TTACTTTATG
* *** * * *
10946351 AAAACTCATTAAATCTTTTGATAATTTGATAAGATTTAATTCAAGATTTAAATCCTCTAAT-AGT
1 AAAACTCATTAAATCCTCCAATAATTTGATAAGACTTAATTCAAGATTTAAATCATCCAATCA-T
10946415 TTAGTAAGATTGAAAAACAATTTATTTTTTATTACAAAA
65 TTAGTAAGATTGAAAAACAATTTATTTTTTATTACAAAA
* * * *
10946454 AAAATTCATTAAGTCCTCCAATAGTTTGGTAAGACTTAATTCAAGATTTAAATCATCCAATCATT
1 AAAACTCATTAAATCCTCCAATAATTTGATAAGACTTAATTCAAGATTTAAATCATCCAATCATT
*
10946519 TGGTAAGATTGAAAAACAATTTATTTTT
66 TAGTAAGATTGAAAAACAATTTATTTTT
10946547 AATAAAATAT
Statistics
Matches: 80, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
103 79 0.99
104 1 0.01
ACGTcount: A:0.41, C:0.11, G:0.09, T:0.39
Consensus pattern (103 bp):
AAAACTCATTAAATCCTCCAATAATTTGATAAGACTTAATTCAAGATTTAAATCATCCAATCATT
TAGTAAGATTGAAAAACAATTTATTTTTTATTACAAAA
Found at i:10948519 original size:16 final size:16
Alignment explanation
Indices: 10948494--10948524 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
10948484 ACCTAAAAAT
10948494 ATGCAATAAATTAAAG
1 ATGCAATAAATTAAAG
*
10948510 ATGCAGTAAATTAAA
1 ATGCAATAAATTAAA
10948525 TCAAGAGTAA
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:0.55, C:0.06, G:0.13, T:0.26
Consensus pattern (16 bp):
ATGCAATAAATTAAAG
Found at i:10954190 original size:16 final size:16
Alignment explanation
Indices: 10954171--10954204 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
10954161 TATGTACTTG
* *
10954171 AATTAATCTAAACTCA
1 AATTAATCCAAACCCA
10954187 AATTAATCCAAACCCA
1 AATTAATCCAAACCCA
10954203 AA
1 AA
10954205 ATGACCAACC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.53, C:0.24, G:0.00, T:0.24
Consensus pattern (16 bp):
AATTAATCCAAACCCA
Found at i:10960808 original size:40 final size:41
Alignment explanation
Indices: 10960753--10960838 Score: 129
Period size: 41 Copynumber: 2.1 Consensus size: 41
10960743 TATCTACATT
*
10960753 AAAATATGTTAGTAGC-TTATCATTCTTGTGCAACCATAAC
1 AAAATATGTTAGTAGCTTTATCATCCTTGTGCAACCATAAC
* * *
10960793 AAAATATTTTAGTAGCTTTATCATCCTTGTGTAGCCATAAC
1 AAAATATGTTAGTAGCTTTATCATCCTTGTGCAACCATAAC
10960834 AAAAT
1 AAAAT
10960839 GTGAACATGA
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
40 15 0.37
41 26 0.63
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (41 bp):
AAAATATGTTAGTAGCTTTATCATCCTTGTGCAACCATAAC
Found at i:10964342 original size:13 final size:13
Alignment explanation
Indices: 10964326--10964355 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
10964316 TATTTAATTT
10964326 TAAAAATTAAATC
1 TAAAAATTAAATC
*
10964339 TAAATATTAAATC
1 TAAAAATTAAATC
10964352 TAAA
1 TAAA
10964356 CGATTCAAAG
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:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (13 bp):
TAAAAATTAAATC
Found at i:10966997 original size:21 final size:20
Alignment explanation
Indices: 10966960--10966998 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
10966950 TTTTGGTTAG
* *
10966960 TGCTTTTTGTTATTTGCTTT
1 TGCTTTTTGATAATTGCTTT
10966980 TGCTTTTTGAATAATTGCT
1 TGCTTTTTG-ATAATTGCT
10966999 ATAAAGCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.13, C:0.10, G:0.15, T:0.62
Consensus pattern (20 bp):
TGCTTTTTGATAATTGCTTT
Found at i:10967819 original size:112 final size:109
Alignment explanation
Indices: 10967599--10967955 Score: 349
Period size: 112 Copynumber: 3.2 Consensus size: 109
10967589 AAAAGTGCCT
* * ** *
10967599 TTTAACAAAGACGACGTTTCTTATGTAAGAAATGCAGTCTTTGTATTCTT-AAGACTGTGTTTCC
1 TTTAACAAAGACTATGTTTCTTATGTAAGAAATGCAGTCTTTGTATTCTTAAAGACTACGTTTCT
** * * * * **
10967663 GACAAAAAAAATGTGGTCGTAGTTATCTAAAATCGTGCTTTTGTTA
66 G-CGTAAGAAATGTGGTCTTTGTTATTTAAAAAAGTG-TTTTGTTA
* * * * *
10967709 TTTAACAAAAAATGATGTTTCTTATGTCAGACATGCAGTCTTTGTATTCTTAAAGGCTACGTTTC
1 TTTAACAAAGACT-ATGTTTCTTATGTAAGAAATGCAGTCTTTGTATTCTTAAAGACTACGTTTC
*
10967774 TTGCGTAAGAAATGTGGTCTTTGTTATTTAAAAAAATGTTTTTGTTTA
65 -TGCGTAAGAAATGTGGTCTTTGTTATTTAAAAAAGTG-TTTTG-TTA
* * * * ** * *
10967822 TTTATCAAAGGCTACGTTTCTTATGTTAGAAATGTGGTCTTTGTATTCTTAAAGATTACATTTCT
1 TTTAACAAAGACTATGTTTCTTATGTAAGAAATGCAGTCTTTGTATTCTTAAAGACTACGTTTCT
* * * *
10967887 GAGATAAGAAACGTGGTCTTTGTCT-TTTAAAAAGGTGTTCTGTTA
66 GCG-TAAGAAATGTGGTCTTTGT-TATTTAAAAAAGTGTTTTGTTA
10967932 TTTAACAAAGACTATGTTTCTTAT
1 TTTAACAAAGACTATGTTTCTTAT
10967956 TTTAAAACGT
Statistics
Matches: 201, Mismatches: 40, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
110 34 0.17
111 41 0.20
112 112 0.56
113 14 0.07
ACGTcount: A:0.29, C:0.12, G:0.17, T:0.41
Consensus pattern (109 bp):
TTTAACAAAGACTATGTTTCTTATGTAAGAAATGCAGTCTTTGTATTCTTAAAGACTACGTTTCT
GCGTAAGAAATGTGGTCTTTGTTATTTAAAAAAGTGTTTTGTTA
Found at i:10967990 original size:110 final size:112
Alignment explanation
Indices: 10967599--10968020 Score: 297
Period size: 112 Copynumber: 3.8 Consensus size: 112
10967589 AAAAGTGCCT
* * * ** * * *
10967599 TTTAACAAAGACGACGTTTCTTATGTAAGAAATGCAGTCTTTGTATTCTTAAGACTGT--GTTTC
1 TTTAACAAAGACTACGTTTCTTATGTTAGAAACGTGGTCTTTGTATTCTTAAAAAT-TACATTTC
* * * * * * * ***
10967662 CGACAAAAAAAATGTGGTCGTAGTTATCTAAAATCGTGCTTT-TG-TTA
65 TGACATAAGAAACGTGGTCTTTGTTATTTAAAAAAATG-TTTCTGTTTA
* * * * * * ** *** *
10967709 TTTAACAAAAAATGATGTTTCTTATGTCAGACATGCAGTCTTTGTATTCTTAAAGGCTACGTTTC
1 TTTAACAAAGACT-ACGTTTCTTATGTTAGAAACGTGGTCTTTGTATTCTTAAAAATTACATTTC
* * *
10967774 TTG-CGTAAGAAATGTGGTCTTTGTTATTTAAAAAAATGTTTTTGTTTA
65 -TGACATAAGAAACGTGGTCTTTGTTATTTAAAAAAATGTTTCTGTTTA
* * * *
10967822 TTTATCAAAGGCTACGTTTCTTATGTTAGAAATGTGGTCTTTGTATTCTTAAAGATTACATTTCT
1 TTTAACAAAGACTACGTTTCTTATGTTAGAAACGTGGTCTTTGTATTCTTAAAAATTACATTTCT
* **
10967887 GAGATAAGAAACGTGGTCTTTGTCT-TTTAAAAAGGTG-TTCTG-TTA
66 GACATAAGAAACGTGGTCTTTGT-TATTTAAAAAAATGTTTCTGTTTA
* * * * *
10967932 TTTAACAAAGACTATGTTTCTTATTTTA-AAACGTGGTCTTTGTTTTCTTTAAAAATTACGTTTT
1 TTTAACAAAGACTACGTTTCTTATGTTAGAAACGTGGTCTTTGTATTC-TTAAAAATTACATTTC
*
10967996 TGACATATA-AAACGTGATCTTTGTT
65 TGACATA-AGAAACGTGGTCTTTGTT
10968021 TTAAAGACTA
Statistics
Matches: 253, Mismatches: 49, Indels: 21
0.78 0.15 0.07
Matches are distributed among these distances:
109 18 0.07
110 71 0.28
111 46 0.18
112 104 0.41
113 14 0.06
ACGTcount: A:0.29, C:0.12, G:0.17, T:0.42
Consensus pattern (112 bp):
TTTAACAAAGACTACGTTTCTTATGTTAGAAACGTGGTCTTTGTATTCTTAAAAATTACATTTCT
GACATAAGAAACGTGGTCTTTGTTATTTAAAAAAATGTTTCTGTTTA
Found at i:10969539 original size:2 final size:2
Alignment explanation
Indices: 10969527--10969558 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
10969517 TTTGTCAGTG
10969527 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10969559 GGTGCTCTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:10971052 original size:16 final size:16
Alignment explanation
Indices: 10971016--10971046 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
10971006 ACCCAAACTC
10971016 AAAATAACCTAAAACA
1 AAAATAACCTAAAACA
10971032 AAAATAACCTAAAAC
1 AAAATAACCTAAAAC
10971047 CTAAATTATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.68, C:0.19, G:0.00, T:0.13
Consensus pattern (16 bp):
AAAATAACCTAAAACA
Found at i:10971244 original size:26 final size:24
Alignment explanation
Indices: 10971215--10971262 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 24
10971205 TTATTAAAAT
10971215 TATTGAATATCTTAAATTAATATATA
1 TATTGAATATC--AAATTAATATATA
*
10971241 TATTTAATATCAAATTAATATA
1 TATTGAATATCAAATTAATATA
10971263 AATTATATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 11 0.52
26 10 0.48
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (24 bp):
TATTGAATATCAAATTAATATATA
Found at i:10972443 original size:108 final size:108
Alignment explanation
Indices: 10972254--10972470 Score: 416
Period size: 108 Copynumber: 2.0 Consensus size: 108
10972244 TATATGTAAG
10972254 CATAGTAGTTTTTAATATCATTAGCATTTGGGTCAAATATAACAATAAGAAATTACTAATTAGCA
1 CATAGTAGTTTTTAATATCATTAGCATTTGGGTCAAATATAACAATAAGAAATTACTAATTAGCA
10972319 TAGTATATATAACATATTTTATTTTTATCTATTCATTTAAGAA
66 TAGTATATATAACATATTTTATTTTTATCTATTCATTTAAGAA
10972362 CATAGTAGTTTTTAATATCATTAGCATTTGGGTCAAATATAACAATAAGAAATTACTAATTAGCA
1 CATAGTAGTTTTTAATATCATTAGCATTTGGGTCAAATATAACAATAAGAAATTACTAATTAGCA
* *
10972427 TGGTATATATAACATATTTTATTTTTGTCTATTCATTTAAGAA
66 TAGTATATATAACATATTTTATTTTTATCTATTCATTTAAGAA
10972470 C
1 C
10972471 TGAGGGGATT
Statistics
Matches: 107, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
108 107 1.00
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.41
Consensus pattern (108 bp):
CATAGTAGTTTTTAATATCATTAGCATTTGGGTCAAATATAACAATAAGAAATTACTAATTAGCA
TAGTATATATAACATATTTTATTTTTATCTATTCATTTAAGAA
Found at i:10975364 original size:648 final size:644
Alignment explanation
Indices: 10972989--10975563 Score: 3627
Period size: 647 Copynumber: 4.0 Consensus size: 644
10972979 TGACGTATTG
** ** * *
10972989 TGCATTTCCATGATGGAGCAGGCCAAATCAATTTACCCAAGAAAAAATATTATAATATCTACCTC
1 TGCATTTCCATGATAAAGCAGGGAAAATCAATTT-GCCAA-AAAAAAGATTATAATATCTACCTC
* * *
10973054 TAAAATGGCATCCATAGAGTAGTTTTGAGAATTTCATAGTGTATGCTTCATCCTTTTTGTCCAAT
64 TAAAATGGCATCTATAGAGCAGTTTTGAGAGTTTCATAGTGTATGCTTCAT-CTTTTTGTCCAAT
* * * * * *
10973119 TTAGATAATTCTACCATGGCATATTTGATACGTGATTTACCAAACTAAAAGCCTTTTAAACTCAA
128 TTAGATAATTCAACCATGGCATATTTGATACATGATCTACCTAACTAAAAGCCTCTCAAACTCAA
* * ** *
10973184 CTTATGCTTTAGCACTTCTT-TCTTACTACACGACACTACCAAGACAACATAATCATTTTCCTTT
193 CCTATGCTTTAGCACTTCTTCT-TTACTACACAACACTACCAAGATGACATAATCATTTTGCTTT
* *
10973248 AGCATGAGCTTTCATAAAACTAAAAATTTATTTTTAATGAATTTGGTCACATGTTACAGGTGGTG
257 AGCATAAGCTTTCATAAAACTAAAAATTTATTTTTAATGAATTTAGTCACATGTTACAGGTGGTG
** * * *
10973313 GGCACATTTTGTAAGATCTTTAATAAAAGAATGATGTAGTTTTATTTGGCAAAAGTTTAAACAAT
322 GGCACATTTCATAAAATCTTTAACAAAAGAATGATGCAGTTTTATTTGGCAAAAGTTTAAACAAT
*
10973378 AAAATAACATGACATAAAGGGATACAAGTAAAAATTGATAATGATTCTAATAAGTTAATTACATG
387 AAAATAACATGACATAAAGGGATATAAGTAAAAATTGATAATGATTCTAATAAGTTAATTACATG
** *
10973443 TATAAAAGTGAGTAAGCAACACACATGTACATAGAGAACAACATGGAAACAATTTATATTCAAAT
452 TATAAAAGTGAGTAAGCAACACACATACACATAGAGAACAACATAGAAACAATTTATATTCAAAT
* * * * *
10973508 ATAAAATTAGATGAATAGAATAATGTAAAAGGGAAAAGTGATTGTAGACACTCTATTTAGTCCAA
517 ATAAAATCAGATAAATAGAATAATGTAAAAGGGAAAAATGATTATAGACACCCTATTTAGTCCAA
* * * *
10973573 GGCCTAAACGGATTGGGTTTTGGAATCGTTTCAAGCCCAATTGTTAAATTTGATGTACTGTATTA
582 GGCCTAAACGG-TTGGG-TTTGGAACCGTTTCAAGGCCAATTGTTAAATTTGATGTACTATACTA
*
10973638 TGCATTTCCATGATAAAGCAGGGAAAATTAATTTGCCAAAAAAAAGATTATAATATCTACCTCTA
1 TGCATTTCCATGATAAAGCAGGGAAAATCAATTTGCCAAAAAAAAGATTATAATATCTACCTCTA
* * * *
10973703 AAATGGCATCTATGGGGCAGTTTTGAGAGTTTCATAGTGTATGCTTCACCATTCTTGTCCAATTT
66 AAATGGCATCTATAGAGCAGTTTTGAGAGTTTCATAGTGTATGCTTCATC-TTTTTGTCCAATTT
* * *
10973768 AGATAATTCAACCATGGGATATTTGATACGTGATCTACGTAACTAAAAGCCTCTCAAACTCAACC
130 AGATAATTCAACCATGGCATATTTGATACATGATCTACCTAACTAAAAGCCTCTCAAACTCAACC
*
10973833 TATGCTTTAGCACTTCTTCTTTGCTACACAACACTACCAAGATGA-AGTAATCATTTTGCTTTAG
195 TATGCTTTAGCACTTCTTCTTTACTACACAACACTACCAAGATGACA-TAATCATTTTGCTTTAG
* * * *
10973897 CATAAGCTTTCATAAAATTGAAAATTTATTTTTAATGAATTTAGTCGCATGTTACAGGTGGTGGT
259 CATAAGCTTTCATAAAACTAAAAATTTATTTTTAATGAATTTAGTCACATGTTACAGGTGGTGGG
* *
10973962 CACATTTCATAAAATCTTTAACAAAAGAATGATGTAGTTTTATTTGGCAAAGGTTTAAACAATAA
324 CACATTTCATAAAATCTTTAACAAAAGAATGATGCAGTTTTATTTGGCAAAAGTTTAAACAATAA
10974027 AATAACATGACATAAAGGGATATAAGTAAAAATTGATAATGATTCTAATAAGTTAATTACATGTA
389 AATAACATGACATAAAGGGATATAAGTAAAAATTGATAATGATTCTAATAAGTTAATTACATGTA
* * *
10974092 TAAAAGTGAGTAAGCAACACACATGCACATAGAGAACAACATGGAAACAATTTATATTCAGATAT
454 TAAAAGTGAGTAAGCAACACACATACACATAGAGAACAACATAGAAACAATTTATATTCAAATAT
* * * *
10974157 AAAATCAGATAAATA-AAGTAATGTAAAAGGAGAAAAATAATTATAGACACCTTATTTAGTCTAG
519 AAAATCAGATAAATAGAA-TAATGTAAAAGG-GAAAAATGATTATAGACACCCTATTTAGTCCAA
** * * * *
10974221 GGCCTAAACTTTTTGGGTTTGGAACCATTTCAAGTCCAATTGTTAAATTTGATGTACTAGACTG
582 GGCCTAAAC-GGTTGGGTTTGGAACCGTTTCAAGGCCAATTGTTAAATTTGATGTACTATACTA
*
10974285 TGCATTTCCATGATAAAGCAGGGAAAATTAATTTGCCAAAAAAAAGATTATAATATCTACCTCTA
1 TGCATTTCCATGATAAAGCAGGGAAAATCAATTTGCCAAAAAAAAGATTATAATATCTACCTCTA
* * *
10974350 AAATGACATCTATGGGGCAGTTTTGAGAGTTTCATAGTGTATGCTTCACTCTTTTTGTCCAATTT
66 AAATGGCATCTATAGAGCAGTTTTGAGAGTTTCATAGTGTATGCTTCA-TCTTTTTGTCCAATTT
*
10974415 AGATAATTCAACCATGGGATATTTGA-A-ATGATCTACCTAACTAAAAGCCTCTCAAACTCAACC
130 AGATAATTCAACCATGGCATATTTGATACATGATCTACCTAACTAAAAGCCTCTCAAACTCAACC
* * * * ** *
10974478 TATGCTTTAGCATTTCTTCCTTACTACACGACACTACTAAGATGATGTAATCATTTTGCTTTAGA
195 TATGCTTTAGCACTTCTTCTTTACTACACAACACTACCAAGATGACATAATCATTTTGCTTTAGC
* * * * *
10974543 ATAAGCTTTCATAAAATTGAAAATTTATTTTTAATGAAATTAGTCGCATGTTACAGGTGGTGAGC
260 ATAAGCTTTCATAAAACTAAAAATTTATTTTTAATGAATTTAGTCACATGTTACAGGTGGTGGGC
* * *
10974608 ACATTTCATAAAGTCTTTAACAAAAAAATGATGCAATTTTATTTGGCAAAAGTTTAAACAATAAA
325 ACATTTCATAAAATCTTTAACAAAAGAATGATGCAGTTTTATTTGGCAAAAGTTTAAACAATAAA
* ** **
10974673 ATAATATGACATAAAAAGATATAAGTAAAAATTGATAATGATTCTAACCAGTTAATTACATGTAT
390 ATAACATGACATAAAGGGATATAAGTAAAAATTGATAATGATTCTAATAAGTTAATTACATGTAT
** * *
10974738 AAAAGTGAGTAAGCAACACACATACACATAGAGAATGACATAGAAACAATTTATATTTAGATATA
455 AAAAGTGAGTAAGCAACACACATACACATAGAGAACAACATAGAAACAATTTATATTCAAATATA
* * * * * *
10974803 AAATCAAATAAATAGAGTAATGTAAAAGGGGAAAAGTGATTGTAGATACCCTATTTAATCCAAGG
520 AAATCAGATAAATAGAATAATGTAAAA-GGGAAAAATGATTATAGACACCCTATTTAGTCCAAGG
* * * ** *
10974868 CCTAAGTCGGTTGGGTTTGGAACTGTTTCAAGGCTAATTGTTAAATTTGACATATTATACTA
584 CCTAA-ACGGTTGGGTTTGGAACCGTTTCAAGGCCAATTGTTAAATTTGATGTACTATACTA
* * *
10974930 TGCATTTCCTTGATAGAGCAGGGCAAATCAATTTGCCAAAAAAAAAGATTATAATATCTACCTCT
1 TGCATTTCCATGATAAAGCAGGGAAAATCAATTTGCC-AAAAAAAAGATTATAATATCTACCTCT
* * *
10974995 AAAATGGCATCTATAGAGTAGTTTTGAGAGTTTCATAGTGTATGCTTCATCTTTCTTGTCTAGTT
65 AAAATGGCATCTATAGAGCAGTTTTGAGAGTTTCATAGTGTATGCTTCATCTTT-TTGTCCAATT
* *
10975060 TAGATAATTCTACCATGGCATATTTGATACATGATCTACCTAACTAAAAGCCTCTCAAAGTCAAC
129 TAGATAATTCAACCATGGCATATTTGATACATGATCTACCTAACTAAAAGCCTCTCAAACTCAAC
* *
10975125 CTGTGCTTTAGCACTTCTTCTTTACTATACAACACTACCAAGATGACATAATCATTTTGCTTTAG
194 CTATGCTTTAGCACTTCTTCTTTACTACACAACACTACCAAGATGACATAATCATTTTGCTTTAG
* * * * *
10975190 CATGAGCTTTCATAAAACTAAAAATTTATTTTTAACGAATTTGGTCACATGTTATATGTGGTGGG
259 CATAAGCTTTCATAAAACTAAAAATTTATTTTTAATGAATTTAGTCACATGTTACAGGTGGTGGG
** ** *
10975255 CACATTTTGTAAAATCTTTAACAAAAGAATGATGCAGTTTTATTTGGCAAAAGTTTAAATGATCA
324 CACATTTCATAAAATCTTTAACAAAAGAATGATGCAGTTTTATTTGGCAAAAGTTTAAACAATAA
* **
10975320 AATAACATGACATAAAGGGATATAAGTAAAAATTGAAAATGATTCTAATCGGTTAATTACATGTA
389 AATAACATGACATAAAGGGATATAAGTAAAAATTGATAATGATTCTAATAAGTTAATTACATGTA
** *
10975385 TAAAAGTGAGTAAGCAACACACATACACATAGAGAATGACATAAAAACAATTTATATTCAAATAT
454 TAAAAGTGAGTAAGCAACACACATACACATAGAGAACAACATAGAAACAATTTATATTCAAATAT
* * * * * *
10975450 AAAATCATATGAATAGAATAGTGTAATATGGAAAAATGATTATAGA-AGCCCTA-TTAGTCCAGG
519 AAAATCAGATAAATAGAATAATGTAAAAGGGAAAAATGATTATAGACA-CCCTATTTAGTCCAAG
* * *
10975513 GCCTAAACCAGTTGGGTTTGGAACCGCTTCAA-GCTCGATTGTTAAATTTGA
583 GCCTAAA-CGGTTGGGTTTGGAACCGTTTCAAGGC-CAATTGTTAAATTTGA
10975564 GATTTTTATT
Statistics
Matches: 1732, Mismatches: 176, Indels: 39
0.89 0.09 0.02
Matches are distributed among these distances:
645 471 0.27
646 164 0.09
647 676 0.39
648 392 0.23
649 29 0.02
ACGTcount: A:0.38, C:0.14, G:0.15, T:0.32
Consensus pattern (644 bp):
TGCATTTCCATGATAAAGCAGGGAAAATCAATTTGCCAAAAAAAAGATTATAATATCTACCTCTA
AAATGGCATCTATAGAGCAGTTTTGAGAGTTTCATAGTGTATGCTTCATCTTTTTGTCCAATTTA
GATAATTCAACCATGGCATATTTGATACATGATCTACCTAACTAAAAGCCTCTCAAACTCAACCT
ATGCTTTAGCACTTCTTCTTTACTACACAACACTACCAAGATGACATAATCATTTTGCTTTAGCA
TAAGCTTTCATAAAACTAAAAATTTATTTTTAATGAATTTAGTCACATGTTACAGGTGGTGGGCA
CATTTCATAAAATCTTTAACAAAAGAATGATGCAGTTTTATTTGGCAAAAGTTTAAACAATAAAA
TAACATGACATAAAGGGATATAAGTAAAAATTGATAATGATTCTAATAAGTTAATTACATGTATA
AAAGTGAGTAAGCAACACACATACACATAGAGAACAACATAGAAACAATTTATATTCAAATATAA
AATCAGATAAATAGAATAATGTAAAAGGGAAAAATGATTATAGACACCCTATTTAGTCCAAGGCC
TAAACGGTTGGGTTTGGAACCGTTTCAAGGCCAATTGTTAAATTTGATGTACTATACTA
Found at i:10977543 original size:32 final size:32
Alignment explanation
Indices: 10977497--10977564 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 32
10977487 TTATGACAGT
*
10977497 TTAATGACTTGTTGGAGAATATCAATAGAAAG
1 TTAACGACTTGTTGGAGAATATCAATAGAAAG
*
10977529 TTAACGACTTGTTGGAGAATATCAATAGAGAG
1 TTAACGACTTGTTGGAGAATATCAATAGAAAG
10977561 TTAA
1 TTAA
10977565 GCCATAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.40, C:0.07, G:0.22, T:0.31
Consensus pattern (32 bp):
TTAACGACTTGTTGGAGAATATCAATAGAAAG
Found at i:10979719 original size:13 final size:12
Alignment explanation
Indices: 10979679--10979721 Score: 61
Period size: 13 Copynumber: 3.6 Consensus size: 12
10979669 ATTGCAAACA
*
10979679 AAAAGA-AAAAA
1 AAAAGAGAAAAG
10979690 AAAAGAGAAAAG
1 AAAAGAGAAAAG
10979702 AAAAGATGAAAAG
1 AAAAGA-GAAAAG
10979715 AAAAGAG
1 AAAAGAG
10979722 TTGTAATATC
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
11 6 0.21
12 11 0.38
13 12 0.41
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (12 bp):
AAAAGAGAAAAG
Found at i:10996582 original size:70 final size:70
Alignment explanation
Indices: 10996455--10996599 Score: 175
Period size: 70 Copynumber: 2.1 Consensus size: 70
10996445 AATGCTTTGG
* * ** ** *
10996455 TTTGATAATTGCATTTGCATCATGATTTGAACATGCATTTGCAGTACTTAGTGAACATTTGAATT
1 TTTGATAATTGCATTTCCATCATGATTTGAACATACATCCGCAGTACTTAGCAAACATTTGAATC
10996520 ATTGT
66 ATTGT
* * * *
10996525 TTTGATAATTGTATTTCCATCATGATTTGGACCTACATCCGCA-TCATTTAGCAAACATTTGAAT
1 TTTGATAATTGCATTTCCATCATGATTTGAACATACATCCGCAGT-ACTTAGCAAACATTTGAAT
10996589 CATTGT
65 CATTGT
10996595 TTTGA
1 TTTGA
10996600 ATATTGGGCT
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
69 1 0.02
70 62 0.98
ACGTcount: A:0.28, C:0.14, G:0.15, T:0.42
Consensus pattern (70 bp):
TTTGATAATTGCATTTCCATCATGATTTGAACATACATCCGCAGTACTTAGCAAACATTTGAATC
ATTGT
Found at i:10997201 original size:78 final size:78
Alignment explanation
Indices: 10997102--10997324 Score: 367
Period size: 78 Copynumber: 2.9 Consensus size: 78
10997092 TCTGAATCTC
*
10997102 TAAGACTTTT-GAATGCGAATCTTTGAAATTTTATATGTGAATCTCTAAAATTTTTTCGAATGAG
1 TAAGATTTTTAGAATGCGAATCTTTGAAATTTTATATGTGAATCTCTAAAATTTTTTCGAATGAG
*
10997166 AATCTTATCCCTT
66 AATCTTATCACTT
*
10997179 TAAGATTTTTAGAATGCGAATCTTTGAAATTTTATATGTGAATCTCTAAAATTTTTTCGAATAAG
1 TAAGATTTTTAGAATGCGAATCTTTGAAATTTTATATGTGAATCTCTAAAATTTTTTCGAATGAG
10997244 AATCTTATCACTT
66 AATCTTATCACTT
* * * * *
10997257 TAAGATTTTTAGAATGCGAATCTTTGAAATTTTAGATATGAATCTCTAAAGTTTTTTTGAAAGAG
1 TAAGATTTTTAGAATGCGAATCTTTGAAATTTTATATGTGAATCTCTAAAATTTTTTCGAATGAG
10997322 AAT
66 AAT
10997325 TTTTGAATCT
Statistics
Matches: 136, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
77 9 0.07
78 127 0.93
ACGTcount: A:0.34, C:0.10, G:0.13, T:0.43
Consensus pattern (78 bp):
TAAGATTTTTAGAATGCGAATCTTTGAAATTTTATATGTGAATCTCTAAAATTTTTTCGAATGAG
AATCTTATCACTT
Found at i:10997492 original size:46 final size:45
Alignment explanation
Indices: 10997440--10997549 Score: 116
Period size: 45 Copynumber: 2.4 Consensus size: 45
10997430 GAATTTTGGT
* * *
10997440 CGTGAATATCTAAAGTTTTTCAAATGAGAATTTTTTAAATCTTG-G
1 CGTGAATATCTAAAATTTTTCAAATGA-AAATATTTAAATCTTGTG
* ** *
10997485 ATGTGAAT-TCTTAAAATTTTTTGAATGAAAATATTTAAATTTTGTG
1 -CGTGAATATC-TAAAATTTTTCAAATGAAAATATTTAAATCTTGTG
10997531 CGTGAATATCTAAAATTTT
1 CGTGAATATCTAAAATTTT
10997550 CGAATGTGAA
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
45 30 0.57
46 23 0.43
ACGTcount: A:0.35, C:0.06, G:0.14, T:0.45
Consensus pattern (45 bp):
CGTGAATATCTAAAATTTTTCAAATGAAAATATTTAAATCTTGTG
Found at i:10997843 original size:17 final size:17
Alignment explanation
Indices: 10997823--10998023 Score: 78
Period size: 17 Copynumber: 12.2 Consensus size: 17
10997813 AATTCTTACA
*
10997823 AATCTTCAATTCTTGTG
1 AATCTTAAATTCTTGTG
*
10997840 AATC-TAAATTCTTGTA
1 AATCTTAAATTCTTGTG
* *
10997856 AATC-----TTCATGTA
1 AATCTTAAATTCTTGTG
* *
10997868 AATGTAAAAATT-TTGTG
1 AATCTTA-AATTCTTGTG
* *
10997885 AATCTTTAATTCTTGCG
1 AATCTTAAATTCTTGTG
* * * * *
10997902 AATATGAAAATATTGTA
1 AATCTTAAATTCTTGTG
* * *
10997919 AATCTTTAATTTTTGCG
1 AATCTTAAATTCTTGTG
* **
10997936 AATCTTTAATTCTTACG
1 AATCTTAAATTCTTGTG
* *
10997953 AAAT-TTCAATTCTTGCG
1 -AATCTTAAATTCTTGTG
*
10997970 AATCTAAAATTCTTGTG
1 AATCTTAAATTCTTGTG
* *
10997987 AATCTTAAAATCTTATG
1 AATCTTAAATTCTTGTG
* *
10998004 AAGCTCT-AATTCTTGCG
1 AATCT-TAAATTCTTGTG
10998021 AAT
1 AAT
10998024 ATAAAAATAT
Statistics
Matches: 135, Mismatches: 39, Indels: 20
0.70 0.20 0.10
Matches are distributed among these distances:
12 10 0.07
16 21 0.16
17 98 0.73
18 6 0.04
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.43
Consensus pattern (17 bp):
AATCTTAAATTCTTGTG
Found at i:10997851 original size:16 final size:16
Alignment explanation
Indices: 10997830--10997860 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
10997820 ACAAATCTTC
*
10997830 AATTCTTGTGAATCTA
1 AATTCTTGTAAATCTA
10997846 AATTCTTGTAAATCT
1 AATTCTTGTAAATCT
10997861 TCATGTAAAT
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:0.32, C:0.13, G:0.10, T:0.45
Consensus pattern (16 bp):
AATTCTTGTAAATCTA
Found at i:10997923 original size:34 final size:34
Alignment explanation
Indices: 10997874--10997938 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
10997864 TGTAAATGTA
* *
10997874 AAAATTTTGTGAATCTTTAATTCTTGCGAATATG
1 AAAATATTGTAAATCTTTAATTCTTGCGAATATG
*
10997908 AAAATATTGTAAATCTTTAATTTTTGCGAAT
1 AAAATATTGTAAATCTTTAATTCTTGCGAAT
10997939 CTTTAATTCT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.35, C:0.08, G:0.12, T:0.45
Consensus pattern (34 bp):
AAAATATTGTAAATCTTTAATTCTTGCGAATATG
Found at i:10997974 original size:51 final size:51
Alignment explanation
Indices: 10997926--10998029 Score: 120
Period size: 51 Copynumber: 2.0 Consensus size: 51
10997916 GTAAATCTTT
* * * * *
10997926 AATTTTTGCGAATCTTTAATTCTTACGAA-ATTTCAATTCTTGCGAATCTAA
1 AATTCTTGCGAATCTTAAAATCTTACGAAGCTCT-AATTCTTGCGAATCTAA
* * *
10997977 AATTCTTGTGAATCTTAAAATCTTATGAAGCTCTAATTCTTGCGAATATAA
1 AATTCTTGCGAATCTTAAAATCTTACGAAGCTCTAATTCTTGCGAATCTAA
10998028 AA
1 AA
10998030 ATATTACAAA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
51 42 0.95
52 2 0.05
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.40
Consensus pattern (51 bp):
AATTCTTGCGAATCTTAAAATCTTACGAAGCTCTAATTCTTGCGAATCTAA
Found at i:10997997 original size:18 final size:17
Alignment explanation
Indices: 10997960--10998059 Score: 67
Period size: 17 Copynumber: 5.9 Consensus size: 17
10997950 ACGAAATTTC
10997960 AATTCTTGCGAATCTAA
1 AATTCTTGCGAATCTAA
*
10997977 AATTCTTGTGAATCTTAA
1 AATTCTTGCGAATC-TAA
** * **
10997995 AA-TCTTATGAAGCTCT
1 AATTCTTGCGAATCTAA
*
10998011 AATTCTTGCGAATATAA
1 AATTCTTGCGAATCTAA
* * * * *
10998028 AAATATTACAAATTTAA
1 AATTCTTGCGAATCTAA
*
10998045 AAATCTTGCGAATCT
1 AATTCTTGCGAATCT
10998060 TTAATTCTTA
Statistics
Matches: 61, Mismatches: 20, Indels: 4
0.72 0.24 0.05
Matches are distributed among these distances:
16 3 0.05
17 53 0.87
18 5 0.08
ACGTcount: A:0.39, C:0.14, G:0.10, T:0.37
Consensus pattern (17 bp):
AATTCTTGCGAATCTAA
Found at i:10998151 original size:54 final size:55
Alignment explanation
Indices: 10998093--10998204 Score: 138
Period size: 54 Copynumber: 2.1 Consensus size: 55
10998083 CTTGCAAACC
* * * * * *
10998093 TTTTAAGTCCTTGCAAACTTTTGAATTCTTG-AGAATCTTTGAAATCTTGTGAA-A
1 TTTTAAATCCTTGCAAAATTTTGAAATCTTGCA-AACCTTTGAAACCTTATGAACA
*
10998147 TTTTAAATTCTTGCAAAATTTTGAAATCTTGCAAACCTTTGAAACCTTATGAACA
1 TTTTAAATCCTTGCAAAATTTTGAAATCTTGCAAACCTTTGAAACCTTATGAACA
10998202 TTT
1 TTT
10998205 GAATTTAATT
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
54 44 0.90
55 5 0.10
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.42
Consensus pattern (55 bp):
TTTTAAATCCTTGCAAAATTTTGAAATCTTGCAAACCTTTGAAACCTTATGAACA
Found at i:10998190 original size:18 final size:18
Alignment explanation
Indices: 10998082--10998190 Score: 80
Period size: 18 Copynumber: 6.0 Consensus size: 18
10998072 TATCTAAAAG
* *
10998082 TCTTGCAAACCTTTTAAG
1 TCTTGCAAACCTTTGAAA
* *
10998100 TCCTTGCAAACTTTTGAAT
1 T-CTTGCAAACCTTTGAAA
*
10998119 TCTTG-AGAATCTTTGAAA
1 TCTTGCA-AACCTTTGAAA
* *
10998137 TCTTGTGAAA--TTTTAAA
1 TCTTG-CAAACCTTTGAAA
**
10998154 TTCTTGCAAAATTTTGAAA
1 -TCTTGCAAACCTTTGAAA
10998173 TCTTGCAAACCTTTGAAA
1 TCTTGCAAACCTTTGAAA
10998191 CCTTATGAAC
Statistics
Matches: 73, Mismatches: 11, Indels: 14
0.74 0.11 0.14
Matches are distributed among these distances:
17 10 0.14
18 39 0.53
19 23 0.32
20 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (18 bp):
TCTTGCAAACCTTTGAAA
Done.