Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 42 of 320
Found at i:11801659 original size:11 final size:10
Alignment explanation
Indices: 11801629--11801662 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
11801619 TTAAAATCTT
11801629 AAATTAAAAC
1 AAATTAAAAC
*
11801639 ATATTAAAAC
1 AAATTAAAAC
11801649 AAATCTAAAAC
1 AAAT-TAAAAC
11801660 AAA
1 AAA
11801663 AACGTTTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.68, C:0.12, G:0.00, T:0.21
Consensus pattern (10 bp):
AAATTAAAAC
Found at i:11802369 original size:36 final size:35
Alignment explanation
Indices: 11802293--11802389 Score: 135
Period size: 36 Copynumber: 2.8 Consensus size: 35
11802283 TTAATACAAA
*
11802293 AGTATATAATATGA-T-AATTAAATTAAATTAATT
1 AGTATATAATGTGATTAAATTAAATTAAATTAATT
11802326 AGTATATAATGTGATTAAATTAAATTAAATTAAATT
1 AGTATATAATGTGATTAAATTAAATTAAATT-AATT
* * *
11802362 ATTATATAATGTTATTAAATTAAGTTAA
1 AGTATATAATGTGATTAAATTAAATTAA
11802390 TAATGGGTCT
Statistics
Matches: 57, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
33 13 0.23
34 1 0.02
35 14 0.25
36 29 0.51
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.43
Consensus pattern (35 bp):
AGTATATAATGTGATTAAATTAAATTAAATTAATT
Found at i:11802477 original size:12 final size:11
Alignment explanation
Indices: 11802448--11802484 Score: 51
Period size: 12 Copynumber: 3.5 Consensus size: 11
11802438 CTAACATTTT
11802448 TATATAT-A-A
1 TATATATGATA
11802457 TATATATGATA
1 TATATATGATA
11802468 TATGATATGATA
1 TAT-ATATGATA
11802480 TATAT
1 TATAT
11802485 GGTTATTACA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 7 0.28
10 1 0.04
11 6 0.24
12 11 0.44
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (11 bp):
TATATATGATA
Found at i:11802587 original size:3 final size:3
Alignment explanation
Indices: 11802574--11802602 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
11802564 AAGTTTAAAT
11802574 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
11802603 ATGGCAAGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:11806223 original size:28 final size:28
Alignment explanation
Indices: 11806166--11806229 Score: 83
Period size: 28 Copynumber: 2.3 Consensus size: 28
11806156 TGGGAAGTAG
***
11806166 TTGGGCCTGATGGGCCATATGAATTTGA
1 TTGGGCCTGATGGGCCATATGAACGAGA
* *
11806194 TTGGGCTTGATGGGCCATGTGAACGAGA
1 TTGGGCCTGATGGGCCATATGAACGAGA
11806222 TTGGGCCT
1 TTGGGCCT
11806230 AAAGGGGCCA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.19, C:0.16, G:0.36, T:0.30
Consensus pattern (28 bp):
TTGGGCCTGATGGGCCATATGAACGAGA
Found at i:11806573 original size:27 final size:27
Alignment explanation
Indices: 11806551--11807308 Score: 811
Period size: 27 Copynumber: 28.4 Consensus size: 27
11806541 AGAAATTATT
11806551 GAAATACCCTCGATTTGTAAAATTACC
1 GAAATACCCTCGATTTGTAAAATTACC
* *
11806578 GAAATACCCTCGA-TTGTGAAATTACT
1 GAAATACCCTCGATTTGTAAAATTACC
*
11806604 GAAATACCCTCAATTTGTAAAATTACC
1 GAAATACCCTCGATTTGTAAAATTACC
11806631 GAAATACCC-CTGATTTGTAAAATTACC
1 GAAATACCCTC-GATTTGTAAAATTACC
* * *
11806658 AAAATACCCTCGA-TTGTGAAATTACT
1 GAAATACCCTCGATTTGTAAAATTACC
*
11806684 GAAATACCCTCGATTTGTAAAATTAGC
1 GAAATACCCTCGATTTGTAAAATTACC
* * * *
11806711 GAAATACACTTGA-TTGTGAAATTATC
1 GAAATACCCTCGATTTGTAAAATTACC
* *
11806737 GAAATACCCCCGATTTATAAAATTACC
1 GAAATACCCTCGATTTGTAAAATTACC
* *
11806764 GAAATACCCTCGA-TTGTGAAATTACT
1 GAAATACCCTCGATTTGTAAAATTACC
* * * *
11806790 GAAATATCCTCTATTCGTAAAATTATC
1 GAAATACCCTCGATTTGTAAAATTACC
* *
11806817 GAAATACCCTCGA-TTGTGAAATTACT
1 GAAATACCCTCGATTTGTAAAATTACC
* *
11806843 AAAATACCCTCGA-TTGTAAAATTATC
1 GAAATACCCTCGATTTGTAAAATTACC
* *
11806869 GAAATACCCTCAATTTGTAAAATTATC
1 GAAATACCCTCGATTTGTAAAATTACC
* * *
11806896 AAAATACCCTCGA-TTGTGAAATTACT
1 GAAATACCCTCGATTTGTAAAATTACC
**
11806922 GAAATACCCTCGATTTGTAAAATTAAT
1 GAAATACCCTCGATTTGTAAAATTACC
*
11806949 GAAATACCC-CTGATTTCTAAAATTACC
1 GAAATACCCTC-GATTTGTAAAATTACC
* *
11806976 AAAATACCCTCGATTTGTAAAATTACT
1 GAAATACCCTCGATTTGTAAAATTACC
* * *
11807003 GAAATAACCTTGATTTGTGAAATTACC
1 GAAATACCCTCGATTTGTAAAATTACC
* *
11807030 GAAACACCTTCGATTTGTAAAATTACC
1 GAAATACCCTCGATTTGTAAAATTACC
* *
11807057 AAAATACCCTCGA-TTGTAAAATTATC
1 GAAATACCCTCGATTTGTAAAATTACC
* * *
11807083 GAAATACCCCCAATTTGTAAAATTA-T
1 GAAATACCCTCGATTTGTAAAATTACC
* * * *
11807109 GAAAATACCCCCGATTTTTGAAATTACT
1 G-AAATACCCTCGATTTGTAAAATTACC
*
11807137 GAAACACCCTCGATTTGTAAAATTACC
1 GAAATACCCTCGATTTGTAAAATTACC
* *
11807164 GAGACACCCTCGATTTGTAAAATTACC
1 GAAATACCCTCGATTTGTAAAATTACC
* * *
11807191 GAAACACCCTTGATTTGTAAAATTATC
1 GAAATACCCTCGATTTGTAAAATTACC
* * *
11807218 GAAACACCCCCGATTTGTAAAATTATC
1 GAAATACCCTCGATTTGTAAAATTACC
* * * * *
11807245 AAAACACCTTTGATTTGTAAAATTATC
1 GAAATACCCTCGATTTGTAAAATTACC
* * *
11807272 GAAATACTCTTG-TAGTGTAAAATTACC
1 GAAATACCCTCGAT-TTGTAAAATTACC
*
11807299 AAAATACCCT
1 GAAATACCCT
11807309 TGTAGTGTAA
Statistics
Matches: 614, Mismatches: 103, Indels: 28
0.82 0.14 0.04
Matches are distributed among these distances:
26 178 0.29
27 432 0.70
28 4 0.01
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (27 bp):
GAAATACCCTCGATTTGTAAAATTACC
Found at i:11806622 original size:53 final size:54
Alignment explanation
Indices: 11806543--11807278 Score: 759
Period size: 53 Copynumber: 13.8 Consensus size: 54
11806533 TAATAAAAAG
* *
11806543 AAATTATTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGA-TTGTG
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTA
*
11806596 AAATTACTGAAATACCCTCAATTTGTAAAATTACCGAAATACCC-CTGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTC-GATTTGTA
** * *
11806650 AAATTACCAAAATACCCTCGA-TTGTGAAATTACTGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTA
* * * * * *
11806703 AAATTAGC-GAAATACACTTGA-TTGTGAAATTATCGAAATACCCCCGATTTATA
1 AAATTA-CTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTA
* * * * * *
11806756 AAATTACCGAAATACCCTCGA-TTGTGAAATTACTGAAATATCCTCTATTCGTA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTA
* **
11806809 AAATTA-TCGAAATACCCTCGA-TTGTGAAATTACTAAAATACCCTCGA-TTGTA
1 AAATTACT-GAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTA
* * * *
11806861 AAATTA-TCGAAATACCCTCAATTTGTAAAATTATCAAAATACCCTCGA-TTGTG
1 AAATTACT-GAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTA
** *
11806914 AAATTACTGAAATACCCTCGATTTGTAAAATTAATGAAATACCC-CTGATTTCTA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTC-GATTTGTA
** * * * *
11806968 AAATTACCAAAATACCCTCGATTTGTAAAATTACTGAAATAACCTTGATTTGTG
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTA
* * * *
11807022 AAATTACCGAAACACCTTCGATTTGTAAAATTACCAAAATACCCTCGA-TTGTA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTA
* * * * * *
11807075 AAATTA-TCGAAATACCCCCAATTTGTAAAATTA-TGAAAATACCCCCGATTTTTG
1 AAATTACT-GAAATACCCTCGATTTGTAAAATTACCG-AAATACCCTCGATTTGTA
* * *
11807129 AAATTACTGAAACACCCTCGATTTGTAAAATTACCGAGACACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTA
* * * * * *
11807183 AAATTACCGAAACACCCTTGATTTGTAAAATTATCGAAACACCCCCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTA
* * *
11807237 AAATTA-TCAAA-ACACCTTTGATTTGTAAAATTATCGAAATAC
1 AAATTACTGAAATAC-CC-TCGATTTGTAAAATTACCGAAATAC
11807279 TCTTGTAGTG
Statistics
Matches: 583, Mismatches: 82, Indels: 35
0.83 0.12 0.05
Matches are distributed among these distances:
52 29 0.05
53 314 0.54
54 238 0.41
55 2 0.00
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (54 bp):
AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTA
Found at i:11806676 original size:80 final size:80
Alignment explanation
Indices: 11806551--11807308 Score: 802
Period size: 80 Copynumber: 9.5 Consensus size: 80
11806541 AGAAATTATT
* *
11806551 GAAATA-CCCTCGATTTGTAAAATTACCGAAATACCCTCGATTGTGAAATTACTGAAATACCCTC
1 GAAATACCCCT-GATTTGTAAAATTACCAAAATACCCTCGATTGTAAAATTACTGAAATACCCTC
*
11806615 AATTTGTAAAATTACC
65 GATTTGTAAAATTACC
*
11806631 GAAATACCCCTGATTTGTAAAATTACCAAAATACCCTCGATTGTGAAATTACTGAAATACCCTCG
1 GAAATACCCCTGATTTGTAAAATTACCAAAATACCCTCGATTGTAAAATTACTGAAATACCCTCG
*
11806696 ATTTGTAAAATTAGC
66 ATTTGTAAAATTACC
* * * * * * * *
11806711 GAAATACACTTGA-TTGTGAAATTATCGAAATACCCCCGATTTATAAAATTACCGAAATACCCTC
1 GAAATACCCCTGATTTGTAAAATTACCAAAATACCCTCGA-TTGTAAAATTACTGAAATACCCTC
* *
11806775 GA-TTGTGAAATTACT
65 GATTTGTAAAATTACC
* * * * * *
11806790 GAAATATCCTCT-ATTCGTAAAATTATCGAAATACCCTCGATTGTGAAATTACTAAAATACCCTC
1 GAAATA-CCCCTGATTTGTAAAATTACCAAAATACCCTCGATTGTAAAATTACTGAAATACCCTC
*
11806854 GA-TTGTAAAATTATC
65 GATTTGTAAAATTACC
* * *
11806869 GAAATA-CCCTCAATTTGTAAAATTATCAAAATACCCTCGATTGTGAAATTACTGAAATACCCTC
1 GAAATACCCCT-GATTTGTAAAATTACCAAAATACCCTCGATTGTAAAATTACTGAAATACCCTC
**
11806933 GATTTGTAAAATTAAT
65 GATTTGTAAAATTACC
* * *
11806949 GAAATACCCCTGATTTCTAAAATTACCAAAATACCCTCGATTTGTAAAATTACTGAAATAACCTT
1 GAAATACCCCTGATTTGTAAAATTACCAAAATACCCTCGA-TTGTAAAATTACTGAAATACCCTC
*
11807014 GATTTGTGAAATTACC
65 GATTTGTAAAATTACC
* * *
11807030 GAAACA-CCTTCGATTTGTAAAATTACCAAAATACCCTCGATTGTAAAATTA-TCGAAATACCCC
1 GAAATACCCCT-GATTTGTAAAATTACCAAAATACCCTCGATTGTAAAATTACT-GAAATACCCT
* *
11807093 CAATTTGTAAAATTA-T
64 CGATTTGTAAAATTACC
* * * ** * * * *
11807109 GAAAATACCCCCGATTTTTGAAATTACTGAAACACCCTCGATTTGTAAAATTACCGAGACACCCT
1 G-AAATACCCCTGATTTGTAAAATTACCAAAATACCCTCGA-TTGTAAAATTACTGAAATACCCT
11807174 CGATTTGTAAAATTACC
64 CGATTTGTAAAATTACC
* * * * * * *
11807191 GAAACACCCTTGATTTGTAAAATTATCGAAACACCCCCGATTTGTAAAATTA-TCAAA-ACACCT
1 GAAATACCCCTGATTTGTAAAATTACCAAAATACCCTCGA-TTGTAAAATTACTGAAATAC-CC-
* *
11807254 TTGATTTGTAAAATTATC
63 TCGATTTGTAAAATTACC
* * *
11807272 GAAATACTCTTG-TAGTGTAAAATTACCAAAATACCCT
1 GAAATACCCCTGAT-TTGTAAAATTACCAAAATACCCT
11807309 TGTAGTGTAA
Statistics
Matches: 573, Mismatches: 86, Indels: 37
0.82 0.12 0.05
Matches are distributed among these distances:
77 3 0.01
79 132 0.23
80 241 0.42
81 196 0.34
82 1 0.00
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (80 bp):
GAAATACCCCTGATTTGTAAAATTACCAAAATACCCTCGATTGTAAAATTACTGAAATACCCTCG
ATTTGTAAAATTACC
Found at i:11807310 original size:27 final size:27
Alignment explanation
Indices: 11807233--11807348 Score: 101
Period size: 27 Copynumber: 4.3 Consensus size: 27
11807223 ACCCCCGATT
* * * *
11807233 TGTAAAATTATCAAAACACCTTTG-ATT
1 TGTAAAATTACCAAAATACCCTTGTA-G
* * *
11807260 TGTAAAATTATCGAAATACTCTTGTAG
1 TGTAAAATTACCAAAATACCCTTGTAG
11807287 TGTAAAATTACCAAAATACCCTTGTAG
1 TGTAAAATTACCAAAATACCCTTGTAG
* * *
11807314 TGTAAAATGACCGACATAACCC-TGTAG
1 TGTAAAATTACCAAAAT-ACCCTTGTAG
*
11807341 GGTAAAAT
1 TGTAAAAT
11807349 GGCTATTTTT
Statistics
Matches: 75, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
27 70 0.93
28 5 0.07
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.31
Consensus pattern (27 bp):
TGTAAAATTACCAAAATACCCTTGTAG
Found at i:11810230 original size:28 final size:28
Alignment explanation
Indices: 11810187--11810250 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
11810177 TGGGAAGTAG
11810187 TTGGGCCTGATAGGCCATATGAAT-ATGA
1 TTGGGCCTGATAGGCCATATGAATGA-GA
* * *
11810215 TTGGGTCTGATGGGCCATGTGAATGAGA
1 TTGGGCCTGATAGGCCATATGAATGAGA
11810243 TTGGGCCT
1 TTGGGCCT
11810251 AAAGGGGCCA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 30 0.97
29 1 0.03
ACGTcount: A:0.22, C:0.14, G:0.34, T:0.30
Consensus pattern (28 bp):
TTGGGCCTGATAGGCCATATGAATGAGA
Found at i:11810622 original size:27 final size:27
Alignment explanation
Indices: 11810567--11811328 Score: 706
Period size: 27 Copynumber: 28.6 Consensus size: 27
11810557 TAATAAAGAG
*
11810567 AAATTATTGAAAT-CCCTCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
*
11810593 AAATTATCGAAATACCCCCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* * *
11810620 AAATTACCAAAAATACCATCGATTATG--
1 AAATTATC-GAAATACCCTCGATT-TGTA
11810647 AAATTA-CTGAAATACCC-CTGATTTGTA
1 AAATTATC-GAAATACCCTC-GATTTGTA
* * *
11810674 AAATTACCAAAATACCCTCGATTTATA
1 AAATTATCGAAATACCCTCGATTTGTA
* *
11810701 AAATTA-CTAAAATACCCTCGA-TTGTG
1 AAATTATC-GAAATACCCTCGATTTGTA
* *
11810727 AAATTA-CTAAAATCCCCTCGATTTGTA
1 AAATTATC-GAAATACCCTCGATTTGTA
* * *
11810754 AAGTTATCGAAATACACTCGA-TTGTG
1 AAATTATCGAAATACCCTCGATTTGTA
*
11810780 AAATTATCGAAATACCCCCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* * * *
11810807 AAATTACCAAAATACCATTGA-TTGT-
1 AAATTATCGAAATACCCTCGATTTGTA
* * *
11810832 GAATTATTGAAATACTCTCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* *
11810859 AAATTATCAAAATACCCTCGA-TTGTG
1 AAATTATCGAAATACCCTCGATTTGTA
11810885 AAATTA-CTGAAATACCCTCGA-TTGTA
1 AAATTATC-GAAATACCCTCGATTTGTA
* *
11810911 AAACTA-CTAAAATACCCTCGATTTGTA
1 AAATTATC-GAAATACCCTCGATTTGTA
* *
11810938 AAATTACCGAAATACCCTCGA-TTGTG
1 AAATTATCGAAATACCCTCGATTTGTA
* *
11810964 AAATTA-CTAAAATACCCTAGATTTGTA
1 AAATTATC-GAAATACCCTCGATTTGTA
* * *
11810991 AAATTACCAAAATACCCCCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
*
11811018 AAATTATCGAAATACCC-CTAATTTGTA
1 AAATTATCGAAATACCCTC-GATTTGTA
* * *
11811045 AAATTACCAAAATACCACT-GATTTGTG
1 AAATTATCGAAATACC-CTCGATTTGTA
* * *
11811072 AAATTACCGAAACACCTTCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* * * *
11811099 AAATTACCGAAGTA-TCTCGA-TTGTC
1 AAATTATCGAAATACCCTCGATTTGTA
*
11811124 AAATTATCGAAATACCCCCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* * *
11811151 AAATTATCGAAATACCCCCTATTTGTG
1 AAATTATCGAAATACCCTCGATTTGTA
*
11811178 AAATTA-CTGAAACACCCTCGATTTGTA
1 AAATTATC-GAAATACCCTCGATTTGTA
* * *
11811205 AAATTATCGAAAAACCCTCTATTTATA
1 AAATTATCGAAATACCCTCGATTTGTA
* *
11811232 AAATTACCGAAACACCCTCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* * *
11811259 AAATTA-CCAGAACACCCTCTATTTGTA
1 AAATTATCGA-AATACCCTCGATTTGTA
* *
11811286 AAATTATCAAAACACCCTCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
11811313 AAATTATCGAAATACC
1 AAATTATCGAAATACC
11811329 ATTGTAGTGT
Statistics
Matches: 613, Mismatches: 93, Indels: 59
0.80 0.12 0.08
Matches are distributed among these distances:
25 35 0.06
26 157 0.26
27 398 0.65
28 21 0.03
29 2 0.00
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (27 bp):
AAATTATCGAAATACCCTCGATTTGTA
Found at i:11811339 original size:27 final size:27
Alignment explanation
Indices: 11811309--11811397 Score: 115
Period size: 27 Copynumber: 3.3 Consensus size: 27
11811299 ACCCTCGATT
* *
11811309 TGTAAAATTATCGAAATACCATTGTAG
1 TGTAAAATTACCGAAATACCCTTGTAG
*
11811336 TGTAAAATTACCAAAATACCCTTGTAG
1 TGTAAAATTACCGAAATACCCTTGTAG
* * *
11811363 TGTAAAATGACCGAGATACCCCTGTAG
1 TGTAAAATTACCGAAATACCCTTGTAG
*
11811390 GGTAAAAT
1 TGTAAAAT
11811398 GACTATTTTT
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.39, C:0.16, G:0.17, T:0.28
Consensus pattern (27 bp):
TGTAAAATTACCGAAATACCCTTGTAG
Found at i:11811389 original size:54 final size:54
Alignment explanation
Indices: 11810855--11811397 Score: 209
Period size: 54 Copynumber: 10.1 Consensus size: 54
11810845 ACTCTCGATT
* * * * * *
11810855 TGTAAAATTATCAAAATACCCTCGAT-TGTGAAATTACTGAAATACC-CTCG-AT
1 TGTAAAATTACCAAAACACCCTCGATGTGTAAAATGACCGAAATACCACT-GTAG
* * * * * *
11810907 TGTAAAACTACTAAAATACCCTCGATTTGTAAAATTACCGAAATACC-CTCG-AT
1 TGTAAAATTACCAAAACACCCTCGATGTGTAAAATGACCGAAATACCACT-GTAG
* * * * * * * * * *
11810960 TGTGAAATTACTAAAATACCCTAGATTTGTAAAATTACCAAAATACCCCCG-ATT
1 TGTAAAATTACCAAAACACCCTCGATGTGTAAAATGACCGAAATACCACTGTA-G
* * * * * *
11811014 TGTAAAATTATCGAAATAC-CCCT-AATTTGTAAAATTACCAAAATACCACTG-ATT
1 TGTAAAATTA-CCAAA-ACACCCTCGATGTGTAAAATGACCGAAATACCACTGTA-G
* * * * * * * * *
11811068 TGTGAAATTACCGAAACACCTTCGATTTGTAAAATTACCGAAGTATCTC-G-AT
1 TGTAAAATTACCAAAACACCCTCGATGTGTAAAATGACCGAAATACCACTGTAG
* * * * * * * * ** *
11811120 TGTCAAATTATCGAAATACCCCCGATTTGTAAAATTATCGAAATACC-CCCTATT
1 TGTAAAATTACCAAAACACCCTCGATGTGTAAAATGACCGAAATACCACTGTA-G
* ** * * * * * *
11811174 TGTGAAATTACTGAAACACCCTCGATTTGTAAAATTATCGAAAAACC-CTCTATT
1 TGTAAAATTACCAAAACACCCTCGATGTGTAAAATGACCGAAATACCACTGTA-G
* * * * * * *
11811228 TATAAAATTACCGAAACACCCTCGATTTGTAAAATTACC-AGAACACC-CTCTATT
1 TGTAAAATTACCAAAACACCCTCGATGTGTAAAATGACCGA-AATACCACTGTA-G
* * * * *
11811282 TGTAAAATTATCAAAACACCCTCGATTTGTAAAATTATCGAAATACCATTGTAG
1 TGTAAAATTACCAAAACACCCTCGATGTGTAAAATGACCGAAATACCACTGTAG
* * * *
11811336 TGTAAAATTACCAAAATACCCTTG-TAGTGTAAAATGACCGAGATACCCCTGTAG
1 TGTAAAATTACCAAAACACCCTCGAT-GTGTAAAATGACCGAAATACCACTGTAG
*
11811390 GGTAAAAT
1 TGTAAAAT
11811398 GACTATTTTT
Statistics
Matches: 413, Mismatches: 64, Indels: 26
0.82 0.13 0.05
Matches are distributed among these distances:
51 1 0.00
52 65 0.16
53 80 0.19
54 254 0.62
55 12 0.03
56 1 0.00
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.30
Consensus pattern (54 bp):
TGTAAAATTACCAAAACACCCTCGATGTGTAAAATGACCGAAATACCACTGTAG
Found at i:11812377 original size:21 final size:21
Alignment explanation
Indices: 11812353--11812445 Score: 71
Period size: 21 Copynumber: 4.4 Consensus size: 21
11812343 TGTAAAAAGG
11812353 GGCACACAGCCGTGTGACTGT
1 GGCACACAGCCGTGTGACTGT
* ** *
11812374 GGCACA-TGCCCGTGTGAAGAGA
1 GGCACACAG-CCGTGTG-ACTGT
** *
11812396 GGCACATGGCTGTGTGACTGT
1 GGCACACAGCCGTGTGACTGT
** *
11812417 GGCACATGGTCGTGTGACTGT
1 GGCACACAGCCGTGTGACTGT
11812438 GGCACACA
1 GGCACACA
11812446 CCCCTATGAA
Statistics
Matches: 56, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
20 1 0.02
21 40 0.71
22 14 0.25
23 1 0.02
ACGTcount: A:0.20, C:0.24, G:0.35, T:0.20
Consensus pattern (21 bp):
GGCACACAGCCGTGTGACTGT
Found at i:11812431 original size:64 final size:64
Alignment explanation
Indices: 11812363--11812486 Score: 176
Period size: 64 Copynumber: 1.9 Consensus size: 64
11812353 GGCACACAGC
** * * * * *
11812363 CGTGTGACTGTGGCACATGCCCGTGTGAAGAGAGGCACATGGCTGTGTGACTGTGGCACATGGT
1 CGTGTGACTGTGGCACACACCCCTATGAAAAAAGGCACACGGCTGTGTGACTGTGGCACATGGT
*
11812427 CGTGTGACTGTGGCACACACCCCTATGAAAAAAGGTACACGGCTGTGTGACTGTGGCACA
1 CGTGTGACTGTGGCACACACCCCTATGAAAAAAGGCACACGGCTGTGTGACTGTGGCACA
11812487 CACTCATGTG
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
64 52 1.00
ACGTcount: A:0.23, C:0.23, G:0.33, T:0.22
Consensus pattern (64 bp):
CGTGTGACTGTGGCACACACCCCTATGAAAAAAGGCACACGGCTGTGTGACTGTGGCACATGGT
Found at i:11812475 original size:43 final size:43
Alignment explanation
Indices: 11812428--11812534 Score: 133
Period size: 43 Copynumber: 2.5 Consensus size: 43
11812418 GCACATGGTC
* *
11812428 GTGTGACTGTGGCACACACCCCTATGAAAAAAGGTACACGGCT
1 GTGTGACTGTGGCACACACCCATATGAAAAAAGGCACACGGCT
* * * * *
11812471 GTGTGACTGTGGCACACACTCATGTGAAGAGAGGCACATGGCT
1 GTGTGACTGTGGCACACACCCATATGAAAAAAGGCACACGGCT
**
11812514 GTGTGACTGAAGCACACACCC
1 GTGTGACTGTGGCACACACCC
11812535 GTGTGGACTA
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 54 1.00
ACGTcount: A:0.28, C:0.25, G:0.28, T:0.19
Consensus pattern (43 bp):
GTGTGACTGTGGCACACACCCATATGAAAAAAGGCACACGGCT
Found at i:11822039 original size:27 final size:27
Alignment explanation
Indices: 11822008--11822089 Score: 110
Period size: 27 Copynumber: 3.0 Consensus size: 27
11821998 CCCTTAATCA
11822008 ATAAAATGACTATTTTGCCCTTATGTG
1 ATAAAATGACTATTTTGCCCTTATGTG
* * *
11822035 GTAAAATCACTATTTTGCCCTTATATG
1 ATAAAATGACTATTTTGCCCTTATGTG
* * *
11822062 ATAAGATGACTGTTTTGCCCCTATGTG
1 ATAAAATGACTATTTTGCCCTTATGTG
11822089 A
1 A
11822090 GGTATATATA
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.39
Consensus pattern (27 bp):
ATAAAATGACTATTTTGCCCTTATGTG
Found at i:11823749 original size:33 final size:33
Alignment explanation
Indices: 11823707--11823787 Score: 135
Period size: 33 Copynumber: 2.5 Consensus size: 33
11823697 GTGAATAACA
11823707 CAGTATCAGTACAGTCTAGGCCAAAGCCCTATT
1 CAGTATCAGTACAGTCTAGGCCAAAGCCCTATT
* *
11823740 CAGTATCAGTACAGTCTGGGCCTAAGCCCTATT
1 CAGTATCAGTACAGTCTAGGCCAAAGCCCTATT
*
11823773 TAGTATCAGTACAGT
1 CAGTATCAGTACAGT
11823788 GCAAAATGCA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (33 bp):
CAGTATCAGTACAGTCTAGGCCAAAGCCCTATT
Found at i:11828669 original size:27 final size:27
Alignment explanation
Indices: 11828627--11828736 Score: 141
Period size: 27 Copynumber: 4.1 Consensus size: 27
11828617 CGTACCTGGA
* * *
11828627 CCCTTA-ATGATAAAATGATTATTTTT
1 CCCTTATATGGTAAAATGACTATTTTG
* *
11828653 CCCTTATGTGGTAAAATGACTGTTTTG
1 CCCTTATATGGTAAAATGACTATTTTG
11828680 CCCTTATATGGTAAAATGACTATTTTG
1 CCCTTATATGGTAAAATGACTATTTTG
* * *
11828707 CCCTTATATGGTAAGATGATTGTTTTG
1 CCCTTATATGGTAAAATGACTATTTTG
11828734 CCC
1 CCC
11828737 CTATGTGAGG
Statistics
Matches: 73, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
26 6 0.08
27 67 0.92
ACGTcount: A:0.26, C:0.15, G:0.16, T:0.42
Consensus pattern (27 bp):
CCCTTATATGGTAAAATGACTATTTTG
Found at i:11828711 original size:54 final size:53
Alignment explanation
Indices: 11828627--11828736 Score: 157
Period size: 54 Copynumber: 2.1 Consensus size: 53
11828617 CGTACCTGGA
* * *
11828627 CCCTTAATGATAAAATGATTATTTTTCCCTTATGTGGTAAAATGACTGTTTTG
1 CCCTTAATGATAAAATGACTATTTTGCCCTTATATGGTAAAATGACTGTTTTG
* * *
11828680 CCCTTATATGGTAAAATGACTATTTTGCCCTTATATGGTAAGATGATTGTTTTG
1 CCCTTA-ATGATAAAATGACTATTTTGCCCTTATATGGTAAAATGACTGTTTTG
11828734 CCC
1 CCC
11828737 CTATGTGAGG
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
53 6 0.12
54 44 0.88
ACGTcount: A:0.26, C:0.15, G:0.16, T:0.42
Consensus pattern (53 bp):
CCCTTAATGATAAAATGACTATTTTGCCCTTATATGGTAAAATGACTGTTTTG
Found at i:11834004 original size:43 final size:43
Alignment explanation
Indices: 11833956--11834126 Score: 181
Period size: 43 Copynumber: 4.0 Consensus size: 43
11833946 TAGGAATTCT
11833956 GATATGT-ATTCCCATGTAAGACCATGTCTGGGACGTTGGCATC
1 GATATGTGATT-CCATGTAAGACCATGTCTGGGACGTTGGCATC
* * *
11833999 GATATGTGATTTCGA-GTAAGACCATGTCTGGGACATCGGCATC
1 GATATGTGA-TTCCATGTAAGACCATGTCTGGGACGTTGGCATC
*
11834042 G-TAATTGTGATT-CGTGTAAGACCATGTCTGGGACAG-TGGCATC
1 GAT-A-TGTGATTCCATGTAAGACCATGTCTGGGAC-GTTGGCATC
* * * * *
11834085 GACATGTGATTACATGTAAGACCACGTCTGAGACGTTAGCAT
1 GATATGTGATTCCATGTAAGACCATGTCTGGGACGTTGGCAT
11834127 TGTACGATAT
Statistics
Matches: 107, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 9 0.08
43 88 0.82
44 8 0.07
45 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.29
Consensus pattern (43 bp):
GATATGTGATTCCATGTAAGACCATGTCTGGGACGTTGGCATC
Found at i:11836796 original size:28 final size:28
Alignment explanation
Indices: 11836747--11836806 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
11836737 TGTCTAGGCT
* * *
11836747 GTGTGGTTCACACAGCCGTATCGCAGCC
1 GTGTAGTTCACACAGCCATATCACAGCC
** *
11836775 GTGTAGTTCACATGGCCATATCACAGCT
1 GTGTAGTTCACACAGCCATATCACAGCC
11836803 GTGT
1 GTGT
11836807 TTTACGTTGT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.27
Consensus pattern (28 bp):
GTGTAGTTCACACAGCCATATCACAGCC
Found at i:11841588 original size:23 final size:22
Alignment explanation
Indices: 11841536--11841654 Score: 136
Period size: 21 Copynumber: 5.5 Consensus size: 22
11841526 CCTGATCAAT
** *
11841536 ATACGACACATAAAGTGCCT-A
1 ATACGACACACGAGGTGCCTGA
*
11841557 AAACGACACACGAGGTGCCTG-
1 ATACGACACACGAGGTGCCTGA
*
11841578 ATACGACACACGAGGTGTCTG-
1 ATACGACACACGAGGTGCCTGA
11841599 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACGAGGTGCCTG-A
* *
11841622 ATACGACACAAGTGGTGCCTGAA
1 ATACGACACACGAGGTGCCTG-A
11841645 ATACGACACA
1 ATACGACACA
11841655 TAAAGTGCCT
Statistics
Matches: 86, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
21 55 0.64
23 31 0.36
ACGTcount: A:0.36, C:0.25, G:0.24, T:0.15
Consensus pattern (22 bp):
ATACGACACACGAGGTGCCTGA
Found at i:11842227 original size:2 final size:2
Alignment explanation
Indices: 11842220--11842259 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
11842210 ATATCTCATT
*
11842220 CA CA CA CA CA CA CA AA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
11842260 TATATAATTC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.53, C:0.47, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:11846780 original size:19 final size:19
Alignment explanation
Indices: 11846744--11846782 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
11846734 TTTTCATCAT
*
11846744 AGTAAAATAAAATAATAAA
1 AGTAAAATAAAACAATAAA
*
11846763 AGTAAAATAAAACCATAAA
1 AGTAAAATAAAACAATAAA
11846782 A
1 A
11846783 ATAATTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.72, C:0.05, G:0.05, T:0.18
Consensus pattern (19 bp):
AGTAAAATAAAACAATAAA
Found at i:11847263 original size:28 final size:27
Alignment explanation
Indices: 11847231--11847312 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
11847221 GTCACTAGAT
11847231 ACAGATATTTTGTGGCAGTGCCACCAGA
1 ACAGATA-TTTGTGGCAGTGCCACCAGA
** *
11847259 ACAGATATACGTGGCAGGGCCACCAGA
1 ACAGATATTTGTGGCAGTGCCACCAGA
11847286 ACAGATAATTTGTGGCA-TAGCCACCAG
1 ACAGAT-ATTTGTGGCAGT-GCCACCAG
11847313 GACGCTTCCT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
27 23 0.50
28 23 0.50
ACGTcount: A:0.32, C:0.23, G:0.26, T:0.20
Consensus pattern (27 bp):
ACAGATATTTGTGGCAGTGCCACCAGA
Found at i:11847263 original size:55 final size:56
Alignment explanation
Indices: 11847198--11847312 Score: 128
Period size: 55 Copynumber: 2.1 Consensus size: 56
11847188 AGCATGGCTG
* * * *
11847198 CCAGATACAGA-AAATGTGACAGAGTCACTAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * *
11847254 CCAGA-ACAGATATACGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
11847309 CCAG
1 CCAG
11847313 GACGCTTCCT
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.58
56 20 0.40
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (56 bp):
CCAGATACAGATAAACGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:11847465 original size:28 final size:28
Alignment explanation
Indices: 11847418--11847482 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
11847408 AAATTAACCC
*
11847418 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
*
11847446 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
11847474 TAGGGGTAT
1 TAGGGGTAT
11847483 TCTAGTAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:11850818 original size:23 final size:21
Alignment explanation
Indices: 11850671--11850810 Score: 163
Period size: 21 Copynumber: 6.5 Consensus size: 21
11850661 CATAATCAGT
** * *
11850671 ATACGACACATAAAGTGCCTA
1 ATACGACACACGAGGTGCCTG
*
11850692 AAACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
11850713 ATACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
* *
11850734 ATACGACACACGTGGTGTCTG
1 ATACGACACACGAGGTGCCTG
11850755 ATACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
* *
11850776 AAATTCGACACAAGAGGTGCCTG
1 --ATACGACACACGAGGTGCCTG
11850799 AAATACGACACA
1 --ATACGACACA
11850811 TAAAGTGCGT
Statistics
Matches: 104, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
21 74 0.71
23 30 0.29
ACGTcount: A:0.34, C:0.26, G:0.24, T:0.16
Consensus pattern (21 bp):
ATACGACACACGAGGTGCCTG
Found at i:11851217 original size:15 final size:15
Alignment explanation
Indices: 11851192--11851249 Score: 80
Period size: 15 Copynumber: 3.8 Consensus size: 15
11851182 ATCATAATAT
11851192 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
11851208 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* * *
11851223 AAGAATTTCAATCAA
1 TATAAATTCAATCAA
11851238 TATAAATTCAAT
1 TATAAATTCAAT
11851250 AAAATAGATA
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
15 32 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.02, T:0.34
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:11851412 original size:2 final size:2
Alignment explanation
Indices: 11851405--11851488 Score: 168
Period size: 2 Copynumber: 42.0 Consensus size: 2
11851395 ATATCTCATT
11851405 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
11851447 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
11851489 TATATATAAT
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 82 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:11864656 original size:43 final size:43
Alignment explanation
Indices: 11864609--11864721 Score: 115
Period size: 42 Copynumber: 2.7 Consensus size: 43
11864599 CTTTGATTGA
* *
11864609 GATTTACATATAAGACAATGTCTGGGACATCA-GCATCG-TATCT
1 GATTTACATGTAAGACAATGTCTAGGACA-CAGGCATCGATAT-T
** *
11864652 GATTT-CATGTAAGACCCTGTCTAGGACAGAGGCATCGATATT
1 GATTTACATGTAAGACAATGTCTAGGACACAGGCATCGATATT
* * *
11864694 GAATTACATGTAAGACCACGTCTAGGAC
1 GATTTACATGTAAGACAATGTCTAGGAC
11864722 GACAACATTG
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
41 1 0.02
42 30 0.51
43 28 0.47
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.27
Consensus pattern (43 bp):
GATTTACATGTAAGACAATGTCTAGGACACAGGCATCGATATT
Found at i:11864679 original size:42 final size:42
Alignment explanation
Indices: 11864609--11864721 Score: 106
Period size: 43 Copynumber: 2.6 Consensus size: 42
11864599 CTTTGATTGA
* ** *
11864609 GATTTACATATAAGACAATGTCTGGGACATCA-GCATCG-TATCT
1 GATTT-CATGTAAGACCCTGTCTAGGACA-CAGGCATCGATAT-T
*
11864652 GATTTCATGTAAGACCCTGTCTAGGACAGAGGCATCGATATT
1 GATTTCATGTAAGACCCTGTCTAGGACACAGGCATCGATATT
*
11864694 GAATTACATGTAAGACCAC-GTCTAGGAC
1 G-ATTTCATGTAAGACC-CTGTCTAGGAC
11864722 GACAACATTG
Statistics
Matches: 60, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
41 1 0.02
42 27 0.45
43 31 0.52
44 1 0.02
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.27
Consensus pattern (42 bp):
GATTTCATGTAAGACCCTGTCTAGGACACAGGCATCGATATT
Found at i:11866616 original size:24 final size:24
Alignment explanation
Indices: 11866588--11866639 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
11866578 TTCGTAGGTC
* *
11866588 AAATAAATTATGCTAATAAATGCT
1 AAATAAATTATACTAATAAATACT
* *
11866612 AAATATATTATACTACTAAATACT
1 AAATAAATTATACTAATAAATACT
11866636 AAAT
1 AAAT
11866640 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.52, C:0.10, G:0.04, T:0.35
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Found at i:11870051 original size:39 final size:39
Alignment explanation
Indices: 11869976--11870051 Score: 91
Period size: 39 Copynumber: 1.9 Consensus size: 39
11869966 ATGAAAAATA
* * * *
11869976 TTAGATATTTTGGTATTTGGTGACAAATTTGGGTATCCT
1 TTAGAAATTTTGGTATTTGATGAAAAATTTGAGTATCCT
*
11870015 TTAGAAATTTTGGTATTTGATTAAAAACTTT-AGTATC
1 TTAGAAATTTTGGTATTTGATGAAAAA-TTTGAGTATC
11870052 ATCTATTAGG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
39 28 0.90
40 3 0.10
ACGTcount: A:0.29, C:0.07, G:0.18, T:0.46
Consensus pattern (39 bp):
TTAGAAATTTTGGTATTTGATGAAAAATTTGAGTATCCT
Found at i:11870160 original size:21 final size:21
Alignment explanation
Indices: 11870134--11870176 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
11870124 GAAATTTTGG
* *
11870134 TATTTTGGTATCTCTTAAAAA
1 TATTTTAGTATCTATTAAAAA
*
11870155 TATTTTAGTATCTATTAGAAA
1 TATTTTAGTATCTATTAAAAA
11870176 T
1 T
11870177 TCTGGTACCC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.35, C:0.07, G:0.09, T:0.49
Consensus pattern (21 bp):
TATTTTAGTATCTATTAAAAA
Found at i:11870238 original size:20 final size:19
Alignment explanation
Indices: 11870191--11870255 Score: 62
Period size: 20 Copynumber: 3.4 Consensus size: 19
11870181 GTACCCATAG
11870191 AAAATTTTGATATCTGTTA
1 AAAATTTTGATATCTGTTA
*
11870210 AAAACTTTTGATATTTGGTTA
1 AAAA-TTTTGATATCT-GTTA
* *
11870231 CAAATTTT--TGTCTGTTA
1 AAAATTTTGATATCTGTTA
*
11870248 GAAATTTT
1 AAAATTTT
11870256 TGTACAATCC
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
17 11 0.28
18 3 0.08
19 4 0.10
20 14 0.36
21 7 0.18
ACGTcount: A:0.32, C:0.06, G:0.12, T:0.49
Consensus pattern (19 bp):
AAAATTTTGATATCTGTTA
Found at i:11873884 original size:54 final size:53
Alignment explanation
Indices: 11873735--11873893 Score: 155
Period size: 52 Copynumber: 3.0 Consensus size: 53
11873725 ATATATCATA
* * * * * *
11873735 CCGATGCCATATCCCAGATATGGA-CTTACAC-GATAGCACTTATCACTTTTCT
1 CCGATACCATAGCCCAGCTAT-GATCTTATACAGATATCACTTATCACTTTTTT
* * *
11873787 CCGATACCATAGCCTAGCTATGGTCTTATAC-G-GATCACTTATCACTTGTTTT
1 CCGATACCATAGCCCAGCTATGATCTTATACAGATATCACTTATCACTT-TTTT
* * * *
11873839 CTGATGCCATAGCCCAGCTATGATTTTATACAGATATCACATATCACTTTTTT
1 CCGATACCATAGCCCAGCTATGATCTTATACAGATATCACTTATCACTTTTTT
11873892 CC
1 CC
11873894 ATGGTCCAAC
Statistics
Matches: 86, Mismatches: 17, Indels: 7
0.78 0.15 0.06
Matches are distributed among these distances:
51 14 0.16
52 53 0.62
53 6 0.07
54 13 0.15
ACGTcount: A:0.26, C:0.26, G:0.13, T:0.35
Consensus pattern (53 bp):
CCGATACCATAGCCCAGCTATGATCTTATACAGATATCACTTATCACTTTTTT
Found at i:11884404 original size:17 final size:17
Alignment explanation
Indices: 11884379--11884430 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 17
11884369 ATCTTTGTAG
11884379 AAAGAAAAAAGAGAAA-T
1 AAAG-AAAAAGAGAAATT
*
11884396 AGAAGAAAAAGATAAATTT
1 A-AAGAAAAAGAGAAA-TT
11884415 AAAGAAAAGAGAGAAA
1 AAAGAAAA-AGAGAAA
11884431 CTTTCCATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
17 11 0.38
18 10 0.34
19 8 0.28
ACGTcount: A:0.71, C:0.00, G:0.19, T:0.10
Consensus pattern (17 bp):
AAAGAAAAAGAGAAATT
Found at i:11888546 original size:23 final size:23
Alignment explanation
Indices: 11888520--11888569 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
11888510 TTGGTGGGAG
11888520 CATTTTGCCACTTCGATGCATAT
1 CATTTTGCCACTTCGATGCATAT
* * *
11888543 CATTTTGGCACTTTGCTGCATAT
1 CATTTTGCCACTTCGATGCATAT
11888566 CATT
1 CATT
11888570 CAGGCACTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.20, C:0.24, G:0.14, T:0.42
Consensus pattern (23 bp):
CATTTTGCCACTTCGATGCATAT
Found at i:11888575 original size:23 final size:23
Alignment explanation
Indices: 11888534--11888588 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 23
11888524 TTGCCACTTC
** *
11888534 GATGCATATCATTTTGGCACTTT
1 GATGCATATCATTCAGGCACTAT
*
11888557 GCTGCATATCATTCAGGCACTAT
1 GATGCATATCATTCAGGCACTAT
11888580 GATGCATAT
1 GATGCATAT
11888589 TATACTATGG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.36
Consensus pattern (23 bp):
GATGCATATCATTCAGGCACTAT
Found at i:11898139 original size:47 final size:47
Alignment explanation
Indices: 11898073--11898173 Score: 138
Period size: 47 Copynumber: 2.2 Consensus size: 47
11898063 GCCTGACTGA
*
11898073 GACAT-GCATCGGCTATGAGATGAT-AG-TCAGTGTAAGACCATGTCTGG
1 GACATGGCATCGACTATGAGAT-ATGAGCT-AGTGTAAGACCATG-CTGG
11898120 GACATGGCATCGACT-TGAGATATGAGCTAGTGTAAGACCATGCTGG
1 GACATGGCATCGACTATGAGATATGAGCTAGTGTAAGACCATGCTGG
11898166 GACATGGC
1 GACATGGC
11898174 GTCGGCACCT
Statistics
Matches: 50, Mismatches: 1, Indels: 7
0.86 0.02 0.12
Matches are distributed among these distances:
46 14 0.28
47 27 0.54
48 9 0.18
ACGTcount: A:0.28, C:0.18, G:0.31, T:0.24
Consensus pattern (47 bp):
GACATGGCATCGACTATGAGATATGAGCTAGTGTAAGACCATGCTGG
Found at i:11915645 original size:25 final size:25
Alignment explanation
Indices: 11915617--11915664 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
11915607 TTATAACATG
* * *
11915617 AAAATGACTATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
11915642 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
11915665 GTATTTGTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:11915723 original size:20 final size:21
Alignment explanation
Indices: 11915688--11915744 Score: 77
Period size: 20 Copynumber: 2.9 Consensus size: 21
11915678 TGATATGTGG
11915688 GATATGATAT--ACATGAT-T
1 GATATGATATGCACATGATAT
11915706 GATATGATATGCACATGATAT
1 GATATGATATGCACATGATAT
*
11915727 G-TATGAAATGCACATGAT
1 GATATGATATGCACATGAT
11915745 GTAATCATAA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
18 10 0.29
20 23 0.66
21 2 0.06
ACGTcount: A:0.39, C:0.09, G:0.19, T:0.33
Consensus pattern (21 bp):
GATATGATATGCACATGATAT
Found at i:11915823 original size:26 final size:26
Alignment explanation
Indices: 11915794--11915928 Score: 190
Period size: 26 Copynumber: 5.3 Consensus size: 26
11915784 AAGGAAGTGC
*
11915794 AAAAAGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
11915820 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
11915846 AAAAGGGCTTATGCCTCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* *
11915872 AAAAGGGCTT-TGCCCCAGTTGA-TC
1 AAAAGGGCTTATGCCCCAGTTTATTG
11915896 AAAAGGGCTT-TGCCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
11915919 AAAAGAGGCT
1 AAAAG-GGCT
11915929 AGGCCTCCAT
Statistics
Matches: 101, Mismatches: 6, Indels: 6
0.89 0.05 0.05
Matches are distributed among these distances:
23 7 0.07
24 24 0.24
25 10 0.10
26 60 0.59
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:11916176 original size:31 final size:31
Alignment explanation
Indices: 11916139--11916202 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
11916129 CCGTTAAACG
11916139 AAAGGCTTCGACCCAGTAATATGAAATATGA
1 AAAGGCTTCGACCCAGTAATATGAAATATGA
* **
11916170 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGACCCAGTAATATGAAATATGA
11916201 AA
1 AA
11916203 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGACCCAGTAATATGAAATATGA
Found at i:11923977 original size:25 final size:25
Alignment explanation
Indices: 11923949--11923996 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
11923939 TTATAATATG
* *
11923949 AAAATGACTATTTTGCCCCTAGGTA
1 AAAATGACTATTATACCCCTAGGTA
11923974 AAAATGACTATTATACCCCTAGG
1 AAAATGACTATTATACCCCTAGG
11923997 GTATTTGTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (25 bp):
AAAATGACTATTATACCCCTAGGTA
Found at i:11924035 original size:9 final size:10
Alignment explanation
Indices: 11924023--11924079 Score: 57
Period size: 9 Copynumber: 5.8 Consensus size: 10
11924013 TATGTGGGAT
11924023 ATGATAT-AC
1 ATGATATGAC
*
11924032 ATGAT-TGAT
1 ATGATATGAC
11924041 ATGATATGCAC
1 ATGATATG-AC
*
11924052 ATGATATG-T
1 ATGATATGAC
11924061 ATGATATGCAC
1 ATGATATG-AC
11924072 ATGATATG
1 ATGATATG
11924080 TATGAAATGC
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
8 1 0.03
9 19 0.49
10 2 0.05
11 17 0.44
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (10 bp):
ATGATATGAC
Found at i:11924055 original size:20 final size:20
Alignment explanation
Indices: 11924022--11924096 Score: 111
Period size: 20 Copynumber: 3.9 Consensus size: 20
11924012 ATATGTGGGA
11924022 TATGATAT--ACATGAT-TG
1 TATGATATGCACATGATATG
11924039 ATATGATATGCACATGATATG
1 -TATGATATGCACATGATATG
11924060 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
11924080 TATGAAATGCACATGAT
1 TATGATATGCACATGAT
11924097 GTAATCATAA
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
18 8 0.15
20 43 0.81
21 2 0.04
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (20 bp):
TATGATATGCACATGATATG
Found at i:11924057 original size:11 final size:11
Alignment explanation
Indices: 11924041--11924096 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
11924031 CATGATTGAT
11924041 ATGATATGCAC
1 ATGATATGCAC
*
11924052 ATGATATG--T
1 ATGATATGCAC
11924061 ATGATATGCAC
1 ATGATATGCAC
*
11924072 ATGATATG--T
1 ATGATATGCAC
*
11924081 ATGAAATGCAC
1 ATGATATGCAC
11924092 ATGAT
1 ATGAT
11924097 GTAATCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:11924175 original size:26 final size:25
Alignment explanation
Indices: 11924146--11924229 Score: 109
Period size: 26 Copynumber: 3.4 Consensus size: 25
11924136 GAGGAAGTGC
*
11924146 AAAAGGGCTTATGCCCTAGTTTATT
1 AAAAGGGCTTATGCCCCAGTTTATT
* *
11924171 GAAAAGGGCTTATGCCCCAGTTGATC
1 -AAAAGGGCTTATGCCCCAGTTTATT
11924197 AAAAGGGCTT-TGCCCCAG-TTATT
1 AAAAGGGCTTATGCCCCAGTTTATT
11924220 AAAAGAGGCT
1 AAAAG-GGCT
11924230 AGGCCTCCAG
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
23 8 0.15
24 12 0.23
25 10 0.19
26 22 0.42
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTATGCCCCAGTTTATT
Found at i:11924215 original size:24 final size:24
Alignment explanation
Indices: 11924145--11924243 Score: 103
Period size: 25 Copynumber: 4.0 Consensus size: 24
11924135 GGAGGAAGTG
*
11924145 CAAAAGGGCTTATGCCCTAGTTTATT
1 CAAAAGGGCTTATGCCCCAG-TTA-T
*
11924171 GAAAAGGGCTTATGCCCCAGTTGAT
1 CAAAAGGGCTTATGCCCCAGTT-AT
11924196 CAAAAGGGCTT-TGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
11924219 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 CAAAAG-GGCTTATGCC-CCAGTTAT
11924244 ATGATAAAGC
Statistics
Matches: 64, Mismatches: 5, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
23 8 0.12
24 16 0.25
25 21 0.33
26 19 0.30
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.27
Consensus pattern (24 bp):
CAAAAGGGCTTATGCCCCAGTTAT
Found at i:11924481 original size:31 final size:31
Alignment explanation
Indices: 11924440--11924503 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
11924430 TCGTCAAACG
* *
11924440 AAAGGTTTCGGCCTAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
11924471 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
11924502 AA
1 AA
11924504 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:11924508 original size:38 final size:38
Alignment explanation
Indices: 11924457--11924531 Score: 141
Period size: 38 Copynumber: 2.0 Consensus size: 38
11924447 TCGGCCTAGT
*
11924457 AATATGAAATATGAAAAGGCTTCGGCCCAGTGTTATGA
1 AATATGAAATATGAAAAGGCTTCAGCCCAGTGTTATGA
11924495 AATATGAAATATGAAAAGGCTTCAGCCCAGTGTTATG
1 AATATGAAATATGAAAAGGCTTCAGCCCAGTGTTATG
11924532 TTGAGAATGG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.27
Consensus pattern (38 bp):
AATATGAAATATGAAAAGGCTTCAGCCCAGTGTTATGA
Found at i:11932276 original size:5 final size:5
Alignment explanation
Indices: 11932266--11932297 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
11932256 TATACTGTGA
11932266 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
11932298 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:11932291 original size:9 final size:9
Alignment explanation
Indices: 11932267--11932297 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
11932257 ATACTGTGAA
11932267 AAATAAAAT
1 AAATAAAAT
11932276 AAAATAAAAT
1 -AAATAAAAT
11932286 AAATAAAAT
1 AAATAAAAT
11932295 AAA
1 AAA
11932298 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:11936725 original size:5 final size:5
Alignment explanation
Indices: 11936715--11936742 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
11936705 CAATTTGTGA
11936715 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
11936743 GAACACACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:11940231 original size:25 final size:25
Alignment explanation
Indices: 11940197--11940246 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
11940187 AATAAATAAG
11940197 TTAATTTTGAATTCATATAGATCAA
1 TTAATTTTGAATTCATATAGATCAA
11940222 TTAATTTTGAATTCATATAGATCAA
1 TTAATTTTGAATTCATATAGATCAA
11940247 GAAAGAAATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (25 bp):
TTAATTTTGAATTCATATAGATCAA
Found at i:11949594 original size:34 final size:35
Alignment explanation
Indices: 11949556--11949631 Score: 91
Period size: 34 Copynumber: 2.2 Consensus size: 35
11949546 TGAATGCTGT
*
11949556 TGATACTATGATGGGATAAGGTCCTAATGCATA-C
1 TGATACTATGATGGGATAAGGCCCTAATGCATATC
* * * * *
11949590 TGATATTGTGATGGGCTAAGGCCCTACTGCATATT
1 TGATACTATGATGGGATAAGGCCCTAATGCATATC
11949625 TGATACT
1 TGATACT
11949632 GTACTGAGAT
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
34 28 0.82
35 6 0.18
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.33
Consensus pattern (35 bp):
TGATACTATGATGGGATAAGGCCCTAATGCATATC
Found at i:11950473 original size:25 final size:26
Alignment explanation
Indices: 11950431--11950487 Score: 73
Period size: 25 Copynumber: 2.2 Consensus size: 26
11950421 ATGCTATTCA
11950431 AAAACTACTATAGGTAGTATACT-TTG
1 AAAACTACTATAGGTAGTATA-TATTG
* *
11950457 AAAA-TACTCTAGTTAGTATATATTG
1 AAAACTACTATAGGTAGTATATATTG
11950482 AAAACT
1 AAAACT
11950488 GTAGTTAAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 1 0.04
25 21 0.78
26 5 0.19
ACGTcount: A:0.42, C:0.11, G:0.12, T:0.35
Consensus pattern (26 bp):
AAAACTACTATAGGTAGTATATATTG
Found at i:11962987 original size:46 final size:46
Alignment explanation
Indices: 11962886--11962974 Score: 133
Period size: 46 Copynumber: 1.9 Consensus size: 46
11962876 TGTAACCCGC
* **
11962886 CCATAAGTGAACTCGGACTCAACTAAACGAGCTCGGGTGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTAAACGAGCTCGGATGCCCACAT
* *
11962932 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA
1 CCATAAGTGAACTCGGACTCAACTAAACGAGCTCGGATGCCCA
11962975 AACATCCTAG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTAAACGAGCTCGGATGCCCACAT
Found at i:11965398 original size:30 final size:30
Alignment explanation
Indices: 11965354--11965442 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
11965344 CAAAGATAAC
11965354 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
11965383 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
11965413 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
11965443 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:11965402 original size:15 final size:15
Alignment explanation
Indices: 11965354--11965433 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
11965344 CAAAGATAAC
*
11965354 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
11965368 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
11965383 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
11965398 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
11965413 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
11965428 AAGAAA
1 AAGAAA
11965434 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:11965442 original size:15 final size:15
Alignment explanation
Indices: 11965365--11965442 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
11965355 AGAAAACCGA
11965365 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
11965380 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
11965394 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
11965409 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
11965425 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
11965440 ATA
1 ATA
11965443 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:11970995 original size:12 final size:12
Alignment explanation
Indices: 11970980--11971005 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
11970970 GTAAGAATTG
11970980 AAGTAATTACAC
1 AAGTAATTACAC
11970992 AAGTAATTACAC
1 AAGTAATTACAC
11971004 AA
1 AA
11971006 AAATCTAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.54, C:0.15, G:0.08, T:0.23
Consensus pattern (12 bp):
AAGTAATTACAC
Found at i:11988186 original size:44 final size:44
Alignment explanation
Indices: 11988136--11988235 Score: 121
Period size: 44 Copynumber: 2.3 Consensus size: 44
11988126 ACCACCAGCC
* * *
11988136 TTATCTCCCTAAAGTTACAGTGGAGCAGGCTCAATAT-ACAAGTT
1 TTATCTCCCTAAAGTTACAGTGGAGCAGACTCAAAATCAC-AGAT
* * * *
11988180 TTATCTCCCTGAGGTTGCAGTGGAGCAGACTGAAAATCACAGAT
1 TTATCTCCCTAAAGTTACAGTGGAGCAGACTCAAAATCACAGAT
11988224 TTATCTCCCTAA
1 TTATCTCCCTAA
11988236 GCAGTAGCGG
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
44 45 0.96
45 2 0.04
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (44 bp):
TTATCTCCCTAAAGTTACAGTGGAGCAGACTCAAAATCACAGAT
Found at i:11988404 original size:44 final size:44
Alignment explanation
Indices: 11988135--11988409 Score: 118
Period size: 44 Copynumber: 6.2 Consensus size: 44
11988125 TACCACCAGC
* * * * *
11988135 CTTATCTCCCTAAAGTTACAGTGGAGCAGGCTCAATATACAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAACAGACTCAAAATACAAGT
* * * *
11988179 TTTATCTCCCTGAGGTTGCAGTGGAGCAGACTGAAAAT-CACAGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAACAGACTCAAAATACA-AG-T
** * * ** *
11988224 -TTATCTCCCT-AAGCAGTAGCGGAGTAGA-TCAAAAATGGCGAA-T
1 CTTATCTCCCTGAAGTTGCAGTGGAACAGACTC-AAAAT-AC-AAGT
* * * * * * * * * *
11988267 CTTATCTCCATGTA-TCAGTAATGGAGCAGATTTAAGCA-ACAAGC
1 CTTATCTCCCTGAAGT-TGCAGTGGAACAGACTCAA-AATACAAGT
* * * *
11988311 CTTATCTCTCTGAAGTTGCAGTGGAGCAGGCTCAATATACAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAACAGACTCAAAATACAAGT
* *
11988355 CTTATCTCCCTGAGGTTGCAGTGGAACAGACTGAAAAT-CACAGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAACAGACTCAAAATACA-AG-T
11988400 -TTATCTCCCT
1 CTTATCTCCCT
11988410 AAGCAGTAGC
Statistics
Matches: 174, Mismatches: 41, Indels: 32
0.70 0.17 0.13
Matches are distributed among these distances:
42 1 0.01
43 25 0.14
44 126 0.72
45 19 0.11
46 3 0.02
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGGAACAGACTCAAAATACAAGT
Found at i:11988446 original size:88 final size:88
Alignment explanation
Indices: 11988180--11988451 Score: 261
Period size: 88 Copynumber: 3.1 Consensus size: 88
11988170 TATACAAGTT
11988180 TTATCTCCCTGAGGTTGCAGTGGAGCAGACTGAAAATCACAGATTTATCTCCCTAAGCAGTAGCG
1 TTATCTCCCTGAGGTTGCAGTGGAGCAGACTGAAAATCACAGATTTATCTCCCTAAGCAGTAGCG
*
11988245 GAGTAGATCAAAAATGGCGAATC
66 GAGCAGATCAAAAATGGCGAATC
* * * * * * ** * **
11988268 TTATCTCCATGTA--TCAGTAATGGAGCAGATTTAAGCAA-CA-AGCCTTATCTCTCTGAAGTTG
1 TTATCTCCCTG-AGGT-TGCAGTGGAGCAGACTGAA--AATCACAGATTTATCTCCCT-AAGCAG
* * * * *
11988329 CAGTGGAGCAGGCTC-AATAT-AC-AAGTC
61 TAGCGGAGCA-GATCAAAAATGGCGAA-TC
*
11988356 TTATCTCCCTGAGGTTGCAGTGGAACAGACTGAAAATCACAGATTTATCTCCCTAAGCAGTAGCG
1 TTATCTCCCTGAGGTTGCAGTGGAGCAGACTGAAAATCACAGATTTATCTCCCTAAGCAGTAGCG
*
11988421 GAGCAGATCAAAGATGGCGAATC
66 GAGCAGATCAAAAATGGCGAATC
11988444 TTATCTCC
1 TTATCTCC
11988452 ATGTATCGGC
Statistics
Matches: 136, Mismatches: 34, Indels: 28
0.69 0.17 0.14
Matches are distributed among these distances:
86 5 0.04
87 22 0.16
88 83 0.61
89 21 0.15
90 5 0.04
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (88 bp):
TTATCTCCCTGAGGTTGCAGTGGAGCAGACTGAAAATCACAGATTTATCTCCCTAAGCAGTAGCG
GAGCAGATCAAAAATGGCGAATC
Found at i:11988493 original size:88 final size:88
Alignment explanation
Indices: 11988224--11988500 Score: 235
Period size: 88 Copynumber: 3.1 Consensus size: 88
11988214 AATCACAGAT
* *
11988224 TTATCTCCCTAAGCAGTAGCGGAGTAGATCAAAAATGGCGAATCTTATCTCCATGTATCAGTAAT
1 TTATCTCCCTAAGCAGTAGCGGAGCAGATCAAAAATGGCGAATCTTATCTCCATGTATCAGCAAT
11988289 GGAGCAGATTTAAG-CAACAAGCC
66 GGAGCAGATTTAAGTC-ACAAGCC
* ** * * * * * * *
11988312 TTATCTCTCTGAAGTTGCAGTGGAGCAGGCTC-AATAT-AC-AAGTCTTATCTCCCTG-AGGT-T
1 TTATCTCCCT-AAGCAGTAGCGGAGCA-GATCAAAAATGGCGAA-TCTTATCTCCATGTA--TCA
* * ** * **
11988372 GCAGTGGAACAGACTGAAAATCAC-AGAT
61 GCAATGGAGCAGA-TTTAAGTCACAAGCC
* *
11988400 TTATCTCCCTAAGCAGTAGCGGAGCAGATCAAAGATGGCGAATCTTATCTCCATGTATCGGCAAT
1 TTATCTCCCTAAGCAGTAGCGGAGCAGATCAAAAATGGCGAATCTTATCTCCATGTATCAGCAAT
11988465 GGAGCAGATTTAAGTCACAAGCC
66 GGAGCAGATTTAAGTCACAAGCC
* *
11988488 CTATCTCTCTAAG
1 TTATCTCCCTAAG
11988501 GTAGCAAGAG
Statistics
Matches: 138, Mismatches: 38, Indels: 26
0.68 0.19 0.13
Matches are distributed among these distances:
86 3 0.02
87 27 0.20
88 80 0.58
89 24 0.17
90 4 0.03
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (88 bp):
TTATCTCCCTAAGCAGTAGCGGAGCAGATCAAAAATGGCGAATCTTATCTCCATGTATCAGCAAT
GGAGCAGATTTAAGTCACAAGCC
Found at i:11988558 original size:87 final size:87
Alignment explanation
Indices: 11988467--11988738 Score: 216
Period size: 87 Copynumber: 3.1 Consensus size: 87
11988457 TCGGCAATGG
* *
11988467 AGCAGATTTAAGTCACAAGCCCTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGAATGAGTCT
1 AGCAGATTTAAGTCACAAGCCTTATCTCTCTAAGGTAGCAAGAGAGCAGATTGAAGAATGAGTCT
11988532 TATCTTCTTGAGGTAGCAAGGA
66 TATCTTCTTGAGGTAGCAAGGA
* * * ** ** * * * *
11988554 AGCAGACTGAGAAT-TGAAGATTTTATCTCCCTAAAGTTGC-AGTGGAGCAGATTG-AGAATAGT
1 AGCAGATTTA-AGTCACAAG-CCTTATCTCTCTAAGGTAGCAAG-AGAGCAGATTGAAG-A-A-T
* *
11988616 GAATCTTATC-TCTATGTA--TCGACAATGG-
60 GAGTCTTATCTTCT-TG-AGGTAG-CAA-GGA
* * * *
11988644 AGCAGATTTAAGCCACAAGCCTTATCTCTCTGAGGTAGCAAGAAAGTAGATTGAAGAATGAGTCT
1 AGCAGATTTAAGTCACAAGCCTTATCTCTCTAAGGTAGCAAGAGAGCAGATTGAAGAATGAGTCT
* *
11988709 TATCTTCCTAAGGTAGCAAGGA
66 TATCTTCTTGAGGTAGCAAGGA
11988731 AGCAGATT
1 AGCAGATT
11988739 GAGAATTGAA
Statistics
Matches: 134, Mismatches: 34, Indels: 34
0.66 0.17 0.17
Matches are distributed among these distances:
86 3 0.02
87 37 0.28
88 31 0.23
89 30 0.22
90 30 0.22
91 3 0.02
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27
Consensus pattern (87 bp):
AGCAGATTTAAGTCACAAGCCTTATCTCTCTAAGGTAGCAAGAGAGCAGATTGAAGAATGAGTCT
TATCTTCTTGAGGTAGCAAGGA
Found at i:11988654 original size:177 final size:176
Alignment explanation
Indices: 11988036--11988890 Score: 777
Period size: 176 Copynumber: 4.8 Consensus size: 176
11988026 ATATTGGTGA
* * * *
11988036 AAATTGAAGATCTTATCTCTCTGAAGTTGCAGCGGAGCATATCG-AAGATGGTGAATCTTATCTC
1 AAATTGAAGATTTTATCTCCCT-AAGTTGCAGCGGAGCAGATCGAAAGATGGCGAATCTTATCTC
* * * * * * *
11988100 TATGTATCGGCAATGGAGCAAATTTTA-CCACCAGCCTTATCTCCCTAAAGTTA-C-AGTGGAGC
65 CATGTATCGGCAATGGAGCAGATTTAAGCCACAAGCCTTATCTCTCT-AAGGTAGCAAG-AGAGC
* * * ** * * *
11988162 AGGCTCAATATACAAGTTTTATCTCCCTGAGGTTGC-AGTGGAGCAGACTG
128 AGGTTGAAGA-ATGAGTCTTATCTCCCTGAGGTAGCAAG-GAAGCAGACTG
* * ** * * *
11988212 AAAATCACAGA-TTTATCTCCCTAAGCAGTAGCGGAGTAGATC-AAAAATGGCGAATCTTATCTC
1 AAATTGA-AGATTTTATCTCCCTAAGTTGCAGCGGAGCAGATCGAAAGATGGCGAATCTTATCTC
* * * * *
11988275 CATGTATCAGTAATGGAGCAGATTTAAGCAACAAGCCTTATCTCTCTGAA-GTTGC-AGTGGAGC
65 CATGTATCGGCAATGGAGCAGATTTAAGCCACAAGCCTTATCTCTCT-AAGGTAGCAAG-AGAGC
* * * ** * *
11988338 AGGCTCAATATACAAGTCTTATCTCCCTGAGGTTGCAGTGGAA-CAGACTG
128 AGGTTGAAGA-ATGAGTCTTATCTCCCTGAGGTAGCA-AGGAAGCAGACTG
* * ** *
11988388 AAAATCACAGA-TTTATCTCCCTAAGCAGTAGCGGAGCAGATC-AAAGATGGCGAATCTTATCTC
1 AAATTGA-AGATTTTATCTCCCTAAGTTGCAGCGGAGCAGATCGAAAGATGGCGAATCTTATCTC
* *
11988451 CATGTATCGGCAATGGAGCAGATTTAAGTCACAAGCCCTATCTCTCTAAGGTAGCAAGAGAGCAG
65 CATGTATCGGCAATGGAGCAGATTTAAGCCACAAGCCTTATCTCTCTAAGGTAGCAAGAGAGCAG
* *
11988516 GTTGAAGAATGAGTCTTATCTTCTTGAGGTAGCAAGGAAGCAGACTG
130 GTTGAAGAATGAGTCTTATCTCCCTGAGGTAGCAAGGAAGCAGACTG
* * * * *
11988563 AGAATTGAAGATTTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAGA-ATAGTGAATCTTATCT
1 A-AATTGAAGATTTTATCTCCCT-AAGTTGCAGCGGAGCAGATCGAAAGATGGCGAATCTTATCT
* * * * *
11988627 CTATGTATCGACAATGGAGCAGATTTAAGCCACAAGCCTTATCTCTCTGAGGTAGCAAGAAAGTA
64 CCATGTATCGGCAATGGAGCAGATTTAAGCCACAAGCCTTATCTCTCTAAGGTAGCAAGAGAGCA
* * * *
11988692 GATTGAAGAATGAGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGATTG
129 GGTTGAAGAATGAGTCTTATCTCCCTGAGGTAGCAAGGAAGCAGACTG
* * ** *
11988740 AGAATTGAAGATTTTATCTCCCTAAAGTTACATTAGCAGAGTGGATCG-AAGATGGCGAATCTTC
1 A-AATTGAAGATTTTATCTCCCT-AAGTTGC---AGCGGAGCAGATCGAAAGATGGCGAATCTTA
* * * * *
11988804 TCTCCACGTATCGGCAATGGAGCAGATTTTAGCCACTAA-CCCTATCTCTCTGAGGTAGCAAAAG
61 TCTCCATGTATCGGCAATGGAGCAGATTTAAGCCAC-AAGCCTTATCTCTCTAAGGTAGCAAGAG
* *
11988868 AGCAAGTTGAAGATTGAGTCTTA
125 AGCAGGTTGAAGAATGAGTCTTA
11988891 GCTGCAGTAA
Statistics
Matches: 576, Mismatches: 85, Indels: 32
0.83 0.12 0.05
Matches are distributed among these distances:
174 4 0.01
175 90 0.16
176 216 0.38
177 168 0.29
178 3 0.01
179 1 0.00
180 92 0.16
181 2 0.00
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (176 bp):
AAATTGAAGATTTTATCTCCCTAAGTTGCAGCGGAGCAGATCGAAAGATGGCGAATCTTATCTCC
ATGTATCGGCAATGGAGCAGATTTAAGCCACAAGCCTTATCTCTCTAAGGTAGCAAGAGAGCAGG
TTGAAGAATGAGTCTTATCTCCCTGAGGTAGCAAGGAAGCAGACTG
Found at i:11993908 original size:6 final size:6
Alignment explanation
Indices: 11993897--11993932 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
11993887 ATATATAACC
11993897 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
11993933 TCTCTTTAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
ATTTTT
Found at i:11994316 original size:22 final size:22
Alignment explanation
Indices: 11994291--11994334 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
11994281 TTCGGTGTGG
11994291 TTTTGTAACCACACGGGTGCGT
1 TTTTGTAACCACACGGGTGCGT
11994313 TTTTGTAACCACACGGGTGCGT
1 TTTTGTAACCACACGGGTGCGT
11994335 GTGCATTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.18, C:0.23, G:0.27, T:0.32
Consensus pattern (22 bp):
TTTTGTAACCACACGGGTGCGT
Found at i:11999921 original size:30 final size:31
Alignment explanation
Indices: 11999887--11999948 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
11999877 TTATTTTATC
11999887 GTTAA-TTTTCTTATTATTTTAAAAGCATTT
1 GTTAATTTTTCTTATTATTTTAAAAGCATTT
* *
11999917 GTTAATTTTTTTTATTATTTTAGAAGCATTT
1 GTTAATTTTTCTTATTATTTTAAAAGCATTT
11999948 G
1 G
11999949 CTTGTTAAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 5 0.17
31 24 0.83
ACGTcount: A:0.27, C:0.05, G:0.10, T:0.58
Consensus pattern (31 bp):
GTTAATTTTTCTTATTATTTTAAAAGCATTT
Found at i:12005682 original size:20 final size:20
Alignment explanation
Indices: 12005657--12005696 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
12005647 CATCCCAAGT
12005657 AAGTTTCTAATCATCATGCA
1 AAGTTTCTAATCATCATGCA
12005677 AAGTTTCTAATCATCATGCA
1 AAGTTTCTAATCATCATGCA
12005697 TCAACTACTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.20, G:0.10, T:0.35
Consensus pattern (20 bp):
AAGTTTCTAATCATCATGCA
Found at i:12010324 original size:22 final size:21
Alignment explanation
Indices: 12010299--12010339 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
12010289 CATATAATTC
12010299 ATAAAAAAATTAAAATAAATAA
1 ATAAAAAAATTAAAA-AAATAA
* *
12010321 ATAAATAATTTAAAAAAAT
1 ATAAAAAAATTAAAAAAAT
12010340 TGTAAAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (21 bp):
ATAAAAAAATTAAAAAAATAA
Found at i:12010347 original size:11 final size:10
Alignment explanation
Indices: 12010300--12010363 Score: 51
Period size: 10 Copynumber: 6.2 Consensus size: 10
12010290 ATATAATTCA
12010300 TAAAAAAA-T
1 TAAAAAAATT
12010309 TAAAATAAA-T
1 TAAAA-AAATT
*
12010319 AAATAAATAATT
1 TAA-AAA-AATT
12010331 TAAAAAAATT
1 TAAAAAAATT
12010341 GTAAAAAAATT
1 -TAAAAAAATT
* *
12010352 TTAGAAAATT
1 TAAAAAAATT
12010362 TA
1 TA
12010364 TCCATGTTAG
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
9 5 0.11
10 20 0.44
11 17 0.38
12 3 0.07
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (10 bp):
TAAAAAAATT
Found at i:12010713 original size:20 final size:21
Alignment explanation
Indices: 12010676--12010715 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
12010666 TCTCTCCTGC
12010676 ATTTACACTAAAAGAAAATAA
1 ATTTACACTAAAAGAAAATAA
* *
12010697 ATTTAC-CTAATATAAAATA
1 ATTTACACTAAAAGAAAATA
12010716 GTTGAATTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.57, C:0.10, G:0.03, T:0.30
Consensus pattern (21 bp):
ATTTACACTAAAAGAAAATAA
Found at i:12012658 original size:13 final size:13
Alignment explanation
Indices: 12012592--12012666 Score: 53
Period size: 13 Copynumber: 5.8 Consensus size: 13
12012582 ACACTTAAAT
* *
12012592 TTTTCCAAAGCAC
1 TTTTCAAAAGTAC
* *
12012605 TTCTCAAAAGTTC
1 TTTTCAAAAGTAC
* *
12012618 TTCTCAAAAATAC
1 TTTTCAAAAGTAC
* *
12012631 TTTTCCATAA-CAC
1 TTTT-CAAAAGTAC
*
12012644 TTTTTAAAAGTAC
1 TTTTCAAAAGTAC
12012657 TTTTCAAAAG
1 TTTTCAAAAG
12012667 CAATGAAAAA
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
12 3 0.06
13 40 0.85
14 4 0.09
ACGTcount: A:0.36, C:0.21, G:0.05, T:0.37
Consensus pattern (13 bp):
TTTTCAAAAGTAC
Found at i:12016171 original size:16 final size:15
Alignment explanation
Indices: 12016140--12016170 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
12016130 TAATTTCCTA
12016140 TATTTTTTAAAATTT
1 TATTTTTTAAAATTT
12016155 TATTTTTTAAAATTT
1 TATTTTTTAAAATTT
12016170 T
1 T
12016171 TTAAAATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
TATTTTTTAAAATTT
Found at i:12016675 original size:17 final size:17
Alignment explanation
Indices: 12016649--12016683 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
12016639 GCGTTTGAGA
*
12016649 TAGACGTTGTTATAGTT
1 TAGACATTGTTATAGTT
12016666 TAGACATTGTTATAGTT
1 TAGACATTGTTATAGTT
12016683 T
1 T
12016684 TAAGGTATGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.26, C:0.06, G:0.20, T:0.49
Consensus pattern (17 bp):
TAGACATTGTTATAGTT
Found at i:12023524 original size:14 final size:14
Alignment explanation
Indices: 12023507--12023545 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
12023497 TTAGATTAAA
12023507 AAATTGAGAATAAC
1 AAATTGAGAATAAC
* *
12023521 AAATCGAGAATAAG
1 AAATTGAGAATAAC
12023535 AAATTGAGAAT
1 AAATTGAGAAT
12023546 CAAATTATGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.56, C:0.05, G:0.18, T:0.21
Consensus pattern (14 bp):
AAATTGAGAATAAC
Found at i:12024886 original size:15 final size:17
Alignment explanation
Indices: 12024851--12024887 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
12024841 AAAATTTTTT
*
12024851 TATTTATTTTCTTTAAA
1 TATTTATTATCTTTAAA
12024868 TATTTATTAT-TTT-AA
1 TATTTATTATCTTTAAA
12024883 TATTT
1 TATTT
12024888 TACTATACCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 7 0.37
16 3 0.16
17 9 0.47
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (17 bp):
TATTTATTATCTTTAAA
Found at i:12025632 original size:21 final size:20
Alignment explanation
Indices: 12025602--12025641 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
12025592 TTTGAGATTG
12025602 AAGGTTTGGG-TTTAGGGTTT
1 AAGGTTTGGGATTT-GGGTTT
12025622 AAGGTTTTGGGATTTGGGTT
1 AAGG-TTTGGGATTTGGGTT
12025642 CGAGATTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 11 0.61
22 3 0.17
ACGTcount: A:0.15, C:0.00, G:0.40, T:0.45
Consensus pattern (20 bp):
AAGGTTTGGGATTTGGGTTT
Found at i:12025654 original size:7 final size:7
Alignment explanation
Indices: 12025644--12025671 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
12025634 TTTGGGTTCG
12025644 AGATTCA
1 AGATTCA
12025651 AGATTCA
1 AGATTCA
12025658 AGATTCA
1 AGATTCA
12025665 AGATTCA
1 AGATTCA
12025672 GAGCTCGGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (7 bp):
AGATTCA
Found at i:12029889 original size:44 final size:43
Alignment explanation
Indices: 12029812--12029983 Score: 129
Period size: 43 Copynumber: 4.0 Consensus size: 43
12029802 ACATAGGATC
* *
12029812 CGATATGTGTTTTTGTGTAAGACCACA-TATGGGACGTTGGCAT
1 CGATATCTGTTTTTGTGTAAGACCA-AGTCTGGGACGTTGGCAT
* *
12029855 CGACT-TCTGTTTTATGTGTAAGACCAAGTCTGGGACATCGGCAT
1 CGA-TATCTGTTTT-TGTGTAAGACCAAGTCTGGGACGTTGGCAT
* * *
12029899 CG-TATCTGATTTTGTGTAAGATCC-TGTCTGGGATAG-TGGCAT
1 CGATATCTGTTTTTGTGTAAGA-CCAAGTCTGGGA-CGTTGGCAT
* * * *** * *
12029941 CGATGTTTGATTACATGTAAGACCACGTCTGGGACGTTAGCAT
1 CGATATCTGTTTTTGTGTAAGACCAAGTCTGGGACGTTGGCAT
12029984 TGTATATGTT
Statistics
Matches: 103, Mismatches: 17, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 28 0.27
43 47 0.46
44 28 0.27
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.34
Consensus pattern (43 bp):
CGATATCTGTTTTTGTGTAAGACCAAGTCTGGGACGTTGGCAT
Found at i:12036140 original size:46 final size:46
Alignment explanation
Indices: 12036064--12036222 Score: 176
Period size: 46 Copynumber: 3.4 Consensus size: 46
12036054 AACAATATCG
* * *
12036064 ATCTCGCACACTATGTGCCAATGTATATATATAGCCGAAGCTATCTCA
1 ATCTCACACACTAAGTGCCAA--TATATATATAGCCGAAGCTATTTCA
*
12036112 AT-TACACACACTAAGTGCCAATATATATATAACCGAAGCTATTTCA
1 ATCT-CACACACTAAGTGCCAATATATATATAGCCGAAGCTATTTCA
* * * * * *
12036158 GTCTCGCACACTAAGTGCCAATACATATGTAGTCGAAACTATTTCTA
1 ATCTCACACACTAAGTGCCAATATATATATAGCCGAAGCTATTTC-A
*
12036205 ATCTCACACACCAAGTGC
1 ATCTCACACACTAAGTGC
12036223 ACATAATTAG
Statistics
Matches: 94, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
46 59 0.63
47 18 0.19
48 17 0.18
ACGTcount: A:0.35, C:0.25, G:0.13, T:0.28
Consensus pattern (46 bp):
ATCTCACACACTAAGTGCCAATATATATATAGCCGAAGCTATTTCA
Found at i:12040979 original size:13 final size:13
Alignment explanation
Indices: 12040961--12040986 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
12040951 GCTCGGTAGG
12040961 GACACGCCCATGT
1 GACACGCCCATGT
12040974 GACACGCCCATGT
1 GACACGCCCATGT
12040987 ACGATTACTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.38, G:0.23, T:0.15
Consensus pattern (13 bp):
GACACGCCCATGT
Found at i:12051325 original size:223 final size:222
Alignment explanation
Indices: 12050937--12051609 Score: 1283
Period size: 223 Copynumber: 3.0 Consensus size: 222
12050927 AGGTAGGGGT
*
12050937 AGAGGTTGTTGAGCAACCGAATTTGTCAAGACATACTACGTGAATCATTCGTTCATCATTTGGAA
1 AGAGGTTGTTGAGCAGCCGAATTTGTCAAGACATACTACGTGAATCATTCGTTCATCATTTGGAA
12051002 GAAGGCTTCGTTAGCCTCTCCTCCCTGGCTACCCGATACGAGTCTAGATTTAGAAGGCACTGTCT
66 GAAGGCTTCGTTAGCCTCTCCTCCCTGGCTA-CCGATACGAGTCTAGATTTAGAAGGCACTGTCT
12051067 CTTGAGTGGGAGCTGGCACATTACTTTCAACCTCATCAACTACAACTCGATTGGGATCTATTTAC
130 CTTGAGTGGGAGCTGGCACATTACTTTCAACCTCATCAACTACAACTCGATTGGGATCTATTTAC
12051132 TATATGAAAACACATTTTAAAAATATTA
195 TATATGAAAACACATTTTAAAAATATTA
12051160 AGAGGTTGTTGAGCAGCCGAATTTGTCAAGACATACTACGTGAATCATTCGTTCATCATTTGGAA
1 AGAGGTTGTTGAGCAGCCGAATTTGTCAAGACATACTACGTGAATCATTCGTTCATCATTTGGAA
12051225 GAAGGCTTCGTTAGCCTCTCCTCCCTGGCTACTCGATACGAGTCTAGATTTAGAAGGCACTGTCT
66 GAAGGCTTCGTTAGCCTCTCCTCCCTGGCTAC-CGATACGAGTCTAGATTTAGAAGGCACTGTCT
12051290 CTTGAGTGGGAGCTGGCACATTACTTTCAACCTCATCAACTACAACTCGATTGGGATCTATTTAC
130 CTTGAGTGGGAGCTGGCACATTACTTTCAACCTCATCAACTACAACTCGATTGGGATCTATTTAC
12051355 TATATGAAAACACATTTTAAAAATATTA
195 TATATGAAAACACATTTTAAAAATATTA
12051383 AGAGGTTGTTGAGCAGCCGAATTTGTCAAGACATACTACGTGAATCATTCGTTCATCATTTGGAA
1 AGAGGTTGTTGAGCAGCCGAATTTGTCAAGACATACTACGTGAATCATTCGTTCATCATTTGGAA
*
12051448 GAAGGCTTCGTTAGCCTCTCCTCCCTGGCTACCTGATACGAGTCTAGATTTAGAAGGCACTATCT
66 GAAGGCTTCGTTAGCCTCTCCTCCCTGGCTACC-GATACGAGTCTAGATTTAGAAGGCACTGTCT
* *
12051513 CTAGACTGGGAGCTGGCACATTACTTTCAACCTCATCAACTACAACTCGATTGGGATCTATTTAC
130 CTTGAGTGGGAGCTGGCACATTACTTTCAACCTCATCAACTACAACTCGATTGGGATCTATTTAC
12051578 TATATGAAAACACATTTTAAAAATATTA
195 TATATGAAAACACATTTTAAAAATATTA
12051606 AGAG
1 AGAG
12051610 TCATCACACT
Statistics
Matches: 444, Mismatches: 4, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
222 2 0.00
223 442 1.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.30
Consensus pattern (222 bp):
AGAGGTTGTTGAGCAGCCGAATTTGTCAAGACATACTACGTGAATCATTCGTTCATCATTTGGAA
GAAGGCTTCGTTAGCCTCTCCTCCCTGGCTACCGATACGAGTCTAGATTTAGAAGGCACTGTCTC
TTGAGTGGGAGCTGGCACATTACTTTCAACCTCATCAACTACAACTCGATTGGGATCTATTTACT
ATATGAAAACACATTTTAAAAATATTA
Found at i:12053205 original size:46 final size:46
Alignment explanation
Indices: 12053062--12053221 Score: 137
Period size: 46 Copynumber: 3.5 Consensus size: 46
12053052 CGGGAAATTT
* ** * * * *
12053062 GCACAATAAGTGCCAA-ATA-A-ATAGTCGAAGCAATATCGATCTC
1 GCACACTAAGTGCCAATATATATATAACCGAAGCTATCTCAATCAC
* ** *
12053105 GCACACTAAGTGCCAATGTATATATATAGCCGAATTTATCTCAATTAC
1 GCACACTAAGTGCCAA--TATATATATAACCGAAGCTATCTCAATCAC
* * *
12053153 GCACACTAAGTGCCAATATATATATAACCGAAGCTATTTCAGTCCC
1 GCACACTAAGTGCCAATATATATATAACCGAAGCTATCTCAATCAC
* *
12053199 GTACACTAAGTGCCAATACATAT
1 GCACACTAAGTGCCAATATATAT
12053222 GTAGTCGAAA
Statistics
Matches: 94, Mismatches: 18, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
43 15 0.16
46 47 0.50
47 1 0.01
48 31 0.33
ACGTcount: A:0.38, C:0.23, G:0.14, T:0.26
Consensus pattern (46 bp):
GCACACTAAGTGCCAATATATATATAACCGAAGCTATCTCAATCAC
Found at i:12064905 original size:15 final size:17
Alignment explanation
Indices: 12064881--12064914 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
12064871 GCTAGGGACT
12064881 AAATTGAAAAG-TGATA
1 AAATTGAAAAGATGATA
12064897 AAATT-AAAAGATGATA
1 AAATTGAAAAGATGATA
12064913 AA
1 AA
12064915 TAATTAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.62, C:0.00, G:0.15, T:0.24
Consensus pattern (17 bp):
AAATTGAAAAGATGATA
Found at i:12065657 original size:17 final size:17
Alignment explanation
Indices: 12065635--12065667 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
12065625 ATCTGACAAA
*
12065635 GCCCGATCAATGATAAT
1 GCCCGATAAATGATAAT
12065652 GCCCGATAAATGATAA
1 GCCCGATAAATGATAA
12065668 ATGGTAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.21
Consensus pattern (17 bp):
GCCCGATAAATGATAAT
Found at i:12065849 original size:36 final size:36
Alignment explanation
Indices: 12065808--12065879 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
12065798 AATAAATGAT
12065808 AATCGATGGATATGTGATTTTTCAAAATGAATGAGG
1 AATCGATGGATATGTGATTTTTCAAAATGAATGAGG
12065844 AATCGATGGATATGTGATTTTTCAAAATGAATGAGG
1 AATCGATGGATATGTGATTTTTCAAAATGAATGAGG
12065880 TCCTACTTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.25, T:0.33
Consensus pattern (36 bp):
AATCGATGGATATGTGATTTTTCAAAATGAATGAGG
Found at i:12077526 original size:31 final size:31
Alignment explanation
Indices: 12077467--12077526 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
12077457 TTTTTTTTTT
* * * *
12077467 GTTAAATTTTACCATTAATATTTTAAAAAGA
1 GTTAAATTTGACAATTAACATTTCAAAAAGA
*
12077498 GTTAAATTTGACAATTAACCTTTCAAAAA
1 GTTAAATTTGACAATTAACATTTCAAAAA
12077527 TAATCAAATC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.45, C:0.10, G:0.07, T:0.38
Consensus pattern (31 bp):
GTTAAATTTGACAATTAACATTTCAAAAAGA
Found at i:12077658 original size:7 final size:8
Alignment explanation
Indices: 12077639--12077688 Score: 55
Period size: 8 Copynumber: 6.1 Consensus size: 8
12077629 AAAATTTATG
12077639 AATTTTTT
1 AATTTTTT
12077647 AATTTTTT
1 AATTTTTT
*
12077655 ATTTTTTT
1 AATTTTTT
*
12077663 GAATATTTT
1 -AATTTTTT
*
12077672 AATTTTTG
1 AATTTTTT
*
12077680 AATTATTT
1 AATTTTTT
12077688 A
1 A
12077689 TTGACATGAC
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
8 28 0.82
9 6 0.18
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (8 bp):
AATTTTTT
Found at i:12080698 original size:15 final size:17
Alignment explanation
Indices: 12080678--12080715 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
12080668 ATAACTATGT
12080678 GCTTGAAAA-TGGA-AG
1 GCTTGAAAACTGGAGAG
12080693 GCTTGAAAACTGGAGAG
1 GCTTGAAAACTGGAGAG
12080710 G-TTGAA
1 GCTTGAA
12080716 TGGTTATGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 9 0.43
16 9 0.43
17 3 0.14
ACGTcount: A:0.37, C:0.08, G:0.34, T:0.21
Consensus pattern (17 bp):
GCTTGAAAACTGGAGAG
Found at i:12089622 original size:38 final size:38
Alignment explanation
Indices: 12089531--12089660 Score: 143
Period size: 38 Copynumber: 3.4 Consensus size: 38
12089521 CGAGGTATAA
* * * *
12089531 AACCCAAACATAACACCAGCACGAAGCCTACGGGACTTT
1 AACCCAGATATAATACCAGCACGAAGCCTGCGGGA-TTT
** * * *
12089570 AAACTTAGATATAATACCAGCACTAGGCCTGTGGGATTT
1 -AACCCAGATATAATACCAGCACGAAGCCTGCGGGATTT
*
12089609 AACCCGGATATAATACCAGCACGAAGCCTGCGGGATTT
1 AACCCAGATATAATACCAGCACGAAGCCTGCGGGATTT
*
12089647 AACCCAAATATAAT
1 AACCCAGATATAAT
12089661 TCTAGCATAT
Statistics
Matches: 73, Mismatches: 17, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
38 44 0.60
39 3 0.04
40 26 0.36
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (38 bp):
AACCCAGATATAATACCAGCACGAAGCCTGCGGGATTT
Found at i:12091388 original size:448 final size:448
Alignment explanation
Indices: 12090546--12091452 Score: 1661
Period size: 448 Copynumber: 2.0 Consensus size: 448
12090536 TTTTTGTCAA
12090546 TGTTTACCACATAATCATAATTCCACTGCAAGCTGTCTTCCTGAGCAACAGTCACTAAATCATTT
1 TGTTTA-CACATAATCATAATTCCACTGCAAGCTGTCTTCCTGAGCAACAGTCACTAAATCATTT
**
12090611 ATAACTGGAGCTACGAAACTCCAAATCAAGTGCTGTTAATTTTCTCTGAAAATAGACTCATATAT
65 ATAACTGGAGCTACGAAACTCCAAATCAAGTGCCATTAATTTTCTCTGAAAATAGACTCATATAT
*
12090676 CTTTTATCCATAAAATTTTAAGAATTTTTGGTTTGGCCAAACAATACCATATTTTTCTTAAAGTT
130 ATTTTATCCATAAAATTTTAAGAATTTTTGGTTTGGCCAAACAATACCATATTTTTCTTAAAGTT
*
12090741 TCCCTTGTTTCACTGTTTGACTAATCTCACCACTCTTCACTATGAATCAAATTTCTCATTGTACA
195 TCCCTTGTTTCACTATTTGACTAATCTCACCACTCTTCACTATGAATCAAATTTCTCATTGTACA
12090806 GAATTCAAAATATGTTCTCGTTTATTTCATTTGAAACTAAACTCATTAAGGAGTCTAAGAATATA
260 GAATTCAAAATATGTTCTCGTTTATTTCATTTGAAACTAAACTCATTAAGGAGTCTAAGAATATA
12090871 AATGTCATCTTAGGACCATTTTTGTACAATTTATAATGATTTTATAAAAACAGAATAGAGGATCT
325 AATGTCATCTTAGGACCATTTTTGTACAATTTATAATGATTTTATAAAAACAGAATAGAGGATCT
12090936 AGAAGTCATTCTGACCATGTCCCACATCACTTCAAATATCTCATTATCGGAAATTCTTT
390 AGAAGTCATTCTGACCATGTCCCACATCACTTCAAATATCTCATTATCGGAAATTCTTT
*
12090995 TGTTTACACATAATCATAATTCCACTGCAAGCTGTCTTCCTGAGCAATAGTCACTAAATCATTTA
1 TGTTTACACATAATCATAATTCCACTGCAAGCTGTCTTCCTGAGCAACAGTCACTAAATCATTTA
*
12091060 TAACTGGAGTTACGAAACTCCAAATCAAGTGCCATTAATTTTCTCTGAAAATAGACTCATATATA
66 TAACTGGAGCTACGAAACTCCAAATCAAGTGCCATTAATTTTCTCTGAAAATAGACTCATATATA
* * * *
12091125 TTTTATCCATAAAATTTTCATAATTTTTTGTTTGGTCAAACAATACCATATTTTTCTTAAAGTTT
131 TTTTATCCATAAAATTTTAAGAATTTTTGGTTTGGCCAAACAATACCATATTTTTCTTAAAGTTT
* *
12091190 CCCTTGTTTCACTATTTGACTAATCTGACCACTCTTCACTATGAATCAAATTTCTCATTGTATAG
196 CCCTTGTTTCACTATTTGACTAATCTCACCACTCTTCACTATGAATCAAATTTCTCATTGTACAG
*
12091255 AATTCAAAATATGTTCTTGTTTATTTCATTTGAAACTAAACTCATTAAGGAGTCTAAGAATATAA
261 AATTCAAAATATGTTCTCGTTTATTTCATTTGAAACTAAACTCATTAAGGAGTCTAAGAATATAA
* *
12091320 ATTTCATCTTAGGACCATTTTTGTACAATTTATAATGATTTTATAAATACAGAATAGAGGATCTA
326 ATGTCATCTTAGGACCATTTTTGTACAATTTATAATGATTTTATAAAAACAGAATAGAGGATCTA
*
12091385 GAAGTCATTCTGACCCTGTCCCACATCACTTCAAATATCTCATTATCGGAAATTCTTT
391 GAAGTCATTCTGACCATGTCCCACATCACTTCAAATATCTCATTATCGGAAATTCTTT
12091443 TGTTTACACA
1 TGTTTACACA
12091453 GTTTATTTTA
Statistics
Matches: 442, Mismatches: 16, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
448 436 0.99
449 6 0.01
ACGTcount: A:0.33, C:0.19, G:0.11, T:0.37
Consensus pattern (448 bp):
TGTTTACACATAATCATAATTCCACTGCAAGCTGTCTTCCTGAGCAACAGTCACTAAATCATTTA
TAACTGGAGCTACGAAACTCCAAATCAAGTGCCATTAATTTTCTCTGAAAATAGACTCATATATA
TTTTATCCATAAAATTTTAAGAATTTTTGGTTTGGCCAAACAATACCATATTTTTCTTAAAGTTT
CCCTTGTTTCACTATTTGACTAATCTCACCACTCTTCACTATGAATCAAATTTCTCATTGTACAG
AATTCAAAATATGTTCTCGTTTATTTCATTTGAAACTAAACTCATTAAGGAGTCTAAGAATATAA
ATGTCATCTTAGGACCATTTTTGTACAATTTATAATGATTTTATAAAAACAGAATAGAGGATCTA
GAAGTCATTCTGACCATGTCCCACATCACTTCAAATATCTCATTATCGGAAATTCTTT
Found at i:12094593 original size:29 final size:29
Alignment explanation
Indices: 12094556--12094658 Score: 120
Period size: 29 Copynumber: 3.6 Consensus size: 29
12094546 GGTTGAAGAA
12094556 CTCGCACACACAGTGCCTCAATTACCGAT
1 CTCGCACACACAGTGCCTCAATTACCGAT
* ** **
12094585 CTCGCACACATAGTG-CTCGGTTAAAGGAAT
1 CTCGCACACACAGTGCCTCAATT-ACCG-AT
12094615 -TCGCACACACAGTGCCTCAATTACCGAT
1 CTCGCACACACAGTGCCTCAATTACCGAT
*
12094643 CTCGCACACATAGTGC
1 CTCGCACACACAGTGC
12094659 TCGGTTAAAG
Statistics
Matches: 59, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
28 7 0.12
29 45 0.76
30 7 0.12
ACGTcount: A:0.28, C:0.33, G:0.17, T:0.21
Consensus pattern (29 bp):
CTCGCACACACAGTGCCTCAATTACCGAT
Found at i:12094633 original size:58 final size:58
Alignment explanation
Indices: 12094531--12094690 Score: 286
Period size: 58 Copynumber: 2.8 Consensus size: 58
12094521 TCGGGCGTGG
* *
12094531 GCACACATAGTGCTCGGTTGAA-GAACTCGCACACACAGTGCCTCAATTACCGATCTC
1 GCACACATAGTGCTCGGTTAAAGGAATTCGCACACACAGTGCCTCAATTACCGATCTC
12094588 GCACACATAGTGCTCGGTTAAAGGAATTCGCACACACAGTGCCTCAATTACCGATCTC
1 GCACACATAGTGCTCGGTTAAAGGAATTCGCACACACAGTGCCTCAATTACCGATCTC
*
12094646 GCACACATAGTGCTCGGTTAAAGGAATTTGCACACACAGTGCCTC
1 GCACACATAGTGCTCGGTTAAAGGAATTCGCACACACAGTGCCTC
12094691 TAATCATTCG
Statistics
Matches: 99, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
57 21 0.21
58 78 0.79
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (58 bp):
GCACACATAGTGCTCGGTTAAAGGAATTCGCACACACAGTGCCTCAATTACCGATCTC
Found at i:12094678 original size:29 final size:29
Alignment explanation
Indices: 12094531--12094687 Score: 117
Period size: 29 Copynumber: 5.4 Consensus size: 29
12094521 TCGGGCGTGG
* * *
12094531 GCACACATAGTGCTCGGTTGAA-GAACTC
1 GCACACACAGTGCTCGGTTAAAGGAATTC
** **
12094559 GCACACACAGTGCCTCAATT-ACCG-ATCTC
1 GCACACACAGTG-CTCGGTTAAAGGAAT-TC
*
12094588 GCACACATAGTGCTCGGTTAAAGGAATTC
1 GCACACACAGTGCTCGGTTAAAGGAATTC
** **
12094617 GCACACACAGTGCCTCAATT-ACCG-ATCTC
1 GCACACACAGTG-CTCGGTTAAAGGAAT-TC
* *
12094646 GCACACATAGTGCTCGGTTAAAGGAATTT
1 GCACACACAGTGCTCGGTTAAAGGAATTC
12094675 GCACACACAGTGC
1 GCACACACAGTGC
12094688 CTCTAATCAT
Statistics
Matches: 98, Mismatches: 22, Indels: 17
0.72 0.16 0.12
Matches are distributed among these distances:
28 25 0.26
29 64 0.65
30 9 0.09
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (29 bp):
GCACACACAGTGCTCGGTTAAAGGAATTC
Found at i:12094910 original size:43 final size:43
Alignment explanation
Indices: 12094856--12094980 Score: 214
Period size: 43 Copynumber: 2.9 Consensus size: 43
12094846 CACCGGCATT
* *
12094856 AAGCCTACTAGGCACGAAGACCCGAATACACATCACCGACACG
1 AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGACACG
*
12094899 AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACG
1 AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGACACG
*
12094942 AAGCCTGCTAGGCACGAAGGCTCGAATACACATCACCGA
1 AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGA
12094981 GTTTCATGCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 77 1.00
ACGTcount: A:0.34, C:0.34, G:0.22, T:0.10
Consensus pattern (43 bp):
AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGACACG
Found at i:12098644 original size:50 final size:50
Alignment explanation
Indices: 12098536--12098851 Score: 274
Period size: 50 Copynumber: 6.6 Consensus size: 50
12098526 GTATAATACT
* * * *
12098536 GATGCTATGTCCCAGACATGGTCTTATACTG-GT-TCATC-TATCAAGT--C
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTCTCA-CATATC-TGTGCC
*
12098583 GATGCCATGTCCTAGACATGGTCTTACACTGACTCTCACATATCTGTGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTCTCACATATCTGTGCC
*
12098633 GATGCCATGTCCCATACATGGTCTTACACTGACTCTCACATATCTGTGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTCTCACATATCTGTGCC
* * *
12098683 GATCCCATGTCCCAGACATGGTCTTACACT-A---ACACAT-TTTGTAGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTCTCACATATCTGT-GCC
* * * * ** *
12098729 AATG-CATGTCCCCGGACAT-GTCTTACACT-AGCTCT--CGTCTCAATACC
1 GATGCCATGT-CCCAGACATGGTCTTACACTGA-CTCTCACATATCTGTGCC
* * * *
12098776 GATGCCATGTCCCAGATATGGTCTTACACTGGCTCTCATA-ATGTG-GCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTCTCACATATCTGTGCC
12098824 GATG-CATGTCCCAGACAT-GTCTTACACT
1 GATGCCATGTCCCAGACATGGTCTTACACT
12098852 AGCACACAAT
Statistics
Matches: 220, Mismatches: 32, Indels: 35
0.77 0.11 0.12
Matches are distributed among these distances:
45 20 0.09
46 28 0.13
47 55 0.25
48 31 0.14
49 9 0.04
50 77 0.35
ACGTcount: A:0.23, C:0.29, G:0.18, T:0.30
Consensus pattern (50 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGACTCTCACATATCTGTGCC
Found at i:12098711 original size:100 final size:96
Alignment explanation
Indices: 12098536--12098854 Score: 291
Period size: 93 Copynumber: 3.3 Consensus size: 96
12098526 GTATAATACT
* * * *
12098536 GATGCTATGTCCCAGACATGGTCTTATACTGGTTCATC-TATCAAGT--CGATGCCATGTCCTAG
1 GATGC-ATGTCCCAGACAT-GTCTTACACTAGCTC-TCATATCAA-TACCGATGCCATGTCCCAG
12098598 ACATGGTCTTACACTGACTCTCACATATCTGTGCC
62 ACATGGTCTTACACTGACTCTCACATATCTGTGCC
* ** * *
12098633 GATGCCATGTCCCATACATGGTCTTACACT-GACTCTCACATATCTGTGCCGATCCCATGTCCCA
1 GATG-CATGTCCCAGACAT-GTCTTACACTAG-CTCT--CATATCAATACCGATGCCATGTCCCA
* *
12098697 GACATGGTCTTACACT-A---ACACAT-TTTGTAGCC
61 GACATGGTCTTACACTGACTCTCACATATCTGT-GCC
* * * * *
12098729 AATGCATGTCCCCGGACATGTCTTACACTAGCTCTCGTCTCAATACCGATGCCATGTCCCAGATA
1 GATGCATGT-CCCAGACATGTCTTACACTAGCTCTCATATCAATACCGATGCCATGTCCCAGACA
* * *
12098794 TGGTCTTACACTGGCTCTCATA-ATGTG-GCC
65 TGGTCTTACACTGACTCTCACATATCTGTGCC
12098824 GATGCATGTCCCAGACATGTCTTACACTAGC
1 GATGCATGTCCCAGACATGTCTTACACTAGC
12098855 ACACAATTAA
Statistics
Matches: 182, Mismatches: 25, Indels: 33
0.76 0.10 0.14
Matches are distributed among these distances:
93 35 0.19
94 21 0.12
95 34 0.19
96 21 0.12
97 34 0.19
98 3 0.02
99 5 0.03
100 29 0.16
ACGTcount: A:0.23, C:0.29, G:0.18, T:0.29
Consensus pattern (96 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATATCAATACCGATGCCATGTCCCAGACAT
GGTCTTACACTGACTCTCACATATCTGTGCC
Found at i:12098802 original size:93 final size:93
Alignment explanation
Indices: 12098582--12098854 Score: 237
Period size: 95 Copynumber: 2.8 Consensus size: 93
12098572 TCTATCAAGT
* * * * *
12098582 CGATGCCATGTCCTAGACATGGTCTTACACTGACTCTCACATATCTGT-GCCGATGCCATGTCCC
1 CGATCCCATGTCCCAGACATGGTCTTACACTGA---ACACATA-ATGTAGCCAATG-CATGTCCC
* * * ** *
12098646 ATACATGGTCTTACACT-GACTCTCACATATCTGTGC
61 AGACAT-GTCTTACACTAG-CTCT--CGTCTCAATAC
** *
12098682 CGATCCCATGTCCCAGACATGGTCTTACACT-AACACATTTTGTAGCCAATGCATGTCCCCGGAC
1 CGATCCCATGTCCCAGACATGGTCTTACACTGAACACATAATGTAGCCAATGCATGT-CCCAGAC
12098746 ATGTCTTACACTAGCTCTCGTCTCAATAC
65 ATGTCTTACACTAGCTCTCGTCTCAATAC
* * ** * * *
12098775 CGATGCCATGTCCCAGATATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCCAGAC
1 CGATCCCATGTCCCAGACATGGTCTTACACT-GAACACATAATGTAGCCAATGCATGTCCCAGAC
12098840 ATGTCTTACACTAGC
65 ATGTCTTACACTAGC
12098855 ACACAATTAA
Statistics
Matches: 145, Mismatches: 23, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
93 35 0.24
94 21 0.14
95 40 0.28
96 19 0.13
99 1 0.01
100 29 0.20
ACGTcount: A:0.23, C:0.31, G:0.18, T:0.29
Consensus pattern (93 bp):
CGATCCCATGTCCCAGACATGGTCTTACACTGAACACATAATGTAGCCAATGCATGTCCCAGACA
TGTCTTACACTAGCTCTCGTCTCAATAC
Found at i:12105115 original size:46 final size:46
Alignment explanation
Indices: 12105048--12105140 Score: 177
Period size: 46 Copynumber: 2.0 Consensus size: 46
12105038 GCTACAAACA
*
12105048 AATCATGTTATGGTAAGAATGTAATGTATATGGAGTTTTAGATTTT
1 AATCATGTTATGGTAAGAATGTAATGTATATGGAGTTTCAGATTTT
12105094 AATCATGTTATGGTAAGAATGTAATGTATATGGAGTTTCAGATTTT
1 AATCATGTTATGGTAAGAATGTAATGTATATGGAGTTTCAGATTTT
12105140 A
1 A
12105141 TTTGAATAAA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.33, C:0.03, G:0.22, T:0.42
Consensus pattern (46 bp):
AATCATGTTATGGTAAGAATGTAATGTATATGGAGTTTCAGATTTT
Found at i:12108932 original size:56 final size:55
Alignment explanation
Indices: 12108892--12109043 Score: 155
Period size: 56 Copynumber: 2.7 Consensus size: 55
12108882 ATTTTATAGT
*
12108892 ATTATATATTATGATTT-TTTAATTCATA-TAATAATAATTATATTATGATTTATTAA
1 ATTATATATTAT--TTTATTAAATT-ATATTAATAATAATTATATTATGATTTATTAA
* ** **
12108948 ATTATATATTATTTTATTAAATTATATTTAATAATAATTATGTTAAAATATGGTTAA
1 ATTATATATTATTTTATTAAATTATA-TTAATAATAATTATATTATGAT-TTATTAA
* *
12109005 ATTATTTATTATTTTTATTAAATTATTTTCAATAATAAT
1 ATTATATATTA-TTTTATTAAATTATATT-AATAATAAT
12109044 ATTATTAAAA
Statistics
Matches: 82, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
54 6 0.07
55 6 0.07
56 30 0.37
57 17 0.21
58 23 0.28
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.54
Consensus pattern (55 bp):
ATTATATATTATTTTATTAAATTATATTAATAATAATTATATTATGATTTATTAA
Found at i:12108952 original size:20 final size:21
Alignment explanation
Indices: 12108927--12108975 Score: 75
Period size: 20 Copynumber: 2.4 Consensus size: 21
12108917 ATATAATAAT
12108927 AATTATATTATGA-TTTATTA
1 AATTATATTATGATTTTATTA
*
12108947 AATTATA-TATTATTTTATTA
1 AATTATATTATGATTTTATTA
12108967 AATTATATT
1 AATTATATT
12108976 TAATAATAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 4 0.15
20 21 0.81
21 1 0.04
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (21 bp):
AATTATATTATGATTTTATTA
Found at i:12109052 original size:58 final size:57
Alignment explanation
Indices: 12108920--12109054 Score: 168
Period size: 58 Copynumber: 2.4 Consensus size: 57
12108910 TTAATTCATA
** **
12108920 TAATAATAATTATATTATGAT-TTATTAAATTATATATTATTTTATTAAATTATATT
1 TAATAATAATTATATTAAAATATGGTTAAATTATATATTATTTTATTAAATTATATT
* *
12108976 TAATAATAATTATGTTAAAATATGGTTAAATTATTTATTATTTTTATTAAATTAT-TT
1 TAATAATAATTATATTAAAATATGGTTAAATTATATATTA-TTTTATTAAATTATATT
12109033 TCAATAATAA-TATTATTAAAAT
1 T-AATAATAATTA-TATTAAAAT
12109055 TTAATAACAA
Statistics
Matches: 68, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
56 18 0.26
57 20 0.29
58 30 0.44
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.53
Consensus pattern (57 bp):
TAATAATAATTATATTAAAATATGGTTAAATTATATATTATTTTATTAAATTATATT
Found at i:12109243 original size:16 final size:16
Alignment explanation
Indices: 12109222--12109277 Score: 67
Period size: 16 Copynumber: 3.5 Consensus size: 16
12109212 TGAATTACTG
*
12109222 ATTACATTTCTATTCC
1 ATTACAGTTCTATTCC
* *
12109238 ATTACAGGTCTATTCA
1 ATTACAGTTCTATTCC
* *
12109254 ATTACAGTCCTATTTC
1 ATTACAGTTCTATTCC
12109270 ATTACAGT
1 ATTACAGT
12109278 GAACCAAACG
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.29, C:0.21, G:0.07, T:0.43
Consensus pattern (16 bp):
ATTACAGTTCTATTCC
Found at i:12117796 original size:11 final size:11
Alignment explanation
Indices: 12117776--12117821 Score: 56
Period size: 11 Copynumber: 4.1 Consensus size: 11
12117766 TCGGCAATAG
*
12117776 AAGAAGAAGAA
1 AAGAAAAAGAA
*
12117787 AAGAGAAAGAA
1 AAGAAAAAGAA
*
12117798 GAGAAAAAGAAA
1 AAGAAAAAG-AA
12117810 AAGAAAAAGAA
1 AAGAAAAAGAA
12117821 A
1 A
12117822 GACGAGGAGG
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
11 19 0.66
12 10 0.34
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (11 bp):
AAGAAAAAGAA
Found at i:12117798 original size:17 final size:17
Alignment explanation
Indices: 12117776--12117821 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
12117766 TCGGCAATAG
*
12117776 AAGAAGAAGAAAAGAGA
1 AAGAAGAAGAAAAGAAA
12117793 AAGAAG-AGAAAAAGAAA
1 AAGAAGAAG-AAAAGAAA
*
12117810 AAGAAAAAGAAA
1 AAGAAGAAGAAA
12117822 GACGAGGAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
16 2 0.08
17 21 0.84
18 2 0.08
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (17 bp):
AAGAAGAAGAAAAGAAA
Found at i:12117821 original size:6 final size:6
Alignment explanation
Indices: 12117776--12117821 Score: 51
Period size: 6 Copynumber: 8.0 Consensus size: 6
12117766 TCGGCAATAG
* * *
12117776 AAGAAG AAG-AA AAGAGA AAG-AA GAGAAA AAGAAA AAGAAA AAGAAA
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA
12117822 GACGAGGAGG
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
5 7 0.21
6 26 0.79
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:12117835 original size:27 final size:28
Alignment explanation
Indices: 12117776--12117842 Score: 82
Period size: 27 Copynumber: 2.4 Consensus size: 28
12117766 TCGGCAATAG
12117776 AAGAAGAAGAAAAGAGAAAGAAGAGAAA
1 AAGAAGAAGAAAAGAGAAAGAAGAGAAA
* * * *
12117804 AAGAAAAAGAAAA-AGAAAGACGAGGAG
1 AAGAAGAAGAAAAGAGAAAGAAGAGAAA
*
12117831 GAGAAGAAGAAA
1 AAGAAGAAGAAA
12117843 CCCTCGAAGA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 21 0.64
28 12 0.36
ACGTcount: A:0.69, C:0.01, G:0.30, T:0.00
Consensus pattern (28 bp):
AAGAAGAAGAAAAGAGAAAGAAGAGAAA
Found at i:12122644 original size:34 final size:34
Alignment explanation
Indices: 12122584--12122649 Score: 80
Period size: 34 Copynumber: 1.9 Consensus size: 34
12122574 AATTTGAGCG
*
12122584 AAATATAGGGATCAAAATTGATATTTAACCATAT
1 AAATATAGGGATCAAAATTGAAATTTAACCATAT
* * *
12122618 AAAT-TAGAGGATTAAATTTGAAATTTAGCCAT
1 AAATATAG-GGATCAAAATTGAAATTTAACCAT
12122650 TATATTGTCA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 3 0.11
34 24 0.89
ACGTcount: A:0.45, C:0.08, G:0.14, T:0.33
Consensus pattern (34 bp):
AAATATAGGGATCAAAATTGAAATTTAACCATAT
Found at i:12122891 original size:94 final size:96
Alignment explanation
Indices: 12122729--12122912 Score: 255
Period size: 94 Copynumber: 1.9 Consensus size: 96
12122719 TGATTTGAGC
* * * * * *
12122729 GAAATATAGAGATTAAAACTAAAATTTAGCTATAAAAAATTAGAGGTATTAGAATTGAAATTTAG
1 GAAATATAGAGATCAAAACTAAAATTTAACCATAAAAAATTAAACGAATTAGAATTGAAATTTAG
* *
12122794 CCATTATCTTTTCATGT-AAAAAAATTGAAG
66 CCATTACCTTGTCATGTCAAAAAAATTGAAG
* * *
12122824 GAAATATAGGGATCAAAACTTAAATTTAACCAT-AAAAATTAAACGAATTAGAATTGAATTTTAG
1 GAAATATAGAGATCAAAACTAAAATTTAACCATAAAAAATTAAACGAATTAGAATTGAAATTTAG
12122888 CCATTACCTTGTCATGTCAAAAAAA
66 CCATTACCTTGTCATGTCAAAAAAA
12122913 ATAGACATGT
Statistics
Matches: 77, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
94 42 0.55
95 35 0.45
ACGTcount: A:0.47, C:0.09, G:0.12, T:0.31
Consensus pattern (96 bp):
GAAATATAGAGATCAAAACTAAAATTTAACCATAAAAAATTAAACGAATTAGAATTGAAATTTAG
CCATTACCTTGTCATGTCAAAAAAATTGAAG
Found at i:12123441 original size:17 final size:18
Alignment explanation
Indices: 12123419--12123456 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
12123409 GTAAATGATC
*
12123419 AACCCAA-ACTCATTTTA
1 AACCCAATACACATTTTA
*
12123436 AACCCAATCCACATTTTA
1 AACCCAATACACATTTTA
12123454 AAC
1 AAC
12123457 AAACCTAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.42, C:0.32, G:0.00, T:0.26
Consensus pattern (18 bp):
AACCCAATACACATTTTA
Found at i:12134148 original size:36 final size:36
Alignment explanation
Indices: 12134101--12134169 Score: 138
Period size: 36 Copynumber: 1.9 Consensus size: 36
12134091 AATAAATCAA
12134101 AACTTATGAAGATGAAGTTAGCAAGAAAAGAATGTG
1 AACTTATGAAGATGAAGTTAGCAAGAAAAGAATGTG
12134137 AACTTATGAAGATGAAGTTAGCAAGAAAAGAAT
1 AACTTATGAAGATGAAGTTAGCAAGAAAAGAAT
12134170 TCACATTCAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.49, C:0.06, G:0.23, T:0.22
Consensus pattern (36 bp):
AACTTATGAAGATGAAGTTAGCAAGAAAAGAATGTG
Found at i:12136590 original size:22 final size:21
Alignment explanation
Indices: 12136562--12136603 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
12136552 CAATCTCCTA
12136562 TTTTTATTTTCAAGAATTTAAT
1 TTTTTATTTTCAA-AATTTAAT
*
12136584 TTTTTATTTTTAAAATTTAA
1 TTTTTATTTTCAAAATTTAA
12136604 AAATTTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (21 bp):
TTTTTATTTTCAAAATTTAAT
Found at i:12138919 original size:37 final size:37
Alignment explanation
Indices: 12138869--12138939 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
12138859 CACTTTGATG
12138869 CAAGTAAAAGCTTGAGTTTGAATAAATAAGGAACCGA
1 CAAGTAAAAGCTTGAGTTTGAATAAATAAGGAACCGA
12138906 CAAGTAAAAGCTTGAGTTTGAATAAATAAGGAAC
1 CAAGTAAAAGCTTGAGTTTGAATAAATAAGGAAC
12138940 TGAAAGTTGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.46, C:0.10, G:0.21, T:0.23
Consensus pattern (37 bp):
CAAGTAAAAGCTTGAGTTTGAATAAATAAGGAACCGA
Done.