Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 42 of 425
Found at i:11046852 original size:4 final size:4
Alignment explanation
Indices: 11046845--11046874 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
11046835 TAAACAAACA
11046845 AACT AACT AACT AACT AACT AACT AACT AA
1 AACT AACT AACT AACT AACT AACT AACT AA
11046875 ACAGGAAAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.53, C:0.23, G:0.00, T:0.23
Consensus pattern (4 bp):
AACT
Found at i:11050851 original size:7 final size:7
Alignment explanation
Indices: 11050841--11050911 Score: 88
Period size: 7 Copynumber: 10.0 Consensus size: 7
11050831 TAAAATATTA
11050841 AATTTTT
1 AATTTTT
11050848 AATTTTT
1 AATTTTT
11050855 AATTTTT
1 AATTTTT
*
11050862 TATTTTT
1 AATTTTT
11050869 AATTTTT
1 AATTTTT
*
11050876 TATTTTT
1 AATTTTT
*
11050883 ATTTTTT
1 AATTTTT
*
11050890 TATTTTT
1 AATTTTT
*
11050897 AAATTTTA
1 -AATTTTT
11050905 AATTTTT
1 AATTTTT
11050912 TTGAGGATTT
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
7 48 0.91
8 5 0.09
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (7 bp):
AATTTTT
Found at i:11050860 original size:14 final size:14
Alignment explanation
Indices: 11050841--11050903 Score: 99
Period size: 14 Copynumber: 4.4 Consensus size: 14
11050831 TAAAATATTA
*
11050841 AATTTTTAATTTTT
1 AATTTTTTATTTTT
11050855 AATTTTTTATTTTT
1 AATTTTTTATTTTT
11050869 AATTTTTTATTTTT
1 AATTTTTTATTTTT
*
11050883 ATTTTTTTATTTTT
1 AATTTTTTATTTTT
11050897 AAATTTT
1 -AATTTT
11050904 AAATTTTTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
14 40 0.89
15 5 0.11
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (14 bp):
AATTTTTTATTTTT
Found at i:11051403 original size:22 final size:21
Alignment explanation
Indices: 11051353--11051410 Score: 57
Period size: 22 Copynumber: 2.8 Consensus size: 21
11051343 TACCATAAAC
* *
11051353 CATAAA-CACTAAAACCCTAA
1 CATAAACCACTAAATCCCAAA
*
11051373 CTATCAACCACTAAATCCCAAA
1 C-ATAAACCACTAAATCCCAAA
11051395 TCATAAACC-CTAAATC
1 -CATAAACCACTAAATC
11051411 ATAAACTTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
20 1 0.03
21 11 0.35
22 18 0.58
23 1 0.03
ACGTcount: A:0.48, C:0.33, G:0.00, T:0.19
Consensus pattern (21 bp):
CATAAACCACTAAATCCCAAA
Found at i:11051559 original size:7 final size:7
Alignment explanation
Indices: 11051547--11051679 Score: 70
Period size: 7 Copynumber: 18.7 Consensus size: 7
11051537 ATTAATTAAT
11051547 CTAAACC
1 CTAAACC
11051554 CTAAACTC
1 CTAAAC-C
*
11051562 CTAATCC
1 CTAAACC
11051569 CTAAACC
1 CTAAACC
*
11051576 ATAAACC
1 CTAAACC
* *
11051583 TTAAATC
1 CTAAACC
**
11051590 CTAAAAT
1 CTAAACC
* *
11051597 ATAAGCC
1 CTAAACC
*
11051604 CTGAACC
1 CTAAACC
*
11051611 CTAACCC
1 CTAAACC
*
11051618 CTAAATC
1 CTAAACC
*
11051625 TTAAA-C
1 CTAAACC
*
11051631 CTCAACC
1 CTAAACC
11051638 CTTAAACC
1 C-TAAACC
* *
11051646 ATAATCC
1 CTAAACC
11051653 CTAAACC
1 CTAAACC
*
11051660 CATAATCC
1 C-TAAACC
*
11051668 ATAAACC
1 CTAAACC
*
11051675 TTAAA
1 CTAAA
11051680 ATAGTAACTT
Statistics
Matches: 91, Mismatches: 31, Indels: 8
0.70 0.24 0.06
Matches are distributed among these distances:
6 4 0.04
7 71 0.78
8 16 0.18
ACGTcount: A:0.42, C:0.34, G:0.02, T:0.23
Consensus pattern (7 bp):
CTAAACC
Found at i:11051662 original size:15 final size:15
Alignment explanation
Indices: 11051640--11051674 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
11051630 CCTCAACCCT
*
11051640 TAAA-CCATAATCCC
1 TAAACCCATAATCCA
11051654 TAAACCCATAATCCA
1 TAAACCCATAATCCA
11051669 TAAACC
1 TAAACC
11051675 TTAAAATAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 4 0.21
15 15 0.79
ACGTcount: A:0.46, C:0.34, G:0.00, T:0.20
Consensus pattern (15 bp):
TAAACCCATAATCCA
Found at i:11051815 original size:19 final size:19
Alignment explanation
Indices: 11051791--11051834 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
11051781 TTTTACAATT
11051791 ATATAAGAAAATATTTAAC
1 ATATAAGAAAATATTTAAC
11051810 ATATAAGAAAATATTTAAC
1 ATATAAGAAAATATTTAAC
11051829 ATATAA
1 ATATAA
11051835 ATTAAAAAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.32
Consensus pattern (19 bp):
ATATAAGAAAATATTTAAC
Found at i:11052294 original size:40 final size:40
Alignment explanation
Indices: 11052213--11052514 Score: 142
Period size: 40 Copynumber: 7.3 Consensus size: 40
11052203 AAAATTTTTT
* * * * * * *
11052213 GCGGCGTTTTTTGAAAAGCGCCGCTAAAAATCAAGCATTA
1 GCGGCGTTTTTTAAAAAGCGCTGCTAATACTCGATCTTTA
11052253 GCGGCGTTTTTTAAAAAGCGCTGCTAATACTCGATCTTTA
1 GCGGCGTTTTTTAAAAAGCGCTGCTAATACTCGATCTTTA
* * * * * * * *
11052293 GCAGCGTTTTTAAAAAAGCCACTAAAGCCACTAAAAAGTGCAAAATTTTTT
1 GCGGCGTTTTTTAAAAAG-CGCT---G---CT-AATACT-C--GATCTTTA
* * * * * * * *
11052344 GCGGCGTTTTATGAAAAGCGCCGCTAAAAATCAAGCATTA
1 GCGGCGTTTTTTAAAAAGCGCTGCTAATACTCGATCTTTA
*
11052384 GCGGCGTTTTTTAAAAAGCGCCT-CTAATACTTGATCTTTA
1 GCGGCGTTTTTTAAAAAGCG-CTGCTAATACTCGATCTTTA
* * * * * *
11052424 GCGGCGTTTTTTAGAAAGTGCAGCTAATGCTCGTTTTTTA
1 GCGGCGTTTTTTAAAAAGCGCTGCTAATACTCGATCTTTA
** * * *
11052464 GCAACG-TTTTAAGAAAAGCG-TCGCTAATGCTCGATCTATA
1 GCGGCGTTTTTTA-AAAAGCGCT-GCTAATACTCGATCTTTA
11052504 GCGGCGTTTTT
1 GCGGCGTTTTT
11052515 CATTCAAACG
Statistics
Matches: 193, Mismatches: 53, Indels: 31
0.70 0.19 0.11
Matches are distributed among these distances:
39 6 0.03
40 141 0.73
41 8 0.04
42 1 0.01
43 5 0.03
44 3 0.02
47 3 0.02
48 4 0.02
49 1 0.01
50 2 0.01
51 19 0.10
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (40 bp):
GCGGCGTTTTTTAAAAAGCGCTGCTAATACTCGATCTTTA
Found at i:11052322 original size:131 final size:132
Alignment explanation
Indices: 11052172--11052434 Score: 458
Period size: 131 Copynumber: 2.0 Consensus size: 132
11052162 GGCTTTTTAA
* *
11052172 AAAAAACGCCACTAGAGCCACCAAAAAGTGCAAAATTTTTTGCGGCGTTTTTTGAAAAGCGCCGC
1 AAAAAACGCCACTAAAGCCACCAAAAAGTGCAAAATTTTTTGCGGCGTTTTATGAAAAGCGCCGC
11052237 TAAAAATCAAGCATTAGCGGCGTTTTTTAAAAAGCG-CTGCTAATACTCGATCTTTAGCAGCGTT
66 TAAAAATCAAGCATTAGCGGCGTTTTTTAAAAAGCGCCT-CTAATACTCGATCTTTAGCAGCGTT
11052301 TTT
130 TTT
*
11052304 AAAAAA-GCCACTAAAGCCACTAAAAAGTGCAAAATTTTTTGCGGCGTTTTATGAAAAGCGCCGC
1 AAAAAACGCCACTAAAGCCACCAAAAAGTGCAAAATTTTTTGCGGCGTTTTATGAAAAGCGCCGC
* *
11052368 TAAAAATCAAGCATTAGCGGCGTTTTTTAAAAAGCGCCTCTAATACTTGATCTTTAGCGGCGTTT
66 TAAAAATCAAGCATTAGCGGCGTTTTTTAAAAAGCGCCTCTAATACTCGATCTTTAGCAGCGTTT
11052433 TT
131 TT
11052435 TAGAAAGTGC
Statistics
Matches: 125, Mismatches: 5, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
131 117 0.94
132 8 0.06
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.29
Consensus pattern (132 bp):
AAAAAACGCCACTAAAGCCACCAAAAAGTGCAAAATTTTTTGCGGCGTTTTATGAAAAGCGCCGC
TAAAAATCAAGCATTAGCGGCGTTTTTTAAAAAGCGCCTCTAATACTCGATCTTTAGCAGCGTTT
TT
Found at i:11054412 original size:3 final size:3
Alignment explanation
Indices: 11054401--11054457 Score: 50
Period size: 3 Copynumber: 20.0 Consensus size: 3
11054391 TTCTCCTCCC
* * *
11054401 TCT TAT TCT TCT TTT TC- TCT TCT TCT TCT TCT T-T TTT TCT TC- TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
11054446 TCGT T-T TCT TCT
1 TC-T TCT TCT TCT
11054458 ACTACCTAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
2 8 0.18
3 34 0.77
4 2 0.05
ACGTcount: A:0.02, C:0.26, G:0.02, T:0.70
Consensus pattern (3 bp):
TCT
Found at i:11054425 original size:14 final size:14
Alignment explanation
Indices: 11054406--11054457 Score: 58
Period size: 14 Copynumber: 3.9 Consensus size: 14
11054396 CTCCCTCTTA
*
11054406 TTCTTCTTTTTCTC
1 TTCTTCTTCTTCTC
11054420 TTCTTCTTCTTCT-
1 TTCTTCTTCTTCTC
11054433 TT-TT-TTCTTCTC
1 TTCTTCTTCTTCTC
11054445 TTCGTT-TTCTTCT
1 TTC-TTCTTCTTCT
11054458 ACTACCTAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
11 7 0.21
12 4 0.12
13 2 0.06
14 21 0.62
ACGTcount: A:0.00, C:0.27, G:0.02, T:0.71
Consensus pattern (14 bp):
TTCTTCTTCTTCTC
Found at i:11054426 original size:17 final size:18
Alignment explanation
Indices: 11054400--11054457 Score: 61
Period size: 17 Copynumber: 3.4 Consensus size: 18
11054390 CTTCTCCTCC
*
11054400 CTCTTATTCTTCTT-TTT
1 CTCTTCTTCTTCTTCTTT
11054417 CTCTTCTTCTTCTTCTTT
1 CTCTTCTTCTTCTTCTTT
*
11054435 -TTTTCTTC-TCTTCGTTT
1 CTCTTCTTCTTCTTC-TTT
11054452 -TCTTCT
1 CTCTTCT
11054458 ACTACCTAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
16 5 0.14
17 28 0.78
18 3 0.08
ACGTcount: A:0.02, C:0.28, G:0.02, T:0.69
Consensus pattern (18 bp):
CTCTTCTTCTTCTTCTTT
Found at i:11054429 original size:20 final size:20
Alignment explanation
Indices: 11054401--11054447 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
11054391 TTCTCCTCCC
*
11054401 TCTTATTCTTCTTTTTCTCT
1 TCTTCTTCTTCTTTTTCTCT
*
11054421 TCTTCTTCTTCTTTTTTTCT
1 TCTTCTTCTTCTTTTTCTCT
11054441 TC-TCTTC
1 TCTTCTTC
11054448 GTTTTCTTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.02, C:0.28, G:0.00, T:0.70
Consensus pattern (20 bp):
TCTTCTTCTTCTTTTTCTCT
Found at i:11055499 original size:14 final size:14
Alignment explanation
Indices: 11055480--11055509 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
11055470 TAAAATAAGT
11055480 AATAAAATATAGAA
1 AATAAAATATAGAA
11055494 AATAAAATATAGAA
1 AATAAAATATAGAA
11055508 AA
1 AA
11055510 AGAACAATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (14 bp):
AATAAAATATAGAA
Found at i:11055790 original size:26 final size:29
Alignment explanation
Indices: 11055760--11055815 Score: 82
Period size: 27 Copynumber: 2.0 Consensus size: 29
11055750 AAACTCTTCT
11055760 AAAAG-AAAACTC-AAGAGAA-ATTATTA
1 AAAAGAAAAACTCAAAGAGAATATTATTA
*
11055786 AAAAGAAAAACTCAAAGAGAATTTTATTA
1 AAAAGAAAAACTCAAAGAGAATATTATTA
11055815 A
1 A
11055816 CTCAAAGAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 5 0.19
27 7 0.27
28 7 0.27
29 7 0.27
ACGTcount: A:0.61, C:0.07, G:0.11, T:0.21
Consensus pattern (29 bp):
AAAAGAAAAACTCAAAGAGAATATTATTA
Found at i:11066705 original size:23 final size:23
Alignment explanation
Indices: 11066651--11066711 Score: 85
Period size: 21 Copynumber: 2.8 Consensus size: 23
11066641 GACATAGAAA
11066651 GTGCCTAAAAT--GACACACGAG
1 GTGCCTAAAATACGACACACGAG
*
11066672 GTGCCT--GATACGACACACGAG
1 GTGCCTAAAATACGACACACGAG
11066693 GTGCCTAAAATACGACACA
1 GTGCCTAAAATACGACACA
11066712 TAAAGTGCCT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
19 2 0.06
21 22 0.65
23 10 0.29
ACGTcount: A:0.36, C:0.26, G:0.23, T:0.15
Consensus pattern (23 bp):
GTGCCTAAAATACGACACACGAG
Found at i:11067125 original size:15 final size:14
Alignment explanation
Indices: 11067101--11067140 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
11067091 TATATATTAT
11067101 ATAATTCAATCAAA
1 ATAATTCAATCAAA
*
11067115 ATAATTTCAATCAAT
1 ATAA-TTCAATCAAA
11067130 ATAAATTCAAT
1 AT-AATTCAAT
11067141 AAATTCATTG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 4 0.17
15 17 0.74
16 2 0.09
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (14 bp):
ATAATTCAATCAAA
Found at i:11067512 original size:51 final size:51
Alignment explanation
Indices: 11067469--11067566 Score: 124
Period size: 51 Copynumber: 1.9 Consensus size: 51
11067459 CATCTGAAAT
* * * *
11067469 TATTACTTTGTTATTCTGGCTTCAACAAGAACTTCATATTTCATCCGGATA
1 TATTACTTTATTACTCTAGCTTCAACAAGAACTTCATATTTCATCCGAATA
* * * *
11067520 TATTACTTTATTGCTCTAGTTTCAACAGGAGCTTCATATTTCATCCG
1 TATTACTTTATTACTCTAGCTTCAACAAGAACTTCATATTTCATCCG
11067567 GATAACTTAG
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 40 1.00
ACGTcount: A:0.26, C:0.20, G:0.12, T:0.42
Consensus pattern (51 bp):
TATTACTTTATTACTCTAGCTTCAACAAGAACTTCATATTTCATCCGAATA
Found at i:11067599 original size:14 final size:14
Alignment explanation
Indices: 11067580--11067606 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
11067570 AACTTAGTTC
11067580 TGTTTTTGTTTTTT
1 TGTTTTTGTTTTTT
11067594 TGTTTTTGTTTTT
1 TGTTTTTGTTTTT
11067607 GTCCAAACTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (14 bp):
TGTTTTTGTTTTTT
Found at i:11068027 original size:2 final size:2
Alignment explanation
Indices: 11068020--11068060 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
11068010 TTTACTTGTT
*
11068020 TA TA TA TA TA TA TA TA TA GA TA TA TA TA TA TA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11068061 ATAACATTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (2 bp):
TA
Found at i:11068201 original size:31 final size:32
Alignment explanation
Indices: 11068143--11068206 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 32
11068133 CATACATTTG
*
11068143 TCATAATTTAATATATTTATTACATAAAAATC
1 TCATAATATAATATATTTATTACATAAAAATC
*
11068175 TCATAATATAAT-TATTTAATTA-ATAAATATC
1 TCATAATATAATATATTT-ATTACATAAAAATC
11068206 T
1 T
11068207 TTTATAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 14 0.48
32 15 0.52
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (32 bp):
TCATAATATAATATATTTATTACATAAAAATC
Found at i:11068216 original size:17 final size:20
Alignment explanation
Indices: 11068195--11068235 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
11068185 ATTATTTAAT
11068195 TAATAAATATCTTTT-ATAAA
1 TAATAAATATCTTTTAAT-AA
11068215 TAATAAATATCTTTTAATAA
1 TAATAAATATCTTTTAATAA
11068235 T
1 T
11068236 TAAATACATG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 18 0.90
21 2 0.10
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (20 bp):
TAATAAATATCTTTTAATAA
Found at i:11069185 original size:224 final size:224
Alignment explanation
Indices: 11068795--11069229 Score: 744
Period size: 224 Copynumber: 1.9 Consensus size: 224
11068785 AAAACCAATC
* * *
11068795 TGAGATGCTCATCGTGCTGATCTTCTGTCTTAGAATACACCAAAATGTCGTCGATGAGCACCACC
1 TGAGATGCTCATCGTGCTGATCCTCTGTCTTAGAATACACCAAAATGTCGCCGATGAGAACCACC
* *
11068860 ACAAACTAATCCAAGTAGGGCTGAAATACTCGGTTCATTAAATTCATAAATGCTGTCGGTGCATT
66 ACAAACTAAACCAAGTAGGGCTAAAATACTCGGTTCATTAAATTCATAAATGCTGTCGGTGCATT
* *
11068925 AACCAAACCAAAGGGCATAACTAGGAACTCGTAATGTCCATAGCGAGTCCTAAATGCCTTTTTAT
131 AACCAAACCAAAGGCCATAACTAGGAACTCGTAATGTCCATAGCGAGTCCTAAATGCCTTCTTAT
11068990 GCACATCAGCCTCCTTCTTAGAACCACTT
196 GCACATCAGCCTCCTTCTTAGAACCACTT
11069019 TGAGATGCTCATCGTGCTGATCCTCTGTCTTAGAATACACCAAAATGTCGCCGATGAGAACCACC
1 TGAGATGCTCATCGTGCTGATCCTCTGTCTTAGAATACACCAAAATGTCGCCGATGAGAACCACC
*
11069084 ACAAACTAAACCAGGTAGGGCTAAAATACTCGGTTCATTAAATTCATAAATGCTGTCGGTGCATT
66 ACAAACTAAACCAAGTAGGGCTAAAATACTCGGTTCATTAAATTCATAAATGCTGTCGGTGCATT
** * * *
11069149 AGTCAAGCCAAAGGCCATAACTAGGAACTCGTAATGTCTATATCGAGTCCTAAATGCCTTCTTAT
131 AACCAAACCAAAGGCCATAACTAGGAACTCGTAATGTCCATAGCGAGTCCTAAATGCCTTCTTAT
*
11069214 GCACATCGGCCTCCTT
196 GCACATCAGCCTCCTT
11069230 AACTCTCAGC
Statistics
Matches: 197, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
224 197 1.00
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.27
Consensus pattern (224 bp):
TGAGATGCTCATCGTGCTGATCCTCTGTCTTAGAATACACCAAAATGTCGCCGATGAGAACCACC
ACAAACTAAACCAAGTAGGGCTAAAATACTCGGTTCATTAAATTCATAAATGCTGTCGGTGCATT
AACCAAACCAAAGGCCATAACTAGGAACTCGTAATGTCCATAGCGAGTCCTAAATGCCTTCTTAT
GCACATCAGCCTCCTTCTTAGAACCACTT
Found at i:11088370 original size:27 final size:28
Alignment explanation
Indices: 11088308--11088375 Score: 113
Period size: 27 Copynumber: 2.5 Consensus size: 28
11088298 TTTAAAACCC
*
11088308 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
11088335 TAGGGGTAATTTCGGTAATTTT-CTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
11088362 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
11088376 TGATCTACGC
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
27 26 0.67
28 13 0.33
ACGTcount: A:0.19, C:0.10, G:0.26, T:0.44
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:11089910 original size:17 final size:17
Alignment explanation
Indices: 11089888--11089923 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
11089878 CTTCTTAGCT
*
11089888 AGAACCCCTAACTTCTA
1 AGAACCCCTAACTCCTA
11089905 AGAACCCCTAACTCCTA
1 AGAACCCCTAACTCCTA
11089922 AG
1 AG
11089924 TCTAAAATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.36, C:0.36, G:0.08, T:0.19
Consensus pattern (17 bp):
AGAACCCCTAACTCCTA
Found at i:11097982 original size:10 final size:11
Alignment explanation
Indices: 11097966--11097995 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
11097956 CCAATTTGTG
11097966 AAAAATAAAAT
1 AAAAATAAAAT
11097977 -AAAATAAAAT
1 AAAAATAAAAT
11097987 AAAAATAAA
1 AAAAATAAA
11097996 GAACACACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:11098757 original size:17 final size:17
Alignment explanation
Indices: 11098735--11098769 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
11098725 TGCATGACTC
*
11098735 GACTGCATGTGCTTCAT
1 GACTGCATGTGCTACAT
*
11098752 GACTGCTTGTGCTACAT
1 GACTGCATGTGCTACAT
11098769 G
1 G
11098770 GAGACCAGCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.17, C:0.23, G:0.26, T:0.34
Consensus pattern (17 bp):
GACTGCATGTGCTACAT
Found at i:11103761 original size:21 final size:20
Alignment explanation
Indices: 11103731--11103789 Score: 66
Period size: 23 Copynumber: 2.8 Consensus size: 20
11103721 GGTTGGTGCT
11103731 TGTTAAATTATTAAATTATA
1 TGTTAAATTATTAAATTATA
11103751 TGTTATAATTATGTTAAATTATA
1 TGTTA-AATTA--TTAAATTATA
11103774 -GTTAAAATATATTAAA
1 TGTT-AAAT-TATTAAA
11103790 ACATAAAAAC
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
20 5 0.15
21 10 0.29
22 6 0.18
23 13 0.38
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.47
Consensus pattern (20 bp):
TGTTAAATTATTAAATTATA
Found at i:11103765 original size:11 final size:10
Alignment explanation
Indices: 11103731--11103789 Score: 50
Period size: 11 Copynumber: 5.7 Consensus size: 10
11103721 GGTTGGTGCT
11103731 TGTTAAATTA
1 TGTTAAATTA
11103741 --TTAAATTATA
1 TGTTAAA-T-TA
11103751 TGTTATAATTA
1 TGTTA-AATTA
11103762 TGTTAAATTA
1 TGTTAAATTA
*
11103772 TAGTTAAAATA
1 T-GTTAAATTA
*
11103783 TATTAAA
1 TGTTAAA
11103790 ACATAAAAAC
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
8 5 0.12
9 1 0.02
10 13 0.32
11 16 0.39
12 4 0.10
13 2 0.05
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.47
Consensus pattern (10 bp):
TGTTAAATTA
Found at i:11111166 original size:20 final size:20
Alignment explanation
Indices: 11111128--11111166 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
11111118 ATGGAATCAT
*
11111128 TTAAAAGTTAATTAATTAAA
1 TTAAAAGTTAAATAATTAAA
* *
11111148 TTAAAATTTAAATATTTAA
1 TTAAAAGTTAAATAATTAA
11111167 TATGTATAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (20 bp):
TTAAAAGTTAAATAATTAAA
Found at i:11111744 original size:19 final size:18
Alignment explanation
Indices: 11111711--11111750 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
11111701 AGAGAGGGAG
11111711 AAGAGAAGAAAGAAAGAA
1 AAGAGAAGAAAGAAAGAA
11111729 AAGAGAAGAGAAGAAAGAA
1 AAGAGAAGA-AAGAAAGAA
11111748 AAG
1 AAG
11111751 GTATTATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (18 bp):
AAGAGAAGAAAGAAAGAA
Found at i:11116609 original size:26 final size:26
Alignment explanation
Indices: 11116579--11116632 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
11116569 CATTACCGTG
11116579 TAATACAATGAAGGAAATAGCGTGTC
1 TAATACAATGAAGGAAATAGCGTGTC
11116605 TAATACAATGAAGGAAATAGCGTGTC
1 TAATACAATGAAGGAAATAGCGTGTC
11116631 TA
1 TA
11116633 TTTGGGATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.43, C:0.11, G:0.22, T:0.24
Consensus pattern (26 bp):
TAATACAATGAAGGAAATAGCGTGTC
Found at i:11120401 original size:53 final size:49
Alignment explanation
Indices: 11120339--11120453 Score: 122
Period size: 49 Copynumber: 2.3 Consensus size: 49
11120329 ATCTTTTACC
* **
11120339 TACATAAAAAAAAAAATTATATTAAAATAATCAAAATAACATGCCAAATAAAT
1 TACATAAAAAAAAAAATTA-ATCAAAATAA--AAAA-AACATAACAAATAAAT
* * * * *
11120392 TACATAAAAAATAAATTTAATCAACATAAAACACACATAACAAATAAAT
1 TACATAAAAAAAAAAATTAATCAAAATAAAAAAAACATAACAAATAAAT
11120441 TACATAAAAAAAA
1 TACATAAAAAAAA
11120454 TATTCTTTGT
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
49 25 0.47
50 3 0.06
52 8 0.15
53 17 0.32
ACGTcount: A:0.65, C:0.11, G:0.01, T:0.23
Consensus pattern (49 bp):
TACATAAAAAAAAAAATTAATCAAAATAAAAAAAACATAACAAATAAAT
Found at i:11120403 original size:16 final size:16
Alignment explanation
Indices: 11120384--11120451 Score: 52
Period size: 16 Copynumber: 4.2 Consensus size: 16
11120374 ATAACATGCC
11120384 AAATAAATTACATAAA
1 AAATAAATTACATAAA
11120400 AAATAAATTTA-ATCAACA
1 AAATAAA-TTACAT-AA-A
* * *
11120418 TAAA-ACA-CACATAAC
1 -AAATAAATTACATAAA
11120433 AAATAAATTACATAAA
1 AAATAAATTACATAAA
11120449 AAA
1 AAA
11120452 AATATTCTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 14
0.66 0.10 0.24
Matches are distributed among these distances:
14 3 0.08
15 2 0.05
16 21 0.54
17 7 0.18
18 3 0.08
19 3 0.08
ACGTcount: A:0.66, C:0.12, G:0.00, T:0.22
Consensus pattern (16 bp):
AAATAAATTACATAAA
Found at i:11121424 original size:24 final size:24
Alignment explanation
Indices: 11121392--11121440 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
11121382 GCCCCTACAC
11121392 TTGACCACTTGTACATATTTGGTA
1 TTGACCACTTGTACATATTTGGTA
11121416 TTGACCACTTGTACATATTTGGTA
1 TTGACCACTTGTACATATTTGGTA
11121440 T
1 T
11121441 CTATTTTTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.43
Consensus pattern (24 bp):
TTGACCACTTGTACATATTTGGTA
Found at i:11121647 original size:15 final size:16
Alignment explanation
Indices: 11121605--11121648 Score: 56
Period size: 15 Copynumber: 2.8 Consensus size: 16
11121595 AAAAGATATT
*
11121605 TAAAAATATAAATTTA
1 TAAAAATATAAATCTA
11121621 TGAAAAAT-TAAA-CTA
1 T-AAAAATATAAATCTA
11121636 TAAAAATATAAAT
1 TAAAAATATAAAT
11121649 TTTCATATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
14 6 0.25
15 7 0.29
16 5 0.21
17 6 0.25
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (16 bp):
TAAAAATATAAATCTA
Found at i:11122980 original size:3 final size:3
Alignment explanation
Indices: 11122972--11123018 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
11122962 ATAATGCATT
11122972 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
11123019 TGATATATAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:11124832 original size:43 final size:43
Alignment explanation
Indices: 11124752--11124897 Score: 123
Period size: 43 Copynumber: 3.4 Consensus size: 43
11124742 AGATTATATA
* * ** *
11124752 TAAGACCATGTCTGGGACATTGGTAT-TATATTGTGATTACGTG
1 TAAGACCATGTCTGGGACATTAGCATCGGTA-TATGATTACGTG
* * **
11124795 TAAGACCGTGTCTGGGACATTAGCATCGTTATATGATTTTGTG
1 TAAGACCATGTCTGGGACATTAGCATCGGTATATGATTACGTG
* * * * ** *
11124838 TAAGACCACGTCTGAGACGTTGGCATCGGTATATGAAAACATG
1 TAAGACCATGTCTGGGACATTAGCATCGGTATATGATTACGTG
*
11124881 TAAGACCATATCTGGGA
1 TAAGACCATGTCTGGGA
11124898 TATGGTATTG
Statistics
Matches: 80, Mismatches: 22, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
43 78 0.98
44 2 0.03
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (43 bp):
TAAGACCATGTCTGGGACATTAGCATCGGTATATGATTACGTG
Found at i:11127691 original size:45 final size:45
Alignment explanation
Indices: 11127641--11127733 Score: 186
Period size: 45 Copynumber: 2.1 Consensus size: 45
11127631 AAATTCTGTG
11127641 AATGTTGGCAAAATTTCATGCTTTGATTTTGTCATTTGTGAGTGA
1 AATGTTGGCAAAATTTCATGCTTTGATTTTGTCATTTGTGAGTGA
11127686 AATGTTGGCAAAATTTCATGCTTTGATTTTGTCATTTGTGAGTGA
1 AATGTTGGCAAAATTTCATGCTTTGATTTTGTCATTTGTGAGTGA
11127731 AAT
1 AAT
11127734 TATGAAATAG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.26, C:0.09, G:0.22, T:0.44
Consensus pattern (45 bp):
AATGTTGGCAAAATTTCATGCTTTGATTTTGTCATTTGTGAGTGA
Found at i:11127970 original size:26 final size:25
Alignment explanation
Indices: 11127927--11128032 Score: 169
Period size: 26 Copynumber: 4.2 Consensus size: 25
11127917 TGATACAAAT
11127927 TGATAATGGTTAGGTAAATGTTCCA
1 TGATAATGGTTAGGTAAATGTTCCA
*
11127952 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGG-TTAGGTAAATGTTCCA
11127978 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAAT-GGTTAGGTAAATGTTCCA
11128004 TGATAATGGTTTAGGTAAATGTT-CA
1 TGATAATGG-TTAGGTAAATGTTCCA
11128029 TGAT
1 TGAT
11128033 GAGAATTTCA
Statistics
Matches: 76, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
25 17 0.22
26 57 0.75
27 2 0.03
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.37
Consensus pattern (25 bp):
TGATAATGGTTAGGTAAATGTTCCA
Found at i:11134974 original size:26 final size:26
Alignment explanation
Indices: 11134945--11135052 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
11134935 TGATACAAAT
11134945 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
11134971 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
11134997 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
11135023 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
11135049 TGAT
1 TGAT
11135053 GGAATTTCAT
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:11137837 original size:68 final size:69
Alignment explanation
Indices: 11137744--11137894 Score: 186
Period size: 68 Copynumber: 2.2 Consensus size: 69
11137734 TTTTTATATG
* *
11137744 TCAAATAT--TTACTTTTTTCAAGTACATTGTGGGTCTTATAAATTCTAATATTAT-AAA-AA-T
1 TCAAATATAATTA-TTTTTTCAAGTACATTGTGGGTATGATAAA-TCTAAT-TTATAAAACAATT
11137804 AATTATT
63 AATTATT
* * *
11137811 TCAAATATAATTATTTTTTCACGTACATTGTGTGTATGGTAAATCTAATTTATAAAATCAATTAA
1 TCAAATATAATTATTTTTTCAAGTACATTGTGGGTATGATAAATCTAATTTATAAAA-CAATTAA
11137876 TTATT
65 TTATT
11137881 TCAAATATAATTAT
1 TCAAATATAATTAT
11137895 ATTTAGTAAA
Statistics
Matches: 73, Mismatches: 5, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
66 4 0.05
67 17 0.23
68 25 0.34
69 5 0.07
70 22 0.30
ACGTcount: A:0.38, C:0.09, G:0.07, T:0.46
Consensus pattern (69 bp):
TCAAATATAATTATTTTTTCAAGTACATTGTGGGTATGATAAATCTAATTTATAAAACAATTAAT
TATT
Found at i:11138812 original size:32 final size:32
Alignment explanation
Indices: 11138771--11138838 Score: 136
Period size: 32 Copynumber: 2.1 Consensus size: 32
11138761 AATGCAAACA
11138771 TAAAGAAAATAAAAGATATAATTATGGACCAC
1 TAAAGAAAATAAAAGATATAATTATGGACCAC
11138803 TAAAGAAAATAAAAGATATAATTATGGACCAC
1 TAAAGAAAATAAAAGATATAATTATGGACCAC
11138835 TAAA
1 TAAA
11138839 AGTGGGAACA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.57, C:0.09, G:0.12, T:0.22
Consensus pattern (32 bp):
TAAAGAAAATAAAAGATATAATTATGGACCAC
Found at i:11153558 original size:47 final size:47
Alignment explanation
Indices: 11153445--11153615 Score: 171
Period size: 47 Copynumber: 3.7 Consensus size: 47
11153435 CGCCCATAAG
* *
11153445 CGAACTCGGACTCAACTCAACGAGCTCGG--G-C-GTTCGCATCCATA
1 CGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTT-ACATCCATA
*
11153489 GTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTC-T-
1 -CGAACTCGGACTCAACTCAACGAGTTCGGATGCC-AGTTACATC-CATA
* *
11153537 CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTTGCATCCATAA
1 CGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTACATCCAT-A
*
11153582 GTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 -CGAACTCGGACTCAACTCAACGAGTTCGGATGC
11153616 TCAAATCCTA
Statistics
Matches: 106, Mismatches: 7, Indels: 22
0.79 0.05 0.16
Matches are distributed among these distances:
42 1 0.01
43 8 0.08
44 1 0.01
45 27 0.25
46 29 0.27
47 30 0.28
48 1 0.01
49 5 0.05
50 4 0.04
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (47 bp):
CGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTACATCCATA
Found at i:11153613 original size:93 final size:92
Alignment explanation
Indices: 11153445--11153615 Score: 297
Period size: 92 Copynumber: 1.8 Consensus size: 92
11153435 CGCCCATAAG
* *
11153445 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAGTGAACTCGGACTCAACTCAA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAGTGAACTCGGACTCAACTCAA
11153510 CGAGTTCGGATGCCTAGTTACATCTCT
66 CGAGTTCGGATGCCTAGTTACATCTCT
* *
11153537 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCAT-AGTGAACTCGGACTCAACTCA
11153602 ACGAGTTCGGATGC
65 ACGAGTTCGGATGC
11153616 TCAAATCCTA
Statistics
Matches: 74, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
92 39 0.53
93 35 0.47
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (92 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCT
Found at i:11156025 original size:30 final size:29
Alignment explanation
Indices: 11155981--11156048 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 29
11155971 CAAAGATAAC
*
11155981 AAGAAAACCGAATAAAGAAATCCA-AGATA
1 AAGAAACCCGAATAAAGAAATCCAGA-ATA
*
11156010 GAGAAACCCGGAATAAAGAAATCCAGAATA
1 AAGAAACCC-GAATAAAGAAATCCAGAATA
11156040 AAGAAACCC
1 AAGAAACCC
11156049 AAGATACGAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 7 0.21
30 26 0.76
31 1 0.03
ACGTcount: A:0.57, C:0.18, G:0.16, T:0.09
Consensus pattern (29 bp):
AAGAAACCCGAATAAAGAAATCCAGAATA
Found at i:11156029 original size:15 final size:14
Alignment explanation
Indices: 11155981--11156048 Score: 64
Period size: 15 Copynumber: 4.6 Consensus size: 14
11155971 CAAAGATAAC
*
11155981 AAGAAAACCGAATA
1 AAGAAACCCGAATA
* *
11155995 AAGAAATCCAAGATA
1 AAGAAACCCGA-ATA
*
11156010 GAGAAACCCGGAATA
1 AAGAAACCC-GAATA
*
11156025 AAGAAATCCAGAATA
1 AAGAAA-CCCGAATA
11156040 AAGAAACCC
1 AAGAAACCC
11156049 AAGATACGAT
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
14 11 0.26
15 29 0.67
16 3 0.07
ACGTcount: A:0.57, C:0.18, G:0.16, T:0.09
Consensus pattern (14 bp):
AAGAAACCCGAATA
Found at i:11159041 original size:46 final size:45
Alignment explanation
Indices: 11158974--11159148 Score: 183
Period size: 46 Copynumber: 3.8 Consensus size: 45
11158964 TGTAACCCGC
* * * *
11158974 CCATAAGCGAACTTGGACTCAACTCAACGAGCTCAGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GGCATTCGCAT
* *
11159020 CCATAGGTGAACTCGGACTCAACTCAACGAGTTCGG-ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGCATTCGC-A--T
* *** *
11159066 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGG-CATTCGCAT
11159113 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
11159149 ATGCTCAACA
Statistics
Matches: 106, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 63 0.59
47 33 0.31
49 3 0.03
50 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGCATTCGCAT
Found at i:11159140 original size:93 final size:93
Alignment explanation
Indices: 11158981--11159152 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
11158971 CGCCCATAAG
* * *
11158981 CGAACTTGGACTCAACTCAACGAGCTCAGGCGTTCGCATCCATAGGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
11159046 ACGAGTTCGGATGCCTAGTTACATCTCT
66 ACGAGTTCGGATGCCTAGTTACATCTCT
* *
11159074 CGAACTCGGACTCAACTCAACGAGTTC-GGACATTTGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTCAGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTC
11159138 AACGAGTTCGGATGC
65 AACGAGTTCGGATGC
11159153 TCAACAATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCT
Found at i:11159168 original size:46 final size:45
Alignment explanation
Indices: 11158982--11159168 Score: 136
Period size: 46 Copynumber: 4.0 Consensus size: 45
11158972 GCCCATAAGC
* * * * *
11158982 GAACTTGGACTCAACTCAACGAGCTCAGG-CGTTC-GCATCCATAGGT
1 GAACTCGGACTCAACTCAACGAGTTC-GGATGCTCAACATCC-TA-GT
*
11159028 GAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTACATCTCT--C
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACATC-CTAGT
***
11159075 GAACTCGGACTCAACTCAACGAGTTCGGA--CATTTGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGC-TCAACATCC-T-AGT
11159121 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACAATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAAC-ATCCTAGT
11159167 GA
1 GA
11159169 CATGTCACTT
Statistics
Matches: 112, Mismatches: 13, Indels: 32
0.71 0.08 0.20
Matches are distributed among these distances:
42 1 0.01
43 5 0.04
45 4 0.04
46 59 0.53
47 32 0.29
48 5 0.04
50 5 0.04
51 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACATCCTAGT
Found at i:11165264 original size:19 final size:17
Alignment explanation
Indices: 11165242--11165280 Score: 60
Period size: 19 Copynumber: 2.2 Consensus size: 17
11165232 AAAAATATAT
11165242 TTTATAATTTTTGAAAACA
1 TTTATAATTTTT-AAAA-A
11165261 TTTATAATTTTTAAAAA
1 TTTATAATTTTTAAAAA
11165278 TTT
1 TTT
11165281 TCTTCTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 4 0.20
18 4 0.20
19 12 0.60
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (17 bp):
TTTATAATTTTTAAAAA
Found at i:11174919 original size:20 final size:21
Alignment explanation
Indices: 11174894--11174932 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
11174884 ACACCTTGGA
11174894 TTCGAA-AAATCCCACTTTCT
1 TTCGAAGAAATCCCACTTTCT
*
11174914 TTCGAAGAAATCTCACTTT
1 TTCGAAGAAATCCCACTTT
11174933 AGATTCGAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.31, C:0.26, G:0.08, T:0.36
Consensus pattern (21 bp):
TTCGAAGAAATCCCACTTTCT
Found at i:11174943 original size:21 final size:20
Alignment explanation
Indices: 11174892--11174945 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 20
11174882 CAACACCTTG
*
11174892 GATTCGAAAAATCCCACTTT
1 GATTCGAGAAATCCCACTTT
** *
11174912 CTTTCGAAGAAATCTCACTTT
1 GATTCG-AGAAATCCCACTTT
11174933 AGATTCGAGAAAT
1 -GATTCGAGAAAT
11174946 TCTAAAAAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
20 4 0.15
21 18 0.69
22 4 0.15
ACGTcount: A:0.35, C:0.20, G:0.13, T:0.31
Consensus pattern (20 bp):
GATTCGAGAAATCCCACTTT
Found at i:11183990 original size:46 final size:46
Alignment explanation
Indices: 11183940--11184115 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
11183930 TGGTTGAGCA
11183940 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
11183986 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
11184031 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
11184079 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
11184116 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:11184096 original size:93 final size:93
Alignment explanation
Indices: 11183937--11184108 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
11183927 GGATGGTTGA
* *
11183937 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
11184002 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
11184030 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
11184095 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
11184109 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:11191626 original size:47 final size:47
Alignment explanation
Indices: 11191508--11191676 Score: 176
Period size: 46 Copynumber: 3.7 Consensus size: 47
11191498 GGATGGTTGA
*
11191508 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCGAAT
* *
11191556 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATG-TAACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCGAA-T
*
11191599 AGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-
1 --GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCGAAT
* *
11191648 -C--GCGAGCTCGTTGAGTTGAGTCCGAGTTC
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
11191677 GCTTATGGGC
Statistics
Matches: 104, Mismatches: 8, Indels: 22
0.78 0.06 0.16
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
44 26 0.25
45 3 0.03
46 30 0.29
47 29 0.28
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (47 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCGAAT
Found at i:11192931 original size:92 final size:92
Alignment explanation
Indices: 11192774--11192958 Score: 361
Period size: 92 Copynumber: 2.0 Consensus size: 92
11192764 TAGTTTTATG
11192774 AGTCTAGATTCAGGGAAAATTTACGGATCTTAATTTCGAGTTTCGTAACTCGAGATATGATTTTT
1 AGTCTAGATTCAGGGAAAATTTACGGATCTTAATTTCGAGTTTCGTAACTCGAGATATGATTTTT
*
11192839 CTTGTGACTGTGATGCAAGTAGCTTAA
66 CTTGTGACTGTGACGCAAGTAGCTTAA
11192866 AGTCTAGATTCAGGGAAAATTTACGGATCTTAATTTCGAGTTTCGTAACTCGAGATATGATTTTT
1 AGTCTAGATTCAGGGAAAATTTACGGATCTTAATTTCGAGTTTCGTAACTCGAGATATGATTTTT
11192931 CTTGTGACTGTGACGCAAGTAGCTTAA
66 CTTGTGACTGTGACGCAAGTAGCTTAA
11192958 A
1 A
11192959 AGCTGTGAAT
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
92 92 1.00
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.36
Consensus pattern (92 bp):
AGTCTAGATTCAGGGAAAATTTACGGATCTTAATTTCGAGTTTCGTAACTCGAGATATGATTTTT
CTTGTGACTGTGACGCAAGTAGCTTAA
Found at i:11198055 original size:89 final size:88
Alignment explanation
Indices: 11197936--11198112 Score: 345
Period size: 89 Copynumber: 2.0 Consensus size: 88
11197926 CGAGATAGAA
11197936 ATAATTATTTTACAATGATTTTGATGTTTATGATATGATTGCATGATTGTGTGAAAATTTCGTGA
1 ATAATTATTTTACAATGATTTTGATGTTTATGATATGATTGCATGATTGTGTGAAAATTTCGTGA
11198001 TGAAATTCTATGCCTAAAGTGCT
66 TGAAATTCTATGCCTAAAGTGCT
11198024 ATAATTATTTTTACAATGATTTTGATGTTTATGATATGATTGCATGATTGTGTGAAAATTTCGTG
1 ATAATTA-TTTTACAATGATTTTGATGTTTATGATATGATTGCATGATTGTGTGAAAATTTCGTG
11198089 ATGAAATTCTATGCCTAAAGTGCT
65 ATGAAATTCTATGCCTAAAGTGCT
11198113 TAAATTGAAA
Statistics
Matches: 88, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
88 7 0.08
89 81 0.92
ACGTcount: A:0.31, C:0.08, G:0.18, T:0.44
Consensus pattern (88 bp):
ATAATTATTTTACAATGATTTTGATGTTTATGATATGATTGCATGATTGTGTGAAAATTTCGTGA
TGAAATTCTATGCCTAAAGTGCT
Found at i:11199292 original size:46 final size:46
Alignment explanation
Indices: 11199242--11199417 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
11199232 TGGTTGAGCA
11199242 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
11199288 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
11199333 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
11199381 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
11199418 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:11199398 original size:93 final size:93
Alignment explanation
Indices: 11199239--11199410 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
11199229 GGATGGTTGA
* *
11199239 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
11199304 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
11199332 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
11199397 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
11199411 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:11206859 original size:46 final size:46
Alignment explanation
Indices: 11206809--11206982 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
11206799 TGGTTGAGCA
11206809 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
11206855 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
11206900 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-C
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
11206947 ACCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTAT
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTAT
11206983 AGGCGGGTTA
Statistics
Matches: 108, Mismatches: 10, Indels: 20
0.78 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 59 0.55
47 29 0.27
48 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:11206965 original size:93 final size:93
Alignment explanation
Indices: 11206806--11206977 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
11206796 GGATGGTTGA
**
11206806 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATCACCGAACTCGTTGAGT
11206871 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
11206899 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-CACCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATCACC-GAACTCGTTGAG
11206963 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
11206978 CTTATAGGCG
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATCACCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:11224974 original size:26 final size:26
Alignment explanation
Indices: 11224945--11225023 Score: 149
Period size: 26 Copynumber: 3.0 Consensus size: 26
11224935 TGATACAAAT
11224945 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
11224971 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
11224997 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
11225023 T
1 T
11225024 TATTGGAATT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 51 1.00
ACGTcount: A:0.30, C:0.06, G:0.27, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:11232001 original size:26 final size:26
Alignment explanation
Indices: 11231972--11232053 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
11231962 TGATACAAAT
11231972 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
11231998 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
11232024 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
11232050 TGAT
1 TGAT
11232054 GGAATTTCAT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.30, C:0.06, G:0.27, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:11242825 original size:23 final size:22
Alignment explanation
Indices: 11242773--11242825 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 22
11242763 CCCTTAATTT
* * *
11242773 TTTATTTTTTATTTTTATTAAG
1 TTTATTTTATATTTTTATAAAA
*
11242795 TTTTTTTTATAGTTTTTATAAAA
1 TTTATTTTATA-TTTTTATAAAA
11242818 TTTATTTT
1 TTTATTTT
11242826 CTATAATTAT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
22 9 0.36
23 16 0.64
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.72
Consensus pattern (22 bp):
TTTATTTTATATTTTTATAAAA
Found at i:11243392 original size:30 final size:30
Alignment explanation
Indices: 11243358--11243416 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
11243348 AATATTGTTT
11243358 TATCT-CTTTACAAATATTAAGAAATTTGTC
1 TATCTACTTTA-AAATATTAAGAAATTTGTC
* *
11243388 TATCTACTTTAATATATTAAGAATTTTGT
1 TATCTACTTTAAAATATTAAGAAATTTGT
11243417 TTTATCATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.36, C:0.10, G:0.07, T:0.47
Consensus pattern (30 bp):
TATCTACTTTAAAATATTAAGAAATTTGTC
Found at i:11244560 original size:65 final size:65
Alignment explanation
Indices: 11244441--11244572 Score: 162
Period size: 65 Copynumber: 2.0 Consensus size: 65
11244431 TCCTAAATAT
* * *
11244441 AAAAAGCTCAACAAATTTAGCCTTTCAATATTTACAAAATTTATAATTTTAGTTC-AATTTTTAA
1 AAAAACCTCAACAAATTTAGCC-TTCAACATTCACAAAATTTATAATTTTAGTTCTAA-TTTTAA
11244505 AA
64 AA
* *
11244507 AAAAACCTCAATAAATTTAGTCC-TCAACATTCACAAAATTTGTCAA-TTTAGTTCTAATTTTAA
1 AAAAACCTCAACAAATTTAG-CCTTCAACATTCACAAAATTTAT-AATTTTAGTTCTAATTTTAA
11244570 AA
64 AA
11244572 A
1 A
11244573 TATTAATAAA
Statistics
Matches: 58, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
65 34 0.59
66 22 0.38
67 2 0.03
ACGTcount: A:0.44, C:0.14, G:0.05, T:0.37
Consensus pattern (65 bp):
AAAAACCTCAACAAATTTAGCCTTCAACATTCACAAAATTTATAATTTTAGTTCTAATTTTAAAA
Found at i:11246163 original size:24 final size:23
Alignment explanation
Indices: 11246127--11246176 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
11246117 ATATCTCAAT
*
11246127 TCAATATCTCATT-TCAATCCATA
1 TCAAAATCTCATTATC-ATCCATA
*
11246150 TCAAAATCATCATTATCATTCATA
1 TCAAAATC-TCATTATCATCCATA
11246174 TCA
1 TCA
11246177 TATCAACTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 7 0.30
24 14 0.61
25 2 0.09
ACGTcount: A:0.38, C:0.24, G:0.00, T:0.38
Consensus pattern (23 bp):
TCAAAATCTCATTATCATCCATA
Found at i:11252525 original size:22 final size:22
Alignment explanation
Indices: 11252486--11252544 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
11252476 GTTTTAAGAA
*
11252486 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
11252507 TTGTTTTAATATTTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
11252529 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
11252545 GATTTATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 16 0.47
22 11 0.32
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:11252561 original size:26 final size:24
Alignment explanation
Indices: 11252515--11252573 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
11252505 ATTTGTTTTA
*
11252515 ATATTTATTTTTATGTTTTTAAAT
1 ATATTTATTTTTATATTTTTAAAT
11252539 ATATTTGATTTATTATATTTTTAAAT
1 ATATTT-ATTT-TTATATTTTTAAAT
*
11252565 -TTTTTATTT
1 ATATTTATTT
11252574 AATAAAATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 10 0.32
25 8 0.26
26 13 0.42
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (24 bp):
ATATTTATTTTTATATTTTTAAAT
Found at i:11254718 original size:27 final size:27
Alignment explanation
Indices: 11254687--11254972 Score: 319
Period size: 27 Copynumber: 10.6 Consensus size: 27
11254677 TAGTTTACCG
11254687 AATTACCAAAATACCCCTGATTTGTAA
1 AATTACCAAAATACCCCTGATTTGTAA
* * * *
11254714 AATTACTAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCCTGATTTGTAA
*
11254741 AATTACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCCTGATTTGTAA
* * **
11254768 AATTACCAAAATACCCTTGGTTTACAA
1 AATTACCAAAATACCCCTGATTTGTAA
11254795 AATTACCAAAATACCCCT-AGTTTGTAA
1 AATTACCAAAATACCCCTGA-TTTGTAA
* * * *
11254822 AATTACTAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCCTGATTTGTAA
11254849 AATTACCAAAATACCCCT-AGTTTGTAA
1 AATTACCAAAATACCCCTGA-TTTGTAA
* * *
11254876 GATTACCAAAATACCACTGGTTTGTAA
1 AATTACCAAAATACCCCTGATTTGTAA
*
11254903 AATTATCAAAATACCCCT-AGTTTCG-AA
1 AATTACCAAAATACCCCTGA-TTT-GTAA
* *
11254930 AATTACCAAAATACCCCTAATTTGTGA
1 AATTACCAAAATACCCCTGATTTGTAA
**
11254957 AATTACTGAAATACCC
1 AATTACCAAAATACCC
11254973 TCAACCTGTA
Statistics
Matches: 218, Mismatches: 33, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
26 1 0.00
27 215 0.99
28 2 0.01
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCCTGATTTGTAA
Found at i:11254823 original size:81 final size:81
Alignment explanation
Indices: 11254687--11254972 Score: 367
Period size: 81 Copynumber: 3.5 Consensus size: 81
11254677 TAGTTTACCG
* * * *
11254687 AATTACCAAAATACCCCTGATTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATTACCAAAA
1 AATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAA
11254752 TACCCCTGGTTTGTAA
66 TACCCCTGGTTTGTAA
* ** * *
11254768 AATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAA
1 AATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAA
* *
11254833 TACCCTTGGTTTATAA
66 TACCCCTGGTTTGTAA
* * * *
11254849 AATTACCAAAATACCCCTAGTTTGTAAGATTACCAAAATACCACTGGTTTGTAAAATTATCAAAA
1 AATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAA
*
11254914 TACCCCTAGTTTCG-AA
66 TACCCCTGGTTT-GTAA
** * **
11254930 AATTACCAAAATACCCCTAATTTGTGAAATTACTGAAATACCC
1 AATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCC
11254973 TCAACCTGTA
Statistics
Matches: 175, Mismatches: 29, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
81 175 1.00
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (81 bp):
AATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAA
TACCCCTGGTTTGTAA
Found at i:11254972 original size:54 final size:54
Alignment explanation
Indices: 11254687--11254945 Score: 407
Period size: 54 Copynumber: 4.8 Consensus size: 54
11254677 TAGTTTACCG
*
11254687 AATTACCAAAATACCCCT-GATTTGTAAAATTACTAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCCTAG-TTTGTAAAATTACCAAAATACCCTTGGTTTATAA
* *
11254741 AATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTACAA
1 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATAA
*
11254795 AATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATAA
* *
11254849 AATTACCAAAATACCCCTAGTTTGTAAGATTACCAAAATACCAC-TGGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACC-CTTGGTTTATAA
*
11254903 AATTATCAAAATACCCCTAGTTTCG-AAAATTACCAAAATACCC
1 AATTACCAAAATACCCCTAGTTT-GTAAAATTACCAAAATACCC
11254946 CTAATTTGTG
Statistics
Matches: 192, Mismatches: 10, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
53 1 0.01
54 188 0.98
55 3 0.02
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.31
Consensus pattern (54 bp):
AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATAA
Found at i:11255013 original size:81 final size:82
Alignment explanation
Indices: 11254687--11255020 Score: 218
Period size: 81 Copynumber: 4.1 Consensus size: 82
11254677 TAGTTTACCG
* * * **** * *
11254687 AATTACCAAAATACCCCTGATTTGTAAAATTACTAAAATACC-CTTGGTTTATAAAATTACCAAA
1 AATTACCAAAATACCCCTAATTTGTAAGATTACCAAAATACCAC-TAACCTGTAAAATTATCAAA
** *
11254751 ATACCCCT-GGTTTGTAA
65 ATACCCCTAACTTCGTAA
* ** ** * * ***
11254768 AATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTA-CTAAA
1 AATTACCAAAATACCCCTAATTTGTAAGATTACCAAAATACCACTAACCTGTAAAATTATC-AAA
*** **
11254832 ATA-CCCTTGGTTTATAA
65 ATACCCCTAACTTCGTAA
* ****
11254849 AATTACCAAAATACCCCTAGTTTGTAAGATTACCAAAATACCACTGGTTTGTAAAATTATCAAAA
1 AATTACCAAAATACCCCTAATTTGTAAGATTACCAAAATACCACTAACCTGTAAAATTATCAAAA
**
11254914 TACCCCTAGTTTCG-AA
66 TACCCCTAACTTCGTAA
** **
11254930 AATTACCAAAATACCCCTAATTTGTGAA-ATTACTGAAATACC-CTCAACCTGTAAAATTATTGA
1 AATTACCAAAATACCCCTAATTTGT-AAGATTACCAAAATACCACT-AACCTGTAAAATTATCAA
11254993 AATA-CCCTAAACTT-GTAA
64 AATACCCCT-AACTTCGTAA
11255011 AATTACCAAA
1 AATTACCAAA
11255021 GTATCATTGA
Statistics
Matches: 214, Mismatches: 30, Indels: 18
0.82 0.11 0.07
Matches are distributed among these distances:
80 12 0.06
81 191 0.89
82 11 0.05
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (82 bp):
AATTACCAAAATACCCCTAATTTGTAAGATTACCAAAATACCACTAACCTGTAAAATTATCAAAA
TACCCCTAACTTCGTAA
Found at i:11255079 original size:27 final size:27
Alignment explanation
Indices: 11254687--11255081 Score: 97
Period size: 27 Copynumber: 14.6 Consensus size: 27
11254677 TAGTTTACCG
* **
11254687 AATTACCAAAATACCC-CTGATTTGTAA
1 AATTACCGAAATACCCTC-GATTTACAA
** * * *
11254714 AATTACTAAAATACCCTTGGTTTATAA
1 AATTACCGAAATACCCTCGATTTACAA
* * **
11254741 AATTACCAAAATACCC-CTGGTTTGTAA
1 AATTACCGAAATACCCTC-GATTTACAA
* * *
11254768 AATTACCAAAATACCCTTGGTTTACAA
1 AATTACCGAAATACCCTCGATTTACAA
* * **
11254795 AATTACCAAAATACCC-CTAGTTTGTAA
1 AATTACCGAAATACCCTCGA-TTTACAA
** * * *
11254822 AATTACTAAAATACCCTTGGTTTATAA
1 AATTACCGAAATACCCTCGATTTACAA
* * **
11254849 AATTACCAAAATACCC-CTAGTTTGTAA
1 AATTACCGAAATACCCTCGA-TTTACAA
* * * **
11254876 GATTACCAAAATACCACT-GGTTTGTAA
1 AATTACCGAAATACC-CTCGATTTACAA
* * *
11254903 AATTATCAAAATACCC-CTAGTTT-CGAA
1 AATTACCGAAATACCCTCGA-TTTAC-AA
* * ***
11254930 AATTACCAAAATACCC-CTAATTTGTGA
1 AATTACCGAAATACCCTC-GATTTACAA
* * ** **
11254957 AATTACTGAAATACCCTCAACCTGTAA
1 AATTACCGAAATACCCTCGATTTACAA
** ** * **
11254984 AATTATTGAAATACCCTAAACTTGTAA
1 AATTACCGAAATACCCTCGATTTACAA
* * *
11255011 AATTACC-AAAGTATCATTGATTTACAA
1 AATTACCGAAA-TACCCTCGATTTACAA
***
11255038 AATTACCGTTTTACCCTCGATTTACAA
1 AATTACCGAAATACCCTCGATTTACAA
*
11255065 AATTATCGAAATACCCT
1 AATTACCGAAATACCCT
11255082 TGTAGGGTAG
Statistics
Matches: 288, Mismatches: 64, Indels: 32
0.75 0.17 0.08
Matches are distributed among these distances:
26 4 0.01
27 281 0.98
28 3 0.01
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (27 bp):
AATTACCGAAATACCCTCGATTTACAA
Found at i:11255095 original size:27 final size:27
Alignment explanation
Indices: 11255065--11255435 Score: 462
Period size: 27 Copynumber: 13.7 Consensus size: 27
11255055 CGATTTACAA
*
11255065 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * * *
11255092 AATTATCGAAATACCCATATAGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
11255119 AATTATCGCAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
11255146 AATTA-CGAAAAATACCCTTGTAGGGTA-
1 AATTACCG--AAATACCCTTGTAGGGTAG
* *
11255173 AATTACCGAAATACCCTTATAAGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
11255200 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
11255227 AATTATCGCAATA-CCTCTGTAGGGTAG
1 AATTACCGAAATACCCT-TGTAGGGTAG
*
11255254 AATTACCGAAATACCGC-TGTAGCGTAG
1 AATTACCGAAATACC-CTTGTAGGGTAG
*
11255281 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
11255308 AATTACTGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
11255335 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
11255362 AAATACTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
** *
11255389 AATTACTAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
11255416 AATTACCGAGATACCCTTGT
1 AATTACCGAAATACCCTTGT
11255436 GGGAAAAAAT
Statistics
Matches: 300, Mismatches: 36, Indels: 16
0.85 0.10 0.05
Matches are distributed among these distances:
26 21 0.07
27 258 0.86
28 20 0.07
29 1 0.00
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:11255738 original size:27 final size:26
Alignment explanation
Indices: 11255694--11255745 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
11255684 CTCGCTGCAA
*
11255694 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
11255721 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
11255746 GCAGCCTCGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:11255782 original size:23 final size:23
Alignment explanation
Indices: 11255756--11255800 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
11255746 GCAGCCTCGT
11255756 TGCAATCTAGTGGCCTCGCCACC
1 TGCAATCTAGTGGCCTCGCCACC
* *
11255779 TGCAATCTGGTGGCTTCGCCAC
1 TGCAATCTAGTGGCCTCGCCAC
11255801 ATATATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.16, C:0.36, G:0.24, T:0.24
Consensus pattern (23 bp):
TGCAATCTAGTGGCCTCGCCACC
Found at i:11255808 original size:2 final size:2
Alignment explanation
Indices: 11255801--11255832 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
11255791 GCTTCGCCAC
11255801 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11255833 CTGTTCTGGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11255858 original size:26 final size:27
Alignment explanation
Indices: 11255829--11255888 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
11255819 ATATATATAT
*
11255829 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
11255855 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
11255882 ATATCTG
1 ATATCTG
11255889 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:11256038 original size:6 final size:6
Alignment explanation
Indices: 11256007--11256085 Score: 72
Period size: 6 Copynumber: 12.8 Consensus size: 6
11255997 TTGCATTCAC
* * *
11256007 ATTCTG ATTTTG ATTCTG -TCACCTG ATACTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG
*
11256056 -TCACCTG ATTCTG ATTCTG ATTCTG ATTCT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCT
11256086 AGTTATGATA
Statistics
Matches: 60, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
5 2 0.03
6 50 0.83
7 6 0.10
8 2 0.03
ACGTcount: A:0.18, C:0.20, G:0.15, T:0.47
Consensus pattern (6 bp):
ATTCTG
Found at i:11256042 original size:31 final size:31
Alignment explanation
Indices: 11256007--11256085 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
11255997 TTGCATTCAC
*
11256007 ATTCTGATTTTGATTCTGTCACCTGATACTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTG
*
11256038 ATTCTGATTCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTG
11256069 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
11256086 AGTTATGATA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.18, C:0.20, G:0.15, T:0.47
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTGATACTG
Found at i:11259650 original size:18 final size:18
Alignment explanation
Indices: 11259627--11259665 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
11259617 ATTTTATGCT
*
11259627 TATAATATAATAATATAA
1 TATAATATAATAACATAA
11259645 TATAATATAATAACATAA
1 TATAATATAATAACATAA
11259663 TAT
1 TAT
11259666 CTTTTACTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (18 bp):
TATAATATAATAACATAA
Found at i:11259665 original size:13 final size:14
Alignment explanation
Indices: 11259627--11259665 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
11259617 ATTTTATGCT
11259627 TATAATATAATA-A
1 TATAATATAATATA
11259640 TATAATATAATATA
1 TATAATATAATATA
*
11259654 -ATAACATAATAT
1 TATAATATAATAT
11259666 CTTTTACTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 23 0.96
14 1 0.04
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (14 bp):
TATAATATAATATA
Found at i:11259807 original size:11 final size:11
Alignment explanation
Indices: 11259791--11259823 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
11259781 TTTAATTGAT
11259791 ATAATATAATA
1 ATAATATAATA
11259802 ATAATATAATA
1 ATAATATAATA
*
11259813 ATAAAATAATA
1 ATAATATAATA
11259824 TTTACTTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
ATAATATAATA
Found at i:11260205 original size:41 final size:41
Alignment explanation
Indices: 11260148--11260251 Score: 174
Period size: 41 Copynumber: 2.5 Consensus size: 41
11260138 TCGAGGTATT
*
11260148 CACAGGCCTGCGCACACAAGCTATTAGTTAGGATGTAGCTA
1 CACAGGCCTGCACACACAAGCTATTAGTTAGGATGTAGCTA
11260189 CACAGGCCTGCACACACAAGCTATTAGTTAGGATGTAGCTA
1 CACAGGCCTGCACACACAAGCTATTAGTTAGGATGTAGCTA
*
11260230 CACAGTG-CTGCTCACACAAGCT
1 CACAG-GCCTGCACACACAAGCT
11260252 GTAAGGTATC
Statistics
Matches: 60, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
41 59 0.98
42 1 0.02
ACGTcount: A:0.30, C:0.27, G:0.22, T:0.21
Consensus pattern (41 bp):
CACAGGCCTGCACACACAAGCTATTAGTTAGGATGTAGCTA
Found at i:11261605 original size:47 final size:47
Alignment explanation
Indices: 11261536--11261630 Score: 181
Period size: 47 Copynumber: 2.0 Consensus size: 47
11261526 ATATCTGACT
11261536 TAGCCCGACTAGTTAATAGGGTATTTAATTCACTTTCTCTATTTCAA
1 TAGCCCGACTAGTTAATAGGGTATTTAATTCACTTTCTCTATTTCAA
*
11261583 TAGCCCGACTAGTTAATAGGGTATTTAATTCACTTTCTCTGTTTCAA
1 TAGCCCGACTAGTTAATAGGGTATTTAATTCACTTTCTCTATTTCAA
11261630 T
1 T
11261631 CAATATTCAC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.41
Consensus pattern (47 bp):
TAGCCCGACTAGTTAATAGGGTATTTAATTCACTTTCTCTATTTCAA
Found at i:11263117 original size:27 final size:27
Alignment explanation
Indices: 11263069--11263224 Score: 187
Period size: 27 Copynumber: 5.8 Consensus size: 27
11263059 GTGAGGCTGC
* *
11263069 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
11263096 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
11263122 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
11263149 CAGATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
11263176 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
11263203 CAGATAATTGTGGCATAGCCAC
1 CAGAT-ATTGTGGCAGAGCCAC
11263225 AAGGACGCTT
Statistics
Matches: 114, Mismatches: 7, Indels: 16
0.83 0.05 0.12
Matches are distributed among these distances:
26 10 0.09
27 99 0.87
28 5 0.04
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:11263162 original size:54 final size:54
Alignment explanation
Indices: 11263087--11263224 Score: 242
Period size: 54 Copynumber: 2.6 Consensus size: 54
11263077 GTGACGAAGT
*
11263087 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
11263141 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
11263195 CACCAGATCAGATAATTGTGGCATAGCCAC
1 CACCAGATCAGATAATTGTGGCATAGCCAC
11263225 AAGGACGCTT
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
53 5 0.06
54 75 0.94
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.17
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:11263395 original size:28 final size:26
Alignment explanation
Indices: 11263333--11263395 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
11263323 AAAGTAACCC
** *
11263333 TAGGGGTATAATGGTAATTTTACACC
1 TAGGGGTATAACAGTAATTTTACACA
*
11263359 TAGGGGTATAACAGTAATTTTCCATACA
1 TAGGGGTATAACAGTAATTTT--ACACA
11263387 TAGGGGTAT
1 TAGGGGTAT
11263396 TCAAGTAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 19 0.61
28 12 0.39
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (26 bp):
TAGGGGTATAACAGTAATTTTACACA
Found at i:11270147 original size:27 final size:27
Alignment explanation
Indices: 11270099--11270257 Score: 175
Period size: 27 Copynumber: 5.9 Consensus size: 27
11270089 GCGAGGCTAC
* *
11270099 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
*
11270126 TAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
11270152 TAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
11270179 CAGATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
11270206 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
11270233 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
11270258 GACGCTTCCT
Statistics
Matches: 115, Mismatches: 9, Indels: 16
0.82 0.06 0.11
Matches are distributed among these distances:
26 10 0.09
27 100 0.87
28 5 0.04
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:11270192 original size:54 final size:54
Alignment explanation
Indices: 11270117--11270257 Score: 230
Period size: 54 Copynumber: 2.6 Consensus size: 54
11270107 GTGACGAAGT
* * *
11270117 CACCAGATATAGAT-ATTGTGGCAGAGCCACCAGAATAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
11270171 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
11270225 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
11270258 GACGCTTCCT
Statistics
Matches: 81, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
53 4 0.05
54 77 0.95
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:11270425 original size:28 final size:26
Alignment explanation
Indices: 11270363--11270425 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
11270353 AAAGTAACCC
** * *
11270363 TAGGGGTATAATGGTAATTTTGCACC
1 TAGGGGTATAACAGTAATTTTCCACA
11270389 TAGGGGTATAACAGTAATTTTCCATACA
1 TAGGGGTATAACAGTAATTTTCC--ACA
11270417 TAGGGGTAT
1 TAGGGGTAT
11270426 TCAAGTAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 20 0.65
28 11 0.35
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.33
Consensus pattern (26 bp):
TAGGGGTATAACAGTAATTTTCCACA
Found at i:11272020 original size:5 final size:5
Alignment explanation
Indices: 11272010--11272034 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
11272000 AATAAAAATG
11272010 TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA
11272035 AGATAATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:11272135 original size:3 final size:3
Alignment explanation
Indices: 11272129--11272263 Score: 152
Period size: 3 Copynumber: 45.3 Consensus size: 3
11272119 TAATATGATG
* * *
11272129 ATA ATA ATA GTA ATA AT- ACA ATA ATA ATA ATA A-A GTGGA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT--A ATA ATA
* * *
11272173 ATA ATA ATA AT- ATA TTA ATA AGA ATA ATA ATA ATA ATA ACA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
11272220 GAAA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
11272264 GGAATATCAA
Statistics
Matches: 111, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
2 6 0.05
3 102 0.92
4 2 0.02
5 1 0.01
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:11273424 original size:18 final size:18
Alignment explanation
Indices: 11273391--11273425 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
11273381 TAAGGTTTAG
*
11273391 TTGGGTTTGGATTTGGCT
1 TTGGGTTTGGAATTGGCT
*
11273409 TTGGGTTTGTAATTGGC
1 TTGGGTTTGGAATTGGC
11273426 AAAATTGGGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.09, C:0.06, G:0.37, T:0.49
Consensus pattern (18 bp):
TTGGGTTTGGAATTGGCT
Found at i:11275189 original size:43 final size:43
Alignment explanation
Indices: 11275059--11275202 Score: 147
Period size: 43 Copynumber: 3.3 Consensus size: 43
11275049 TTCCGATGTG
*
11275059 TGATTTCATGTAAGACCAC-GTCTGCGAC-GTTGGCATC-A-ATT
1 TGATTTCATGTAAGACC-CTGTCTGGGACAG-TGGCATCGATATT
* * *
11275100 TGAGATTTACGTGTAAGACCATGTCTAGGACA-TCGGCATCG-TATT
1 T--GATTT-CATGTAAGACCCTGTCTGGGACAGT-GGCATCGATATT
11275145 TGATTTCATGTAAGACCCTGTCTGGGACAGTGGCATCGATATT
1 TGATTTCATGTAAGACCCTGTCTGGGACAGTGGCATCGATATT
*
11275188 TGATTACATGTAAGA
1 TGATTTCATGTAAGA
11275203 TCACATCTGG
Statistics
Matches: 85, Mismatches: 8, Indels: 18
0.77 0.07 0.16
Matches are distributed among these distances:
41 1 0.01
42 27 0.32
43 30 0.35
44 23 0.27
45 4 0.05
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (43 bp):
TGATTTCATGTAAGACCCTGTCTGGGACAGTGGCATCGATATT
Found at i:11275212 original size:43 final size:42
Alignment explanation
Indices: 11275134--11275214 Score: 110
Period size: 43 Copynumber: 1.9 Consensus size: 42
11275124 CTAGGACATC
* * *
11275134 GGCATCGTATTTGATTTCATGTAAGACCCTGTCTGGGACAGT
1 GGCATCGTATTTGATTACATGTAAGACACTATCTGGGACAGT
11275176 GGCATCGATATTTGATTACATGTAAGATCAC-ATCTGGGA
1 GGCATCG-TATTTGATTACATGTAAGA-CACTATCTGGGA
11275215 TGTTGGAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
42 7 0.21
43 25 0.74
44 2 0.06
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (42 bp):
GGCATCGTATTTGATTACATGTAAGACACTATCTGGGACAGT
Found at i:11277810 original size:20 final size:20
Alignment explanation
Indices: 11277785--11277858 Score: 60
Period size: 20 Copynumber: 3.4 Consensus size: 20
11277775 CATAAGCGAA
11277785 CTCGGACTCAACTCAACGAG
1 CTCGGACTCAACTCAACGAG
*
11277805 CTCGGA-TGCCTAGTTACATCACACGAA
1 CTCGGACT--C-A---AC-TCA-ACGAG
11277832 CTCGGACTCAACTCAACGAG
1 CTCGGACTCAACTCAACGAG
11277852 CTCGGAC
1 CTCGGAC
11277859 ATTCGCATCC
Statistics
Matches: 43, Mismatches: 2, Indels: 18
0.68 0.03 0.29
Matches are distributed among these distances:
19 1 0.02
20 17 0.40
21 4 0.09
22 3 0.07
25 3 0.07
26 4 0.09
27 10 0.23
28 1 0.02
ACGTcount: A:0.28, C:0.34, G:0.20, T:0.18
Consensus pattern (20 bp):
CTCGGACTCAACTCAACGAG
Found at i:11282165 original size:86 final size:86
Alignment explanation
Indices: 11282013--11282188 Score: 253
Period size: 86 Copynumber: 2.0 Consensus size: 86
11282003 CGGGCGTGTG
* * * * * * *
11282013 GGCCCATACGGGTGAACCACATGGACGTGTGGGAATTTGGTCCAGGCTGTGTGATCTACCCAGCC
1 GGCCCATACAGGTGAACCACACGGACGTGTAGAAATTTGGGCCAGGCCGTGTGATCCACCCAGCC
*
11282078 AAGGCTGATTTGGGCCATGTA
66 AAGGCTAATTTGGGCCATGTA
* *
11282099 GGCCCATACAGGTGAACCACACGGGCGTGTAGAAATTTGGGCCAGGCCGTGTGATCCACCCGGCC
1 GGCCCATACAGGTGAACCACACGGACGTGTAGAAATTTGGGCCAGGCCGTGTGATCCACCCAGCC
*
11282164 AAGGCTAATTTGGGCCATGTG
66 AAGGCTAATTTGGGCCATGTA
11282185 GGCC
1 GGCC
11282189 ACACGGGCAT
Statistics
Matches: 79, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
86 79 1.00
ACGTcount: A:0.21, C:0.26, G:0.33, T:0.20
Consensus pattern (86 bp):
GGCCCATACAGGTGAACCACACGGACGTGTAGAAATTTGGGCCAGGCCGTGTGATCCACCCAGCC
AAGGCTAATTTGGGCCATGTA
Found at i:11285877 original size:7 final size:7
Alignment explanation
Indices: 11285865--11285899 Score: 70
Period size: 7 Copynumber: 5.0 Consensus size: 7
11285855 CATCCCCGTA
11285865 CATTTTC
1 CATTTTC
11285872 CATTTTC
1 CATTTTC
11285879 CATTTTC
1 CATTTTC
11285886 CATTTTC
1 CATTTTC
11285893 CATTTTC
1 CATTTTC
11285900 ATCACTTCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.14, C:0.29, G:0.00, T:0.57
Consensus pattern (7 bp):
CATTTTC
Found at i:11289093 original size:43 final size:43
Alignment explanation
Indices: 11289032--11289119 Score: 167
Period size: 43 Copynumber: 2.0 Consensus size: 43
11289022 GTAATCCCAC
11289032 ATTGTCTAGGAACAATCTACAAATAGATTACAAGTCTATATAT
1 ATTGTCTAGGAACAATCTACAAATAGATTACAAGTCTATATAT
*
11289075 ATTGTCTAGGAACAATCTACAAATAGGTTACAAGTCTATATAT
1 ATTGTCTAGGAACAATCTACAAATAGATTACAAGTCTATATAT
11289118 AT
1 AT
11289120 ACATATCCCA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.33
Consensus pattern (43 bp):
ATTGTCTAGGAACAATCTACAAATAGATTACAAGTCTATATAT
Found at i:11295351 original size:23 final size:23
Alignment explanation
Indices: 11295325--11295369 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
11295315 TAGGTATGTG
*
11295325 ATGACGTTATCTT-ATAAATATGC
1 ATGAAGTTATCTTGA-AAATATGC
*
11295348 ATGAATTTATCTTGAAAATATG
1 ATGAAGTTATCTTGAAAATATG
11295370 TTGAATTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATGC
Found at i:11298145 original size:28 final size:28
Alignment explanation
Indices: 11298113--11298168 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
11298103 CTAACATGGG
11298113 TAAAATTTTAAACTTCATCTTTCTTTCA
1 TAAAATTTTAAACTTCATCTTTCTTTCA
11298141 TAAAATTTTAAACTTCATCTTTCTTTCA
1 TAAAATTTTAAACTTCATCTTTCTTTCA
11298169 AGTTAGTCCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.18, G:0.00, T:0.50
Consensus pattern (28 bp):
TAAAATTTTAAACTTCATCTTTCTTTCA
Found at i:11313130 original size:52 final size:52
Alignment explanation
Indices: 11313033--11313185 Score: 159
Period size: 52 Copynumber: 2.9 Consensus size: 52
11313023 GGACCATGGC
* *
11313033 AACAAGTGATAAGTGATATTCGTA-AAGACCATAGCTGGGCTATGGCATTAGAA
1 AACAAGTGATAAGTG--ATCCGTATAAGACCATAGCTGGGCTATGGCATCAGAA
* *
11313086 AACAAGTGATAAGTGATCCGTATAAGACCATAGCTGGG-TAATGGCATCGGAG
1 AACAAGTGATAAGTGATCCGTATAAGACCATAGCTGGGCT-ATGGCATCAGAA
* * * * * *
11313138 AA-AAGTGATAAGTGCTCCTGTGTAAGACCAAATCTGAGATATGGCATC
1 AACAAGTGATAAGTGATCC-GTATAAGACCATAGCTGGGCTATGGCATC
11313186 GGTATGATAT
Statistics
Matches: 87, Mismatches: 9, Indels: 9
0.83 0.09 0.09
Matches are distributed among these distances:
51 22 0.25
52 49 0.56
53 16 0.18
ACGTcount: A:0.36, C:0.15, G:0.25, T:0.24
Consensus pattern (52 bp):
AACAAGTGATAAGTGATCCGTATAAGACCATAGCTGGGCTATGGCATCAGAA
Found at i:11314207 original size:30 final size:31
Alignment explanation
Indices: 11314164--11314222 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
11314154 GCAAGTCAGA
11314164 ATCCCACACGGGCTGGCCACACGGCCATGGG
1 ATCCCACACGGGCTGGCCACACGGCCATGGG
* *
11314195 ATCCC-CATGGGCTGGCCACACGGTCATG
1 ATCCCACACGGGCTGGCCACACGGCCATG
11314223 TCCTAGGCCA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.19, C:0.37, G:0.31, T:0.14
Consensus pattern (31 bp):
ATCCCACACGGGCTGGCCACACGGCCATGGG
Found at i:11319939 original size:24 final size:22
Alignment explanation
Indices: 11319907--11319957 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 22
11319897 ATTTTCTGTT
*
11319907 AAAAAAAAAGGTTAAAAACGAAA
1 AAAAAAAAAAGTTAAAAA-GAAA
* *
11319930 AAAAATAAAAATTTGAAAAGAAA
1 AAAAA-AAAAAGTTAAAAAGAAA
11319953 AAAAA
1 AAAAA
11319958 GGGATTTGCC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 14 0.58
24 10 0.42
ACGTcount: A:0.76, C:0.02, G:0.10, T:0.12
Consensus pattern (22 bp):
AAAAAAAAAAGTTAAAAAGAAA
Found at i:11320635 original size:21 final size:20
Alignment explanation
Indices: 11320590--11320636 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
11320580 TTTTTACTTC
*
11320590 AATAAATATTAAAAATAAAT
1 AATAAATAATAAAAATAAAT
*
11320610 TATAAATCAATAAAAATATAA-
1 AATAAAT-AATAAAAATA-AAT
11320631 AATAAA
1 AATAAA
11320637 GACAAACATA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 6 0.27
21 14 0.64
22 2 0.09
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (20 bp):
AATAAATAATAAAAATAAAT
Found at i:11320963 original size:3 final size:3
Alignment explanation
Indices: 11320957--11321015 Score: 91
Period size: 3 Copynumber: 19.7 Consensus size: 3
11320947 CCCGCCGCCC
* * *
11320957 TCT TCT TCT TTT TCT TCT TCT TCT TCT TCT TCT TTT TCT TCT TCT TTT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
11321005 TCT TCT TCT TC
1 TCT TCT TCT TC
11321016 CATGACAGCA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (3 bp):
TCT
Found at i:11320974 original size:12 final size:12
Alignment explanation
Indices: 11320957--11321014 Score: 107
Period size: 12 Copynumber: 4.8 Consensus size: 12
11320947 CCCGCCGCCC
11320957 TCTTCTTCTTTT
1 TCTTCTTCTTTT
*
11320969 TCTTCTTCTTCT
1 TCTTCTTCTTTT
11320981 TCTTCTTCTTTT
1 TCTTCTTCTTTT
11320993 TCTTCTTCTTTT
1 TCTTCTTCTTTT
11321005 TCTTCTTCTT
1 TCTTCTTCTT
11321015 CCATGACAGC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 44 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
TCTTCTTCTTTT
Found at i:11327637 original size:24 final size:24
Alignment explanation
Indices: 11327593--11327644 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
11327583 TTTCTAGATG
* *
11327593 ATTTAATATTTATTAATATAATAT
1 ATTTAACATTTATTAACATAATAT
* *
11327617 ATTTAACATTTATTAGCATAATTT
1 ATTTAACATTTATTAACATAATAT
11327641 ATTT
1 ATTT
11327645 GTACTTATAT
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:0.40, C:0.04, G:0.02, T:0.54
Consensus pattern (24 bp):
ATTTAACATTTATTAACATAATAT
Found at i:11334959 original size:44 final size:44
Alignment explanation
Indices: 11334906--11334992 Score: 110
Period size: 44 Copynumber: 2.0 Consensus size: 44
11334896 GGATGTAAGC
11334906 CAGTGTAAGAC-ATGA-CT-GGAACAT-GCATCGGCTACGAGATATGT
1 CAGTGTAAGACTAT-ACCTAGG-ACATGGCATCGG-TACG-GATATGT
11334950 CAGTGTAAGACTATACCTAGGACATGGCATCGGTACGGATATG
1 CAGTGTAAGACTATACCTAGGACATGGCATCGGTACGGATATG
11334993 CTAGAGCTAG
Statistics
Matches: 39, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
44 18 0.46
45 12 0.31
46 9 0.23
ACGTcount: A:0.31, C:0.18, G:0.28, T:0.23
Consensus pattern (44 bp):
CAGTGTAAGACTATACCTAGGACATGGCATCGGTACGGATATGT
Found at i:11336170 original size:21 final size:21
Alignment explanation
Indices: 11336144--11336193 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
11336134 TGTGGGACAC
11336144 GGGCGTGTTACCCTTCAACAA
1 GGGCGTGTTACCCTTCAACAA
* *
11336165 GGGCGTGTTACCCTTCCACAC
1 GGGCGTGTTACCCTTCAACAA
11336186 GGGCGTGT
1 GGGCGTGT
11336194 GCCCTGTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.16, C:0.30, G:0.30, T:0.24
Consensus pattern (21 bp):
GGGCGTGTTACCCTTCAACAA
Found at i:11337631 original size:24 final size:24
Alignment explanation
Indices: 11337550--11337644 Score: 95
Period size: 24 Copynumber: 3.9 Consensus size: 24
11337540 AGCCAAATAA
*
11337550 CAGAAAGCTCATGTGAGCTTGTAAT
1 CAGAAAGCTCATGTGAGCTT-AAAT
* * * *
11337575 -AGGAAGCTTAT-TCGGGCTTAATAA
1 CAGAAAGCTCATGT-GAGCTTAA-AT
11337599 CAGAAAGCTCATGTGAGCTTAAAT
1 CAGAAAGCTCATGTGAGCTTAAAT
*
11337623 CAGAAAGCTCATGTGAACTTAA
1 CAGAAAGCTCATGTGAGCTTAA
11337645 CGGGTAACTT
Statistics
Matches: 56, Mismatches: 10, Indels: 9
0.75 0.13 0.12
Matches are distributed among these distances:
23 2 0.04
24 37 0.66
25 16 0.29
26 1 0.02
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (24 bp):
CAGAAAGCTCATGTGAGCTTAAAT
Found at i:11337644 original size:49 final size:49
Alignment explanation
Indices: 11337545--11337644 Score: 123
Period size: 49 Copynumber: 2.0 Consensus size: 49
11337535 TTCCAAGCCA
* * * **
11337545 AATAACAGAAAGCTCATGTGAGCTTGTAATAGGAAGCTTATTCGGGCTT
1 AATAACAGAAAGCTCATGTGAGCTTGAAATAGAAAGCTCATTCGAACTT
11337594 AATAACAGAAAGCTCATGTGAGCTT-AAATCAGAAAGCTCATGT-GAACTT
1 AATAACAGAAAGCTCATGTGAGCTTGAAAT-AGAAAGCTCAT-TCGAACTT
11337643 AA
1 AA
11337645 CGGGTAACTT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
48 3 0.07
49 40 0.91
50 1 0.02
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (49 bp):
AATAACAGAAAGCTCATGTGAGCTTGAAATAGAAAGCTCATTCGAACTT
Found at i:11338611 original size:53 final size:53
Alignment explanation
Indices: 11338531--11338638 Score: 207
Period size: 53 Copynumber: 2.0 Consensus size: 53
11338521 AAATTTTTCT
11338531 ATGGAAACCCTAGCTAAGATAAAGAACTTCAAGCAAGCTTAATTGGGTAAGTA
1 ATGGAAACCCTAGCTAAGATAAAGAACTTCAAGCAAGCTTAATTGGGTAAGTA
*
11338584 ATGGAAACCCTAGTTAAGATAAAGAACTTCAAGCAAGCTTAATTGGGTAAGTA
1 ATGGAAACCCTAGCTAAGATAAAGAACTTCAAGCAAGCTTAATTGGGTAAGTA
11338637 AT
1 AT
11338639 CATGTCCCTT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.42, C:0.14, G:0.20, T:0.24
Consensus pattern (53 bp):
ATGGAAACCCTAGCTAAGATAAAGAACTTCAAGCAAGCTTAATTGGGTAAGTA
Found at i:11339065 original size:21 final size:21
Alignment explanation
Indices: 11339036--11339079 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
11339026 CTTTTGCCTA
* * *
11339036 GAATGTGAATTTGATTGAATT
1 GAATATGAATTTCATTAAATT
11339057 GAATATGAATTTCATTAAATT
1 GAATATGAATTTCATTAAATT
11339078 GA
1 GA
11339080 GTTAAATTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.39, C:0.02, G:0.18, T:0.41
Consensus pattern (21 bp):
GAATATGAATTTCATTAAATT
Found at i:11340913 original size:25 final size:25
Alignment explanation
Indices: 11340839--11340916 Score: 76
Period size: 25 Copynumber: 3.2 Consensus size: 25
11340829 CTCGGCCCTG
11340839 TCACATATATACACCTTCACATTCA
1 TCACATATATACACCTTCACATTCA
** *
11340864 TCACAT-T-GGCTA--TTCAGCCTT-A
1 TCACATATATAC-ACCTTCA-CATTCA
11340886 TCACATATATACACCTTCACATTCA
1 TCACATATATACACCTTCACATTCA
11340911 TCACAT
1 TCACAT
11340917 CTGCCATTAG
Statistics
Matches: 40, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 11 0.28
23 6 0.15
24 6 0.15
25 17 0.43
ACGTcount: A:0.32, C:0.31, G:0.04, T:0.33
Consensus pattern (25 bp):
TCACATATATACACCTTCACATTCA
Found at i:11340962 original size:49 final size:47
Alignment explanation
Indices: 11340788--11341104 Score: 433
Period size: 47 Copynumber: 6.7 Consensus size: 47
11340778 CCCTTCGGGA
* * * * * *
11340788 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGGC
* * *
11340835 CCTGTCACATATATACACCTTCACATTCATCACATTGGCTATTCA-GC
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATT-AGGC
11340882 CTTATCACATATATACACCTTCACATTCATCACATCT-GCCATTAGGC
1 CTTATCACATATATACACCTTCACATTCATCACAT-TGGCCATTAGGC
* *
11340929 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACCTTCACATTCATCACATTGGCCATTAGGC
11340978 CTTATCACATATATACACACTTTCACATTCATCACATTGGCCATTCA-GC
1 CTTATCACATATATACAC-C-TTCACATTCATCACATTGGCCATT-AGGC
*
11341027 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGGC
*
11341074 CTTATCACATATATACACATTCACATTCATC
1 CTTATCACATATATACACCTTCACATTCATC
11341105 GCGTAAAATC
Statistics
Matches: 242, Mismatches: 18, Indels: 20
0.86 0.06 0.07
Matches are distributed among these distances:
46 2 0.01
47 150 0.62
48 2 0.01
49 87 0.36
50 1 0.00
ACGTcount: A:0.29, C:0.31, G:0.07, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGGC
Found at i:11340985 original size:96 final size:94
Alignment explanation
Indices: 11340788--11341104 Score: 442
Period size: 96 Copynumber: 3.3 Consensus size: 94
11340778 CCCTTCGGGA
* * * * * * * *
11340788 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACAC
* *
11340853 CTTCACATTCATCACATTGGCTATTCA-GC
66 CTTCACATTCATCACATCGGCCATT-AGGC
11340882 CTTATCACATATATACACCTTCACATTCATCACATCT-GCCATTAGGCCTTATCACATATATATA
1 CTTATCACATATATACACCTTCACATTCATCACAT-TGGCCATTAGGCCTTATCAC--ATATATA
*
11340946 CACTTTCACATTCATCACATCGGCCATTAGGC
63 CACCTTCACATTCATCACATCGGCCATTAGGC
11340978 CTTATCACATATATACACACTTTCACATTCATCACATTGGCCATTCA-GCCTTATCACATATATA
1 CTTATCACATATATACAC-C-TTCACATTCATCACATTGGCCATT-AGGCCTTATCACATATATA
11341042 CACCTTCACATTCATCACATCGGCCATTAGGC
63 CACCTTCACATTCATCACATCGGCCATTAGGC
*
11341074 CTTATCACATATATACACATTCACATTCATC
1 CTTATCACATATATACACCTTCACATTCATC
11341105 GCGTAAAATC
Statistics
Matches: 202, Mismatches: 13, Indels: 16
0.87 0.06 0.07
Matches are distributed among these distances:
94 57 0.28
95 2 0.01
96 108 0.53
97 2 0.01
98 32 0.16
99 1 0.00
ACGTcount: A:0.29, C:0.31, G:0.07, T:0.32
Consensus pattern (94 bp):
CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACAC
CTTCACATTCATCACATCGGCCATTAGGC
Done.