Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 36 of 325
Found at i:10818476 original size:42 final size:42
Alignment explanation
Indices: 10818396--10818476 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 42
10818386 TGCTAAACAG
* * *
10818396 AAACCCATAAAGGTTAAACGGAAGCTCAGAGGAGCTGAACGA
1 AAACCCATAAAGGTTAAACGAAAGCTCAAAAGAGCTGAACGA
* * *
10818438 AAACCCATAACGGTTAAACTAAAGCTCAAAAGATCTGAA
1 AAACCCATAAAGGTTAAACGAAAGCTCAAAAGAGCTGAA
10818477 AAGCTCGAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.46, C:0.20, G:0.20, T:0.15
Consensus pattern (42 bp):
AAACCCATAAAGGTTAAACGAAAGCTCAAAAGAGCTGAACGA
Found at i:10820488 original size:42 final size:42
Alignment explanation
Indices: 10820429--10820509 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 42
10820419 TGCTAAACAG
* * * * *
10820429 AAACCCGTAAGGGTTAAACGGAAGCTCAGAGGAGCTGAACGA
1 AAACCCATAACGGTTAAACGAAAGCTCAAAAGAGCTGAACGA
*
10820471 AAACCCATAACGGTTAAACTAAAGCTCAAAAGAGCTGAA
1 AAACCCATAACGGTTAAACGAAAGCTCAAAAGAGCTGAA
10820510 TTGAAACCCA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.43, C:0.20, G:0.23, T:0.14
Consensus pattern (42 bp):
AAACCCATAACGGTTAAACGAAAGCTCAAAAGAGCTGAACGA
Found at i:10820517 original size:42 final size:41
Alignment explanation
Indices: 10820428--10820519 Score: 103
Period size: 42 Copynumber: 2.2 Consensus size: 41
10820418 GTGCTAAACA
* * * * *
10820428 GAAACCCGTAAGGGTTAAACGGAAGCTCAGAGGAGCTGAAC
1 GAAACCCATAACGGTTAAACGAAAGCTCAAAAGAGCTGAAC
* *
10820469 GAAAACCCATAACGGTTAAACTAAAGCTCAAAAGAGCTGAATT
1 G-AAACCCATAACGGTTAAACGAAAGCTCAAAAGAGCTGAA-C
10820512 GAAACCCA
1 GAAACCCA
10820520 GAAAGGTTGA
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
41 1 0.02
42 40 0.95
43 1 0.02
ACGTcount: A:0.42, C:0.21, G:0.23, T:0.14
Consensus pattern (41 bp):
GAAACCCATAACGGTTAAACGAAAGCTCAAAAGAGCTGAAC
Found at i:10824230 original size:27 final size:27
Alignment explanation
Indices: 10824190--10824241 Score: 88
Period size: 27 Copynumber: 1.9 Consensus size: 27
10824180 ACAATTCATT
10824190 TTAATTATATTAAAA-AATAATTTAAC
1 TTAATTATATTAAAATAATAATTTAAC
10824216 TTAATTTATATTAAAATAATAATTTA
1 TTAA-TTATATTAAAATAATAATTTA
10824242 GTTTTTTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 4 0.17
27 11 0.46
28 9 0.38
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (27 bp):
TTAATTATATTAAAATAATAATTTAAC
Found at i:10827682 original size:18 final size:18
Alignment explanation
Indices: 10827651--10827693 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
10827641 TTACATACAA
* *
10827651 TTTATTTATTTTAAATAT
1 TTTATATATATTAAATAT
*
10827669 TTTATATATATTAATTAT
1 TTTATATATATTAAATAT
10827687 TTT-TATA
1 TTTATATA
10827694 AACATTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTATATATATTAAATAT
Found at i:10827738 original size:19 final size:19
Alignment explanation
Indices: 10827716--10827804 Score: 73
Period size: 19 Copynumber: 4.8 Consensus size: 19
10827706 ACATGTAAAA
10827716 ATTATTATATATTATTTTT
1 ATTATTATATATTATTTTT
* *
10827735 ATTATTTATCATGTTATTTGT
1 ATTA-TTAT-ATATTATTTTT
*
10827756 ATT-TTAT-TA-TA-TATT
1 ATTATTATATATTATTTTT
*
10827771 -TTATTACATATTATATTTT
1 ATTATTATATATTAT-TTTT
10827790 ATTA-TATATATTATT
1 ATTATTATATATTATT
10827805 CCCTATATTA
Statistics
Matches: 54, Mismatches: 8, Indels: 17
0.68 0.10 0.22
Matches are distributed among these distances:
14 2 0.04
15 5 0.09
16 4 0.07
17 3 0.06
18 1 0.02
19 20 0.37
20 7 0.13
21 12 0.22
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (19 bp):
ATTATTATATATTATTTTT
Found at i:10827785 original size:17 final size:17
Alignment explanation
Indices: 10827765--10827798 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
10827755 TATTTTATTA
10827765 TATATTTTATTACATAT
1 TATATTTTATTACATAT
*
10827782 TATATTTTATTATATAT
1 TATATTTTATTACATAT
10827799 ATTATTCCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (17 bp):
TATATTTTATTACATAT
Found at i:10827836 original size:7 final size:7
Alignment explanation
Indices: 10827822--10827857 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
10827812 TTATCTTCAT
10827822 TTTATTA
1 TTTATTA
*
10827829 TATATTA
1 TTTATTA
10827836 TTCTATTA
1 TT-TATTA
10827844 TTTATTA
1 TTTATTA
10827851 TTTATTA
1 TTTATTA
10827858 GTACATATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
7 19 0.73
8 7 0.27
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (7 bp):
TTTATTA
Found at i:10827854 original size:29 final size:29
Alignment explanation
Indices: 10827748--10827857 Score: 75
Period size: 29 Copynumber: 3.6 Consensus size: 29
10827738 ATTTATCATG
* *
10827748 TTATTTGTATTTTATTATATATTTTATTACATA
1 TTATTTTTA-TTTATTATATA--TTATT-CCTA
10827781 TTATATTTTA-TTA-TATATATTATTCCCTA
1 TTAT-TTTTATTTATTATATATTATT-CCTA
10827810 -TATTATCTTCATTTTATTATATATTATT-CTA
1 TTATT-T-TT-A-TTTATTATATATTATTCCTA
10827841 TTATTTATTATTTATTA
1 TTATTT-TTATTTATTA
10827858 GTACATATAA
Statistics
Matches: 65, Mismatches: 4, Indels: 20
0.73 0.04 0.22
Matches are distributed among these distances:
27 1 0.02
28 4 0.06
29 17 0.26
30 2 0.03
31 12 0.18
32 10 0.15
33 15 0.23
34 4 0.06
ACGTcount: A:0.30, C:0.06, G:0.01, T:0.63
Consensus pattern (29 bp):
TTATTTTTATTTATTATATATTATTCCTA
Found at i:10828018 original size:20 final size:18
Alignment explanation
Indices: 10827987--10828041 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 18
10827977 ATATTATTAT
*
10827987 TTTTATAAATATATTAAG
1 TTTTATATATATATTAAG
* *
10828005 TTATTATATCATATAGTATG
1 TT-TTATAT-ATATATTAAG
10828025 TTTTATATATATATTAA
1 TTTTATATATATATTAA
10828042 TTGTTTAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
18 9 0.30
19 11 0.37
20 10 0.33
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (18 bp):
TTTTATATATATATTAAG
Found at i:10828046 original size:20 final size:19
Alignment explanation
Indices: 10827987--10828047 Score: 63
Period size: 20 Copynumber: 3.2 Consensus size: 19
10827977 ATATTATTAT
*
10827987 TTTTATAAATATATTAA-G
1 TTTTATATATATATTAATG
*
10828005 TTATTATATCATATAGT-ATG
1 TT-TTATAT-ATATATTAATG
10828025 TTTTATATATATATTAATTG
1 TTTTATATATATATTAA-TG
10828045 TTT
1 TTT
10828048 AAAAAATTCT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
18 8 0.23
19 13 0.37
20 14 0.40
ACGTcount: A:0.36, C:0.02, G:0.07, T:0.56
Consensus pattern (19 bp):
TTTTATATATATATTAATG
Found at i:10828397 original size:106 final size:106
Alignment explanation
Indices: 10828277--10828476 Score: 271
Period size: 106 Copynumber: 1.9 Consensus size: 106
10828267 TTGATTTAAG
* * * *
10828277 TTATATTTGCATGAAATATT-AT-TATA-TATGTAATTTATGTTGTTATATTCATTATTTTCTAT
1 TTATATCTGCATGAAAGATTAATGTATATTATATAATTTATGTTG-T-TATTCATCATTTTCTAT
* * *
10828339 GTTATATTTTGCATGAAATATTAATGCATGTATATTTATGTTAT
64 ATTATA-GTTGCATGAAATATTAAAGCATGTATATTTATGTTAT
*
10828383 TTATATCTGCATGAAAGGTTAATGTATATTATATAATTTATGTTGTTATTCATCATTTTCTATAT
1 TTATATCTGCATGAAAGATTAATGTATATTATATAATTTATGTTGTTATTCATCATTTTCTATAT
*
10828448 TATAGTTGCATGAAATGTTAAAGCATGTA
66 TATAGTTGCATGAAATATTAAAGCATGTA
10828477 GTTTATATTG
Statistics
Matches: 82, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
106 39 0.48
107 23 0.28
108 5 0.06
109 15 0.18
ACGTcount: A:0.32, C:0.06, G:0.12, T:0.50
Consensus pattern (106 bp):
TTATATCTGCATGAAAGATTAATGTATATTATATAATTTATGTTGTTATTCATCATTTTCTATAT
TATAGTTGCATGAAATATTAAAGCATGTATATTTATGTTAT
Found at i:10831803 original size:14 final size:16
Alignment explanation
Indices: 10831784--10831815 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
10831774 TTGATATCTT
10831784 TTTGCAT-TCAT-GCA
1 TTTGCATCTCATCGCA
10831798 TTTGCATCTCATCGCA
1 TTTGCATCTCATCGCA
10831814 TT
1 TT
10831816 ATATGCATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.44
15 4 0.25
16 5 0.31
ACGTcount: A:0.19, C:0.25, G:0.12, T:0.44
Consensus pattern (16 bp):
TTTGCATCTCATCGCA
Found at i:10839947 original size:44 final size:44
Alignment explanation
Indices: 10839900--10840741 Score: 1035
Period size: 44 Copynumber: 19.1 Consensus size: 44
10839890 TCTAGAAAGT
* * *
10839900 AGATTTGGTGTCTCTGTATTGACAGGGAGCAGATCAAAGATAGT
1 AGATTTGGCGTCTCTGTATTGACAGGGAGCAGATCGAAGATAGC
* *
10839944 AGATTTGGCGTCTCTGTATCGAC-GGAGAGCAGATCAAAGATAGC
1 AGATTTGGCGTCTCTGTATTGACAGG-GAGCAGATCGAAGATAGC
* * *
10839988 AGATTTGGTGTCTCTGTATTGATAGAGAGCAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTATTGACAGGGAGCAGATCGAAGATAGC
* * *
10840032 AGATTTGGCGTCTCTGTATTGATA-GAAGGCGGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTATTGACAGGGA-GCAGATCGAAGATAGC
*
10840076 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTATTGACAGGGAGCAGATCGAAGATAGC
* *
10840120 AGATTTAGCGTCTCTGTATCGACAGGGAGCAGATCGAAGAT-GAC
1 AGATTTGGCGTCTCTGTATTGACAGGGAGCAGATCGAAGATAG-C
* * *
10840164 AGATTTGGTGTCTCTGTATTGACAGAGAGCAGATTGAAGAT-GAC
1 AGATTTGGCGTCTCTGTATTGACAGGGAGCAGATCGAAGATAG-C
* * *
10840208 AGATTTGGCGTTTCTGTATTGACAGAGAGCTGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTATTGACAGGGAGCAGATCGAAGATAGC
*
10840252 AGATTTGGCGTCTCTGTATTAACAGAGGA-CAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTATTGACAG-GGAGCAGATCGAAGATAGC
* * * *
10840296 GGCTTTGGCGTCTCTATATTGACAGAGAGCAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTATTGACAGGGAGCAGATCGAAGATAGC
* *
10840340 AAATTTGGCGTCTCTGCATTGACAGAGG-GCAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTATTGACAG-GGAGCAGATCGAAGATAGC
* * *
10840384 AGATTTGGCATTTCTGTATTGACAGAGAGCAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTATTGACAGGGAGCAGATCGAAGATAGC
* * * *
10840428 AGATTTGGCATTTCTGTATCGATAGGGAGCAGATCGAAGAT-GAC
1 AGATTTGGCGTCTCTGTATTGACAGGGAGCAGATCGAAGATAG-C
* * *
10840472 AGATTTGACATCTCTGTATTGACAAGAGG-GCAGATCGAAGATAAC
1 AGATTTGGCGTCTCTGTATTGAC-AG-GGAGCAGATCGAAGATAGC
* * *
10840517 AGATTTGGCGTCTCTATATTGACAGAGAGCAGATCGAAGATAGT
1 AGATTTGGCGTCTCTGTATTGACAGGGAGCAGATCGAAGATAGC
** *
10840561 AGATTTGGCGTCTCTGTATCAAC-GGGAAGCAGATCAAAGATAGC
1 AGATTTGGCGTCTCTGTATTGACAGGG-AGCAGATCGAAGATAGC
*
10840605 AGATTTGGTGTCTCTGTATTGACAGAGG-GCAGATCGAAGAT-GAC
1 AGATTTGGCGTCTCTGTATTGACAG-GGAGCAGATCGAAGATAG-C
*
10840649 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGAT-GAC
1 AGATTTGGCGTCTCTGTATTGACAGGGAGCAGATCGAAGATAG-C
* *
10840693 AGATTTGGCATCTCTGTATT-AGCTGGGGAGCAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTATTGA-C-AGGGAGCAGATCGAAGATAGC
10840738 AGAT
1 AGAT
10840742 CTGACATTCG
Statistics
Matches: 698, Mismatches: 77, Indels: 45
0.85 0.09 0.05
Matches are distributed among these distances:
43 14 0.02
44 615 0.88
45 64 0.09
46 5 0.01
ACGTcount: A:0.30, C:0.15, G:0.29, T:0.26
Consensus pattern (44 bp):
AGATTTGGCGTCTCTGTATTGACAGGGAGCAGATCGAAGATAGC
Found at i:10842259 original size:18 final size:18
Alignment explanation
Indices: 10842228--10842270 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
10842218 TTACATACAA
* *
10842228 TTTATTTATTTTAAATAT
1 TTTATATATATTAAATAT
*
10842246 TTTATATATATTAATTAT
1 TTTATATATATTAAATAT
10842264 TTT-TATA
1 TTTATATA
10842271 AACATTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTATATATATTAAATAT
Found at i:10842349 original size:12 final size:12
Alignment explanation
Indices: 10842332--10842356 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10842322 AGGTTAGTTG
10842332 TATTTTATTATA
1 TATTTTATTATA
10842344 TATTTTATTATA
1 TATTTTATTATA
10842356 T
1 T
10842357 TTTATATTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TATTTTATTATA
Found at i:10842357 original size:17 final size:17
Alignment explanation
Indices: 10842332--10842377 Score: 67
Period size: 17 Copynumber: 2.8 Consensus size: 17
10842322 AGGTTAGTTG
*
10842332 TATTTTATTATATATTT
1 TATTATATTATATATTT
*
10842349 TATTATATTTTATATTT
1 TATTATATTATATATTT
10842366 TATTATA-TATAT
1 TATTATATTATAT
10842378 TATTCCCTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
16 4 0.15
17 22 0.85
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TATTATATTATATATTT
Found at i:10842381 original size:12 final size:11
Alignment explanation
Indices: 10842332--10842378 Score: 55
Period size: 10 Copynumber: 4.4 Consensus size: 11
10842322 AGGTTAGTTG
10842332 TATTTTATTATA
1 TATTTTA-TATA
10842344 TATTTTAT-TA
1 TATTTTATATA
10842354 TATTTTATAT-
1 TATTTTATATA
10842364 T-TTATTATATA
1 TATT-TTATATA
10842375 TATT
1 TATT
10842379 ATTCCCTATA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
9 2 0.06
10 17 0.55
11 3 0.10
12 9 0.29
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TATTTTATATA
Found at i:10842413 original size:7 final size:7
Alignment explanation
Indices: 10842399--10842434 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
10842389 TTATCTTCAT
10842399 TTTATTA
1 TTTATTA
*
10842406 TATATTA
1 TTTATTA
10842413 TTCTATTA
1 TT-TATTA
10842421 TTTATTA
1 TTTATTA
10842428 TTTATTA
1 TTTATTA
10842435 GTACATATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
7 19 0.73
8 7 0.27
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (7 bp):
TTTATTA
Found at i:10842421 original size:15 final size:14
Alignment explanation
Indices: 10842399--10842434 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
10842389 TTATCTTCAT
10842399 TTTATTATATATTA
1 TTTATTATATATTA
*
10842413 TTCTATTATTTATTA
1 TT-TATTATATATTA
10842428 TTTATTA
1 TTTATTA
10842435 GTACATATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTATTATATATTA
Found at i:10842602 original size:20 final size:18
Alignment explanation
Indices: 10842571--10842625 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 18
10842561 ATATTATTAT
*
10842571 TTTTATAAATATATTAAG
1 TTTTATATATATATTAAG
* *
10842589 TTATTATATCATATAGTATG
1 TT-TTATAT-ATATATTAAG
10842609 TTTTATATATATATTAA
1 TTTTATATATATATTAA
10842626 TCATTTAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
18 9 0.30
19 11 0.37
20 10 0.33
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (18 bp):
TTTTATATATATATTAAG
Found at i:10842695 original size:18 final size:17
Alignment explanation
Indices: 10842668--10842702 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
10842658 ATTATTTTAA
10842668 ATATTTTTTAATTATAT
1 ATATTTTTTAATTATAT
*
10842685 ATATATTTTTACTTATAT
1 ATAT-TTTTTAATTATAT
10842703 TTTATATATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (17 bp):
ATATTTTTTAATTATAT
Found at i:10845154 original size:77 final size:77
Alignment explanation
Indices: 10845024--10845172 Score: 189
Period size: 77 Copynumber: 1.9 Consensus size: 77
10845014 TAAACCACAG
* *
10845024 TAATTTAATTCAAGAAAAGAACTAAAAATAAATAAATTCGTACAAACAAAAA-TTCTATAAAAAT
1 TAATTTAATCCAAGAAAAGAACTAAAAATAAATAAAATC-TACAAACAAAAATTTCTATAAAAAT
*
10845088 TCTAAAAGGACAA
65 ACTAAAAGGACAA
*
10845101 TAATTTAATCCAAGAAAAGAAGC-AAAAATAAATAAAAT-TA-AATACAAAGAAATTTCTATAGA
1 TAATTTAATCCAAGAAAAGAA-CTAAAAATAAATAAAATCTACAA-AC-AA-AAATTTCTATAAA
10845163 AATACTAAAA
62 AATACTAAAA
10845173 AAAATTAACC
Statistics
Matches: 63, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
74 2 0.03
75 4 0.06
76 2 0.03
77 37 0.59
78 18 0.29
ACGTcount: A:0.60, C:0.09, G:0.07, T:0.24
Consensus pattern (77 bp):
TAATTTAATCCAAGAAAAGAACTAAAAATAAATAAAATCTACAAACAAAAATTTCTATAAAAATA
CTAAAAGGACAA
Found at i:10845633 original size:49 final size:48
Alignment explanation
Indices: 10845580--10845685 Score: 185
Period size: 49 Copynumber: 2.2 Consensus size: 48
10845570 AAAATAAACG
10845580 CATTAATTTAATCCAAGAAAAGAAACAAAAATAAATAAAATCATAAATA
1 CATTAATTTAATCCAAGAAAAGAAACAAAAATAAATAAAATCAT-AATA
*
10845629 CATTAATTTAATCCAAGAAAAGACACAAAAATAAATAAAATCATAATA
1 CATTAATTTAATCCAAGAAAAGAAACAAAAATAAATAAAATCATAATA
*
10845677 AATTAATTT
1 CATTAATTT
10845686 CTTAAACATA
Statistics
Matches: 55, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
48 12 0.22
49 43 0.78
ACGTcount: A:0.60, C:0.10, G:0.04, T:0.25
Consensus pattern (48 bp):
CATTAATTTAATCCAAGAAAAGAAACAAAAATAAATAAAATCATAATA
Found at i:10846558 original size:20 final size:21
Alignment explanation
Indices: 10846533--10846588 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
10846523 CTTTAAGAAA
*
10846533 ATATTTTAAGAATTTAAAA-T
1 ATATTTTAAGAATTCAAAACT
10846553 ATATTTTAAGAATATCAAAACT
1 ATATTTTAAGAAT-TCAAAACT
* *
10846575 TTATTTTAAAAATT
1 ATATTTTAAGAATT
10846589 GTTTAATTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 13 0.42
21 6 0.19
22 12 0.39
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.45
Consensus pattern (21 bp):
ATATTTTAAGAATTCAAAACT
Found at i:10846868 original size:87 final size:90
Alignment explanation
Indices: 10846698--10846912 Score: 242
Period size: 87 Copynumber: 2.4 Consensus size: 90
10846688 CTGTAAAATA
* * *
10846698 GTAT-AAATTTCAAATTTTATTTTGATTTAAAT-ATACAATTTTACTTATTTAATTAATTTTAAA
1 GTATAAAATTTCAAATTTCATTTTGATTTAAATAAAACAATATTAC-TATTTAATTAATTTTAAA
*
10846761 TTATAAAATTTTAACTGGATAACAAT
65 TTATAAAATTTTAACAGGATAACAAT
* * *
10846787 GTATAAAATTT-AAATTTCATTTTGATTTAAATAAAAGAATATT-C-ATTTAGTTATTTTTAAAT
1 GTATAAAATTTCAAATTTCATTTTGATTTAAATAAAACAATATTACTATTTAATTAATTTTAAAT
* *
10846849 TGTAAAATTTTAACAGGATAACCAT
66 TATAAAATTTTAACAGGATAACAAT
* *
10846874 GATAATGTATAAATTTCAAATTCCATTTTGACTTAAATA
1 G-T-A--TA-AAATTTCAAATTTCATTTTGATTTAAATA
10846913 CAAAATTGTA
Statistics
Matches: 107, Mismatches: 11, Indels: 12
0.82 0.08 0.09
Matches are distributed among these distances:
87 39 0.36
88 1 0.01
89 26 0.24
90 13 0.12
91 2 0.02
92 6 0.06
93 20 0.19
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.45
Consensus pattern (90 bp):
GTATAAAATTTCAAATTTCATTTTGATTTAAATAAAACAATATTACTATTTAATTAATTTTAAAT
TATAAAATTTTAACAGGATAACAAT
Found at i:10850633 original size:35 final size:35
Alignment explanation
Indices: 10850578--10850645 Score: 109
Period size: 35 Copynumber: 1.9 Consensus size: 35
10850568 ATTTTGAGAA
*
10850578 TTAACTTTCATATGCCGTTTAAAATACAATGTGAG
1 TTAACTTTCAGATGCCGTTTAAAATACAATGTGAG
* *
10850613 TTAACTTTCAGATGCTGTTTAAAATATAATGTG
1 TTAACTTTCAGATGCCGTTTAAAATACAATGTG
10850646 TCATCTGTGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.15, T:0.40
Consensus pattern (35 bp):
TTAACTTTCAGATGCCGTTTAAAATACAATGTGAG
Found at i:10859460 original size:91 final size:91
Alignment explanation
Indices: 10859277--10859518 Score: 240
Period size: 91 Copynumber: 2.7 Consensus size: 91
10859267 TAATATACAT
* *
10859277 ATTAAACATTTTAAAAGTATAAGTATCACATTGAACATATTATAAAAATATAAGTACCAAATAAT
1 ATTAAACATTTCAAAAGTATAAGTACCACATTGAACATATTATAAAAATATAAGTACCAAATAAT
*
10859342 ACATAAATTAATAGTTCACATACCAC
66 ACACAAATTAATAGTTCACATACCAC
* * * * *
10859368 ATTAAACAATTTCAAAA-TATATA-TACCACATTGCACATTTTTTGAAAGTATAAGTACCAAATA
1 ATTAAAC-ATTTCAAAAGTATA-AGTACCACATTGAACATATTATAAAAATATAAGTACCAAATA
* * * ** *
10859431 ATACACAAATTGATTGTTTAGGTATCAC
64 ATACACAAATTAATAGTTCACATACCAC
** * * * * * *
10859459 ATTGTACATTTC-AAAGAATAAGTATCACAATGGACAT-TTTTAAAAATATATGTACCAAAT
1 ATTAAACATTTCAAAAGTATAAGTACCACATTGAACATATTATAAAAATATAAGTACCAAAT
10859519 GTGATATTAT
Statistics
Matches: 124, Mismatches: 23, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
89 24 0.19
90 20 0.16
91 71 0.57
92 9 0.07
ACGTcount: A:0.46, C:0.13, G:0.08, T:0.33
Consensus pattern (91 bp):
ATTAAACATTTCAAAAGTATAAGTACCACATTGAACATATTATAAAAATATAAGTACCAAATAAT
ACACAAATTAATAGTTCACATACCAC
Found at i:10861590 original size:146 final size:145
Alignment explanation
Indices: 10861397--10861723 Score: 602
Period size: 145 Copynumber: 2.2 Consensus size: 145
10861387 GTTTCTCACA
*
10861397 TTTGCTTT-CCTAGATTTTGGCTATCTAATTGTTTCCTTTTCGAGTTTAGTTTTTTTTTTTTGGT
1 TTTGCTTTCCCTAGATTTTGGCTATCTAATTGTTTCCTTTTCAAGTTTAG-TTTTTTTTTTTGGT
10861461 GAAATTTCGAGTTTAGTTTTGATTGTTGTATACTGGAGCTGGATCTAACATGGAAATTACTTCCT
65 GAAATTTCGAGTTTAGTTTTGATTGTTGTATACTGGAGCTGGATCTAACATGGAAATTACTTCCT
10861526 CTGGTTGTTTCTGGAT
130 CTGGTTGTTTCTGGAT
10861542 TTTGCTTTCCCTAGATTTTGGCTATCTAATTGTTTCCTTTTCAAGTTTAGTTTTTTTTTTTGGTG
1 TTTGCTTTCCCTAGATTTTGGCTATCTAATTGTTTCCTTTTCAAGTTTAGTTTTTTTTTTTGGTG
*
10861607 AAATTTCGAGTTTAGTTTTGATTGTTGTATGCTGGAGCTGGATCTAACATGGAAATTACTTCCTC
66 AAATTTCGAGTTTAGTTTTGATTGTTGTATACTGGAGCTGGATCTAACATGGAAATTACTTCCTC
10861672 TGGTTGTTTCTGGAT
131 TGGTTGTTTCTGGAT
*
10861687 TTTGCTTTCCCTAGATTTTGGCTCATATAATTGTTTC
1 TTTGCTTTCCCTAGATTTTGGCT-ATCTAATTGTTTC
10861724 TTTCCATCAA
Statistics
Matches: 177, Mismatches: 3, Indels: 3
0.97 0.02 0.02
Matches are distributed among these distances:
145 125 0.71
146 52 0.29
ACGTcount: A:0.17, C:0.13, G:0.19, T:0.50
Consensus pattern (145 bp):
TTTGCTTTCCCTAGATTTTGGCTATCTAATTGTTTCCTTTTCAAGTTTAGTTTTTTTTTTTGGTG
AAATTTCGAGTTTAGTTTTGATTGTTGTATACTGGAGCTGGATCTAACATGGAAATTACTTCCTC
TGGTTGTTTCTGGAT
Found at i:10865265 original size:19 final size:19
Alignment explanation
Indices: 10865241--10865314 Score: 58
Period size: 19 Copynumber: 3.6 Consensus size: 19
10865231 GTTGAATTAC
10865241 TTAATTTAATAATTATAGT
1 TTAATTTAATAATTATAGT
* *
10865260 TTAATTTTTAAATGTAATTCTAAT
1 TTAA--TTT-AA--TAATTATAGT
**
10865284 TTTTTTTAATAATTATAGT
1 TTAATTTAATAATTATAGT
*
10865303 TCAATTTAATAA
1 TTAATTTAATAA
10865315 ATTTTAAAAT
Statistics
Matches: 41, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
19 21 0.51
21 5 0.12
22 5 0.12
24 10 0.24
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.54
Consensus pattern (19 bp):
TTAATTTAATAATTATAGT
Found at i:10865344 original size:24 final size:22
Alignment explanation
Indices: 10865308--10865360 Score: 61
Period size: 24 Copynumber: 2.3 Consensus size: 22
10865298 ATAGTTCAAT
* *
10865308 TTAATAAATTTTAAAATGTTTAAG
1 TTAAAAAAATTTAAAA-G-TTAAG
10865332 TTAAAAAAATTTAAAAGTTAAG
1 TTAAAAAAATTTAAAAGTTAAG
*
10865354 TTTAAAA
1 TTAAAAA
10865361 TATCAAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 11 0.42
23 1 0.04
24 14 0.54
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.40
Consensus pattern (22 bp):
TTAAAAAAATTTAAAAGTTAAG
Found at i:10873725 original size:12 final size:14
Alignment explanation
Indices: 10873697--10873729 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
10873687 TAGAAACAAC
10873697 AAAGAAAGAGAATA
1 AAAGAAAGAGAATA
10873711 AAAGAAAGA-AA-A
1 AAAGAAAGAGAATA
10873723 AAAGAAA
1 AAAGAAA
10873730 AAAGAAGAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 8 0.42
13 2 0.11
14 9 0.47
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (14 bp):
AAAGAAAGAGAATA
Found at i:10875421 original size:17 final size:18
Alignment explanation
Indices: 10875399--10875433 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
10875389 TTAAAGAATT
*
10875399 AAAAT-AATATTTTAATA
1 AAAATAAATATTTAAATA
10875416 AAAATAAATATTTAAATA
1 AAAATAAATATTTAAATA
10875434 CTCTTAAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
AAAATAAATATTTAAATA
Found at i:10875496 original size:27 final size:26
Alignment explanation
Indices: 10875445--10875502 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
10875435 TCTTAAAGAT
*
10875445 ATATTTTTAATATTTTATTTTATATA
1 ATATTTTTAATATTTTATTTCATATA
*
10875471 ATATTTTTTATATTTT-TTATACATATA
1 ATATTTTTAATATTTTATT-T-CATATA
10875498 ATATT
1 ATATT
10875503 AATGAAATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 2 0.07
26 16 0.57
27 10 0.36
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (26 bp):
ATATTTTTAATATTTTATTTCATATA
Found at i:10875562 original size:22 final size:21
Alignment explanation
Indices: 10875514--10875559 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
10875504 ATGAAATATT
10875514 ATTTAATTTTTTATGACCAAA
1 ATTTAATTTTTTATGACCAAA
*
10875535 ATTTAATTTTTTGTGACCAAA
1 ATTTAATTTTTTATGACCAAA
10875556 ATTT
1 ATTT
10875560 TAACACTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.35, C:0.09, G:0.07, T:0.50
Consensus pattern (21 bp):
ATTTAATTTTTTATGACCAAA
Found at i:10877365 original size:27 final size:27
Alignment explanation
Indices: 10877335--10877402 Score: 79
Period size: 27 Copynumber: 2.5 Consensus size: 27
10877325 TTTATGGTGT
10877335 AATATGAAAAG-AACG-TTTGTATGGCGC
1 AATATGAAAAGTAACGCTTTG--TGGCGC
10877362 AATATG-AAAGTAACGCCTTTGTGGCGC
1 AATATGAAAAGTAACG-CTTTGTGGCGC
10877389 AATATGAAAGAGTA
1 AATATGAAA-AGTA
10877403 TCCTTCATGG
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
26 4 0.11
27 22 0.61
28 2 0.06
29 8 0.22
ACGTcount: A:0.38, C:0.12, G:0.25, T:0.25
Consensus pattern (27 bp):
AATATGAAAAGTAACGCTTTGTGGCGC
Found at i:10878586 original size:20 final size:18
Alignment explanation
Indices: 10878539--10878587 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
10878529 CAAGATAAAC
10878539 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
10878556 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
10878576 ATTAAATTAATA
1 ATTAAATTAATA
10878588 ACATACAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:10880755 original size:26 final size:24
Alignment explanation
Indices: 10880675--10880755 Score: 74
Period size: 24 Copynumber: 3.3 Consensus size: 24
10880665 TCGCTTGAAC
* * **
10880675 CTTCCCGATATTGGCTCGTATGAG
1 CTTCCCGTTAATGGCTCACATGAG
*
10880699 CTTCCCGTTAATGGCTCACATGAA
1 CTTCCCGTTAATGGCTCACATGAG
*
10880723 CTTCCCGCTTATAT-GCTTACATGAG
1 CTTCCCG-TTA-ATGGCTCACATGAG
10880748 CATTCCCG
1 C-TTCCCG
10880756 AAAATGAATT
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
24 26 0.55
25 13 0.28
26 8 0.17
ACGTcount: A:0.20, C:0.30, G:0.19, T:0.32
Consensus pattern (24 bp):
CTTCCCGTTAATGGCTCACATGAG
Found at i:10884912 original size:36 final size:36
Alignment explanation
Indices: 10884871--10884944 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
10884861 GTTAATTAGA
10884871 TAATTAGTTTTAGTTTAAAAAATATCCTTTAATTCT
1 TAATTAGTTTTAGTTTAAAAAATATCCTTTAATTCT
10884907 TAATTAGTTTTAGTTTAAAAAATATCCTTTAATTCT
1 TAATTAGTTTTAGTTTAAAAAATATCCTTTAATTCT
10884943 TA
1 TA
10884945 GGCTAGATAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.36, C:0.08, G:0.05, T:0.50
Consensus pattern (36 bp):
TAATTAGTTTTAGTTTAAAAAATATCCTTTAATTCT
Found at i:10886325 original size:59 final size:61
Alignment explanation
Indices: 10886255--10886371 Score: 175
Period size: 62 Copynumber: 1.9 Consensus size: 61
10886245 ATCATATTAA
* * *
10886255 TATTAAATTAATATAATATTTA-T-CAAGATAAATATTAGATTAAATTTAATATTAAATCT
1 TATTAAATTAATAGAATATTTACTACAAGATAAACATTAAATTAAATTTAATATTAAATCT
*
10886314 TATTAAGTTAATAGAATATTTATCTACAAGATAAACATTAAATTAAATTTAATATTAA
1 TATTAAATTAATAGAATATTTA-CTACAAGATAAACATTAAATTAAATTTAATATTAA
10886372 GATAATCACT
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
59 20 0.39
61 1 0.02
62 30 0.59
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (61 bp):
TATTAAATTAATAGAATATTTACTACAAGATAAACATTAAATTAAATTTAATATTAAATCT
Found at i:10886397 original size:20 final size:18
Alignment explanation
Indices: 10886350--10886397 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 18
10886340 CAAGATAAAC
10886350 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
10886367 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
10886387 ATTAAATTAAT
1 ATTAAATTAAT
10886398 GAAATACAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
17 8 0.31
18 1 0.04
19 2 0.08
20 15 0.58
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:10886437 original size:17 final size:17
Alignment explanation
Indices: 10886350--10886440 Score: 59
Period size: 17 Copynumber: 5.4 Consensus size: 17
10886340 CAAGATAAAC
10886350 ATTAAATTAAATTTAAT
1 ATTAAATTAAATTTAAT
10886367 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAA--A-TTTAAT
*
10886387 ATTAAATT-AA-TGAA-
1 ATTAAATTAAATTTAAT
**
10886401 A-TACAATT-AAGGTAAGT
1 ATTA-AATTAAATTTAA-T
10886418 ATTAAATTAAATTTAAT
1 ATTAAATTAAATTTAAT
10886435 ATTAAA
1 ATTAAA
10886441 CTATTAAAAT
Statistics
Matches: 58, Mismatches: 5, Indels: 22
0.68 0.06 0.26
Matches are distributed among these distances:
13 2 0.03
14 7 0.12
15 5 0.09
17 21 0.36
18 8 0.14
19 3 0.05
20 12 0.21
ACGTcount: A:0.52, C:0.03, G:0.05, T:0.40
Consensus pattern (17 bp):
ATTAAATTAAATTTAAT
Found at i:10891322 original size:46 final size:46
Alignment explanation
Indices: 10891257--10891572 Score: 431
Period size: 46 Copynumber: 6.9 Consensus size: 46
10891247 TTATCTTTGA
* * * * * *
10891257 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTAT
* * ** * *
10891303 CAGGTTGCCATGGTATCTTTCAACCATGATCTTATTCATTCTC-GT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTAT
* *
10891348 CATGTTGTCATGGTATCTTTCAACCATGGTCTTACACATTTTATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTAT
* *
10891394 CTTGTTGCCATGGTATCTTTCAACCATGGTTTTACACA-TTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC-TAT
*
10891440 CATGTTTCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC-TAT
*
10891486 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTAT
10891532 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTT
10891573 CATTTCAGAA
Statistics
Matches: 242, Mismatches: 25, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
45 41 0.17
46 198 0.82
47 3 0.01
ACGTcount: A:0.22, C:0.22, G:0.14, T:0.42
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTAT
Found at i:10896883 original size:13 final size:14
Alignment explanation
Indices: 10896844--10896881 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
10896834 CAGTTCCCGT
*
10896844 AAAAAGAAAAAAAA
1 AAAAAGAAAAAGAA
10896858 AAAAAGAAAAAGAA
1 AAAAAGAAAAAGAA
*
10896872 AAAATGAAAA
1 AAAAAGAAAA
10896882 GACAAGAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.87, C:0.00, G:0.11, T:0.03
Consensus pattern (14 bp):
AAAAAGAAAAAGAA
Found at i:10901182 original size:13 final size:13
Alignment explanation
Indices: 10901166--10901196 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
10901156 AAAATAAGGG
10901166 AGAAAAAGAAAAA
1 AGAAAAAGAAAAA
*
10901179 AGAAAAAGAAAAT
1 AGAAAAAGAAAAA
10901192 AGAAA
1 AGAAA
10901197 GTATCTATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.03
Consensus pattern (13 bp):
AGAAAAAGAAAAA
Found at i:10909816 original size:47 final size:47
Alignment explanation
Indices: 10909747--10909839 Score: 177
Period size: 47 Copynumber: 2.0 Consensus size: 47
10909737 CAACCCTTAG
*
10909747 TACGAACTTTGGCAAAATTACCATTTTGCCCCTAAACTTTTACATAC
1 TACGAACTTTGGCAAAATTACCATTTTGCCCCTAAACTTTCACATAC
10909794 TACGAACTTTGGCAAAATTACCATTTTGCCCCTAAACTTTCACATA
1 TACGAACTTTGGCAAAATTACCATTTTGCCCCTAAACTTTCACATA
10909840 TTTTCACTTT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.32, C:0.26, G:0.09, T:0.33
Consensus pattern (47 bp):
TACGAACTTTGGCAAAATTACCATTTTGCCCCTAAACTTTCACATAC
Found at i:10917657 original size:25 final size:25
Alignment explanation
Indices: 10917629--10917686 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
10917619 TACCGATCAA
10917629 GATGCTCGAAG-GAACTATATAACAG
1 GATGCTCGAAGAGAACT-TATAACAG
**
10917654 GATGCTC-AAGAGGGCTTATAACAG
1 GATGCTCGAAGAGAACTTATAACAG
10917678 GATTGCTCG
1 GA-TGCTCG
10917687 TCCGAGCTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
24 13 0.46
25 15 0.54
ACGTcount: A:0.33, C:0.17, G:0.28, T:0.22
Consensus pattern (25 bp):
GATGCTCGAAGAGAACTTATAACAG
Found at i:10926075 original size:38 final size:38
Alignment explanation
Indices: 10926014--10926126 Score: 145
Period size: 38 Copynumber: 2.9 Consensus size: 38
10926004 ATTTGATGTG
*
10926014 TATCCGGGCTTAAAAACCCGCAGGCTTCGTGCTGGTAAAA
1 TATCCGGG-TT-AAATCCCGCAGGCTTCGTGCTGGTAAAA
**
10926054 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAAA
* * * *
10926092 TATCCGGGATAAATCCTGCAGGCCTAGTGCTGGTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
10926127 TTATATTTGG
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
38 56 0.85
39 2 0.03
40 8 0.12
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.27
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAAA
Found at i:10926127 original size:38 final size:38
Alignment explanation
Indices: 10926030--10926132 Score: 152
Period size: 38 Copynumber: 2.7 Consensus size: 38
10926020 GGCTTAAAAA
** *
10926030 CCCGCAGGCTTCGTGCTGGTAAAATATCCGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGATAAAT
10926068 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGATAAAT
1 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGATAAAT
* * *
10926106 CCTGCAGGCCTAGTGCTGGTATTATAT
1 CCCGCAGGCTTCGTGCTGGTATTATAT
10926133 TTGGGCCCTC
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 59 1.00
ACGTcount: A:0.21, C:0.23, G:0.26, T:0.29
Consensus pattern (38 bp):
CCCGCAGGCTTCGTGCTGGTATTATATCCGGGATAAAT
Found at i:10926340 original size:43 final size:43
Alignment explanation
Indices: 10926130--10926327 Score: 308
Period size: 43 Copynumber: 4.6 Consensus size: 43
10926120 GCTGGTATTA
* * *
10926130 TATTTGGGCCCTCGTGCCTAGCAGGCTTCGTGCTGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
10926173 TATTCGGGCCTTTGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* * *
10926216 TATTCGGGCCTTCGTGCCTAGTAGGCTTCATGCCGATGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
10926259 TATTCGGGCCTTCGTGCCT-GACAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAG-CAGGCTTCGTGCCGGTGATGTG
*
10926302 TATTCGAGCCTTCGTGCCTAGCAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
10926328 GTAATGCCGG
Statistics
Matches: 141, Mismatches: 12, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
42 1 0.01
43 139 0.99
44 1 0.01
ACGTcount: A:0.11, C:0.25, G:0.33, T:0.31
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:10928812 original size:26 final size:26
Alignment explanation
Indices: 10928783--10928834 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
10928773 TATGGATTTT
10928783 ATCCACTGGAGGCTTACCGATTCTAA
1 ATCCACTGGAGGCTTACCGATTCTAA
10928809 ATCCACTGGAGGCTTACCGATTCTAA
1 ATCCACTGGAGGCTTACCGATTCTAA
10928835 CATGTCCAGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (26 bp):
ATCCACTGGAGGCTTACCGATTCTAA
Found at i:10929354 original size:14 final size:14
Alignment explanation
Indices: 10929335--10929365 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
10929325 GAAACTAATC
10929335 ATATTGTCCCTTAA
1 ATATTGTCCCTTAA
10929349 ATATTGTCCCTTAA
1 ATATTGTCCCTTAA
10929363 ATA
1 ATA
10929366 GACCCTCGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.32, C:0.19, G:0.06, T:0.42
Consensus pattern (14 bp):
ATATTGTCCCTTAA
Found at i:10931124 original size:25 final size:24
Alignment explanation
Indices: 10931096--10931153 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 24
10931086 TACCGATCAA
10931096 GATGCTCGCAG-GAGCTATATAACAG
1 GATGCTCG-AGAGAGCT-TATAACAG
* *
10931121 GATGCTTGAGAGGGCTTATAACAG
1 GATGCTCGAGAGAGCTTATAACAG
10931145 GATTGCTCG
1 GA-TGCTCG
10931154 TCCAAGCTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
24 12 0.43
25 16 0.57
ACGTcount: A:0.28, C:0.17, G:0.31, T:0.24
Consensus pattern (24 bp):
GATGCTCGAGAGAGCTTATAACAG
Found at i:10932976 original size:19 final size:20
Alignment explanation
Indices: 10932952--10932990 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
10932942 AAAATATCAA
*
10932952 TTTT-AACCCTTTAAATTTT
1 TTTTAAACCCTTAAAATTTT
*
10932971 TTTTAAACTCTTAAAATTTT
1 TTTTAAACCCTTAAAATTTT
10932991 GAAATTAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.31, C:0.13, G:0.00, T:0.56
Consensus pattern (20 bp):
TTTTAAACCCTTAAAATTTT
Found at i:10936457 original size:22 final size:21
Alignment explanation
Indices: 10936409--10936453 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
10936399 CTAAAGTTTG
* *
10936409 AAATTATAAAAGAATATAAGT
1 AAATAATAAAAGAATATAAAT
10936430 AAATAATAAAACGAATA-AAAT
1 AAATAATAAAA-GAATATAAAT
10936451 AAA
1 AAA
10936454 ATAAGTGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.69, C:0.02, G:0.07, T:0.22
Consensus pattern (21 bp):
AAATAATAAAAGAATATAAAT
Found at i:10938058 original size:44 final size:44
Alignment explanation
Indices: 10938006--10938237 Score: 144
Period size: 44 Copynumber: 5.3 Consensus size: 44
10937996 TTAATCCGAC
10938006 CTACTGTAACTTTAGAGGTATAGGATTCA-TCA-TTTTAAT-TCGCT
1 CTACTGTAACTTTAGAGGTATAGGATT-AGT-AGTTTTAATCT-GCT
* *
10938050 -TCACTGTAATTTTAG-GGAGATAGGATTAGTAGTTTTAATCTGCT
1 CT-ACTGTAACTTTAGAGG-TATAGGATTAGTAGTTTTAATCTGCT
* * * *
10938094 CTACTGTAACTTTAGAGGTATAAGATT-G-ACATCTTCAACCTGCT
1 CTACTGTAACTTTAGAGGTATAGGATTAGTA-GT-TTTAATCTGCT
* * * * *
10938138 CTACTGCAACTTCAG-GGAGATAAGGTTTA-TAGCTTTAATCTGCT
1 CTACTGTAACTTTAGAGG-TAT-AGGATTAGTAGTTTTAATCTGCT
* * * * *
10938182 CTACTGCAACTTCAGAGAG-ATAAGATTTGTAGCTTTAATCTGCT
1 CTACTGTAACTTTAGAG-GTATAGGATTAGTAGTTTTAATCTGCT
10938226 -TCACTGTAACTT
1 CT-ACTGTAACTT
10938238 CAGGGAGATA
Statistics
Matches: 150, Mismatches: 21, Indels: 34
0.73 0.10 0.17
Matches are distributed among these distances:
42 1 0.01
43 14 0.09
44 124 0.83
45 9 0.06
46 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (44 bp):
CTACTGTAACTTTAGAGGTATAGGATTAGTAGTTTTAATCTGCT
Found at i:10938238 original size:44 final size:44
Alignment explanation
Indices: 10938039--10938649 Score: 385
Period size: 44 Copynumber: 13.9 Consensus size: 44
10938029 GATTCATCAT
* * * * * * *
10938039 TTTAAT-TCGCTTCACTGTAATTTTAGGGAGATAGGATTAGTAGT
1 TTTAATCT-GCTTCACTGCAACTTCAGAGAGATAAGATTTGTAGC
* * * *
10938083 TTTAATCTGC-TCTACTGTAACTTTAGAG-GTATAAGA-TTGACATC
1 TTTAATCTGCTTC-ACTGCAACTTCAGAGAG-ATAAGATTTG-TAGC
* * * * *
10938127 TTCAACCTGC-TCTACTGCAACTTCAGGGAGATAAGGTTTATAGC
1 TTTAATCTGCTTC-ACTGCAACTTCAGAGAGATAAGATTTGTAGC
10938171 TTTAATCTGC-TCTACTGCAACTTCAGAGAGATAAGATTTGTAGC
1 TTTAATCTGCTTC-ACTGCAACTTCAGAGAGATAAGATTTGTAGC
* * * *
10938215 TTTAATCTGCTTCACTGTAACTTCAGGGAGATAAGATCTGTGGC
1 TTTAATCTGCTTCACTGCAACTTCAGAGAGATAAGATTTGTAGC
*
10938259 TTTAATCTGCTCCACTGCAACTTCAGAGAGATAATG-TTCT-T---
1 TTTAATCTGCTTCACTGCAACTTCAGAGAGATAA-GATT-TGTAGC
* * * * *
10938300 TTTAACCTGCTTCTCTGCAAATTCA-AG-GAAATAGAATTAGTAGC
1 TTTAATCTGCTTCACTGCAACTTCAGAGAGATA-AG-ATTTGTAGC
* * * * *
10938344 TTTAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTGGTA-T
1 TTTAATCTGCTTCACTGCAACTTCAGAGAGATAAGATTTGTAGC
* * * * * * **
10938387 TTTCAGTATGCTCCACTGTAACTTCAGGGAGATAAGACTTGTAAT
1 TTT-AATCTGCTTCACTGCAACTTCAGAGAGATAAGATTTGTAGC
* * * * * * *
10938432 TTTCGATCTACTCCACTACAACTTCATG-GAGATAAGACTCGTA-A
1 TTT-AATCTGCTTCACTGCAACTTCA-GAGAGATAAGATTTGTAGC
* * * *
10938476 TTTCAACCTGC-TCTACTGCAACTTCAGATAGATAAGTTTTATAGC
1 TTT-AATCTGCTTC-ACTGCAACTTCAGAGAGATAAGATTTGTAGC
* *
10938521 TTTAATCTGC-TCTACTGCAACTTTAGAGAGATAAGATTTGCTATC
1 TTTAATCTGCTTC-ACTGCAACTTCAGAGAGATAAGATTTG-TAGC
* * * * * *
10938566 TTTGATCTACTCCACTGCAACTTCAGGGAGATAAGATCTGTGGC
1 TTTAATCTGCTTCACTGCAACTTCAGAGAGATAAGATTTGTAGC
* * **
10938610 TTTAATTTGCTCCACTATAACTTCAGAGAGATAAGATTTG
1 TTTAATCTGCTTCACTGCAACTTCAGAGAGATAAGATTTG
10938650 CCATAATGAC
Statistics
Matches: 451, Mismatches: 90, Indels: 52
0.76 0.15 0.09
Matches are distributed among these distances:
39 4 0.01
40 3 0.01
41 24 0.05
43 10 0.02
44 321 0.71
45 84 0.19
46 5 0.01
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.35
Consensus pattern (44 bp):
TTTAATCTGCTTCACTGCAACTTCAGAGAGATAAGATTTGTAGC
Found at i:10938509 original size:89 final size:89
Alignment explanation
Indices: 10938348--10938511 Score: 202
Period size: 89 Copynumber: 1.8 Consensus size: 89
10938338 AGTAGCTTTA
* * * * * * ** *
10938348 ATCTGCTCCACTGCAACTTTAGGGAGATAAGATTGGTATTTTCAGTATGCTCCACTGTAACTTCA
1 ATCTACTCCACTACAACTTCAGGGAGATAAGACTCGTAATTTCAACATGCTCCACTGCAACTTCA
*
10938413 GGGAGATAAGACTTGTAATTTTCG
66 GAGAGATAAGACTTGTAATTTTCG
* * *
10938437 ATCTACTCCACTACAACTTCATGGAGATAAGACTCGTAATTTCAACCTGCTCTACTGCAACTTCA
1 ATCTACTCCACTACAACTTCAGGGAGATAAGACTCGTAATTTCAACATGCTCCACTGCAACTTCA
*
10938502 GATAGATAAG
66 GAGAGATAAG
10938512 TTTTATAGCT
Statistics
Matches: 61, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
89 61 1.00
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (89 bp):
ATCTACTCCACTACAACTTCAGGGAGATAAGACTCGTAATTTCAACATGCTCCACTGCAACTTCA
GAGAGATAAGACTTGTAATTTTCG
Found at i:10938621 original size:133 final size:132
Alignment explanation
Indices: 10938063--10938649 Score: 471
Period size: 133 Copynumber: 4.5 Consensus size: 132
10938053 CTGTAATTTT
* * * * * *
10938063 AGGGAGATAGGAT-TAGTAGTTTTAATCTGCTCTACTGTAACTTTAGAG-GTATAAGA-TTGACA
1 AGGGAGATAAGATCTAGTAGCTTTAATCTGCTCCACTGCAACTTCAGAGAG-ATAAGATTTG-TA
* * * * * * * * * *
10938125 TCTTCAACCTGCTCTACTGCAACTTCAGGGAGATAAGGTTTATAGCTTTAATCTGCTCTACTGCA
64 GCTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTCTA-TTTTAATCTACTCCACTGCA
10938190 ACTTC
128 ACTTC
* * * * * * *
10938195 AGAGAGATAAGAT-TTGTAGCTTTAATCTGCTTCACTGTAACTTCAGGGAGATAAGATCTGTGGC
1 AGGGAGATAAGATCTAGTAGCTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTAGC
* * * * *
10938259 TTTAATCTGCTCCACTGCAACTTCAGAGAGAT-A-ATGTTCT-TTTTAACCTGCTTCTCTGCAAA
66 TTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGAT-TTCTATTTTAATCTACTCCACTGCAAC
10938321 TTC
130 TTC
* * * * *
10938324 AAGGAAAT-AGAAT-TAGTAGCTTTAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTGGTA-
1 AGGGAGATAAG-ATCTAGTAGCTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTAG
* * * * * * * * *
10938386 TTTTCAGTATGCTCCACTGTAACTTCAGGGAGATAAGACTTGTAATTTTCGATCTACTCCACTAC
65 CTTT-AATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTCT-ATTTT-AATCTACTCCACTGC
10938451 AACTTC
127 AACTTC
* * * * * * * *
10938457 ATGGAGATAAGA-CTCGTA-ATTTCAACCTGCTCTACTGCAACTTCAGATAGATAAGTTTTATAG
1 AGGGAGATAAGATCTAGTAGCTTT-AATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTAG
* * *
10938520 CTTTAATCTGCTCTACTGCAACTTTAGAGAGATAAGATTTGCTATCTTTGATCTACTCCACTGCA
65 CTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTT-CTAT-TTTAATCTACTCCACTGCA
10938585 ACTTC
128 ACTTC
* * **
10938590 AGGGAGATAAGATCT-GTGGCTTTAATTTGCTCCACTATAACTTCAGAGAGATAAGATTTG
1 AGGGAGATAAGATCTAGTAGCTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTG
10938650 CCATAATGAC
Statistics
Matches: 356, Mismatches: 81, Indels: 35
0.75 0.17 0.07
Matches are distributed among these distances:
128 5 0.01
129 93 0.26
130 5 0.01
131 5 0.01
132 82 0.23
133 152 0.43
134 14 0.04
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (132 bp):
AGGGAGATAAGATCTAGTAGCTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTAGC
TTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTCTATTTTAATCTACTCCACTGCAACT
TC
Found at i:10947294 original size:13 final size:13
Alignment explanation
Indices: 10947272--10947304 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
10947262 AAGGGTTTGT
10947272 TTAT-TAAACTAA
1 TTATCTAAACTAA
10947284 TTATCTAAACTAA
1 TTATCTAAACTAA
*
10947297 TTAACTAA
1 TTATCTAA
10947305 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:10951604 original size:40 final size:40
Alignment explanation
Indices: 10951549--10951630 Score: 155
Period size: 40 Copynumber: 2.0 Consensus size: 40
10951539 TGACTAAACT
*
10951549 AAGGGTGTACAGAGAGAAAATTGGGAAAAAGCTTTTGGGA
1 AAGGGTGCACAGAGAGAAAATTGGGAAAAAGCTTTTGGGA
10951589 AAGGGTGCACAGAGAGAAAATTGGGAAAAAGCTTTTGGGA
1 AAGGGTGCACAGAGAGAAAATTGGGAAAAAGCTTTTGGGA
10951629 AA
1 AA
10951631 ACTCGATTGA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.41, C:0.06, G:0.34, T:0.18
Consensus pattern (40 bp):
AAGGGTGCACAGAGAGAAAATTGGGAAAAAGCTTTTGGGA
Found at i:10955989 original size:16 final size:17
Alignment explanation
Indices: 10955957--10955989 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
10955947 TTTGCAGTGT
10955957 GCCATATCTGTTACATG
1 GCCATATCTGTTACATG
*
10955974 GCCATAT-TGTTTCATG
1 GCCATATCTGTTACATG
10955990 AAGGCCTATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.21, C:0.21, G:0.18, T:0.39
Consensus pattern (17 bp):
GCCATATCTGTTACATG
Found at i:10960905 original size:22 final size:21
Alignment explanation
Indices: 10960857--10960901 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
10960847 CTAAAGTTTG
* *
10960857 AAATTATAAAAGAATATAAGT
1 AAATAATAAAAGAATATAAAT
10960878 AAATAATAAAACGAATA-AAAT
1 AAATAATAAAA-GAATATAAAT
10960899 AAA
1 AAA
10960902 ATAAGTGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.69, C:0.02, G:0.07, T:0.22
Consensus pattern (21 bp):
AAATAATAAAAGAATATAAAT
Found at i:10961809 original size:22 final size:21
Alignment explanation
Indices: 10961762--10961809 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
10961752 ATCGTTTTTA
*
10961762 TTTTGTATTTCAATCTTCTAT
1 TTTTGTATTTCAATCTACTAT
*
10961783 GTTTGTATGTTCGAATC-ACTAT
1 TTTTGTAT-TTC-AATCTACTAT
10961805 TTTTG
1 TTTTG
10961810 ATGCTTAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
21 7 0.32
22 11 0.50
23 4 0.18
ACGTcount: A:0.19, C:0.12, G:0.12, T:0.56
Consensus pattern (21 bp):
TTTTGTATTTCAATCTACTAT
Found at i:10966205 original size:19 final size:18
Alignment explanation
Indices: 10966170--10966211 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
10966160 TTATCATGTA
*
10966170 TTCAAT-TTTTAATTAAT
1 TTCAATATTTTAAATAAT
10966187 TTCAATATTTTAAAATAAT
1 TTCAATATTTT-AAATAAT
10966206 TT-AATA
1 TTCAATA
10966212 ATACTTAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 6 0.27
18 8 0.36
19 8 0.36
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (18 bp):
TTCAATATTTTAAATAAT
Found at i:10973278 original size:15 final size:15
Alignment explanation
Indices: 10973248--10973288 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 15
10973238 ATGAGTCTTC
10973248 AAAAATAAATAGAAAAT
1 AAAAAT-AA-AGAAAAT
*
10973265 AAAAGTAAAGAAAAT
1 AAAAATAAAGAAAAT
10973280 AAAAATAAA
1 AAAAATAAA
10973289 ATGAGTTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 15 0.68
16 2 0.09
17 5 0.23
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.15
Consensus pattern (15 bp):
AAAAATAAAGAAAAT
Found at i:10985764 original size:16 final size:16
Alignment explanation
Indices: 10985743--10985774 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
10985733 AACTTTTCAG
10985743 TACACATACTCTGCCT
1 TACACATACTCTGCCT
10985759 TACACATACTCTGCCT
1 TACACATACTCTGCCT
10985775 CTGAACAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.38, G:0.06, T:0.31
Consensus pattern (16 bp):
TACACATACTCTGCCT
Found at i:10988067 original size:50 final size:50
Alignment explanation
Indices: 10987992--10988168 Score: 282
Period size: 50 Copynumber: 3.5 Consensus size: 50
10987982 CCATGGCAAC
*
10987992 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGATAAGTGA
1 AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGATAAGTGA
*
10988042 AAGTGATAAGTAATAGTTTCGGCTACACTTATCTGATCAAGGATAAGTGA
1 AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGATAAGTGA
* *
10988092 AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGATAAGTGA
* **
10988142 CAAGTGAAAAGTGGTAGCTTCGGCTAC
1 -AAGTGATAAGTAATAGCTTCGGCTAC
10988169 CTGATTAGTG
Statistics
Matches: 118, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
50 95 0.81
51 23 0.19
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (50 bp):
AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGATAAGTGA
Found at i:10988182 original size:31 final size:31
Alignment explanation
Indices: 10988144--10988354 Score: 296
Period size: 31 Copynumber: 6.8 Consensus size: 31
10988134 ACAAATGACA
*
10988144 AGTGAAAAGTGGTAGCTTCGGCTACCTGATT
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
10988175 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
** * * *
10988206 AGTGAAAAGTGGTAGCTTCTACTGCATGATA
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
10988237 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * *
10988268 AGTGAAAAATGGTAGCTCCGACTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * *
10988299 AATGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
10988330 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
10988355 AAGTGACAAG
Statistics
Matches: 160, Mismatches: 20, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 160 1.00
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:10988548 original size:49 final size:48
Alignment explanation
Indices: 10988376--10988545 Score: 195
Period size: 47 Copynumber: 3.6 Consensus size: 48
10988366 AATTTCCGTA
* * * * *
10988376 TAAGACCATATCTGGGATATGGCATCG-GTGTGATATATG-CTACTGTA
1 TAAGACCATAGCTGGGATATGGCATCGAATGTGATATGTGATTAC-GTG
* * *
10988423 TAAGACCATATCTGGGATATGGCATC-AGTGAGATATGTGATT-CGTG
1 TAAGACCATAGCTGGGATATGGCATCGAATGTGATATGTGATTACGTG
*
10988469 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTACGTG
1 TAAGACCATAGCTGGGATATGGCATCGA-ATGTGATATGTGATTACGTG
* *
10988518 TAAGACCATAGCTGGGCTATGACATCGA
1 TAAGACCATAGCTGGGATATGGCATCGA
10988546 TATATGAAGA
Statistics
Matches: 109, Mismatches: 9, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
46 26 0.24
47 38 0.35
48 14 0.13
49 31 0.28
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.29
Consensus pattern (48 bp):
TAAGACCATAGCTGGGATATGGCATCGAATGTGATATGTGATTACGTG
Found at i:10997876 original size:17 final size:19
Alignment explanation
Indices: 10997842--10997879 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
10997832 ATTATATTTC
10997842 AAAATATTAATTTGAATAA
1 AAAATATTAATTTGAATAA
10997861 AAAATATT-ATTT-AATAA
1 AAAATATTAATTTGAATAA
10997878 AA
1 AA
10997880 TTTAATTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.37
18 4 0.21
19 8 0.42
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (19 bp):
AAAATATTAATTTGAATAA
Found at i:11000350 original size:14 final size:14
Alignment explanation
Indices: 11000311--11000350 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
11000301 ATGAATATGA
11000311 TAATATATTTTAATT
1 TAAT-TATTTTAATT
* *
11000326 TAATAAATTTAATT
1 TAATTATTTTAATT
11000340 TAATTATTTTA
1 TAATTATTTTA
11000351 TAGATCAACG
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
14 17 0.81
15 4 0.19
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TAATTATTTTAATT
Found at i:11004169 original size:46 final size:46
Alignment explanation
Indices: 11004119--11004294 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
11004109 TGGTTGAGCA
11004119 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
11004165 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
11004210 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
11004258 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
11004295 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:11004275 original size:93 final size:93
Alignment explanation
Indices: 11004116--11004287 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
11004106 GGATGGTTGA
* *
11004116 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
11004181 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
11004209 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
11004274 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
11004288 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:11006295 original size:23 final size:23
Alignment explanation
Indices: 11006253--11006296 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
11006243 TATATTAGTG
*
11006253 AAAGATTTATTGATCAGAAGCGT
1 AAAGATTTATTGAGCAGAAGCGT
* *
11006276 AAAGATTTCTTGAGCTGAAGC
1 AAAGATTTATTGAGCAGAAGC
11006297 AAGGTAATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.30
Consensus pattern (23 bp):
AAAGATTTATTGAGCAGAAGCGT
Found at i:11011151 original size:46 final size:46
Alignment explanation
Indices: 11011101--11011276 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
11011091 TGGTTGAGCA
11011101 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
11011147 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
11011192 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
11011240 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
11011277 GCGGTTACAT
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:11011257 original size:93 final size:93
Alignment explanation
Indices: 11011098--11011269 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
11011088 GGATGGTTGA
* *
11011098 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
11011163 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
11011191 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
11011256 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
11011270 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:11012716 original size:90 final size:89
Alignment explanation
Indices: 11012563--11012743 Score: 254
Period size: 90 Copynumber: 2.0 Consensus size: 89
11012553 GGGCGTTACA
* * * * * * *
11012563 AGTGTTGTAGATTAATACATTTCCAGATGGTTGTGAATGTAGAACGTATTTGCATATAAGAGCTG
1 AGTGTTATAGATTAATACACTGCCAGATGGTTGTGAATGCACAACATATTTGCAGATAAGAGCTG
*
11012628 CCAAAAAATGGGTTGATGAACCACC
66 CC-AAAAATGGGTGGATGAACCACC
*
11012653 AGTGTTATAGGTTAATACACTGCCAGATGGTTGTGAATGCACAACATATTTGCAGATAAGAGCTG
1 AGTGTTATAGATTAATACACTGCCAGATGGTTGTGAATGCACAACATATTTGCAGATAAGAGCTG
**
11012718 CCAAAAATTTGTGGATGAACCACC
66 CCAAAAATGGGTGGATGAACCACC
11012742 AG
1 AG
11012744 AGTTGCAAAT
Statistics
Matches: 80, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
89 21 0.26
90 59 0.74
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (89 bp):
AGTGTTATAGATTAATACACTGCCAGATGGTTGTGAATGCACAACATATTTGCAGATAAGAGCTG
CCAAAAATGGGTGGATGAACCACC
Found at i:11012765 original size:90 final size:90
Alignment explanation
Indices: 11012585--11012769 Score: 230
Period size: 90 Copynumber: 2.1 Consensus size: 90
11012575 TAATACATTT
* * * * *
11012585 CCAGATGGTTGTGAATGTAGAACGTATTTGCATATAAGAGCTGCCAAAAAATGGGTTGATGAACC
1 CCAGATGGTTGTGAATGCACAACATATTTGCAGATAAGAGCTGCCAAAAAATGGGTGGATGAACC
* * *
11012650 ACCAGTGTTATAGGTTAATACACTG
66 ACCAGAGTTATAAGTTAATAAACTG
**
11012675 CCAGATGGTTGTGAATGCACAACATATTTGCAGATAAGAGCTGCC-AAAAATTTGTGGATGAACC
1 CCAGATGGTTGTGAATGCACAACATATTTGCAGATAAGAGCTGCCAAAAAATGGGTGGATGAACC
* *
11012739 ACCAGAGTTGCA-AATTTATTAAACTG
66 ACCAGAGTT--ATAAGTTAATAAACTG
11012765 CCAGA
1 CCAGA
11012770 ACTTCTTCCT
Statistics
Matches: 81, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
89 24 0.30
90 56 0.69
91 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (90 bp):
CCAGATGGTTGTGAATGCACAACATATTTGCAGATAAGAGCTGCCAAAAAATGGGTGGATGAACC
ACCAGAGTTATAAGTTAATAAACTG
Found at i:11014764 original size:13 final size:13
Alignment explanation
Indices: 11014746--11014784 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
11014736 CTAAATTATA
11014746 ATTTTAGTAAAAT
1 ATTTTAGTAAAAT
*
11014759 ATTTTAGTAAAAC
1 ATTTTAGTAAAAT
* *
11014772 CTTTTTGTAAAAT
1 ATTTTAGTAAAAT
11014785 CGAGAGTAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.41, C:0.05, G:0.08, T:0.46
Consensus pattern (13 bp):
ATTTTAGTAAAAT
Found at i:11017695 original size:26 final size:26
Alignment explanation
Indices: 11017666--11017717 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
11017656 TTTCTTGCAA
11017666 TTTAATTTAATTTTTTATTATTTATT
1 TTTAATTTAATTTTTTATTATTTATT
11017692 TTTAATTTAATTTTTTATTATTTATT
1 TTTAATTTAATTTTTTATTATTTATT
11017718 AATTTATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (26 bp):
TTTAATTTAATTTTTTATTATTTATT
Found at i:11024562 original size:45 final size:45
Alignment explanation
Indices: 11024513--11024683 Score: 206
Period size: 45 Copynumber: 3.8 Consensus size: 45
11024503 TGGTTGAGCA
11024513 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAATG
* * *
11024558 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA-T--G
*
11024603 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCA-TTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC-AATG
* *
11024650 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
11024684 GGGGCGGGTT
Statistics
Matches: 108, Mismatches: 8, Indels: 19
0.80 0.06 0.14
Matches are distributed among these distances:
42 6 0.06
43 1 0.01
44 2 0.02
45 58 0.54
46 3 0.03
47 32 0.30
49 4 0.04
50 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAATG
Found at i:11024667 original size:92 final size:92
Alignment explanation
Indices: 11024510--11024678 Score: 295
Period size: 92 Copynumber: 1.8 Consensus size: 92
11024500 GGATGGTTGA
* *
11024510 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAATGTCCGAACTCGTTGAGTT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACGCCCGAACTCGTTGAGTT
11024575 GAGTCCGAGTTCGTGAGATGTAACTAG
66 GAGTCCGAGTTCGTGAGATGTAACTAG
*
11024602 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCA-TTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC-AACGCCCGAACTCGTTGAGT
11024666 TGAGTCCGAGTTC
65 TGAGTCCGAGTTC
11024679 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
91 10 0.14
92 63 0.86
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.28
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACGCCCGAACTCGTTGAGTT
GAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:11032163 original size:47 final size:46
Alignment explanation
Indices: 11032046--11032218 Score: 187
Period size: 45 Copynumber: 3.8 Consensus size: 46
11032036 GGATGGTTGA
*
11032046 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCAAT
* *
11032093 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATGTAACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCAA-T
* * *
11032136 AGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAAC
1 --GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGC-AAT
*
11032186 GC--CCGAGCTCGTTGAGTTGAGTCCGAGTTCACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT
11032219 TAGGGGCGGG
Statistics
Matches: 108, Mismatches: 9, Indels: 19
0.79 0.07 0.14
Matches are distributed among these distances:
42 6 0.06
43 1 0.01
44 2 0.02
45 30 0.28
46 29 0.27
47 30 0.28
48 4 0.04
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCAAT
Found at i:11032214 original size:46 final size:45
Alignment explanation
Indices: 11032050--11032220 Score: 204
Period size: 46 Copynumber: 3.7 Consensus size: 45
11032040 GGTTGAGCAT
* *
11032050 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACGC
* * *
11032095 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAC---GC
*
11032140 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC-AACGC
*
11032188 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
11032221 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 10, Indels: 17
0.80 0.07 0.13
Matches are distributed among these distances:
42 6 0.06
44 2 0.02
45 29 0.27
46 31 0.29
47 28 0.26
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (45 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACGC
Found at i:11032482 original size:19 final size:20
Alignment explanation
Indices: 11032445--11032482 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
11032435 ATAAGGTGGT
11032445 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
11032465 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
11032483 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:11037103 original size:19 final size:17
Alignment explanation
Indices: 11037056--11037103 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 17
11037046 ATGCCATTTT
11037056 GGGTCATGTGGGCCACAC
1 GGGT-ATGTGGGCCACAC
*
11037074 GGGTGTGTGGGCCACAC
1 GGGTATGTGGGCCACAC
11037091 GGGCATATGTGGG
1 GGG--TATGTGGG
11037104 TCATGTGCCA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 15 0.58
18 4 0.15
19 7 0.27
ACGTcount: A:0.15, C:0.21, G:0.46, T:0.19
Consensus pattern (17 bp):
GGGTATGTGGGCCACAC
Found at i:11038573 original size:17 final size:17
Alignment explanation
Indices: 11038551--11038583 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
11038541 TCCAGGGACT
11038551 AAAATTGAAGGCAAAAG
1 AAAATTGAAGGCAAAAG
*
11038568 AAAATTTAAGGCAAAA
1 AAAATTGAAGGCAAAA
11038584 AGCTCAAATT
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:0.61, C:0.06, G:0.18, T:0.15
Consensus pattern (17 bp):
AAAATTGAAGGCAAAAG
Found at i:11038764 original size:10 final size:10
Alignment explanation
Indices: 11038749--11038788 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
11038739 ATTTATTACC
11038749 ATTTATCTTT
1 ATTTATCTTT
*
11038759 AATTATCTTT
1 ATTTATCTTT
11038769 ATTTAT-TTGT
1 ATTTATCTT-T
11038779 ATTTATCTTT
1 ATTTATCTTT
11038789 TAGAATTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
9 2 0.08
10 22 0.85
11 2 0.08
ACGTcount: A:0.23, C:0.07, G:0.03, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:11041800 original size:30 final size:30
Alignment explanation
Indices: 11041759--11041821 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
11041749 ACTTATTTTA
*
11041759 TTGTTACTTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
* *
11041789 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
11041819 TTG
1 TTG
11041822 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.24, C:0.05, G:0.14, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:11044885 original size:17 final size:17
Alignment explanation
Indices: 11044859--11044893 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
11044849 CAATAATTTT
* *
11044859 ATTTTTTAAAATTATAA
1 ATTTTATAAAAATATAA
11044876 ATTTTATAAAAATATAA
1 ATTTTATAAAAATATAA
11044893 A
1 A
11044894 ACATATTTTA
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:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATTTTATAAAAATATAA
Found at i:11050136 original size:59 final size:60
Alignment explanation
Indices: 11050073--11050196 Score: 153
Period size: 59 Copynumber: 2.1 Consensus size: 60
11050063 CGGCGGAATT
* * *
11050073 AAAATTC-TGAAACAAAATCAAAATCAATTTTGTTAAACGGCAGGACTAAATCCCGAAAC
1 AAAATTCATGAAACAAAATCAAAATAAATTCTGTTAAACGGCAGGAATAAATCCCGAAAC
* ** * *
11050132 AAAA-TCATGTAATTAAATCAAAATAAATTCTGTTAAACGGCGGGAATAAATCTCGAAAC
1 AAAATTCATGAAACAAAATCAAAATAAATTCTGTTAAACGGCAGGAATAAATCCCGAAAC
*
11050191 AGAATT
1 AAAATT
11050197 ATTTGATTAA
Statistics
Matches: 54, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
58 2 0.04
59 51 0.94
60 1 0.02
ACGTcount: A:0.48, C:0.15, G:0.13, T:0.24
Consensus pattern (60 bp):
AAAATTCATGAAACAAAATCAAAATAAATTCTGTTAAACGGCAGGAATAAATCCCGAAAC
Found at i:11050260 original size:83 final size:85
Alignment explanation
Indices: 11050164--11050340 Score: 216
Period size: 85 Copynumber: 2.1 Consensus size: 85
11050154 ATAAATTCTG
* * * * *
11050164 TTAAACGGCGGGAATAAATCTCGAAACAGA-ATTATTT-GATTAAGTCTTCATTTGGAAA-CAAA
1 TTAAACGGTGGGAATAAATCCCGAAACAGATATTATTTAAATTAAGTC-TAATTTGGAAATAAAA
* *
11050226 TTAATATTGAATAAAATCTTC
65 TTAAAATCGAATAAAATCTTC
* * *
11050247 TTAAACGGTGGGAATAAATCCCGAAACATATTTTATTTAAATTAATTCTAATTTGGAAATAAAAT
1 TTAAACGGTGGGAATAAATCCCGAAACAGATATTATTTAAATTAAGTCTAATTTGGAAATAAAAT
*
11050312 TAAAATCGAATAAAATCTTG
66 TAAAATCGAATAAAATCTTC
*
11050332 TTAATCGGT
1 TTAAACGGT
11050341 CGAAATAGAT
Statistics
Matches: 79, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
83 27 0.34
84 16 0.20
85 36 0.46
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.34
Consensus pattern (85 bp):
TTAAACGGTGGGAATAAATCCCGAAACAGATATTATTTAAATTAAGTCTAATTTGGAAATAAAAT
TAAAATCGAATAAAATCTTC
Found at i:11050711 original size:14 final size:14
Alignment explanation
Indices: 11050692--11050738 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
11050682 GTTAGCGAAC
*
11050692 AAATAAATAAATAT
1 AAATAAATATATAT
11050706 AAATAAACT-TATAT
1 AAATAAA-TATATAT
11050720 AAAATAAA-ATATAT
1 -AAATAAATATATAT
11050734 AAATA
1 AAATA
11050739 GAATGATTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
13 5 0.17
14 16 0.55
15 8 0.28
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (14 bp):
AAATAAATATATAT
Found at i:11051090 original size:13 final size:13
Alignment explanation
Indices: 11051072--11051098 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
11051062 GGAGTAATTG
11051072 CACACGGGCGTGT
1 CACACGGGCGTGT
11051085 CACACGGGCGTGT
1 CACACGGGCGTGT
11051098 C
1 C
11051099 CCTGCCGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:11053648 original size:40 final size:40
Alignment explanation
Indices: 11053604--11053789 Score: 261
Period size: 40 Copynumber: 4.7 Consensus size: 40
11053594 GATATATTAA
11053604 ATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAATGT
1 ATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAATGT
* *
11053644 ATATCCGGGTTAAATCCCACAGGCTTCGTGCTGGTAATGT
1 ATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAATGT
* *
11053684 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATTT
1 ATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAATGT
* *
11053724 ATATCTGGGTTAAATCCCGCAGGCTT-AGTGCTGGT-A-CT
1 ATATCCGGGTTAAATCCCGCAGGCTTCA-TGCTGGTAATGT
*
11053762 ATATCCGGGCTTAAAGTTCCGCAGGCTT
1 ATATCCGGG-TTAAA-TCCCGCAGGCTT
11053790 TCAGCTAGTA
Statistics
Matches: 134, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
38 9 0.07
39 6 0.04
40 119 0.89
ACGTcount: A:0.22, C:0.23, G:0.25, T:0.31
Consensus pattern (40 bp):
ATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAATGT
Found at i:11055170 original size:18 final size:18
Alignment explanation
Indices: 11055147--11055186 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
11055137 CTGTGCATCC
11055147 TTAGTTTAGTTAATTAGT
1 TTAGTTTAGTTAATTAGT
11055165 TTAGTTTAGTTAATTAGT
1 TTAGTTTAGTTAATTAGT
11055183 TTAG
1 TTAG
11055187 ATAAACAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.28, C:0.00, G:0.17, T:0.55
Consensus pattern (18 bp):
TTAGTTTAGTTAATTAGT
Found at i:11058089 original size:45 final size:45
Alignment explanation
Indices: 11058023--11058153 Score: 165
Period size: 45 Copynumber: 2.9 Consensus size: 45
11058013 AGCTATTCGC
* *
11058023 CTAAAATGAGTAAGACCATAGCTGAAAGATGCTATGGCATCAGGA
1 CTAAAATGAGTAAGATCATAGCTGAAAGACGCTATGGCATCAGGA
* *
11058068 -TAAAAATGAGTAAGATTATAGCTGAAAGACGCTATGGCATCATGA
1 CT-AAAATGAGTAAGATCATAGCTGAAAGACGCTATGGCATCAGGA
** * * *
11058113 CTGGAATTAGTAAGATCATAACTGAAAGACACTATGGCATC
1 CTAAAATGAGTAAGATCATAGCTGAAAGACGCTATGGCATC
11058154 GTATGGAAGC
Statistics
Matches: 74, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
44 1 0.01
45 72 0.97
46 1 0.01
ACGTcount: A:0.40, C:0.15, G:0.22, T:0.23
Consensus pattern (45 bp):
CTAAAATGAGTAAGATCATAGCTGAAAGACGCTATGGCATCAGGA
Found at i:11058389 original size:27 final size:27
Alignment explanation
Indices: 11058308--11058459 Score: 97
Period size: 27 Copynumber: 5.6 Consensus size: 27
11058298 AGTCCACAGG
* ** *
11058308 GACACTAGACAAAGGAAGGTATGTCAG
1 GACACTAGACAAAGGGAGGTCCGTCAA
* ** * **
11058335 GACACTAAACATGGGGAAGTCCACCAA
1 GACACTAGACAAAGGGAGGTCCGTCAA
**
11058362 GACACTAGACAAAGGGAGGTTTGTCAA
1 GACACTAGACAAAGGGAGGTCCGTCAA
* **
11058389 GACACTAGATAAAATGAGGTCCGTCAA
1 GACACTAGACAAAGGGAGGTCCGTCAA
* ** * ***
11058416 GACACTAAACATGGGGATGTCCGTTGG
1 GACACTAGACAAAGGGAGGTCCGTCAA
*
11058443 GACACTAGACAAGGGGA
1 GACACTAGACAAAGGGA
11058460 AGCCAAGGTT
Statistics
Matches: 90, Mismatches: 35, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
27 90 1.00
ACGTcount: A:0.38, C:0.18, G:0.28, T:0.16
Consensus pattern (27 bp):
GACACTAGACAAAGGGAGGTCCGTCAA
Found at i:11061692 original size:43 final size:43
Alignment explanation
Indices: 11061532--11061692 Score: 139
Period size: 43 Copynumber: 3.7 Consensus size: 43
11061522 ACATTAGGTT
* * *
11061532 ATCGAGATGTGATTACATGTAAGACCATGTCTGGGACATTGGC
1 ATCGATATGTGATTACATGTAAGACCATATCTGGGACATTAGC
* * * * *
11061575 ATTG-TATTGAGATTACGTGTAAGACCATGTCTGGGACATTTGC
1 ATCGATA-TGTGATTACATGTAAGACCATATCTGGGACATTAGC
* * * * * *
11061618 ATCGTTAAT-CGATTTCGTATAAGACTC-TATCTGGGACAGTAGC
1 ATCGAT-ATGTGATTACATGTAAGAC-CATATCTGGGACATTAGC
*
11061661 ATCGATATGTGATAACATGTAAGACCATATCT
1 ATCGATATGTGATTACATGTAAGACCATATCT
11061693 AGGATATGGC
Statistics
Matches: 94, Mismatches: 18, Indels: 12
0.76 0.15 0.10
Matches are distributed among these distances:
42 4 0.04
43 86 0.91
44 3 0.03
45 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (43 bp):
ATCGATATGTGATTACATGTAAGACCATATCTGGGACATTAGC
Found at i:11062374 original size:25 final size:25
Alignment explanation
Indices: 11062344--11062393 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
11062334 ATTAGTTGAT
11062344 ATATTAATGCTTGAGAAATGGTATA
1 ATATTAATGCTTGAGAAATGGTATA
*
11062369 ATATTAATGCTTGATAAATGGTATA
1 ATATTAATGCTTGAGAAATGGTATA
11062394 TTTTGATATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.40, C:0.04, G:0.18, T:0.38
Consensus pattern (25 bp):
ATATTAATGCTTGAGAAATGGTATA
Found at i:11070219 original size:23 final size:21
Alignment explanation
Indices: 11070183--11070299 Score: 78
Period size: 23 Copynumber: 5.2 Consensus size: 21
11070173 CCTGAGCTGA
11070183 TGAACAGTAAGCTCTAATGAGC
1 TGAA-AGTAAGCTCTAATGAGC
*
11070205 TGAAAGGGTAAGCTCTATTGAGC
1 TGAAA--GTAAGCTCTAATGAGC
*
11070228 TGTACAGTAAGCTCATACA--AGC
1 TG-AAAGTAAGCTC-TA-ATGAGC
* *
11070250 TGAATAATAAGCT-TATACGAGC
1 TGAA-AGTAAGCTCTA-ATGAGC
*
11070272 TGAAACGGTAAGCTCCAATGAGC
1 TGAAA--GTAAGCTCTAATGAGC
11070295 TGAAA
1 TGAAA
11070300 ACAATAAGCT
Statistics
Matches: 75, Mismatches: 9, Indels: 21
0.71 0.09 0.20
Matches are distributed among these distances:
20 3 0.04
21 3 0.04
22 31 0.41
23 35 0.47
24 3 0.04
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (21 bp):
TGAAAGTAAGCTCTAATGAGC
Found at i:11084354 original size:16 final size:14
Alignment explanation
Indices: 11084333--11084368 Score: 54
Period size: 16 Copynumber: 2.4 Consensus size: 14
11084323 TTTTAATTTG
11084333 TAAAAATTAAATCAAA
1 TAAAAATTAAAT--AA
11084349 TAAAAATTAAATAA
1 TAAAAATTAAATAA
11084363 TAAAAA
1 TAAAAA
11084369 CAAAATTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 8 0.40
16 12 0.60
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (14 bp):
TAAAAATTAAATAA
Found at i:11084422 original size:24 final size:24
Alignment explanation
Indices: 11084393--11084457 Score: 130
Period size: 24 Copynumber: 2.7 Consensus size: 24
11084383 CATTATCCAT
11084393 ATTGCATATTGAATTCAACCGGAC
1 ATTGCATATTGAATTCAACCGGAC
11084417 ATTGCATATTGAATTCAACCGGAC
1 ATTGCATATTGAATTCAACCGGAC
11084441 ATTGCATATTGAATTCA
1 ATTGCATATTGAATTCA
11084458 TATTTCTTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.32
Consensus pattern (24 bp):
ATTGCATATTGAATTCAACCGGAC
Found at i:11088365 original size:3 final size:3
Alignment explanation
Indices: 11088357--11088403 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
11088347 GAAGAAACAA
*
11088357 AAT AAT AAT AAT AAT AAC AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
11088404 GCTTAAATGA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:11092169 original size:17 final size:17
Alignment explanation
Indices: 11092139--11092196 Score: 66
Period size: 18 Copynumber: 3.4 Consensus size: 17
11092129 ATTTATAATA
11092139 ATTTTAATAATTTTCTAT
1 ATTTTAA-AATTTTCTAT
*
11092157 ATTTTAAAATTTTCCAT
1 ATTTTAAAATTTTCTAT
*
11092174 ATTTTTTAAATTTT-TAT
1 A-TTTTAAAATTTTCTAT
11092191 -TTTTAA
1 ATTTTAA
11092197 TTCATATATT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
15 5 0.14
17 12 0.34
18 18 0.51
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (17 bp):
ATTTTAAAATTTTCTAT
Found at i:11092179 original size:18 final size:17
Alignment explanation
Indices: 11092139--11092178 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
11092129 ATTTATAATA
*
11092139 ATTTTAATAATTTTCTAT
1 ATTTTAA-AATTTTCCAT
11092157 ATTTTAAAATTTTCCAT
1 ATTTTAAAATTTTCCAT
11092174 ATTTT
1 ATTTT
11092179 TTAAATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (17 bp):
ATTTTAAAATTTTCCAT
Found at i:11092193 original size:15 final size:15
Alignment explanation
Indices: 11092173--11092224 Score: 63
Period size: 15 Copynumber: 3.5 Consensus size: 15
11092163 AAATTTTCCA
11092173 TATTTTTTAAATTTT
1 TATTTTTTAAATTTT
*
11092188 TA-TTTTT-AATTCATA
1 TATTTTTTAAATT--TT
11092203 TATTTTTTAAATTTT
1 TATTTTTTAAATTTT
11092218 TATTTTT
1 TATTTTT
11092225 AATTCATATA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
13 4 0.13
14 5 0.16
15 13 0.42
16 5 0.16
17 4 0.13
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (15 bp):
TATTTTTTAAATTTT
Found at i:11092208 original size:30 final size:30
Alignment explanation
Indices: 11092172--11092241 Score: 131
Period size: 30 Copynumber: 2.3 Consensus size: 30
11092162 AAAATTTTCC
11092172 ATATTTTTTAAATTTTTATTTTTAATTCAT
1 ATATTTTTTAAATTTTTATTTTTAATTCAT
11092202 ATATTTTTTAAATTTTTATTTTTAATTCAT
1 ATATTTTTTAAATTTTTATTTTTAATTCAT
*
11092232 ATAATTTTTA
1 ATATTTTTTA
11092242 TTTTAATAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (30 bp):
ATATTTTTTAAATTTTTATTTTTAATTCAT
Found at i:11092239 original size:15 final size:15
Alignment explanation
Indices: 11092188--11092241 Score: 58
Period size: 16 Copynumber: 3.5 Consensus size: 15
11092178 TTTAAATTTT
11092188 TATTTTTAATTCATA
1 TATTTTTAATTCATA
*
11092203 TATTTTTTAAATT--TT
1 TA-TTTTT-AATTCATA
11092218 TATTTTTAATTCATA
1 TATTTTTAATTCATA
11092233 TAATTTTTA
1 T-ATTTTTA
11092242 TTTTAATAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
13 4 0.12
14 5 0.16
15 7 0.22
16 12 0.38
17 4 0.12
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (15 bp):
TATTTTTAATTCATA
Found at i:11098903 original size:20 final size:20
Alignment explanation
Indices: 11098878--11098923 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
11098868 TCCTTAAATT
*
11098878 ATTTTATTTATAAGATTATA
1 ATTTTATTTATAAAATTATA
*
11098898 ATTTTATTTATAAAATTATT
1 ATTTTATTTATAAAATTATA
11098918 ATTTTA
1 ATTTTA
11098924 ATAACTAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (20 bp):
ATTTTATTTATAAAATTATA
Found at i:11099387 original size:19 final size:18
Alignment explanation
Indices: 11099340--11099389 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
11099330 GAAATGAGAG
*
11099340 AAAATTATATAAAATAATT
1 AAAATTATA-AAAAAAATT
*
11099359 AAAATGATAAAAAAAATCT
1 AAAATTATAAAAAAAAT-T
*
11099378 ACAATTATAAAA
1 AAAATTATAAAA
11099390 TCTTATTGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
18 7 0.27
19 19 0.73
ACGTcount: A:0.66, C:0.04, G:0.02, T:0.28
Consensus pattern (18 bp):
AAAATTATAAAAAAAATT
Found at i:11099883 original size:32 final size:31
Alignment explanation
Indices: 11099826--11099903 Score: 88
Period size: 32 Copynumber: 2.5 Consensus size: 31
11099816 ATGTAATCCC
* **
11099826 TAAAAATCAATTAAGATCTCTTAAAATAATTT
1 TAAAAATCAATTAAGACCTCTTAAAATAA-AA
11099858 TAAAAATCAATTAA-ACC-CTTGTAAAATAAAA
1 TAAAAATCAATTAAGACCTC-T-TAAAATAAAA
11099889 TAAAAATCAATTAAG
1 TAAAAATCAATTAAG
11099904 CTTTTTATGT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
30 1 0.03
31 17 0.43
32 22 0.55
ACGTcount: A:0.55, C:0.10, G:0.04, T:0.31
Consensus pattern (31 bp):
TAAAAATCAATTAAGACCTCTTAAAATAAAA
Found at i:11102053 original size:20 final size:21
Alignment explanation
Indices: 11102016--11102062 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
11102006 GATATAATGA
*
11102016 ATTTATAAAAAAGAAAATAAT
1 ATTTTTAAAAAAGAAAATAAT
* *
11102037 ATTTTTAAAAAA-TAAATTAT
1 ATTTTTAAAAAAGAAAATAAT
11102057 ATTTTT
1 ATTTTT
11102063 GAAAGTTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (21 bp):
ATTTTTAAAAAAGAAAATAAT
Found at i:11108834 original size:15 final size:16
Alignment explanation
Indices: 11108792--11108837 Score: 53
Period size: 15 Copynumber: 2.9 Consensus size: 16
11108782 TTATAGACAA
11108792 AATAATAGTAATAATAT
1 AATAATAG-AATAATAT
11108809 AA-AACTA-AATAAT-T
1 AATAA-TAGAATAATAT
11108823 AATAATAGAATAATA
1 AATAATAGAATAATA
11108838 AAGTTTATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 9
0.74 0.00 0.26
Matches are distributed among these distances:
14 5 0.20
15 14 0.56
16 2 0.08
17 4 0.16
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.30
Consensus pattern (16 bp):
AATAATAGAATAATAT
Found at i:11109965 original size:26 final size:25
Alignment explanation
Indices: 11109922--11109982 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 25
11109912 TTTAAATTTT
11109922 AAAATTATATTTAATATAATAT-AATA
1 AAAATTAT-TTTAATAT-ATATCAATA
* *
11109948 AAAATTATTTTAATTATATTTCATTA
1 AAAATTATTTTAA-TATATATCAATA
11109974 AAAATTATT
1 AAAATTATT
11109983 GAACTATATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
25 8 0.26
26 23 0.74
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.48
Consensus pattern (25 bp):
AAAATTATTTTAATATATATCAATA
Found at i:11109990 original size:25 final size:28
Alignment explanation
Indices: 11109945--11110002 Score: 77
Period size: 26 Copynumber: 2.2 Consensus size: 28
11109935 ATATAATATA
* *
11109945 ATAAAAATTATTTTAATTATATT-TCAT
1 ATAAAAATTATTTGAACTATATTATCAT
11109972 -TAAAAATTA-TTGAACTATATTATCAT
1 ATAAAAATTATTTGAACTATATTATCAT
11109998 ATAAA
1 ATAAA
11110003 TTCGATAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 10 0.37
26 13 0.48
27 4 0.15
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (28 bp):
ATAAAAATTATTTGAACTATATTATCAT
Found at i:11112207 original size:22 final size:22
Alignment explanation
Indices: 11112179--11112223 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
11112169 TGCAAAACTG
11112179 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
11112201 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
11112223 T
1 T
11112224 TTTATTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:11115985 original size:22 final size:22
Alignment explanation
Indices: 11115957--11115998 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
11115947 GGGAGTGTAA
11115957 GAATATTCTGTAAATATTTTAG
1 GAATATTCTGTAAATATTTTAG
* *
11115979 GAATATTTTGTAGATATTTT
1 GAATATTCTGTAAATATTTT
11115999 TTTATTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.02, G:0.14, T:0.50
Consensus pattern (22 bp):
GAATATTCTGTAAATATTTTAG
Found at i:11121537 original size:125 final size:124
Alignment explanation
Indices: 11121275--11121506 Score: 299
Period size: 125 Copynumber: 1.9 Consensus size: 124
11121265 AATTAGAGTG
* * * *
11121275 CATTTGATATTCTTAATCTAATGTATTTATCTATTTAAATTTCTTTTTACTCATAATTTAAATTA
1 CATTTAATATTATTAATCTAATGTATTTATCTATTTAAATTTCTTTTTACTCACAATATAAATTA
** * * * *
11121340 TTTTTTATTTTAAGTTCCTACGTATTACATATGTGTTGTTATTATTAATCTCACAACTTA
66 TTTTTTATTTTAAGTTAATACATATTA-ATATGTATTATTATTATTAAACTCACAACTTA
11121400 CATTTAATATTATTAATCTAATGTATTTATCTATTTAAATTT-TTCTTTACTCACAATATAAATT
1 CATTTAATATTATTAATCTAATGTATTTATCTATTTAAATTTCTT-TTTACTCACAATATAAATT
* * *
11121464 ATTTTTTATTTTCA-TATAATATATATT-GTATGTATTATTATTA
65 ATTTTTTATTTTAAGT-TAATACATATTAATATGTATTATTATTA
11121507 GATTTAAACT
Statistics
Matches: 93, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
123 13 0.14
124 3 0.03
125 77 0.83
ACGTcount: A:0.32, C:0.10, G:0.04, T:0.54
Consensus pattern (124 bp):
CATTTAATATTATTAATCTAATGTATTTATCTATTTAAATTTCTTTTTACTCACAATATAAATTA
TTTTTTATTTTAAGTTAATACATATTAATATGTATTATTATTATTAAACTCACAACTTA
Done.