Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168048.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_3, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 33276047
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 139000 characters in sequence are not A, C, G, or T
File 16 of 190
Found at i:2157965 original size:83 final size:84
Alignment explanation
Indices: 2157792--2157989 Score: 195
Period size: 83 Copynumber: 2.4 Consensus size: 84
2157782 AGTTCGTTGT
** * * * ** *
2157792 CTCTGTTTAGAGGAGTTATTTATTTTTC-GAAGTTGTTGAACCTCTGTTTAGAGGAACAATTTAT
1 CTCTGTTTAGAGGAGCAATTTACTTTTCAAAAGTTGTAGTGCTTCTGTTTAGAGGAACAATTTAT
* * * * *
2157856 TTTTCAAAGTTGTGGTTGG
66 TTCTAAAAGTAGTGGTAGC
*
2157875 CTCTGTTTAGAGGAGCAATTTA-TTTTCAAAAGTTGTAGTGCTTCTGTTTAGAGGAGCAATTTAA
1 CTCTGTTTAGAGGAGCAATTTACTTTTCAAAAGTTGTAGTGCTTCTGTTTAGAGGAACAATTT-A
*
2157939 TTTCTAAAAGTAGTTG-AGC
65 TTTCTAAAAGTAGTGGTAGC
* * *
2157958 CTTTGTTTAGATGAGTAATTTACTTTTTCAAA
1 CTCTGTTTAGAGGAGCAATTTAC-TTTTCAAA
2157990 GTCGTTAAGC
Statistics
Matches: 94, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
82 5 0.05
83 68 0.72
84 13 0.14
85 8 0.09
ACGTcount: A:0.26, C:0.10, G:0.21, T:0.43
Consensus pattern (84 bp):
CTCTGTTTAGAGGAGCAATTTACTTTTCAAAAGTTGTAGTGCTTCTGTTTAGAGGAACAATTTAT
TTCTAAAAGTAGTGGTAGC
Found at i:2158064 original size:44 final size:44
Alignment explanation
Indices: 2158006--2158107 Score: 150
Period size: 44 Copynumber: 2.3 Consensus size: 44
2157996 AAGCATTTGA
* ** *
2158006 TTAGAGGAGCTTTGTTTATTTTTCAACAGTTGTTGAGCCTCTGC
1 TTAGAGGAGCTTTGTTTATTTTTCAAAAGTCATTGAACCTCTGC
* *
2158050 TTAGAAGAGTTTTGTTTATTTTTCAAAAGTCATTGAACCTCTGC
1 TTAGAGGAGCTTTGTTTATTTTTCAAAAGTCATTGAACCTCTGC
2158094 TTAGAGGAGCTTTG
1 TTAGAGGAGCTTTG
2158108 ATCAAAATTT
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 50 1.00
ACGTcount: A:0.23, C:0.14, G:0.22, T:0.42
Consensus pattern (44 bp):
TTAGAGGAGCTTTGTTTATTTTTCAAAAGTCATTGAACCTCTGC
Found at i:2158337 original size:28 final size:26
Alignment explanation
Indices: 2158312--2158474 Score: 112
Period size: 26 Copynumber: 6.3 Consensus size: 26
2158302 TTTGTATTAC
2158312 TATTATTATTTATTAATATATATATT
1 TATTATTATTTATTAATATATATATT
* *
2158338 T-TTAATTATTTATCTATTA-ACATA-T
1 TATT-ATTATTTAT-TAATATATATATT
*
2158363 T-TTATTATTTATCTACTAATATATATT
1 TATTATTATTTAT-TAAT-ATATATATT
*
2158390 TTTTATTATTTATCT-AT-TCATATA-T
1 TATTATTATTTAT-TAATAT-ATATATT
*
2158415 TATTATTTATCTATTAATATATATATTT
1 TATTA-TTATTTATTAATATATATA-TT
*
2158443 TATCTATTA-TTATTACTAT-TAT-TAT
1 TAT-TATTATTTATTAATATATATAT-T
2158468 TATTATT
1 TATTATT
2158475 TTTTCTTGAC
Statistics
Matches: 114, Mismatches: 9, Indels: 30
0.75 0.06 0.20
Matches are distributed among these distances:
24 18 0.16
25 18 0.16
26 40 0.35
27 16 0.14
28 20 0.18
29 2 0.02
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.61
Consensus pattern (26 bp):
TATTATTATTTATTAATATATATATT
Found at i:2158368 original size:50 final size:51
Alignment explanation
Indices: 2158312--2158471 Score: 190
Period size: 52 Copynumber: 3.2 Consensus size: 51
2158302 TTTGTATTAC
2158312 TATTATTATTTATTAATATATATATTTTTAATTATTTATCTATTAACATAT
1 TATTATTATTTATTAATATATATATTTTTAATTATTTATCTATTAACATAT
* * * *
2158363 T-TTATTATTTATCTACTAATATATATTTTTTATTATTTATCTATTCATATAT
1 TATTATTATTTAT-TAAT-ATATATATTTTTAATTATTTATCTATTAACATAT
*
2158415 TATTATTTATCTATTAATATATATA-TTTT-ATCTA-TTAT-TATT-AC-TAT
1 TATTA-TTATTTATTAATATATATATTTTTAAT-TATTTATCTATTAACATAT
2158462 TATTATTATT
1 TATTATTATT
2158472 ATTTTTTCTT
Statistics
Matches: 96, Mismatches: 8, Indels: 15
0.81 0.07 0.13
Matches are distributed among these distances:
46 4 0.04
47 8 0.08
48 1 0.01
49 4 0.04
50 17 0.18
51 10 0.10
52 39 0.41
53 6 0.06
54 7 0.07
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.61
Consensus pattern (51 bp):
TATTATTATTTATTAATATATATATTTTTAATTATTTATCTATTAACATAT
Found at i:2158446 original size:21 final size:21
Alignment explanation
Indices: 2158398--2158472 Score: 75
Period size: 21 Copynumber: 3.5 Consensus size: 21
2158388 TTTTTTATTA
*
2158398 TTTATCTATTCATATAT-TATT
1 TTTATCTATTAATATATATA-T
2158419 ATTTATCTATTAATATATATAT
1 -TTTATCTATTAATATATATAT
*
2158441 TTTATCTATTATTAT-TACTAT
1 TTTATCTATTAATATATA-TAT
2158462 TATTAT-TATTA
1 T-TTATCTATTA
2158473 TTTTTTCTTG
Statistics
Matches: 48, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
20 2 0.04
21 23 0.48
22 21 0.44
23 2 0.04
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTATCTATTAATATATATAT
Found at i:2158453 original size:12 final size:11
Alignment explanation
Indices: 2158393--2158475 Score: 61
Period size: 11 Copynumber: 7.7 Consensus size: 11
2158383 ATATATTTTT
2158393 TATTATTTATC
1 TATTATTTATC
*
2158404 TATTCATATAT-
1 TATT-ATTTATC
2158415 TATTATTTATC
1 TATTATTTATC
* *
2158426 TATTA-ATATA
1 TATTATTTATC
2158436 TA-TATTTTATC
1 TATTA-TTTATC
2158447 TATTA-TTATTAC
1 TATTATTTA-T-C
2158459 TATTA-TTAT-
1 TATTATTTATC
2158468 TATTATTT
1 TATTATTT
2158476 TTTCTTGACT
Statistics
Matches: 58, Mismatches: 6, Indels: 17
0.72 0.07 0.21
Matches are distributed among these distances:
9 7 0.12
10 15 0.26
11 20 0.34
12 16 0.28
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (11 bp):
TATTATTTATC
Found at i:2158474 original size:78 final size:76
Alignment explanation
Indices: 2158306--2158475 Score: 170
Period size: 78 Copynumber: 2.2 Consensus size: 76
2158296 TTTAATTTTG
* * * *
2158306 TATTACTATTATTATTTATTAATATATATATTTTTAATTATTTATCTATTAACATATTTTATTAT
1 TATTATTATTATTATTTATTAATATATATATTATTAATTATCTATCTAATAACATATTTTATTAT
2158371 TTATCTACTAA
66 TTATCTACTAA
* * *
2158382 TATATATTTTTTATTATTTATCT-AT-TCATATATTATTATTTATCTAT-TAATATATATATTTT
1 TAT-TA-TTATTATTATTTAT-TAATAT-ATATATTATTAATTATCTATCTAATA-ACATATTTT
* *
2158444 ATCTA-TTAT-TATTAC
61 AT-TATTTATCTACTAA
2158459 TATTATTATTATTATTT
1 TATTATTATTATTATTT
2158476 TTTCTTGACT
Statistics
Matches: 78, Mismatches: 10, Indels: 13
0.77 0.10 0.13
Matches are distributed among these distances:
75 11 0.14
76 5 0.06
77 14 0.18
78 45 0.58
79 3 0.04
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.61
Consensus pattern (76 bp):
TATTATTATTATTATTTATTAATATATATATTATTAATTATCTATCTAATAACATATTTTATTAT
TTATCTACTAA
Found at i:2159194 original size:17 final size:17
Alignment explanation
Indices: 2159167--2159209 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
2159157 TTCCAAGGTT
2159167 TTTATTTTATT-TTATTTA
1 TTTA-TTTATTATTA-TTA
2159185 TTTATTTATTATTATTA
1 TTTATTTATTATTATTA
*
2159202 TTAATTTA
1 TTTATTTA
2159210 AAATTATTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 16 0.70
18 7 0.30
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (17 bp):
TTTATTTATTATTATTA
Found at i:2169873 original size:9 final size:9
Alignment explanation
Indices: 2169859--2169918 Score: 75
Period size: 9 Copynumber: 6.6 Consensus size: 9
2169849 TATGCTTGAA
2169859 AAAAAAATG
1 AAAAAAATG
*
2169868 AAAAAAATA
1 AAAAAAATG
*
2169877 AAAAAAATA
1 AAAAAAATG
2169886 AAAAAAATG
1 AAAAAAATG
*
2169895 AAAAAAAATT
1 -AAAAAAATG
*
2169905 AAGAAAATG
1 AAAAAAATG
2169914 AAAAA
1 AAAAA
2169919 GGATGACTCA
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
9 36 0.82
10 8 0.18
ACGTcount: A:0.82, C:0.00, G:0.07, T:0.12
Consensus pattern (9 bp):
AAAAAAATG
Found at i:2169879 original size:18 final size:19
Alignment explanation
Indices: 2169858--2169918 Score: 88
Period size: 19 Copynumber: 3.3 Consensus size: 19
2169848 TTATGCTTGA
*
2169858 AAAAAAAATGAAAAAAAT-
1 AAAAAAAATAAAAAAAATG
2169876 AAAAAAAATAAAAAAAATG
1 AAAAAAAATAAAAAAAATG
* *
2169895 AAAAAAAATTAAGAAAATG
1 AAAAAAAATAAAAAAAATG
2169914 AAAAA
1 AAAAA
2169919 GGATGACTCA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
18 17 0.44
19 22 0.56
ACGTcount: A:0.82, C:0.00, G:0.07, T:0.11
Consensus pattern (19 bp):
AAAAAAAATAAAAAAAATG
Found at i:2170988 original size:41 final size:41
Alignment explanation
Indices: 2170937--2171161 Score: 157
Period size: 44 Copynumber: 5.3 Consensus size: 41
2170927 TTGTTGCCTT
**
2170937 TATTTAGAGGAGTTATTTATTTTTCAAAGTTGTTGAACCTC
1 TATTTAGAGGAGTTATTTATTTTTCAAAGTCATTGAACCTC
** ** * *
2170978 TATTTAGAGGAGCAATTTATTTTTCAAAGTTGTGGTTACCTC
1 TATTTAGAGGAGTTATTTATTTTTCAAAGTCATTG-AACCTC
* ** **
2171020 TGTTTAGAGGAGCAATTTACTTTCCCAAAGTCATT-AAGCCTC
1 TATTTAGAGGAGTTATTTA-TTTTTCAAAGTCATTGAA-CCTC
* *
2171062 TGA-TTAGAGGAGTTTTGTTTATTTTTCAAAAGTCATTGAGCCTC
1 T-ATTTAGAGGAG--TTATTTATTTTTC-AAAGTCATTGAACCTC
** * * *
2171106 TGCTTAGAAGAGCTTTGTTTATTTTTCAAAAGTCATTGAGCCTC
1 TATTTAGAGGAG--TTATTTATTTTTC-AAAGTCATTGAACCTC
*
2171150 TACTTAGAGGAG
1 TATTTAGAGGAG
2171162 CTTTGATCAA
Statistics
Matches: 152, Mismatches: 23, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
41 33 0.22
42 37 0.24
43 14 0.09
44 67 0.44
45 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.19, T:0.40
Consensus pattern (41 bp):
TATTTAGAGGAGTTATTTATTTTTCAAAGTCATTGAACCTC
Found at i:2171032 original size:42 final size:41
Alignment explanation
Indices: 2170918--2171038 Score: 156
Period size: 41 Copynumber: 3.0 Consensus size: 41
2170908 AGCCATTTAC
* * **
2170918 TTTCAAAGTT-TGTTGCCTTTATTTAGAGGAGTTATTTATT
1 TTTCAAAGTTGTGTTACCTCTATTTAGAGGAGCAATTTATT
*
2170958 TTTCAAAGTTGT-TGAACCTCTATTTAGAGGAGCAATTTATT
1 TTTCAAAGTTGTGT-TACCTCTATTTAGAGGAGCAATTTATT
*
2170999 TTTCAAAGTTGTGGTTACCTCTGTTTAGAGGAGCAATTTA
1 TTTCAAAGTTGT-GTTACCTCTATTTAGAGGAGCAATTTA
2171039 CTTTCCCAAA
Statistics
Matches: 70, Mismatches: 7, Indels: 6
0.84 0.08 0.07
Matches are distributed among these distances:
40 11 0.16
41 35 0.50
42 23 0.33
43 1 0.01
ACGTcount: A:0.26, C:0.11, G:0.19, T:0.45
Consensus pattern (41 bp):
TTTCAAAGTTGTGTTACCTCTATTTAGAGGAGCAATTTATT
Found at i:2171105 original size:44 final size:44
Alignment explanation
Indices: 2171046--2171166 Score: 190
Period size: 44 Copynumber: 2.8 Consensus size: 44
2171036 TTACTTTCCC
* *
2171046 AAAGTCATTAAGCCTCTGATTAGAGGAGTTTTGTTTATTTTTCA
1 AAAGTCATTGAGCCTCTGATTAGAGGAGCTTTGTTTATTTTTCA
* *
2171090 AAAGTCATTGAGCCTCTGCTTAGAAGAGCTTTGTTTATTTTTCA
1 AAAGTCATTGAGCCTCTGATTAGAGGAGCTTTGTTTATTTTTCA
2171134 AAAGTCATTGAGCCTCT-ACTTAGAGGAGCTTTG
1 AAAGTCATTGAGCCTCTGA-TTAGAGGAGCTTTG
2171167 ATCAAAATTT
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
44 70 1.00
ACGTcount: A:0.26, C:0.15, G:0.20, T:0.39
Consensus pattern (44 bp):
AAAGTCATTGAGCCTCTGATTAGAGGAGCTTTGTTTATTTTTCA
Found at i:2171433 original size:8 final size:8
Alignment explanation
Indices: 2171422--2171506 Score: 52
Period size: 8 Copynumber: 10.5 Consensus size: 8
2171412 ATATTTTAAT
2171422 TATTTATC
1 TATTTATC
*
2171430 TA-TTAAC
1 TATTTATC
2171437 ATATTTTAT-
1 -TA-TTTATC
2171446 TATTTATC
1 TATTTATC
*
2171454 TATTAATATA
1 TATT--TATC
*
2171464 TATTTATAT
1 TATTTAT-C
2171473 TATTTATC
1 TATTTATC
* *
2171481 TATTCATA
1 TATTTATC
2171489 TA-TTAT-
1 TATTTATC
2171495 TATTTATC
1 TATTTATC
2171503 TATT
1 TATT
2171507 AATATATATT
Statistics
Matches: 60, Mismatches: 8, Indels: 18
0.70 0.09 0.21
Matches are distributed among these distances:
6 2 0.03
7 16 0.27
8 25 0.42
9 7 0.12
10 10 0.17
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (8 bp):
TATTTATC
Found at i:2171446 original size:49 final size:51
Alignment explanation
Indices: 2171391--2171521 Score: 171
Period size: 51 Copynumber: 2.6 Consensus size: 51
2171381 TTTGTATTGC
2171391 TATTATTATTTATTAATATATATATTTTA-ATTATTTATCTATTAACATAT
1 TATTATTATTTATTAATATATATATTTTATATTATTTATCTATTAACATAT
* * *
2171441 T-TTATTATTTATCTATTA-ATATATATTTATATTATTTATCTATTCATATAT
1 TATTATTATTTAT-TAATATATATAT-TTTATATTATTTATCTATTAACATAT
*
2171492 TATTATTTATCTATTAATATATAT-TTTTAT
1 TATTA-TTATTTATTAATATATATATTTTAT
2171522 CTATTATTAT
Statistics
Matches: 70, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
49 17 0.24
50 9 0.13
51 25 0.36
52 8 0.11
53 11 0.16
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (51 bp):
TATTATTATTTATTAATATATATATTTTATATTATTTATCTATTAACATAT
Found at i:2171452 original size:24 final size:24
Alignment explanation
Indices: 2171393--2171530 Score: 151
Period size: 25 Copynumber: 5.7 Consensus size: 24
2171383 TGTATTGCTA
*
2171393 TTATTATTTAT-TAATATATATATT
1 TTATTATTTATCTATTA-ATATATT
*
2171417 TTAATTATTTATCTATTAACATATT
1 TT-ATTATTTATCTATTAATATATT
2171442 TTATTATTTATCTATTAATATATATT
1 TTATTATTTATCTATT-A-ATATATT
*
2171468 TATATTATTTATCTATTCATATA--
1 T-TATTATTTATCTATTAATATATT
2171491 TTATTATTTATCTATTAATATATAT
1 TTATTATTTATCTATTAATATAT-T
*
2171516 TT-TTATCTAT-TATTA
1 TTATTATTTATCTATTA
2171531 TTACTATTAT
Statistics
Matches: 100, Mismatches: 6, Indels: 17
0.81 0.05 0.14
Matches are distributed among these distances:
22 20 0.20
23 6 0.06
24 23 0.23
25 25 0.25
26 11 0.11
27 15 0.15
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (24 bp):
TTATTATTTATCTATTAATATATT
Found at i:2171526 original size:10 final size:11
Alignment explanation
Indices: 2171420--2171551 Score: 72
Period size: 10 Copynumber: 12.6 Consensus size: 11
2171410 ATATATTTTA
2171420 ATTATTTATCT
1 ATTATTTATCT
** *
2171431 ATTAACATATTTT
1 ATT-ATTTA-TCT
2171444 ATTATTTATCT
1 ATTATTTATCT
*
2171455 ATTA---ATAT
1 ATTATTTATCT
2171463 A-TATTTA--T
1 ATTATTTATCT
2171471 ATTATTTATCT
1 ATTATTTATCT
*
2171482 ATTCATATAT-T
1 ATT-ATTTATCT
2171493 ATTATTTATCT
1 ATTATTTATCT
* *
2171504 ATTA-ATATAT
1 ATTATTTATCT
2171514 ATT-TTTATCT
1 ATTATTTATCT
2171524 ATTA-TTATTACT
1 ATTATTTA-T-CT
2171536 ATTA-TTA-CT
1 ATTATTTATCT
2171545 ATTATTT
1 ATTATTT
2171552 TTTTTCTTGA
Statistics
Matches: 93, Mismatches: 13, Indels: 31
0.68 0.09 0.23
Matches are distributed among these distances:
7 2 0.02
8 6 0.06
9 12 0.13
10 25 0.27
11 23 0.25
12 20 0.22
13 5 0.05
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (11 bp):
ATTATTTATCT
Found at i:2171540 original size:9 final size:9
Alignment explanation
Indices: 2171526--2171550 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
2171516 TTTTATCTAT
2171526 TATTATTAC
1 TATTATTAC
2171535 TATTATTAC
1 TATTATTAC
2171544 TATTATT
1 TATTATT
2171551 TTTTTTCTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (9 bp):
TATTATTAC
Found at i:2171542 original size:49 final size:50
Alignment explanation
Indices: 2171391--2171547 Score: 193
Period size: 49 Copynumber: 3.2 Consensus size: 50
2171381 TTTGTATTGC
* *
2171391 TATTATTATTTAT-TAAT-ATATATATTTTAATTATTTATCTATTAACATAT
1 TATTATTATTTATCTATTAATATATATTTTTATTATTTATCTATT-AC-TAT
*
2171441 T-TTATTATTTATCTATTAATATATATTTATATTATTTATCTATT-C-AT
1 TATTATTATTTATCTATTAATATATATTTTTATTATTTATCTATTACTAT
2171488 ATATTATTATTTATCTATTAATATATATTTTTATCTA-TTAT-TATTACTAT
1 -TATTATTATTTATCTATTAATATATATTTTTAT-TATTTATCTATTACTAT
*
2171538 TATTACTATT
1 TATTATTATT
2171548 ATTTTTTTTC
Statistics
Matches: 95, Mismatches: 5, Indels: 15
0.83 0.04 0.13
Matches are distributed among these distances:
47 2 0.02
48 5 0.05
49 56 0.59
50 8 0.08
51 24 0.25
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (50 bp):
TATTATTATTTATCTATTAATATATATTTTTATTATTTATCTATTACTAT
Found at i:2172572 original size:61 final size:59
Alignment explanation
Indices: 2172422--2172581 Score: 164
Period size: 61 Copynumber: 2.6 Consensus size: 59
2172412 TTCAATAATT
* * * *
2172422 TTTTTCTAAAAAAATAAAAATTACAAAAAATATTTTTTTAAAGGAAAATTGAAAGTATCAA
1 TTTTTCT-TAAAAATAAAATTTTCAAAAAATATATTTTTAAA-GAAAATTGAAAGTATCAA
* *
2172483 -TTTCCTTGAAAAAAAAAAGGTTTT-AAAAAATATATTTTTAGAA-AAAAGTTGAAAGTATCAA
1 TTTTTCTT-AAAAATAAAA--TTTTCAAAAAATATATTTTTA-AAGAAAA-TTGAAAGTATCAA
*
2172544 TTTTTCTTAAAAATAAAATTTTCAAAAAAAAATATTTT
1 TTTTTCTTAAAAATAAAATTTTC-AAAAAATATATTTT
2172582 AAGGAAATTT
Statistics
Matches: 82, Mismatches: 9, Indels: 16
0.77 0.08 0.15
Matches are distributed among these distances:
59 4 0.05
60 18 0.22
61 50 0.61
62 10 0.12
ACGTcount: A:0.52, C:0.05, G:0.07, T:0.36
Consensus pattern (59 bp):
TTTTTCTTAAAAATAAAATTTTCAAAAAATATATTTTTAAAGAAAATTGAAAGTATCAA
Found at i:2172883 original size:53 final size:53
Alignment explanation
Indices: 2172747--2172883 Score: 202
Period size: 53 Copynumber: 2.6 Consensus size: 53
2172737 AAGAAAAACA
* *
2172747 TTTTAAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAATAAAAACTCTAAATG
1 TTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAATAAAAACTCTAAATG
* * * * *
2172800 CTTTAAGGAAAAGTTTAAAGTATTAATTTTTCTTAAAATAAAAACTTTAATTG
1 TTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAATAAAAACTCTAAATG
*
2172853 TTTTAAGGAAAAGTTGAAAGTACCAATTTTT
1 TTTTAAGGAAAAGTTGAAAGTATCAATTTTT
2172884 TTGTACAAAA
Statistics
Matches: 73, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
53 73 1.00
ACGTcount: A:0.44, C:0.07, G:0.11, T:0.38
Consensus pattern (53 bp):
TTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAATAAAAACTCTAAATG
Found at i:2173567 original size:22 final size:22
Alignment explanation
Indices: 2173542--2173602 Score: 79
Period size: 22 Copynumber: 2.8 Consensus size: 22
2173532 AAAATCAATA
2173542 TTAATTTAG-AAGTAAATTATCG
1 TTAATTTAGTAA-TAAATTATCG
*
2173564 TTAATTTAGTAATAAATTATTG
1 TTAATTTAGTAATAAATTATCG
* *
2173586 ATAATTTAATAATAAAT
1 TTAATTTAGTAATAAAT
2173603 CATTTATAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
22 33 0.94
23 2 0.06
ACGTcount: A:0.46, C:0.02, G:0.08, T:0.44
Consensus pattern (22 bp):
TTAATTTAGTAATAAATTATCG
Found at i:2173600 original size:11 final size:11
Alignment explanation
Indices: 2173575--2173633 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
2173565 TAATTTAGTA
*
2173575 ATAAATTATTG
1 ATAAATTAATG
* *
2173586 ATAATTTAATA
1 ATAAATTAATG
* * *
2173597 ATAAATCATTT
1 ATAAATTAATG
*
2173608 ATAATTTAATG
1 ATAAATTAATG
2173619 ATAAATTAATG
1 ATAAATTAATG
2173630 ATAA
1 ATAA
2173634 GTGTTAACTT
Statistics
Matches: 36, Mismatches: 12, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
11 36 1.00
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.42
Consensus pattern (11 bp):
ATAAATTAATG
Found at i:2173611 original size:22 final size:22
Alignment explanation
Indices: 2173565--2173633 Score: 84
Period size: 22 Copynumber: 3.1 Consensus size: 22
2173555 AAATTATCGT
* *
2173565 TAATTTAGTAATAAATTATTGA
1 TAATTTAATAATAAATCATTGA
*
2173587 TAATTTAATAATAAATCATTTA
1 TAATTTAATAATAAATCATTGA
* * *
2173609 TAATTTAATGATAAATTAATGA
1 TAATTTAATAATAAATCATTGA
2173631 TAA
1 TAA
2173634 GTGTTAACTT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.49, C:0.01, G:0.06, T:0.43
Consensus pattern (22 bp):
TAATTTAATAATAAATCATTGA
Found at i:2176944 original size:11 final size:11
Alignment explanation
Indices: 2176928--2176959 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
2176918 TTGTCCTACA
2176928 ATCAACATATC
1 ATCAACATATC
2176939 ATCAACATATC
1 ATCAACATATC
2176950 ATCAACATAT
1 ATCAACATAT
2176960 AATAATAGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.47, C:0.25, G:0.00, T:0.28
Consensus pattern (11 bp):
ATCAACATATC
Found at i:2181068 original size:15 final size:16
Alignment explanation
Indices: 2181034--2181074 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
2181024 GCAAACACAT
2181034 AAATAAATAACTAAACA
1 AAATAAA-AACTAAACA
*
2181051 AAATAAAAA-TAAATA
1 AAATAAAAACTAAACA
2181066 AAATAAAAA
1 AAATAAAAA
2181075 AGGCTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 14 0.61
16 2 0.09
17 7 0.30
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.17
Consensus pattern (16 bp):
AAATAAAAACTAAACA
Found at i:2182017 original size:13 final size:15
Alignment explanation
Indices: 2182001--2182032 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
2181991 GATAAAACCA
2182001 AAAATAATA-AA-AT
1 AAAATAATATAAGAT
2182014 AAAATAATATAAGAT
1 AAAATAATATAAGAT
2182029 AAAA
1 AAAA
2182033 ATAAAAATAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 9 0.53
14 2 0.12
15 6 0.35
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (15 bp):
AAAATAATATAAGAT
Found at i:2191803 original size:22 final size:21
Alignment explanation
Indices: 2191777--2191831 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 21
2191767 ATTTAGTAAT
2191777 AATTATCGATAACTTAACAGTA
1 AATTAT-GATAACTTAACAGTA
*
2191799 AATTAATGATAACTTAATAGTA
1 AATT-ATGATAACTTAACAGTA
*
2191821 GATTAATGATA
1 AATT-ATGATA
2191832 TTTTAATAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 28 0.93
23 2 0.07
ACGTcount: A:0.47, C:0.07, G:0.11, T:0.35
Consensus pattern (21 bp):
AATTATGATAACTTAACAGTA
Found at i:2191837 original size:22 final size:22
Alignment explanation
Indices: 2191784--2192256 Score: 116
Period size: 22 Copynumber: 21.8 Consensus size: 22
2191774 AATAATTATC
*
2191784 GATAACTTAACAGTAAATTAAT
1 GATAACTTAATAGTAAATTAAT
*
2191806 GATAACTTAATAGTAGATTAAT
1 GATAACTTAATAGTAAATTAAT
** *
2191828 GATATTTTAATAGTCAA-TAATT
1 GATAACTTAATAGTAAATTAA-T
** * * *
2191850 GATAACTTTTTATTAAATCAGT
1 GATAACTTAATAGTAAATTAAT
* * * **
2191872 AATAA-TACAATAATAAATGCAT
1 GATAACT-TAATAGTAAATTAAT
* * *
2191894 AATACCTTAATGGTAAATTAAT
1 GATAACTTAATAGTAAATTAAT
* *
2191916 CATAA-TATAATTGTAAATGT-AT
1 GATAACT-TAATAGTAAAT-TAAT
* * * ** * * *
2191938 AACAACATAGCACTAAATCAAG
1 GATAACTTAATAGTAAATTAAT
* *
2191960 GATAACTTAATA-AAAAATAAGT
1 GATAACTTAATAGTAAATTAA-T
* * * *
2191982 AATAACTTAGTAGTTAATTATT
1 GATAACTTAATAGTAAATTAAT
* * * *
2192004 GATAAGTTAGTAATAAATCAAT
1 GATAACTTAATAGTAAATTAAT
*
2192026 GAT-ACTTAATAGTAAATTAGT
1 GATAACTTAATAGTAAATTAAT
* *
2192047 GATAATTTAATAGTAAATCAAT
1 GATAACTTAATAGTAAATTAAT
** * *
2192069 TTTAATTTAATAAT-AATTAAT
1 GATAACTTAATAGTAAATTAAT
* *
2192090 --TTA--TAGTAGTAAATCATAA-
1 GATAACTTAATAGTAAAT--TAAT
* * * *
2192109 -ACAAATTAGTAGTAAATCAAT
1 GATAACTTAATAGTAAATTAAT
* *
2192130 TATAAATTAGA-AGTAAA-TAATT
1 GATAACTTA-ATAGTAAATTAA-T
* * * ** *
2192152 GATAATTTAGTAGTTAACCATT
1 GATAACTTAATAGTAAATTAAT
* * * * *
2192174 GAAAATTTAAAAGTAAATCAGT
1 GATAACTTAATAGTAAATTAAT
* *
2192196 -ATAACTTAATAGTAAATCATT
1 GATAACTTAATAGTAAATTAAT
* * *
2192217 GATAA-TATAAAAGTTAATTAGT
1 GATAACT-TAATAGTAAATTAAT
2192239 GATAACTTAATAGTAAAT
1 GATAACTTAATAGTAAAT
2192257 CATTCATAAT
Statistics
Matches: 321, Mismatches: 104, Indels: 52
0.67 0.22 0.11
Matches are distributed among these distances:
17 5 0.02
18 3 0.01
19 2 0.01
20 6 0.02
21 52 0.16
22 244 0.76
23 9 0.03
ACGTcount: A:0.48, C:0.06, G:0.10, T:0.36
Consensus pattern (22 bp):
GATAACTTAATAGTAAATTAAT
Found at i:2192044 original size:43 final size:43
Alignment explanation
Indices: 2191960--2192068 Score: 112
Period size: 43 Copynumber: 2.5 Consensus size: 43
2191950 CTAAATCAAG
* * * * * *
2191960 GATAACTTAATAAAAAAT-AAGTAATAACTTAGTAGTTAATTATT
1 GATAAGTTAATAATAAATCAA-TGAT-ACTTAATAGTAAATTAGT
*
2192004 GATAAGTTAGTAATAAATCAATGATACTTAATAGTAAATTAGT
1 GATAAGTTAATAATAAATCAATGATACTTAATAGTAAATTAGT
* *
2192047 GATAATTTAATAGTAAATCAAT
1 GATAAGTTAATAATAAATCAAT
2192069 TTTAATTTAA
Statistics
Matches: 54, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
43 34 0.63
44 18 0.33
45 2 0.04
ACGTcount: A:0.49, C:0.05, G:0.11, T:0.36
Consensus pattern (43 bp):
GATAAGTTAATAATAAATCAATGATACTTAATAGTAAATTAGT
Found at i:2192083 original size:65 final size:63
Alignment explanation
Indices: 2191951--2192321 Score: 162
Period size: 65 Copynumber: 5.7 Consensus size: 63
2191941 AACATAGCAC
* ** * * * * * * * *
2191951 TAAATCAAGGATAACTTAATAAAAAATAAGTAATAACTTAGTAGTTAATTATTGATAAGTTAGTA
1 TAAATCAATGAT-A-TTAATAGTAAATCAGTGATAATTTAATAGTAAATCATT-ATAATTTAATA
2192016 A
63 A
* *
2192017 TAAATCAATGATACTTAATAGTAAATTAGTGATAATTTAATAGTAAATCAATTTTAATTTAATAA
1 TAAATCAATGATA-TTAATAGTAAATCAGTGATAATTTAATAGTAAATC-ATTATAATTTAATAA
* * * * * * * *
2192082 T-AATTAAT-TTA-TAGTAGTAAATCA-TAAACAAATTAGTAGTAAATCAATTATAAATTAGA-A
1 TAAATCAATGATATTAATAGTAAATCAGT-GATAATTTAATAGTAAATC-ATTATAATTTA-ATA
*
2192142 G
63 A
* * * * * * * *
2192143 TAAAT-AATTGATAATTTAGTAGTTAACCATTGAAAATTTAAAAGTAAATCAGTATAACTTAATA
1 TAAATCAA-TGAT-A-TTAATAGTAAATCAGTGATAATTTAATAGTAAATCATTATAATTTAATA
*
2192207 G
63 A
* * * * *
2192208 TAAATCATTGATAATATAAAAGTTAATTAGTGATAACTTAATAGTAAATCATTCATAATTTAAT-
1 TAAATCAATGAT-AT-TAATAGTAAATCAGTGATAATTTAATAGTAAATCATT-ATAATTTAATA
2192272 A
63 A
* * * * * * *
2192273 TTAATCAATAATAATTTGATGGTGAATCATTGATAATTTAATGGTAAAT
1 TAAATCAATGAT-A-TTAATAGTAAATCAGTGATAATTTAATAGTAAAT
2192322 TGACGATAAT
Statistics
Matches: 234, Mismatches: 56, Indels: 31
0.73 0.17 0.10
Matches are distributed among these distances:
60 1 0.00
61 40 0.17
62 5 0.02
63 3 0.01
64 9 0.04
65 125 0.53
66 50 0.21
67 1 0.00
ACGTcount: A:0.48, C:0.05, G:0.10, T:0.37
Consensus pattern (63 bp):
TAAATCAATGATATTAATAGTAAATCAGTGATAATTTAATAGTAAATCATTATAATTTAATAA
Found at i:2192087 original size:43 final size:42
Alignment explanation
Indices: 2191996--2192087 Score: 94
Period size: 43 Copynumber: 2.1 Consensus size: 42
2191986 ACTTAGTAGT
* * *
2191996 TAATTATTGATAAGTTAGTAATAAATCAATGATACTTAATAG
1 TAATTAGTGATAAGTTAATAATAAATCAATGATACTTAATAA
* * ** *
2192038 TAAATTAGTGATAATTTAATAGTAAATCAATTTTAATTTAATAA
1 T-AATTAGTGATAAGTTAATAATAAATCAATGAT-ACTTAATAA
2192082 TAATTA
1 TAATTA
2192088 ATTTATAGTA
Statistics
Matches: 40, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
42 1 0.03
43 31 0.77
44 8 0.20
ACGTcount: A:0.47, C:0.03, G:0.09, T:0.41
Consensus pattern (42 bp):
TAATTAGTGATAAGTTAATAATAAATCAATGATACTTAATAA
Found at i:2192270 original size:22 final size:22
Alignment explanation
Indices: 2191983--2192487 Score: 194
Period size: 22 Copynumber: 23.3 Consensus size: 22
2191973 AAAATAAGTA
* * * *
2191983 ATAACTTAGTAGTTAATTATTG
1 ATAATTTAATAGTAAATCATTG
* * * *
2192005 ATAAGTTAGTAATAAATCAATG
1 ATAATTTAATAGTAAATCATTG
* * *
2192027 AT-ACTTAATAGTAAATTAGTG
1 ATAATTTAATAGTAAATCATTG
2192048 ATAATTTAATAGTAAATCAATT-
1 ATAATTTAATAGTAAATC-ATTG
* * * *
2192070 TTAATTTAATAATAATTAATT-
1 ATAATTTAATAGTAAATCATTG
* **
2192091 -T-A--TAGTAGTAAATCATAA
1 ATAATTTAATAGTAAATCATTG
* * *
2192109 ACAAATTAGTAGTAAATCAATT-
1 ATAATTTAATAGTAAATC-ATTG
* *
2192131 ATAAATTAGA-AGTAAATAATTG
1 ATAATTTA-ATAGTAAATCATTG
* * *
2192153 ATAATTTAGTAGTTAACCATTG
1 ATAATTTAATAGTAAATCATTG
* * *
2192175 AAAATTTAAAAGTAAATCAGT-
1 ATAATTTAATAGTAAATCATTG
*
2192196 ATAACTTAATAGTAAATCATTG
1 ATAATTTAATAGTAAATCATTG
* * * * *
2192218 ATAATATAAAAGTTAATTAGTG
1 ATAATTTAATAGTAAATCATTG
* *
2192240 ATAACTTAATAGTAAATCATTC
1 ATAATTTAATAGTAAATCATTG
* * *
2192262 ATAATTTAATA-TTAATCAATA
1 ATAATTTAATAGTAAATCATTG
* * *
2192283 ATAATTTGATGGTGAATCATTG
1 ATAATTTAATAGTAAATCATTG
* * *
2192305 ATAATTTAATGGTAAATTGA-CG
1 ATAATTTAATAGTAAA-TCATTG
** * *
2192327 ATAATTTTGTAATAAATAATT-
1 ATAATTTAATAGTAAATCATTG
* * *
2192348 AAAATTTAAGTAGTAAATTAGTG
1 ATAATTTAA-TAGTAAATCATTG
* * * **
2192371 ACAATATAATACTAAATACA-AA
1 ATAATTTAATAGTAAAT-CATTG
* * * *
2192393 AAAATATAATAGTAAATTATTA
1 ATAATTTAATAGTAAATCATTG
* *
2192415 ATAATTTAGTAGTAAATCATTA
1 ATAATTTAATAGTAAATCATTG
** * * *
2192437 ATAACATAGTAGTAAATTATTA
1 ATAATTTAATAGTAAATCATTG
** *
2192459 ATAACTTTGTTA-TAAATCAGTG
1 ATAA-TTTAATAGTAAATCATTG
2192481 ATAATTT
1 ATAATTT
2192488 TGTAAAAAAT
Statistics
Matches: 359, Mismatches: 104, Indels: 41
0.71 0.21 0.08
Matches are distributed among these distances:
17 10 0.03
19 1 0.00
20 2 0.01
21 67 0.19
22 262 0.73
23 17 0.05
ACGTcount: A:0.47, C:0.05, G:0.10, T:0.38
Consensus pattern (22 bp):
ATAATTTAATAGTAAATCATTG
Found at i:2192524 original size:74 final size:74
Alignment explanation
Indices: 2192424--2192573 Score: 194
Period size: 74 Copynumber: 2.0 Consensus size: 74
2192414 AATAATTTAG
* * * *
2192424 TAGTAAATCATTAATAACATAGTAGTAAATTATTAATAACTTTGTTATAAATCAGTGATAATTTT
1 TAGTAAATCATTAATAACATAGTAGTAAATTATTAATAAATTAGTAATAAATCAATGATAATTTT
*
2192489 GTAAAAAAT
66 ATAAAAAAT
* * * *
2192498 TAGTTAATCATTAATAA-GTATTTAGTAAATTATTAATAAATTAGTAATAAATCAATTATAATTT
1 TAGTAAATCATTAATAACATA-GTAGTAAATTATTAATAAATTAGTAATAAATCAATGATAATTT
*
2192562 TATAATAAAT
65 TATAAAAAAT
2192572 TA
1 TA
2192574 TCAATAACTT
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
73 2 0.03
74 63 0.97
ACGTcount: A:0.47, C:0.04, G:0.07, T:0.41
Consensus pattern (74 bp):
TAGTAAATCATTAATAACATAGTAGTAAATTATTAATAAATTAGTAATAAATCAATGATAATTTT
ATAAAAAAT
Found at i:2192541 original size:19 final size:19
Alignment explanation
Indices: 2192494--2192544 Score: 57
Period size: 22 Copynumber: 2.5 Consensus size: 19
2192484 ATTTTGTAAA
*
2192494 AAATTAGTTAATCATTAAT
1 AAATTAGTAAATCATTAAT
*
2192513 AAGTATTTAGTAAATTATTAAT
1 AA--A-TTAGTAAATCATTAAT
2192535 AAATTAGTAA
1 AAATTAGTAA
2192545 TAAATCAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
19 9 0.33
20 1 0.04
21 1 0.04
22 16 0.59
ACGTcount: A:0.49, C:0.02, G:0.08, T:0.41
Consensus pattern (19 bp):
AAATTAGTAAATCATTAAT
Found at i:2192548 original size:22 final size:22
Alignment explanation
Indices: 2192523--2192705 Score: 100
Period size: 22 Copynumber: 8.3 Consensus size: 22
2192513 AAGTATTTAG
* *
2192523 TAAATTATTAATAAATTAGTAA
1 TAAATAATTAATAACTTAGTAA
*
2192545 TAAATCAATT-ATAATTTTA-TAA
1 TAAAT-AATTAATAA-CTTAGTAA
* * *
2192567 TAAATTATCAATAACTTAGCAA
1 TAAATAATTAATAACTTAGTAA
* ** * * *
2192589 TAAATCACCAATAATTTAATGA
1 TAAATAATTAATAACTTAGTAA
* * * *
2192611 TAAATCATTCATAACTTAATCA
1 TAAATAATTAATAACTTAGTAA
* * * * *
2192633 CAAATCATTCATAAATTAGTAG
1 TAAATAATTAATAACTTAGTAA
* * * *
2192655 TAAATAATTGATAACTAAATAG
1 TAAATAATTAATAACTTAGTAA
*
2192677 TAAATAATTAATAACTTAGTAG
1 TAAATAATTAATAACTTAGTAA
2192699 TAAATAA
1 TAAATAA
2192706 CTGATAATTT
Statistics
Matches: 126, Mismatches: 31, Indels: 8
0.76 0.19 0.05
Matches are distributed among these distances:
21 5 0.04
22 115 0.91
23 6 0.05
ACGTcount: A:0.51, C:0.09, G:0.05, T:0.36
Consensus pattern (22 bp):
TAAATAATTAATAACTTAGTAA
Found at i:2192603 original size:44 final size:44
Alignment explanation
Indices: 2192523--2192628 Score: 115
Period size: 44 Copynumber: 2.4 Consensus size: 44
2192513 AAGTATTTAG
* * * ** *
2192523 TAAATTATTAATAAATTAGTAATAAATCAATTATAATTTTATAA
1 TAAATTATCAATAACTTAGCAATAAATCAACAATAATTTAATAA
* *
2192567 TAAATTATCAATAACTTAGCAATAAATCACCAATAATTTAATGA
1 TAAATTATCAATAACTTAGCAATAAATCAACAATAATTTAATAA
*
2192611 TAAATCATTC-ATAACTTA
1 TAAATTA-TCAATAACTTA
2192629 ATCACAAATC
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
44 50 0.96
45 2 0.04
ACGTcount: A:0.50, C:0.09, G:0.03, T:0.38
Consensus pattern (44 bp):
TAAATTATCAATAACTTAGCAATAAATCAACAATAATTTAATAA
Found at i:2192659 original size:44 final size:44
Alignment explanation
Indices: 2192611--2192705 Score: 111
Period size: 44 Copynumber: 2.2 Consensus size: 44
2192601 AATTTAATGA
* * * *
2192611 TAAATCATTCATAACTTAATCA-CAAATCATTCATAAATTAGTAG
1 TAAATAATTCATAACTAAAT-AGCAAATAATTAATAAATTAGTAG
* * *
2192655 TAAATAATTGATAACTAAATAGTAAATAATTAATAACTTAGTAG
1 TAAATAATTCATAACTAAATAGCAAATAATTAATAAATTAGTAG
2192699 TAAATAA
1 TAAATAA
2192706 CTGATAATTT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
43 1 0.02
44 42 0.98
ACGTcount: A:0.51, C:0.09, G:0.06, T:0.34
Consensus pattern (44 bp):
TAAATAATTCATAACTAAATAGCAAATAATTAATAAATTAGTAG
Found at i:2193055 original size:22 final size:22
Alignment explanation
Indices: 2193030--2193071 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
2193020 GGTTAATAAT
2193030 TGATAACCTAATAATAAATTAA
1 TGATAACCTAATAATAAATTAA
* * *
2193052 TGATAGCTTAATAGTAAATT
1 TGATAACCTAATAATAAATT
2193072 GGTGATAATG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.48, C:0.07, G:0.10, T:0.36
Consensus pattern (22 bp):
TGATAACCTAATAATAAATTAA
Found at i:2193134 original size:23 final size:22
Alignment explanation
Indices: 2193107--2193165 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 22
2193097 TTCAGTTTAA
* *
2193107 TAGTAATTAATTAATAAACTTAG
1 TAGTAAATAATAAAT-AACTTAG
*
2193130 TAGTAAATAATAAATAACTTAC
1 TAGTAAATAATAAATAACTTAG
*
2193152 TAATAAATCAATAA
1 TAGTAAAT-AATAA
2193166 TAATTGTGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
22 13 0.42
23 18 0.58
ACGTcount: A:0.54, C:0.07, G:0.05, T:0.34
Consensus pattern (22 bp):
TAGTAAATAATAAATAACTTAG
Found at i:2193158 original size:22 final size:23
Alignment explanation
Indices: 2193114--2193165 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
2193104 TAATAGTAAT
* * *
2193114 TAATTAATAAACTTAGTAGTAAA
1 TAATAAATAAACTTACTAATAAA
2193137 TAATAAAT-AACTTACTAATAAA
1 TAATAAATAAACTTACTAATAAA
2193159 TCAATAA
1 T-AATAA
2193166 TAATTGTGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 13 0.52
23 12 0.48
ACGTcount: A:0.56, C:0.08, G:0.04, T:0.33
Consensus pattern (23 bp):
TAATAAATAAACTTACTAATAAA
Found at i:2193248 original size:22 final size:22
Alignment explanation
Indices: 2193220--2193262 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
2193210 AATTTAGTAA
*
2193220 TAGTTAATCATCAATAACTTAG
1 TAGTTAATCATCAACAACTTAG
2193242 TAGTTAATCATCAACAACTTA
1 TAGTTAATCATCAACAACTTA
2193263 ATATTAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.42, C:0.16, G:0.07, T:0.35
Consensus pattern (22 bp):
TAGTTAATCATCAACAACTTAG
Found at i:2193407 original size:17 final size:17
Alignment explanation
Indices: 2193372--2193408 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
2193362 AAAAAACTTA
*
2193372 AATAGTAAATCAATCAT
1 AATAGTAAATCAATAAT
*
2193389 AATAGTAAATCACTAAT
1 AATAGTAAATCAATAAT
2193406 AAT
1 AAT
2193409 TTAGTTGTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.54, C:0.11, G:0.05, T:0.30
Consensus pattern (17 bp):
AATAGTAAATCAATAAT
Found at i:2193419 original size:22 final size:22
Alignment explanation
Indices: 2193391--2193442 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
2193381 TCAATCATAA
*
2193391 TAGTAAATCACTAATAATTTAG
1 TAGTAAATCAATAATAATTTAG
*
2193413 TTGTAAATCAATAATAATTTAG
1 TAGTAAATCAATAATAATTTAG
2193435 TAGTAAAT
1 TAGTAAAT
2193443 TAATTAATCA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.46, C:0.06, G:0.10, T:0.38
Consensus pattern (22 bp):
TAGTAAATCAATAATAATTTAG
Found at i:2193538 original size:22 final size:22
Alignment explanation
Indices: 2193483--2193559 Score: 84
Period size: 22 Copynumber: 3.5 Consensus size: 22
2193473 TATAGATAAA
2193483 TTAATAGTAAATCAGTT-GCAAT
1 TTAATAGTAAATCA-TTAGCAAT
* **
2193505 TTTATAACAAATCATTAGCAAT
1 TTAATAGTAAATCATTAGCAAT
* * *
2193527 TTAATAGTAAATTATCAACAAT
1 TTAATAGTAAATCATTAGCAAT
2193549 TTAATAGTAAA
1 TTAATAGTAAA
2193560 CCAGCTGTAA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
21 2 0.04
22 43 0.96
ACGTcount: A:0.47, C:0.09, G:0.08, T:0.36
Consensus pattern (22 bp):
TTAATAGTAAATCATTAGCAAT
Found at i:2193579 original size:66 final size:66
Alignment explanation
Indices: 2193465--2193604 Score: 151
Period size: 66 Copynumber: 2.1 Consensus size: 66
2193455 GATAATTTTG
* * * * *
2193465 TAGTAAATTATAGATAAATTAATAGTAAATCAGTTGCAATTTTATAACAAATCATT-AGCAATTT
1 TAGTAAATTATAGACAAATTAATAGTAAACCAGCTGCAATATTATAACAAATCATTCA-CAAATT
2193529 AA
65 AA
* * *
2193531 TAGTAAATTATCA-ACAATTTAATAGTAAACCAGCTGTAA-ATTAGTAACAAATTATTCACAAAT
1 TAGTAAATTAT-AGACAAATTAATAGTAAACCAGCTGCAATATTA-TAACAAATCATTCACAAAT
*
2193594 TAG
64 TAA
2193597 TAGTAAAT
1 TAGTAAAT
2193605 CAATGTTAAT
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
65 3 0.05
66 57 0.92
67 2 0.03
ACGTcount: A:0.47, C:0.09, G:0.09, T:0.34
Consensus pattern (66 bp):
TAGTAAATTATAGACAAATTAATAGTAAACCAGCTGCAATATTATAACAAATCATTCACAAATTA
A
Found at i:2194052 original size:42 final size:42
Alignment explanation
Indices: 2194005--2194084 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 42
2193995 CCAAAACATT
* *
2194005 TTACTAAAATTTTATC-AAAGATTACCAAAATTGTATCAATGG
1 TTACTAAAATTGTATCGAAA-ATTACCAAAATTATATCAATGG
**
2194047 TTACTAAAATTGTATCGGTAATTACCAAAATTATATCA
1 TTACTAAAATTGTATCGAAAATTACCAAAATTATATCA
2194085 TAAGTTACCA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 32 0.97
43 1 0.03
ACGTcount: A:0.42, C:0.12, G:0.09, T:0.36
Consensus pattern (42 bp):
TTACTAAAATTGTATCGAAAATTACCAAAATTATATCAATGG
Found at i:2194092 original size:21 final size:20
Alignment explanation
Indices: 2194005--2194103 Score: 83
Period size: 21 Copynumber: 4.8 Consensus size: 20
2193995 CCAAAACATT
* *
2194005 TTACTAAAATTTTATCAAAG
1 TTACCAAAATTATATCAAAG
* *
2194025 ATTACCAAAATTGTATCAATGG
1 -TTACCAAAATTATATCAA-AG
* * *
2194047 TTACTAAAATTGTATCGGTAA-
1 TTACCAAAATTATATC--AAAG
2194068 TTACCAAAATTATATCATAAG
1 TTACCAAAATTATATCA-AAG
2194089 TTACCAAAATTATAT
1 TTACCAAAATTATAT
2194104 TGAAGTTATT
Statistics
Matches: 64, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
20 2 0.03
21 60 0.94
22 1 0.02
23 1 0.02
ACGTcount: A:0.43, C:0.12, G:0.08, T:0.36
Consensus pattern (20 bp):
TTACCAAAATTATATCAAAG
Found at i:2194423 original size:42 final size:39
Alignment explanation
Indices: 2194352--2194463 Score: 109
Period size: 42 Copynumber: 2.7 Consensus size: 39
2194342 TTGACAAAAA
* *
2194352 TTACCAAAATTGTATCAATGATTATCAAAATTATATCT-ATTG
1 TTACCAAAATT-TATCAAAG-TTATCAAAATTATAT-TGA-AG
* *
2194394 TTACCAAAATTATATCATAAGTTACCAAAATTGTATTGAAG
1 TTACCAAAATT-TATCA-AAGTTATCAAAATTATATTGAAG
2194435 TTACCAAAAATTTATCAAAAGTTATCAAA
1 TTACC-AAAATTTATC-AAAGTTATCAAA
2194464 TTTTACTTAT
Statistics
Matches: 60, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
41 21 0.35
42 37 0.62
43 2 0.03
ACGTcount: A:0.45, C:0.12, G:0.07, T:0.36
Consensus pattern (39 bp):
TTACCAAAATTTATCAAAGTTATCAAAATTATATTGAAG
Found at i:2194456 original size:21 final size:21
Alignment explanation
Indices: 2194346--2194463 Score: 89
Period size: 21 Copynumber: 5.7 Consensus size: 21
2194336 AAAACTTTGA
* *
2194346 CAAAAATTACCAAAATTGTAT
1 CAAAAGTTACCAAAATTATAT
* *
2194367 C-AATGATTATCAAAATTATAT
1 CAAAAG-TTACCAAAATTATAT
* **
2194388 CTATTGTTACCAAAATTATAT
1 CAAAAGTTACCAAAATTATAT
* *
2194409 CATAAGTTACCAAAATTGTAT
1 CAAAAGTTACCAAAATTATAT
**
2194430 -TGAAGTTACCAAAAATT-TAT
1 CAAAAGTTACC-AAAATTATAT
*
2194450 CAAAAGTTATCAAA
1 CAAAAGTTACCAAA
2194464 TTTTACTTAT
Statistics
Matches: 77, Mismatches: 16, Indels: 9
0.75 0.16 0.09
Matches are distributed among these distances:
20 16 0.21
21 58 0.75
22 3 0.04
ACGTcount: A:0.47, C:0.13, G:0.07, T:0.34
Consensus pattern (21 bp):
CAAAAGTTACCAAAATTATAT
Found at i:2194706 original size:42 final size:42
Alignment explanation
Indices: 2194660--2194773 Score: 119
Period size: 42 Copynumber: 2.7 Consensus size: 42
2194650 AACATTAAAA
*
2194660 TGTTACCAAAATTTTGA-CAAAAATTACCAAAATTGTATCAAC
1 TGTTACCAAAATTAT-ATCAAAAATTACCAAAATTGTATCAAC
* * *
2194702 TGTTACCAAAATTATATCATAAATTATCAAAATTGTATTGAA-
1 TGTTACCAAAATTATATCAAAAATTACCAAAATTGTA-TCAAC
* *
2194744 -GTTACCAAAACTT-TATCAAAAGTTATCAAA
1 TGTTACCAAAA-TTATATCAAAAATTACCAAA
2194774 TTTTACTTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
41 26 0.41
42 34 0.54
43 3 0.05
ACGTcount: A:0.46, C:0.14, G:0.07, T:0.33
Consensus pattern (42 bp):
TGTTACCAAAATTATATCAAAAATTACCAAAATTGTATCAAC
Found at i:2194767 original size:21 final size:21
Alignment explanation
Indices: 2194656--2194773 Score: 91
Period size: 21 Copynumber: 5.6 Consensus size: 21
2194646 AAATAACATT
*
2194656 AAAATGTTACCAAAATTTTGA-C
1 AAAA-GTTACCAAAATTGT-ATC
*
2194678 AAAAATTACCAAAATTGTATC
1 AAAAGTTACCAAAATTGTATC
** *
2194699 AACTGTTACCAAAATTATATC
1 AAAAGTTACCAAAATTGTATC
*
2194720 ATAAA-TTATCAAAATTGTAT-
1 A-AAAGTTACCAAAATTGTATC
**
2194740 TGAAGTTACCAAAACTT-TATC
1 AAAAGTTACCAAAA-TTGTATC
*
2194761 AAAAGTTATCAAA
1 AAAAGTTACCAAA
2194774 TTTTACTTAT
Statistics
Matches: 75, Mismatches: 16, Indels: 11
0.74 0.16 0.11
Matches are distributed among these distances:
19 2 0.03
20 12 0.16
21 56 0.75
22 5 0.07
ACGTcount: A:0.47, C:0.14, G:0.07, T:0.32
Consensus pattern (21 bp):
AAAAGTTACCAAAATTGTATC
Found at i:2214617 original size:52 final size:52
Alignment explanation
Indices: 2214452--2214617 Score: 169
Period size: 53 Copynumber: 3.2 Consensus size: 52
2214442 ATTACTCCAC
* *
2214452 CATTTGGGCCAAATTAGAAATAT-TTTCTTGTTTTGAATTTCTAAATTCTTC-A-
1 CATTTGGGACAATTTAGAAATATCTTT-TT-TTTTGAATTTCTAAATT-TTCTAT
* ** * *
2214504 CTATTTGGGTCAATTTAGAAATATCTTCGCTTTTAGAATTTCTAAATTTT-TCGT
1 C-ATTTGGGACAATTTAGAAATATCTT-TTTTTTTGAATTTCTAAATTTTCT-AT
* *
2214558 CATTTGGGAGAATTTAGAAATATCTTTTTTTTTTAATTTCTAAATTTTCTAT
1 CATTTGGGACAATTTAGAAATATCTTTTTTTTTGAATTTCTAAATTTTCTAT
2214610 CATTTGGG
1 CATTTGGG
2214618 CTTATTTAAA
Statistics
Matches: 94, Mismatches: 13, Indels: 14
0.78 0.11 0.12
Matches are distributed among these distances:
52 30 0.32
53 60 0.64
54 4 0.04
ACGTcount: A:0.27, C:0.11, G:0.13, T:0.49
Consensus pattern (52 bp):
CATTTGGGACAATTTAGAAATATCTTTTTTTTTGAATTTCTAAATTTTCTAT
Found at i:2214625 original size:52 final size:50
Alignment explanation
Indices: 2214465--2214637 Score: 147
Period size: 53 Copynumber: 3.3 Consensus size: 50
2214455 TTGGGCCAAA
2214465 TTAGAAATATTTTCTTGTTTTGAATTTCTAAATTCTTC-A-CTATTTGGGTCAAT
1 TTAGAAATATTTT-TT-TTTTGAATTTCTAAATT-TTCTATC-ATTTGGGT-AAT
** * * *
2214518 TTAGAAATATCTTCGCTTTTAGAATTTCTAAATTTT-TCGTCATTTGGGAGAAT
1 TTAGAAATAT-TT-TTTTTTTGAATTTCTAAATTTTCT-ATCATTTGGG-TAAT
* *
2214571 TTAGAAATATCTTTTTTTTTTAATTTCTAAATTTTCTATCATTTGGGCTTAT
1 TTAGAAATAT-TTTTTTTTTGAATTTCTAAATTTTCTATCATTTGGG-TAAT
*
2214623 TTA-AAAAATTTTTTT
1 TTAGAAATATTTTTTT
2214638 ACTTCTCTTT
Statistics
Matches: 99, Mismatches: 14, Indels: 17
0.76 0.11 0.13
Matches are distributed among these distances:
50 6 0.06
51 5 0.05
52 34 0.34
53 50 0.51
54 4 0.04
ACGTcount: A:0.28, C:0.10, G:0.10, T:0.52
Consensus pattern (50 bp):
TTAGAAATATTTTTTTTTTGAATTTCTAAATTTTCTATCATTTGGGTAAT
Found at i:2215721 original size:31 final size:31
Alignment explanation
Indices: 2215661--2215721 Score: 72
Period size: 31 Copynumber: 2.0 Consensus size: 31
2215651 AGTTTTTTGC
* *
2215661 TTTTTGCTTGTTGTTTTTCTCTGTACTTCTA
1 TTTTTGCTTGTTGTTTTTCTATATACTTCTA
2215692 TTTTTG-TGTGTTGCTTTTTCTATAT-CTTCT
1 TTTTTGCT-TGTTG-TTTTTCTATATACTTCT
2215722 TTTCTATGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
30 1 0.04
31 16 0.62
32 9 0.35
ACGTcount: A:0.07, C:0.15, G:0.13, T:0.66
Consensus pattern (31 bp):
TTTTTGCTTGTTGTTTTTCTATATACTTCTA
Found at i:2216506 original size:20 final size:20
Alignment explanation
Indices: 2216468--2216506 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
2216458 TCATATCCAA
* *
2216468 AAGTTCAAATCTTCTCATTC
1 AAGTTCAAAGCTTCACATTC
*
2216488 AAGTTCAAAGGTTCACATT
1 AAGTTCAAAGCTTCACATT
2216507 TGACAAATTT
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:0.33, C:0.21, G:0.10, T:0.36
Consensus pattern (20 bp):
AAGTTCAAAGCTTCACATTC
Found at i:2216783 original size:46 final size:46
Alignment explanation
Indices: 2216702--2217132 Score: 509
Period size: 46 Copynumber: 9.5 Consensus size: 46
2216692 CTTAAATATT
*
2216702 CTCAAAGATTCTCATTTG-AAAC-TC--AAAGATTCTCATTTAAGA
1 CTCAAAGATTCTTATTTGAAAACATCTTAAAGATTCTCATTTAAGA
* *
2216744 CTCAAAGATTCTTATTTAAAAACGTCTTAAAGATTCTCATTTAAGA
1 CTCAAAGATTCTTATTTGAAAACATCTTAAAGATTCTCATTTAAGA
* * * *
2216790 TTCAAAGGTTCTTATTTGAAAACATCTTAAAGATTTTAATTTAAGA
1 CTCAAAGATTCTTATTTGAAAACATCTTAAAGATTCTCATTTAAGA
*
2216836 CTCAAA-ATTTCTCT-TTTGAAAACATCTTAAAGATTCTTATTTAAGA
1 CTCAAAGA-TTCT-TATTTGAAAACATCTTAAAGATTCTCATTTAAGA
* ** ** *
2216882 CTCAAAAATTCTTATTTGAGGATTTCTTAAAGATTCTTATTTAAGA
1 CTCAAAGATTCTTATTTGAAAACATCTTAAAGATTCTCATTTAAGA
* * * * *
2216928 CTTAAAGATTCTGATTTGAAAATATCTTAAAAATTCTCATTTAAAA
1 CTCAAAGATTCTTATTTGAAAACATCTTAAAGATTCTCATTTAAGA
* * *
2216974 CTCAAATATTCTCAATTGAAAACATCTTAAAGATTCTTTCATTTAAGA
1 CTCAAAGATTCTTATTTGAAAACATCTTAAAGATTC--TCATTTAAGA
* * *
2217022 CTTAAAGATTCTTATTTGAAAACTTCTTAAAGATTTTCATTTAAGA
1 CTCAAAGATTCTTATTTGAAAACATCTTAAAGATTCTCATTTAAGA
* * *
2217068 CTTAAAGATTCTCATTTGAAAACGTCTTAAAGA-T-TCATTTAAGA
1 CTCAAAGATTCTTATTTGAAAACATCTTAAAGATTCTCATTTAAGA
*
2217112 CTCAAAGATTCTCATTTGAAA
1 CTCAAAGATTCTTATTTGAAA
2217133 TTCAAAGATT
Statistics
Matches: 338, Mismatches: 41, Indels: 18
0.85 0.10 0.05
Matches are distributed among these distances:
42 16 0.05
43 4 0.01
44 32 0.09
45 2 0.01
46 243 0.72
47 2 0.01
48 39 0.12
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.39
Consensus pattern (46 bp):
CTCAAAGATTCTTATTTGAAAACATCTTAAAGATTCTCATTTAAGA
Found at i:2217888 original size:14 final size:14
Alignment explanation
Indices: 2217866--2217903 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
2217856 CTTTTATACA
*
2217866 CATTGTCATTCATT
1 CATTATCATTCATT
2217880 CATTATCATTCATT
1 CATTATCATTCATT
2217894 CATTATCATT
1 CATTATCATT
2217904 TCAAATCATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.26, C:0.21, G:0.03, T:0.50
Consensus pattern (14 bp):
CATTATCATTCATT
Found at i:2218344 original size:9 final size:9
Alignment explanation
Indices: 2218332--2218382 Score: 50
Period size: 9 Copynumber: 5.6 Consensus size: 9
2218322 ATTTTTCTTA
2218332 TTTTCATCTT
1 TTTTCATC-T
2218342 TTTTCCAT-T
1 TTTT-CATCT
* *
2218351 CTTTCATTT
1 TTTTCATCT
*
2218360 TTTTCTTCT
1 TTTTCATCT
2218369 TTTTCATCT
1 TTTTCATCT
2218378 TTTTC
1 TTTTC
2218383 TCATCCATTA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
8 3 0.09
9 24 0.71
10 4 0.12
11 3 0.09
ACGTcount: A:0.08, C:0.22, G:0.00, T:0.71
Consensus pattern (9 bp):
TTTTCATCT
Found at i:2218382 original size:18 final size:18
Alignment explanation
Indices: 2218323--2218383 Score: 63
Period size: 18 Copynumber: 3.4 Consensus size: 18
2218313 TAAGTCTTCA
*
2218323 TTTTTCTT-ATTTTCATC
1 TTTTTCTTCTTTTTCATC
* *
2218340 TTTTT-TCCATTCTTTCATT
1 TTTTTCTTC-TT-TTTCATC
2218359 TTTTTCTTCTTTTTCATC
1 TTTTTCTTCTTTTTCATC
2218377 TTTTTCT
1 TTTTTCT
2218384 CATCCATTAG
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
16 1 0.03
17 5 0.14
18 14 0.40
19 13 0.37
20 2 0.06
ACGTcount: A:0.08, C:0.20, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTTTCTTCTTTTTCATC
Found at i:2219156 original size:15 final size:15
Alignment explanation
Indices: 2219136--2219179 Score: 79
Period size: 15 Copynumber: 2.9 Consensus size: 15
2219126 ATTATTGTTA
2219136 TCATTGTCTAAATAT
1 TCATTGTCTAAATAT
2219151 TCATTGTCTAAATAT
1 TCATTGTCTAAATAT
2219166 TCATTGTCTGAAAT
1 TCATTGTCT-AAAT
2219180 TTAAATATGG
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
15 24 0.86
16 4 0.14
ACGTcount: A:0.32, C:0.14, G:0.09, T:0.45
Consensus pattern (15 bp):
TCATTGTCTAAATAT
Found at i:2222214 original size:68 final size:68
Alignment explanation
Indices: 2222100--2222236 Score: 265
Period size: 68 Copynumber: 2.0 Consensus size: 68
2222090 CTTTCTCACC
2222100 TCAAAAATATTCAAGAATTTGATTTCTTGAATAGATTCTGCCATCGGAAAAGGTTTAATATTTTT
1 TCAAAAATATTCAAGAATTTGATTTCTTGAATAGATTCTGCCATCGGAAAAGGTTTAATATTTTT
2222165 TAT
66 TAT
*
2222168 TCAAGAATATTCAAGAATTTGATTTCTTGAATAGATTCTGCCATCGGAAAAGGTTTAATATTTTT
1 TCAAAAATATTCAAGAATTTGATTTCTTGAATAGATTCTGCCATCGGAAAAGGTTTAATATTTTT
2222233 TAT
66 TAT
2222236 T
1 T
2222237 ATAAAAAATA
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 68 1.00
ACGTcount: A:0.34, C:0.10, G:0.14, T:0.42
Consensus pattern (68 bp):
TCAAAAATATTCAAGAATTTGATTTCTTGAATAGATTCTGCCATCGGAAAAGGTTTAATATTTTT
TAT
Found at i:2222354 original size:53 final size:52
Alignment explanation
Indices: 2222293--2222413 Score: 145
Period size: 53 Copynumber: 2.3 Consensus size: 52
2222283 AATTTTCTTG
2222293 TTTTGAATTTTCAAATTCTCCACCATTTTGG-TCAATTTAGAAATATCTTCGT
1 TTTTGAATTTTCAAATTCTCCACCA-TTTGGATCAATTTAGAAATATCTTCGT
* * ** * *
2222345 TTTTAGAATTTTTAAATTTTTTACTATTTGGATCAATTTAGAAATATCTTCTT
1 TTTT-GAATTTTCAAATTCTCCACCATTTGGATCAATTTAGAAATATCTTCGT
2222398 TTTTGGAATTTCTCAA
1 TTTT-GAATTT-TCAA
2222414 TTTTATACCA
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
52 9 0.16
53 46 0.79
54 3 0.05
ACGTcount: A:0.28, C:0.12, G:0.09, T:0.50
Consensus pattern (52 bp):
TTTTGAATTTTCAAATTCTCCACCATTTGGATCAATTTAGAAATATCTTCGT
Found at i:2222416 original size:53 final size:52
Alignment explanation
Indices: 2222314--2222443 Score: 161
Period size: 53 Copynumber: 2.4 Consensus size: 52
2222304 CAAATTCTCC
* *
2222314 ACCATTTTGGTCAATTTAGAAATATCTTCGTTTTTAGAATTTTTAAATTTTTT
1 ACCA-TTTGGTCAATTTAGAAATATCTTCGTTTTTAGAATTTCTAAATTTTAT
* * * *
2222367 ACTATTTGGATCAATTTAGAAATATCTTCTTTTTTGGAATTTCTCAATTTTAT
1 ACCATTTGG-TCAATTTAGAAATATCTTCGTTTTTAGAATTTCTAAATTTTAT
* *
2222420 ACCATTTGGGCCTATTTAGAAATA
1 ACCATTT-GGTCAATTTAGAAATA
2222444 CTTTTTATTT
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
52 5 0.08
53 59 0.89
54 2 0.03
ACGTcount: A:0.29, C:0.12, G:0.11, T:0.48
Consensus pattern (52 bp):
ACCATTTGGTCAATTTAGAAATATCTTCGTTTTTAGAATTTCTAAATTTTAT
Found at i:2234742 original size:19 final size:20
Alignment explanation
Indices: 2234698--2234744 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 20
2234688 TGATAATTTG
* *
2234698 TTAAATTAATTATTTTATCC
1 TTAAATTAATGATTTTATCA
*
2234718 TT-AATTAATGATTTT-TTA
1 TTAAATTAATGATTTTATCA
2234736 TTAAATTAA
1 TTAAATTAA
2234745 AATATTGATT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
18 3 0.13
19 18 0.78
20 2 0.09
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.55
Consensus pattern (20 bp):
TTAAATTAATGATTTTATCA
Found at i:2241304 original size:86 final size:86
Alignment explanation
Indices: 2241170--2241334 Score: 267
Period size: 86 Copynumber: 1.9 Consensus size: 86
2241160 ATAGCTTTAT
* * ** *
2241170 CAATAATAAGTGATGTGAAACAGTTGCTAGTAATTAATTTTGTTCGATTTACTGTATTTATCAGC
1 CAATAATAAGTGATGTGAAACAGTTGCTAGCAATGAATGCTGATCGATTTACTGTATTTATCAGC
2241235 CATGTGATGCTATAGTATTAC
66 CATGTGATGCTATAGTATTAC
* *
2241256 CAATAATAAGTGATGTGAAACAGTTTCTAGCAATGAATGCTGATCGATTTACTGTATTTATCGGC
1 CAATAATAAGTGATGTGAAACAGTTGCTAGCAATGAATGCTGATCGATTTACTGTATTTATCAGC
2241321 CATGTGATGCTATA
66 CATGTGATGCTATA
2241335 TAATATGGGG
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
86 72 1.00
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.37
Consensus pattern (86 bp):
CAATAATAAGTGATGTGAAACAGTTGCTAGCAATGAATGCTGATCGATTTACTGTATTTATCAGC
CATGTGATGCTATAGTATTAC
Found at i:2245905 original size:7 final size:7
Alignment explanation
Indices: 2245892--2245926 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
2245882 TAAAAAAATA
2245892 ATATTTT
1 ATATTTT
*
2245899 GTATTTT
1 ATATTTT
2245906 ATATTTT
1 ATATTTT
2245913 ATATTTT
1 ATATTTT
2245920 AATATTT
1 -ATATTT
2245927 ATAATTATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
7 19 0.76
8 6 0.24
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (7 bp):
ATATTTT
Found at i:2245929 original size:14 final size:15
Alignment explanation
Indices: 2245890--2245926 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
2245880 TTTAAAAAAA
*
2245890 TAATATTTTGTATTT
1 TAATATTTTATATTT
2245905 T-ATATTTTATATTT
1 TAATATTTTATATTT
2245919 TAATATTT
1 TAATATTT
2245927 ATAATTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 13 0.65
15 7 0.35
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (15 bp):
TAATATTTTATATTT
Found at i:2246120 original size:44 final size:42
Alignment explanation
Indices: 2246066--2246170 Score: 104
Period size: 44 Copynumber: 2.4 Consensus size: 42
2246056 GGTGAATTTT
* *
2246066 TTTAATTTTTAATTTGATTT-GATTTGATTTTATTCGTTATTAAA
1 TTTAAATTTT-ATTTGATTTAAATTTGATTTTATT--TTATTAAA
* * * *
2246110 TTTAAATTTTATTTTATTTAAATTTTATTTTATTTTTTTATA
1 TTTAAATTTTATTTGATTTAAATTTGATTTTATTTTATTAAA
*
2246152 TTTAAATTTGATTTCGATT
1 TTTAAATTTTATTT-GATT
2246171 CGATATTATA
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
42 19 0.37
43 11 0.22
44 21 0.41
ACGTcount: A:0.28, C:0.02, G:0.06, T:0.65
Consensus pattern (42 bp):
TTTAAATTTTATTTGATTTAAATTTGATTTTATTTTATTAAA
Found at i:2246121 original size:16 final size:16
Alignment explanation
Indices: 2246102--2246138 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
2246092 ATTTTATTCG
2246102 TTATTAAATTTAAATT
1 TTATTAAATTTAAATT
**
2246118 TTATTTTATTTAAATT
1 TTATTAAATTTAAATT
2246134 TTATT
1 TTATT
2246139 TTATTTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TTATTAAATTTAAATT
Found at i:2246139 original size:16 final size:16
Alignment explanation
Indices: 2246109--2246144 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
2246099 TCGTTATTAA
2246109 ATTTAAATTTTATTTT
1 ATTTAAATTTTATTTT
2246125 ATTTAAATTTTATTTT
1 ATTTAAATTTTATTTT
2246141 ATTT
1 ATTT
2246145 TTTTATATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
ATTTAAATTTTATTTT
Found at i:2246139 original size:21 final size:21
Alignment explanation
Indices: 2246087--2246165 Score: 72
Period size: 21 Copynumber: 3.7 Consensus size: 21
2246077 ATTTGATTTG
*
2246087 ATTTGATTTTATTCGTTA-TTAA
1 ATTTAATTTTATT--TTATTTAA
2246109 ATTTAAATTTTATTTTATTTAA
1 ATTT-AATTTTATTTTATTTAA
* *
2246131 ATTTTATTTTATTTT-TTTAT
1 ATTTAATTTTATTTTATTTAA
*
2246151 ATTTAAATTTGATTT
1 ATTT-AATTTTATTT
2246166 CGATTCGATA
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
20 8 0.16
21 21 0.43
22 12 0.24
23 8 0.16
ACGTcount: A:0.29, C:0.01, G:0.04, T:0.66
Consensus pattern (21 bp):
ATTTAATTTTATTTTATTTAA
Found at i:2246144 original size:10 final size:11
Alignment explanation
Indices: 2246115--2246154 Score: 50
Period size: 10 Copynumber: 3.9 Consensus size: 11
2246105 TTAAATTTAA
2246115 ATTT-TATTTT
1 ATTTATATTTT
*
2246125 ATTTAAATTTT
1 ATTTATATTTT
2246136 ATTT-TATTTT
1 ATTTATATTTT
2246146 -TTTATATTT
1 ATTTATATTT
2246155 AAATTTGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
9 3 0.12
10 14 0.54
11 9 0.35
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (11 bp):
ATTTATATTTT
Found at i:2246153 original size:26 final size:26
Alignment explanation
Indices: 2246115--2246165 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
2246105 TTAAATTTAA
*
2246115 ATTTTATTTTATTTAAATTTTATTTT
1 ATTTTATTTTATTTAAATTTGATTTT
2246141 ATTTT-TTTATATTTAAATTTGATTT
1 ATTTTATTT-TATTTAAATTTGATTT
2246166 CGATTCGATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 3 0.13
26 20 0.87
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (26 bp):
ATTTTATTTTATTTAAATTTGATTTT
Found at i:2246249 original size:20 final size:19
Alignment explanation
Indices: 2246224--2246265 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
2246214 AATAAAATAT
*
2246224 TATTTTTTAAAATATAAAA
1 TATTTTTTTAAATATAAAA
2246243 TATTTTTTTAAATAT-AAA
1 TATTTTTTTAAATATAAAA
2246261 TATTT
1 TATTT
2246266 AAAAATATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TATTTTTTTAAATATAAAA
Found at i:2246863 original size:15 final size:15
Alignment explanation
Indices: 2246820--2246869 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
2246810 ACAAAAAATT
*
2246820 TAAATTAATAAAATGA
1 TAAATTAATAATAT-A
*
2246836 TAAATT-TTAATATA
1 TAAATTAATAATATA
*
2246850 AAAATTAATAATATA
1 TAAATTAATAATATA
2246865 TAAAT
1 TAAAT
2246870 ATTATTTAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
14 6 0.21
15 16 0.57
16 6 0.21
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (15 bp):
TAAATTAATAATATA
Found at i:2264652 original size:21 final size:21
Alignment explanation
Indices: 2264628--2264668 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
2264618 AGATTTTGAA
2264628 GATTC-AGATTTTGAGGGTTTG
1 GATTCAAG-TTTTGAGGGTTTG
*
2264649 GATTTAAGTTTTGAGGGTTT
1 GATTCAAGTTTTGAGGGTTT
2264669 TAGGGTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.20, C:0.02, G:0.32, T:0.46
Consensus pattern (21 bp):
GATTCAAGTTTTGAGGGTTTG
Found at i:2264715 original size:14 final size:14
Alignment explanation
Indices: 2264696--2264803 Score: 65
Period size: 14 Copynumber: 7.5 Consensus size: 14
2264686 GTATGAAAAG
2264696 TTTAGAGTTTTGAT
1 TTTAGAGTTTTGAT
*
2264710 TTTAGAGTTTGAAGAT
1 TTTAGAGTTT--TGAT
* *
2264726 TTTAGGGTTTCGAT
1 TTTAGAGTTTTGAT
** *
2264740 TTTA-AAATTTGAGG
1 TTTAGAGTTTTGA-T
*
2264754 TTTGGAGTTTTGAT
1 TTTAGAGTTTTGAT
* * *
2264768 TTAAGGGTTTGGAT
1 TTTAGAGTTTTGAT
* *
2264782 TTTAAGGGTTTGGAT
1 TTT-AGAGTTTTGAT
2264797 TTTAGAG
1 TTTAGAG
2264804 GGTTTGGATT
Statistics
Matches: 71, Mismatches: 18, Indels: 10
0.72 0.18 0.10
Matches are distributed among these distances:
13 4 0.06
14 35 0.49
15 20 0.28
16 12 0.17
ACGTcount: A:0.23, C:0.01, G:0.28, T:0.48
Consensus pattern (14 bp):
TTTAGAGTTTTGAT
Found at i:2264730 original size:30 final size:29
Alignment explanation
Indices: 2264633--2264857 Score: 106
Period size: 30 Copynumber: 7.6 Consensus size: 29
2264623 TTGAAGATTC
*
2264633 AGATTTTGAGGGTTTGGA-TTTA-AGTTTTG
1 AGATTTT-AGGGTTTTGATTTTAGAG-TTTG
* *
2264662 AGGGTTTTAGGGTTTTG-TTTTA-AGGTATG
1 A-GATTTTAGGGTTTTGATTTTAGA-GTTTG
* * *
2264691 AAAAGTTTAGAGTTTTGATTTTAGAGTTTG
1 -AGATTTTAGGGTTTTGATTTTAGAGTTTG
* * *
2264721 AAGATTTTAGGGTTTCGATTTTAAAATTTG
1 -AGATTTTAGGGTTTTGATTTTAGAGTTTG
* * *
2264751 AG-GTTT-GGAGTTTTGATTTAAGGGTTTG
1 AGATTTTAGG-GTTTTGATTTTAGAGTTTG
*
2264779 -GATTTTAAGGGTTTGGATTTTAGAGGGTTTG
1 AGATTTT-AGGGTTTTGATTTTAGA--GTTTG
* * * *
2264810 -GATTTAAGGAATTTTAGATTTTAGGGATTTT
1 AGATTTTAGG-GTTTT-GATTTTAGAG-TTTG
* *
2264841 AGACTTTAGGATTTTGA
1 AGATTTTAGGGTTTTGA
2264858 AAATTAAGAA
Statistics
Matches: 149, Mismatches: 31, Indels: 31
0.71 0.15 0.15
Matches are distributed among these distances:
27 3 0.02
28 20 0.13
29 41 0.28
30 48 0.32
31 22 0.15
32 15 0.10
ACGTcount: A:0.24, C:0.01, G:0.28, T:0.47
Consensus pattern (29 bp):
AGATTTTAGGGTTTTGATTTTAGAGTTTG
Found at i:2264807 original size:16 final size:15
Alignment explanation
Indices: 2264767--2264818 Score: 88
Period size: 15 Copynumber: 3.5 Consensus size: 15
2264757 GGAGTTTTGA
2264767 TTTAAGGGTTTGGAT
1 TTTAAGGGTTTGGAT
2264782 TTTAAGGGTTTGGAT
1 TTTAAGGGTTTGGAT
2264797 TTTAGAGGGTTTGGA-
1 TTTA-AGGGTTTGGAT
2264812 TTTAAGG
1 TTTAAGG
2264819 AATTTTAGAT
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
14 3 0.08
15 23 0.64
16 10 0.28
ACGTcount: A:0.21, C:0.00, G:0.35, T:0.44
Consensus pattern (15 bp):
TTTAAGGGTTTGGAT
Found at i:2264829 original size:16 final size:16
Alignment explanation
Indices: 2264810--2264848 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
2264800 AGAGGGTTTG
2264810 GATTTAAGGAATTTTA
1 GATTTAAGGAATTTTA
* *
2264826 GATTTTAGGGATTTTA
1 GATTTAAGGAATTTTA
2264842 GACTTTA
1 GA-TTTA
2264849 GGATTTTGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 16 0.84
17 3 0.16
ACGTcount: A:0.31, C:0.03, G:0.21, T:0.46
Consensus pattern (16 bp):
GATTTAAGGAATTTTA
Found at i:2264849 original size:16 final size:15
Alignment explanation
Indices: 2264820--2264855 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
2264810 GATTTAAGGA
*
2264820 ATTTTAGATTTTAGGG
1 ATTTTAGACTTTA-GG
2264836 ATTTTAGACTTTAGG
1 ATTTTAGACTTTAGG
2264851 ATTTT
1 ATTTT
2264856 GAAAATTAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.25, C:0.03, G:0.19, T:0.53
Consensus pattern (15 bp):
ATTTTAGACTTTAGG
Found at i:2266713 original size:24 final size:24
Alignment explanation
Indices: 2266682--2266756 Score: 87
Period size: 24 Copynumber: 3.1 Consensus size: 24
2266672 ACCATGAATC
*
2266682 AAAATCATGCCCGAAGATCTTATA
1 AAAATCATGCCCGAAGGTCTTATA
* * *
2266706 AAAATCATGTCCGGAGGTCTTACA
1 AAAATCATGCCCGAAGGTCTTATA
* * *
2266730 GAAATCATGCCCAAAGGTTTTATA
1 AAAATCATGCCCGAAGGTCTTATA
2266754 AAA
1 AAA
2266757 TTGACTGAAA
Statistics
Matches: 40, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.25
Consensus pattern (24 bp):
AAAATCATGCCCGAAGGTCTTATA
Found at i:2266890 original size:87 final size:87
Alignment explanation
Indices: 2266731--2267005 Score: 230
Period size: 87 Copynumber: 3.2 Consensus size: 87
2266721 GGTCTTACAG
* * * * * * *
2266731 AAATCATGCCCAAAGGTTTTATAAAATTGACTGAAACAACACCGTAAGTCAAGAATAATGAATCA
1 AAATCATGCCCAGAGGTTTTACAGAATCGACTGAGACAACACCGCAAGTCAAGAATAAAGAATCA
2266796 ATCGGGATAAC-ACCGCGAATCA
66 ATCGGGATAACAACC-CGAATCA
* * * *
2266818 AAATTATGCCCAGAGGTTTTACAGAATCGACTGGGACAACATCGCAAGTCAA-AATTAAAGAATT
1 AAATCATGCCCAGAGGTTTTACAGAATCGACTGAGACAACACCGCAAGTCAAGAA-TAAAGAATC
* * * *
2266882 GATTGGGATAACAATCCGAATCG
65 AATCGGGATAACAACCCGAATCA
* ** * * * ** * *
2266905 AAATCATGTCGGGAGGTCTTACAGAATCAACTGAGACAACACCACAAGTTGAGAATAATGAATCG
1 AAATCATGCCCAGAGGTTTTACAGAATCGACTGAGACAACACCGCAAGTCAAGAATAAAGAATCA
** * * **
2266970 ATCGATATAACATCGCGAATTG
66 ATCGGGATAACAACCCGAATCA
*
2266992 AAATTATGCCCAGA
1 AAATCATGCCCAGA
2267006 AGTCTTAGAA
Statistics
Matches: 146, Mismatches: 39, Indels: 6
0.76 0.20 0.03
Matches are distributed among these distances:
86 2 0.01
87 140 0.96
88 4 0.03
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.22
Consensus pattern (87 bp):
AAATCATGCCCAGAGGTTTTACAGAATCGACTGAGACAACACCGCAAGTCAAGAATAAAGAATCA
ATCGGGATAACAACCCGAATCA
Found at i:2267011 original size:87 final size:86
Alignment explanation
Indices: 2266760--2267012 Score: 247
Period size: 87 Copynumber: 2.9 Consensus size: 86
2266750 TATAAAATTG
* ** * * *
2266760 ACTGAAACAACACCGTAAGTCAAGAATAATGAATCAATCGGGATAACACCGCGAATCAAAATTAT
1 ACTGAGACAACACCACAAGTC-AGAATAATGAATCGATCGGGATAACATCGCGAATCGAAATTAT
* *
2266825 GCCCAGAGGTTTTACAGAATCG
65 GCCCAGAGGTCTTACAGAATCA
* * * * * * * *
2266847 ACTGGGACAACATCGCAAGTCAAAATTAAAGAATTGATTGGGATAACAATC-CGAATCGAAATCA
1 ACTGAGACAACACCACAAGTCAGAA-TAATGAATCGATCGGGATAAC-ATCGCGAATCGAAATTA
* **
2266911 TGTCGGGAGGTCTTACAGAATCA
64 TGCCCAGAGGTCTTACAGAATCA
* ** *
2266934 ACTGAGACAACACCACAAGTTGAGAATAATGAATCGATCGATATAACATCGCGAATTGAAATTAT
1 ACTGAGACAACACCACAAG-TCAGAATAATGAATCGATCGGGATAACATCGCGAATCGAAATTAT
*
2266999 GCCCAGAAGTCTTA
65 GCCCAGAGGTCTTA
2267013 GAAATCATGC
Statistics
Matches: 129, Mismatches: 33, Indels: 8
0.76 0.19 0.05
Matches are distributed among these distances:
86 6 0.05
87 117 0.91
88 6 0.05
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.21
Consensus pattern (86 bp):
ACTGAGACAACACCACAAGTCAGAATAATGAATCGATCGGGATAACATCGCGAATCGAAATTATG
CCCAGAGGTCTTACAGAATCA
Found at i:2267107 original size:196 final size:196
Alignment explanation
Indices: 2266836--2267215 Score: 469
Period size: 196 Copynumber: 1.9 Consensus size: 196
2266826 CCCAGAGGTT
* * * ** *
2266836 TTACAGAATCGACTGGGACAACATCGCAAGTCAAAATTAAAGAATTGATTGGGATAACAATCCGA
1 TTACAAAATCGACTGGGACAACACCGCAAGTCAAAATTAAAGAATCGATCCGGATAACAACCCGA
* * *** *
2266901 ATCGAAATCATGTCGGGAGGTCTTACAGAATCAACT-GAGACAACACCACAAGTTGAGAATAATG
66 ATCAAAATCATGCCCAAAGGTCTTACAGAATCAACTAG-GACAACACCACAAGTCGAGAATAATG
* * * *
2266965 AATCGATCGATATAACATCGCGAATTGAAATTATGCCCAGAA-GTCTTAGAAATCATGCCTGAAA
130 AATCGATCGAGATAACACCGCAAATTGAAATTATACCC-GAAGGTCTTAGAAATCATGCCTGAAA
2267029 GTC
194 GTC
* * *
2267032 TTACAAAATCGACTGGGATAACACCGTAAGTCAAAATTAAAGAATCGATCCGGATAA-TACCGCG
1 TTACAAAATCGACTGGGACAACACCGCAAGTCAAAATTAAAGAATCGATCCGGATAACAACC-CG
* * **
2267096 AATCAAAATCATGCCCAAAGGTCTTACAGAATCGACTAGGATAACACCGTAAGTCGAGAATAATG
65 AATCAAAATCATGCCCAAAGGTCTTACAGAATCAACTAGGACAACACCACAAGTCGAGAATAATG
* * * *
2267161 AATCGATTGGGATAACACCGTAAATTGAAATTATACTCGAAGGTCTTAGAAATCA
130 AATCGATCGAGATAACACCGCAAATTGAAATTATACCCGAAGGTCTTAGAAATCA
2267216 AGATCTTTAA
Statistics
Matches: 154, Mismatches: 27, Indels: 6
0.82 0.14 0.03
Matches are distributed among these distances:
195 5 0.03
196 148 0.96
197 1 0.01
ACGTcount: A:0.40, C:0.18, G:0.19, T:0.22
Consensus pattern (196 bp):
TTACAAAATCGACTGGGACAACACCGCAAGTCAAAATTAAAGAATCGATCCGGATAACAACCCGA
ATCAAAATCATGCCCAAAGGTCTTACAGAATCAACTAGGACAACACCACAAGTCGAGAATAATGA
ATCGATCGAGATAACACCGCAAATTGAAATTATACCCGAAGGTCTTAGAAATCATGCCTGAAAGT
C
Found at i:2267174 original size:87 final size:87
Alignment explanation
Indices: 2267014--2267180 Score: 230
Period size: 87 Copynumber: 1.9 Consensus size: 87
2267004 GAAGTCTTAG
* *
2267014 AAATCATGCCTGAAAGTCTTACAAAATCGACTGGGATAACACCGTAAGTCAAAATTAAAGAATCG
1 AAATCATGCCTCAAAGTCTTACAAAATCGACTAGGATAACACCGTAAGTCAAAATTAAAGAATCG
*
2267079 ATCCGGATAATACCGCGAATCA
66 ATCCGGATAACACCGCGAATCA
* * *
2267101 AAATCATGCC-CAAAGGTCTTACAGAATCGACTAGGATAACACCGTAAGTCGAGAA-TAATGAAT
1 AAATCATGCCTCAAA-GTCTTACAAAATCGACTAGGATAACACCGTAAGTC-AAAATTAAAGAAT
**
2267164 CGATTGGGATAACACCG
64 CGATCCGGATAACACCG
2267181 TAAATTGAAA
Statistics
Matches: 70, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
86 3 0.04
87 64 0.91
88 3 0.04
ACGTcount: A:0.40, C:0.20, G:0.19, T:0.20
Consensus pattern (87 bp):
AAATCATGCCTCAAAGTCTTACAAAATCGACTAGGATAACACCGTAAGTCAAAATTAAAGAATCG
ATCCGGATAACACCGCGAATCA
Found at i:2267204 original size:87 final size:87
Alignment explanation
Indices: 2267029--2267208 Score: 209
Period size: 87 Copynumber: 2.1 Consensus size: 87
2267019 ATGCCTGAAA
* *
2267029 GTCTTACAAAATCGACTGGGATAACACCGTAAGTCAAAATTAAAGAATCGATCCGGATAATACCG
1 GTCTTACAAAATCGACTAGGATAACACCGTAAGTCAAAATTAAAGAATCGATCCGGATAACACCG
* *
2267094 CGAATCAAAATCATGCCCAAAG
66 CAAATCAAAATCATACCCAAAG
* * * **
2267116 GTCTTACAGAATCGACTAGGATAACACCGTAAGTCGAGAA-TAATGAATCGATTGGGATAACACC
1 GTCTTACAAAATCGACTAGGATAACACCGTAAGTC-AAAATTAAAGAATCGATCCGGATAACACC
* ** * * *
2267180 GTAAATTGAAATTATACTCGAAG
65 GCAAATCAAAATCATACCCAAAG
2267203 GTCTTA
1 GTCTTA
2267209 GAAATCAAGA
Statistics
Matches: 77, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
87 74 0.96
88 3 0.04
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.23
Consensus pattern (87 bp):
GTCTTACAAAATCGACTAGGATAACACCGTAAGTCAAAATTAAAGAATCGATCCGGATAACACCG
CAAATCAAAATCATACCCAAAG
Found at i:2267626 original size:41 final size:41
Alignment explanation
Indices: 2267545--2267626 Score: 110
Period size: 41 Copynumber: 2.0 Consensus size: 41
2267535 TCTTGTGCAA
* *
2267545 GTACAAATGCAAGTGATGCAAATACAAATGTCTCTCTTATG
1 GTACAAATGCAAGTGATGCAAATACAAATATCCCTCTTATG
* * * *
2267586 GTACAAATGTAAGTGATGTAAATGCAAATATCCCTTTTATG
1 GTACAAATGCAAGTGATGCAAATACAAATATCCCTCTTATG
2267627 ATGCACAAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.32
Consensus pattern (41 bp):
GTACAAATGCAAGTGATGCAAATACAAATATCCCTCTTATG
Found at i:2267884 original size:33 final size:32
Alignment explanation
Indices: 2267818--2268102 Score: 295
Period size: 32 Copynumber: 8.8 Consensus size: 32
2267808 TTTTATAAAA
* *
2267818 GGCCAGCTAAACTGGGCTTAAATGTCATTGAT
1 GGCCAGATAAACTGGGCTTAAATTTCATTGAT
* *
2267850 GGTCAGATAAATTGGGCTTAAAGTTTCATTGAT
1 GGCCAGATAAACTGGGCTTAAA-TTTCATTGAT
* *
2267883 GGCCAGATAAACTGAGCTTAAAACTTCATTGAT
1 GGCCAGATAAACTGGGCTT-AAATTTCATTGAT
* * * *
2267916 AGTCAGATAAACTGGACTTAAATGTCATTTGA-
1 GGCCAGATAAACTGGGCTTAAATTTCA-TTGAT
* *
2267948 GGCCAGATAAACTGGACTTAAAGCTTCATTGAT
1 GGCCAGATAAACTGGGCTTAAA-TTTCATTGAT
* * * * *
2267981 GACCAGATAAATTGAGCTTAAATTTTATT-TT
1 GGCCAGATAAACTGGGCTTAAATTTCATTGAT
*
2268012 AGGCCAGATAAACTGAGCTTTAAATTTCATTGAT
1 -GGCCAGATAAACTGGGC-TTAAATTTCATTGAT
*
2268046 GGCCAGATAAATTGGGCTTAAATTTCATTGAT
1 GGCCAGATAAACTGGGCTTAAATTTCATTGAT
*** *
2268078 GATTAGATAAACTGAGCTTAAATTT
1 GGCCAGATAAACTGGGCTTAAATTT
2268103 TTATTTTTTT
Statistics
Matches: 209, Mismatches: 36, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
31 1 0.00
32 104 0.50
33 100 0.48
34 4 0.02
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.33
Consensus pattern (32 bp):
GGCCAGATAAACTGGGCTTAAATTTCATTGAT
Found at i:2267895 original size:65 final size:64
Alignment explanation
Indices: 2267818--2268100 Score: 306
Period size: 65 Copynumber: 4.4 Consensus size: 64
2267808 TTTTATAAAA
* * *
2267818 GGCCAGCTAAACTGGGCTTAAATGTCATTGATGGTCAGATAAATTGGGCTTAAAGTTTCATTGAT
1 GGCCAGATAAACTGAGCTTAAATGTCATTGATGGCCAGATAAATTGGGCTTAAA-TTTCATTGAT
* * * * *
2267883 GGCCAGATAAACTGAGCTTAAAACT-TCATTGATAGTCAGATAAACTGGACTTAAATGTCATTTG
1 GGCCAGATAAACTGAGCTT-AAA-TGTCATTGATGGCCAGATAAATTGGGCTTAAATTTCA-TTG
2267947 A-
63 AT
* * *
2267948 GGCCAGATAAACTG-GACTTAAA-GCTTCATTGATGACCAGATAAATTGAGCTTAAATTTTATT-
1 GGCCAGATAAACTGAG-CTTAAATG--TCATTGATGGCCAGATAAATTGGGCTTAAATTTCATTG
*
2268010 TT
63 AT
*
2268012 AGGCCAGATAAACTGAGCTTTAAATTTCATTGATGGCCAGATAAATTGGGCTTAAATTTCATTGA
1 -GGCCAGATAAACTGAGC-TTAAATGTCATTGATGGCCAGATAAATTGGGCTTAAATTTCATTGA
2268077 T
64 T
***
2268078 GATTAGATAAACTGAGCTTAAAT
1 GGCCAGATAAACTGAGCTTAAAT
2268101 TTTTATTTTT
Statistics
Matches: 182, Mismatches: 23, Indels: 27
0.78 0.10 0.12
Matches are distributed among these distances:
64 12 0.07
65 128 0.70
66 41 0.23
67 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.32
Consensus pattern (64 bp):
GGCCAGATAAACTGAGCTTAAATGTCATTGATGGCCAGATAAATTGGGCTTAAATTTCATTGAT
Found at i:2267997 original size:98 final size:98
Alignment explanation
Indices: 2267817--2268099 Score: 360
Period size: 98 Copynumber: 2.9 Consensus size: 98
2267807 ATTTTATAAA
* * *
2267817 AGGCCAGCTAAACTGGGCTTAAATGTCATTGATGGTCAGATAAATTGGGCTTAAAGTTTCATTGA
1 AGGCCAGATAAACTGGACTTAAATGTCATTGATGGCCAGATAAATTGGGCTTAAAGTTTCATTGA
*
2267882 TGGCCAGATAAACTGAGCTTAAAACTTCATTGAT
66 TGACCAGATAAACTGAGCTTAAAACTTCATT-AT
* * * *
2267916 A-GTCAGATAAACTGGACTTAAATGTCATTTGA-GGCCAGATAAACTGGACTTAAAGCTTCATTG
1 AGGCCAGATAAACTGGACTTAAATGTCA-TTGATGGCCAGATAAATTGGGCTTAAAGTTTCATTG
* * * *
2267979 ATGACCAGATAAATTGAGCTT-AAATTTTATTTT
65 ATGACCAGATAAACTGAGCTTAAAACTTCATTAT
*
2268012 AGGCCAGATAAACT-GAGCTTTAAATTTCATTGATGGCCAGATAAATTGGGCTTAAA-TTTCATT
1 AGGCCAGATAAACTGGA-C-TTAAATGTCATTGATGGCCAGATAAATTGGGCTTAAAGTTTCATT
**
2268075 GATGATTAGATAAACTGAGCTTAAA
64 GATGACCAGATAAACTGAGCTTAAA
2268100 TTTTTATTTT
Statistics
Matches: 158, Mismatches: 20, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
96 4 0.03
97 49 0.31
98 100 0.63
99 5 0.03
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.32
Consensus pattern (98 bp):
AGGCCAGATAAACTGGACTTAAATGTCATTGATGGCCAGATAAATTGGGCTTAAAGTTTCATTGA
TGACCAGATAAACTGAGCTTAAAACTTCATTAT
Found at i:2268951 original size:32 final size:33
Alignment explanation
Indices: 2268887--2268963 Score: 95
Period size: 32 Copynumber: 2.4 Consensus size: 33
2268877 GTATATTTTA
* *
2268887 TTTTATGCTTTCTACCCATTCATTTTTTTCTTT
1 TTTTATTCTTTCTACCCATTCATTTCTTTCTTT
*
2268920 TTTTATTCTTT-TACTC-TTCATTTCCTTTCTTT
1 TTTTATTCTTTCTACCCATTCATTT-CTTTCTTT
*
2268952 TTTTTTTCTTTC
1 TTTTATTCTTTC
2268964 ATTGAATGGA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
31 7 0.18
32 21 0.55
33 10 0.26
ACGTcount: A:0.09, C:0.21, G:0.01, T:0.69
Consensus pattern (33 bp):
TTTTATTCTTTCTACCCATTCATTTCTTTCTTT
Found at i:2273780 original size:38 final size:38
Alignment explanation
Indices: 2273729--2273805 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
2273719 AATGTGTATG
*
2273729 TAAGGAATATTATGTTGCAAGGATAATGGGATATGAAA
1 TAAGGAATATTATGTTACAAGGATAATGGGATATGAAA
* *
2273767 TAAGGAATATTATGTTACAGGGATAGTGGGATATGAAA
1 TAAGGAATATTATGTTACAAGGATAATGGGATATGAAA
2273805 T
1 T
2273806 GCAACGTTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.40, C:0.03, G:0.27, T:0.30
Consensus pattern (38 bp):
TAAGGAATATTATGTTACAAGGATAATGGGATATGAAA
Found at i:2276027 original size:15 final size:15
Alignment explanation
Indices: 2276000--2276112 Score: 95
Period size: 16 Copynumber: 7.4 Consensus size: 15
2275990 TTGAGGTTTG
*
2276000 GGGTTTTGA-TTTAA
1 GGGTTTGGATTTTAA
2276014 GGGTTTGGATTTTAA
1 GGGTTTGGATTTTAA
2276029 GGGTTTGGATTTT-A
1 GGGTTTGGATTTTAA
* *
2276043 GGGTTTCGAATTTTAG
1 GGGTTT-GGATTTTAA
*
2276059 GGGTTTTAGATTTTAGA
1 GGG-TTTGGATTTTA-A
* *
2276076 GGGTTTAGATTTAACA
1 GGGTTTGGATTTTA-A
** *
2276092 GATTTTGGATTTTAG
1 GGGTTTGGATTTTAA
2276107 GGGTTT
1 GGGTTT
2276113 TGGACTTTAG
Statistics
Matches: 79, Mismatches: 15, Indels: 9
0.77 0.15 0.09
Matches are distributed among these distances:
14 15 0.19
15 28 0.35
16 30 0.38
17 6 0.08
ACGTcount: A:0.20, C:0.02, G:0.31, T:0.47
Consensus pattern (15 bp):
GGGTTTGGATTTTAA
Found at i:2276033 original size:29 final size:29
Alignment explanation
Indices: 2276000--2276087 Score: 95
Period size: 29 Copynumber: 2.9 Consensus size: 29
2275990 TTGAGGTTTG
2276000 GGGTTTTGATTTAAGGGTTTGGATTTTAA
1 GGGTTTTGATTTAAGGGTTTGGATTTTAA
* * * *
2276029 GGGTTTGGATTTTAGGGTTTCGAATTTTAG
1 GGGTTTTGATTTAAGGGTTT-GGATTTTAA
*
2276059 GGGTTTTAGATTTTAGAGGGTTTAGATTT
1 GGGTTTT-GA-TTTA-AGGGTTTGGATTT
2276088 AACAGATTTT
Statistics
Matches: 47, Mismatches: 8, Indels: 5
0.78 0.13 0.08
Matches are distributed among these distances:
29 18 0.38
30 13 0.28
31 2 0.04
32 7 0.15
33 7 0.15
ACGTcount: A:0.19, C:0.01, G:0.32, T:0.48
Consensus pattern (29 bp):
GGGTTTTGATTTAAGGGTTTGGATTTTAA
Found at i:2276127 original size:31 final size:31
Alignment explanation
Indices: 2276032--2276129 Score: 76
Period size: 31 Copynumber: 3.1 Consensus size: 31
2276022 ATTTTAAGGG
* * * *
2276032 TTTGGATTTTA-GGGTTTCGAATTTTAGGGGT
1 TTTGGATTTTAGGGGTTTTGGA-TTTACGGAT
* * *
2276063 TTTAGATTTTAGAGGG-TTTAGATTTAACAGAT
1 TTTGGATTTTAG-GGGTTTTGGATTT-ACGGAT
2276095 TTTGGATTTTAGGGGTTTTGGACTTTA-GGAT
1 TTTGGATTTTAGGGGTTTTGGA-TTTACGGAT
2276126 TTTG
1 TTTG
2276130 AAAATTAAGA
Statistics
Matches: 52, Mismatches: 10, Indels: 10
0.72 0.14 0.14
Matches are distributed among these distances:
31 23 0.44
32 23 0.44
33 6 0.12
ACGTcount: A:0.20, C:0.03, G:0.29, T:0.48
Consensus pattern (31 bp):
TTTGGATTTTAGGGGTTTTGGATTTACGGAT
Found at i:2276395 original size:3 final size:3
Alignment explanation
Indices: 2276389--2276426 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
2276379 AATAATAATA
2276389 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
2276427 CTTAAACATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:2281119 original size:16 final size:16
Alignment explanation
Indices: 2281086--2281138 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
2281076 TTTTAATTAA
*
2281086 TTATTTAATTTT-TAT
1 TTATATAATTTTATAT
2281101 TTATAT-ATTTATATAT
1 TTATATAATTT-TATAT
*
2281117 TTATTTAATTTTATAT
1 TTATATAATTTTATAT
2281133 TTATAT
1 TTATAT
2281139 TTAAAAAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
14 4 0.12
15 6 0.19
16 18 0.56
17 4 0.12
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TTATATAATTTTATAT
Found at i:2281161 original size:21 final size:20
Alignment explanation
Indices: 2281132--2281176 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
2281122 TAATTTTATA
*
2281132 TTTATATTTAAAAAATAATAT
1 TTTACATTT-AAAAATAATAT
2281153 TTTACATTTAAAAATAATAT
1 TTTACATTTAAAAATAATAT
2281173 TTTA
1 TTTA
2281177 TTAATTTTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 15 0.65
21 8 0.35
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (20 bp):
TTTACATTTAAAAATAATAT
Found at i:2282132 original size:24 final size:25
Alignment explanation
Indices: 2282071--2282132 Score: 65
Period size: 24 Copynumber: 2.4 Consensus size: 25
2282061 TTTAATACTT
*
2282071 ATTTTCTTTATTCATTTATTCTTTTA
1 ATTTT-TTTATTCATTTATTCTTTAA
*
2282097 ATTTTTCATATT-A-TTATTCTTTAA
1 ATTTTT-TTATTCATTTATTCTTTAA
2282121 ATATTTTTTATT
1 AT-TTTTTTATT
2282133 TATAAATTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
24 16 0.52
25 6 0.19
26 9 0.29
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (25 bp):
ATTTTTTTATTCATTTATTCTTTAA
Found at i:2283573 original size:53 final size:53
Alignment explanation
Indices: 2283493--2283596 Score: 190
Period size: 53 Copynumber: 2.0 Consensus size: 53
2283483 TCTCAAACCC
*
2283493 ATCATCTTTGGCATTGATAGCAACAAATTTGGGATAGCCAACTAAGGTATGGT
1 ATCATCTTTGGCATTGATAGCAACAAATATGGGATAGCCAACTAAGGTATGGT
*
2283546 ATCATCTTTGGCATTGATAGCAACAAATATGGGATAGCCAGCTAAGGTATG
1 ATCATCTTTGGCATTGATAGCAACAAATATGGGATAGCCAACTAAGGTATG
2283597 ATTTAGGAGC
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 49 1.00
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (53 bp):
ATCATCTTTGGCATTGATAGCAACAAATATGGGATAGCCAACTAAGGTATGGT
Found at i:2284406 original size:25 final size:24
Alignment explanation
Indices: 2284360--2284406 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
2284350 ATTAAAATAG
**
2284360 TAAAATTTATTTTTTTCTTAATTT
1 TAAAATTTATTTTTTTAATAATTT
2284384 TAAAATTTATATTTTTTAATAAT
1 TAAAATTTAT-TTTTTTAATAAT
2284407 GAGTTTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (24 bp):
TAAAATTTATTTTTTTAATAATTT
Found at i:2286767 original size:36 final size:36
Alignment explanation
Indices: 2286720--2286791 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
2286710 GATAACATTT
* *
2286720 TTTATATTTTCAGTATGATGCATTTAATTTATGCAC
1 TTTATACTTTCAATATGATGCATTTAATTTATGCAC
2286756 TTTATACTTTCAATATGATGCATTTAATTTATGCAC
1 TTTATACTTTCAATATGATGCATTTAATTTATGCAC
2286792 CAAGTAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.29, C:0.12, G:0.10, T:0.49
Consensus pattern (36 bp):
TTTATACTTTCAATATGATGCATTTAATTTATGCAC
Found at i:2292739 original size:24 final size:24
Alignment explanation
Indices: 2292707--2292752 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 24
2292697 AAATTTTTAA
*
2292707 TTATAATTTTAATAATTT-AATATG
1 TTATAA-TTTAAGAATTTCAATATG
*
2292731 TTATGATTTAAGAATTTCAATA
1 TTATAATTTAAGAATTTCAATA
2292753 ATATATGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.50
Consensus pattern (24 bp):
TTATAATTTAAGAATTTCAATATG
Found at i:2299059 original size:17 final size:17
Alignment explanation
Indices: 2299027--2299061 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
2299017 TTAATCCACT
2299027 TATAATATAAATATAAA
1 TATAATATAAATATAAA
2299044 TATAA-ATAAATCATAAA
1 TATAATATAAAT-ATAAA
2299061 T
1 T
2299062 TAAGCTCCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (17 bp):
TATAATATAAATATAAA
Found at i:2301186 original size:18 final size:18
Alignment explanation
Indices: 2301163--2301199 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
2301153 AATCAAGCTA
2301163 TATATATTTTTTAAATTT
1 TATATATTTTTTAAATTT
2301181 TATATATTTTTTAAATTT
1 TATATATTTTTTAAATTT
2301199 T
1 T
2301200 TATCAAAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TATATATTTTTTAAATTT
Found at i:2301236 original size:13 final size:13
Alignment explanation
Indices: 2301217--2301255 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
2301207 ATCTATTTAA
2301217 ATATATTAAAATT
1 ATATATTAAAATT
* *
2301230 TTATATTAAAATA
1 ATATATTAAAATT
2301243 ATATA-TAAAATT
1 ATATATTAAAATT
2301255 A
1 A
2301256 AAAATTAATA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
12 7 0.32
13 15 0.68
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATATATTAAAATT
Found at i:2301309 original size:30 final size:32
Alignment explanation
Indices: 2301268--2301326 Score: 86
Period size: 30 Copynumber: 1.9 Consensus size: 32
2301258 AATTAATAAA
*
2301268 TCAAATCAAATT-AAT-AAAATTTAATTCGAT
1 TCAAATCAAATTAAATAAAAATTCAATTCGAT
*
2301298 TCAATTCAAATTAAATAAAAATTCAATTC
1 TCAAATCAAATTAAATAAAAATTCAATTC
2301327 AAACTCAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 11 0.44
31 3 0.12
32 11 0.44
ACGTcount: A:0.51, C:0.12, G:0.02, T:0.36
Consensus pattern (32 bp):
TCAAATCAAATTAAATAAAAATTCAATTCGAT
Found at i:2301915 original size:15 final size:13
Alignment explanation
Indices: 2301895--2301929 Score: 52
Period size: 15 Copynumber: 2.5 Consensus size: 13
2301885 AACATAATAT
2301895 AATAATACAATATAA
1 AATAATACAA-A-AA
2301910 AATAATACAAAAA
1 AATAATACAAAAA
2301923 AATAATA
1 AATAATA
2301930 TGATTTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 9 0.45
14 1 0.05
15 10 0.50
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.23
Consensus pattern (13 bp):
AATAATACAAAAA
Found at i:2306579 original size:15 final size:15
Alignment explanation
Indices: 2306555--2306584 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2306545 TCTTAAAGTG
*
2306555 CTTTTTTTTTCTCTT
1 CTTTTCTTTTCTCTT
2306570 CTTTTCTTTTCTCTT
1 CTTTTCTTTTCTCTT
2306585 GTATATGTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (15 bp):
CTTTTCTTTTCTCTT
Found at i:2319406 original size:12 final size:13
Alignment explanation
Indices: 2319379--2319422 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
2319369 ATATATGAAC
2319379 TTTTATTTTTATA
1 TTTTATTTTTATA
2319392 TTTTATTTTTA-A
1 TTTTATTTTTATA
*
2319404 TTTT-TTTTAATA
1 TTTTATTTTTATA
2319416 TTTTATT
1 TTTTATT
2319423 ATATAAATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
11 5 0.18
12 10 0.36
13 13 0.46
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTATTTTTATA
Found at i:2319989 original size:12 final size:12
Alignment explanation
Indices: 2319972--2319996 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2319962 AAGATGAGTC
2319972 AATTAATAATTA
1 AATTAATAATTA
2319984 AATTAATAATTA
1 AATTAATAATTA
2319996 A
1 A
2319997 TAAAAAAATT
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
AATTAATAATTA
Found at i:2319996 original size:19 final size:19
Alignment explanation
Indices: 2319972--2320013 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
2319962 AAGATGAGTC
**
2319972 AATTAATAATTAAATTAAT
1 AATTAATAAAAAAATTAAT
*
2319991 AATTAATAAAAAAATTTAT
1 AATTAATAAAAAAATTAAT
2320010 AATT
1 AATT
2320014 CATTAACGAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
AATTAATAAAAAAATTAAT
Found at i:2320822 original size:56 final size:57
Alignment explanation
Indices: 2320692--2320806 Score: 196
Period size: 58 Copynumber: 2.0 Consensus size: 57
2320682 ATGAAAAGAT
*
2320692 GTTTTTATGCAAATTAGCTACTAATTTACTAAAAAAAAAAAATTCATACGTAAATAAA
1 GTTTTTATGCAAATTAGCTACTAATTTACT-AAAAAAAAAAATTCATACATAAATAAA
*
2320750 GTTTTTATGCAAATTAGCTACTAATTTACT-AAAAAGAAAATTCATACATAAATAAA
1 GTTTTTATGCAAATTAGCTACTAATTTACTAAAAAAAAAAATTCATACATAAATAAA
2320806 G
1 G
2320807 GGTTTTTTTT
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
56 25 0.45
58 30 0.55
ACGTcount: A:0.49, C:0.10, G:0.08, T:0.33
Consensus pattern (57 bp):
GTTTTTATGCAAATTAGCTACTAATTTACTAAAAAAAAAAATTCATACATAAATAAA
Found at i:2323183 original size:32 final size:30
Alignment explanation
Indices: 2323109--2323184 Score: 80
Period size: 32 Copynumber: 2.4 Consensus size: 30
2323099 TTTATAAAAT
* * *
2323109 AAAAATAATTAATTTATTTTAAAAATATTTA
1 AAAAATAA-AAATTTATTTAAAAAATATATA
2323140 AAAATATTAAAAATTTATATTAAAATAATATATA
1 AAAA-A-TAAAAATTTAT-TTAAAA-AATATATA
2323174 AAAAATAAAAA
1 AAAAATAAAAA
2323185 AATTAATGAA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
31 4 0.11
32 14 0.37
33 9 0.24
34 11 0.29
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (30 bp):
AAAAATAAAAATTTATTTAAAAAATATATA
Found at i:2323186 original size:34 final size:32
Alignment explanation
Indices: 2323119--2323188 Score: 79
Period size: 34 Copynumber: 2.1 Consensus size: 32
2323109 AAAAATAATT
* * *
2323119 AATTTATTTTAAAAATATTTAAAAATATTAAA
1 AATTTATTTAAAAAATATTAAAAAATATAAAA
2323151 AATTTATATTAAAATAATATATAAAAAATA-AAAA
1 AATTTAT-TTAAAA-AATAT-TAAAAAATATAAAA
2323185 AATT
1 AATT
2323189 AATGAATCAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
32 7 0.22
33 5 0.16
34 12 0.38
35 8 0.25
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (32 bp):
AATTTATTTAAAAAATATTAAAAAATATAAAA
Found at i:2323694 original size:21 final size:22
Alignment explanation
Indices: 2323668--2323716 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
2323658 ATAATTATAT
2323668 ATTTATA-TTTAAAAAATAATA
1 ATTTATATTTTAAAAAATAATA
*
2323689 ATTTATATTTTTAAAAATAATA
1 ATTTATATTTTAAAAAATAATA
*
2323711 TTTTAT
1 ATTTAT
2323717 CAATTTCGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 7 0.28
22 18 0.72
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
ATTTATATTTTAAAAAATAATA
Found at i:2324505 original size:20 final size:21
Alignment explanation
Indices: 2324459--2324505 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
2324449 AATTTATTTT
2324459 TTTTACTTTTTTATTTATTAAA
1 TTTTA-TTTTTTATTTATTAAA
*
2324481 -ATTATTTTTTA-TTATTAAA
1 TTTTATTTTTTATTTATTAAA
2324500 TTTTAT
1 TTTTAT
2324506 AAAAAAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 8 0.36
20 11 0.50
21 3 0.14
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (21 bp):
TTTTATTTTTTATTTATTAAA
Found at i:2326046 original size:133 final size:133
Alignment explanation
Indices: 2325784--2326049 Score: 428
Period size: 133 Copynumber: 2.0 Consensus size: 133
2325774 CTGCTTTACT
* **
2325784 TAGCTAGCTTTACACTAGTTTGTCTGAGTTCTAGCCATTTAGGGAACGTTTGGGTATGTATAATG
1 TAGCTAGCTTTACACTAGTTTGTCTAAGTTCTAGCCATTTAAAGAACGTTTGGGTATGTATAATG
2325849 ATAATAATTCTTTTATGTGCTAAATCAAAATCAGGGTTTTGATTCAAATCTGGGTTCTTATTTTG
66 ATAATAATTCTTTTATGTGCTAAATCAAAATCAGGGTTTTGATTCAAATCTGGGTTCTTATTTTG
2325914 CAG
131 CAG
* * *
2325917 TAGCTAGCTTTAGACTGGTTTGTCTAAGTTCT-GACCATTTAAAGAATGTTTGGGTATGTATAAT
1 TAGCTAGCTTTACACTAGTTTGTCTAAGTTCTAG-CCATTTAAAGAACGTTTGGGTATGTATAAT
* *
2325981 GATAATAATTCTTTTTATGTGCTAAATCAAAATCAGGGTTTTGATTTAAGTCTGGGTTCTT-TTT
65 GATAATAATTC-TTTTATGTGCTAAATCAAAATCAGGGTTTTGATTCAAATCTGGGTTCTTATTT
2326045 TGCAG
129 TGCAG
2326050 GTTTTTCCGG
Statistics
Matches: 123, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
132 1 0.01
133 75 0.61
134 47 0.38
ACGTcount: A:0.26, C:0.12, G:0.20, T:0.42
Consensus pattern (133 bp):
TAGCTAGCTTTACACTAGTTTGTCTAAGTTCTAGCCATTTAAAGAACGTTTGGGTATGTATAATG
ATAATAATTCTTTTATGTGCTAAATCAAAATCAGGGTTTTGATTCAAATCTGGGTTCTTATTTTG
CAG
Done.