Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold269.1
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: 1409118
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 37904 characters in sequence are not A, C, G, or T
File 1 of 6
Found at i:1296 original size:54 final size:55
Alignment explanation
Indices: 1171--1297 Score: 123
Period size: 54 Copynumber: 2.3 Consensus size: 55
1161 TTGTTTATAG
* * * ** *
1171 TTCGAAATAGTGTTACATGGCCGTGTCGTTAGACCGTGTGCTCGACCGTGTGCAA
1 TTCGAAATAGGGTCACATGGCCATGTCGACAGACCGTGTGCTCAACCGTGTGCAA
* * * * **
1226 TTCGAAACATGATCACATGGCCATGTC-ACAGACCGTGTGC-CAAACTGTGTGTGA
1 TTCGAAATAGGGTCACATGGCCATGTCGACAGACCGTGTGCTC-AACCGTGTGCAA
1280 TTCGAAATAGGGTCACAT
1 TTCGAAATAGGGTCACAT
1298 AGCGGTGTAA
Statistics
Matches: 56, Mismatches: 15, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
53 1 0.02
54 34 0.61
55 21 0.38
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (55 bp):
TTCGAAATAGGGTCACATGGCCATGTCGACAGACCGTGTGCTCAACCGTGTGCAA
Found at i:9565 original size:43 final size:43
Alignment explanation
Indices: 9510--9613 Score: 140
Period size: 43 Copynumber: 2.4 Consensus size: 43
9500 GGGTTACCAA
* * *
9510 GATTACGTGTAAGACCAT-GTCTGGGAC-ATTGGCATCGATATGT
1 GATTACATGTAAGACCATGGT-TGGG-CTATTGGCATCGATACGG
*
9553 GATTTCATGTAAGACCATGGTTGGGCTATTGGCATCGATACGG
1 GATTACATGTAAGACCATGGTTGGGCTATTGGCATCGATACGG
9596 GATTACATGTAAGACCAT
1 GATTACATGTAAGACCAT
9614 ATCTAGGATA
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
42 1 0.02
43 51 0.94
44 2 0.04
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (43 bp):
GATTACATGTAAGACCATGGTTGGGCTATTGGCATCGATACGG
Found at i:12477 original size:15 final size:15
Alignment explanation
Indices: 12457--12486 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
12447 TAAATTTAAA
12457 ATTTTTATTTTAGTC
1 ATTTTTATTTTAGTC
12472 ATTTTTATTTTAGTC
1 ATTTTTATTTTAGTC
12487 TACTTCTTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.07, G:0.07, T:0.67
Consensus pattern (15 bp):
ATTTTTATTTTAGTC
Found at i:12644 original size:37 final size:37
Alignment explanation
Indices: 12589--12713 Score: 122
Period size: 37 Copynumber: 3.6 Consensus size: 37
12579 TATATACGTT
*
12589 ATATTTTATTGCAATTTTATTTCCTTCCAACAAAATA
1 ATATTTTATTCCAATTTTATTTCCTTCCAACAAAATA
* ** * *
12626 ATATTTTATTCCAGTTTTATTTTATT---TC---ATC
1 ATATTTTATTCCAATTTTATTTCCTTCCAACAAAATA
*
12657 A-A-TTTATTGCAATTTTATTTCCTTCCAACAAAATA
1 ATATTTTATTCCAATTTTATTTCCTTCCAACAAAATA
*
12692 ATATTTTATTCCAGTTTTATTT
1 ATATTTTATTCCAATTTTATTT
12714 TATTTCATCA
Statistics
Matches: 66, Mismatches: 14, Indels: 16
0.69 0.15 0.17
Matches are distributed among these distances:
29 18 0.27
30 1 0.02
31 3 0.05
32 1 0.02
34 1 0.02
35 3 0.05
36 1 0.02
37 38 0.58
ACGTcount: A:0.30, C:0.14, G:0.03, T:0.52
Consensus pattern (37 bp):
ATATTTTATTCCAATTTTATTTCCTTCCAACAAAATA
Found at i:12699 original size:66 final size:66
Alignment explanation
Indices: 12593--12724 Score: 264
Period size: 66 Copynumber: 2.0 Consensus size: 66
12583 TACGTTATAT
12593 TTTATTGCAATTTTATTTCCTTCCAACAAAATAATATTTTATTCCAGTTTTATTTTATTTCATCA
1 TTTATTGCAATTTTATTTCCTTCCAACAAAATAATATTTTATTCCAGTTTTATTTTATTTCATCA
12658 A
66 A
12659 TTTATTGCAATTTTATTTCCTTCCAACAAAATAATATTTTATTCCAGTTTTATTTTATTTCATCA
1 TTTATTGCAATTTTATTTCCTTCCAACAAAATAATATTTTATTCCAGTTTTATTTTATTTCATCA
12724 A
66 A
12725 ACCAAACATG
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 66 1.00
ACGTcount: A:0.30, C:0.15, G:0.03, T:0.52
Consensus pattern (66 bp):
TTTATTGCAATTTTATTTCCTTCCAACAAAATAATATTTTATTCCAGTTTTATTTTATTTCATCA
A
Found at i:17421 original size:2 final size:2
Alignment explanation
Indices: 17414--17453 Score: 64
Period size: 2 Copynumber: 20.0 Consensus size: 2
17404 CAATATTGAG
17414 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A- ATC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A-C AC AC AC
17454 GCATATATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 1 0.03
2 34 0.94
3 1 0.03
ACGTcount: A:0.50, C:0.47, G:0.00, T:0.03
Consensus pattern (2 bp):
AC
Found at i:19504 original size:18 final size:18
Alignment explanation
Indices: 19481--19517 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
19471 TATAGTTTGG
*
19481 TATTTGATTTATTCGAAT
1 TATTTGAGTTATTCGAAT
19499 TATTTGAGTTATTCGAAT
1 TATTTGAGTTATTCGAAT
19517 T
1 T
19518 CGAAAACTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.27, C:0.05, G:0.14, T:0.54
Consensus pattern (18 bp):
TATTTGAGTTATTCGAAT
Found at i:23360 original size:34 final size:34
Alignment explanation
Indices: 23312--23385 Score: 98
Period size: 34 Copynumber: 2.2 Consensus size: 34
23302 AATAGAACAG
*
23312 TATAATAACATTTTAACCTTTAAACATAT-AATAT
1 TATAACAACATTTTAACCTTTAAA-ATATAAATAT
* *
23346 TATAACAACTTTTTAGCCTTTAAAATATAAATAT
1 TATAACAACATTTTAACCTTTAAAATATAAATAT
23380 TA-AACA
1 TATAACA
23386 CTTGCATGGA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
33 8 0.22
34 28 0.78
ACGTcount: A:0.47, C:0.12, G:0.01, T:0.39
Consensus pattern (34 bp):
TATAACAACATTTTAACCTTTAAAATATAAATAT
Found at i:27765 original size:19 final size:19
Alignment explanation
Indices: 27722--27765 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
27712 TTTAACGTAG
27722 ATAATACAAAAATAATATT
1 ATAATACAAAAATAATATT
* *
27741 -TAAATACCAAAATTATATT
1 AT-AATACAAAAATAATATT
27760 ATAATA
1 ATAATA
27766 TCAATATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
18 1 0.05
19 19 0.90
20 1 0.05
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (19 bp):
ATAATACAAAAATAATATT
Found at i:32686 original size:21 final size:20
Alignment explanation
Indices: 32662--32700 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
32652 GTTTTAATAC
32662 TAAATAAATTAAAAATATTAT
1 TAAATAAA-TAAAAATATTAT
*
32683 TAAATCAATAAAAATATT
1 TAAATAAATAAAAATATT
32701 GTTATTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (20 bp):
TAAATAAATAAAAATATTAT
Found at i:32711 original size:15 final size:15
Alignment explanation
Indices: 32691--32721 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
32681 ATTAAATCAA
*
32691 TAAAAATATTGTTAT
1 TAAAAATAATGTTAT
32706 TAAAAATAATGTTAT
1 TAAAAATAATGTTAT
32721 T
1 T
32722 TGATGGGGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.45
Consensus pattern (15 bp):
TAAAAATAATGTTAT
Found at i:33902 original size:8 final size:8
Alignment explanation
Indices: 33885--33937 Score: 51
Period size: 8 Copynumber: 7.0 Consensus size: 8
33875 AATGATAAAA
33885 TATATTAT
1 TATATTAT
*
33893 TATTTTAT
1 TATATTAT
33901 TATATTA-
1 TATATTAT
33908 TA-A--AT
1 TATATTAT
*
33913 TAAATTGAT
1 TATATT-AT
33922 TATATTAT
1 TATATTAT
33930 TATATTAT
1 TATATTAT
33938 GAAATAAATT
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
4 1 0.03
5 2 0.05
6 2 0.05
7 2 0.05
8 23 0.62
9 7 0.19
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (8 bp):
TATATTAT
Found at i:33923 original size:29 final size:29
Alignment explanation
Indices: 33882--33947 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 29
33872 TTTAATGATA
* *
33882 AAATATATT-ATTATTTTATTATATTAT-
1 AAATAAATTGATTATATTATTATATTATG
33909 AAATTAAATTGATTATATTATTATATTATG
1 AAA-TAAATTGATTATATTATTATATTATG
33939 AAATAAATT
1 AAATAAATT
33948 AAGAAAAGAC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 3 0.09
28 5 0.15
29 23 0.68
30 3 0.09
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (29 bp):
AAATAAATTGATTATATTATTATATTATG
Found at i:34415 original size:16 final size:15
Alignment explanation
Indices: 34399--34429 Score: 53
Period size: 15 Copynumber: 2.0 Consensus size: 15
34389 AACAAAAAGA
34399 AATAGAAAGAAACAG
1 AATAGAAAGAAACAG
34414 AATAGAAACGAAACAG
1 AATAGAAA-GAAACAG
34430 GGAGAAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.65, C:0.10, G:0.19, T:0.06
Consensus pattern (15 bp):
AATAGAAAGAAACAG
Found at i:34419 original size:15 final size:16
Alignment explanation
Indices: 34386--34429 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
34376 AAGCATAAAA
*
34386 AGAAAC-AAAAAGAAAT
1 AGAAACGAAACAG-AAT
34402 AGAAA-GAAACAGAAT
1 AGAAACGAAACAGAAT
34417 AGAAACGAAACAG
1 AGAAACGAAACAG
34430 GGAGAAAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 8 0.32
16 17 0.68
ACGTcount: A:0.68, C:0.09, G:0.18, T:0.05
Consensus pattern (16 bp):
AGAAACGAAACAGAAT
Found at i:34435 original size:26 final size:26
Alignment explanation
Indices: 34382--34468 Score: 79
Period size: 26 Copynumber: 3.3 Consensus size: 26
34372 ATGAAAGCAT
* **
34382 AAAAAGAAACA-AAAAGAAATAGAAAG
1 AAAAAGAAA-AGAAAAGAAAAAGGGAG
* * * *
34408 AAACAGAATAGAAACGAAACAGGGAG
1 AAAAAGAAAAGAAAAGAAAAAGGGAG
34434 AAAAAGAAAAGAAAAGAAAAAGGGA-
1 AAAAAGAAAAGAAAAGAAAAAGGGAG
34459 AAGAAAGAAA
1 AA-AAAGAAA
34469 TGAGAAATAG
Statistics
Matches: 49, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
25 3 0.06
26 46 0.94
ACGTcount: A:0.71, C:0.05, G:0.22, T:0.02
Consensus pattern (26 bp):
AAAAAGAAAAGAAAAGAAAAAGGGAG
Found at i:35440 original size:38 final size:39
Alignment explanation
Indices: 35338--35446 Score: 105
Period size: 38 Copynumber: 2.8 Consensus size: 39
35328 AACCTCGAAT
* * *
35338 CGATGAGACACTTGGTGTCACTATTTTACTTCGGATAGATC
1 CGATGAGACACTGGGTGTCA--ACTTTACTTCGGATAGAGC
* * * *
35379 CGGTGAGATACTGGGTATC-ACTTTACTTCGGCTAG-GC
1 CGATGAGACACTGGGTGTCAACTTTACTTCGGATAGAGC
* *
35416 TGATGAGACACTGGGTGTCAACTTTGCTTCG
1 CGATGAGACACTGGGTGTCAACTTTACTTCG
35447 AACTATCCGA
Statistics
Matches: 55, Mismatches: 12, Indels: 5
0.76 0.17 0.07
Matches are distributed among these distances:
37 16 0.29
38 24 0.44
41 15 0.27
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.32
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAACTTTACTTCGGATAGAGC
Found at i:43502 original size:25 final size:25
Alignment explanation
Indices: 43468--43560 Score: 77
Period size: 25 Copynumber: 3.8 Consensus size: 25
43458 CAACTCTTAT
*
43468 GAGCGTCCTGATATATGGCTTTCCG
1 GAGCTTCCTGATATATGGCTTTCCG
** **
43493 GAGCTTCCTGATAT-TGGCTCGCTT
1 GAGCTTCCTGATATATGGCTTTCCG
*
43517 GAACTT-CTCGATATATGGCTATT-CG
1 GAGCTTCCT-GATATATGGCT-TTCCG
*
43542 GAGCTTCTTGA-ATATGGCT
1 GAGCTTCCTGATATATGGCT
43561 CTTATGAGCT
Statistics
Matches: 52, Mismatches: 12, Indels: 9
0.71 0.16 0.12
Matches are distributed among these distances:
23 2 0.04
24 24 0.46
25 25 0.48
26 1 0.02
ACGTcount: A:0.18, C:0.22, G:0.25, T:0.35
Consensus pattern (25 bp):
GAGCTTCCTGATATATGGCTTTCCG
Found at i:45186 original size:41 final size:40
Alignment explanation
Indices: 45141--45302 Score: 175
Period size: 41 Copynumber: 4.0 Consensus size: 40
45131 TTGTATAAAA
* * * *
45141 CACCGGCATAAAGCCTGCTAGGCACAAAGCCCGATACATT
1 CACCGGCATAAAGCCTGCTAGACATAAAGTCTGATACATT
* *
45181 CCACCGGCACAAAGCCCGCTAGACATAAAGTCTGATACATTT
1 -CACCGGCATAAAGCCTGCTAGACATAAAGTCTGATACA-TT
*
45223 CACCGGCACT-AAGGCTGCTAGACATAAAGTCTGAAGTA-ATT
1 CACCGGCA-TAAAGCCTGCTAGACATAAAGTCTG-A-TACATT
* * *
45264 CACCGGCATCAAGCCTGCTAGACGTAAAGTCTGAAACAT
1 CACCGGCATAAAGCCTGCTAGACATAAAGTCTGATACAT
45303 CTTATTTTCA
Statistics
Matches: 103, Mismatches: 12, Indels: 13
0.80 0.09 0.10
Matches are distributed among these distances:
39 1 0.01
40 4 0.04
41 92 0.89
42 4 0.04
43 2 0.02
ACGTcount: A:0.33, C:0.28, G:0.20, T:0.19
Consensus pattern (40 bp):
CACCGGCATAAAGCCTGCTAGACATAAAGTCTGATACATT
Found at i:45975 original size:16 final size:17
Alignment explanation
Indices: 45954--45988 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
45944 ATCTAATAAT
45954 TTATACAT-GTATATAC
1 TTATACATCGTATATAC
*
45970 TTATACATCGTTTATAC
1 TTATACATCGTATATAC
45987 TT
1 TT
45989 CAACTAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.31, C:0.14, G:0.06, T:0.49
Consensus pattern (17 bp):
TTATACATCGTATATAC
Found at i:48145 original size:41 final size:40
Alignment explanation
Indices: 48100--48201 Score: 134
Period size: 41 Copynumber: 2.5 Consensus size: 40
48090 TGATTCAGTA
48100 CACCGGCACTTAGCCTGCTAGACATATAGTCTGAAA-TATTT
1 CACCGGCA-TTAGCCTGCTAGACATATAGTCT-AAAGTATTT
* *
48141 CACCGGCATTAAGCCTGCTAGACATTTAGTCTAAAGTGTTT
1 CACCGGCATT-AGCCTGCTAGACATATAGTCTAAAGTATTT
*
48182 CACCGGCAATAAGCCTGCTA
1 CACCGGC-ATTAGCCTGCTA
48202 AGCGCTAAGC
Statistics
Matches: 55, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
40 5 0.09
41 48 0.87
42 2 0.04
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.27
Consensus pattern (40 bp):
CACCGGCATTAGCCTGCTAGACATATAGTCTAAAGTATTT
Found at i:49803 original size:13 final size:13
Alignment explanation
Indices: 49785--49809 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49775 CAATCAAATG
49785 CACACAAAATAAA
1 CACACAAAATAAA
49798 CACACAAAATAA
1 CACACAAAATAA
49810 TATTAAAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (13 bp):
CACACAAAATAAA
Found at i:49874 original size:17 final size:17
Alignment explanation
Indices: 49852--49886 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
49842 CCCGAAACCA
49852 CTATGTCCGATTAGAGT
1 CTATGTCCGATTAGAGT
49869 CTATGTCCGATTAGAGT
1 CTATGTCCGATTAGAGT
49886 C
1 C
49887 AAAACCGGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.34
Consensus pattern (17 bp):
CTATGTCCGATTAGAGT
Found at i:53748 original size:50 final size:49
Alignment explanation
Indices: 53620--53814 Score: 210
Period size: 50 Copynumber: 3.9 Consensus size: 49
53610 GGTAATAACA
* ** * * * **
53620 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCTTGTAT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCG
* * * **
53669 TGCCAATGTCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATC-G
* ** *
53719 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATC-G
*
53769 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATA
53815 ATCTCAATGA
Statistics
Matches: 119, Mismatches: 26, Indels: 1
0.82 0.18 0.01
Matches are distributed among these distances:
49 38 0.32
50 81 0.68
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.28
Consensus pattern (49 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCG
Found at i:53800 original size:100 final size:99
Alignment explanation
Indices: 53627--53814 Score: 241
Period size: 100 Copynumber: 1.9 Consensus size: 99
53617 ACATGCCAAA
* ** * * * * * * *
53627 GCCATGTCCCAGACATGGTCTTACATGGGATGTTTCTTGTATTGCCAATGTCATATCCCAGATAT
1 GCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTAGTGCCAACGCCATATCCCAGACAT
**
53692 GGTCTTACATGGGAGTTCTCATATCGGTGCCCAT
66 GGTCTTACATGGGACCTCTCATATCGGTGCCCAT
* *
53726 GCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCAGTGCCAACGCCATGTCCCAGACA
1 GCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCT-AGTGCCAACGCCATATCCCAGACA
53791 TGGTCTTACATGGGACCTCTCATA
65 TGGTCTTACATGGGACCTCTCATA
53815 ATCTCAATGA
Statistics
Matches: 74, Mismatches: 14, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
99 33 0.45
100 41 0.55
ACGTcount: A:0.21, C:0.28, G:0.22, T:0.29
Consensus pattern (99 bp):
GCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTAGTGCCAACGCCATATCCCAGACAT
GGTCTTACATGGGACCTCTCATATCGGTGCCCAT
Found at i:53839 original size:56 final size:50
Alignment explanation
Indices: 53622--53866 Score: 186
Period size: 50 Copynumber: 4.8 Consensus size: 50
53612 TAATAACATG
* ** * * * * *
53622 CCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCTTGT-ATTG
1 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAGTA
* * * * ** * * *
53671 CCAATGTCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTG
1 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAGTA
* * ** *
53721 CCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCAGTG
1 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAGTA
53771 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGATA
1 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCTC-A-G-TA
** * * *
53827 CCAGTGTCATGTCCCAAACATGGTCTTACATGGGATCTCT
1 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
53867 TTACCCAAAT
Statistics
Matches: 158, Mismatches: 31, Indels: 7
0.81 0.16 0.04
Matches are distributed among these distances:
49 36 0.23
50 79 0.50
53 5 0.03
54 1 0.01
55 1 0.01
56 36 0.23
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (50 bp):
CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAGTA
Found at i:60256 original size:24 final size:24
Alignment explanation
Indices: 60224--60269 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
60214 AATCAATTTT
60224 CTCACTAAGGAATCTAGAAATAGA
1 CTCACTAAGGAATCTAGAAATAGA
60248 CTCACTAAGGAATCTAGAAATA
1 CTCACTAAGGAATCTAGAAATA
60270 TATATTATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.46, C:0.17, G:0.15, T:0.22
Consensus pattern (24 bp):
CTCACTAAGGAATCTAGAAATAGA
Found at i:62139 original size:10 final size:9
Alignment explanation
Indices: 62124--62180 Score: 55
Period size: 10 Copynumber: 6.1 Consensus size: 9
62114 CTATATGTTT
62124 ATATTTTATA
1 ATATTTT-TA
62134 ATATTTTTA
1 ATATTTTTA
62143 ATAATTTTCT-
1 AT-ATTTT-TA
62153 ATATTTTTA
1 ATATTTTTA
*
62162 GTAATTTTTA
1 AT-ATTTTTA
62172 AT-TTTTTA
1 ATATTTTTA
62180 A
1 A
62181 ATAAAATTTA
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
8 8 0.20
9 10 0.24
10 22 0.54
11 1 0.02
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (9 bp):
ATATTTTTA
Found at i:62158 original size:19 final size:19
Alignment explanation
Indices: 62112--62177 Score: 68
Period size: 19 Copynumber: 3.6 Consensus size: 19
62102 TTTCAAATAA
*
62112 TTCTATATGTTT-AT-ATT
1 TTCTATATTTTTAATAATT
*
62129 TTATAATATTTTTAATAATT
1 TTCT-ATATTTTTAATAATT
*
62149 TTCTATATTTTTAGTAATT
1 TTCTATATTTTTAATAATT
62168 TT-TA-ATTTTT
1 TTCTATATTTTT
62178 TAAATAAAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
17 9 0.21
18 9 0.21
19 18 0.43
20 6 0.14
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (19 bp):
TTCTATATTTTTAATAATT
Found at i:62178 original size:19 final size:20
Alignment explanation
Indices: 62126--62200 Score: 77
Period size: 19 Copynumber: 3.9 Consensus size: 20
62116 ATATGTTTAT
62126 ATTTTATAATATTTTTAATA
1 ATTTTATAATATTTTTAATA
* *
62146 ATTTTCT-ATATTTTTAGTA
1 ATTTTATAATATTTTTAATA
62165 ATTTT-TAAT-TTTTTAAATAA
1 ATTTTATAATATTTTT-AAT-A
*
62185 AATTTA-AATATTTTTA
1 ATTTTATAATATTTTTA
62201 TTGAGTTTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
18 6 0.13
19 20 0.43
20 15 0.33
21 5 0.11
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.60
Consensus pattern (20 bp):
ATTTTATAATATTTTTAATA
Found at i:64802 original size:3 final size:3
Alignment explanation
Indices: 64794--64825 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
64784 AAAGAACATA
64794 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
64826 AAGGGGAAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:73740 original size:22 final size:22
Alignment explanation
Indices: 73715--73756 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
73705 TGTCTGATTA
73715 GTCATCTAATCAGTCAAGACTT
1 GTCATCTAATCAGTCAAGACTT
*
73737 GTCATCTGATCAGTCAAGAC
1 GTCATCTAATCAGTCAAGAC
73757 ATGATCAAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.29
Consensus pattern (22 bp):
GTCATCTAATCAGTCAAGACTT
Found at i:76516 original size:129 final size:126
Alignment explanation
Indices: 76362--76593 Score: 279
Period size: 127 Copynumber: 1.8 Consensus size: 126
76352 TCGTTTTAAT
*
76362 TTTAAAAGGATATTCGATTATTTAGG-ATAACGCGAAAAAAATCGA-AGCCCAGTAAGTTAGGGC
1 TTTAAAAGGATATTCGACTATTTAGGTATAA--CG-AAAAAATCGAGA-CCCAGTAAGTTAGGGC
* * * **
76425 ACGATTTCTCGAATTTTCTAAATACGGAATATTGCCTTTATTTTTAAAATTTTATGTGTTTGGAA
62 ACAATTTCTCGAATTTCCAAAATACAAAATATTGCC-TTATTTTTAAAATTTTATGTGTTTGGAA
76490 A
126 A
** * * * **
76491 TTTAAAAGGATATTTTACTATTTAGGTTTAACGAGAAAATCGGGACCCAGTAAGTTAGGTTACAA
1 TTTAAAAGGATATTCGACTATTTAGGTATAACGAAAAAATCGAGACCCAGTAAGTTAGGGCACAA
*
76556 TTTCTCGAATTTCCAAAATGCAAAATATTGCCTTATTT
66 TTTCTCGAATTTCCAAAATACAAAATATTGCCTTATTT
76594 GAAATTTGTT
Statistics
Matches: 87, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
126 6 0.07
127 52 0.60
128 3 0.03
129 23 0.26
130 3 0.03
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (126 bp):
TTTAAAAGGATATTCGACTATTTAGGTATAACGAAAAAATCGAGACCCAGTAAGTTAGGGCACAA
TTTCTCGAATTTCCAAAATACAAAATATTGCCTTATTTTTAAAATTTTATGTGTTTGGAAA
Found at i:77613 original size:22 final size:22
Alignment explanation
Indices: 77588--77658 Score: 54
Period size: 22 Copynumber: 3.2 Consensus size: 22
77578 TCCCATTTTC
77588 TTTCAAGCACCCGACCCTTGGA
1 TTTCAAGCACCCGACCCTTGGA
* *** ***
77610 TTTCTTAGC-CCTTTCCCATTTTC
1 TTTC-AAGCACCCGACCC-TTGGA
77633 TTTCAAGCACCCGACCCTTGGA
1 TTTCAAGCACCCGACCCTTGGA
77655 TTTC
1 TTTC
77659 TTAGCCCCTG
Statistics
Matches: 32, Mismatches: 14, Indels: 6
0.62 0.27 0.12
Matches are distributed among these distances:
22 18 0.56
23 14 0.44
ACGTcount: A:0.17, C:0.35, G:0.13, T:0.35
Consensus pattern (22 bp):
TTTCAAGCACCCGACCCTTGGA
Found at i:77638 original size:45 final size:45
Alignment explanation
Indices: 77574--77665 Score: 184
Period size: 45 Copynumber: 2.0 Consensus size: 45
77564 AGTTTCAAAG
77574 CCTTTCCCATTTTCTTTCAAGCACCCGACCCTTGGATTTCTTAGC
1 CCTTTCCCATTTTCTTTCAAGCACCCGACCCTTGGATTTCTTAGC
77619 CCTTTCCCATTTTCTTTCAAGCACCCGACCCTTGGATTTCTTAGC
1 CCTTTCCCATTTTCTTTCAAGCACCCGACCCTTGGATTTCTTAGC
77664 CC
1 CC
77666 CTGGAGCGCC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.15, C:0.37, G:0.11, T:0.37
Consensus pattern (45 bp):
CCTTTCCCATTTTCTTTCAAGCACCCGACCCTTGGATTTCTTAGC
Found at i:78728 original size:127 final size:126
Alignment explanation
Indices: 78502--79132 Score: 942
Period size: 127 Copynumber: 5.0 Consensus size: 126
78492 GGATGAGATT
* * * *
78502 TGGTTTAAATCCGCTCCACTGCAAATTCAGGGAGATAGGATTGATTTCTTCCATCTGCTCCACTA
1 TGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTT-CGTCTGCTCCACTA
* *
78567 CTGCTTAGGGAGATAAGACTTAATGCGATCTGCTCCACTACTGCTTAAGGAGACAAGATCTG
65 CTGCTTAGGGAGATAAGACTTAATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
* * *
78629 TGGTTTTAATCCGTTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCCTTTGTCTGCTCTACTA
1 TGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTT-CTTCGTCTGCTCCACTA
* *
78694 CTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAA-AACTTG
65 CTGCTTAGGGAGATAAGACTTAATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATC-TG
*
78756 TGGTTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTCTCGTCTGCTCCACTA
1 TGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCT-TCGTCTGCTCCACTA
** *
78821 CTGCTTAGGGAGATAAGACTTGTTGCGATCTGCTCCACTACTGCTTAGGGAGATAAGACCTG
65 CTGCTTAGGGAGATAAGACTTAATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
* * * *
78883 TGGTTTTAATCCACTCCACTGTAACTTCAGGGAGATAAGATTAGTTTCTCTCGTCTGCTCCACTA
1 TGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCT-TCGTCTGCTCCACTA
* *
78948 CTGCTTAGGGAGATAAGACTTAATGCGATCTGCTCCACTACTGCTTAAGGAGACAAGATCTG
65 CTGCTTAGGGAGATAAGACTTAATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
* *
79010 TGGTTTTAATCCGTTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCCTTTGTCTGCTCCACTA
1 TGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTT-CTTCGTCTGCTCCACTA
* ** *
79075 CTACTTAGGGAGATAAGACTTTCTCTCG-TCTGCTCCACTACTGCTTAGGGAGATAAGA
65 CTGCTTAGGGAGATAAGACTTAAT-GCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
79133 CTTGTTGCGA
Statistics
Matches: 461, Mismatches: 37, Indels: 12
0.90 0.07 0.02
Matches are distributed among these distances:
126 4 0.01
127 448 0.97
128 9 0.02
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.31
Consensus pattern (126 bp):
TGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCGTCTGCTCCACTAC
TGCTTAGGGAGATAAGACTTAATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
Found at i:78982 original size:167 final size:165
Alignment explanation
Indices: 78809--79302 Score: 534
Period size: 167 Copynumber: 3.0 Consensus size: 165
78799 GTTTCTCTCG
* * **
78809 TCTGCTCCACTACTGCTTAGGGAGATAAGACT-T-GTTGCGATCTGCTCCACTACTGCTT-AGGG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTGTGGTTGCAATCCGCTCCACTACAACTTCAGGG
* *
78871 AGATAAGACCTGTGG-TT-TTAATCCACTCCACT-GTAACTTCAGGGAGATAAGATTAGTTTCTC
66 AGATAAGA--T-TGGTTTCTTAATCCACTCCACTACT-ACTT-AGGGAGATAAG---ACTTTCTC
78933 TCGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTAATGCGA
123 TCGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTAATGCGA
* * ** * *
78976 TCTGCTCCACTACTGCTTAAGGAGACAAGATCTGTGGTTTTAATCCGTTCCACTGCAACTTCAGG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-CTGTGGTTGCAATCCGCTCCACTACAACTTCAGG
* ** **
79041 GAGATAGGATTGGTTTCCTTTGTCTGCTCCACTACTACTTAGGGAGATAAGACTTTCTCTCGTCT
65 GAGATAAGATTGGTTT-CTTAATCCACTCCACTACTACTTAGGGAGATAAGACTTTCTCTCGTCT
**
79106 GCTCCACTACTGCTTAGGGAGATAAGACTTGTTGCGA
129 GCTCCACTACTGCTTAGGGAGATAAGACTTAATGCGA
* ** *
79143 TCTGCTCCACTATTGCTTAGGGAGATAAGACCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-CTGTGGTTGCAATCCGCTCCACTACAACTTCAGG
* ** ** ****
79208 GAGATAGGATTGGTTTCCTTTGTCTGCTCCACTACTACTTAGGGAGATAAGACTTGAGGT-GATC
65 GAGATAAGATTGGTTT-CTTAATCCACTCCACTACTACTTAGGGAGATAAGACTTTCTCTCG-TC
79272 TGCTCCACTACTGCTTAGGGAGATAAGACTT
128 TGCTCCACTACTGCTTAGGGAGATAAGACTT
79303 GTGGTTTTGT
Statistics
Matches: 290, Mismatches: 28, Indels: 18
0.86 0.08 0.05
Matches are distributed among these distances:
166 1 0.00
167 225 0.78
168 5 0.02
169 4 0.01
170 28 0.10
171 26 0.09
172 1 0.00
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (165 bp):
TCTGCTCCACTACTGCTTAGGGAGATAAGACTGTGGTTGCAATCCGCTCCACTACAACTTCAGGG
AGATAAGATTGGTTTCTTAATCCACTCCACTACTACTTAGGGAGATAAGACTTTCTCTCGTCTGC
TCCACTACTGCTTAGGGAGATAAGACTTAATGCGA
Found at i:79236 original size:381 final size:377
Alignment explanation
Indices: 78502--79260 Score: 1045
Period size: 381 Copynumber: 2.0 Consensus size: 377
78492 GGATGAGATT
* *
78502 TGGTTTAAATCCGCTCCACTGCAAATTCAGGGAGATAGGATTGATTTCTTCCATCTGCTCCACTA
1 TGGTTTAAATCCACTCCACTGCAAATTCAGGGAGATAAGATTGATTTCTTCCATCTGCTCCACTA
78567 CTGCTTAGGGAGATAAGACTTAATGCGATCTGCTCCACTACTGCTTAAGGAGACAAGATCTGTGG
66 CTGCTTAGGGAGATAAGACTTAATGCGATCTGCTCCACTACTGCTTAAGGAGACAAGATCTGTGG
* *
78632 TTTTAATCCGTTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCCTTTGTCTGCTCTACTACTG
131 TTTTAATCCGTTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCCTTTGTCTGCTCCACTACTA
* *
78697 CTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAAACTTGTGGTTT
196 CTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAAACTTGTGGATC
* * **
78762 TAATCCACTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTCTCGTCTGCTCCACTACTGCTT
261 TAATCCACT-CACTG--ACTTCAGGGAGATAAGATTGGTTTCTATCG-CTGCTCCACTACAACTT
* *
78827 AGGGAGATAAGACTTGTTGCGATCTGCTCCACTACTGCTTAGGGAGATAAGACCTG
322 AGGGAGATAAGACTTGTTCCGATCTGCTCCACTACTACTTAGGGAGATAAGACCTG
* * * *
78883 TGGTTTTAATCCACTCCACTGTAACTTCAGGGAGATAAGATT-AGTTTC-TCTCGTCTGCTCCAC
1 TGGTTTAAATCCACTCCACTGCAAATTCAGGGAGATAAGATTGA-TTTCTTC-CATCTGCTCCAC
78946 TACTGCTTAGGGAGATAAGACTTAATGCGATCTGCTCCACTACTGCTTAAGGAGACAAGATCTGT
64 TACTGCTTAGGGAGATAAGACTTAATGCGATCTGCTCCACTACTGCTTAAGGAGACAAGATCTGT
79011 GGTTTTAATCCGTTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCCTTTGTCTGCTCCACTAC
129 GGTTTTAATCCGTTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCCTTTGTCTGCTCCACTAC
** * *
79076 TACTTAGGGAGATAAGACTTTCTCTCG-TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGTTG
194 TACTTAGGGAGATAAGACTTGAT-GCGATCTGCTCCACTACTGCTTAGGGAGATAAAACTTG-TG
** * *
79140 CGATCTGCTCCACT-ATTG-CTT-AGGGAGATAAGACCTGTGGTTT-TAATC-C-GCTCCACTGC
257 -GATCTAATCCACTCACTGACTTCAGGGAGATAAGA--T-TGGTTTCT-ATCGCTGCTCCACTAC
*
79199 AACTTCAGGGAGATAGGA-TTGGTTTCCTTTG-TCTGCTCCACTACTACTTAGGGAGATAAGAC
317 AACTT-AGGGAGATAAGACTT-G-TTCC---GATCTGCTCCACTACTACTTAGGGAGATAAGAC
79261 TTGAGGTGAT
Statistics
Matches: 338, Mismatches: 25, Indels: 30
0.86 0.06 0.08
Matches are distributed among these distances:
377 25 0.07
378 16 0.05
379 5 0.01
380 11 0.03
381 267 0.79
382 5 0.01
383 9 0.03
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.31
Consensus pattern (377 bp):
TGGTTTAAATCCACTCCACTGCAAATTCAGGGAGATAAGATTGATTTCTTCCATCTGCTCCACTA
CTGCTTAGGGAGATAAGACTTAATGCGATCTGCTCCACTACTGCTTAAGGAGACAAGATCTGTGG
TTTTAATCCGTTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCCTTTGTCTGCTCCACTACTA
CTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAAACTTGTGGATC
TAATCCACTCACTGACTTCAGGGAGATAAGATTGGTTTCTATCGCTGCTCCACTACAACTTAGGG
AGATAAGACTTGTTCCGATCTGCTCCACTACTACTTAGGGAGATAAGACCTG
Found at i:79303 original size:167 final size:167
Alignment explanation
Indices: 78932--79304 Score: 631
Period size: 167 Copynumber: 2.2 Consensus size: 167
78922 ATTAGTTTCT
**
78932 CTCGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTAATGCGATCTGCTCCACTACTGCTTAAG
1 CTCGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGTTGCGATCTGCTCCACTACTGCTTAAG
* *
78997 GAGACAAGATCTGTGGTTTTAATCCGTTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCCTTT
66 GAGACAAGACCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCCTTT
***
79062 GTCTGCTCCACTACTACTTAGGGAGATAAGACTTTCT
131 GTCTGCTCCACTACTACTTAGGGAGATAAGACTTGAG
* *
79099 CTCGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGTTGCGATCTGCTCCACTATTGCTTAGG
1 CTCGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGTTGCGATCTGCTCCACTACTGCTTAAG
*
79164 GAGATAAGACCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCCTTT
66 GAGACAAGACCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCCTTT
79229 GTCTGCTCCACTACTACTTAGGGAGATAAGACTTGAG
131 GTCTGCTCCACTACTACTTAGGGAGATAAGACTTGAG
*
79266 GT-GATCTGCTCCACTACTGCTTAGGGAGATAAGACTTGT
1 CTCG-TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGT
79305 GGTTTTGTCT
Statistics
Matches: 194, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
166 1 0.01
167 193 0.99
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (167 bp):
CTCGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGTTGCGATCTGCTCCACTACTGCTTAAG
GAGACAAGACCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCCTTT
GTCTGCTCCACTACTACTTAGGGAGATAAGACTTGAG
Found at i:79332 original size:40 final size:39
Alignment explanation
Indices: 79072--79332 Score: 120
Period size: 40 Copynumber: 6.4 Consensus size: 39
79062 GTCTGCTCCA
* * *
79072 CTACTACTTAGGGAGATAAGACTT-T-CTCTCGTCTGCT
1 CTACTACTTAGGGAGATAAGACTTGTGGTTTTGTCTGCT
* * * * *
79109 CCACTACTGCTTAGGGAGATAAGACTTGTTGCGATCTG-CTCCA
1 ---CTACTACTTAGGGAGATAAGACTTG-TG-GTTTTGTCTGCT
* * * * *
79152 CTATTGCTTAGGGAGATAAGACCTGTGGTTTTAATCCGCT
1 CTACTACTTAGGGAGATAAGACTTGTGGTTTT-GTCTGCT
* * *
79192 CCACTGCAACTTCAGGGAGATAGGA-TTG-GTTTCCTTTGTCTGCT
1 CTACT---ACTT-AGGGAGATAAGACTTGTG-GT--TTTGTCTGCT
* * * *
79236 CCACTACTACTTAGGGAGATAAGACTTGAGGTGATCTG-CTCCA
1 ---CTACTACTTAGGGAGATAAGACTTGTGGT--TTTGTCTGCT
*
79279 CTACTGCTTAGGGAGATAAGACTTGTGGTTTTGTCTGCT
1 CTACTACTTAGGGAGATAAGACTTGTGGTTTTGTCTGCT
79318 CTACTACTTCAGGGA
1 CTACTACTT-AGGGA
79333 TGTAAGATTC
Statistics
Matches: 163, Mismatches: 38, Indels: 40
0.68 0.16 0.17
Matches are distributed among these distances:
38 6 0.04
39 13 0.08
40 83 0.51
42 2 0.01
43 23 0.14
44 28 0.17
45 4 0.02
47 4 0.02
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.32
Consensus pattern (39 bp):
CTACTACTTAGGGAGATAAGACTTGTGGTTTTGTCTGCT
Found at i:80110 original size:108 final size:108
Alignment explanation
Indices: 79921--80116 Score: 295
Period size: 108 Copynumber: 1.8 Consensus size: 108
79911 GAAAAATGCT
79921 TGAAAAAGATTATCAAAATGGACAAAATGAAATTTTGTTGAGAGCAAAGCTCTAAACAAACAAAT
1 TGAAAAAGATTATCAAAATGGACAAAATGAAATTTTGTTGAGAGCAAAGCTCTAAACAAACAAAT
*
79986 CAATCAAGATAGCAAATTTTGCTGAGATACGAGATGAATAAGA
66 CAATCAAGATAACAAATTTTGCTGAGATACGAGATGAATAAGA
* * * * * **
80029 TGAAAAATATTGTCATAATGGATAAGATGGAAA-TTTGTTGAGAGCAAAGCTCTAAATGAACAAA
1 TGAAAAAGATTATCAAAATGGACAAAAT-GAAATTTTGTTGAGAGCAAAGCTCTAAACAAACAAA
*
80093 TTAATCAAGATAACAAATTTTGCT
65 TCAATCAAGATAACAAATTTTGCT
80117 AGAATACAAA
Statistics
Matches: 78, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
108 74 0.95
109 4 0.05
ACGTcount: A:0.46, C:0.10, G:0.17, T:0.26
Consensus pattern (108 bp):
TGAAAAAGATTATCAAAATGGACAAAATGAAATTTTGTTGAGAGCAAAGCTCTAAACAAACAAAT
CAATCAAGATAACAAATTTTGCTGAGATACGAGATGAATAAGA
Found at i:92398 original size:16 final size:15
Alignment explanation
Indices: 92368--92407 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 15
92358 AGGAAAAGGA
92368 AAATAAAAATAAAAT
1 AAATAAAAATAAAAT
92383 AAGATAACAAAT-AAAT
1 AA-ATAA-AAATAAAAT
92399 AAATAAAAA
1 AAATAAAAA
92408 AGGAAAAACG
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
14 3 0.13
15 6 0.26
16 10 0.43
17 4 0.17
ACGTcount: A:0.78, C:0.03, G:0.03, T:0.17
Consensus pattern (15 bp):
AAATAAAAATAAAAT
Found at i:93079 original size:3 final size:3
Alignment explanation
Indices: 93071--93159 Score: 103
Period size: 3 Copynumber: 29.7 Consensus size: 3
93061 TATAGAAATG
* * *
93071 ATA ATA ATAA ATA ATA ACA AGA ATG ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
93117 ATA ATA ATA ATA ATA ATA ATA ACT- ATA ATA A-A A-A ATAA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA AT-A ATA AT
93160 GGTATAATAT
Statistics
Matches: 76, Mismatches: 5, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
2 5 0.07
3 64 0.84
4 7 0.09
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:95410 original size:26 final size:27
Alignment explanation
Indices: 95372--95424 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 27
95362 TAGAAGGAGA
*
95372 GAATGAAGTTTTCTAAATTATTTTTCG
1 GAATGAAGATTTCTAAATTATTTTTCG
*
95399 GAAT-AAGATTTCTATATTATTTTTCG
1 GAATGAAGATTTCTAAATTATTTTTCG
95425 ATGCCTTCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 20 0.83
27 4 0.17
ACGTcount: A:0.30, C:0.08, G:0.13, T:0.49
Consensus pattern (27 bp):
GAATGAAGATTTCTAAATTATTTTTCG
Found at i:96395 original size:17 final size:17
Alignment explanation
Indices: 96365--96419 Score: 74
Period size: 18 Copynumber: 3.1 Consensus size: 17
96355 ATTTTTTATG
*
96365 ATTTTTATAAAAAATTTA
1 ATTTTTA-ATAAAATTTA
96383 ATTTTTAATAAAATTTTA
1 ATTTTTAATAAAA-TTTA
*
96401 ATTTTTATTAAAATTTA
1 ATTTTTAATAAAATTTA
96418 AT
1 AT
96420 CATTTTTATA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
17 11 0.32
18 23 0.68
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
ATTTTTAATAAAATTTA
Found at i:96431 original size:19 final size:18
Alignment explanation
Indices: 96365--96431 Score: 66
Period size: 17 Copynumber: 3.6 Consensus size: 18
96355 ATTTTTTATG
96365 ATTTTTATAAAAAATTTAAT
1 ATTTTTAT--AAAATTTAAT
* *
96385 -TTTTAATAAAATTTTA-
1 ATTTTTATAAAATTTAAT
96401 ATTTTTATTAAAATTTAAT
1 ATTTTTA-TAAAATTTAAT
96420 CATTTTTATAAA
1 -ATTTTTATAAA
96432 TTTTTTTTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
17 13 0.33
18 9 0.23
19 10 0.26
20 7 0.18
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (18 bp):
ATTTTTATAAAATTTAAT
Found at i:96446 original size:20 final size:20
Alignment explanation
Indices: 96423--96467 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
96413 ATTTAATCAT
*
96423 TTTTATAAATTTTTTT-TATC
1 TTTTAT-AATTTTTTTCTAAC
96443 TTTTATAATTTTTTTCTAAC
1 TTTTATAATTTTTTTCTAAC
96463 TTTTA
1 TTTTA
96468 ATAAGAGCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.69
Consensus pattern (20 bp):
TTTTATAATTTTTTTCTAAC
Found at i:105120 original size:21 final size:21
Alignment explanation
Indices: 105075--105131 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
105065 CTGTTCTTGC
*
105075 GTTTTTTTTTATTTTCTTTAT
1 GTTTTTTTTTATTTTATTTAT
105096 -TTTTCTTTTTATTTTATTT-T
1 GTTTT-TTTTTATTTTATTTAT
* *
105116 GTTTTTGTTTGTTTTA
1 GTTTTTTTTTATTTTA
105132 CTACTCTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 14 0.45
21 17 0.55
ACGTcount: A:0.09, C:0.04, G:0.07, T:0.81
Consensus pattern (21 bp):
GTTTTTTTTTATTTTATTTAT
Found at i:105130 original size:26 final size:25
Alignment explanation
Indices: 105075--105130 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 25
105065 CTGTTCTTGC
105075 GTTTTTTTTTATTTTCTTTATTTTT
1 GTTTTTTTTTATTTTCTTTATTTTT
* *
105100 CTTTTTATTTTATTTTGTTT-TTGTTT
1 GTTTTT-TTTTATTTTCTTTATT-TTT
105126 GTTTT
1 GTTTT
105131 ACTACTCTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
25 7 0.27
26 19 0.73
ACGTcount: A:0.07, C:0.04, G:0.07, T:0.82
Consensus pattern (25 bp):
GTTTTTTTTTATTTTCTTTATTTTT
Found at i:106029 original size:20 final size:20
Alignment explanation
Indices: 106004--106050 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
105994 GATATTTGTC
106004 TTTATATTGATATT-ACTA-TA
1 TTTATATT-ATATTGA-TATTA
106024 TTTATATTATATTGATATTA
1 TTTATATTATATTGATATTA
106044 TTTATAT
1 TTTATAT
106051 CCTTCTTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.28
20 18 0.72
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (20 bp):
TTTATATTATATTGATATTA
Found at i:106377 original size:16 final size:16
Alignment explanation
Indices: 106358--106388 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
106348 ATATACATAC
*
106358 TTATATTTTTTATATT
1 TTATAATTTTTATATT
106374 TTATAATTTTTATAT
1 TTATAATTTTTATAT
106389 ACATATATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TTATAATTTTTATATT
Found at i:113101 original size:131 final size:131
Alignment explanation
Indices: 112960--113474 Score: 629
Period size: 131 Copynumber: 3.9 Consensus size: 131
112950 AGGTTTGCTA
* * **
112960 ATTTAAGATCGCAAGTCCAAACAACTCGTTGATTTAATATCAC-GACTGATATTGTTAAGGTTC-
1 ATTTAAGATCGCAACTCCAAACAACTCGCTGATTTAATATCACAG-CTGATATCATTAAGGTTCG
** *
113023 TCTGATTTAATATCGTAACCTAAGTTCATTCGATTTAATATCATGAACAATCTTATTTGACTTAA
65 T-TGATTTAATATCACAACCTAAGTTCATTCGATTTAATATCATGAACAATCTTATTTGAATTAA
*
113088 ATG
129 CTG
* ** ** ** * *
113091 ATTTAAGATCGCAACTCCAAATAGTTCATTGATTTAATATCGTAGTTGATATCATTGAGGTTCGT
1 ATTTAAGATCGCAACTCCAAACAACTCGCTGATTTAATATCACAGCTGATATCATTAAGGTTCGT
* * * * * *
113156 TGATTTAAGATCACAACCTAAGTTCATTTGATTTAATACCATGAACAATCTTGTTTGAGTTACCT
66 TGATTTAATATCACAACCTAAGTTCATTCGATTTAATATCATGAACAATCTTATTTGAATTAACT
113221 G
131 G
* * *
113222 ATTTAAGATCGCAACTCCAAACAACTAGCTGATTTAATATCGCAGCTGATATCATTAAGGTTCAT
1 ATTTAAGATCGCAACTCCAAACAACTCGCTGATTTAATATCACAGCTGATATCATTAAGGTTCGT
* * * * *
113287 TGATTTAATATCGCAACGTAAGTTCATTCGATTTAATTTCATGAACAATCCTATTTGAATTAGCT
66 TGATTTAATATCACAACCTAAGTTCATTCGATTTAATATCATGAACAATCTTATTTGAATTAACT
113352 G
131 G
* * * * * * *
113353 ATTCAAGATCGCATCTCAAAACAACTCGCTGATTAAAAATCACAGCTAATATCGTTAAGGTTCGT
1 ATTTAAGATCGCAACTCCAAACAACTCGCTGATTTAATATCACAGCTGATATCATTAAGGTTCGT
* * *
113418 TGATTTAATATCACAATCTAAGTTAATTCGATTTAATATCATGAACAATCTCATTTG
66 TGATTTAATATCACAACCTAAGTTCATTCGATTTAATATCATGAACAATCTTATTTG
113475 TGTTAGCCGA
Statistics
Matches: 325, Mismatches: 57, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
131 323 0.99
132 2 0.01
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.36
Consensus pattern (131 bp):
ATTTAAGATCGCAACTCCAAACAACTCGCTGATTTAATATCACAGCTGATATCATTAAGGTTCGT
TGATTTAATATCACAACCTAAGTTCATTCGATTTAATATCATGAACAATCTTATTTGAATTAACT
G
Found at i:113130 original size:67 final size:66
Alignment explanation
Indices: 112857--113242 Score: 177
Period size: 67 Copynumber: 5.8 Consensus size: 66
112847 TATTGTTTAC
* * * ** *
112857 TTTATATATTATGAACAATCTGATTTGAGTCAGCTGATTTAAGATCGCAACTCCAAACAGTTCAC
1 TTTA-ATATCATGAACAATCTTATTTGAGTTAAATGATTTAAGATCGCAACTCCAAA-AGTTCAT
112922 TGA
64 TGA
* * * * *** * * ** *
112925 TTTAAGATCA-CAACTAAT-ATATTTAAGGTTTGCTAATTTAAGATCGCAAGTCCAAACAACTCG
1 TTTAATATCATGAAC-AATCTTATTTGA-GTTAAATGATTTAAGATCGCAACTCCAAA-AGTTCA
112988 TTGA
63 TTGA
* * * * * *** * * *
112992 TTTAATATCACG-ACTGATATT-GTTAAGGTTCTCTGATTTAATATCGTAA--CC-TAAGTTCAT
1 TTTAATATCATGAAC-AATCTTATTTGA-GTTAAATGATTTAAGATCGCAACTCCAAAAGTTCAT
113052 TCGA
64 T-GA
*
113056 TTTAATATCATGAACAATCTTATTTGACTTAAATGATTTAAGATCGCAACTCCAAATAGTTCATT
1 TTTAATATCATGAACAATCTTATTTGAGTTAAATGATTTAAGATCGCAACTCCAAA-AGTTCATT
113121 GA
65 GA
* *** *** * *
113123 TTTAATATCGTAGTTGATATC--A-TTGAGGTTCGTTGATTTAAGATCACAA--CC-TAAGTTCA
1 TTTAATATCAT-GAACA-ATCTTATTTGA-GTTAAATGATTTAAGATCGCAACTCCAAAAGTTCA
113182 TTTGA
63 -TTGA
* * **
113187 TTTAATACCATGAACAATCTTGTTTGAGTTACCTGATTTAAGATCGCAACTCCAAA
1 TTTAATATCATGAACAATCTTATTTGAGTTAAATGATTTAAGATCGCAACTCCAAA
113243 CAACTAGCTG
Statistics
Matches: 236, Mismatches: 61, Indels: 43
0.69 0.18 0.13
Matches are distributed among these distances:
62 3 0.01
63 13 0.06
64 66 0.28
65 13 0.06
66 16 0.07
67 107 0.45
68 15 0.06
69 3 0.01
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.37
Consensus pattern (66 bp):
TTTAATATCATGAACAATCTTATTTGAGTTAAATGATTTAAGATCGCAACTCCAAAAGTTCATTG
A
Found at i:128999 original size:23 final size:23
Alignment explanation
Indices: 128956--129000 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
128946 CGTACTTCGG
*
128956 TGTTGTCCCGTTACACGCTTTGA
1 TGTTGTCCCGTTACACACTTTGA
128979 TGTTGTCCCGTTACGA-ACTTTG
1 TGTTGTCCCGTTAC-ACACTTTG
129001 GTACTGTCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 19 0.95
24 1 0.05
ACGTcount: A:0.13, C:0.24, G:0.22, T:0.40
Consensus pattern (23 bp):
TGTTGTCCCGTTACACACTTTGA
Found at i:130186 original size:6 final size:6
Alignment explanation
Indices: 130175--131002 Score: 1656
Period size: 6 Copynumber: 138.0 Consensus size: 6
130165 ACTTATTCGG
130175 TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT
1 TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT
130223 TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT
1 TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT
130271 TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT
1 TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT
130319 TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT
1 TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT
130367 TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT
1 TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT
130415 TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT
1 TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT
130463 TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT
1 TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT
130511 TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT
1 TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT
130559 TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT
1 TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT
130607 TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT
1 TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT
130655 TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT
1 TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT
130703 TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT
1 TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT
130751 TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT
1 TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT
130799 TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT
1 TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT
130847 TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT
1 TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT
130895 TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT
1 TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT
130943 TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT
1 TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT
130991 TAAGTT TAAGTT
1 TAAGTT TAAGTT
131003 ATACGAGCTA
Statistics
Matches: 822, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 822 1.00
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (6 bp):
TAAGTT
Found at i:133851 original size:24 final size:23
Alignment explanation
Indices: 133815--133869 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 23
133805 GTTTTATCTT
133815 TATTTCTTAATTTT-TATATACATA
1 TATTT-TTAATTTTATA-ATACATA
133839 TATTTTTACATTTTATAATACATA
1 TATTTTTA-ATTTTATAATACATA
*
133863 TGTTTTT
1 TATTTTT
133870 TTTGAAAATG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
23 3 0.11
24 23 0.82
25 2 0.07
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.60
Consensus pattern (23 bp):
TATTTTTAATTTTATAATACATA
Found at i:138787 original size:16 final size:16
Alignment explanation
Indices: 138766--138796 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
138756 GTTCAGTTTC
*
138766 AAAAAAAAATGAGGCA
1 AAAAAAAAAAGAGGCA
138782 AAAAAAAAAAGAGGC
1 AAAAAAAAAAGAGGC
138797 CAAGGTGAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.06, G:0.19, T:0.03
Consensus pattern (16 bp):
AAAAAAAAAAGAGGCA
Found at i:140170 original size:44 final size:45
Alignment explanation
Indices: 139997--140545 Score: 364
Period size: 44 Copynumber: 12.5 Consensus size: 45
139987 GCAGATCAGT
* * * * *
139997 GAAGATAGCGGGTCCTGTCTTCCTATATTGGTAG-GAAGTGGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGCAGTGAAGTAGATC
* ** * * *
140041 GAAGAT-GCAGATCTTGTCTTCCCATATTGGTGGCGGAGTAGATT
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGCAGTGAAGTAGATC
* * * *
140085 GAAGAAAGTAGATCTTGTCTT-C---GTTGGC-GTGAAGTAAATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGCAGTGAAGTAGATC
* * *
140125 GAAGATAGCAGGTCCTGTCTTCCTATATTGGCAG-GAAGTGGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGCAGTGAAGTAGATC
* * * *
140169 GAAGAT-GCAAATCTTCTCTTCCCATATTGGTGACG-G-AGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGG-CA-GTGAAGTAGATC
* * * * * * *
140213 GAAGAAAGCAAATCTTGTCTTCATGTATTGAC-GTAAAATAGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGCAGTGAAGTAGATC
* * * * * *
140257 GAAGATAACAGATCCTGTCTTCTTATATTGGTAGCGAAGTGGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGCAGTGAAGTAGATC
* ** * *
140302 GAAGAT-GCAGATCTTGTTTTCCTAT-TCTGGTGGCGAAATAGATC
1 GAAGATAGCAGATCTTGTCTTCCTATAT-TGGCAGTGAAGTAGATC
* * * *
140346 G-AGAAAAGCAGATCTTGTCTTCATGTATTAGC-GTGAAGTAGATC
1 GAAG-ATAGCAGATCTTGTCTTCCTATATTGGCAGTGAAGTAGATC
* * * **
140390 GAATATAGCATG-TCCTGTCTTCCTATATTGGTAG-GAAGCGGATC
1 GAAGATAGCA-GATCTTGTCTTCCTATATTGGCAGTGAAGTAGATC
* * * ** **
140434 GAAGATA-CAGATCTTATCTTCCCATACTGGTGGCAAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGCAGTGAAGTAGATC
* * * *
140478 GAAGAAAGTAGATCTTGTCTTCATGTATTGGC-GTGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGCAGTGAAGTAGATC
*
140522 GAAGATAGCAGATCTTGCCTTCCT
1 GAAGATAGCAGATCTTGTCTTCCT
140546 GCACCGACAG
Statistics
Matches: 384, Mismatches: 98, Indels: 46
0.73 0.19 0.09
Matches are distributed among these distances:
40 25 0.07
41 5 0.01
42 2 0.01
43 63 0.16
44 201 0.52
45 87 0.23
46 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.30
Consensus pattern (45 bp):
GAAGATAGCAGATCTTGTCTTCCTATATTGGCAGTGAAGTAGATC
Found at i:140476 original size:265 final size:260
Alignment explanation
Indices: 140009--140545 Score: 745
Period size: 265 Copynumber: 2.0 Consensus size: 260
139999 AGATAGCGGG
140009 TCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
1 TCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
* * * * *
140074 CGGAGTAGATTGAAGAAAGTAGATCTTGTCTTCGTTGGCGTGAAGTAAATCGAAGATAGCAGGTC
66 CGAAATAGATCGAAGAAAGCAGATCTTGTCTTCGTTAGCGTGAAGTAAATCGAAGATAGCAGGTC
* * * * *
140139 CTGTCTTCCTATATTGGCAGGAAGTGGATCGAAGATGCAAATCTTCTCTTCCCATATTGGTGACG
131 CTGTCTTCCTATATTGGCAGGAAGCGGATCGAAGATACAAATCTTATCTTCCCATACTGGTGACA
*
140204 GAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTATTGACGTAAAATAGATCGAAGATAACAGA
196 AAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTATTGACGTAAAATAGATCGAAGATAACAGA
* * *
140269 TCCTGTCTTCTTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTTTTCCTAT-TCTGGT
1 TCCTGTCTTCCTATATTGGTAG-GAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATAT-TGGT
* *
140333 GGCGAAATAGATCG-AGAAAAGCAGATCTTGTCTTCATGTATTAGCGTGAAGTAGATCGAATATA
64 GGCGAAATAGATCGAAG-AAAGCAGATCTTGTCTTC--G--TTAGCGTGAAGTAAATCGAAGATA
* * *
140397 GCATGTCCTGTCTTCCTATATTGGTAGGAAGCGGATCGAAGATACAGATCTTATCTTCCCATACT
124 GCAGGTCCTGTCTTCCTATATTGGCAGGAAGCGGATCGAAGATACAAATCTTATCTTCCCATACT
* * * * * *
140462 GGTGGCAAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGA
189 GGTGACAAAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTATTGACGTAAAATAGATCGAAGA
*
140527 TAGCAGA
254 TAACAGA
* *
140534 TCTTGCCTTCCT
1 TCCTGTCTTCCT
140546 GCACCGACAG
Statistics
Matches: 241, Mismatches: 29, Indels: 9
0.86 0.10 0.03
Matches are distributed among these distances:
260 24 0.10
261 65 0.27
263 1 0.00
265 151 0.63
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.31
Consensus pattern (260 bp):
TCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
CGAAATAGATCGAAGAAAGCAGATCTTGTCTTCGTTAGCGTGAAGTAAATCGAAGATAGCAGGTC
CTGTCTTCCTATATTGGCAGGAAGCGGATCGAAGATACAAATCTTATCTTCCCATACTGGTGACA
AAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTATTGACGTAAAATAGATCGAAGATAACAGA
Found at i:140544 original size:132 final size:132
Alignment explanation
Indices: 139997--140545 Score: 716
Period size: 132 Copynumber: 4.2 Consensus size: 132
139987 GCAGATCAGT
* *
139997 GAAGATAGCGGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTC
1 GAAGATAGCAGATCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTC
* ** * * *
140062 CCATATTGGTGGCGGAGTAGATTGAAGAAAGTAGATCTTGTCTTC--G--TTGGCGTGAAGTAAA
66 CCATACTGGTGGCAAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGA
140123 TC
131 TC
* * * *
140125 GAAGATAGCAGGTCCTGTCTTCCTATATTGGCAGGAAGTGGATCGAAGATGCAAATCTTCTCTTC
1 GAAGATAGCAGATCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTC
* * ** * * * *
140190 CCATATTGGTGACGGAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTATTGACGTAAAATAGA
66 CCATACTGGTGGCAAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGA
140255 TC
131 TC
* * *
140257 GAAGATAACAGATCCTGTCTTCTTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTTTT
1 GAAGATAGCAGATCCTGTCTTCCTATATTGGTAG-GAAGTGGATCGAAGATGCAGATCTTGTCTT
* * *
140322 CCTATTCTGGTGGCGAAA-TAGATCG-AGAAAAGCAGATCTTGTCTTCATGTATTAGCGTGAAGT
65 CCCATACTGGTGGC-AAAGTAGATCGAAG-AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGT
140385 AGATC
128 AGATC
* * * *
140390 GAATATAGCATG-TCCTGTCTTCCTATATTGGTAGGAAGCGGATCGAAGATACAGATCTTATCTT
1 GAAGATAGCA-GATCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTT
*
140454 CCCATACTGGTGGCAAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAG
65 CCCATACTGGTGGCAAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAG
140519 ATC
130 ATC
* *
140522 GAAGATAGCAGATCTTGCCTTCCT
1 GAAGATAGCAGATCCTGTCTTCCT
140546 GCACCGACAG
Statistics
Matches: 366, Mismatches: 44, Indels: 18
0.86 0.10 0.04
Matches are distributed among these distances:
128 102 0.28
130 1 0.00
131 4 0.01
132 147 0.40
133 110 0.30
134 2 0.01
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.30
Consensus pattern (132 bp):
GAAGATAGCAGATCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTC
CCATACTGGTGGCAAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGA
TC
Found at i:140627 original size:44 final size:45
Alignment explanation
Indices: 140526--140828 Score: 160
Period size: 44 Copynumber: 6.9 Consensus size: 45
140516 TAGATCGAAG
* * * *
140526 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGA-TCGAAG
1 ATAGCAGATCTTGCCTCCCTGCACTGACAGCGAAGCAGACT-AAAA
* * * *
140571 ACACCAG-CCTTGCCTCCCTAG-ACTG-CAGCGGAGCAGACTAAAA
1 ATAGCAGATCTTGCCTCCCT-GCACTGACAGCGAAGCAGACTAAAA
* * * *
140614 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGA-TCGAAG
1 ATAGCAGATCTTGCCTCCCTGCACTGACAGCGAAGCAGACT-AAAA
* * * * * *** * *
140659 ACACCAG-CCTTACCTCCTTGGGTTG-CAGCGGAGCAGGCTAAAA
1 ATAGCAGATCTTGCCTCCCTGCACTGACAGCGAAGCAGACTAAAA
* *
140702 ATAGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGA-TCGAAA
1 ATAGCAGATCTTGCCTCCCTGCACTGACAGCGAAGCAGACT-AAAA
* * * ** * * **
140747 ACACCAG-CCTTGCCTCCCTG-GGTTACAGTGGAA-CAGGTTAAAA
1 ATAGCAGATCTTGCCTCCCTGCACTGACAG-CGAAGCAGACTAAAA
* **
140790 ATAGCAGATCTTGCCTTCCTGCACCAACAGCGAAGCAGA
1 ATAGCAGATCTTGCCTCCCTGCACTGACAGCGAAGCAGA
140829 TCGATGACCC
Statistics
Matches: 181, Mismatches: 62, Indels: 30
0.66 0.23 0.11
Matches are distributed among these distances:
43 52 0.29
44 80 0.44
45 49 0.27
ACGTcount: A:0.29, C:0.30, G:0.23, T:0.18
Consensus pattern (45 bp):
ATAGCAGATCTTGCCTCCCTGCACTGACAGCGAAGCAGACTAAAA
Found at i:140631 original size:88 final size:88
Alignment explanation
Indices: 140526--140843 Score: 501
Period size: 88 Copynumber: 3.6 Consensus size: 88
140516 TAGATCGAAG
*
140526 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTA
1 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTG
** *
140591 GACTGCAGCGGAGCAGACTAAAA
66 GGTTGCAGCGGAGCAGGCTAAAA
* *
140614 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTACCTCCTTG
1 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTG
140679 GGTTGCAGCGGAGCAGGCTAAAA
66 GGTTGCAGCGGAGCAGGCTAAAA
* *
140702 ATAGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAAACACCAGCCTTGCCTCCCTG
1 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTG
* * * *
140767 GGTTACAGTGGAACAGGTTAAAA
66 GGTTGCAGCGGAGCAGGCTAAAA
* * *
140790 ATAGCAGATCTTGCCTTCCTGCACCAACAGCGAAGCAGATCGATGACCCCAGCC
1 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCC
140844 CTATCTACCT
Statistics
Matches: 211, Mismatches: 19, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
88 211 1.00
ACGTcount: A:0.29, C:0.31, G:0.23, T:0.18
Consensus pattern (88 bp):
ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTG
GGTTGCAGCGGAGCAGGCTAAAA
Found at i:140656 original size:265 final size:265
Alignment explanation
Indices: 140122--140659 Score: 562
Period size: 265 Copynumber: 2.0 Consensus size: 265
140112 CGTGAAGTAA
* * *
140122 ATCGAAGATAGCAGGTCCTGTCTTCCTATATTGGCAGGAAGTGGATCGAAGATGCAAATCTTCTC
1 ATCGAAGATAGCAGGTCCTGTCTTCCTATATTGGCAGGAAGCGGATCGAAGATACAAATCTTATC
* **
140187 TTCCCATATTGGTGACGGAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTATTGACGTAAAAT
66 TTCCCATACTGGTGACAAAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTATTGACGTAAAAT
* * * ** ** ** ** *
140252 AGATCGAAGATAACAGATCCTGTCTTCTTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTT
131 AGATCGAAGATAACAGATCCTGCCTTCCTACACCGACAGCGAAGCAGATCGAAGAACCAGACCTT
** * ** ** * * * * ** *
140317 GTTTTCCTATTCTGGTGGCGAAATAGATCGAGAAAAGCAGATCTTGTCTTCATGTATTAGCGTGA
196 GCCTCCCTAGACTGGCAGCGAAACAGATCGAAAAAAGCAGATCTTGCCTTCATGCACGAGCGCGA
*
140382 AGTAG
261 AGCAG
* * * *
140387 ATCGAATATAGCATGTCCTGTCTTCCTATATTGGTAGGAAGCGGATCGAAGATACAGATCTTATC
1 ATCGAAGATAGCAGGTCCTGTCTTCCTATATTGGCAGGAAGCGGATCGAAGATACAAATCTTATC
* * * * * *
140452 TTCCCATACTGGTGGCAAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATTGGCGTGAAGT
66 TTCCCATACTGGTGACAAAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTATTGACGTAAAAT
* * *
140517 AGATCGAAGATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAG-CCT
131 AGATCGAAGATAACAGATCCTGCCTTCCTACACCGACAGCGAAGCAGATCGAAGA-ACCAGACCT
* * * *
140581 TGCCTCCCTAGACT-GCAGCGGAGCAGA-CTAAAAATAGCAGATCTTGCCTTCCTGCACCGA-CA
195 TGCCTCCCTAGACTGGCAGCGAAACAGATCGAAAAA-AGCAGATCTTGCCTTCATGCA-CGAGC-
140643 GCGAAGCAG
257 GCGAAGCAG
140652 ATCGAAGA
1 ATCGAAGA
140660 CACCAGCCTT
Statistics
Matches: 218, Mismatches: 51, Indels: 8
0.79 0.18 0.03
Matches are distributed among these distances:
263 5 0.02
264 27 0.12
265 183 0.84
266 3 0.01
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.27
Consensus pattern (265 bp):
ATCGAAGATAGCAGGTCCTGTCTTCCTATATTGGCAGGAAGCGGATCGAAGATACAAATCTTATC
TTCCCATACTGGTGACAAAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTATTGACGTAAAAT
AGATCGAAGATAACAGATCCTGCCTTCCTACACCGACAGCGAAGCAGATCGAAGAACCAGACCTT
GCCTCCCTAGACTGGCAGCGAAACAGATCGAAAAAAGCAGATCTTGCCTTCATGCACGAGCGCGA
AGCAG
Found at i:140906 original size:44 final size:44
Alignment explanation
Indices: 140843--141008 Score: 217
Period size: 44 Copynumber: 3.8 Consensus size: 44
140833 TGACCCCAGC
*
140843 CCTATCTACCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
* * *
140887 CCTATCTCCCTGGTCAGCAGTGGAATAAGTTGAAGATTGAGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
* * * *
140931 TCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTGTGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
* * *
140975 CTTATCTCCCTGAG-CAGTAGTGGATTAGGTTAAA
1 CCTATCTCCCTG-GTCAGCAGTGGAATAGGTTAAA
141009 AATAGCAGAT
Statistics
Matches: 106, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
44 105 0.99
45 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (44 bp):
CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
Found at i:141138 original size:88 final size:88
Alignment explanation
Indices: 140981--141141 Score: 205
Period size: 88 Copynumber: 1.8 Consensus size: 88
140971 GAATCTTATC
* * * * *
140981 TCCCTGAGCAGTAGTGGATTAGGTTAAAAATAGCAGATCTTGCATTCATGTACCGGCAGCGAAGC
1 TCCCTAAGCAGCAGTGGAGTAGGTTAAAAATAGCAGATCTTGCATTCATGTACCAGCAACGAAGC
141046 AGATCGAAAACTCCAGTCTTGTA
66 AGATCGAAAACTCCAGTCTTGTA
* * * * * * * *
141069 TCCCTAAGCAGCAGTGGAGTAGGTTGAAAATAGCAGGTCTTTCCTTCCTGTACTAGCAATGAAGT
1 TCCCTAAGCAGCAGTGGAGTAGGTTAAAAATAGCAGATCTTGCATTCATGTACCAGCAACGAAGC
141134 AGATCGAA
66 AGATCGAA
141142 GACATCAGTT
Statistics
Matches: 60, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
88 60 1.00
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.25
Consensus pattern (88 bp):
TCCCTAAGCAGCAGTGGAGTAGGTTAAAAATAGCAGATCTTGCATTCATGTACCAGCAACGAAGC
AGATCGAAAACTCCAGTCTTGTA
Found at i:141714 original size:44 final size:44
Alignment explanation
Indices: 141642--141979 Score: 200
Period size: 44 Copynumber: 7.8 Consensus size: 44
141632 TGTAATGGCA
*
141642 AATCTTATTTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGAT
** ****
141686 AAT-TCTATCTCCCTGAAGTTGCAGTGGAGGGGATTAAA-AATTT
1 AATCT-TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGAT
* * * ***
141729 GGATCTTATCTCTCTGAAGTTGCAG-GGAGCAGA-T--CGCATCT
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGAT
* * *
141770 AGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAGTAAG-C-A-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTA--AAGCCGAT
* * * ** *
141814 AGTCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATGACA
1 AATCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGATTAAAGCCGA-T
* * *
141859 AATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTAAAGCTGAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGAT
* * * * *
141903 AATCCTATCTCCCTGAAGTTACAGTGAAGCGGATTGAAA-CC-AC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAGCCGAT
* *
141946 AGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGAT
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
141980 CGCATCTGGT
Statistics
Matches: 226, Mismatches: 47, Indels: 43
0.72 0.15 0.14
Matches are distributed among these distances:
40 20 0.09
41 14 0.06
42 1 0.00
43 20 0.09
44 130 0.58
45 37 0.16
46 3 0.01
47 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.28
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGAT
Found at i:141918 original size:89 final size:88
Alignment explanation
Indices: 141772--141979 Score: 226
Period size: 89 Copynumber: 2.4 Consensus size: 88
141762 TCGCATCTAG
* * * *
141772 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCA
1 TCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTAAGTAAGCAAGTCCTATCCTCCTGAAGTTACA
* **
141837 GTGAGGCAGACTGAAGATGACAAA
66 GTGAAGCAGACTGAA-ACCACAAA
* *
141861 TCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTAAAGCTGA-TAA-TCCTAT-CTCCCTGAAGTT
1 TCTTATCTCCCTAAAGTTGCAGTAGAGCAGATT-AAG-TAAGCAAGTCCTATCCT-CCTGAAGTT
* * *
141923 ACAGTGAAGCGGATTGAAACCACAGA
63 ACAGTGAAGCAGACTGAAACCACAAA
* *
141949 TCTTATCTCTCTGAAGTTGCAG-AGAGCAGAT
1 TCTTATCTCCCTAAAGTTGCAGTAGAGCAGAT
141980 CGCATCTGGT
Statistics
Matches: 102, Mismatches: 14, Indels: 8
0.82 0.11 0.06
Matches are distributed among these distances:
87 9 0.09
88 27 0.26
89 59 0.58
90 5 0.05
91 2 0.02
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (88 bp):
TCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTAAGTAAGCAAGTCCTATCCTCCTGAAGTTACA
GTGAAGCAGACTGAAACCACAAA
Found at i:142020 original size:217 final size:215
Alignment explanation
Indices: 141640--142094 Score: 635
Period size: 217 Copynumber: 2.1 Consensus size: 215
141630 ATTGTAATGG
* * * *
141640 CAAATCTTATTTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATTCTATCTCCCTGAAGT
1 CAAATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGT
* * * **** *
141705 TGCAGTGGAGGGGATTAAAAATTTGGATCTTATCTCTCTGAAGTTGCAGGGAGCAGATCGCATCT
66 TACAGTGAAGCGGATTAAAAACACAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCT
* * *
141770 AGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTG
131 AGTCTTATCTCCCTAAAGTTGCAGTGAAGCAGACTAAGTAAGAAAGTCTTATCC-CCTGAAATTG
141835 CAGT-GAGGCAGACTGAA-GATGA
195 CAGTAG-GGCAGACTGAATGA--A
*
141857 CAAATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTAAAGCTGATAATCCTATCTCCCTGAAGT
1 CAAATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGT
* *
141922 TACAGTGAAGCGGATTGAAACCACAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCT
66 TACAGTGAAGCGGATTAAAAACACAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCT
* * * * *
141987 GGTCTTATTTCCCTGAAGTTGTAGTGAAGCAGACTGAGTAAGAAAGTCTTATCCCCTGAAATTGC
131 AGTCTTATCTCCCTAAAGTTGCAGTGAAGCAGACTAAGTAAGAAAGTCTTATCCCCTGAAATTGC
*
142052 AGTAGGGCGGACTGAATGAA
196 AGTAGGGCAGACTGAATGAA
*
142072 CAAATCCTATCTCCCTAAAGTTG
1 CAAATCTTATCTCCCTAAAGTTG
142095 TAGTGGAGTG
Statistics
Matches: 211, Mismatches: 25, Indels: 6
0.87 0.10 0.02
Matches are distributed among these distances:
215 23 0.11
216 23 0.11
217 165 0.78
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.28
Consensus pattern (215 bp):
CAAATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGT
TACAGTGAAGCGGATTAAAAACACAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCT
AGTCTTATCTCCCTAAAGTTGCAGTGAAGCAGACTAAGTAAGAAAGTCTTATCCCCTGAAATTGC
AGTAGGGCAGACTGAATGAA
Found at i:153483 original size:101 final size:101
Alignment explanation
Indices: 153369--153570 Score: 395
Period size: 101 Copynumber: 2.0 Consensus size: 101
153359 TTATAATTAG
153369 TGTTTAAAAGATAATGAATTTACGTTCCCCAAAGTTTTTCAAATTTTTTTAAATTTGATTTATTT
1 TGTTTAAAAGATAATGAATTTACGTTCCCCAAAGTTTTTCAAATTTTTTTAAATTTGATTTATTT
153434 TATAGAATTTATAATTTTTTTAGGATAAATTTAGTA
66 TATAGAATTTATAATTTTTTTAGGATAAATTTAGTA
153470 TGTTTAAAAGATAATGAATTTACGTTCCCCAAAGTTTTTCAAATTTTTTTAAATTTGATTTATTT
1 TGTTTAAAAGATAATGAATTTACGTTCCCCAAAGTTTTTCAAATTTTTTTAAATTTGATTTATTT
*
153535 TATAGAATTTATAATTTTTTTATGATAAATTTAGTA
66 TATAGAATTTATAATTTTTTTAGGATAAATTTAGTA
153571 ACATTTTTAG
Statistics
Matches: 100, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
101 100 1.00
ACGTcount: A:0.35, C:0.06, G:0.09, T:0.50
Consensus pattern (101 bp):
TGTTTAAAAGATAATGAATTTACGTTCCCCAAAGTTTTTCAAATTTTTTTAAATTTGATTTATTT
TATAGAATTTATAATTTTTTTAGGATAAATTTAGTA
Found at i:159915 original size:13 final size:14
Alignment explanation
Indices: 159899--159933 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
159889 AAAATAGGGG
*
159899 AAAAAAGCAAAA-A
1 AAAAAAGAAAAAGA
159912 AAAAAAGAAAAAGA
1 AAAAAAGAAAAAGA
159926 AAAAAAGA
1 AAAAAAGA
159934 GGGAGAGACG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 11 0.55
14 9 0.45
ACGTcount: A:0.86, C:0.03, G:0.11, T:0.00
Consensus pattern (14 bp):
AAAAAAGAAAAAGA
Found at i:159975 original size:3 final size:3
Alignment explanation
Indices: 159967--160169 Score: 406
Period size: 3 Copynumber: 67.7 Consensus size: 3
159957 ATGAAAGGAA
159967 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
160015 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
160063 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
160111 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
160159 AAT AAT AAT AA
1 AAT AAT AAT AA
160170 GAAAGGAATT
Statistics
Matches: 200, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 200 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:160341 original size:16 final size:15
Alignment explanation
Indices: 160320--160361 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
160310 TTGAATCGAG
160320 TTGAGTGAAAT-GAAA
1 TTGAGTGAAATAG-AA
*
160335 TTTGAGTGAAGTAGAA
1 -TTGAGTGAAATAGAA
160351 TTGAGTGAAAT
1 TTGAGTGAAAT
160362 TGTTCGAGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 10 0.43
16 12 0.52
17 1 0.04
ACGTcount: A:0.40, C:0.00, G:0.29, T:0.31
Consensus pattern (15 bp):
TTGAGTGAAATAGAA
Found at i:160613 original size:19 final size:19
Alignment explanation
Indices: 160589--160628 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
160579 ATTTTCTTTA
160589 TATATTCTTTAGAATTTTT
1 TATATTCTTTAGAATTTTT
* *
160608 TATATTTTTTATAATTTTT
1 TATATTCTTTAGAATTTTT
160627 TA
1 TA
160629 AAAATATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.68
Consensus pattern (19 bp):
TATATTCTTTAGAATTTTT
Found at i:160616 original size:10 final size:10
Alignment explanation
Indices: 160585--160628 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
160575 TTTAATTTTC
*
160585 TTTATATATTC
1 TTTATA-ATTT
*
160596 TTTAGAATTT
1 TTTATAATTT
160606 TTTAT-ATTT
1 TTTATAATTT
160615 TTTATAATTT
1 TTTATAATTT
160625 TTTA
1 TTTA
160629 AAAATATAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
9 9 0.31
10 15 0.52
11 5 0.17
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.68
Consensus pattern (10 bp):
TTTATAATTT
Found at i:172458 original size:28 final size:28
Alignment explanation
Indices: 172422--172493 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 28
172412 TAATGAGATT
* * *
172422 AGCACTAAGTATGCGAGTTTAATTGTAA
1 AGCACTAAGTGTGCGAGATTAATTATAA
* * *
172450 AGCATTAAGTGTGCGAGATTGATTATTA
1 AGCACTAAGTGTGCGAGATTAATTATAA
172478 AGCACTAAGTGTGCGA
1 AGCACTAAGTGTGCGA
172494 ACTTATTAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.33, C:0.11, G:0.25, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGATTAATTATAA
Found at i:173246 original size:23 final size:23
Alignment explanation
Indices: 173217--173533 Score: 242
Period size: 23 Copynumber: 13.5 Consensus size: 23
173207 TGATGCTTAA
173217 ATGCTGCCCAATTTGTTGTATAT
1 ATGCTGCCCAATTTGTTGTATAT
* * *
173240 ATACTGCTCAATTTGTTGCATAT
1 ATGCTGCCCAATTTGTTGTATAT
* * *
173263 ATGCTGTCCAATTTTTTATGCT-TAA
1 ATGCTGCCCAA-TTTGT-TG-TATAT
*
173288 ATGCTGCCCAATTTGTTGTATTT
1 ATGCTGCCCAATTTGTTGTATAT
** *
173311 ATGCTGCCCAAAATGTTATATAT
1 ATGCTGCCCAATTTGTTGTATAT
* * *
173334 ATGCTGCCCAATTTTTGGTGTAAAA
1 ATGCTGCCCAA--TTTGTTGTATAT
* * * *
173359 ATGATGCTCAATTTGTTGTTTTT
1 ATGCTGCCCAATTTGTTGTATAT
173382 ATGCTGCCCAGA-TTGTTGTATAT
1 ATGCTGCCCA-ATTTGTTGTATAT
* * * *
173405 ATGCTGTCCAATTTTGATGTAAAA
1 ATGCTGCCCAA-TTTGTTGTATAT
* * * * *
173429 ATGTTGCTCAATTTGGTATATAA
1 ATGCTGCCCAATTTGTTGTATAT
173452 ATGCTGCCCAATTTGTTGTATAT
1 ATGCTGCCCAATTTGTTGTATAT
* * * *
173475 ATGCTGTCCAATTTTTGGTGTAAAA
1 ATGCTGCCCAA--TTTGTTGTATAT
* *
173500 ATGCTACTCAATTTGTTGTATAT
1 ATGCTGCCCAATTTGTTGTATAT
*
173523 ATGCTGTCCAA
1 ATGCTGCCCAA
173534 ATTTTGGTGT
Statistics
Matches: 221, Mismatches: 62, Indels: 22
0.72 0.20 0.07
Matches are distributed among these distances:
22 2 0.01
23 148 0.67
24 25 0.11
25 46 0.21
ACGTcount: A:0.26, C:0.15, G:0.17, T:0.43
Consensus pattern (23 bp):
ATGCTGCCCAATTTGTTGTATAT
Found at i:173305 original size:71 final size:71
Alignment explanation
Indices: 173215--173533 Score: 392
Period size: 71 Copynumber: 4.5 Consensus size: 71
173205 TTTGATGCTT
* * * * *
173215 AAATGCTGCCCAATTTGTTGTATATATACTGCTCAATTTGTTGCATATATGCTGTCCAATTTTTT
1 AAATGCTGCTCAATTTGTTGTATATATGCTGCCCAATTTGTTGTATATATGCTGTCCAATTTTTG
*
173280 ATGCT-T
66 ATG-TAA
* * ** * *
173286 AAATGCTGCCCAATTTGTTGTATTTATGCTGCCCAAAATGTTATATATATGCTGCCCAATTTTTG
1 AAATGCTGCTCAATTTGTTGTATATATGCTGCCCAATTTGTTGTATATATGCTGTCCAATTTTTG
*
173351 GTGTAA
66 ATGTAA
* * *
173357 AAATGATGCTCAATTTGTTGTTTTTATGCTGCCCAGA-TTGTTGTATATATGCTGTCCAA-TTTT
1 AAATGCTGCTCAATTTGTTGTATATATGCTGCCCA-ATTTGTTGTATATATGCTGTCCAATTTTT
173420 GATGTAA
65 GATGTAA
* * * *
173427 AAATGTTGCTCAATTTGGTATATAAATGCTGCCCAATTTGTTGTATATATGCTGTCCAATTTTTG
1 AAATGCTGCTCAATTTGTTGTATATATGCTGCCCAATTTGTTGTATATATGCTGTCCAATTTTTG
*
173492 GTGTAA
66 ATGTAA
* *
173498 AAATGCTACTCAATTTGTTGTATATATGCTGTCCAA
1 AAATGCTGCTCAATTTGTTGTATATATGCTGCCCAA
173534 ATTTTGGTGT
Statistics
Matches: 213, Mismatches: 31, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
69 1 0.00
70 62 0.29
71 149 0.70
72 1 0.00
ACGTcount: A:0.26, C:0.15, G:0.17, T:0.42
Consensus pattern (71 bp):
AAATGCTGCTCAATTTGTTGTATATATGCTGCCCAATTTGTTGTATATATGCTGTCCAATTTTTG
ATGTAA
Found at i:173504 original size:48 final size:47
Alignment explanation
Indices: 173215--173550 Score: 234
Period size: 48 Copynumber: 7.1 Consensus size: 47
173205 TTTGATGCTT
* * * * *
173215 AAATGCTGCCCAATTTGTTGTATATATACTGCTCAA-TTTGTTGCAT
1 AAATGCTGCCCAATTTGTTGTATATATGCTGCCCAATTTTGGTGTAA
* * * * * *
173261 ATATGCTGTCCAATTTTTTATGCT-TAAATGCTGCCCAA-TTTGTTGTAT
1 AAATGCTGCCCAA-TTTGT-TG-TATATATGCTGCCCAATTTTGGTGTAA
** ** *
173309 TTATGCTGCCCAAAATGTTATATATATGCTGCCCAATTTTTGGTGTAA
1 AAATGCTGCCCAATTTGTTGTATATATGCTGCCCAA-TTTTGGTGTAA
* * * * * *
173357 AAATGATGCTCAATTTGTTGTTTTTATGCTGCCCAGA--TTGTTGTAT
1 AAATGCTGCCCAATTTGTTGTATATATGCTGCCCA-ATTTTGGTGTAA
* * * * * * * * *
173403 ATATGCTGTCCAATTTTGATGTAAAAATGTTGCTCAA-TTTGGTATAT
1 AAATGCTGCCCAA-TTTGTTGTATATATGCTGCCCAATTTTGGTGTAA
*
173450 AAATGCTGCCCAATTTGTTGTATATATGCTGTCCAATTTTTGGTGTAA
1 AAATGCTGCCCAATTTGTTGTATATATGCTGCCCAA-TTTTGGTGTAA
* * * *
173498 AAATGCTACTCAATTTGTTGTATATATGCTGTCCAAATTTTGGTGTGA
1 AAATGCTGCCCAATTTGTTGTATATATGCTG-CCCAATTTTGGTGTAA
173546 AAATG
1 AAATG
173551 TTGTCTTGTT
Statistics
Matches: 223, Mismatches: 55, Indels: 22
0.74 0.18 0.07
Matches are distributed among these distances:
45 1 0.00
46 59 0.26
47 39 0.17
48 119 0.53
49 5 0.02
ACGTcount: A:0.26, C:0.14, G:0.17, T:0.42
Consensus pattern (47 bp):
AAATGCTGCCCAATTTGTTGTATATATGCTGCCCAATTTTGGTGTAA
Found at i:176120 original size:24 final size:23
Alignment explanation
Indices: 176093--176143 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
176083 CATTGTGGCC
176093 TCTTAAATTACAATCAA-TTATGAA
1 TCTTAAATTAC-A-CAATTTATGAA
* *
176117 TCTTTAATTTCACAATTTATGAA
1 TCTTAAATTACACAATTTATGAA
176140 TCTT
1 TCTT
176144 CTTGTTGTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 3 0.12
23 12 0.50
24 9 0.38
ACGTcount: A:0.37, C:0.14, G:0.04, T:0.45
Consensus pattern (23 bp):
TCTTAAATTACACAATTTATGAA
Found at i:177630 original size:37 final size:36
Alignment explanation
Indices: 177587--177659 Score: 96
Period size: 36 Copynumber: 2.0 Consensus size: 36
177577 ATTTAACAAG
*
177587 CAAATGTCTATA-AATATTAGCAAA-ATTAACAATAAAA
1 CAAATGT-TATACAATATT--CAAACATTAACAACAAAA
177624 CAAATGTTATACAATATTCAAACATTAACAACAAAA
1 CAAATGTTATACAATATTCAAACATTAACAACAAAA
177660 TGGTAGCAAC
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
35 4 0.12
36 16 0.48
37 13 0.39
ACGTcount: A:0.56, C:0.14, G:0.04, T:0.26
Consensus pattern (36 bp):
CAAATGTTATACAATATTCAAACATTAACAACAAAA
Found at i:178116 original size:20 final size:22
Alignment explanation
Indices: 178093--178137 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
178083 TAATCATTAC
*
178093 AAAATACAA-TTAAATA-AATA
1 AAAATAAAATTTAAATATAATA
*
178113 AAAATAAAATTTATATATAATA
1 AAAATAAAATTTAAATATAATA
178135 AAA
1 AAA
178138 CTCAAGTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 8 0.38
21 6 0.29
22 7 0.33
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (22 bp):
AAAATAAAATTTAAATATAATA
Found at i:190597 original size:31 final size:29
Alignment explanation
Indices: 190559--190628 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 29
190549 ACTACTAAAA
* *
190559 TAGTCACTTTTGTTTGACTCAGGTTACATTT
1 TAGTCACTTATGTTTGA--AAGGTTACATTT
* *
190590 TAGTCACTTATGTTTGAAATGTTACGTTT
1 TAGTCACTTATGTTTGAAAGGTTACATTT
190619 TAGTCACTTA
1 TAGTCACTTA
190629 CGTTATCGTG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 19 0.54
31 16 0.46
ACGTcount: A:0.23, C:0.14, G:0.16, T:0.47
Consensus pattern (29 bp):
TAGTCACTTATGTTTGAAAGGTTACATTT
Found at i:194222 original size:129 final size:129
Alignment explanation
Indices: 193991--194251 Score: 335
Period size: 129 Copynumber: 2.0 Consensus size: 129
193981 AGAGAATTTT
* * ** * *
193991 GTTCTTTGTTTTGAAGGATTTTTTCTTGCGGGGCTTCGGGTTTTTCTTTTAATTCTCTTCATCTT
1 GTTCTTTGTTTCGAAGGAGTTTTTCTTGCGGGGCTTCAAGTTTTTCTTTTAATTCTCTCCATATT
* * *
194056 CTGTACTCTAATTTATTATAGCAAAATATTCTTTTGTCCATAGTTTTTTAATCCTCTCTTGAGGA
66 CTGTACTCTAACTTATTATAGCAAAATATCCTTTTGTCCATAGTTTTTT-ATCCTCTCTTGAGAA
* *
194121 GTTCTTTGTTTCGAAGG-GTTTTTCTTGTGGGGTTTCAAGTTTTTCTTTTAATTCTCTCCATATT
1 GTTCTTTGTTTCGAAGGAGTTTTTCTTGCGGGGCTTCAAGTTTTTCTTTTAATTCTCTCCATATT
* * * * * ** *
194185 TTGTTCTCTCACTTATTATAGTAAAATCTCCTTTTGTCTGTAGTTTTTTATCCTCTTTTGAGAA
66 CTGTACTCTAACTTATTATAGCAAAATATCCTTTTGTCCATAGTTTTTTATCCTCTCTTGAGAA
194249 GTT
1 GTT
194252 TTTCCACATA
Statistics
Matches: 112, Mismatches: 19, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
128 16 0.14
129 80 0.71
130 16 0.14
ACGTcount: A:0.17, C:0.16, G:0.15, T:0.52
Consensus pattern (129 bp):
GTTCTTTGTTTCGAAGGAGTTTTTCTTGCGGGGCTTCAAGTTTTTCTTTTAATTCTCTCCATATT
CTGTACTCTAACTTATTATAGCAAAATATCCTTTTGTCCATAGTTTTTTATCCTCTCTTGAGAA
Found at i:198264 original size:29 final size:26
Alignment explanation
Indices: 198216--198269 Score: 63
Period size: 29 Copynumber: 2.0 Consensus size: 26
198206 AAGCCATTTT
*
198216 TAAAAAAAATTACTGAAATGGACCCAG
1 TAAAAAAAATTACCGAAAT-GACCCAG
*
198243 TAAAAAATTAATTACCGGAATGACCCA
1 TAAAAAA--AATTACCGAAATGACCCA
198270 AATCCCCGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 7 0.30
28 6 0.26
29 10 0.43
ACGTcount: A:0.50, C:0.17, G:0.13, T:0.20
Consensus pattern (26 bp):
TAAAAAAAATTACCGAAATGACCCAG
Found at i:198448 original size:21 final size:21
Alignment explanation
Indices: 198404--198446 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
198394 CTCTTGCTGG
* *
198404 TTAGGGTTTTGGGTTTTTGGT
1 TTAGGGTTTAGGGTTTATGGT
198425 TTAGGGTTTAGGG-TTATGGT
1 TTAGGGTTTAGGGTTTATGGT
198445 TT
1 TT
198447 TAAGGTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.09, C:0.00, G:0.37, T:0.53
Consensus pattern (21 bp):
TTAGGGTTTAGGGTTTATGGT
Found at i:198817 original size:126 final size:126
Alignment explanation
Indices: 198662--199078 Score: 656
Period size: 126 Copynumber: 3.3 Consensus size: 126
198652 AGTGTTAATT
* ** * *
198662 TAAAA-AAGCTCTCACGTGGACGCTTTTTTGCTACAGTAGCTGCTGAAAAAATAATTTCGAGAAG
1 TAAAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAG
* *
198726 ACGTTTCTAAGCAAATAGAGTCAAGAACGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTAC
66 ACGTTTCTAAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTAC
*
198787 TGAAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAG
1 TAAAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAG
*
198852 ACGTTTCTAAGCAAATAGTGTCAAAAAAGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTAC
66 ACGTTTCTAAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTAC
* * *
198913 TAAAAGAAGCTTCTACGTGGACGCGCTTTTGCTATAGTAGCTCCTGAAAAAATAATTTCGAGTAG
1 TAAAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAG
* * * * * *
198978 ACATTTTTGAGCAAATAGTTTCAAAAACACTTTAAGCAAGATGCTTTGTCAGCAAAAGTAC
66 ACGTTTCTAAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTAC
*
199039 TAAAAGAAGCTCCTACGTGGACGCGCTTTTGCTACAGTAG
1 TAAAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAG
199079 TTTCTGTTTG
Statistics
Matches: 269, Mismatches: 22, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
125 4 0.01
126 265 0.99
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (126 bp):
TAAAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAG
ACGTTTCTAAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTAC
Found at i:200861 original size:34 final size:35
Alignment explanation
Indices: 200822--200889 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 35
200812 TGTAAAAGTA
*
200822 AATTTCTATTTTATTACATGAAATAATA-CAAAAG
1 AATTTCTATTTTATTACATCAAATAATATCAAAAG
200856 AATTTCTATTTTATTACATCAAATAATATCAAAA
1 AATTTCTATTTTATTACATCAAATAATATCAAAA
200890 TATTCAAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 27 0.84
35 5 0.16
ACGTcount: A:0.47, C:0.10, G:0.03, T:0.40
Consensus pattern (35 bp):
AATTTCTATTTTATTACATCAAATAATATCAAAAG
Found at i:201966 original size:7 final size:7
Alignment explanation
Indices: 201956--201981 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
201946 CATAATACAT
201956 AATACTA
1 AATACTA
201963 AATACTA
1 AATACTA
201970 AATACTA
1 AATACTA
201977 AATAC
1 AATAC
201982 CAATCGACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:202696 original size:11 final size:11
Alignment explanation
Indices: 202682--202773 Score: 100
Period size: 11 Copynumber: 8.4 Consensus size: 11
202672 GGTTTTTTAA
202682 AGAGGAAATTG
1 AGAGGAAATTG
*
202693 AGAGAAAATTG
1 AGAGGAAATTG
*
202704 AGAGGAATTTG
1 AGAGGAAATTG
202715 AGA-GAAATTTG
1 AGAGGAAA-TTG
*
202726 AAAGGAAATTG
1 AGAGGAAATTG
*
202737 AGAGGAATTTG
1 AGAGGAAATTG
202748 AGA-GAATATTG
1 AGAGGAA-ATTG
202759 -GAGAGAAATTG
1 AGAG-GAAATTG
202770 AGAG
1 AGAG
202774 AAAGGATTTA
Statistics
Matches: 67, Mismatches: 8, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
10 8 0.12
11 49 0.73
12 10 0.15
ACGTcount: A:0.46, C:0.00, G:0.33, T:0.22
Consensus pattern (11 bp):
AGAGGAAATTG
Found at i:202736 original size:33 final size:33
Alignment explanation
Indices: 202698--202773 Score: 118
Period size: 33 Copynumber: 2.3 Consensus size: 33
202688 AATTGAGAGA
*
202698 AAATTGAGAGGAATTTGAGAGAA-ATTTGAAAGG
1 AAATTGAGAGGAATTTGAGAGAATATTGGAAA-G
*
202731 AAATTGAGAGGAATTTGAGAGAATATTGGAGAG
1 AAATTGAGAGGAATTTGAGAGAATATTGGAAAG
202764 AAATTGAGAG
1 AAATTGAGAG
202774 AAAGGATTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
33 34 0.85
34 6 0.15
ACGTcount: A:0.45, C:0.00, G:0.32, T:0.24
Consensus pattern (33 bp):
AAATTGAGAGGAATTTGAGAGAATATTGGAAAG
Found at i:203643 original size:14 final size:14
Alignment explanation
Indices: 203607--203644 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
203597 ATTTATTAAT
*
203607 ATTATAATAAATAA
1 ATTATAATAAACAA
*
203621 AATAT-ATAAACAA
1 ATTATAATAAACAA
203634 ATTATAATAAA
1 ATTATAATAAA
203645 AATACTAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
13 11 0.55
14 9 0.45
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (14 bp):
ATTATAATAAACAA
Found at i:219570 original size:72 final size:72
Alignment explanation
Indices: 219453--219587 Score: 270
Period size: 72 Copynumber: 1.9 Consensus size: 72
219443 GTTATTTTAT
219453 TGGTAATCCTGATGATCTGCTGACACTCAAGAGACGAGAATTCTTCAAACGGAAATGTTGCTCTT
1 TGGTAATCCTGATGATCTGCTGACACTCAAGAGACGAGAATTCTTCAAACGGAAATGTTGCTCTT
219518 ACCAGAA
66 ACCAGAA
219525 TGGTAATCCTGATGATCTGCTGACACTCAAGAGACGAGAATTCTTCAAACGGAAATGTTGCTC
1 TGGTAATCCTGATGATCTGCTGACACTCAAGAGACGAGAATTCTTCAAACGGAAATGTTGCTC
219588 CTACTAGATA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 63 1.00
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (72 bp):
TGGTAATCCTGATGATCTGCTGACACTCAAGAGACGAGAATTCTTCAAACGGAAATGTTGCTCTT
ACCAGAA
Found at i:223437 original size:76 final size:76
Alignment explanation
Indices: 223310--223556 Score: 467
Period size: 76 Copynumber: 3.2 Consensus size: 76
223300 CATCAAGATA
*
223310 AGATTCCTATCTATCTGCTGAGTCATGTCCTTTACTTTCCTTTAAGCCCTGTCTGTAATTAGTAT
1 AGATTCCTATCTATCTGCTGAGTCATGTCCTTTACTTTCCTTTAAGTCCTGTCTGTAATTAGTAT
223375 GTTTGTAAAGC
66 GTTTGTAAAGC
*
223386 AGATTCCTATCTATCTGCTGAGTCATGTCCTTTACTTTCCTTTAAGTCCTGTTTGTAATTAGTAT
1 AGATTCCTATCTATCTGCTGAGTCATGTCCTTTACTTTCCTTTAAGTCCTGTCTGTAATTAGTAT
223451 GTTTGTAAAGC
66 GTTTGTAAAGC
*
223462 AGATTCCTATCTATCTGCTGAGTCATGTCATTTACTTTCCTTTAAGTCCTGTCTGTAATTAGTAT
1 AGATTCCTATCTATCTGCTGAGTCATGTCCTTTACTTTCCTTTAAGTCCTGTCTGTAATTAGTAT
223527 GTTTGTAAAGC
66 GTTTGTAAAGC
223538 AGATTCCTATCTATCTGCT
1 AGATTCCTATCTATCTGCT
223557 CGTATAACTT
Statistics
Matches: 167, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
76 167 1.00
ACGTcount: A:0.21, C:0.20, G:0.15, T:0.43
Consensus pattern (76 bp):
AGATTCCTATCTATCTGCTGAGTCATGTCCTTTACTTTCCTTTAAGTCCTGTCTGTAATTAGTAT
GTTTGTAAAGC
Found at i:234807 original size:76 final size:76
Alignment explanation
Indices: 234718--235040 Score: 646
Period size: 76 Copynumber: 4.2 Consensus size: 76
234708 AAGTTATACG
234718 AGCAGATAGATAGGAATCTGCTTTACAAACATACTAATTACAGACAGGGCTTAAAGGAAAGTAAA
1 AGCAGATAGATAGGAATCTGCTTTACAAACATACTAATTACAGACAGGGCTTAAAGGAAAGTAAA
234783 GGACATGACTC
66 GGACATGACTC
234794 AGCAGATAGATAGGAATCTGCTTTACAAACATACTAATTACAGACAGGGCTTAAAGGAAAGTAAA
1 AGCAGATAGATAGGAATCTGCTTTACAAACATACTAATTACAGACAGGGCTTAAAGGAAAGTAAA
234859 GGACATGACTC
66 GGACATGACTC
234870 AGCAGATAGATAGGAATCTGCTTTACAAACATACTAATTACAGACAGGGCTTAAAGGAAAGTAAA
1 AGCAGATAGATAGGAATCTGCTTTACAAACATACTAATTACAGACAGGGCTTAAAGGAAAGTAAA
234935 GGACATGACTC
66 GGACATGACTC
234946 AGCAGATAGATAGGAATCTGCTTTACAAACATACTAATTACAGACAGGGCTTAAAGGAAAGTAAA
1 AGCAGATAGATAGGAATCTGCTTTACAAACATACTAATTACAGACAGGGCTTAAAGGAAAGTAAA
235011 GGACATGACTC
66 GGACATGACTC
235022 AGCAGATAGATAGGAATCT
1 AGCAGATAGATAGGAATCT
235041 TATCTTGATG
Statistics
Matches: 247, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 247 1.00
ACGTcount: A:0.42, C:0.15, G:0.21, T:0.21
Consensus pattern (76 bp):
AGCAGATAGATAGGAATCTGCTTTACAAACATACTAATTACAGACAGGGCTTAAAGGAAAGTAAA
GGACATGACTC
Found at i:239792 original size:79 final size:79
Alignment explanation
Indices: 239661--239819 Score: 291
Period size: 79 Copynumber: 2.0 Consensus size: 79
239651 GGTTGTGTCC
*
239661 CAGTCGATCGAGGGCTGTCAAACTGTCTTATGGATGGAAAAAGTTCAATTTCATTTCTTGATGGT
1 CAGTCGATCAAGGGCTGTCAAACTGTCTTATGGATGGAAAAAGTTCAATTTCATTTCTTGATGGT
239726 TGTGGTGGTGGCAG
66 TGTGGTGGTGGCAG
* *
239740 CAGTCGGTCAAGGTCTGTCAAACTGTCTTATGGATGGAAAAAGTTCAATTTCATTTCTTGATGGT
1 CAGTCGATCAAGGGCTGTCAAACTGTCTTATGGATGGAAAAAGTTCAATTTCATTTCTTGATGGT
239805 TGTGGTGGTGGCAG
66 TGTGGTGGTGGCAG
239819 C
1 C
239820 TTTCTATTTT
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
79 77 1.00
ACGTcount: A:0.23, C:0.14, G:0.30, T:0.33
Consensus pattern (79 bp):
CAGTCGATCAAGGGCTGTCAAACTGTCTTATGGATGGAAAAAGTTCAATTTCATTTCTTGATGGT
TGTGGTGGTGGCAG
Found at i:242350 original size:76 final size:76
Alignment explanation
Indices: 242261--242659 Score: 789
Period size: 76 Copynumber: 5.2 Consensus size: 76
242251 AAGTTATACG
*
242261 AGCAGATAGATAGGAATCTGCTTTACAAATATACTAATTACAGACAGGACTTAAAGGAAAGTAAA
1 AGCAGATAGATAGGAATCTGCTTTACAAACATACTAATTACAGACAGGACTTAAAGGAAAGTAAA
242326 GGACATGACTC
66 GGACATGACTC
242337 AGCAGATAGATAGGAATCTGCTTTACAAACATACTAATTACAGACAGGACTTAAAGGAAAGTAAA
1 AGCAGATAGATAGGAATCTGCTTTACAAACATACTAATTACAGACAGGACTTAAAGGAAAGTAAA
242402 GGACATGACTC
66 GGACATGACTC
242413 AGCAGATAGATAGGAATCTGCTTTACAAACATACTAATTACAGACAGGACTTAAAGGAAAGTAAA
1 AGCAGATAGATAGGAATCTGCTTTACAAACATACTAATTACAGACAGGACTTAAAGGAAAGTAAA
242478 GGACATGACTC
66 GGACATGACTC
242489 AGCAGATAGATAGGAATCTGCTTTACAAACATACTAATTACAGACAGGACTTAAAGGAAAGTAAA
1 AGCAGATAGATAGGAATCTGCTTTACAAACATACTAATTACAGACAGGACTTAAAGGAAAGTAAA
242554 GGACATGACTC
66 GGACATGACTC
242565 AGCAGATAGATAGGAATCTGCTTTACAAACATACTAATTACAGACAGGACTTAAAGGAAAGTAAA
1 AGCAGATAGATAGGAATCTGCTTTACAAACATACTAATTACAGACAGGACTTAAAGGAAAGTAAA
242630 GGACATGACTC
66 GGACATGACTC
242641 AGCAGATAGATAGGAATCT
1 AGCAGATAGATAGGAATCT
242660 TATCCTGATG
Statistics
Matches: 322, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 322 1.00
ACGTcount: A:0.43, C:0.15, G:0.20, T:0.21
Consensus pattern (76 bp):
AGCAGATAGATAGGAATCTGCTTTACAAACATACTAATTACAGACAGGACTTAAAGGAAAGTAAA
GGACATGACTC
Found at i:248740 original size:11 final size:11
Alignment explanation
Indices: 248724--248760 Score: 65
Period size: 11 Copynumber: 3.4 Consensus size: 11
248714 AAGAGAGAAT
*
248724 GATGCTTGATG
1 GATGCTTGAGG
248735 GATGCTTGAGG
1 GATGCTTGAGG
248746 GATGCTTGAGG
1 GATGCTTGAGG
248757 GATG
1 GATG
248761 ATGAATGAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.19, C:0.08, G:0.43, T:0.30
Consensus pattern (11 bp):
GATGCTTGAGG
Found at i:249374 original size:38 final size:38
Alignment explanation
Indices: 249327--249402 Score: 125
Period size: 38 Copynumber: 2.0 Consensus size: 38
249317 TTGCATGAAA
*
249327 ACTATATAATAAAGTATAAAATAACATTTTAATAATTT
1 ACTATATAATAAAGCATAAAATAACATTTTAATAATTT
* *
249365 ACTATATAATAAAGCATAAAATCACATTTTAGTAATTT
1 ACTATATAATAAAGCATAAAATAACATTTTAATAATTT
249403 TTATGTCCTA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.50, C:0.08, G:0.04, T:0.38
Consensus pattern (38 bp):
ACTATATAATAAAGCATAAAATAACATTTTAATAATTT
Found at i:252142 original size:21 final size:22
Alignment explanation
Indices: 252118--252158 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
252108 CCTCAAAGCT
*
252118 CAATGGTACT-CATACAAATTC
1 CAATGATACTACATACAAATTC
*
252139 CAATGATACTATATACAAAT
1 CAATGATACTACATACAAAT
252159 GCACAATTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.44, C:0.20, G:0.07, T:0.29
Consensus pattern (22 bp):
CAATGATACTACATACAAATTC
Found at i:256432 original size:13 final size:14
Alignment explanation
Indices: 256398--256431 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
256388 GTGCTTCTTG
256398 AACTTTTAACCCTA
1 AACTTTTAACCCTA
256412 AACTTTTAA-CCTA
1 AACTTTTAACCCTA
256425 ACACTTT
1 A-ACTTT
256432 ATAATTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.26
14 14 0.74
ACGTcount: A:0.35, C:0.26, G:0.00, T:0.38
Consensus pattern (14 bp):
AACTTTTAACCCTA
Found at i:261967 original size:20 final size:20
Alignment explanation
Indices: 261929--261967 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
261919 ACATATTATC
* * *
261929 ATTGTTCATGATTTGACTCT
1 ATTGTTCATAACTTAACTCT
261949 ATTGTTCATAACTTAACTC
1 ATTGTTCATAACTTAACTC
261968 CACTATTTAT
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:0.26, C:0.18, G:0.10, T:0.46
Consensus pattern (20 bp):
ATTGTTCATAACTTAACTCT
Found at i:265241 original size:70 final size:70
Alignment explanation
Indices: 265166--265962 Score: 322
Period size: 70 Copynumber: 11.4 Consensus size: 70
265156 GCTACAATTG
* * * *
265166 GGAGCTTTAGCTCGT-ACTAACTGTTTTGGAGGCTGCGGTGTTGAACCTATGAGCCTTAAGATCA
1 GGAGCTTTAGCTC-TCACTAACTGTTTTAGAGGCTGCGATATTGAACCTGTGAGCCTTAAGATCA
265230 CAACTA
65 CAACTA
* * * * * * * *
265236 AGAGCTTGAGCTCTCACTAACAGTTTTAGAGGCTGTGACATCGATCTTGTGAGCCTTAAGATCAC
1 GGAGCTTTAGCTCTCACTAACTGTTTTAGAGGCTGCGATATTGAACCTGTGAGCCTTAAGATCAC
*
265301 AACTT
66 AACTA
* * * * * * *
265306 GGAGCTTGAGCTTTCGCTAACTATTTTAGAGGCAGCGATATTGAACCTGCGAGCCTTAAGATCAG
1 GGAGCTTTAGCTCTCACTAACTGTTTTAGAGGCTGCGATATTGAACCTGTGAGCCTTAAGATCAC
* *
265371 AGCTG
66 AACTA
* * * * * * *
265376 GGAGCCTTAACTCTCGCTAAATATTTTAGAGGATAC-AGTATTGAACCTGTGAGCCTTAAGATCA
1 GGAGCTTTAGCTCTCACTAACTGTTTTAGAGGCTGCGA-TATTGAACCTGTGAGCCTTAAGATCA
*
265440 AAACTA
65 CAACTA
* * * * * * *
265446 GGAGCCTTAGCTCTCGCTAACTATTTTTGGGGACTGCGGTATTGAACCTGCT-AGCATTAAGATC
1 GGAGCTTTAGCTCTCACTAACTGTTTTAGAGG-CTGCGATATTGAACCTG-TGAGCCTTAAGATC
* * *
265510 GC-AGTT
64 ACAACTA
* * * * * * * * * *
265516 GAGAGCTTTAGCCCTCGC-AACTATTTTTGGGGGTTGCGATATTGAATCTGCGAGCCCTAAGATT
1 G-GAGCTTTAGCTCTCACTAACT-GTTTTAGAGGCTGCGATATTGAACCTGTGAGCCTTAAGATC
* ** *
265580 ATAGTTG
64 ACAACTA
* * * * * * * *** * * * *
265587 GGAGC-TTAGCTCTCGCTAACTATTTTAAAGGTTGTGGTATTGAACTTACAAACATTAATATCAT
1 GGAGCTTTAGCTCTCACTAACTGTTTTAGAGGCTGCGATATTGAACCTGTGAGCCTTAAGATCAC
*
265651 AGA-TG
66 A-ACTA
* ** * * * * * ** *
265656 GGAGCTTTAGCTTTCGTTAACTATTTTTCG-GGCTACGGTATTGAAACTGCAAGCCCTAAGATCA
1 GGAGCTTTAGCTCTCACTAACT-GTTTTAGAGGCTGCGATATTGAACCTGTGAGCCTTAAGATCA
* *
265720 TACCTTA
65 CAAC-TA
* * * * * * * *
265727 -GAGCTTGAGCTCTTACTAACT-ATTTAGAGGTTGTGGTATTCAACCTGTGAGCCTTAAGATCAT
1 GGAGCTTTAGCTCTCACTAACTGTTTTAGAGGCTGCGATATTGAACCTGTGAGCCTTAAGATCAC
* *
265790 AGCTG
66 AACTA
* * * * * * ** * * * *
265795 GGAGCCTTAGTTCTCCCTATCTATTTTAGATGCTATGGTATTAAACCTGCGAGCCATAAGATCAC
1 GGAGCTTTAGCTCTCACTAACTGTTTTAGAGGCTGCGATATTGAACCTGTGAGCCTTAAGATCAC
*
265860 AAAT-
66 AACTA
* * ** * * * * * *
265864 GAGAGCATTAGCTTTTGCTAAATATTTTTGAGAGCTG-TAGTATTGAACATGTGAGCCCTAAGAT
1 G-GAGCTTTAGCTCTCACTAACTGTTTTAGAG-GCTGCGA-TATTGAACCTGTGAGCCTTAAGAT
* *
265928 TACAACTT
63 CACAACTA
* * *
265936 GGAGCTTTAGCTTTCGCTAACTATTTT
1 GGAGCTTTAGCTCTCACTAACTGTTTT
265963 CTTTTAGAGG
Statistics
Matches: 549, Mismatches: 156, Indels: 43
0.73 0.21 0.06
Matches are distributed among these distances:
68 5 0.01
69 93 0.17
70 345 0.63
71 104 0.19
72 2 0.00
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (70 bp):
GGAGCTTTAGCTCTCACTAACTGTTTTAGAGGCTGCGATATTGAACCTGTGAGCCTTAAGATCAC
AACTA
Found at i:265541 original size:140 final size:140
Alignment explanation
Indices: 265283--265613 Score: 346
Period size: 141 Copynumber: 2.4 Consensus size: 140
265273 ACATCGATCT
* * *
265283 TGTGAGCCTTAAGATCACAACTTGGAGCTTGAGCTTTCGCTAACTATTTTAGAGGCAGCGATATT
1 TGTGAGCCTTAAGATCAAAACTAGGAGCTT-AGCTCTCGCTAACTATTTTAGAGGCAGCGATATT
* * *
265348 GAACCTGCGAGCCTTAAGATCAGAGCTGGGAGCCTTAACTCTCGCTAAATA-TTTTAGAGGATAC
65 GAACCTGCGAGCATTAAGATCAGAGCTGAGAGCCTTAACCCTCGCTAAATATTTTTAGAGGATAC
265412 -AGTATTGAACC
130 GA-TATTGAACC
* * * *
265423 TGTGAGCCTTAAGATCAAAACTAGGAGCCTTAGCTCTCGCTAACTATTTTTGGGGACTGCGGTAT
1 TGTGAGCCTTAAGATCAAAACTAGGAG-CTTAGCTCTCGCTAACTATTTTAGAGG-CAGCGATAT
* * * * * * * *
265488 TGAACCTGCTAGCATTAAGATC-GCAGTTGAGAGCTTTAGCCCTCGC-AACTATTTTTGGGGGTT
64 TGAACCTGCGAGCATTAAGATCAG-AGCTGAGAGCCTTAACCCTCGCTAAATATTTTTAGAGGAT
* *
265551 GCGATATTGAATC
128 ACGATATTGAACC
* * * * ** *
265564 TGCGAGCCCTAAGATTATAGTTGGGAGCTTAGCTCTCGCTAACTATTTTA
1 TGTGAGCCTTAAGATCAAAACTAGGAGCTTAGCTCTCGCTAACTATTTTA
265614 AAGGTTGTGG
Statistics
Matches: 158, Mismatches: 28, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
140 73 0.46
141 84 0.53
142 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.31
Consensus pattern (140 bp):
TGTGAGCCTTAAGATCAAAACTAGGAGCTTAGCTCTCGCTAACTATTTTAGAGGCAGCGATATTG
AACCTGCGAGCATTAAGATCAGAGCTGAGAGCCTTAACCCTCGCTAAATATTTTTAGAGGATACG
ATATTGAACC
Found at i:265819 original size:139 final size:139
Alignment explanation
Indices: 265555--265821 Score: 297
Period size: 139 Copynumber: 1.9 Consensus size: 139
265545 GGGGTTGCGA
* * * * * *
265555 TATTGAATCTGCGAGCCCTAAGATTATAGTTGGGAGCTTAGCTCTCGCTAACTATTTTAAAGGTT
1 TATTGAAACTGCAAGCCCTAAGATCATACTTGAGAGCTTAGCTCTCACTAACTATTTTAAAGGTT
* * * * **
265620 GTGGTATTGAACTTACAAACATTAATATCATAGATGGGAGCTTTAGCTTTCGTTAACTATTTTTC
66 GTGGTATTCAACCTACAAACATTAAGATCATAGATGGGAGCCTTAGCTTTCCCTAACTATTTTTC
265685 GGGCTACGG
131 GGGCTACGG
* *
265694 TATTGAAACTGCAAGCCCTAAGATCATACCTT-AGAGCTTGAGCTCTTACTAACTA-TTTAGAGG
1 TATTGAAACTGCAAGCCCTAAGATCATA-CTTGAGAGCTT-AGCTCTCACTAACTATTTTAAAGG
*** * * * *
265757 TTGTGGTATTCAACCTGTGAGCCTTAAGATCATAGCTGGGAGCCTTAG-TTCTCCCTATCTATTT
64 TTGTGGTATTCAACCTACAAACATTAAGATCATAGATGGGAGCCTTAGCTT-TCCCTAACTATTT
265821 T
128 T
265822 AGATGCTATG
Statistics
Matches: 104, Mismatches: 21, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
138 2 0.02
139 87 0.84
140 15 0.14
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.35
Consensus pattern (139 bp):
TATTGAAACTGCAAGCCCTAAGATCATACTTGAGAGCTTAGCTCTCACTAACTATTTTAAAGGTT
GTGGTATTCAACCTACAAACATTAAGATCATAGATGGGAGCCTTAGCTTTCCCTAACTATTTTTC
GGGCTACGG
Found at i:267552 original size:20 final size:20
Alignment explanation
Indices: 267524--267573 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
267514 TACATATTAT
* * * *
267524 CACTGTTCATGATTTGACTC
1 CACTATTCATGACTTAACCC
267544 CACTATTCATGACTTAACCC
1 CACTATTCATGACTTAACCC
267564 CACTATTCAT
1 CACTATTCAT
267574 AAGACTAACA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.26, C:0.30, G:0.08, T:0.36
Consensus pattern (20 bp):
CACTATTCATGACTTAACCC
Found at i:270042 original size:167 final size:167
Alignment explanation
Indices: 269749--270066 Score: 555
Period size: 167 Copynumber: 1.9 Consensus size: 167
269739 CTAAAATAGA
* *
269749 CATATTGTTAGTTCATGCCATTGTTTTAGATGTCAATTTTCTGTACATTACAGATACTGTGGCCA
1 CATACTGTTAGTTCATGCCATTGTTCTAGATGTCAATTTTCTGTACATTACAGATACTGTGGCCA
* * *
269814 GGGAAACATTAGATCAAGTTATGGCTGATGCACTTTCAAAATCTGGTTTTAATCGATCTGCAGCA
66 AGGAAACATTAGATCAAGTTATGGCTGATGCACTTTCAAAATCTGGTTCTAATCAATCTGCAGCA
*
269879 TACATTTCATGTCTTTTTTTTTGCAATCGATCTGCAG
131 TACATTTCATGTCTTCTTTTTTGCAATCGATCTGCAG
* *
269916 CATACTGTTAGTTTATGCCATTGTTCTAGATGTCAATTTTCTGTACATTATAGATACTGTGGCCA
1 CATACTGTTAGTTCATGCCATTGTTCTAGATGTCAATTTTCTGTACATTACAGATACTGTGGCCA
*
269981 AGGAAACATTAGATCAAGTTATGGTTGATGCACTTTCAAAATCTGGTTCTAATCAATCTGCAGCA
66 AGGAAACATTAGATCAAGTTATGGCTGATGCACTTTCAAAATCTGGTTCTAATCAATCTGCAGCA
270046 TACATTTCATGTCTTCTTTTT
131 TACATTTCATGTCTTCTTTTT
270067 GTAATGGCAT
Statistics
Matches: 142, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
167 142 1.00
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.39
Consensus pattern (167 bp):
CATACTGTTAGTTCATGCCATTGTTCTAGATGTCAATTTTCTGTACATTACAGATACTGTGGCCA
AGGAAACATTAGATCAAGTTATGGCTGATGCACTTTCAAAATCTGGTTCTAATCAATCTGCAGCA
TACATTTCATGTCTTCTTTTTTGCAATCGATCTGCAG
Found at i:271096 original size:16 final size:16
Alignment explanation
Indices: 271064--271137 Score: 71
Period size: 16 Copynumber: 4.7 Consensus size: 16
271054 ACAATTGAAT
*
271064 TATTT-ATTACAGTTC
1 TATTTCATTACAGCTC
*
271079 TATTTCATTATAGCTC
1 TATTTCATTACAGCTC
*
271095 TATTTCATTACAACTC
1 TATTTCATTACAGCTC
* *
271111 TATTAT-ATTACAGTTT
1 TATT-TCATTACAGCTC
*
271127 TATTTTATTAC
1 TATTTCATTAC
271138 GACGAACCAA
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
15 6 0.12
16 42 0.86
17 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (16 bp):
TATTTCATTACAGCTC
Found at i:282770 original size:13 final size:13
Alignment explanation
Indices: 282749--282793 Score: 56
Period size: 13 Copynumber: 3.4 Consensus size: 13
282739 TTCCTTAATC
*
282749 TTTAATTTATTAT
1 TTTATTTTATTAT
282762 TTTATTTTAGTTA-
1 TTTATTTTA-TTAT
282775 TTTATTTTAATTAT
1 TTTATTTT-ATTAT
282789 TTTAT
1 TTTAT
282794 CTGACTTGGA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
13 19 0.68
14 9 0.32
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (13 bp):
TTTATTTTATTAT
Found at i:284320 original size:21 final size:21
Alignment explanation
Indices: 284273--284320 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 21
284263 ACATCGATCC
* * *
284273 TAAACCTTGAACTCTAGACCT
1 TAAACCCTGAACCCTAAACCT
* *
284294 TGAACCCTGAACCCTAAATCT
1 TAAACCCTGAACCCTAAACCT
284315 TAAACC
1 TAAACC
284321 TTCGACCTTG
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.31, G:0.08, T:0.25
Consensus pattern (21 bp):
TAAACCCTGAACCCTAAACCT
Found at i:284361 original size:21 final size:21
Alignment explanation
Indices: 284315--284375 Score: 54
Period size: 21 Copynumber: 2.9 Consensus size: 21
284305 CCCTAAATCT
*
284315 TAAACCTTCG-ACCTTGGACCC
1 TAAACCTT-GAACCTTGGATCC
* *
284336 CAAACCTTGAACCTTGGATGC
1 TAAACCTTGAACCTTGGATCC
*
284357 TAAACCCT-AGACCTTGGAT
1 TAAACCTTGA-ACCTTGGAT
284376 TTTGAACCCT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
20 2 0.06
21 31 0.94
ACGTcount: A:0.28, C:0.31, G:0.16, T:0.25
Consensus pattern (21 bp):
TAAACCTTGAACCTTGGATCC
Found at i:285705 original size:43 final size:43
Alignment explanation
Indices: 285642--285966 Score: 472
Period size: 43 Copynumber: 7.6 Consensus size: 43
285632 AGAAATAAAT
*
285642 GCCGCTAAAGACCAAT-ACCTTTAGCGGCGCTTTTCCCACAATC
1 GCCGCTAAAGACC-ATGACCTTTAGCGGCGCTTTTCCCACAAAC
* * * *
285685 GCCGCTAAATACCATGACCTTTAGCGGCACCTTTCCCCCAAAC
1 GCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACAAAC
*
285728 GCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTACCACAAAC
1 GCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACAAAC
* * * ** * *
285771 GCCGCTATAGACCACGATCTTTAGCGATGCTTTTACCACAAAT
1 GCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACAAAC
* *
285814 GCCGCTAAAGACCATGACCTTTAGTGGCGCTTTTTCCACAAAC
1 GCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACAAAC
285857 GCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACAAAC
1 GCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACAAAC
*
285900 GCCGCTAAAGACCATGACCTTTAGCTGCGCTTTTCCCACAAAC
1 GCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACAAAC
* *
285943 GCCACTAAAGACCATGACTTTTAG
1 GCCGCTAAAGACCATGACCTTTAG
285967 TGGCATTTTT
Statistics
Matches: 252, Mismatches: 29, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
42 2 0.01
43 250 0.99
ACGTcount: A:0.27, C:0.33, G:0.17, T:0.23
Consensus pattern (43 bp):
GCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACAAAC
Found at i:286199 original size:19 final size:19
Alignment explanation
Indices: 286175--286212 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
286165 TACAAAAATG
*
286175 TTAAAAGTTAAAATGATAA
1 TTAAAAGTCAAAATGATAA
286194 TTAAAAGTCAAAATGATAA
1 TTAAAAGTCAAAATGATAA
286213 AAATATTTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.58, C:0.03, G:0.11, T:0.29
Consensus pattern (19 bp):
TTAAAAGTCAAAATGATAA
Found at i:291937 original size:34 final size:34
Alignment explanation
Indices: 291894--292472 Score: 209
Period size: 34 Copynumber: 18.8 Consensus size: 34
291884 AAGTTATTTA
*
291894 TGTATTATGTAAGCTATGTAAGTTATGTAAGTGC
1 TGTATTATGTAAGTTATGTAAGTTATGTAAGTGC
*
291928 TGTATTATGTAAGTTATATAAGTTATGT-AG-GC
1 TGTATTATGTAAGTTATGTAAGTTATGTAAGTGC
* * * *
291960 TATGTATTATGCAAGTTATTTAAGTTGTGTAAGTGT
1 --TGTATTATGTAAGTTATGTAAGTTATGTAAGTGC
*
291996 TGTATTATGTAAGTTATGT-A-TTATATAA--G-
1 TGTATTATGTAAGTTATGTAAGTTATGTAAGTGC
**
292025 T-T-TTATGTAAAATATGTAAG-T-TGT-A----
1 TGTATTATGTAAGTTATGTAAGTTATGTAAGTGC
* *
292050 T-T-TTATGAAAGTTATATAAGTTATGT-AG-GC
1 TGTATTATGTAAGTTATGTAAGTTATGTAAGTGC
* * * *
292080 TATGTATTATGCAAGTTATTTAAGTTGTGTAAGTGT
1 --TGTATTATGTAAGTTATGTAAGTTATGTAAGTGC
*
292116 TGTATTATGTAAGTTATGT-A-TTATATAA--G-
1 TGTATTATGTAAGTTATGTAAGTTATGTAAGTGC
**
292145 T-T-TTATGTAAAATATGTAAG-T-TGT-A----
1 TGTATTATGTAAGTTATGTAAGTTATGTAAGTGC
* *
292170 T-T-TTATGAAAGTTATATAAGTTATGT-AG-GC
1 TGTATTATGTAAGTTATGTAAGTTATGTAAGTGC
* * * *
292200 TATGTATTATGCAAGTTATTTAAGTTGTGTAAGTGT
1 --TGTATTATGTAAGTTATGTAAGTTATGTAAGTGC
*
292236 TGTATTATGTAAGTTATGT-A-TTATATAA--G-
1 TGTATTATGTAAGTTATGTAAGTTATGTAAGTGC
**
292265 T-T-TTATGTAAAATATGTAAG-T-TGT-A----
1 TGTATTATGTAAGTTATGTAAGTTATGTAAGTGC
* *
292290 T-T-TTATGAAAGTTATATAAGTTATGT-AG-GC
1 TGTATTATGTAAGTTATGTAAGTTATGTAAGTGC
* * * *
292320 TATGTATTATGCAAGTTATTTAAGTTGTGTAAGTGT
1 --TGTATTATGTAAGTTATGTAAGTTATGTAAGTGC
292356 TGTATTATGTAAGTTATGT-A-TTATGTAA----
1 TGTATTATGTAAGTTATGTAAGTTATGTAAGTGC
** *
292384 -G-A-TATGTAAG-T-TGTATTTTATGTAAGTTC
1 TGTATTATGTAAGTTATGTAAGTTATGTAAGTGC
* *
292413 TGTATTATG-AATGTTATGTAAGTTGTGTAGAATG-
1 TGTATTATGTAA-GTTATGTAAGTTATGTA-AGTGC
* *
292447 T-AAGCTATGTAAGTTATGTAAGTTAT
1 TGTA-TTATGTAAGTTATGTAAGTTAT
292473 AAGTTATGTA
Statistics
Matches: 424, Mismatches: 63, Indels: 116
0.70 0.10 0.19
Matches are distributed among these distances:
23 3 0.01
24 1 0.00
25 64 0.15
26 7 0.02
27 58 0.14
28 9 0.02
29 3 0.01
30 4 0.01
31 3 0.01
32 35 0.08
33 11 0.03
34 210 0.50
35 12 0.03
36 4 0.01
ACGTcount: A:0.32, C:0.02, G:0.20, T:0.46
Consensus pattern (34 bp):
TGTATTATGTAAGTTATGTAAGTTATGTAAGTGC
Found at i:291956 original size:25 final size:25
Alignment explanation
Indices: 291846--291922 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
291836 TGATATATAT
*
291846 TTATGTATTAAGTAAACTATGTAAG
1 TTATGTATTAAGTAAGCTATGTAAG
*
291871 TTATGTATTACA-TAAG---T-T-AT
1 TTATGTATTA-AGTAAGCTATGTAAG
*
291891 TTATGTATTATGTAAGCTATGTAAG
1 TTATGTATTAAGTAAGCTATGTAAG
291916 TTATGTA
1 TTATGTA
291923 AGTGCTGTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 14
0.69 0.07 0.24
Matches are distributed among these distances:
20 15 0.37
21 1 0.02
22 1 0.02
23 1 0.02
24 1 0.02
25 21 0.51
26 1 0.02
ACGTcount: A:0.35, C:0.04, G:0.16, T:0.45
Consensus pattern (25 bp):
TTATGTATTAAGTAAGCTATGTAAG
Found at i:292032 original size:68 final size:68
Alignment explanation
Indices: 291863--292033 Score: 202
Period size: 68 Copynumber: 2.5 Consensus size: 68
291853 TTAAGTAAAC
* *
291863 TATGTAAGTTATGTATTACATAAGTTATTTATGTATTATGTAAGCTATGTAAGTTATGTAAGTGC
1 TATGTAAGTTATGTATTATATAAG-T-TTTATGTATTATGCAAGCTATGTAAGTTATGTAAGTGC
291928 TGTAT
64 TGTAT
* * ** * * * *
291933 TATGTAAGTTATATAAGTTATGT-AG-GCTATGTATTATGCAAGTTATTTAAGTTGTGTAAGTGT
1 TATGTAAGTTATGT-A-TTATATAAGTTTTATGTATTATGCAAGCTATGTAAGTTATGTAAGTGC
291996 TGTAT
64 TGTAT
292001 TATGTAAGTTATGTATTATATAAGTTTTATGTA
1 TATGTAAGTTATGTATTATATAAGTTTTATGTA
292034 AAATATGTAA
Statistics
Matches: 83, Mismatches: 14, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
66 5 0.06
67 3 0.04
68 55 0.66
70 13 0.16
71 3 0.04
72 4 0.05
ACGTcount: A:0.31, C:0.03, G:0.19, T:0.47
Consensus pattern (68 bp):
TATGTAAGTTATGTATTATATAAGTTTTATGTATTATGCAAGCTATGTAAGTTATGTAAGTGCTG
TAT
Found at i:292389 original size:25 final size:25
Alignment explanation
Indices: 292361--292409 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
292351 AGTGTTGTAT
*
292361 TATGTAAGTTATGTATTATGTAAGA
1 TATGTAAGTTATATATTATGTAAGA
* *
292386 TATGTAAGTTGTATTTTATGTAAG
1 TATGTAAGTTATATATTATGTAAG
292410 TTCTGTATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.47
Consensus pattern (25 bp):
TATGTAAGTTATATATTATGTAAGA
Found at i:292416 original size:25 final size:24
Alignment explanation
Indices: 292376--292488 Score: 93
Period size: 25 Copynumber: 4.5 Consensus size: 24
292366 AAGTTATGTA
* **
292376 TTATGTAAGATATGTAAGTTGTATT
1 TTATGTAAGTTATGT-AGTTGTAAG
* *
292401 TTATGTAAGTTCTGTA-TTATGAATG
1 TTATGTAAGTTATGTAGTTGT-AA-G
* *
292426 TTATGTAAGTTGTGTAGAATGTAAG
1 TTATGTAAGTTATGTAG-TTGTAAG
* *
292451 CTATGTAAGTTATGTAAGTTATAAG
1 TTATGTAAGTTATGT-AGTTGTAAG
292476 TTATGTAAGTTAT
1 TTATGTAAGTTAT
292489 TATGTAAGTA
Statistics
Matches: 70, Mismatches: 13, Indels: 10
0.75 0.14 0.11
Matches are distributed among these distances:
23 3 0.04
24 2 0.03
25 59 0.84
26 4 0.06
27 2 0.03
ACGTcount: A:0.32, C:0.02, G:0.21, T:0.45
Consensus pattern (24 bp):
TTATGTAAGTTATGTAGTTGTAAG
Found at i:292421 original size:41 final size:41
Alignment explanation
Indices: 292360--292438 Score: 124
Period size: 41 Copynumber: 1.9 Consensus size: 41
292350 AAGTGTTGTA
292360 TTATGTAAGTTATGTATTATGTAA-GATATGTAAGTTGTATT
1 TTATGTAAGTTATGTATTATG-AATGATATGTAAGTTGTATT
* *
292401 TTATGTAAGTTCTGTATTATGAATGTTATGTAAGTTGT
1 TTATGTAAGTTATGTATTATGAATGATATGTAAGTTGT
292439 GTAGAATGTA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
40 2 0.06
41 33 0.94
ACGTcount: A:0.29, C:0.01, G:0.20, T:0.49
Consensus pattern (41 bp):
TTATGTAAGTTATGTATTATGAATGATATGTAAGTTGTATT
Found at i:292448 original size:41 final size:41
Alignment explanation
Indices: 292362--292468 Score: 117
Period size: 41 Copynumber: 2.6 Consensus size: 41
292352 GTGTTGTATT
***
292362 ATGTAAGTTATGTATTATGTAAGATATGTAAGTTGTATTTT
1 ATGTAAGTTATGTATTATGTAAGATATGTAAGTTGTATAGA
* * *
292403 ATGTAAGTTCTGTATTATG-AATGTTATGTAAGTTGTGTAGA
1 ATGTAAGTTATGTATTATGTAA-GATATGTAAGTTGTATAGA
*
292444 ATGTAAGCTATGTAAGTTATGTAAG
1 ATGTAAGTTATGT-A-TTATGTAAG
292469 TTATAAGTTA
Statistics
Matches: 54, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
40 2 0.04
41 43 0.80
42 1 0.02
43 6 0.11
44 2 0.04
ACGTcount: A:0.32, C:0.02, G:0.22, T:0.44
Consensus pattern (41 bp):
ATGTAAGTTATGTATTATGTAAGATATGTAAGTTGTATAGA
Found at i:292475 original size:16 final size:16
Alignment explanation
Indices: 292456--292488 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
292446 GTAAGCTATG
292456 TAAGTTATGTAAGTTA
1 TAAGTTATGTAAGTTA
292472 TAAGTTATGTAAGTTA
1 TAAGTTATGTAAGTTA
292488 T
1 T
292489 TATGTAAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.45
Consensus pattern (16 bp):
TAAGTTATGTAAGTTA
Done.