Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 103 of 284
Found at i:33867252 original size:51 final size:49
Alignment explanation
Indices: 33867129--33867267 Score: 188
Period size: 51 Copynumber: 2.8 Consensus size: 49
33867119 TTAGGTCATG
* * * * * *
33867129 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTGATCACA
* *
33867178 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACT
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAA-TT-GATCACA
33867229 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
33867268 GCCTTGTCTA
Statistics
Matches: 80, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
49 36 0.45
50 2 0.03
51 42 0.52
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTGATCACA
Found at i:33867506 original size:19 final size:21
Alignment explanation
Indices: 33867462--33867508 Score: 55
Period size: 19 Copynumber: 2.3 Consensus size: 21
33867452 ATTGAGTGGT
33867462 TAATTAGACTTTAATTAAGTA
1 TAATTAGACTTTAATTAAGTA
*
33867483 AAATTAG-C-TTAATTAAG-A
1 TAATTAGACTTTAATTAAGTA
33867501 GTAATTAG
1 -TAATTAG
33867509 TGGAAAGGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 1 0.04
19 15 0.65
20 1 0.04
21 6 0.26
ACGTcount: A:0.45, C:0.04, G:0.13, T:0.38
Consensus pattern (21 bp):
TAATTAGACTTTAATTAAGTA
Found at i:33867834 original size:13 final size:13
Alignment explanation
Indices: 33867816--33867857 Score: 61
Period size: 13 Copynumber: 3.3 Consensus size: 13
33867806 TAAGAAATTG
33867816 TTATTATATTATA
1 TTATTATATTATA
33867829 TTATTATATTATA
1 TTATTATATTATA
33867842 TTA-TAT-TATATA
1 TTATTATAT-TATA
33867854 TTAT
1 TTAT
33867858 ATAAATAAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
11 1 0.04
12 10 0.37
13 16 0.59
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TTATTATATTATA
Found at i:33867859 original size:5 final size:5
Alignment explanation
Indices: 33867817--33867852 Score: 58
Period size: 5 Copynumber: 7.6 Consensus size: 5
33867807 AAGAAATTGT
33867817 TATTA TATTA TA-T- TATTA TATTA TATTA TATTA TAT
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TAT
33867853 ATTATATAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 2 0.07
4 2 0.07
5 25 0.86
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATTA
Found at i:33869361 original size:12 final size:12
Alignment explanation
Indices: 33869344--33869368 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
33869334 GCCGACTACT
33869344 GTTACTGTTACC
1 GTTACTGTTACC
33869356 GTTACTGTTACC
1 GTTACTGTTACC
33869368 G
1 G
33869369 ATTCGGCACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (12 bp):
GTTACTGTTACC
Found at i:33869398 original size:51 final size:51
Alignment explanation
Indices: 33869323--33869462 Score: 177
Period size: 45 Copynumber: 2.9 Consensus size: 51
33869313 TTACTGATCA
* * *
33869323 GGCAC-TTATGTGCCGACTACTGTTACTGTTACCGTTACTGTTACCGATTC
1 GGCACTTTGTGTGTCGAATACTGTTACTGTTACCGTTACTGTTACCGATTC
33869373 GGCACTTTGTGTGTCGAATACTGTTACTGTTACCGTTA----T--CGATTC
1 GGCACTTTGTGTGTCGAATACTGTTACTGTTACCGTTACTGTTACCGATTC
* * *
33869418 AGCACTTTGTGTGTTGAATACTGTTACTGTTACTGTTACTGTTAC
1 GGCACTTTGTGTGTCGAATACTGTTACTGTTACCGTTACTGTTAC
33869463 TGTTACTGTT
Statistics
Matches: 77, Mismatches: 6, Indels: 13
0.80 0.06 0.14
Matches are distributed among these distances:
45 41 0.53
47 1 0.01
49 1 0.01
50 5 0.06
51 29 0.38
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.40
Consensus pattern (51 bp):
GGCACTTTGTGTGTCGAATACTGTTACTGTTACCGTTACTGTTACCGATTC
Found at i:33869447 original size:6 final size:6
Alignment explanation
Indices: 33869436--33869472 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
33869426 GTGTGTTGAA
33869436 TACTGT TACTGT TACTGT TACTGT TACTGT TACTGT T
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACTGT T
33869473 CCGGATTTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.51
Consensus pattern (6 bp):
TACTGT
Found at i:33869694 original size:18 final size:18
Alignment explanation
Indices: 33869651--33869837 Score: 130
Period size: 18 Copynumber: 10.4 Consensus size: 18
33869641 CTGATTATTT
*
33869651 CTGAATAATTAACTGTTA
1 CTGAATAATTGACTGTTA
*
33869669 CCGAATAATTGACTGTTA
1 CTGAATAATTGACTGTTA
* *
33869687 CTGGATAATAGACTGTTA
1 CTGAATAATTGACTGTTA
* * * *
33869705 TTGAATAACTGAATATTA
1 CTGAATAATTGACTGTTA
* *
33869723 CTGAATAAATGA-TCATTA
1 CTGAATAATTGACT-GTTA
* * *
33869741 CTGAATAACTGATTGTCA
1 CTGAATAATTGACTGTTA
*
33869759 CTGAA-AAATGACTGTTA
1 CTGAATAATTGACTGTTA
* * *
33869776 CTGAATAACTTAATTGCTA
1 CTGAATAA-TTGACTGTTA
*
33869795 CTGAAT-ATCTGA-TTTTA
1 CTGAATAAT-TGACTGTTA
* *
33869812 CTAAATAATTGACTTTTA
1 CTGAATAATTGACTGTTA
*
33869830 CTGGATAA
1 CTGAATAA
33869838 CCGATCAATT
Statistics
Matches: 133, Mismatches: 29, Indels: 14
0.76 0.16 0.08
Matches are distributed among these distances:
17 27 0.20
18 93 0.70
19 13 0.10
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.36
Consensus pattern (18 bp):
CTGAATAATTGACTGTTA
Found at i:33873596 original size:53 final size:53
Alignment explanation
Indices: 33873515--33873665 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
33873505 CTTACACGGT
* *
33873515 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
33873570 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
33873623 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
33873666 GCACACTTAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:33879716 original size:29 final size:29
Alignment explanation
Indices: 33879672--33879729 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
33879662 CCCACTGTGA
*
33879672 GTATGTTTCTTGGATTATTATGTAATAGT
1 GTATGTTTCTTAGATTATTATGTAATAGT
33879701 GTATGTTTCTTAGATTATTATGTAATAGT
1 GTATGTTTCTTAGATTATTATGTAATAGT
33879730 CACAAGATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.26, C:0.03, G:0.19, T:0.52
Consensus pattern (29 bp):
GTATGTTTCTTAGATTATTATGTAATAGT
Found at i:33888481 original size:33 final size:33
Alignment explanation
Indices: 33888444--33888507 Score: 110
Period size: 33 Copynumber: 1.9 Consensus size: 33
33888434 TGATGATGCC
*
33888444 ATTCGTCTTCGATTATTCCCTTTTTCATTGAAT
1 ATTCGTCTCCGATTATTCCCTTTTTCATTGAAT
*
33888477 ATTCGTCTCCGGTTATTCCCTTTTTCATTGA
1 ATTCGTCTCCGATTATTCCCTTTTTCATTGA
33888508 GGAACAAAGC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.16, C:0.23, G:0.11, T:0.50
Consensus pattern (33 bp):
ATTCGTCTCCGATTATTCCCTTTTTCATTGAAT
Found at i:33894906 original size:20 final size:20
Alignment explanation
Indices: 33894883--33894922 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
33894873 ATTTAAAAAC
*
33894883 ATAAAAAAATATTAAAACAA
1 ATAAAAAAATACTAAAACAA
33894903 ATAAAAAAATACTAAAACAA
1 ATAAAAAAATACTAAAACAA
33894923 TTCTTAAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.75, C:0.07, G:0.00, T:0.17
Consensus pattern (20 bp):
ATAAAAAAATACTAAAACAA
Found at i:33895613 original size:13 final size:13
Alignment explanation
Indices: 33895595--33895619 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33895585 CAGTAATCGC
33895595 ACACGGGCGTGTT
1 ACACGGGCGTGTT
33895608 ACACGGGCGTGT
1 ACACGGGCGTGT
33895620 CTCTGCCGAG
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:0.16, C:0.24, G:0.40, T:0.20
Consensus pattern (13 bp):
ACACGGGCGTGTT
Found at i:33899459 original size:83 final size:83
Alignment explanation
Indices: 33899356--33899520 Score: 231
Period size: 83 Copynumber: 2.0 Consensus size: 83
33899346 CATACCAGAA
* * * * ** *
33899356 ACGAGTAAGACCATAGCTGAAAGACTTTATGGTATCACGATTTTAATGAGTAAGACCATATTTGA
1 ACGAGTAAGACCATAACTGAAAGACATTATGGCATCACGATTCTAACAAGTAAGACCATAGTTGA
*
33899421 AATATGTTATAGCATCAC
66 AAGATGTTATAGCATCAC
* *
33899439 ACGAGTAAGACGATAACTGAAATACATTATGGCATCACGATTCTAACAAGTAAGACCATAGTTGA
1 ACGAGTAAGACCATAACTGAAAGACATTATGGCATCACGATTCTAACAAGTAAGACCATAGTTGA
*
33899504 AAGATGTTATGGCATCA
66 AAGATGTTATAGCATCA
33899521 TGAATCAAAC
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
83 71 1.00
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.27
Consensus pattern (83 bp):
ACGAGTAAGACCATAACTGAAAGACATTATGGCATCACGATTCTAACAAGTAAGACCATAGTTGA
AAGATGTTATAGCATCAC
Found at i:33899460 original size:38 final size:38
Alignment explanation
Indices: 33899403--33899476 Score: 94
Period size: 38 Copynumber: 1.9 Consensus size: 38
33899393 CGATTTTAAT
** **
33899403 GAGTAAGACCATATTTGAAATATGTTATAGCATCACAC
1 GAGTAAGACCATAACTGAAATACATTATAGCATCACAC
* *
33899441 GAGTAAGACGATAACTGAAATACATTATGGCATCAC
1 GAGTAAGACCATAACTGAAATACATTATAGCATCAC
33899477 GATTCTAACA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 30 1.00
ACGTcount: A:0.41, C:0.16, G:0.18, T:0.26
Consensus pattern (38 bp):
GAGTAAGACCATAACTGAAATACATTATAGCATCACAC
Found at i:33899560 original size:45 final size:45
Alignment explanation
Indices: 33899456--33899564 Score: 130
Period size: 45 Copynumber: 2.4 Consensus size: 45
33899446 AGACGATAAC
* * * *
33899456 TGAAATACATTATGGCATCACGATTCTAACAAGTAAGACCATAGT
1 TGAAAGACATTATGGCATCACGAATCAAACAAATAAGACCATAGT
** *
33899501 TGAAAGATGTTATGGCATCATGAATCAAACAAATAAGACCAT-GAT
1 TGAAAGACATTATGGCATCACGAATCAAACAAATAAGACCATAG-T
*
33899546 TGAAAGACACTATGGCATC
1 TGAAAGACATTATGGCATC
33899565 CTTCAAACAT
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
44 1 0.02
45 52 0.98
ACGTcount: A:0.41, C:0.17, G:0.17, T:0.25
Consensus pattern (45 bp):
TGAAAGACATTATGGCATCACGAATCAAACAAATAAGACCATAGT
Found at i:33904588 original size:27 final size:27
Alignment explanation
Indices: 33904558--33904621 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
33904548 TCGTTAGAAC
*
33904558 AATAAACATGAGATAGTCTGCC-AGGAT
1 AATAAACATGAGATAGTCCGCCGA-GAT
*
33904585 AATAAACACGAGATAGTCCGCCGAGAT
1 AATAAACATGAGATAGTCCGCCGAGAT
*
33904612 AGTAAACATG
1 AATAAACATG
33904622 GGGAAATTCG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.42, C:0.17, G:0.22, T:0.19
Consensus pattern (27 bp):
AATAAACATGAGATAGTCCGCCGAGAT
Found at i:33914964 original size:47 final size:47
Alignment explanation
Indices: 33914856--33914965 Score: 134
Period size: 47 Copynumber: 2.3 Consensus size: 47
33914846 CGGGATAACT
* *
33914856 ACATAGTGCTTCATCGGAATAAATCCGAAACTTTAACATTATAGTAC
1 ACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTAC
* * * *
33914903 ACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-AC
1 ACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTA-TAGTAC
33914950 ACATAGTG-TCTCATCG
1 ACATAGTGCT-TCATCG
33914966 ACTCAATGTC
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
46 1 0.02
47 50 0.94
48 2 0.04
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.26
Consensus pattern (47 bp):
ACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTAC
Found at i:33915941 original size:44 final size:44
Alignment explanation
Indices: 33915857--33915977 Score: 122
Period size: 44 Copynumber: 2.7 Consensus size: 44
33915847 ACATATCCGT
* *
33915857 GCTGATGCCATGTCCCAGATATGGTCTTACACTGACACATCTTGTAG
1 GCTGATG-CATGTCCCAGACAT-GTCTTACACTGACACATCTCG-AG
*
33915904 TC-GATGCATGTCCCAGACATGTCTTACA-TG-CTTACATCTCGAG
1 GCTGATGCATGTCCCAGACATGTCTTACACTGAC--ACATCTCGAG
* * *
33915947 GCTGATGCATGTTCTAGACATGCCTTACACT
1 GCTGATGCATGTCCCAGACATGTCTTACACT
33915978 AGCTCTAGTC
Statistics
Matches: 63, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
42 1 0.02
43 5 0.08
44 38 0.60
45 14 0.22
46 4 0.06
47 1 0.02
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.31
Consensus pattern (44 bp):
GCTGATGCATGTCCCAGACATGTCTTACACTGACACATCTCGAG
Found at i:33923378 original size:9 final size:9
Alignment explanation
Indices: 33923364--33923388 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
33923354 ACCATTTGCT
33923364 GATAAATAA
1 GATAAATAA
33923373 GATAAATAA
1 GATAAATAA
33923382 GATAAAT
1 GATAAAT
33923389 GTAGTTCAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.64, C:0.00, G:0.12, T:0.24
Consensus pattern (9 bp):
GATAAATAA
Found at i:33926973 original size:92 final size:92
Alignment explanation
Indices: 33926837--33927030 Score: 286
Period size: 92 Copynumber: 2.1 Consensus size: 92
33926827 TTGATTTTAG
* *
33926837 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTA-TATAATTA
1 TAAATTCATATAAGAAAATTTTATTATCAAGAATTTTATGAAATTATATATCACTATTA-AATTA
*
33926901 TAT-TAAT-ATTAATTATTTTAAATTGTA
65 TATGTAATAATT-ATTATTTTAAATTATA
* *
33926928 TAAATTCATATAAGAAAATTTTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTA
1 TAAATTCATATAAGAAAA-TTTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTA
33926993 TATGTAATAATTATTATTTTAAATTATA
65 TATGTAATAATTATTATTTTAAATTATA
*
33927021 CAAATTCATA
1 TAAATTCATA
33927031 AACTATAATA
Statistics
Matches: 93, Mismatches: 6, Indels: 6
0.89 0.06 0.06
Matches are distributed among these distances:
91 17 0.18
92 43 0.46
93 30 0.32
94 3 0.03
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (92 bp):
TAAATTCATATAAGAAAATTTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTAT
ATGTAATAATTATTATTTTAAATTATA
Found at i:33927087 original size:17 final size:17
Alignment explanation
Indices: 33927062--33927095 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
33927052 ATAATTTTAA
*
33927062 ATTTTATTAAATCATAT
1 ATTTAATTAAATCATAT
33927079 ATTTAATTAAATCATAT
1 ATTTAATTAAATCATAT
33927096 TAGTTATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTAATTAAATCATAT
Found at i:33927112 original size:17 final size:16
Alignment explanation
Indices: 33927067--33927114 Score: 55
Period size: 17 Copynumber: 3.0 Consensus size: 16
33927057 TTTAAATTTT
33927067 ATTAAATCATATATTTA
1 ATTAAATCATATA-TTA
33927084 ATTAAATC--ATATTA
1 ATTAAATCATATATTA
*
33927098 GTTATAATCATATATTA
1 ATTA-AATCATATATTA
33927115 TGATTTGAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 6 0.22
15 7 0.26
17 14 0.52
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (16 bp):
ATTAAATCATATATTA
Found at i:33927172 original size:61 final size:61
Alignment explanation
Indices: 33927107--33927294 Score: 165
Period size: 61 Copynumber: 3.1 Consensus size: 61
33927097 AGTTATAATC
33927107 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
* * * * * * * * *
33927168 ATATATT-TTAATT-A-T-AATAT-ATTTAATAATAATTATGTTAATTTA-TATTTTA-CAGTAT
1 ATATATTATGATTTGAGTAAAT-TCATATAAGAAT-ATTA-ATT-ATTAAGAATTTTATTA-AAT
*
33927226 C
61 T
* * *
33927227 ATATATTATGATTTGAGTAAATTCATAGAAGAATTTTATTTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
33927288 ATATATT
1 ATATATT
33927295 TTAATTAAAA
Statistics
Matches: 93, Mismatches: 22, Indels: 24
0.67 0.16 0.17
Matches are distributed among these distances:
57 11 0.12
58 7 0.08
59 18 0.19
60 16 0.17
61 25 0.27
62 6 0.06
63 10 0.11
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (61 bp):
ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
Found at i:33927194 original size:15 final size:15
Alignment explanation
Indices: 33927159--33927210 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
33927149 TTAAGAATTT
*
33927159 TATTAAATTAT-ATA
1 TATTTAATTATAATA
33927173 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
33927187 TATTTAATAATAAT-
1 TATTTAATTATAATA
33927201 TATGTTAATT
1 TAT-TTAATT
33927211 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:33927234 original size:120 final size:120
Alignment explanation
Indices: 33927104--33927326 Score: 410
Period size: 120 Copynumber: 1.9 Consensus size: 120
33927094 ATTAGTTATA
*
33927104 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
1 ATCATATATTATGATTTGAGTAAATTCATAGAAGAATATTAATTATTAAGAATTTTATTAAATTA
*
33927169 TATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTACAGT
66 TATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGT
* *
33927224 ATCATATATTATGATTTGAGTAAATTCATAGAAGAATTTTATTTATTAAGAATTTTATTAAATTA
1 ATCATATATTATGATTTGAGTAAATTCATAGAAGAATATTAATTATTAAGAATTTTATTAAATTA
33927289 TATATTTTAATTAAAATATATTTAATAATAATTATGTT
66 TATATTTTAATTAAAATATATTTAATAATAATTATGTT
33927327 TAAATATGAT
Statistics
Matches: 99, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
120 99 1.00
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (120 bp):
ATCATATATTATGATTTGAGTAAATTCATAGAAGAATATTAATTATTAAGAATTTTATTAAATTA
TATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGT
Found at i:33927303 original size:18 final size:17
Alignment explanation
Indices: 33927275--33927309 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
33927265 TTTATTAAGA
*
33927275 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
33927292 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
33927310 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:33927428 original size:154 final size:156
Alignment explanation
Indices: 33927266--33927576 Score: 581
Period size: 154 Copynumber: 2.0 Consensus size: 156
33927256 AGAATTTTAT
33927266 TTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAA
1 TTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAA
33927331 TATGATTAAATTATTTATTATTGAT-AT-TAATCTTATTAAAATTTAAATAACAATAACAATAAT
66 TATGATTAAATTATTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAACAATAAT
33927394 AATTTACCAAAACAAATTTATGCTAA
131 AATTTACCAAAACAAATTTATGCTAA
33927420 TTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAA
1 TTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAA
33927485 TATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAATAA
66 TATGATTAAATTATTTATTATTGATAAT-ATAATCTTATTAAAATTTAAATAACAATAACAATAA
* *
33927550 TCATTTACCAAAACAAATTTCTGCTAA
130 TAATTTACCAAAACAAATTTATGCTAA
33927577 GGGTATTCTA
Statistics
Matches: 152, Mismatches: 2, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
154 90 0.59
155 2 0.01
157 60 0.39
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.44
Consensus pattern (156 bp):
TTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAA
TATGATTAAATTATTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAACAATAAT
AATTTACCAAAACAAATTTATGCTAA
Found at i:33927457 original size:18 final size:17
Alignment explanation
Indices: 33927429--33927463 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
33927419 ATTATTAAGA
*
33927429 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
33927446 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
33927464 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:33927497 original size:75 final size:75
Alignment explanation
Indices: 33927266--33927499 Score: 217
Period size: 75 Copynumber: 3.1 Consensus size: 75
33927256 AGAATTTTAT
33927266 TTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAA
1 TTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAA
33927331 TATGATTAAA
66 TATGATTAAA
* ** * * * * * * ***
33927341 TTATTTATTATTGATATTAATCTTATTAAAATTTAAATAACAATA-A--CAATAATAATT-TACC
1 TTATTAAGAATT-TTATTAA-ATTA-TATATTTTAATTAA-AATATATTTAATAATAATTATGTT
* * *
33927402 AAAACA-AATTTATGCTAA
62 TAAATATGA-TTA----AA
33927420 TTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAA
1 TTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAA
33927485 TATGATTAAA
66 TATGATTAAA
33927495 TTATT
1 TTATT
33927500 TATTATTGAT
Statistics
Matches: 115, Mismatches: 30, Indels: 28
0.66 0.17 0.16
Matches are distributed among these distances:
74 1 0.01
75 28 0.24
76 28 0.24
77 6 0.05
78 28 0.24
79 23 0.20
80 1 0.01
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (75 bp):
TTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAA
TATGATTAAA
Found at i:33927717 original size:16 final size:16
Alignment explanation
Indices: 33927696--33927734 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
33927686 TTGATTTGCT
*
33927696 ATTACACAGCTTTTCC
1 ATTACACAGCTATTCC
**
33927712 ATTACACCTCTATTCC
1 ATTACACAGCTATTCC
33927728 ATTACAC
1 ATTACAC
33927735 CTCTAATCCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.28, C:0.33, G:0.03, T:0.36
Consensus pattern (16 bp):
ATTACACAGCTATTCC
Found at i:33927735 original size:16 final size:16
Alignment explanation
Indices: 33927709--33927765 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
33927699 ACACAGCTTT
* *
33927709 TCCATTACACCTCTAT
1 TCCAATACACCTCTAA
*
33927725 TCCATTACACCTCTAA
1 TCCAATACACCTCTAA
33927741 TCCAATACACCTCTAA
1 TCCAATACACCTCTAA
33927757 TCCAATACA
1 TCCAATACA
33927766 GCGAACCAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.33, C:0.37, G:0.00, T:0.30
Consensus pattern (16 bp):
TCCAATACACCTCTAA
Found at i:33931034 original size:31 final size:31
Alignment explanation
Indices: 33930987--33931046 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
33930977 TGCCCGATTA
*
33930987 AAAATTCAAAAATCAATTTAATCTATAAAAAT
1 AAAATTCAAAAATCAATTTAAACT-TAAAAAT
*
33931019 AAAA-TCAAAATTCAATTTAAACTTAAAA
1 AAAATTCAAAAATCAATTTAAACTTAAAA
33931047 TTTAACAAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 5 0.19
31 17 0.65
32 4 0.15
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.30
Consensus pattern (31 bp):
AAAATTCAAAAATCAATTTAAACTTAAAAAT
Found at i:33933379 original size:43 final size:43
Alignment explanation
Indices: 33933309--33933435 Score: 170
Period size: 43 Copynumber: 3.0 Consensus size: 43
33933299 AAGTCTGAAC
*
33933309 TCAT-TCACCGGCATT-TCA-CCTGCTAGGCTTGAAGCCCGATA
1 TCATCTCACCGGCATTAT-AGCCTGCTAGGCTCGAAGCCCGATA
* * *
33933350 TCATTTCACCGGTATTATAGCTTGCTAGGCTCGAAGCCCGATA
1 TCATCTCACCGGCATTATAGCCTGCTAGGCTCGAAGCCCGATA
* *
33933393 TTATCTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATA
1 TCATCTCACCGGCATTATAGCCTGCTAGGCTCGAAGCCCGATA
33933436 ATATTATTCA
Statistics
Matches: 75, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
41 4 0.05
42 11 0.15
43 60 0.80
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (43 bp):
TCATCTCACCGGCATTATAGCCTGCTAGGCTCGAAGCCCGATA
Found at i:33933475 original size:43 final size:43
Alignment explanation
Indices: 33933329--33933480 Score: 141
Period size: 43 Copynumber: 3.5 Consensus size: 43
33933319 GCATTTCACC
* * * * * *
33933329 TGCTAGGCTTGAAGCCCG-ATATCATTTCACCGGTATTATAGCT
1 TGCTAGGC-CGAAGCCCGAATATTATCTCACCAGCATTAAAGCT
* * *
33933372 TGCTAGGCTCGAAGCCCG-ATATTATCTCACCGGCATTATAGCC
1 TGCTAGGC-CGAAGCCCGAATATTATCTCACCAGCATTAAAGCT
33933415 TGCTAGGCCCGAAGCCCGATAATATTAT-TCACCAGC-TTAAAGCT
1 TGCTAGG-CCGAAGCCCG--AATATTATCTCACCAGCATTAAAGCT
*
33933459 TGCTAGGCCGAGGCCCGAATAT
1 TGCTAGGCCGAAGCCCGAATAT
33933481 CACATTTCGA
Statistics
Matches: 96, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
41 5 0.05
43 63 0.66
44 14 0.15
45 7 0.07
46 7 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (43 bp):
TGCTAGGCCGAAGCCCGAATATTATCTCACCAGCATTAAAGCT
Found at i:33933475 original size:86 final size:85
Alignment explanation
Indices: 33933313--33933476 Score: 201
Period size: 86 Copynumber: 1.9 Consensus size: 85
33933303 CTGAACTCAT
** * *
33933313 TCACCGGCATTTCACCTGCTAGGCTTGAAGCCCGATATCATTTCACCGGTATTATAGCTTGCTAG
1 TCACCGGCATTTCACCTGCTAGGCCCGAAGCCCGATATCATTTCACCAGTATTAAAGCTTGCTAG
33933378 GCTCGAAGCCCGATATTATC
66 GCTCGAAGCCCGATATTATC
*
33933398 TCACCGGCATTAT-AGCCTGCTAGGCCCGAAGCCCGATAAT-ATTATTCACCAG-CTTAAAGCTT
1 TCACCGGCATT-TCA-CCTGCTAGGCCCGAAGCCCGAT-ATCA-T-TTCACCAGTATTAAAGCTT
*
33933460 GCTAGGC-CGAGGCCCGA
61 GCTAGGCTCGAAGCCCGA
33933477 ATATCACATT
Statistics
Matches: 68, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
85 12 0.18
86 31 0.46
87 18 0.26
88 7 0.10
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (85 bp):
TCACCGGCATTTCACCTGCTAGGCCCGAAGCCCGATATCATTTCACCAGTATTAAAGCTTGCTAG
GCTCGAAGCCCGATATTATC
Found at i:33935172 original size:14 final size:15
Alignment explanation
Indices: 33935143--33935172 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
33935133 AAAAATTTAG
33935143 ACATGATACTTTCAC
1 ACATGATACTTTCAC
33935158 ACATGATAC-TTCAC
1 ACATGATACTTTCAC
33935172 A
1 A
33935173 TATAATAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (15 bp):
ACATGATACTTTCAC
Found at i:33939022 original size:15 final size:14
Alignment explanation
Indices: 33938993--33939041 Score: 50
Period size: 15 Copynumber: 3.6 Consensus size: 14
33938983 TTTAAATAGA
*
33938993 TAAAATTATTAATT
1 TAAAATTAATAATT
33939007 TAAAATTTAATAATT
1 TAAAA-TTAATAATT
33939022 T-AAA-TAA-AATT
1 TAAAATTAATAATT
*
33939033 TATAATTAA
1 TAAAATTAA
33939042 ATTTATTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
11 5 0.17
12 5 0.17
13 3 0.10
14 8 0.27
15 9 0.30
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
TAAAATTAATAATT
Found at i:33939039 original size:18 final size:18
Alignment explanation
Indices: 33939007--33939043 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
33938997 ATTATTAATT
33939007 TAAAATTTAATAATTTAAA
1 TAAAATTTAATAA-TTAAA
33939026 TAAAATTT-ATAATTAAA
1 TAAAATTTAATAATTAAA
33939043 T
1 T
33939044 TTATTAATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.33
18 4 0.22
19 8 0.44
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
TAAAATTTAATAATTAAA
Found at i:33943583 original size:21 final size:21
Alignment explanation
Indices: 33943545--33943584 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
33943535 TTCTTTTCTC
33943545 ATAACAAAAACTATATTATAT
1 ATAACAAAAACTATATTATAT
*
33943566 ATAATCAAATACTA-ATTAT
1 ATAA-CAAAAACTATATTAT
33943585 TACTAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.35
Consensus pattern (21 bp):
ATAACAAAAACTATATTATAT
Found at i:33946722 original size:160 final size:160
Alignment explanation
Indices: 33946543--33946839 Score: 386
Period size: 160 Copynumber: 1.9 Consensus size: 160
33946533 ATTTTTAAAT
*
33946543 TAAATAAAATCTGTTTCAGGA-TT-TTTTCCCATCGTTCAACAAATTTTATTCTCTATTTTGT-T
1 TAAATAAAATCCGTTTCAGGATTTATTTTCCC--CGTTCAACAAATTTTATTC-C-ATTTTGTAT
* * * * * *
33946605 TTTATTTCC-AAACGAATATTAAAATTAAATAAAGTCTATTTCGAGATTTATTCCCGCCTTTTAA
62 TTTACTTCCAAAACGAATATTAAAATCAAATAAAATCTATTTCGAGATTTATTCCCCCCGTTCAA
*
33946669 CAGATTTTATTTGATTTTATTTCTCAATTAAAAG
127 CAGACTTTATTTGATTTTATTTCTCAATTAAAAG
* **** *
33946703 TAAATAAAATCCGTTTCAGGATTTATTTTCGCCGTTCAATGGGTTTTATTCCATTTTTTATTTTA
1 TAAATAAAATCCGTTTCAGGATTTATTTTCCCCGTTCAACAAATTTTATTCCATTTTGTATTTTA
* *
33946768 CTTCCAAAACGAGTATTAAAATCAAATAAAATCTGTTTCGAGATTTATTCCCCCCGTTCAACAGA
66 CTTCCAAAACGAATATTAAAATCAAATAAAATCTATTTCGAGATTTATTCCCCCCGTTCAACAGA
33946833 CTTTATT
131 CTTTATT
33946840 CCATTTTTGA
Statistics
Matches: 117, Mismatches: 16, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
158 6 0.05
159 10 0.09
160 93 0.79
161 2 0.02
162 6 0.05
ACGTcount: A:0.31, C:0.16, G:0.09, T:0.43
Consensus pattern (160 bp):
TAAATAAAATCCGTTTCAGGATTTATTTTCCCCGTTCAACAAATTTTATTCCATTTTGTATTTTA
CTTCCAAAACGAATATTAAAATCAAATAAAATCTATTTCGAGATTTATTCCCCCCGTTCAACAGA
CTTTATTTGATTTTATTTCTCAATTAAAAG
Found at i:33946796 original size:87 final size:86
Alignment explanation
Indices: 33946695--33946979 Score: 279
Period size: 87 Copynumber: 3.3 Consensus size: 86
33946685 TTATTTCTCA
* ** * ** **
33946695 ATTAAAAGTAAATAAAATCCGTTTCAGGATTTATTTTCGCCGTTCAATGGGTTTTATTCCATTTT
1 ATTAAAA-TAAATAAAATCTGTTTCAGGATTTATTCCCCCCGTTCAACAGACTTTATTCCATTTT
*
33946760 TTATTTTACTT-CCAAAACGAGT
65 TGATTTT-CTTCCCAAAACGAGT
33946782 ATTAAAATCAAATAAAATCTGTTTC-GAGATTTATTCCCCCCGTTCAACAGACTTTATTCCATTT
1 ATTAAAAT-AAATAAAATCTGTTTCAG-GATTTATTCCCCCCGTTCAACAGACTTTATTCCATTT
*
33946846 TTGATTTTGTTCCCAAAACGAGT
64 TTGATTTTCTTCCCAAAACGAGT
* ** * * * *
33946869 ATTAAAATTAAATAAAATCTGTTTCAGGATTTACTCCTGCTGTTCAAAAGATTTTATTCCATTCT
1 ATTAAAA-TAAATAAAATCTGTTTCAGGATTTATTCCCCCCGTTCAACAGACTTTATTCCATTTT
** * * *
33946934 CAATTTTGTTGCC-AAACGAGAA
65 TGATTTTCTTCCCAAAACGAG-T
*
33946956 ATTAAAATTAAATAAAATTTGTTT
1 ATTAAAA-TAAATAAAATCTGTTT
33946980 TGAGATTTAT
Statistics
Matches: 170, Mismatches: 22, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
86 11 0.06
87 157 0.92
88 2 0.01
ACGTcount: A:0.33, C:0.16, G:0.11, T:0.40
Consensus pattern (86 bp):
ATTAAAATAAATAAAATCTGTTTCAGGATTTATTCCCCCCGTTCAACAGACTTTATTCCATTTTT
GATTTTCTTCCCAAAACGAGT
Found at i:33946987 original size:87 final size:87
Alignment explanation
Indices: 33946771--33947014 Score: 294
Period size: 87 Copynumber: 2.8 Consensus size: 87
33946761 TATTTTACTT
* * ** * *
33946771 CCAAAACGAGTATTAAAATCAAATAAAATCTGTTTCGAGATTTATTCCCCCCGTTCAACAGACTT
1 CCAAAACGAGTATTAAAATTAAATAAAATCTGTTTTGAGATTTATTCCTGCTGTTCAACAGATTT
* **
33946836 TATTCCATTTTTGATTTTGTTC
66 TATTCCATTCTCAATTTTGTTC
* * *
33946858 CCAAAACGAGTATTAAAATTAAATAAAATCTG-TTTCAGGATTTACTCCTGCTGTTCAAAAGATT
1 CCAAAACGAGTATTAAAATTAAATAAAATCTGTTTTGA-GATTTATTCCTGCTGTTCAACAGATT
*
33946922 TTATTCCATTCTCAATTTTGTTG
65 TTATTCCATTCTCAATTTTGTTC
* * * * *
33946945 CC-AAACGAGAAATTAAAATTAAATAAAATTTGTTTTGAGATTTATTCTTGTTGTTTAACAGATT
1 CCAAAACGAG-TATTAAAATTAAATAAAATCTGTTTTGAGATTTATTCCTGCTGTTCAACAGATT
33947009 TTATTC
65 TTATTC
33947015 GATTTTAATA
Statistics
Matches: 133, Mismatches: 21, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
86 10 0.08
87 119 0.89
88 4 0.03
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.40
Consensus pattern (87 bp):
CCAAAACGAGTATTAAAATTAAATAAAATCTGTTTTGAGATTTATTCCTGCTGTTCAACAGATTT
TATTCCATTCTCAATTTTGTTC
Found at i:33947175 original size:79 final size:81
Alignment explanation
Indices: 33946954--33947178 Score: 237
Period size: 79 Copynumber: 2.8 Consensus size: 81
33946944 GCCAAACGAG
* * * * *
33946954 AAATTAAAATTAAA-T-AA-AATTTGTTTTGAGATTTATTCTTGTTGTTTAACAGATTTTATTCG
1 AAATTAGAATTAAATTGAATAATATGTTTTGAGATTTATTCCTGTCGTTTAACAGATTTTATTTG
33947016 ATTTTAATATGGTTTCC
66 ATTTT-ATATGGTTTCC
* * * * * * * * *
33947033 AAATTAGAATTAAATTGTATAATCTGTTTTGGGATTTATTCCCGCCATTTAATAGACTCTATTTG
1 AAATTAGAATTAAATTGAATAATATGTTTTGAGATTTATTCCTGTCGTTTAACAGATTTTATTTG
*
33947098 ATTTT-T-TTG-TTCGC
66 ATTTTATATGGTTTC-C
* *
33947112 AAATTAGAATTAAATTGAATAATATGTTTCGAGATTTATTCCTGTCGGTTAACAGATTTTATTTG
1 AAATTAGAATTAAATTGAATAATATGTTTTGAGATTTATTCCTGTCGTTTAACAGATTTTATTTG
33947177 AT
66 AT
33947179 CTTGATTTCG
Statistics
Matches: 117, Mismatches: 25, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
78 3 0.03
79 72 0.62
80 2 0.02
81 1 0.01
82 39 0.33
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.47
Consensus pattern (81 bp):
AAATTAGAATTAAATTGAATAATATGTTTTGAGATTTATTCCTGTCGTTTAACAGATTTTATTTG
ATTTTATATGGTTTCC
Found at i:33953826 original size:50 final size:51
Alignment explanation
Indices: 33953749--33953877 Score: 199
Period size: 50 Copynumber: 2.5 Consensus size: 51
33953739 GACCATGGCA
33953749 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGA-AAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAA-TG
*
33953800 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
* * *
33953850 ACAAGTGAAAAGTGGTAGCTTCAGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
33953878 CTGATCAGTG
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
50 45 0.62
51 27 0.38
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
Found at i:33953891 original size:31 final size:31
Alignment explanation
Indices: 33953853--33953939 Score: 149
Period size: 31 Copynumber: 2.8 Consensus size: 31
33953843 ACAAATGACA
*
33953853 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
33953884 AGTGAAAAGTGGTAGC-TCTGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTC-GGCTACCTGATC
33953915 AGTGAAAAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
33953940 AAGAGACAAG
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
30 2 0.04
31 49 0.92
32 2 0.04
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:33954034 original size:47 final size:46
Alignment explanation
Indices: 33953964--33954128 Score: 169
Period size: 47 Copynumber: 3.7 Consensus size: 46
33953954 AAGTGATTTC
* *
33953964 CGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTA
1 CGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
* * *
33954010 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATT
1 C-GTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
* * *
33954057 CGTGTAAGACCATACCTGGGCTATGGCATC-----GATATATGAATA
1 CGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATG-ATA
* * * *
33954099 TGTGTAAGACCATAGCTGGGCTATGGCATC
1 CGTATAAGACCATATCTGGGATATGGCATC
33954129 ATTATGTGAA
Statistics
Matches: 105, Mismatches: 12, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
41 7 0.07
42 30 0.29
46 27 0.26
47 41 0.39
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.29
Consensus pattern (46 bp):
CGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
Found at i:33954118 original size:42 final size:43
Alignment explanation
Indices: 33954058--33954172 Score: 162
Period size: 42 Copynumber: 2.7 Consensus size: 43
33954048 TATGTGATTC
* *
33954058 GTGTAAGACCATACCTGGGCTATGGCATCGA-TATATGAATAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
*
33954100 GTGTAAGACCATAGCTGGGCTATGGCATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
* **
33954142 GTGTAAGACCATAGTTGAACTATGGCATCGA
1 GTGTAAGACCATAGCTGGGCTATGGCATCGA
33954173 GAAAACGAAG
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
41 1 0.02
42 63 0.97
43 1 0.02
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (43 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
Found at i:33957120 original size:31 final size:31
Alignment explanation
Indices: 33957096--33957221 Score: 200
Period size: 31 Copynumber: 4.1 Consensus size: 31
33957086 AGCTTCTGTG
33957096 ACCTGATCAGTGAAAAGTGGTAGCTCCGGCT
1 ACCTGATCAGTGAAAAGTGGTAGCTCCGGCT
33957127 ACCTGATCAGTGAAAAGTGGTAGCTCCGGCT
1 ACCTGATCAGTGAAAAGTGGTAGCTCCGGCT
*
33957158 ACCTGATTAGTGAAAAGTGGTAG-TACCGGCT
1 ACCTGATCAGTGAAAAGTGGTAGCT-CCGGCT
* * *
33957189 ACCTGATCAGTGAATAGGGGTAGCTTCGGCT
1 ACCTGATCAGTGAAAAGTGGTAGCTCCGGCT
33957220 AC
1 AC
33957222 AAGAGACAAG
Statistics
Matches: 88, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
30 1 0.01
31 86 0.98
32 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (31 bp):
ACCTGATCAGTGAAAAGTGGTAGCTCCGGCT
Found at i:33957317 original size:47 final size:46
Alignment explanation
Indices: 33957248--33957410 Score: 174
Period size: 47 Copynumber: 3.6 Consensus size: 46
33957238 GTGATTTTCA
* *
33957248 TATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTACTG
1 TATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATAC-G
* *
33957295 TATAAGACCATATCTGGGATATGGCATCAGTGAGATATTTGATACG
1 TATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATACG
* * * *
33957341 TGTAAGACCATAGCTGGGCTATGGCATC-----GATATATGAATATG
1 TATAAGACCATATCTGGGATATGGCATCGGTGAGATATATG-ATACG
* * *
33957383 TGTAAGACCATAGCTGGGCTATGGCATC
1 TATAAGACCATATCTGGGATATGGCATC
33957411 ATTATGTGAA
Statistics
Matches: 106, Mismatches: 9, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
41 7 0.07
42 32 0.30
46 26 0.25
47 41 0.39
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.29
Consensus pattern (46 bp):
TATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATACG
Found at i:33957429 original size:42 final size:42
Alignment explanation
Indices: 33957341--33957431 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
33957331 ATTTGATACG
* *
33957341 TGTAAGACCATAGCTGGGCTATGGCATCGATATATGAATATG
1 TGTAAGACCATAGCTGGGCTATGGCATCGATATATGAAGATA
*
33957383 TGTAAGACCATAGCTGGGCTATGGCATC-ATTATGTGAAGATA
1 TGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAAGATA
33957425 TGTAAGA
1 TGTAAGA
33957432 GCAAAATTGA
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
41 1 0.02
42 44 0.98
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (42 bp):
TGTAAGACCATAGCTGGGCTATGGCATCGATATATGAAGATA
Found at i:33959268 original size:39 final size:39
Alignment explanation
Indices: 33959209--33959391 Score: 303
Period size: 39 Copynumber: 4.7 Consensus size: 39
33959199 GCACGTGGCT
* * * *
33959209 TGCGGACTTCAAGTCTGGATATATTTCCAGCATATAGCT
1 TGCGGACCTCATGTCCGGATATATTTCCAGCATATAGCC
*
33959248 TGCGGACCTCATGTCCGGATATATTCCCAGCATATAGCC
1 TGCGGACCTCATGTCCGGATATATTTCCAGCATATAGCC
* *
33959287 TGCGGACTTCATGTCCGGATATATTTTCAGCATATAGCC
1 TGCGGACCTCATGTCCGGATATATTTCCAGCATATAGCC
33959326 TGCGGACCTCATGTCCGGATATATTTCCAGCATATAGCC
1 TGCGGACCTCATGTCCGGATATATTTCCAGCATATAGCC
33959365 TGCGGACCTCATGTCCGGATATATTTC
1 TGCGGACCTCATGTCCGGATATATTTC
33959392 AAATACCATG
Statistics
Matches: 134, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 134 1.00
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.31
Consensus pattern (39 bp):
TGCGGACCTCATGTCCGGATATATTTCCAGCATATAGCC
Found at i:33963661 original size:12 final size:12
Alignment explanation
Indices: 33963644--33963669 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
33963634 ACATTTACTG
33963644 AACTTAGCATAT
1 AACTTAGCATAT
33963656 AACTTAGCATAT
1 AACTTAGCATAT
33963668 AA
1 AA
33963670 GCCTAGGATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (12 bp):
AACTTAGCATAT
Found at i:33969151 original size:55 final size:55
Alignment explanation
Indices: 33969086--33969202 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 55
33969076 CGTGGTCGAG
* * * * *
33969086 CCTGTCAAAACAACACGGGAGTGAGATACGTCCGTGT-TGAAGAATTGTGGGTGAA
1 CCTGTTAAAACAACACGGGAGTAAGACACGCCCGTGTCT-AACAATTGTGGGTGAA
* * *
33969141 CCTGTTAAAACAGCACGGGAGTAAGACACGCCCGTGTCTAACACTTGTGGTTGAA
1 CCTGTTAAAACAACACGGGAGTAAGACACGCCCGTGTCTAACAATTGTGGGTGAA
33969196 CCTGTTA
1 CCTGTTA
33969203 GATCCACACG
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
55 52 0.98
56 1 0.02
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (55 bp):
CCTGTTAAAACAACACGGGAGTAAGACACGCCCGTGTCTAACAATTGTGGGTGAA
Found at i:33970033 original size:18 final size:18
Alignment explanation
Indices: 33970012--33970048 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
33970002 TCGAAACCGG
33970012 TCGGTTAACTGAAAAAAT
1 TCGGTTAACTGAAAAAAT
*
33970030 TCGGTTAATTGAAAAAAT
1 TCGGTTAACTGAAAAAAT
33970048 T
1 T
33970049 AATAAAAAAA
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:0.43, C:0.08, G:0.16, T:0.32
Consensus pattern (18 bp):
TCGGTTAACTGAAAAAAT
Found at i:33970199 original size:5 final size:6
Alignment explanation
Indices: 33970186--33970226 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
33970176 ATAATTTAAT
*
33970186 AAATAA AAATAA AAATCTAA AACTAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAA
33970227 CATATAATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 26 0.84
8 5 0.16
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:33970259 original size:9 final size:9
Alignment explanation
Indices: 33970245--33970312 Score: 100
Period size: 9 Copynumber: 7.6 Consensus size: 9
33970235 TTTATACATA
*
33970245 TAATTCGAT
1 TAATTCGGT
33970254 TAATTCGGT
1 TAATTCGGT
*
33970263 TAATTCGGG
1 TAATTCGGT
33970272 TAATTCGGT
1 TAATTCGGT
*
33970281 TAATTCGAT
1 TAATTCGGT
33970290 TAATTCGGT
1 TAATTCGGT
*
33970299 TAATTAGGT
1 TAATTCGGT
33970308 TAATT
1 TAATT
33970313 TTATACTTAT
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 53 1.00
ACGTcount: A:0.28, C:0.09, G:0.19, T:0.44
Consensus pattern (9 bp):
TAATTCGGT
Found at i:33982455 original size:86 final size:87
Alignment explanation
Indices: 33982361--33982582 Score: 304
Period size: 86 Copynumber: 2.6 Consensus size: 87
33982351 CAAAACGAGT
* * * **
33982361 AATAAAATCTATTTCGCGATTTATTCCCGCAGTTTAACAGATTTTATTCCATTTTTTATTTT-TT
1 AATAAAATCTATTTCGGGATTTATTCCCGCTGTTTAACAGATTTTATTCCATTCTCGATTTTGTT
*
33982425 CCCAAAATGAG-TATTAAAATTA
66 CCC-AAATGAGAAATTAAAATTA
* * *
33982447 AATAAAATCTGTTTAGGGATTTATTCCCGCTGTTGAACAGATTTTATTCCATTCTCGATTTTGTT
1 AATAAAATCTATTTCGGGATTTATTCCCGCTGTTTAACAGATTTTATTCCATTCTCGATTTTGTT
*
33982512 GCCAAATGAGAAATTAAAATTA
66 CCCAAATGAGAAATTAAAATTA
* * *
33982534 AATATAATCTATTTCGGGATTTATTCTCGCTGTTTAACAAATTTTATTC
1 AATAAAATCTATTTCGGGATTTATTCCCGCTGTTTAACAGATTTTATTC
33982583 GCTTTTAATT
Statistics
Matches: 118, Mismatches: 16, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
86 61 0.52
87 57 0.48
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (87 bp):
AATAAAATCTATTTCGGGATTTATTCCCGCTGTTTAACAGATTTTATTCCATTCTCGATTTTGTT
CCCAAATGAGAAATTAAAATTA
Found at i:33983149 original size:41 final size:40
Alignment explanation
Indices: 33983025--33983150 Score: 153
Period size: 41 Copynumber: 3.1 Consensus size: 40
33983015 GGAGAAGCGT
* *
33983025 TAGCGGCGTTTTTGCATAAACGCCGCAAAAGGTAAAGCAA
1 TAGCGGCGTTTTTTCATAAACGTCGCAAAAGGTAAAGCAA
** * * * *
33983065 TAATGACTTTTTTTTCATAAACGTCGCAAAAGGCAAAGTAA
1 TAGCGGC-GTTTTTTCATAAACGTCGCAAAAGGTAAAGCAA
*
33983106 TAGCGGCGTTTTTCTCATAAACGTCACAAAAGGTAAAGCAA
1 TAGCGGCGTTTTT-TCATAAACGTCGCAAAAGGTAAAGCAA
33983147 TAGC
1 TAGC
33983151 AATGTTTATT
Statistics
Matches: 69, Mismatches: 15, Indels: 3
0.79 0.17 0.03
Matches are distributed among these distances:
40 9 0.13
41 60 0.87
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.25
Consensus pattern (40 bp):
TAGCGGCGTTTTTTCATAAACGTCGCAAAAGGTAAAGCAA
Found at i:33983178 original size:21 final size:21
Alignment explanation
Indices: 33983139--33983180 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
33983129 TCACAAAAGG
* *
33983139 TAAAGCAATAGCAATGTTTAT
1 TAAAGCAAGAGCAACGTTTAT
*
33983160 TAAAGCAAGAGCAGCGTTTAT
1 TAAAGCAAGAGCAACGTTTAT
33983181 AAAAAACTGC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.40, C:0.12, G:0.19, T:0.29
Consensus pattern (21 bp):
TAAAGCAAGAGCAACGTTTAT
Found at i:33997026 original size:44 final size:43
Alignment explanation
Indices: 33996963--33997050 Score: 167
Period size: 44 Copynumber: 2.0 Consensus size: 43
33996953 AAATGATGAA
33996963 TAAGTTATGAAATTGAATCTTAATTAGTCTATTTTTATATGGAT
1 TAAGTTATGAAATTGAATCTTAATTAGTCTA-TTTTATATGGAT
33997007 TAAGTTATGAAATTGAATCTTAATTAGTCTATTTTATATGGAT
1 TAAGTTATGAAATTGAATCTTAATTAGTCTATTTTATATGGAT
33997050 T
1 T
33997051 GAACAAAACA
Statistics
Matches: 44, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
43 13 0.30
44 31 0.70
ACGTcount: A:0.34, C:0.05, G:0.14, T:0.48
Consensus pattern (43 bp):
TAAGTTATGAAATTGAATCTTAATTAGTCTATTTTATATGGAT
Found at i:34007517 original size:30 final size:30
Alignment explanation
Indices: 34007483--34007600 Score: 121
Period size: 30 Copynumber: 3.9 Consensus size: 30
34007473 CACGAACTGG
* * *
34007483 CACATGAGCTTGTGGCCAGCCTGTGTGGCT
1 CACATGAGCGTGTGGCCAACCCGTGTGGCT
* *
34007513 CACAT-AGGCGTGTGGTCAACCCATGTGGCT
1 CACATGA-GCGTGTGGCCAACCCGTGTGGCT
* *
34007543 CACATGGGCGTGTGGCCAACCCGTGTAGCT
1 CACATGAGCGTGTGGCCAACCCGTGTGGCT
* * * *
34007573 CACATGGGTGTGTGTCCAGCCCGTGTGG
1 CACATGAGCGTGTGGCCAACCCGTGTGG
34007601 AAATGCTCAG
Statistics
Matches: 73, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
29 1 0.01
30 72 0.99
ACGTcount: A:0.15, C:0.27, G:0.34, T:0.24
Consensus pattern (30 bp):
CACATGAGCGTGTGGCCAACCCGTGTGGCT
Found at i:34009573 original size:5 final size:5
Alignment explanation
Indices: 34009563--34009635 Score: 64
Period size: 5 Copynumber: 14.6 Consensus size: 5
34009553 TAAGAATAAT
* *
34009563 AAATA AAATA AAATA AGTAGTA AAATA AAA-A ATAA-A AAATA TAAT-
1 AAATA AAATA AAATA A--AATA AAATA AAATA A-AATA AAATA AAATA
34009608 AAATA ATAAT- AAATA AAATA AAATA AAA
1 AAATA A-AATA AAATA AAATA AAATA AAA
34009636 ATGGGGTGAT
Statistics
Matches: 57, Mismatches: 4, Indels: 14
0.76 0.05 0.19
Matches are distributed among these distances:
4 10 0.18
5 40 0.70
6 3 0.05
7 4 0.07
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (5 bp):
AAATA
Found at i:34009581 original size:29 final size:28
Alignment explanation
Indices: 34009546--34009633 Score: 110
Period size: 29 Copynumber: 3.1 Consensus size: 28
34009536 AATTTAAAAT
34009546 ATAAGTATAAGAATAATAAATAAAATAAA
1 ATAAGTATAA-AATAATAAATAAAATAAA
* *
34009575 ATAAGTAGTAAAATAAAAAATAAAA-AAT
1 ATAAGTA-TAAAATAATAAATAAAATAAA
34009603 ATAA-TA-AATAATAATAAATAAAATAAA
1 ATAAGTATAA-AATAATAAATAAAATAAA
34009630 ATAA
1 ATAA
34009634 AAATGGGGTG
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
25 2 0.04
26 13 0.25
27 8 0.15
28 6 0.12
29 20 0.38
30 3 0.06
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.24
Consensus pattern (28 bp):
ATAAGTATAAAATAATAAATAAAATAAA
Found at i:34009603 original size:36 final size:36
Alignment explanation
Indices: 34009552--34009636 Score: 93
Period size: 36 Copynumber: 2.3 Consensus size: 36
34009542 AAATATAAGT
* * *
34009552 ATAAGAATAATAAATAAAATAAAATAAGTAGTAAA-ATA
1 ATAA-AATAAAAAATAAAAT-AAATAA-TAATAAATAAA
*
34009590 A-AAAATAAAAAATATAATAAATAATAATAAATAAA
1 ATAAAATAAAAAATAAAATAAATAATAATAAATAAA
34009625 ATAAAATAAAAA
1 ATAAAATAAAAA
34009637 TGGGGTGATT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
34 6 0.15
35 9 0.22
36 23 0.56
37 2 0.05
38 1 0.02
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (36 bp):
ATAAAATAAAAAATAAAATAAATAATAATAAATAAA
Found at i:34009608 original size:19 final size:19
Alignment explanation
Indices: 34009557--34009630 Score: 71
Period size: 19 Copynumber: 4.0 Consensus size: 19
34009547 TAAGTATAAG
*
34009557 AATAATAAATAAAAT--AA
1 AATAAAAAATAAAATAAAA
** *
34009574 AATAAGTAGTAAAATAAAA
1 AATAAAAAATAAAATAAAA
* *
34009593 AATAAAAAATATAATAAAT
1 AATAAAAAATAAAATAAAA
*
34009612 AATAATAAATAAAATAAAA
1 AATAAAAAATAAAATAAAA
34009631 TAAAAATGGG
Statistics
Matches: 44, Mismatches: 11, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
17 12 0.27
19 32 0.73
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (19 bp):
AATAAAAAATAAAATAAAA
Found at i:34013481 original size:88 final size:85
Alignment explanation
Indices: 34013380--34013571 Score: 224
Period size: 86 Copynumber: 2.2 Consensus size: 85
34013370 TTTTTTTGAA
* * * * * * * *
34013380 ATTAAAAGTAAATAAAGTCCGTTTCGGAATTTATTCCTGCCGTTCAA-TGAATTTTTTTTCATTT
1 ATTAAAA-TAAATAAAATCCATTTCGCAATTTATT-CTGCAGCTCAACAG-ATTTTATTCCA-TT
34013444 TTTTATTTTATTTCCAAAACGAGT
62 TTTTATTTTATTTCCAAAACGAGT
* *
34013468 ATTAAAATCAAATAAAATCTATTTTGCAATTTATTCTGCAGCTCAACAGATTTTATTCCATTTTT
1 ATTAAAAT-AAATAAAATCCATTTCGCAATTTATTCTGCAGCTCAACAGATTTTATTCCATTTTT
*
34013533 TATTTTTTTTCCAAAACGAGT
65 TATTTTATTTCCAAAACGAGT
34013554 ATTAAAATTAAATAAAAT
1 ATTAAAA-TAAATAAAAT
34013572 TTGTTTCAGG
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
86 41 0.46
87 20 0.22
88 29 0.32
ACGTcount: A:0.35, C:0.13, G:0.08, T:0.44
Consensus pattern (85 bp):
ATTAAAATAAATAAAATCCATTTCGCAATTTATTCTGCAGCTCAACAGATTTTATTCCATTTTTT
ATTTTATTTCCAAAACGAGT
Found at i:34013586 original size:86 final size:86
Alignment explanation
Indices: 34013442--34013705 Score: 263
Period size: 87 Copynumber: 3.0 Consensus size: 86
34013432 TTTTTTTCAT
* *
34013442 TTTTTTATTTTATTTCCAAAACGAGTATTAAAATCAAATAAAATCTAT-TTTGCA--ATTTATTC
1 TTTTTTATTTTTTTTCCAAAACGAGTATTAAAATTAAATAAAAT-T-TGTTT-CAGGATTTATTC
*
34013504 TGCA-GCTCAACAGATTTTATTCCA
63 -CCACGCTCAACAGATTTTATTCCA
34013528 TTTTTTATTTTTTTTCCAAAACGAGTATTAAAATTAAATAAAATTTGTTTCAGGATTTATTCCCA
1 TTTTTTATTTTTTTTCCAAAACGAGTATTAAAATTAAATAAAATTTGTTTCAGGATTTATTCCCA
*
34013593 CTGTTCAACAGATTTTATTCCA
66 C-GCTCAACAGATTTTATTCCA
* ** * * * * *
34013615 TTCTCGATTTTGTTGT-C-AAACGAGAAACTAAAATTAAATAAAATATGTTTCGGGATTTATTCC
1 TTTTTTATTTT-TTTTCCAAAACGAG-TATTAAAATTAAATAAAATTTGTTTCAGGATTTATTCC
* * *
34013678 CGC-CATTCAACAAATTTTATTCGA
64 CACGC--TCAACAGATTTTATTCCA
34013702 TTTT
1 TTTT
34013706 AATTTGATTT
Statistics
Matches: 152, Mismatches: 17, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
84 3 0.02
85 6 0.04
86 57 0.38
87 83 0.55
88 3 0.02
ACGTcount: A:0.33, C:0.15, G:0.09, T:0.43
Consensus pattern (86 bp):
TTTTTTATTTTTTTTCCAAAACGAGTATTAAAATTAAATAAAATTTGTTTCAGGATTTATTCCCA
CGCTCAACAGATTTTATTCCA
Found at i:34016361 original size:55 final size:54
Alignment explanation
Indices: 34016245--34016576 Score: 184
Period size: 55 Copynumber: 6.3 Consensus size: 54
34016235 GTTAAGGATA
** * * * * ***
34016245 CCATGTAAGACCATGCCAAGGCATGGCATTAAT-AATTCCTATAAGGCAAGGAAA
1 CCATGTAAGACCATATCAAGACATGGCATTGATGAGTT-CTATAAAGCAAGGGTC
* *
34016299 TCATGTAAGACCATATCAAGACATGGCTTTGATGAGTTACTATAAAGCAAGGGTC
1 CCATGTAAGACCATATCAAGACATGGCATTGATGAGTT-CTATAAAGCAAGGGTC
* *** * * *
34016354 CCATGTAAGACCATGTTTGGAACATGGCATT--TG-G---TA-AGA-TAAGGGTA
1 CCATGTAAGACCATATCAAG-ACATGGCATTGATGAGTTCTATAAAGCAAGGGTC
* * * * * * * * ***
34016401 TCATGTAAGACCATACCAAGGCATGGCATTAATAATTTCTATAAGGTAAGGAAA
1 CCATGTAAGACCATATCAAGACATGGCATTGATGAGTTCTATAAAGCAAGGGTC
* * * *
34016455 TCATGTAAGACCATATCAAGACATGGCTTTGATGAGTTACTATAAGGCAAAGGTC
1 CCATGTAAGACCATATCAAGACATGGCATTGATGAGTT-CTATAAAGCAAGGGTC
* * * * *
34016510 CCATGTAAGACCATGTGAAGACATGACATTGGTGAGTTC-AT-AAGACAAGGATAC
1 CCATGTAAGACCATATCAAGACATGGCATTGATGAGTTCTATAAAG-CAAGGGT-C
34016564 CC-TGTAAGACCAT
1 CCATGTAAGACCAT
34016577 GTTTGGAACA
Statistics
Matches: 211, Mismatches: 54, Indels: 27
0.72 0.18 0.09
Matches are distributed among these distances:
46 9 0.04
47 20 0.09
48 3 0.01
49 2 0.01
52 4 0.02
53 20 0.09
54 71 0.34
55 73 0.35
56 9 0.04
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.25
Consensus pattern (54 bp):
CCATGTAAGACCATATCAAGACATGGCATTGATGAGTTCTATAAAGCAAGGGTC
Found at i:34016482 original size:156 final size:156
Alignment explanation
Indices: 34016237--34016525 Score: 515
Period size: 156 Copynumber: 1.9 Consensus size: 156
34016227 AATTGATGGT
*
34016237 TAAGGATACCATGTAAGACCATGCCAAGGCATGGCATTAATAATTCCTATAAGGCAAGGAAATCA
1 TAAGGATACCATGTAAGACCATACCAAGGCATGGCATTAATAATTCCTATAAGGCAAGGAAATCA
*
34016302 TGTAAGACCATATCAAGACATGGCTTTGATGAGTTACTATAAAGCAAGGGTCCCATGTAAGACCA
66 TGTAAGACCATATCAAGACATGGCTTTGATGAGTTACTATAAAGCAAAGGTCCCATGTAAGACCA
34016367 TGTTTGGAACATGGCATTTGGTAAGA
131 TGTTTGGAACATGGCATTTGGTAAGA
* * * *
34016393 TAAGGGTATCATGTAAGACCATACCAAGGCATGGCATTAATAATTTCTATAAGGTAAGGAAATCA
1 TAAGGATACCATGTAAGACCATACCAAGGCATGGCATTAATAATTCCTATAAGGCAAGGAAATCA
*
34016458 TGTAAGACCATATCAAGACATGGCTTTGATGAGTTACTATAAGGCAAAGGTCCCATGTAAGACCA
66 TGTAAGACCATATCAAGACATGGCTTTGATGAGTTACTATAAAGCAAAGGTCCCATGTAAGACCA
34016523 TGT
131 TGT
34016526 GAAGACATGA
Statistics
Matches: 126, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
156 126 1.00
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (156 bp):
TAAGGATACCATGTAAGACCATACCAAGGCATGGCATTAATAATTCCTATAAGGCAAGGAAATCA
TGTAAGACCATATCAAGACATGGCTTTGATGAGTTACTATAAAGCAAAGGTCCCATGTAAGACCA
TGTTTGGAACATGGCATTTGGTAAGA
Found at i:34022535 original size:27 final size:26
Alignment explanation
Indices: 34022494--34022606 Score: 136
Period size: 27 Copynumber: 4.2 Consensus size: 26
34022484 CAGCATGGCT
* * *
34022494 ACCAGAACAGTTAATGTGACAGAGTC
1 ACCAGAACAGATAATGTGGCAGAGCC
*
34022520 ACCAGATACAGATAATCGTGGCAGAACC
1 ACCAGA-ACAGATAAT-GTGGCAGAGCC
34022548 ACCAGAACAGATATATGTGGCAGAGCC
1 ACCAGAACAGATA-ATGTGGCAGAGCC
* *
34022575 ACCAGATCAGATAATTGTGGCATAGCC
1 ACCAGAACAGATAA-TGTGGCAGAGCC
34022602 ACCAG
1 ACCAG
34022607 GACGCTTCCT
Statistics
Matches: 76, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 7 0.09
27 53 0.70
28 16 0.21
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
ACCAGAACAGATAATGTGGCAGAGCC
Found at i:34022587 original size:54 final size:54
Alignment explanation
Indices: 34022494--34022606 Score: 156
Period size: 54 Copynumber: 2.1 Consensus size: 54
34022484 CAGCATGGCT
* *
34022494 ACCAGAACAGTTAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAACC
1 ACCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAACC
* * * *
34022548 ACCAGAACAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCC
1 ACCAGAACAGATA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAACC
34022602 ACCAG
1 ACCAG
34022607 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
ACCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAACC
Found at i:34024051 original size:24 final size:24
Alignment explanation
Indices: 34024024--34024094 Score: 124
Period size: 24 Copynumber: 3.0 Consensus size: 24
34024014 CTAGATTTCC
**
34024024 TCCCTTATCTGCTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
34024048 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
34024072 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
34024095 CTCCTGACAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.25, C:0.38, G:0.01, T:0.35
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:34025097 original size:27 final size:27
Alignment explanation
Indices: 34025057--34025162 Score: 126
Period size: 27 Copynumber: 3.9 Consensus size: 27
34025047 AGGAAGCGTC
34025057 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTATGCCACAATTATCTGAT
* *
34025084 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTATGCCACAAT-TATCTGAT
*
34025111 CTGGTGGCTATGCCACGATTATCTGTAT
1 CTGGTGGCTATGCCACAATTATCTG-AT
* * *
34025139 CTGGTGACTCTGTCACAA-TATCTG
1 CTGGTGGCTATGCCACAATTATCTG
34025163 GCAGCCTCAC
Statistics
Matches: 68, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
26 2 0.03
27 49 0.72
28 17 0.25
ACGTcount: A:0.19, C:0.24, G:0.23, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTATGCCACAATTATCTGAT
Found at i:34025160 original size:54 final size:54
Alignment explanation
Indices: 34025057--34025162 Score: 169
Period size: 54 Copynumber: 2.0 Consensus size: 54
34025047 AGGAAGCGTC
*
34025057 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
* *
34025111 CTGGTGGCTATGCCACGATTATCTGTATCTGGTGACTCTGTCACA-ATATCTG
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTG
34025163 GCAGCCTCAC
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
54 31 0.65
55 17 0.35
ACGTcount: A:0.19, C:0.24, G:0.23, T:0.35
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:34039314 original size:274 final size:274
Alignment explanation
Indices: 34038825--34039378 Score: 1063
Period size: 274 Copynumber: 2.0 Consensus size: 274
34038815 GAGTGTATAT
34038825 ATGAAATGGTCGTTCGTATGAATTGGCGAATAATGGGTATTCCATCGAGATTTTCTAGAAACTCA
1 ATGAAATGGTCGTTCGTATGAATTGGCGAATAATGGGTATTCCATCGAGATTTTCTAGAAACTCA
*
34038890 ACGAGATTAACGTGGTATACATATATGAATGAAATGTTGAATGATGAGCTCATCTAGTTAAATTA
66 ACGAGATTAACATGGTATACATATATGAATGAAATGTTGAATGATGAGCTCATCTAGTTAAATTA
* *
34038955 CTTGAAGCATGATTATGTGACTAACTCATTGATTAAGTGCAAATGATAGGAAATTATTTCATCAT
131 CTTGAAACATGATTATGTGACTAACTCATTGATTAAGTGCAAATGATAGGAAATTATTTCATAAT
34039020 GGATAATTTCATGATTTAAGTATGGATGTATGCTAATTACTCGGTAAGTTTACTTTCCGGTTATT
196 GGATAATTTCATGATTTAAGTATGGATGTATGCTAATTACTCGGTAAGTTTACTTTCCGGTTATT
34039085 CGAGCTTACTAAGC
261 CGAGCTTACTAAGC
* *
34039099 ATGAAATGGTCGTTCGTATGAATTGGCGGATAATGGGTATTCCATCGAGATTTTTTAGAAACTCA
1 ATGAAATGGTCGTTCGTATGAATTGGCGAATAATGGGTATTCCATCGAGATTTTCTAGAAACTCA
34039164 ACGAGATTAACATGGTATACATATATGAATGAAATGTTGAATGATGAGCTCATCTAGTTAAATTA
66 ACGAGATTAACATGGTATACATATATGAATGAAATGTTGAATGATGAGCTCATCTAGTTAAATTA
34039229 CTTGAAACATGATTATGTGACTAACTCATTGATTAAGTGCAAATGATAGGAAATTATTTCATAAT
131 CTTGAAACATGATTATGTGACTAACTCATTGATTAAGTGCAAATGATAGGAAATTATTTCATAAT
34039294 GGATAATTTCATGATTTAAGTATGGATGTATGCTAATTACTCGGTAAGTTTACTTTCCGGTTATT
196 GGATAATTTCATGATTTAAGTATGGATGTATGCTAATTACTCGGTAAGTTTACTTTCCGGTTATT
34039359 CGAGCTTACTAAGC
261 CGAGCTTACTAAGC
34039373 ATGAAA
1 ATGAAA
34039379 ATGCTTAACC
Statistics
Matches: 275, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
274 275 1.00
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.35
Consensus pattern (274 bp):
ATGAAATGGTCGTTCGTATGAATTGGCGAATAATGGGTATTCCATCGAGATTTTCTAGAAACTCA
ACGAGATTAACATGGTATACATATATGAATGAAATGTTGAATGATGAGCTCATCTAGTTAAATTA
CTTGAAACATGATTATGTGACTAACTCATTGATTAAGTGCAAATGATAGGAAATTATTTCATAAT
GGATAATTTCATGATTTAAGTATGGATGTATGCTAATTACTCGGTAAGTTTACTTTCCGGTTATT
CGAGCTTACTAAGC
Found at i:34060506 original size:14 final size:14
Alignment explanation
Indices: 34060487--34060521 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
34060477 GTTGATTTTT
34060487 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
*
34060501 TTGAAAAACAGGAA
1 TTGAAAAACAGAAA
34060515 TTGAAAA
1 TTGAAAA
34060522 TTCCTCAGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.60, C:0.06, G:0.17, T:0.17
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:34060508 original size:93 final size:92
Alignment explanation
Indices: 34060331--34060699 Score: 429
Period size: 90 Copynumber: 4.1 Consensus size: 92
34060321 AAAGCAGATT
*
34060331 TTGAAAATACCTC-GACATGTGACCC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTT
1 TTGAAAATACCTCAG-CA-GTGACCCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
* * * * *
34060392 TTGAAAAATATAAATTAAAAAAAAAACTGAAA
64 TTGAAAAACAGAAATT---GAAAAAACAGGAA
* *
34060424 CTGAAAATACCTCAGCATGTGAGCC-AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 TTGAAAATACCTCAGCA-GTGACCCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
34060488 TGAAAAACAGAAATTG-AAAAACAGGAA
65 TGAAAAACAGAAATTGAAAAAACAGGAA
* * *
34060515 TTGAAAATTCCTCAGCA-TG-CCCTAAGGCTCAACTCACTTCTCGCAGTATGAGTTGATTTTTTT
1 TTGAAAATACCTCAGCAGTGACCCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
* * *
34060578 GAAAAATATAGATTGAAAAAACAGGAA
66 GAAAAACAGAAATTGAAAAAACAGGAA
* *
34060605 TTGAAAATACCTCAGC-GT-ATCCTAAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTTT
1 TTGAAAATACCTCAGCAGTGACCCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
* * *
34060668 G-AAAGCAGAAATT-AAAAAGCAGAAA
66 GAAAAACAGAAATTGAAAAAACAGGAA
34060693 TTGAAAA
1 TTGAAAA
34060700 GCAGGAACTG
Statistics
Matches: 242, Mismatches: 27, Indels: 19
0.84 0.09 0.07
Matches are distributed among these distances:
88 19 0.08
89 60 0.25
90 68 0.28
91 24 0.10
93 53 0.22
94 1 0.00
95 17 0.07
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (92 bp):
TTGAAAATACCTCAGCAGTGACCCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
GAAAAACAGAAATTGAAAAAACAGGAA
Found at i:34060688 original size:14 final size:14
Alignment explanation
Indices: 34060669--34060703 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
34060659 AATTTTTTTG
34060669 AAAGCAGAAATTAA
1 AAAGCAGAAATTAA
*
34060683 AAAGCAGAAATTGA
1 AAAGCAGAAATTAA
34060697 AAAGCAG
1 AAAGCAG
34060704 GAACTGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.60, C:0.09, G:0.20, T:0.11
Consensus pattern (14 bp):
AAAGCAGAAATTAA
Found at i:34060711 original size:14 final size:14
Alignment explanation
Indices: 34060669--34060713 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
34060659 AATTTTTTTG
* *
34060669 AAAGCAGAAATTAA
1 AAAGCAGAAACTGA
*
34060683 AAAGCAGAAATTGA
1 AAAGCAGAAACTGA
*
34060697 AAAGCAGGAACTGA
1 AAAGCAGAAACTGA
34060711 AAA
1 AAA
34060714 TTCCTCAGTG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.60, C:0.09, G:0.20, T:0.11
Consensus pattern (14 bp):
AAAGCAGAAACTGA
Found at i:34060859 original size:14 final size:14
Alignment explanation
Indices: 34060840--34060875 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 14
34060830 AGTTTATTTT
34060840 TTTGAAAACAGAAA
1 TTTGAAAACAGAAA
34060854 TTTGAAAAACAGAAA
1 TTTG-AAAACAGAAA
34060869 -TTGAAAA
1 TTTGAAAA
34060876 TACCTCAGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 4 0.19
14 7 0.33
15 10 0.48
ACGTcount: A:0.58, C:0.06, G:0.14, T:0.22
Consensus pattern (14 bp):
TTTGAAAACAGAAA
Found at i:34060864 original size:15 final size:15
Alignment explanation
Indices: 34060840--34060875 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
34060830 AGTTTATTTT
34060840 TTTG-AAAACAGAAA
1 TTTGAAAAACAGAAA
34060854 TTTGAAAAACAGAAA
1 TTTGAAAAACAGAAA
34060869 -TTGAAAA
1 TTTGAAAA
34060876 TACCTCAGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 11 0.52
15 10 0.48
ACGTcount: A:0.58, C:0.06, G:0.14, T:0.22
Consensus pattern (15 bp):
TTTGAAAAACAGAAA
Found at i:34060955 original size:15 final size:15
Alignment explanation
Indices: 34060935--34060966 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
34060925 GATTTTTGAA
34060935 ACATAAATTGAAAAT
1 ACATAAATTGAAAAT
34060950 ACATAAATTGAAAAT
1 ACATAAATTGAAAAT
34060965 AC
1 AC
34060967 CTCAACGTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.59, C:0.09, G:0.06, T:0.25
Consensus pattern (15 bp):
ACATAAATTGAAAAT
Found at i:34061005 original size:86 final size:86
Alignment explanation
Indices: 34060765--34061029 Score: 307
Period size: 86 Copynumber: 3.0 Consensus size: 86
34060755 TGAGTTGATT
* * * * * *
34060765 TTTGACAAACAGAATTTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
1 TTTGAAAAACAGAAATTGAAAATACCTCAACGTGTATTGAGGCTCAACTCACCTCTTGCAATATG
*
34060830 AGTTTATTTTTTTGAAAACAGAAA
66 AGTTGA--TTTTTG-AAACAGAAA
* *** **
34060854 TTTGAAAAACAGAAATTGAAAATACCTCAGCACGTGAACCAAGGCTCAACTCATTTCTTGCAATA
1 TTTGAAAAACAGAAATTGAAAATACCTCA--ACGTGTATTGAGGCTCAACTCACCTCTTGCAATA
*
34060919 TGAGTTGATTTTTGAAACATAAA
64 TGAGTTGATTTTTGAAACAGAAA
* *
34060942 -TTGAAAATACATAAATTGAAAATACCTCAACGTGTATTGTGGCTCAACTCACCTCTTGCAATAT
1 TTTGAAAA-ACAGAAATTGAAAATACCTCAACGTGTATTGAGGCTCAACTCACCTCTTGCAATAT
*
34061006 GAGTTGATTTCTGAAAACAGAAA
65 GAGTTGATTTTTG-AAACAGAAA
34061029 T
1 T
34061030 AAAAACATCA
Statistics
Matches: 147, Mismatches: 24, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
86 40 0.27
87 15 0.10
88 28 0.19
89 32 0.22
91 32 0.22
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.31
Consensus pattern (86 bp):
TTTGAAAAACAGAAATTGAAAATACCTCAACGTGTATTGAGGCTCAACTCACCTCTTGCAATATG
AGTTGATTTTTGAAACAGAAA
Found at i:34064297 original size:16 final size:16
Alignment explanation
Indices: 34064276--34064307 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
34064266 AATCCTCTGA
*
34064276 TTTCCTTTTGCGTGTG
1 TTTCCTTTTACGTGTG
34064292 TTTCCTTTTACGTGTG
1 TTTCCTTTTACGTGTG
34064308 CGGAGGTGGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.03, C:0.19, G:0.22, T:0.56
Consensus pattern (16 bp):
TTTCCTTTTACGTGTG
Found at i:34077937 original size:44 final size:44
Alignment explanation
Indices: 34077640--34078865 Score: 444
Period size: 44 Copynumber: 26.9 Consensus size: 44
34077630 TACCATGGCG
* * *
34077640 AATCTTATCTCTCTAAAGTTGCAGTGGAGCAGATCGAAGCCACT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGCTACT
* * * * * *
34077684 AACCTTATCTCCTTGAAGTTGTAGTGGAGCAGGTTGAAGTTAC-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGCTACT
* * * * *
34077727 AAGTCTTATCTTCCTGAAGTTGCAGTGGAG-AAAACTGAAGATAGCG
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATC-GAAGCTA-CT
* *
34077773 AATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTC-AAGCTA-T
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TCGAAGCTACT
* * * * * *
34077816 ACATCCTA-CACCTCTGAAGTTGCAGCAGG-TC-GAATCAAATCTACCAT
1 A-ATCTTATCTCC-CTGAAGTTGCAG-TGGAGCAG-ATCGAAGCTA-C-T
* * *
34077863 GGCGAATCTTGTCTCCCTGGAGTTGCAGTGGAGCAGATCGAAGCCACT
1 ----AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGCTACT
* * * * *
34077911 AACCTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTGAAGTTAC-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGCTACT
* * * *
34077954 AAGTCTTATCTTCCTGAAGTTGCAGTGGATCAGA-CTGAAGATAGCG
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATC-GAAGCTA-CT
* * **
34078000 AATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCTA-T
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGCTACT
* * * * * *
34078043 AAATCCTATACT-TCTGAAGTTGCAGCAGG-TCAGATCAAATCTACCAT
1 -AATCTTAT-CTCCCTGAAGTTGCAG-TGGAGCAGATCGAAGCTA-C-T
* * *
34078090 GACGAATTTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGCCACC
1 ----AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGCTACT
* * * * * *
34078138 AATCTTATCTCCTTGAAGTTGCAATGGAGCAGGTTGAAGTTGCT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGCTACT
* * * * *
34078182 AGTCTTATTTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAGCG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGCTA-CT
* * * **
34078227 AATCTTATTTCCTTGAAGTTGCAGTGGAACAGATTAAAGCTACAGGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGCTAC----T
* * * * *
34078275 ACAAGTCCTATGC-CTCTGAAGTTGCAGTAGG-TCAGATCAAATCTATCATTGT
1 --AA-TCTTAT-CTCCCTGAAGTTGCAGT-GGAGCAGATCGAAGCTA-C----T
* * ** * *
34078327 GAATCTTATCTCTCTGAAGTTGCAGTGGAGTAGATTAAAGCCATT
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGCTACT
* * * *
34078372 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAAAT-TAACGCCACG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAA-GCTACT
* * * * ** *
34078416 AACCTTATCTCTCTAAAGTTGCAGTGGAGCAGGTTTAAGTTAC-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGCTACT
* * * *
34078459 AAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGA-CTGAAGTTAACG
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATC-GAAGCT-ACT
* * * * * ** *
34078505 AATCTTATTTCCTTAAAGTTGTAGTGGAAACAGATTAAAACTACGAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGG-AGCAGATCGAAGCTAC----T
* * * * ** * * *
34078554 ACAAGTCCTATAC-CTCTGAAATTGCAGTAGCTCGGATCAAATCTATCAT
1 --AA-TCTTAT-CTCCCTGAAGTTGCAGTGGAGCAGATCGAAGCTA-C-T
* * * ** * *
34078603 GGCAAATATTATCTCCTTGAAGTTGCAGTGGAACAGATTAAAGCCATT
1 ----AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGCTACT
* *
34078651 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGGC-ACG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAA-GCTACT
* * * * * *
34078695 GACCTTATCCCCCTGAAGTTGTAGTAGG-GCAGGTCGAAGTTAC-
1 AATCTTATCTCCCTGAAGTTGCAGT-GGAGCAGATCGAAGCTACT
* * ** *
34078738 AAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGA-CTAAAAATAGCA
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATC-GAAGCTA-CT
* * * * * * *
34078784 AACCTTATCTTCCTGAAGTTGCAGTGAAGAAGATTGAAGCCACG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGCTACT
* * * ** **
34078828 AGTCTAATCTCCCTAAAGTTTTAGTGGAGTGGATCGAA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAA
34078866 ACACTAACTC
Statistics
Matches: 883, Mismatches: 220, Indels: 158
0.70 0.17 0.13
Matches are distributed among these distances:
43 20 0.02
44 477 0.54
45 170 0.19
46 18 0.02
47 3 0.00
48 2 0.00
49 13 0.01
50 108 0.12
51 50 0.06
52 22 0.02
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGCTACT
Found at i:34077993 original size:227 final size:227
Alignment explanation
Indices: 34077586--34078402 Score: 1154
Period size: 227 Copynumber: 3.6 Consensus size: 227
34077576 TCATTGAAGT
* **
34077586 TATAAATCCTATACCTCTGAAGTTGCAGGAGGTTGGATCAAATCTACCATGGCGAATCTTATCTC
1 TATAAATCCTATACCTCTGAAGTTGCAGCAGGTCAGATCAAATCTACCATGGCGAATCTTATCTC
* * * *
34077651 TCTAAAGTTGCAGTGGAGCAGATCGAAGCCACTAACCTTATCTCCTTGAAGTTGTAGTGGAGCAG
66 CCTGAAGTTGCAGTGGAGCAGATCGAAGCCACTAACCTTATCTCCCTGAAGTTGCAGTGGAGCAG
* *
34077716 GTTGAAGTTACAAGTCTTATCTTCCTGAAGTTGCAGTGGAGAAAACTGAAGATAGCGAATCTTAT
131 GTTGAAGTTACAAGTCTTATCTTCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTAT
*
34077781 CTCTCTGAAGTTGCAGTAGAGCAGATTCAAGC
196 CTCTCTGAAGTTGCAGTAGAGCAGATTAAAGC
* * *
34077813 TATACATCCTACACCTCTGAAGTTGCAGCAGGTC-GAATCAAATCTACCATGGCGAATCTTGTCT
1 TATAAATCCTATACCTCTGAAGTTGCAGCAGGTCAG-ATCAAATCTACCATGGCGAATCTTATCT
* *
34077877 CCCTGGAGTTGCAGTGGAGCAGATCGAAGCCACTAACCTTATCTCCCTGAAGTTGTAGTGGAGCA
65 CCCTGAAGTTGCAGTGGAGCAGATCGAAGCCACTAACCTTATCTCCCTGAAGTTGCAGTGGAGCA
*
34077942 GGTTGAAGTTACAAGTCTTATCTTCCTGAAGTTGCAGTGGATCAGACTGAAGATAGCGAATCTTA
130 GGTTGAAGTTACAAGTCTTATCTTCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTA
34078007 TCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGC
195 TCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGC
* * *
34078040 TATAAATCCTATACTTCTGAAGTTGCAGCAGGTCAGATCAAATCTACCATGACGAATTTTATCTC
1 TATAAATCCTATACCTCTGAAGTTGCAGCAGGTCAGATCAAATCTACCATGGCGAATCTTATCTC
* * * *
34078105 CCTGAAGTTGCAGTGGAGCAGATCGAAGCCACCAATCTTATCTCCTTGAAGTTGCAATGGAGCAG
66 CCTGAAGTTGCAGTGGAGCAGATCGAAGCCACTAACCTTATCTCCCTGAAGTTGCAGTGGAGCAG
* * * *
34078170 GTTGAAGTTGCTAGTCTTAT-TTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAGCGAATCTTA
131 GTTGAAGTTACAAGTCTTATCTT-CCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTA
* * *
34078234 TTTC-CTTGAAGTTGCAGTGGAACAGATTAAAGC
195 TCTCTC-TGAAGTTGCAGTAGAGCAGATTAAAGC
* * * * *
34078267 TACAGGTTACAAGTCCTATGCCTCTGAAGTTGCAGTAGGTCAGATCAAATCTATCATTGTGAATC
1 T--A---TA-AA-TCCTATACCTCTGAAGTTGCAGCAGGTCAGATCAAATCTACCATGGCGAATC
* * ** * *
34078332 TTATCTCTCTGAAGTTGCAGTGGAGTAGATTAAAGCCATTAATCTTATCTCCCTGAAGTTGCAGT
59 TTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGCCACTAACCTTATCTCCCTGAAGTTGCAGT
34078397 GGAGCA
124 GGAGCA
34078403 AATTAACGCC
Statistics
Matches: 530, Mismatches: 49, Indels: 15
0.89 0.08 0.03
Matches are distributed among these distances:
226 4 0.01
227 413 0.78
228 1 0.00
229 1 0.00
232 2 0.00
233 2 0.00
234 107 0.20
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.29
Consensus pattern (227 bp):
TATAAATCCTATACCTCTGAAGTTGCAGCAGGTCAGATCAAATCTACCATGGCGAATCTTATCTC
CCTGAAGTTGCAGTGGAGCAGATCGAAGCCACTAACCTTATCTCCCTGAAGTTGCAGTGGAGCAG
GTTGAAGTTACAAGTCTTATCTTCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTAT
CTCTCTGAAGTTGCAGTAGAGCAGATTAAAGC
Found at i:34078661 original size:279 final size:276
Alignment explanation
Indices: 34078098--34078773 Score: 953
Period size: 279 Copynumber: 2.4 Consensus size: 276
34078088 ATGACGAATT
* * * *
34078098 TTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGCCACCAATCTTATCTCCTTGAAGTTGCAAT
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGAT-TAAGCCACGAACCTTATCTCC-TGAAGTTGCAGT
* * * * * *
34078163 GGAGCAGGTTGAAGTTGCTAGTCTTATTTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAGCGA
64 GGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGTTAACGA
* * *
34078228 ATCTTATTTCCTTGAAGTTGCAGTGGAACAGATTAAAGCTACAGGTTACAAGTCCTATGCCTCTG
129 ATCTTATTTCCTTAAAGTTGCAGTGGAACAGATTAAAACTACAGGTTACAAGTCCTATACCTCTG
* * * ** * **
34078293 AAGTTGCAGTAGGTCAGATCAAATCTATCATTGTGAATCTTATCTCTCTGAAGTTGCAGTGGAGT
194 AAATTGCAGTAGCTCAGATCAAATCTATCATGGCAAATATTATCTCTCTGAAGTTGCAGTGGAAC
34078358 AGATTAAAGCCATTAATC
259 AGATTAAAGCCATTAATC
* *
34078376 TTATCTCCCTGAAGTTGCAGTGGAGCAAATTAACGCCACGAACCTTATCTCTCTAAAGTTGCAGT
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA-GCCACGAACCTTATCTC-CTGAAGTTGCAGT
* *
34078441 GGAGCAGGTTTAAGTTACAAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGACTGAAGTTAACGA
64 GGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGTTAACGA
*
34078506 ATCTTATTTCCTTAAAGTTGTAGTGGAAACAGATTAAAACTAC-GAGTTACAAGTCCTATACCTC
129 ATCTTATTTCCTTAAAGTTGCAGTGG-AACAGATTAAAACTACAG-GTTACAAGTCCTATACCTC
*
34078570 TGAAATTGCAGTAGCTCGGATCAAATCTATCATGGCAAATATTATCTC-CTTGAAGTTGCAGTGG
192 TGAAATTGCAGTAGCTCAGATCAAATCTATCATGGCAAATATTATCTCTC-TGAAGTTGCAGTGG
34078634 AACAGATTAAAGCCATTAATC
256 AACAGATTAAAGCCATTAATC
* * * *
34078655 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGGCACGGACCTTATCCCCCTGAAGTTGTAGT
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAGCCACGAACCTTAT-CTCCTGAAGTTGCAGT
*
34078720 AGG-GCAGGTCGAAGTTACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACT
64 -GGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACT
34078774 AAAAATAGCA
Statistics
Matches: 354, Mismatches: 36, Indels: 15
0.87 0.09 0.04
Matches are distributed among these distances:
277 2 0.01
278 137 0.39
279 209 0.59
280 6 0.02
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (276 bp):
TTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAGCCACGAACCTTATCTCCTGAAGTTGCAGTGG
AGCAGGTTGAAGTTACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGTTAACGAAT
CTTATTTCCTTAAAGTTGCAGTGGAACAGATTAAAACTACAGGTTACAAGTCCTATACCTCTGAA
ATTGCAGTAGCTCAGATCAAATCTATCATGGCAAATATTATCTCTCTGAAGTTGCAGTGGAACAG
ATTAAAGCCATTAATC
Found at i:34080577 original size:27 final size:27
Alignment explanation
Indices: 34080547--34080633 Score: 92
Period size: 27 Copynumber: 3.3 Consensus size: 27
34080537 TTGGGATTAG
*
34080547 TTTATATATTATTTATTTCAAACTTCT
1 TTTATATATTATTTATTTCAAACTTAT
* *
34080574 TTTACATATTATTTATTT-AGA--TAT
1 TTTATATATTATTTATTTCAAACTTAT
**
34080598 TTTATACGTTATTTATTTCAAAC-TAT
1 TTTATATATTATTTATTTCAAACTTAT
34080624 TTTAATATAT
1 TTT-ATATAT
34080634 ACATATTATC
Statistics
Matches: 48, Mismatches: 9, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
24 17 0.35
25 2 0.04
26 8 0.17
27 21 0.44
ACGTcount: A:0.32, C:0.08, G:0.02, T:0.57
Consensus pattern (27 bp):
TTTATATATTATTTATTTCAAACTTAT
Found at i:34080583 original size:54 final size:51
Alignment explanation
Indices: 34080519--34080621 Score: 125
Period size: 51 Copynumber: 2.0 Consensus size: 51
34080509 TACGTTAAGG
* * *
34080519 TTTTATATATTATTCATTTTGGGATTAGTTTATATATTATTTATTTCAAACTTC
1 TTTTACATATTATTCA-TTT-AGA-TAGTTTATACATTATTTATTTCAAACTTC
* * *
34080573 TTTTACATATTATTTATTTAGATATTTTATACGTTATTTATTTCAAACT
1 TTTTACATATTATTCATTTAGATAGTTTATACATTATTTATTTCAAACT
34080622 ATTTTAATAT
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
51 24 0.56
52 2 0.05
53 3 0.07
54 14 0.33
ACGTcount: A:0.29, C:0.08, G:0.06, T:0.57
Consensus pattern (51 bp):
TTTTACATATTATTCATTTAGATAGTTTATACATTATTTATTTCAAACTTC
Found at i:34082709 original size:8 final size:8
Alignment explanation
Indices: 34082693--34082723 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
34082683 AAATTTATAA
*
34082693 AAAAATTT
1 AAAACTTT
34082701 AAAACTTT
1 AAAACTTT
34082709 AAAACTTT
1 AAAACTTT
34082717 AAAACTT
1 AAAACTT
34082724 AATGTTTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.35
Consensus pattern (8 bp):
AAAACTTT
Found at i:34083224 original size:44 final size:44
Alignment explanation
Indices: 34083161--34083248 Score: 167
Period size: 44 Copynumber: 2.0 Consensus size: 44
34083151 AAGTAGATAG
34083161 ATAAATTGCCAAATGTGTTCTACGATTTTGATTGAGTTGGGACC
1 ATAAATTGCCAAATGTGTTCTACGATTTTGATTGAGTTGGGACC
*
34083205 ATAAATTGCCAAATGTGTTCTAGGATTTTGATTGAGTTGGGACC
1 ATAAATTGCCAAATGTGTTCTACGATTTTGATTGAGTTGGGACC
34083249 GTCAAAGGCT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.27, C:0.12, G:0.24, T:0.36
Consensus pattern (44 bp):
ATAAATTGCCAAATGTGTTCTACGATTTTGATTGAGTTGGGACC
Found at i:34085563 original size:24 final size:26
Alignment explanation
Indices: 34085527--34085574 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
34085517 ATACTTCGTA
*
34085527 TTTTCTGTT-AAAAATTATTTTTACC
1 TTTTCTGTTAAAAAAATATTTTTACC
34085552 TTTTCT-TTAAAAAAATATTTTTA
1 TTTTCTGTTAAAAAAATATTTTTA
34085575 ATGTAATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 2 0.10
25 19 0.90
ACGTcount: A:0.33, C:0.08, G:0.02, T:0.56
Consensus pattern (26 bp):
TTTTCTGTTAAAAAAATATTTTTACC
Found at i:34087014 original size:7 final size:7
Alignment explanation
Indices: 34087002--34087051 Score: 64
Period size: 7 Copynumber: 6.9 Consensus size: 7
34086992 ATTATTGTAT
34087002 AATATAAA
1 AATAT-AA
34087010 ATATATAA
1 A-ATATAA
34087018 AATATAA
1 AATATAA
34087025 AATATAA
1 AATATAA
34087032 AATATAA
1 AATATAA
* *
34087039 AAAATAC
1 AATATAA
34087046 AATATA
1 AATATA
34087052 TTGTATTAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
7 30 0.79
8 4 0.11
9 4 0.11
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (7 bp):
AATATAA
Found at i:34095125 original size:16 final size:17
Alignment explanation
Indices: 34095100--34095132 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
34095090 TAAAGCAACT
*
34095100 TAAAATAAA-TAAAATG
1 TAAAAAAAATTAAAATG
34095116 TAAAAAAAATTAAAATG
1 TAAAAAAAATTAAAATG
34095133 ATAATAGATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.24
Consensus pattern (17 bp):
TAAAAAAAATTAAAATG
Found at i:34095509 original size:26 final size:26
Alignment explanation
Indices: 34095420--34095594 Score: 105
Period size: 26 Copynumber: 6.9 Consensus size: 26
34095410 TATAAAAAAG
* *
34095420 ATAATACATATAAA-AATTTGAAATTA
1 ATAATACATA-AAACAATTTAAAATGA
* * * * *
34095446 ATAATATATGAAA-ATTTTTAAA-GT
1 ATAATACATAAAACAATTTAAAATGA
*
34095470 A-AATA-ATAAAACAAATTAAAATGA
1 ATAATACATAAAACAATTTAAAATGA
*
34095494 ATAATACATAAAACAAATTTAAAATAA
1 ATAATACATAAAAC-AATTTAAAATGA
** * * *
34095521 ATAATGTACAAAACAATTTAAAGTGT
1 ATAATACATAAAACAATTTAAAATGA
* * * *
34095547 ATAGTATATGAAATAATTTAAAAT-A
1 ATAATACATAAAACAATTTAAAATGA
34095572 AT-ATATC-TAAAACAATTTAAAAT
1 ATAATA-CATAAAACAATTTAAAAT
34095595 AGTTTAATAT
Statistics
Matches: 113, Mismatches: 30, Indels: 14
0.72 0.19 0.09
Matches are distributed among these distances:
22 5 0.04
23 10 0.09
24 19 0.17
25 16 0.14
26 42 0.37
27 21 0.19
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.32
Consensus pattern (26 bp):
ATAATACATAAAACAATTTAAAATGA
Found at i:34095523 original size:27 final size:26
Alignment explanation
Indices: 34095471--34095542 Score: 85
Period size: 27 Copynumber: 2.8 Consensus size: 26
34095461 TTTTAAAGTA
*
34095471 AATAATAAAACAAA-TTAAAATGAAT
1 AATAATAAAACAAATTTAAAATAAAT
34095496 AATACATAAAACAAATTTAAAATAAAT
1 AATA-ATAAAACAAATTTAAAATAAAT
* *
34095523 AATGTACAAAAC-AATTTAAA
1 AAT-AATAAAACAAATTTAAA
34095543 GTGTATAGTA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
25 4 0.10
26 18 0.44
27 19 0.46
ACGTcount: A:0.65, C:0.07, G:0.03, T:0.25
Consensus pattern (26 bp):
AATAATAAAACAAATTTAAAATAAAT
Found at i:34095623 original size:52 final size:50
Alignment explanation
Indices: 34095509--34095636 Score: 118
Period size: 50 Copynumber: 2.5 Consensus size: 50
34095499 ACATAAAACA
* * *
34095509 AATTTAAAATAAATAATGTA-C-AAAACAATTTAAAGTGTATAGTATATG
1 AATTTAAAATAAATAATATATCTAAAACAATTTAAAATGTATAATATATG
* ** *
34095557 AA-ATAATTTAAAATAATATATCTAAAACAATTTAAAATAGTTTAATATATG
1 AATTTAAAAT-AAATAATATATCTAAAACAATTTAAAAT-GTATAATATATG
* *
34095608 TAATTTAAGATAAATAAAATAATCTAAAA
1 -AATTTAAAATAAATAATAT-ATCTAAAA
34095637 TAAATAATAA
Statistics
Matches: 62, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
47 4 0.06
48 11 0.18
49 1 0.02
50 14 0.23
51 10 0.16
52 10 0.16
53 12 0.19
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.34
Consensus pattern (50 bp):
AATTTAAAATAAATAATATATCTAAAACAATTTAAAATGTATAATATATG
Found at i:34097332 original size:51 final size:51
Alignment explanation
Indices: 34097238--34097658 Score: 291
Period size: 44 Copynumber: 8.9 Consensus size: 51
34097228 GAGACTAGAC
* * * * * *
34097238 TTGTAGCTTTAATATGTTCCACTGCAACTTCAGGAAAATAAGATTTGTGAT
1 TTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTGAT
* *
34097289 TTGTAGCTTCAATCTGCTCCACTACAACTTCAGGGAG---AGA----AGAT
1 TTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTGAT
** * * * *
34097333 TCCTACCTTCAGTCTACTCCACTGCAACTTCAAGGAGATAAGACTTGT-A-
1 TTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTGAT
* * **
34097382 ----A-CTTCAACCTACTCCA-TGCAACTTCAGGGAGATAAGGTTTGTGAT
1 TTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTGAT
* *
34097427 TTGAAGCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGA-TT-T-A-
1 TTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTGAT
* * * * * *
34097474 CTATA--TTTAGTCTGCTCCATTGCAATTTCAGGGAGATAAGACTTGT-A-
1 TTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTGAT
* * * * **
34097521 ----AG-TTCAACCTACTCCGCTACAACTTCAGGGAGATAAGGTTTGTGAT
1 TTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTGAT
34097567 TTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGT-A-
1 TTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTGAT
* *
34097616 ----A-CTTCAACCTGCTCCACTGTAACTTCAGGGAGATAAGACTTGT
1 TTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGT
34097659 AACTTCAACT
Statistics
Matches: 295, Mismatches: 50, Indels: 57
0.73 0.12 0.14
Matches are distributed among these distances:
43 24 0.08
44 118 0.40
45 34 0.12
46 2 0.01
47 7 0.02
48 4 0.01
49 2 0.01
50 19 0.06
51 85 0.29
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (51 bp):
TTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTGAT
Found at i:34097361 original size:44 final size:44
Alignment explanation
Indices: 34097295--34097730 Score: 232
Period size: 44 Copynumber: 9.6 Consensus size: 44
34097285 TGATTTGTAG
* * *
34097295 CTTCAATCTGCTCCACTACAACTTCAGGGAGAGAAGA-TTCCTAC
1 CTTCAATCTACTCCACTGCAACTTCAGGGAGAGAAGACTT-CTAA
* * * *
34097339 CTTCAGTCTACTCCACTGCAACTTCAAGGAGATAAGACTTGTAA
1 CTTCAATCTACTCCACTGCAACTTCAGGGAGAGAAGACTTCTAA
* * ** *
34097383 CTTCAACCTACTCCA-TGCAACTTCAGGGAGATAAGGTTTGTGATTTGAA
1 CTTCAATCTACTCCACTGCAACTTCAGGGAGAGAA-G--ACT--TCT-AA
* * * *
34097432 GCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTACTATA
1 -CTTCAATCTACTCCACTGCAACTTCAGGGAGAGAAGACTT-CTA-A
* * * * * * *
34097479 -TTTAGTCTGCTCCATTGCAATTTCAGGGAGATAAGACTTGTAA
1 CTTCAATCTACTCCACTGCAACTTCAGGGAGAGAAGACTTCTAA
* * * * * * * *
34097522 GTTCAACCTACTCCGCTACAACTTCAGGGAGATAAGGTTTGTGATTTGTAG
1 CTTCAATCTACTCCACTGCAACTTCAGGGAGAGAA-------GACTTCTAA
* * *
34097573 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAA
1 CTTCAATCTACTCCACTGCAACTTCAGGGAGAGAAGACTTCTAA
* * * * *
34097617 CTTCAACCTGCTCCACTGTAACTTCAGGGAGATAAGACTTGTAA
1 CTTCAATCTACTCCACTGCAACTTCAGGGAGAGAAGACTTCTAA
* * * * ** * **
34097661 CTTCAA-CTTGCTCTACCGCAACTTCAGGGAGATAAGGTTTGTGG
1 CTTCAATC-TACTCCACTGCAACTTCAGGGAGAGAAGACTTCTAA
* *
34097705 CTTCAATATACTCTACTGCAACTTCA
1 CTTCAATCTACTCCACTGCAACTTCA
34097731 AGAAGATAAG
Statistics
Matches: 316, Mismatches: 55, Indels: 42
0.77 0.13 0.10
Matches are distributed among these distances:
43 20 0.06
44 182 0.58
45 35 0.11
46 3 0.01
47 2 0.01
48 3 0.01
49 2 0.01
50 14 0.04
51 55 0.17
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (44 bp):
CTTCAATCTACTCCACTGCAACTTCAGGGAGAGAAGACTTCTAA
Found at i:34097374 original size:95 final size:92
Alignment explanation
Indices: 34097255--34097741 Score: 372
Period size: 95 Copynumber: 5.3 Consensus size: 92
34097245 TTTAATATGT
* * * *
34097255 TCCACTGCAACTTCAGGAAAATAAGATTTGTGATTTGTAGCTTCAATCTGCTCCACTACAACTTC
1 TCCACTGCAACTTCAGGGAGATAAGACTTGT-A-TTGTA-CTTCAATCTGCTCCACTGCAACTTC
* * * **
34097320 AGGGAGAGAAGA-TTCCTACCTTCAGTCTAC
63 AGGGAGATAAGACTT-GTAACTTCAACCTAC
* * *
34097350 TCCACTGCAACTTCAAGGAGATAAGACTTGTA----ACTTCAACCTACTCCA-TGCAACTTCAGG
1 TCCACTGCAACTTCAGGGAGATAAGACTTGTATTGTACTTCAATCTGCTCCACTGCAACTTCAGG
** * *
34097410 GAGATAAGGTTTGTGATTTGAAGCTTCAATCTGC
66 GAGATAA-GACT-TG---T-AA-CTTCAACCTAC
* * * * * * *
34097444 TCCACTGCAACTTTAGGGAGATAAGA-TT-TACTATA-TTTAGTCTGCTCCATTGCAATTTCAGG
1 TCCACTGCAACTTCAGGGAGATAAGACTTGTATTGTACTTCAATCTGCTCCACTGCAACTTCAGG
*
34097506 GAGATAAGACTTGTAAGTTCAACCTAC
66 GAGATAAGACTTGTAACTTCAACCTAC
* * **
34097533 TCCGCTACAACTTCAGGGAGATAAGGTTTGTGATTTGTAGCTTCAATCTGCTCCACTGCAACTTC
1 TCCACTGCAACTTCAGGGAGATAAGACTTGT-A-TTGTA-CTTCAATCTGCTCCACTGCAACTTC
*
34097598 AGGGAGATAAGACTTGTAACTTCAACCTGC
63 AGGGAGATAAGACTTGTAACTTCAACCTAC
* * *
34097628 TCCACTGTAACTTCAGGGAGATAAGACTTGTA----ACTTCAA-CTTGCTCTACCGCAACTTCAG
1 TCCACTGCAACTTCAGGGAGATAAGACTTGTATTGTACTTCAATC-TGCTCCACTGCAACTTCAG
** ** **
34097688 GGAGATAAGGTTTGTGGCTTCAATATAC
65 GGAGATAAGACTTGTAACTTCAACCTAC
* * *
34097716 TCTACTGCAACTTCAAGAAGATAAGA
1 TCCACTGCAACTTCAGGGAGATAAGA
34097742 TTTTCCAAGG
Statistics
Matches: 317, Mismatches: 55, Indels: 47
0.76 0.13 0.11
Matches are distributed among these distances:
87 18 0.06
88 80 0.25
89 33 0.10
90 5 0.02
91 2 0.01
92 4 0.01
93 6 0.02
94 37 0.12
95 113 0.36
96 19 0.06
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.30
Consensus pattern (92 bp):
TCCACTGCAACTTCAGGGAGATAAGACTTGTATTGTACTTCAATCTGCTCCACTGCAACTTCAGG
GAGATAAGACTTGTAACTTCAACCTAC
Found at i:34097658 original size:139 final size:138
Alignment explanation
Indices: 34097259--34097703 Score: 608
Period size: 139 Copynumber: 3.2 Consensus size: 138
34097249 ATATGTTCCA
* * * *
34097259 CTGCAACTTCAGGAAAATAAGATTTGTGATTTGTAGCTTCAATCTGCTCCACTACAACTTCAGGG
1 CTGCAACTTCAGGGAGATAAGGTTTGTGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGG
* * * * *
34097324 AGAGAAGATTCCTACCTTCAGTCTACTCCACTGCAACTTCAAGGAGATAAGACTTGTAACTTCAA
66 AGATAAGATTACTAACTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAA
34097389 CCTACTCC
131 CCTACTCC
* * *
34097397 ATGCAACTTCAGGGAGATAAGGTTTGTGATTTGAAGCTTCAATCTGCTCCACTGCAACTTTAGGG
1 CTGCAACTTCAGGGAGATAAGGTTTGTGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGG
* * * *
34097462 AGATAAGATTTACTATA-TTTAGTCTGCTCCATTGCAATTTCAGGGAGATAAGACTTGTAAGTTC
66 AGATAAGA-TTACTA-ACTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTC
34097526 AACCTACTCC
129 AACCTACTCC
*
34097536 GCTACAACTTCAGGGAGATAAGGTTTGTGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGG
1 -CTGCAACTTCAGGGAGATAAGGTTTGTGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGG
* ** *
34097601 GAGATAAGACTT-GTAACTTCAACCTGCTCCACTGTAACTTCAGGGAGATAAGACTTGTAACTTC
65 GAGATAAGA-TTACTAACTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTC
* *
34097665 AACTTGCTCTAC
129 AACCTACTC--C
34097677 C-GCAACTTCAGGGAGATAAGGTTTGTG
1 CTGCAACTTCAGGGAGATAAGGTTTGTG
34097704 GCTTCAATAT
Statistics
Matches: 269, Mismatches: 32, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
138 66 0.25
139 130 0.48
140 72 0.27
141 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.30
Consensus pattern (138 bp):
CTGCAACTTCAGGGAGATAAGGTTTGTGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGG
AGATAAGATTACTAACTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAA
CCTACTCC
Found at i:34097663 original size:23 final size:23
Alignment explanation
Indices: 34097592--34097665 Score: 71
Period size: 23 Copynumber: 3.3 Consensus size: 23
34097582 GCTCCACTGC
34097592 AACTTCAGGGAGATAAGACTTGT
1 AACTTCAGGGAGATAAGACTTGT
**** * **
34097615 AACTTCAACCTGCT-CCAC-TGT
1 AACTTCAGGGAGATAAGACTTGT
34097636 AACTTCAGGGAGATAAGACTTGT
1 AACTTCAGGGAGATAAGACTTGT
34097659 AACTTCA
1 AACTTCA
34097666 ACTTGCTCTA
Statistics
Matches: 35, Mismatches: 14, Indels: 4
0.66 0.26 0.08
Matches are distributed among these distances:
21 12 0.34
22 4 0.11
23 19 0.54
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (23 bp):
AACTTCAGGGAGATAAGACTTGT
Found at i:34097817 original size:94 final size:94
Alignment explanation
Indices: 34097702--34097932 Score: 209
Period size: 94 Copynumber: 2.5 Consensus size: 94
34097692 ATAAGGTTTG
* ** * *
34097702 TGGCTTCAATAT-ACTCTACTGCAACTTCAAGAAGATAAGATTTTCCAAGGTA-ACTTTAATTCG
1 TGGCTTCAAT-TCGCTCTACTGCAACTTCAAGAAGATAAGATTCGCCAAGGTAGA-TTCAATCCG
* * **
34097765 TCCCACTGCAATTTCAGGGGTATAGGATTAA
64 ACCCACTGCAACTTCAAAGGTATAGGATTAA
* ** * * * **
34097796 TGGCTTCAATTCGCTCCACTGCTTCTTTAGGGAGATAAGATTCGCCAAGGTAGATTCGGTCCGAC
1 TGGCTTCAATTCGCTCTACTGCAACTTCAAGAAGATAAGATTCGCCAAGGTAGATTCAATCCGAC
* *
34097861 CGACTGCAACTTCAAAGGTATAGGATTTA
66 CCACTGCAACTTCAAAGGTATAGGATTAA
* *
34097890 TTGCTTTAA-TCTGCTCTACTGCAACTTCAGAGAA-ATAAGATTC
1 TGGCTTCAATTC-GCTCTACTGCAACTTCA-AGAAGATAAGATTC
34097933 TCTATCTTCT
Statistics
Matches: 106, Mismatches: 27, Indels: 8
0.75 0.19 0.06
Matches are distributed among these distances:
93 3 0.03
94 100 0.94
95 3 0.03
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (94 bp):
TGGCTTCAATTCGCTCTACTGCAACTTCAAGAAGATAAGATTCGCCAAGGTAGATTCAATCCGAC
CCACTGCAACTTCAAAGGTATAGGATTAA
Found at i:34097958 original size:45 final size:43
Alignment explanation
Indices: 34097893--34098017 Score: 119
Period size: 44 Copynumber: 2.8 Consensus size: 43
34097883 GGATTTATTG
* * *
34097893 CTTTAATC-TGCTCTACTGCAACTTCAGAGAAATAAGATTCTCTAT
1 CTTTAA-CATGCTCCACTGCAACTTCA-AGAAATAAGACT-TCTAA
* * *
34097938 CTTCT-GCATGCTCCACTGCAACTTCAAGGAGATAAGACTTGTAA
1 CTT-TAACATGCTCCACTGCAACTTCAA-GAAATAAGACTTCTAA
*
34097982 CTTTAACCTGCTCCACTGCAACTTCAAAGAAATAAG
1 CTTTAACATGCTCCACTGCAACTTC-AAGAAATAAG
34098018 GGTAGTGGCT
Statistics
Matches: 66, Mismatches: 9, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
43 1 0.02
44 33 0.50
45 31 0.47
46 1 0.02
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.30
Consensus pattern (43 bp):
CTTTAACATGCTCCACTGCAACTTCAAGAAATAAGACTTCTAA
Found at i:34102087 original size:19 final size:20
Alignment explanation
Indices: 34102063--34102107 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
34102053 TTGTGAATTT
* *
34102063 TAATGCATATG-ATGCAATG
1 TAATGCAGATGTATGAAATG
34102082 TAATGCAGATGTATGAAATG
1 TAATGCAGATGTATGAAATG
34102102 -AATGCA
1 TAATGCA
34102108 AAAAGAGACA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.29
Consensus pattern (20 bp):
TAATGCAGATGTATGAAATG
Found at i:34104064 original size:16 final size:17
Alignment explanation
Indices: 34104039--34104071 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
34104029 TAAAGCAACT
*
34104039 TAAAATAAA-TAAAATG
1 TAAAAAAAATTAAAATG
34104055 TAAAAAAAATTAAAATG
1 TAAAAAAAATTAAAATG
34104072 ATAATAAATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.24
Consensus pattern (17 bp):
TAAAAAAAATTAAAATG
Found at i:34105499 original size:46 final size:46
Alignment explanation
Indices: 34105449--34105621 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
34105439 TGGTTGAGCA
*
34105449 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
34105495 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
34105542 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
34105588 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
34105622 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:34105605 original size:93 final size:93
Alignment explanation
Indices: 34105446--34105616 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
34105436 GGATGGTTGA
* *
34105446 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
34105511 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
34105539 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
34105604 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
34105617 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:34105883 original size:19 final size:20
Alignment explanation
Indices: 34105846--34105883 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
34105836 ATAAGGTGGT
34105846 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
34105866 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
34105884 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:34114743 original size:27 final size:27
Alignment explanation
Indices: 34114694--34114762 Score: 88
Period size: 26 Copynumber: 2.6 Consensus size: 27
34114684 TAAAGTAAAT
*
34114694 AATAAAACAAA-TTAAAATGAATAATA
1 AATAAAACAAATTTAAAATAAATAATA
*
34114720 AATAAAACAAATTTAAAATAAATAATG
1 AATAAAACAAATTTAAAATAAATAATA
* *
34114747 TACAAAAC-AATTTAAA
1 AATAAAACAAATTTAAA
34114763 GTGTATAGTA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
26 19 0.50
27 19 0.50
ACGTcount: A:0.67, C:0.06, G:0.03, T:0.25
Consensus pattern (27 bp):
AATAAAACAAATTTAAAATAAATAATA
Found at i:34116956 original size:25 final size:26
Alignment explanation
Indices: 34116920--34116970 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
34116910 AAAACATGTA
34116920 TAAACCTCTTA-T-AAATTATATTTTC
1 TAAACCTCTTATTCAAA-TATATTTTC
34116945 TAAA-CTCATTATTCAAATATATTTTC
1 TAAACCTC-TTATTCAAATATATTTTC
34116971 ACTCAAACCA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
24 3 0.13
25 7 0.30
26 10 0.43
27 3 0.13
ACGTcount: A:0.37, C:0.16, G:0.00, T:0.47
Consensus pattern (26 bp):
TAAACCTCTTATTCAAATATATTTTC
Found at i:34118135 original size:40 final size:40
Alignment explanation
Indices: 34118063--34118138 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
34118053 GGTCGATATT
*
34118063 ATTCACCGGCAATAACCTGCTAGGCATAAAGCCCGATTAC
1 ATTCACCAGCAATAACCTGCTAGGCATAAAGCCCGATTAC
* * *
34118103 ATTCACCAGCATTAAGCTTGCTAGGC-TGAAGCCCGA
1 ATTCACCAGCAATAA-CCTGCTAGGCATAAAGCCCGA
34118139 ATATCACTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 22 0.71
41 9 0.29
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (40 bp):
ATTCACCAGCAATAACCTGCTAGGCATAAAGCCCGATTAC
Found at i:34119063 original size:23 final size:22
Alignment explanation
Indices: 34119037--34119090 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
34119027 TTAATTTATG
*
34119037 TTATAATATATAC-ATATTATTA
1 TTATAATATA-ACTATAATATTA
* *
34119059 CTTATATTATAACTTTAATATTA
1 -TTATAATATAACTATAATATTA
34119082 TTATAATAT
1 TTATAATAT
34119091 TATTTCCACC
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 10 0.38
23 16 0.62
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.52
Consensus pattern (22 bp):
TTATAATATAACTATAATATTA
Found at i:34119336 original size:14 final size:14
Alignment explanation
Indices: 34119317--34119344 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
34119307 GGTAAACATA
34119317 AAAAAAATATTTTT
1 AAAAAAATATTTTT
34119331 AAAAAAATATTTTT
1 AAAAAAATATTTTT
34119345 CTAACTCGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
AAAAAAATATTTTT
Found at i:34124495 original size:25 final size:26
Alignment explanation
Indices: 34124459--34124509 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
34124449 AAAACATGTA
34124459 TAAACCTCTTA-T-AAATTATATTTTC
1 TAAACCTCTTATTCAAA-TATATTTTC
34124484 TAAA-CTCATTATTCAAATATATTTTC
1 TAAACCTC-TTATTCAAATATATTTTC
34124510 ACTCAAACCA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
24 3 0.13
25 7 0.30
26 10 0.43
27 3 0.13
ACGTcount: A:0.37, C:0.16, G:0.00, T:0.47
Consensus pattern (26 bp):
TAAACCTCTTATTCAAATATATTTTC
Found at i:34127691 original size:100 final size:100
Alignment explanation
Indices: 34127568--34127769 Score: 404
Period size: 100 Copynumber: 2.0 Consensus size: 100
34127558 GAAAAATCAC
34127568 TAAAAATAGTAGGAATGGAATTAAATTGTTAATAAATTATGTAATCGAACCTTGATGAATATATT
1 TAAAAATAGTAGGAATGGAATTAAATTGTTAATAAATTATGTAATCGAACCTTGATGAATATATT
34127633 TTCATAGGAAAGTAACGAAACGATCATATAGATAG
66 TTCATAGGAAAGTAACGAAACGATCATATAGATAG
34127668 TAAAAATAGTAGGAATGGAATTAAATTGTTAATAAATTATGTAATCGAACCTTGATGAATATATT
1 TAAAAATAGTAGGAATGGAATTAAATTGTTAATAAATTATGTAATCGAACCTTGATGAATATATT
34127733 TTCATAGGAAAGTAACGAAACGATCATATAGATAG
66 TTCATAGGAAAGTAACGAAACGATCATATAGATAG
34127768 TA
1 TA
34127770 TATTATGAGA
Statistics
Matches: 102, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
100 102 1.00
ACGTcount: A:0.45, C:0.07, G:0.17, T:0.31
Consensus pattern (100 bp):
TAAAAATAGTAGGAATGGAATTAAATTGTTAATAAATTATGTAATCGAACCTTGATGAATATATT
TTCATAGGAAAGTAACGAAACGATCATATAGATAG
Found at i:34135946 original size:133 final size:133
Alignment explanation
Indices: 34135708--34135972 Score: 521
Period size: 133 Copynumber: 2.0 Consensus size: 133
34135698 CATCTCAAAC
34135708 CACAAATATTCATCAATGGCATAACTTAAAACATTCATCAAAATCAGAAATTCTAGCATGGGTCT
1 CACAAATATTCATCAATGGCATAACTTAAAACATTCATCAAAATCAGAAATTCTAGCATGGGTCT
*
34135773 TGTAGATAACTTAACAACGATCTCAAAAACGTAAAAATTATCAAAAACTGAGCTAATTACATACC
66 TGAAGATAACTTAACAACGATCTCAAAAACGTAAAAATTATCAAAAACTGAGCTAATTACATACC
34135838 TTA
131 TTA
34135841 CACAAATATTCATCAATGGCATAACTTAAAACATTCATCAAAATCAGAAATTCTAGCATGGGTCT
1 CACAAATATTCATCAATGGCATAACTTAAAACATTCATCAAAATCAGAAATTCTAGCATGGGTCT
34135906 TGAAGATAACTTAACAACGATCTCAAAAACGTAAAAATTATCAAAAACTGAGCTAATTACATACC
66 TGAAGATAACTTAACAACGATCTCAAAAACGTAAAAATTATCAAAAACTGAGCTAATTACATACC
34135971 TT
131 TT
34135973 GATTGAGCTT
Statistics
Matches: 131, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
133 131 1.00
ACGTcount: A:0.45, C:0.19, G:0.10, T:0.27
Consensus pattern (133 bp):
CACAAATATTCATCAATGGCATAACTTAAAACATTCATCAAAATCAGAAATTCTAGCATGGGTCT
TGAAGATAACTTAACAACGATCTCAAAAACGTAAAAATTATCAAAAACTGAGCTAATTACATACC
TTA
Found at i:34136103 original size:23 final size:22
Alignment explanation
Indices: 34136077--34136130 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
34136067 TTAATTTATG
*
34136077 TTATAATATATAC-ATATTATTA
1 TTATAATATA-ACTATAATATTA
* *
34136099 CTTATATTATAACTTTAATATTA
1 -TTATAATATAACTATAATATTA
34136122 TTATAATAT
1 TTATAATAT
34136131 TATTTCCACC
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 10 0.38
23 16 0.62
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.52
Consensus pattern (22 bp):
TTATAATATAACTATAATATTA
Found at i:34136378 original size:13 final size:13
Alignment explanation
Indices: 34136360--34136385 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
34136350 TAAACATAGA
34136360 AAAAAAATATTTT
1 AAAAAAATATTTT
34136373 AAAAAAATATTTT
1 AAAAAAATATTTT
34136386 TCTAACTCGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
AAAAAAATATTTT
Done.