Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 173 of 770
Found at i:51633261 original size:44 final size:44
Alignment explanation
Indices: 51633176--51633312 Score: 154
Period size: 46 Copynumber: 3.1 Consensus size: 44
51633166 TACACAAGTT
*
51633176 CTAACATATCT-GT-GCCGATGCCATGTCCCAAACATGGTCTTACA
1 CTAACACATCTCGTAGCCGATG-CATGTCCCAAACAT-GTCTTACA
51633220 CTAACACATCTCGTAGCCGATGCATGTCCCAAACATGTCTTACA
1 CTAACACATCTCGTAGCCGATGCATGTCCCAAACATGTCTTACA
*** * *
51633264 CTGGTTTACGTCTCG-AGGCCGATGCATGTCCCAGACATGTCTTACA
1 CT--AACACATCTCGTA-GCCGATGCATGTCCCAAACATGTCTTACA
51633310 CTA
1 CTA
51633313 GCTTACAATA
Statistics
Matches: 81, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
44 20 0.25
45 17 0.21
46 44 0.54
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.27
Consensus pattern (44 bp):
CTAACACATCTCGTAGCCGATGCATGTCCCAAACATGTCTTACA
Found at i:51639285 original size:40 final size:40
Alignment explanation
Indices: 51639179--51639362 Score: 147
Period size: 40 Copynumber: 4.6 Consensus size: 40
51639169 TGCTGGAAAT
* * * * * **
51639179 TATAACCGGGTTAAGACCCGAAGGCAATGGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
*
51639219 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAT
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * *
51639259 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATC-G
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * * * * *
51639297 TGATATCCGGGTTAAGTCCCGTAGGCCTTGGTGCGGGTTAC
1 T-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * *
51639338 CATATCCGGGCTATGTCCCGAAGGC
1 TATATCCGGGCTAAGACCCGAAGGC
51639363 GTTTGAACGA
Statistics
Matches: 115, Mismatches: 26, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
38 1 0.01
39 29 0.25
40 85 0.74
ACGTcount: A:0.22, C:0.24, G:0.30, T:0.23
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
Found at i:51647386 original size:40 final size:40
Alignment explanation
Indices: 51647280--51647463 Score: 147
Period size: 40 Copynumber: 4.6 Consensus size: 40
51647270 TGCTGGAAAT
* * * * * **
51647280 TATAACCGGGTTAAGACCCGAAGGCAATGGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
*
51647320 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAT
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * *
51647360 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATC-G
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * * * * *
51647398 TGATATCCGGGTTAAGTCCCGTAGGCCTTGGTGCGGGTTAC
1 T-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * *
51647439 CATATCCGGGCTATGTCCCGAAGGC
1 TATATCCGGGCTAAGACCCGAAGGC
51647464 GTTTGAACGA
Statistics
Matches: 115, Mismatches: 26, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
38 1 0.01
39 29 0.25
40 85 0.74
ACGTcount: A:0.22, C:0.24, G:0.30, T:0.23
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
Found at i:51649677 original size:20 final size:20
Alignment explanation
Indices: 51649652--51649701 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
51649642 TTAGGAGCAT
*
51649652 AATATTCACCATCAACATCG
1 AATATTCACCACCAACATCG
51649672 AATATTCACCACCAACATCG
1 AATATTCACCACCAACATCG
*
51649692 AATAATCACC
1 AATATTCACC
51649702 CAAAAACACA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.42, C:0.32, G:0.04, T:0.22
Consensus pattern (20 bp):
AATATTCACCACCAACATCG
Found at i:51650199 original size:40 final size:41
Alignment explanation
Indices: 51650121--51650226 Score: 126
Period size: 40 Copynumber: 2.6 Consensus size: 41
51650111 GAAAAAATCA
* * *
51650121 AATAGATGGAGTTTTAGCGGTGTTTTTAAAAAAACGCCGC-
1 AATAGATCGAGCTTTAGCGGCGTTTTTAAAAAAACGCCGCT
* * *
51650161 AATAGATCGAGCTTTAGCGGCGTTTTTGAACAAGCGCCGCT
1 AATAGATCGAGCTTTAGCGGCGTTTTTAAAAAAACGCCGCT
* *
51650202 AA-AGGTCGACCTTTAGCGGCGTTTT
1 AATAGATCGAGCTTTAGCGGCGTTTT
51650227 ACTAAAACGC
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
40 55 0.96
41 2 0.04
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.29
Consensus pattern (41 bp):
AATAGATCGAGCTTTAGCGGCGTTTTTAAAAAAACGCCGCT
Found at i:51650373 original size:152 final size:154
Alignment explanation
Indices: 51650150--51650515 Score: 398
Period size: 153 Copynumber: 2.4 Consensus size: 154
51650140 GTGTTTTTAA
* * * * * *
51650150 AAAAACGCCGCAATAGATCGAGCTTTAGCGGCGTTTTTGAACAAGCGCCGCTAAAGGTCGACCTT
1 AAAAACGCCGCAACAGATCGAACTTTAGCGGCGTTTTTAAAAAAACGCCGCTAAAGGTCCACCTT
* * *
51650215 TAGCGGCG-TTTTACTAAAACGCAACTAAAA-GTTTAAGCAAGACGACGTCGTTTTACATGAGCT
66 TAGCGGCGTTTTTACAAAAACGCAACTAAAATG-TTAAACAAAACGACGTCGTTTTACATGAGCT
** *
51650278 TC-ATTGGCAGTAGCGGCGTTTTCCC
130 TCAATAAG-AGTAGCGGCGCTTTCCC
* * *
51650303 AAAAACGCCGTAACAGATC-AACTTTAGTGGCGTTTTTAAAAAAACGCCGCTAGAGGTCCACCTT
1 AAAAACGCCGCAACAGATCGAACTTTAGCGGCGTTTTTAAAAAAACGCCGCTAAAGGTCCACCTT
* ** ** *
51650367 TTGCGGCGTTTTTGGAAAAACGCCGCTAAAATGTTAAACAAAACGACGTCGTTTTATATGAGCTT
66 TAGCGGCGTTTTTACAAAAACGCAACTAAAATGTTAAACAAAACGACGTCGTTTTACATGAGCTT
* *
51650432 CAATAAGATTAGCGGCGCTTTCCT
131 CAATAAGAGTAGCGGCGCTTTCCC
* * * * * * * *
51650456 AAAAACGCCGCAATAGCTCGCACTTTAGCAGCATTTTTGTAAAAAATGCCGCTATAGGTC
1 AAAAACGCCGCAACAGATCGAACTTTAGCGGCGTTTTT-AAAAAAACGCCGCTAAAGGTC
51650516 GCATAATTAG
Statistics
Matches: 175, Mismatches: 33, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
152 45 0.26
153 94 0.54
154 18 0.10
155 18 0.10
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.26
Consensus pattern (154 bp):
AAAAACGCCGCAACAGATCGAACTTTAGCGGCGTTTTTAAAAAAACGCCGCTAAAGGTCCACCTT
TAGCGGCGTTTTTACAAAAACGCAACTAAAATGTTAAACAAAACGACGTCGTTTTACATGAGCTT
CAATAAGAGTAGCGGCGCTTTCCC
Found at i:51651287 original size:25 final size:24
Alignment explanation
Indices: 51651237--51651288 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
51651227 TAACTTATTT
**
51651237 TTTAAATGAATTTAAAATTTTCTA
1 TTTAAATGAATTTAAAATTTAATA
* *
51651261 TTTAAACTGATTTTTAAATTTAATA
1 TTTAAA-TGAATTTAAAATTTAATA
51651286 TTT
1 TTT
51651289 TTATAGGTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 6 0.26
25 17 0.74
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.54
Consensus pattern (24 bp):
TTTAAATGAATTTAAAATTTAATA
Found at i:51651355 original size:28 final size:28
Alignment explanation
Indices: 51651304--51651362 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
51651294 GGTTTAAGGG
*
51651304 TTATGATTTAGGGTTGATGATTTATATT
1 TTATGATTTAGGGTTGATGATTTATAAT
*
51651332 TTATGATTTAGGGTTTGA-GGTTTATAAT
1 TTATGATTTAGGG-TTGATGATTTATAAT
51651360 TTA
1 TTA
51651363 AAAGGTTATG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 24 0.86
29 4 0.14
ACGTcount: A:0.25, C:0.00, G:0.22, T:0.53
Consensus pattern (28 bp):
TTATGATTTAGGGTTGATGATTTATAAT
Found at i:51651518 original size:14 final size:14
Alignment explanation
Indices: 51651501--51651530 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
51651491 GTGTTTTAAA
51651501 GTTTATTATTTAGG
1 GTTTATTATTTAGG
*
51651515 GTTTATTATTTTGG
1 GTTTATTATTTAGG
51651529 GT
1 GT
51651531 CTAAGATATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.23, T:0.60
Consensus pattern (14 bp):
GTTTATTATTTAGG
Found at i:51652016 original size:7 final size:7
Alignment explanation
Indices: 51652006--51652052 Score: 76
Period size: 7 Copynumber: 6.7 Consensus size: 7
51651996 TGTGGTTTAT
51652006 GGTTTGG
1 GGTTTGG
51652013 GGTTTGG
1 GGTTTGG
*
51652020 GATTTGG
1 GGTTTGG
51652027 GGTTTGG
1 GGTTTGG
51652034 GGTTTGG
1 GGTTTGG
*
51652041 GGTTTAG
1 GGTTTGG
51652048 GGTTT
1 GGTTT
51652053 AGTGTTTAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
7 37 1.00
ACGTcount: A:0.04, C:0.00, G:0.51, T:0.45
Consensus pattern (7 bp):
GGTTTGG
Found at i:51652016 original size:14 final size:14
Alignment explanation
Indices: 51651994--51652052 Score: 75
Period size: 14 Copynumber: 4.2 Consensus size: 14
51651984 GGGATTGTGT
* *
51651994 TTTGTGGTTTATGG
1 TTTGGGGTTTAGGG
51652008 TTTGGGGTTT-GGG
1 TTTGGGGTTTAGGG
*
51652021 ATTTGGGGTTTGGGG
1 -TTTGGGGTTTAGGG
51652036 TTTGGGGTTTAGGG
1 TTTGGGGTTTAGGG
51652050 TTT
1 TTT
51652053 AGTGTTTAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
13 2 0.05
14 35 0.88
15 3 0.08
ACGTcount: A:0.05, C:0.00, G:0.46, T:0.49
Consensus pattern (14 bp):
TTTGGGGTTTAGGG
Found at i:51652053 original size:7 final size:7
Alignment explanation
Indices: 51651965--51652060 Score: 61
Period size: 7 Copynumber: 13.6 Consensus size: 7
51651955 GTTAAGGAGA
51651965 TTTAGGG
1 TTTAGGG
51651972 TTTTAGGG
1 -TTTAGGG
*
51651980 ATTAGGG
1 TTTAGGG
* *
51651987 ATT-GTG
1 TTTAGGG
*
51651993 TTTTGTGG
1 TTTAG-GG
*
51652001 TTTATGG
1 TTTAGGG
*
51652008 TTTGGGG
1 TTTAGGG
51652015 TTT-GGG
1 TTTAGGG
*
51652021 ATTTGGGG
1 -TTTAGGG
*
51652029 TTTGGGG
1 TTTAGGG
*
51652036 TTTGGGG
1 TTTAGGG
51652043 TTTAGGG
1 TTTAGGG
*
51652050 TTTAGTG
1 TTTAGGG
51652057 TTTA
1 TTTA
51652061 ATTTTGGAAT
Statistics
Matches: 74, Mismatches: 10, Indels: 9
0.80 0.11 0.10
Matches are distributed among these distances:
6 7 0.09
7 53 0.72
8 14 0.19
ACGTcount: A:0.10, C:0.00, G:0.42, T:0.48
Consensus pattern (7 bp):
TTTAGGG
Found at i:51652059 original size:21 final size:21
Alignment explanation
Indices: 51651994--51652052 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
51651984 GGGATTGTGT
* *
51651994 TTTGTGGTTTATGGTTTGGGG
1 TTTGGGGTTTAGGGTTTGGGG
* *
51652015 TTTGGGATTTGGGGTTTGGGG
1 TTTGGGGTTTAGGGTTTGGGG
51652036 TTTGGGGTTTAGGGTTT
1 TTTGGGGTTTAGGGTTT
51652053 AGTGTTTAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.05, C:0.00, G:0.46, T:0.49
Consensus pattern (21 bp):
TTTGGGGTTTAGGGTTTGGGG
Found at i:51653637 original size:24 final size:24
Alignment explanation
Indices: 51653574--51653643 Score: 72
Period size: 24 Copynumber: 2.9 Consensus size: 24
51653564 TTTGTGACTG
*
51653574 TGAAAATCGTATTATAATAATGTTA
1 TGAAAATTGTATTATAAT-ATGTTA
**
51653599 T-ACTATCT-TATTTATAATATGTTA
1 TGAAAAT-TGTA-TTATAATATGTTA
51653623 TGAAAATTGTATTATAATATG
1 TGAAAATTGTATTATAATATG
51653644 CTTTGGTTAG
Statistics
Matches: 36, Mismatches: 5, Indels: 9
0.72 0.10 0.18
Matches are distributed among these distances:
24 23 0.64
25 13 0.36
ACGTcount: A:0.40, C:0.04, G:0.10, T:0.46
Consensus pattern (24 bp):
TGAAAATTGTATTATAATATGTTA
Found at i:51655645 original size:69 final size:70
Alignment explanation
Indices: 51655513--51655645 Score: 205
Period size: 69 Copynumber: 1.9 Consensus size: 70
51655503 GGACTCAGAT
* * *
51655513 ATGGTTCAAATAAGTCACTTACCTTTTAAGTACTAAATTGGACAAAAATCTAAATTTATGTGTTA
1 ATGGTTCAAATAAGTCACTTACCTTTTAAGTACTAAATTGGAAAAAAATCTAAATTCAAGTGTTA
51655578 AGTTC
66 AGTTC
* * *
51655583 ATGGTTCAAATAAGTCATTTACC-TTTAAGTACTTATTTGGAAAAAAATCTAAATTCAAGTGTT
1 ATGGTTCAAATAAGTCACTTACCTTTTAAGTACTAAATTGGAAAAAAATCTAAATTCAAGTGTT
51655646 GATTACTTAA
Statistics
Matches: 57, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
69 35 0.61
70 22 0.39
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.38
Consensus pattern (70 bp):
ATGGTTCAAATAAGTCACTTACCTTTTAAGTACTAAATTGGAAAAAAATCTAAATTCAAGTGTTA
AGTTC
Found at i:51656823 original size:9 final size:9
Alignment explanation
Indices: 51656805--51656921 Score: 108
Period size: 9 Copynumber: 12.3 Consensus size: 9
51656795 TCTTAAAAAA
51656805 TTACATAAC
1 TTACATAAC
*
51656814 TTATATAAC
1 TTACATAAC
* *
51656823 TCATATAAC
1 TTACATAAC
*
51656832 TTACATAAT
1 TTACATAAC
51656841 TTACATAACAAC
1 TTACAT---AAC
51656853 TTACATAAC
1 TTACATAAC
*
51656862 TCACATAAC
1 TTACATAAC
*
51656871 TTACATAAT
1 TTACATAAC
51656880 TTACATAAC
1 TTACATAAC
*
51656889 TCACATAAC
1 TTACATAAC
*
51656898 GTACATAACAAC
1 TTACAT---AAC
51656910 TTACATAAC
1 TTACATAAC
51656919 TTA
1 TTA
51656922 ACTAATACAT
Statistics
Matches: 88, Mismatches: 14, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
9 72 0.82
12 16 0.18
ACGTcount: A:0.45, C:0.21, G:0.01, T:0.32
Consensus pattern (9 bp):
TTACATAAC
Found at i:51656861 original size:39 final size:39
Alignment explanation
Indices: 51656811--51656888 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
51656801 AAAATTACAT
* *
51656811 AACTTATATAACTCATATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
51656850 AACTTACATAACTCACATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
51656889 TCACATAACG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (39 bp):
AACTTACATAACTCACATAACTTACATAATTTACATAAC
Found at i:51656895 original size:57 final size:57
Alignment explanation
Indices: 51656807--51656919 Score: 163
Period size: 57 Copynumber: 2.0 Consensus size: 57
51656797 TTAAAAAATT
* * * **
51656807 ACATAACTTATATAACTCATATAACTTACATAATTTACATAACAACTTACATAACTC
1 ACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACTTACATAACTC
* *
51656864 ACATAACTTACATAATTTACATAACTCACATAACGTACATAACAACTTACATAACT
1 ACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACTTACATAACT
51656920 TAACTAATAC
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
57 49 1.00
ACGTcount: A:0.46, C:0.22, G:0.01, T:0.31
Consensus pattern (57 bp):
ACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACTTACATAACTC
Found at i:51662483 original size:21 final size:21
Alignment explanation
Indices: 51662457--51662504 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
51662447 TCAACTTAGA
* * *
51662457 GCGGAGGCAGCAGTGCGGGAG
1 GCGGAGGCAGCAGCGAGGAAG
*
51662478 GCGGAGGTAGCAGCGAGGAAG
1 GCGGAGGCAGCAGCGAGGAAG
51662499 GCGGAG
1 GCGGAG
51662505 CAGAACAGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.17, G:0.56, T:0.04
Consensus pattern (21 bp):
GCGGAGGCAGCAGCGAGGAAG
Found at i:51664811 original size:16 final size:16
Alignment explanation
Indices: 51664765--51664811 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 16
51664755 AAGTCTATAT
51664765 TAATATTATCTATTTAAA
1 TAATATTA-CT-TTTAAA
*
51664783 TTATATATA-TTTTAAA
1 TAATAT-TACTTTTAAA
51664799 TAATATTACTTTT
1 TAATATTACTTTT
51664812 GTTGTTATCT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
15 2 0.08
16 15 0.60
17 1 0.04
18 5 0.20
19 2 0.08
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.55
Consensus pattern (16 bp):
TAATATTACTTTTAAA
Found at i:51669040 original size:19 final size:20
Alignment explanation
Indices: 51669018--51669067 Score: 75
Period size: 19 Copynumber: 2.5 Consensus size: 20
51669008 CAATTAAAAT
*
51669018 AATTCAAAATAATTT-TTAA
1 AATTCAAAATAATTTATAAA
51669037 AATTCAAAATAATTTATAAA
1 AATTCAAAATAATTTATAAA
51669057 AATTCCAAAAT
1 AATT-CAAAAT
51669068 TTATATTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
19 15 0.54
20 7 0.25
21 6 0.21
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (20 bp):
AATTCAAAATAATTTATAAA
Found at i:51669250 original size:2 final size:2
Alignment explanation
Indices: 51669243--51669276 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
51669233 AAGTTTTCAA
51669243 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
51669277 TCAAATCTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:51670691 original size:22 final size:22
Alignment explanation
Indices: 51670659--51670700 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
51670649 GTGTCGTCGA
*
51670659 GATGTTGACTCT-TTCTCATCAT
1 GATGTTAACTCTATT-TCATCAT
51670681 GATGTTAACTCTATTTCATC
1 GATGTTAACTCTATTTCATC
51670701 CAAAATTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.21, C:0.21, G:0.12, T:0.45
Consensus pattern (22 bp):
GATGTTAACTCTATTTCATCAT
Found at i:51676437 original size:49 final size:49
Alignment explanation
Indices: 51676373--51676733 Score: 225
Period size: 49 Copynumber: 7.6 Consensus size: 49
51676363 ACATCAAAGT
* *
51676373 CGATGTCATGTCCCAGACAGGTCTTACACTAACTTTCATATATCGAGGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTAACTCTCATATATCGAGGC
* * * ** * *
51676422 CGATGCCGTATCCCAGACAAGTCTTACACTGGCTCTCATCTATCG-GTGT
1 CGATGCCATGTCCCAGACAGGTCTTACACTAACTCTCATATATCGAG-GC
* * * *
51676471 CGATACCATGTCCCAGACAGGTCTTACACTGACACTC--A-A-C-AAGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTAACTCTCATATATCGAGGC
* * * *
51676515 TGATGCCATGTCCCAGACAGGTCTTACACTAGCT-TGTATATCTCGAGGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTAACTCT-CATATATCGAGGC
* * * * * * *
51676564 TGATG-CATGTCCCAGACATGTCTTACACTAGCTCTCGT-T-TCAATGT
1 CGATGCCATGTCCCAGACAGGTCTTACACTAACTCTCATATATCGAGGC
* ** * * * * *
51676610 CGATG-CATGTCCCAGACATGTCTTACACTGGCTGGT-ATATCTCAATGT
1 CGATGCCATGTCCCAGACAGGTCTTACACTAACT-CTCATATATCGAGGC
* * * **
51676658 TGATG-CATGTCCCAAACATGTCTTACACTGGCTCTCATA-AT--ATGGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTAACTCTCATATATCGA-GGC
*
51676704 CGATG-CATGTCCCAGACATGTCTTACACTA
1 CGATGCCATGTCCCAGACAGGTCTTACACTA
51676734 GCACACATAT
Statistics
Matches: 253, Mismatches: 45, Indels: 31
0.77 0.14 0.09
Matches are distributed among these distances:
43 1 0.00
44 30 0.12
45 2 0.01
46 66 0.26
47 5 0.02
48 71 0.28
49 78 0.31
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.29
Consensus pattern (49 bp):
CGATGCCATGTCCCAGACAGGTCTTACACTAACTCTCATATATCGAGGC
Found at i:51676588 original size:48 final size:49
Alignment explanation
Indices: 51676513--51676735 Score: 232
Period size: 48 Copynumber: 4.7 Consensus size: 49
51676503 CACTCAACAA
* *
51676513 GCTGATGCCATGTCCCAGACAGGTCTTACACTAGCT-TGTATATCTCGAG
1 GCTGATG-CATGTCCCAGACATGTCTTACACTAGCTCTGTATATCTCAAG
*
51676562 GCTGATGCATGTCCCAGACATGTCTTACACTAGCTCTCG--T-T-TCAAT
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGCTCT-GTATATCTCAAG
* * *
51676608 G-TCGATGCATGTCCCAGACATGTCTTACACTGGCT-GGTATATCTCAAT
1 GCT-GATGCATGTCCCAGACATGTCTTACACTAGCTCTGTATATCTCAAG
* * * * * *
51676656 GTTGATGCATGTCCCAAACATGTCTTACACTGGCTCT-CATA-AT-ATG
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGCTCTGTATATCTCAAG
*
51676702 GCCGATGCATGTCCCAGACATGTCTTACACTAGC
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGC
51676736 ACACATATCA
Statistics
Matches: 150, Mismatches: 15, Indels: 21
0.81 0.08 0.11
Matches are distributed among these distances:
44 1 0.01
45 1 0.01
46 67 0.45
47 3 0.02
48 68 0.45
49 9 0.06
50 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (49 bp):
GCTGATGCATGTCCCAGACATGTCTTACACTAGCTCTGTATATCTCAAG
Found at i:51676638 original size:94 final size:94
Alignment explanation
Indices: 51676516--51676735 Score: 300
Period size: 94 Copynumber: 2.3 Consensus size: 94
51676506 TCAACAAGCT
* * * *
51676516 GATGCCATGTCCCAGACAGGTCTTACACTAGCTTGTATATCTCGAGGCTGATGCATGTCCCAGAC
1 GATG-CATGTCCCAGACATGTCTTACACTAGCTGGTATATCTCAAGGCTGATGCATGTCCCAAAC
* * *
51676581 ATGTCTTACACTAGCTCTCGT-TTCAAT-GTC
65 ATGTCTTACACTAGCTCTCATAAT--ATGGCC
* * *
51676611 GATGCATGTCCCAGACATGTCTTACACTGGCTGGTATATCTCAATGTTGATGCATGTCCCAAACA
1 GATGCATGTCCCAGACATGTCTTACACTAGCTGGTATATCTCAAGGCTGATGCATGTCCCAAACA
*
51676676 TGTCTTACACTGGCTCTCATAATATGGCC
66 TGTCTTACACTAGCTCTCATAATATGGCC
51676705 GATGCATGTCCCAGACATGTCTTACACTAGC
1 GATGCATGTCCCAGACATGTCTTACACTAGC
51676736 ACACATATCA
Statistics
Matches: 111, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
93 2 0.02
94 104 0.94
95 5 0.05
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.30
Consensus pattern (94 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTGGTATATCTCAAGGCTGATGCATGTCCCAAACA
TGTCTTACACTAGCTCTCATAATATGGCC
Found at i:51676667 original size:142 final size:140
Alignment explanation
Indices: 51676374--51676735 Score: 380
Period size: 142 Copynumber: 2.6 Consensus size: 140
51676364 CATCAAAGTC
* * * *
51676374 GATGTCATGTCCCAGACAGGTCTTACACTAACTTTCATATATCGAGGCCGATGCCGTATCCCAGA
1 GATGCCATGTCCCAGACAGGTCTTACACTAGCTTT-ATATATCGAGGCCGATG-CATGTCCCAGA
* * **
51676439 CAAGTCTTACACTGGCTCTCATCTATCGGTGTCGATACCATGTCCCAGACAGGTCTTACACTGAC
64 CATGTCTTACACTAGCTCTCATCTATCAATGTCGATACCATGTCCCAGACAGGTCTTACACTGAC
*
51676504 ACTCAACAAGCT
129 AATCAACAAGCT
* *
51676516 GATGCCATGTCCCAGACAGGTCTTACACTAGCTTGTATATCTCGAGGCTGATGCATGTCCCAGAC
1 GATGCCATGTCCCAGACAGGTCTTACACTAGCTT-TATATATCGAGGCCGATGCATGTCCCAGAC
* * * *
51676581 ATGTCTTACACTAGCTCTCGT-T-TCAATGTCGAT-GCATGTCCCAGACATGTCTTACACTGGCT
65 ATGTCTTACACTAGCTCTCATCTATCAATGTCGATACCATGTCCCAGACAGGTCTTACACTGAC-
* *
51676643 GGTATATC-TCAATGTT
129 ---A-ATCAACAA-GCT
* * * *
51676659 GATG-CATGTCCCAAACATGTCTTACACTGGCTCTCATA-AT--ATGGCCGATGCATGTCCCAGA
1 GATGCCATGTCCCAGACAGGTCTTACACTAGCT-TTATATATCGA-GGCCGATGCATGTCCCAGA
51676720 CATGTCTTACACTAGC
64 CATGTCTTACACTAGC
51676736 ACACATATCA
Statistics
Matches: 188, Mismatches: 23, Indels: 20
0.81 0.10 0.09
Matches are distributed among these distances:
138 25 0.13
139 10 0.05
140 35 0.19
141 29 0.15
142 79 0.42
143 10 0.05
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (140 bp):
GATGCCATGTCCCAGACAGGTCTTACACTAGCTTTATATATCGAGGCCGATGCATGTCCCAGACA
TGTCTTACACTAGCTCTCATCTATCAATGTCGATACCATGTCCCAGACAGGTCTTACACTGACAA
TCAACAAGCT
Found at i:51676744 original size:94 final size:93
Alignment explanation
Indices: 51676477--51676735 Score: 292
Period size: 94 Copynumber: 2.8 Consensus size: 93
51676467 GTGTCGATAC
* * * * * *
51676477 CATGTCCCAGACAGGTCTTACACT-GACACTCA-ACAA-GCTGATGCCATGTCCCAGACAGGTCT
1 CATGTCCCAAACATGTCTTACACTAG-CTCTCATATAATGCCGATG-CATGTCCCAGACATGTCT
* *
51676539 TACACTAGCTTGTATATCTCGAGGCTGATG
64 TACACTAGCTCGTATATCTCAAGGCTGATG
* * * *
51676569 CATGTCCCAGACATGTCTTACACTAGCTCTCGTTTCAATGTCGATGCATGTCCCAGACATGTCTT
1 CATGTCCCAAACATGTCTTACACTAGCTCTCATAT-AATGCCGATGCATGTCCCAGACATGTCTT
* * * *
51676634 ACACTGGCTGGTATATCTCAATGTTGATG
65 ACACTAGCTCGTATATCTCAAGGCTGATG
*
51676663 CATGTCCCAAACATGTCTTACACTGGCTCTCATA-ATATGGCCGATGCATGTCCCAGACATGTCT
1 CATGTCCCAAACATGTCTTACACTAGCTCTCATATA-AT-GCCGATGCATGTCCCAGACATGTCT
51676727 TACACTAGC
64 TACACTAGC
51676736 ACACATATCA
Statistics
Matches: 142, Mismatches: 19, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
92 28 0.20
93 3 0.02
94 106 0.75
95 5 0.04
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.29
Consensus pattern (93 bp):
CATGTCCCAAACATGTCTTACACTAGCTCTCATATAATGCCGATGCATGTCCCAGACATGTCTTA
CACTAGCTCGTATATCTCAAGGCTGATG
Found at i:51679802 original size:26 final size:26
Alignment explanation
Indices: 51679772--51679821 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
51679762 GCGGCAACTT
51679772 TTTTTTTCCAAAATGGTACATACGTA
1 TTTTTTTCCAAAATGGTACATACGTA
* * *
51679798 TTTTTTTCTAGAATGGTATATACG
1 TTTTTTTCCAAAATGGTACATACG
51679822 CAGTATAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.28, C:0.12, G:0.14, T:0.46
Consensus pattern (26 bp):
TTTTTTTCCAAAATGGTACATACGTA
Found at i:51683170 original size:14 final size:14
Alignment explanation
Indices: 51683151--51683179 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
51683141 TAATGTATTT
51683151 AATTTATATTACAA
1 AATTTATATTACAA
51683165 AATTTATATTACAA
1 AATTTATATTACAA
51683179 A
1 A
51683180 GTTTGTTCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (14 bp):
AATTTATATTACAA
Found at i:51683558 original size:33 final size:33
Alignment explanation
Indices: 51683470--51683559 Score: 85
Period size: 33 Copynumber: 2.7 Consensus size: 33
51683460 AACTTGAGCT
* *
51683470 GGGAGAAATGTTGTACTACGGTGGATACGATCC
1 GGGAGAAGTGTTGTACTACAGTGGATACGATCC
* * * * *
51683503 AGGAGGAGTAG-AGTAATGCAGTGGATACGAGT-C
1 GGGAGAAGT-GTTGTACTACAGTGGATACGA-TCC
51683536 GGGAGAAGTGTTGTACTACAGTGG
1 GGGAGAAGTGTTGTACTACAGTGG
51683560 TACTGGACTA
Statistics
Matches: 42, Mismatches: 12, Indels: 6
0.70 0.20 0.10
Matches are distributed among these distances:
32 1 0.02
33 39 0.93
34 2 0.05
ACGTcount: A:0.29, C:0.11, G:0.38, T:0.22
Consensus pattern (33 bp):
GGGAGAAGTGTTGTACTACAGTGGATACGATCC
Found at i:51685707 original size:3 final size:3
Alignment explanation
Indices: 51685699--51685740 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
51685689 GGTTTAAAAT
51685699 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
51685741 TGTCAACTTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:51686405 original size:19 final size:18
Alignment explanation
Indices: 51686372--51686410 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
51686362 TTTTTTTTCC
51686372 TTCTCTTTCTCCTTCCCT
1 TTCTCTTTCTCCTTCCCT
* *
51686390 TTCTCTATTCTGCTTCTCT
1 TTCTCT-TTCTCCTTCCCT
51686409 TT
1 TT
51686411 TTTTTTTCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.03, C:0.36, G:0.03, T:0.59
Consensus pattern (18 bp):
TTCTCTTTCTCCTTCCCT
Found at i:51695231 original size:23 final size:23
Alignment explanation
Indices: 51695205--51695248 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
51695195 CACAAAAATA
* *
51695205 ATTAAATGTTAAATTTCATGTCT
1 ATTAAATGTGAAATTACATGTCT
*
51695228 ATTATATGTGAAATTACATGT
1 ATTAAATGTGAAATTACATGT
51695249 GTGAAATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.36, C:0.07, G:0.11, T:0.45
Consensus pattern (23 bp):
ATTAAATGTGAAATTACATGTCT
Found at i:51698629 original size:26 final size:26
Alignment explanation
Indices: 51698591--51698726 Score: 218
Period size: 26 Copynumber: 5.2 Consensus size: 26
51698581 TGATACAAAT
*
51698591 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
51698617 TGATAATGTGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
51698643 TGATAATGGGTTAGGTAAATGTTTTA
1 TGATAATGGGTTAGGTAAATGTTTCA
**
51698669 TGATAATGTATTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
51698695 TGATAATGGGTTAGGTAAATGTTTTA
1 TGATAATGGGTTAGGTAAATGTTTCA
51698721 TGATAA
1 TGATAA
51698727 GAATTTCATG
Statistics
Matches: 100, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 100 1.00
ACGTcount: A:0.33, C:0.02, G:0.24, T:0.41
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:51698655 original size:52 final size:52
Alignment explanation
Indices: 51698591--51698726 Score: 245
Period size: 52 Copynumber: 2.6 Consensus size: 52
51698581 TGATACAAAT
* * *
51698591 TGATAATAGGTTAGGTAAATGTTTCATGATAATGTGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTTATGATAATGTATTAGGTAAATGTTTCA
51698643 TGATAATGGGTTAGGTAAATGTTTTATGATAATGTATTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTTATGATAATGTATTAGGTAAATGTTTCA
51698695 TGATAATGGGTTAGGTAAATGTTTTATGATAA
1 TGATAATGGGTTAGGTAAATGTTTTATGATAA
51698727 GAATTTCATG
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 81 1.00
ACGTcount: A:0.33, C:0.02, G:0.24, T:0.41
Consensus pattern (52 bp):
TGATAATGGGTTAGGTAAATGTTTTATGATAATGTATTAGGTAAATGTTTCA
Found at i:51703831 original size:58 final size:58
Alignment explanation
Indices: 51703741--51703858 Score: 209
Period size: 58 Copynumber: 2.0 Consensus size: 58
51703731 ATTAATATGT
* *
51703741 TAAATGAAAACTAAAAGGTGCACATGATACCAGGTAAAAATGTAAGAATATATATATA
1 TAAATGAAAACTAAAAGGTGCACATGACACCAGGCAAAAATGTAAGAATATATATATA
*
51703799 TAAATGAAAACTAAAGGGTGCACATGACACCAGGCAAAAATGTAAGAATATATATATA
1 TAAATGAAAACTAAAAGGTGCACATGACACCAGGCAAAAATGTAAGAATATATATATA
51703857 TA
1 TA
51703859 TAAAAGTTTA
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.51, C:0.10, G:0.16, T:0.23
Consensus pattern (58 bp):
TAAATGAAAACTAAAAGGTGCACATGACACCAGGCAAAAATGTAAGAATATATATATA
Found at i:51704108 original size:22 final size:23
Alignment explanation
Indices: 51704073--51704117 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
51704063 TATGATAATG
*
51704073 TTTAAAAATTTTAAAGAAAAATA
1 TTTAAAAATATTAAAGAAAAATA
*
51704096 TTTAAAAA-ATTAAATAAAAATA
1 TTTAAAAATATTAAAGAAAAATA
51704118 AACAACACTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (23 bp):
TTTAAAAATATTAAAGAAAAATA
Found at i:51705166 original size:15 final size:15
Alignment explanation
Indices: 51705121--51705168 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
51705111 TTAAATAATA
51705121 ATTCCAGTCAAATTG
1 ATTCCAGTCAAATTG
* * *
51705136 ATT-CAATTAGATTTG
1 ATTCCAGTCA-AATTG
51705151 ATTCCAGTCAAATTG
1 ATTCCAGTCAAATTG
51705166 ATT
1 ATT
51705169 TAAAGCCTTC
Statistics
Matches: 25, Mismatches: 6, Indels: 4
0.71 0.17 0.11
Matches are distributed among these distances:
14 4 0.16
15 17 0.68
16 4 0.16
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (15 bp):
ATTCCAGTCAAATTG
Found at i:51706616 original size:2 final size:2
Alignment explanation
Indices: 51706609--51706635 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
51706599 CTCAACTTTT
51706609 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
51706636 TTTTTGTGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:51709659 original size:22 final size:21
Alignment explanation
Indices: 51709632--51709672 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
51709622 AAAGAAAGAA
* *
51709632 AACGTGGAAGTTGAGAGAAAAG
1 AACGTGAAAATTGAG-GAAAAG
51709654 AACGTGAAAATTGAGGAAA
1 AACGTGAAAATTGAGGAAA
51709673 GGAAATTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.49, C:0.05, G:0.32, T:0.15
Consensus pattern (21 bp):
AACGTGAAAATTGAGGAAAAG
Found at i:51716237 original size:2 final size:2
Alignment explanation
Indices: 51716230--51716254 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
51716220 AATTGGATGT
51716230 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
51716255 GTGTGTGTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:51716259 original size:2 final size:2
Alignment explanation
Indices: 51716254--51716291 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
51716244 TATATATATA
51716254 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
51716292 AATTGTATAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:51716739 original size:26 final size:26
Alignment explanation
Indices: 51716710--51716774 Score: 76
Period size: 26 Copynumber: 2.5 Consensus size: 26
51716700 GCTCAATAAG
*
51716710 CTTCCTGTTTAAAGGCTCTTCATGAA
1 CTTCCTGTTTAAAAGCTCTTCATGAA
* * **
51716736 CTTCCTGGTTAAAAGTTCTTTGTGAA
1 CTTCCTGTTTAAAAGCTCTTCATGAA
*
51716762 CTTCCTATTTAAA
1 CTTCCTGTTTAAA
51716775 CTCTTATGAG
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.25, C:0.20, G:0.14, T:0.42
Consensus pattern (26 bp):
CTTCCTGTTTAAAAGCTCTTCATGAA
Found at i:51728501 original size:13 final size:13
Alignment explanation
Indices: 51728483--51728519 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
51728473 AGACAGTTAA
*
51728483 ATTTTTGCACAAG
1 ATTTTTACACAAG
51728496 ATTTTTACACAAG
1 ATTTTTACACAAG
51728509 ATTTTTACACA
1 ATTTTTACACA
51728520 TGTCAATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.35, C:0.16, G:0.08, T:0.41
Consensus pattern (13 bp):
ATTTTTACACAAG
Found at i:51732727 original size:48 final size:48
Alignment explanation
Indices: 51732656--51732849 Score: 210
Period size: 50 Copynumber: 3.9 Consensus size: 48
51732646 AGCCGAAGCT
* *
51732656 ATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAC
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAC
* * *
51732704 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCACC
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGA-C-CAAC
** * * *
51732754 ATCTAATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATC-AC
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAC
* * *
51732801 AGTTTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 A----TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC
51732850 TCACAATAGA
Statistics
Matches: 123, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
47 2 0.02
48 40 0.33
49 1 0.01
50 44 0.36
51 36 0.29
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.25
Consensus pattern (48 bp):
ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAC
Found at i:51732832 original size:101 final size:98
Alignment explanation
Indices: 51732668--51732853 Score: 257
Period size: 101 Copynumber: 1.9 Consensus size: 98
51732658 CTGGTACGCA
* * *
51732668 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACATCTGGTACACGTAGTAGCCTGCACTTAG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAACATCGGGTACACATAGTAGCCTGCACTTAG
*
51732733 TACTACACACGTGACCTCACCATCTAATACACG
66 TACTACACACGCGACCTCACCATCTAATACACG
* * *
51732766 TAGTAGCCTGCACTTAGTACTACACACGTGATC-ACAGTTTTCGGGTACGCATAGTAGCCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAACA----TCGGGTACACATAGTAGCCTGCAC
*
51732830 TTAGTACTACACATGCGACCTCAC
62 TTAGTACTACACACGCGACCTCAC
51732854 AATAGATCAT
Statistics
Matches: 76, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
97 3 0.04
98 30 0.39
101 43 0.57
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.25
Consensus pattern (98 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAACATCGGGTACACATAGTAGCCTGCACTTAG
TACTACACACGCGACCTCACCATCTAATACACG
Found at i:51735032 original size:15 final size:15
Alignment explanation
Indices: 51734976--51735040 Score: 73
Period size: 15 Copynumber: 4.4 Consensus size: 15
51734966 TAAAGATAAC
*
51734976 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
51734990 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
*
51735005 GAA-AAACCCAGAATA
1 -AAGAAATCCAGAATA
51735020 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
51735035 AAGAAA
1 AAGAAA
51735041 CCCAAGATAC
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
14 11 0.26
15 29 0.67
16 3 0.07
ACGTcount: A:0.63, C:0.14, G:0.14, T:0.09
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:51735042 original size:30 final size:31
Alignment explanation
Indices: 51734976--51735044 Score: 92
Period size: 30 Copynumber: 2.3 Consensus size: 31
51734966 TAAAGATAAC
*
51734976 AAGAAAACC-GAATAAAGAAATCCAAGATAG
1 AAGAAACCCAGAATAAAGAAATCCAAGATAG
51735006 AA-AAACCCAGAATAAAGAAATCC-AGAATA-
1 AAGAAACCCAGAATAAAGAAATCCAAG-ATAG
51735035 AAGAAACCCA
1 AAGAAACCCA
51735045 AGATACGATA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
29 9 0.26
30 26 0.74
ACGTcount: A:0.61, C:0.17, G:0.13, T:0.09
Consensus pattern (31 bp):
AAGAAACCCAGAATAAAGAAATCCAAGATAG
Found at i:51738122 original size:49 final size:48
Alignment explanation
Indices: 51738050--51738244 Score: 210
Period size: 50 Copynumber: 3.9 Consensus size: 48
51738040 AGCCGAAGCT
* *
51738050 ATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACA
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC-ACA
* * *
51738099 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCACC
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGA-C-CACA
** * * *
51738149 ATCTAATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACA
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCACA
* * * *
51738197 GTTTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 ---ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC
51738245 TCACAATAGA
Statistics
Matches: 123, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
48 3 0.02
49 39 0.32
50 44 0.36
51 37 0.30
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (48 bp):
ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCACA
Found at i:51738235 original size:101 final size:99
Alignment explanation
Indices: 51738062--51738248 Score: 259
Period size: 101 Copynumber: 1.9 Consensus size: 99
51738052 CTGGTACGCA
* * *
51738062 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCTGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAACAATCGGGTACACATAGTAGCCTGCACTTA
*
51738127 GTACTACACACGTGACCTCACCATCTAATACACG
66 GTACTACACACGCGACCTCACCATCTAATACACG
* * * *
51738161 TAGTAGCCTGCACTTAGTACTACACACGTGATC-ACAGTTTTCGGGTACGCATAGTAGCCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAACA---ATCGGGTACACATAGTAGCCTGCAC
*
51738225 TTAGTACTACACATGCGACCTCAC
63 TTAGTACTACACACGCGACCTCAC
51738249 AATAGATCAT
Statistics
Matches: 76, Mismatches: 9, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
98 3 0.04
99 30 0.39
101 43 0.57
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAACAATCGGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCTCACCATCTAATACACG
Found at i:51741397 original size:21 final size:20
Alignment explanation
Indices: 51741370--51741410 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
51741360 GTATTTTTAT
*
51741370 TTTAAAATACAATATAAAAA
1 TTTAAAAAACAATATAAAAA
* *
51741390 TTTAAAAAATAATATGAAAA
1 TTTAAAAAACAATATAAAAA
51741410 T
1 T
51741411 AATAAAATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.32
Consensus pattern (20 bp):
TTTAAAAAACAATATAAAAA
Found at i:51748570 original size:23 final size:22
Alignment explanation
Indices: 51748533--51748592 Score: 88
Period size: 21 Copynumber: 2.8 Consensus size: 22
51748523 ACACATAAAA
*
51748533 TGCCT-AAAACGACACACGAGG
1 TGCCTGAATACGACACACGAGG
51748554 TGCCTG-ATACGACACACGAGG
1 TGCCTGAATACGACACACGAGG
51748575 TGCCTGAAATACGACACA
1 TGCCTG-AATACGACACA
51748593 TAAAGTGCCT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
21 25 0.71
23 10 0.29
ACGTcount: A:0.35, C:0.28, G:0.23, T:0.13
Consensus pattern (22 bp):
TGCCTGAATACGACACACGAGG
Found at i:51748600 original size:23 final size:23
Alignment explanation
Indices: 51748518--51748604 Score: 83
Period size: 21 Copynumber: 4.0 Consensus size: 23
51748508 CCTGATCAGT
* *
51748518 ATACGACACATAAAATGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
51748540 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
51748560 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
51748583 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
51748605 TTAGTAAAGC
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.02
21 33 0.61
22 1 0.02
23 19 0.35
ACGTcount: A:0.39, C:0.25, G:0.21, T:0.15
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:51756826 original size:35 final size:32
Alignment explanation
Indices: 51756787--51756875 Score: 90
Period size: 35 Copynumber: 2.6 Consensus size: 32
51756777 ACTTTACATC
51756787 TAAAAGAATTATTAAAAAAATTATATATAAAAAAT
1 TAAAA-AATTATTAAAAAAA-TATATA-AAAAAAT
51756822 TAAAATAA-TATATAAAAATAATATATAAAAAAAT
1 TAAAA-AATTAT-TAAAAA-AATATATAAAAAAAT
* *
51756856 TATAAAATATATAAAAAAAA
1 TAAAAAAT-TATTAAAAAAA
51756876 CCAACCCTAA
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
33 4 0.09
34 19 0.40
35 22 0.47
36 2 0.04
ACGTcount: A:0.70, C:0.00, G:0.01, T:0.29
Consensus pattern (32 bp):
TAAAAAATTATTAAAAAAATATATAAAAAAAT
Found at i:51756832 original size:20 final size:20
Alignment explanation
Indices: 51756803--51756873 Score: 75
Period size: 19 Copynumber: 3.9 Consensus size: 20
51756793 AATTATTAAA
*
51756803 AAAATTATATATAAAAAATT
1 AAAATAATATATAAAAAATT
51756823 AAAATAATATAT-AAAAA-T
1 AAAATAATATATAAAAAATT
51756841 --AAT-ATATA-AAAAAATT
1 AAAATAATATATAAAAAATT
*
51756857 ATAA-AATATATAAAAAA
1 AAAATAATATATAAAAAA
51756874 AACCAACCCT
Statistics
Matches: 44, Mismatches: 1, Indels: 13
0.76 0.02 0.22
Matches are distributed among these distances:
15 10 0.23
16 4 0.09
18 8 0.18
19 11 0.25
20 11 0.25
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (20 bp):
AAAATAATATATAAAAAATT
Found at i:51756833 original size:22 final size:22
Alignment explanation
Indices: 51756797--51756859 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 22
51756787 TAAAAGAATT
51756797 ATTAAAAAAATTATATATAAAAA
1 ATTAAAAAAATTATATA-AAAAA
*
51756820 ATTAAAATAA-TATATAAAAATAA
1 ATTAAAAAAATTATAT-AAAA-AA
51756843 TATATAAAAAAATTATA
1 -AT-TAAAAAAATTATA
51756860 AAATATATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
22 8 0.24
23 12 0.36
24 2 0.06
25 7 0.21
26 4 0.12
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (22 bp):
ATTAAAAAAATTATATAAAAAA
Found at i:51756846 original size:33 final size:33
Alignment explanation
Indices: 51756802--51756872 Score: 108
Period size: 33 Copynumber: 2.2 Consensus size: 33
51756792 GAATTATTAA
*
51756802 AAAAATTATATAT-AAAAAATTAAAATAATATAT
1 AAAAATAATATATAAAAAAATTAAAA-AATATAT
*
51756835 AAAAATAATATATAAAAAAATTATAAAATATAT
1 AAAAATAATATATAAAAAAATTAAAAAATATAT
51756868 AAAAA
1 AAAAA
51756873 AAACCAACCC
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
33 24 0.69
34 11 0.31
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (33 bp):
AAAAATAATATATAAAAAAATTAAAAAATATAT
Found at i:51756875 original size:13 final size:12
Alignment explanation
Indices: 51756799--51756874 Score: 74
Period size: 13 Copynumber: 6.7 Consensus size: 12
51756789 AAAGAATTAT
51756799 TAAAAAAATTATA
1 TAAAAAAA-TATA
*
51756812 TATAAAAA-AT-
1 TAAAAAAATATA
*
51756822 TAAAATAATATA
1 TAAAAAAATATA
51756834 TAAAAATAATATA
1 TAAAAA-AATATA
51756847 TAAAAAAAT-TA
1 TAAAAAAATATA
51756858 T---AAAATATA
1 TAAAAAAATATA
51756867 TAAAAAAA
1 TAAAAAAA
51756875 ACCAACCCTA
Statistics
Matches: 52, Mismatches: 4, Indels: 15
0.73 0.06 0.21
Matches are distributed among these distances:
8 5 0.10
9 3 0.06
10 6 0.12
11 7 0.13
12 12 0.23
13 19 0.37
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (12 bp):
TAAAAAAATATA
Found at i:51761998 original size:3 final size:3
Alignment explanation
Indices: 51761990--51762035 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
51761980 TAAAAAATCC
51761990 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT- ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
51762036 GTTATGAATA
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 40 0.95
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:51762046 original size:23 final size:23
Alignment explanation
Indices: 51761990--51762035 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
51761980 TAAAAAATCC
51761990 ATAATAATAATAATAATAATAATA
1 ATAATAAT-ATAATAATAATAATA
51762014 ATAATAATATAATAATAATAAT
1 ATAATAATATAATAATAATAAT
51762036 GTTATGAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (23 bp):
ATAATAATATAATAATAATAATA
Found at i:51766830 original size:13 final size:15
Alignment explanation
Indices: 51766802--51766854 Score: 63
Period size: 15 Copynumber: 3.4 Consensus size: 15
51766792 TTATAGAATT
51766802 AAAATTATTTTATAA
1 AAAATTATTTTATAA
51766817 AAAATTATTTTA-AA
1 AAAATTATTTTATAA
*
51766831 ACTAATTAATTTTATTAA
1 A-AAATT-ATTTTA-TAA
51766849 AAAATT
1 AAAATT
51766855 TAGAAACCCC
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
14 3 0.09
15 16 0.50
16 6 0.19
17 4 0.12
18 3 0.09
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
AAAATTATTTTATAA
Found at i:51767296 original size:30 final size:30
Alignment explanation
Indices: 51767237--51767296 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
51767227 TATTTTATTA
*
51767237 TTAATTTTGTTATTATTTTAAAGATATTTG
1 TTAATTTTGTTATTATTTTAAAGACATTTG
* *
51767267 TTAATTTTGTTATTATTTTAGAGGCATTTG
1 TTAATTTTGTTATTATTTTAAAGACATTTG
51767297 CTTGCTAAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.27, C:0.02, G:0.13, T:0.58
Consensus pattern (30 bp):
TTAATTTTGTTATTATTTTAAAGACATTTG
Found at i:51767449 original size:12 final size:12
Alignment explanation
Indices: 51767419--51767451 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
51767409 TATATATTTT
51767419 AAAATT-ATATA
1 AAAATTAATATA
51767430 AAAA-TAATATA
1 AAAATTAATATA
51767441 AAAATTAATAT
1 AAAATTAATAT
51767452 GGGCGGGCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:51768897 original size:24 final size:24
Alignment explanation
Indices: 51768865--51768914 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
51768855 AAATAAGGAG
* *
51768865 AATGGTTATCTAGATTAGAAGCTT
1 AATGGTTATCTAAATCAGAAGCTT
*
51768889 AATGGTTATCTAAATCAGAAGGTT
1 AATGGTTATCTAAATCAGAAGCTT
51768913 AA
1 AA
51768915 CAATGATAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.38, C:0.08, G:0.20, T:0.34
Consensus pattern (24 bp):
AATGGTTATCTAAATCAGAAGCTT
Found at i:51769563 original size:28 final size:29
Alignment explanation
Indices: 51769520--51769591 Score: 110
Period size: 28 Copynumber: 2.5 Consensus size: 29
51769510 TGGTGGACAA
*
51769520 TGCAAGCCAAAGTGACGGATAGTCC-AAG
1 TGCAAGCCAAAATGACGGATAGTCCAAAG
51769548 TGCAAGCCAAAATGACGGATAGTCCAAAG
1 TGCAAGCCAAAATGACGGATAGTCCAAAG
**
51769577 CACAAGCCAAAATGA
1 TGCAAGCCAAAATGA
51769592 TGGACAGTGC
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
28 24 0.60
29 16 0.40
ACGTcount: A:0.42, C:0.22, G:0.24, T:0.12
Consensus pattern (29 bp):
TGCAAGCCAAAATGACGGATAGTCCAAAG
Found at i:51769603 original size:79 final size:79
Alignment explanation
Indices: 51769502--51769683 Score: 213
Period size: 79 Copynumber: 2.3 Consensus size: 79
51769492 GAAAAAGTGT
* * * *
51769502 AAGCC-AAATGGTGGACAATGCAAGCCAAAGTGACGGATAGTCCAAGTGCAAGCCAAAATGACGG
1 AAGCCAAAATGGTGGACAGTGCAAGCCAAAGTGACGGACAATCCAAGTGCAAGCCAAAATGACAG
*
51769566 ATAGTCCAAAGCAC
66 ATAATCCAAAGCAC
* * * * * *
51769580 AAGCCAAAATGATGGACAGTGCAAGCTAAAGTGGCGGACAATCCAAGTGCAAGTCAAATTGCCAG
1 AAGCCAAAATGGTGGACAGTGCAAGCCAAAGTGACGGACAATCCAAGTGCAAGCCAAAATGACAG
* **
51769645 ATAATTCAAAGTGC
66 ATAATCCAAAGCAC
* *
51769659 AAGCCAAAATGGTGGGCAGTCCAAG
1 AAGCCAAAATGGTGGACAGTGCAAG
51769684 AATTTGTAAA
Statistics
Matches: 86, Mismatches: 17, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
78 5 0.06
79 81 0.94
ACGTcount: A:0.39, C:0.20, G:0.26, T:0.15
Consensus pattern (79 bp):
AAGCCAAAATGGTGGACAGTGCAAGCCAAAGTGACGGACAATCCAAGTGCAAGCCAAAATGACAG
ATAATCCAAAGCAC
Found at i:51777341 original size:14 final size:14
Alignment explanation
Indices: 51777322--51777348 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
51777312 ACTCTAGAGC
51777322 TTTTATCCTTGTCA
1 TTTTATCCTTGTCA
51777336 TTTTATCCTTGTC
1 TTTTATCCTTGTC
51777349 CCTTCTCCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.11, C:0.22, G:0.07, T:0.59
Consensus pattern (14 bp):
TTTTATCCTTGTCA
Found at i:51796130 original size:20 final size:19
Alignment explanation
Indices: 51796107--51796148 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 19
51796097 TTATTGCCAT
51796107 CCAATATTTTTGGGCTATTA
1 CCAATA-TTTTGGGCTATTA
51796127 CC-A-ATTTTGGGCTATTA
1 CCAATATTTTGGGCTATTA
*
51796144 GCAAT
1 CCAAT
51796149 TTTAGTCCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 5
0.76 0.04 0.20
Matches are distributed among these distances:
17 14 0.74
18 2 0.11
19 1 0.05
20 2 0.11
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (19 bp):
CCAATATTTTGGGCTATTA
Found at i:51796136 original size:17 final size:17
Alignment explanation
Indices: 51796114--51796151 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
51796104 CATCCAATAT
51796114 TTTTGGGCTATTACCAA
1 TTTTGGGCTATTACCAA
*
51796131 TTTTGGGCTATTAGCAA
1 TTTTGGGCTATTACCAA
51796148 TTTT
1 TTTT
51796152 AGTCCCTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.21, C:0.13, G:0.18, T:0.47
Consensus pattern (17 bp):
TTTTGGGCTATTACCAA
Found at i:51797177 original size:187 final size:187
Alignment explanation
Indices: 51796862--51797234 Score: 647
Period size: 187 Copynumber: 2.0 Consensus size: 187
51796852 TATTATCAGA
*
51796862 ATTCCTATCAATAACAACTCACAATAGGTGAGAATTACACAGTGCATTTATTCACATCACATCCT
1 ATTCCTATCAATAACAACTCACAATAGGTGAGAATTACACAGTGCATTAATTCACATCACATCCT
* *
51796927 CAATCGTCGCATTAATAAGATCTAATCTCAGGTAATCAGATAGTATCATTCATTCGAGTTAATTT
66 CAATCGTCGAATTAATAAGATCTAATCTCAAGTAATCAGATAGTATCATTCATTCGAGTTAATTT
* * * *
51796992 CATAGTTTTGACCGGCTCATGATGCTACTTACACAAGCTACAAAGAATCCGCAACAG
131 CAGAGTTTTGACCGACTCACGATGCTACTCACACAAGCTACAAAGAATCCGCAACAG
* * *
51797049 ATTCCTATCAATAATAACTCACAATAGGTGAGAATTACATAGTGCATTAATTCACATCACATTCT
1 ATTCCTATCAATAACAACTCACAATAGGTGAGAATTACACAGTGCATTAATTCACATCACATCCT
*
51797114 CCATCGTCGAATTAATAAGATCTAATCTCAAGTAATCAGATAGTATCATTCATTCGAGTTAATTT
66 CAATCGTCGAATTAATAAGATCTAATCTCAAGTAATCAGATAGTATCATTCATTCGAGTTAATTT
51797179 CAGAGTTTTGACCGACTCACGATGCTACTCACACAAGCTACAAAGAATCCGCAACA
131 CAGAGTTTTGACCGACTCACGATGCTACTCACACAAGCTACAAAGAATCCGCAACA
51797235 AATGCAGGAT
Statistics
Matches: 175, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
187 175 1.00
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.29
Consensus pattern (187 bp):
ATTCCTATCAATAACAACTCACAATAGGTGAGAATTACACAGTGCATTAATTCACATCACATCCT
CAATCGTCGAATTAATAAGATCTAATCTCAAGTAATCAGATAGTATCATTCATTCGAGTTAATTT
CAGAGTTTTGACCGACTCACGATGCTACTCACACAAGCTACAAAGAATCCGCAACAG
Found at i:51807047 original size:23 final size:22
Alignment explanation
Indices: 51807005--51807048 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
51806995 AATCAATCCA
*
51807005 ATTCAACATATTTTCAAGATAG
1 ATTCAACATATTTACAAGATAG
*
51807027 ATTCATACATATTTACCAGATA
1 ATTCA-ACATATTTACAAGATA
51807049 ACCTCATCAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.41, C:0.16, G:0.07, T:0.36
Consensus pattern (22 bp):
ATTCAACATATTTACAAGATAG
Found at i:51808423 original size:43 final size:43
Alignment explanation
Indices: 51808372--51808525 Score: 170
Period size: 43 Copynumber: 3.6 Consensus size: 43
51808362 GTGTTCTCAA
*
51808372 GTAAGACCATGTCTGGGACGTTGGCATCGATATGTGATTACAT
1 GTAAGACCATGTCTAGGACGTTGGCATCGATATGTGATTACAT
* * * * **
51808415 GTAAGACCATGTCTAGGACATCGACATCG-TATCTGATT-TGT
1 GTAAGACCATGTCTAGGACGTTGGCATCGATATGTGATTACAT
* * *
51808456 GTAAGACCCTATCTAAGACAG-TGGCATCGATATGTGATTACAT
1 GTAAGACCATGTCTAGGAC-GTTGGCATCGATATGTGATTACAT
* *
51808499 GTAAGACCACGTCTGGGACGTTGGCAT
1 GTAAGACCATGTCTAGGACGTTGGCAT
51808526 TGTACGAAAT
Statistics
Matches: 86, Mismatches: 21, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
41 23 0.27
42 17 0.20
43 46 0.53
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (43 bp):
GTAAGACCATGTCTAGGACGTTGGCATCGATATGTGATTACAT
Found at i:51809781 original size:2 final size:2
Alignment explanation
Indices: 51809730--51809763 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
51809720 CTTGCGTGTG
51809730 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
51809764 CTTTTGCACA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:51809820 original size:2 final size:2
Alignment explanation
Indices: 51809815--51809839 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
51809805 TCTCAATGTG
51809815 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
51809840 GATGTGGTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:51817616 original size:26 final size:26
Alignment explanation
Indices: 51817580--51817629 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
51817570 AGTTATTATT
51817580 GTTTTAATAAAAATTGCGCAAGCAGA
1 GTTTTAATAAAAATTGCGCAAGCAGA
*
51817606 GTTTTAATAAAGATTGCGCAAGCA
1 GTTTTAATAAAAATTGCGCAAGCA
51817630 AAATTTCTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.40, C:0.12, G:0.20, T:0.28
Consensus pattern (26 bp):
GTTTTAATAAAAATTGCGCAAGCAGA
Found at i:51826469 original size:71 final size:71
Alignment explanation
Indices: 51826353--51826503 Score: 302
Period size: 71 Copynumber: 2.1 Consensus size: 71
51826343 GCGTGTACTA
51826353 GGCCGTGTGAAACCTGAAGCTAATTTTTTCATTTTTAAAACAAGTTAGAGAGTTACAAGGGCAAG
1 GGCCGTGTGAAACCTGAAGCTAATTTTTTCATTTTTAAAACAAGTTAGAGAGTTACAAGGGCAAG
51826418 GCACAC
66 GCACAC
51826424 GGCCGTGTGAAACCTGAAGCTAATTTTTTCATTTTTAAAACAAGTTAGAGAGTTACAAGGGCAAG
1 GGCCGTGTGAAACCTGAAGCTAATTTTTTCATTTTTAAAACAAGTTAGAGAGTTACAAGGGCAAG
51826489 GCACAC
66 GCACAC
51826495 GGCCGTGTG
1 GGCCGTGTG
51826504 CGAGATATGG
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 80 1.00
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (71 bp):
GGCCGTGTGAAACCTGAAGCTAATTTTTTCATTTTTAAAACAAGTTAGAGAGTTACAAGGGCAAG
GCACAC
Found at i:51827061 original size:3 final size:3
Alignment explanation
Indices: 51827053--51827084 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
51827043 ATTCTTTTCT
51827053 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
51827085 CTTTATTTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:51827997 original size:10 final size:10
Alignment explanation
Indices: 51827958--51827999 Score: 59
Period size: 10 Copynumber: 4.2 Consensus size: 10
51827948 GTTGACAAAG
*
51827958 TGTGTAAAAG
1 TGTGTAAAAT
51827968 TGTGTAAAAT
1 TGTGTAAAAT
51827978 TGTG-ATAAAT
1 TGTGTA-AAAT
51827988 TGTGTAAAAT
1 TGTGTAAAAT
51827998 TG
1 TG
51828000 GTTGACAAGC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 1 0.03
10 27 0.93
11 1 0.03
ACGTcount: A:0.38, C:0.00, G:0.24, T:0.38
Consensus pattern (10 bp):
TGTGTAAAAT
Found at i:51832493 original size:21 final size:22
Alignment explanation
Indices: 51832468--51832508 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
51832458 TTTAAACTCG
*
51832468 TTTTATTTTTATTT-TTTTTAC
1 TTTTATTTCTATTTATTTTTAC
51832489 TTTTATTTCTATTTATTTTT
1 TTTTATTTCTATTTATTTTT
51832509 TAAGATTCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.80
Consensus pattern (22 bp):
TTTTATTTCTATTTATTTTTAC
Found at i:51835405 original size:26 final size:26
Alignment explanation
Indices: 51835376--51835425 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
51835366 GACCAATTCC
*
51835376 TATAAACATTTCACACAACCATTTTG
1 TATAAACAATTCACACAACCATTTTG
* * *
51835402 TATAACCAATTCATATAACCATTT
1 TATAAACAATTCACACAACCATTT
51835426 GTTGTAACAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.40, C:0.22, G:0.02, T:0.36
Consensus pattern (26 bp):
TATAAACAATTCACACAACCATTTTG
Found at i:51836850 original size:40 final size:41
Alignment explanation
Indices: 51836782--51837003 Score: 294
Period size: 40 Copynumber: 5.6 Consensus size: 41
51836772 AACCCAAGTA
* * * *
51836782 CCTTCGGGATTTAG-CCGGATAGAG-CAACTCGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
* ** *
51836821 CCTTCGGGTCTTAGCCCGGATATAG-CAACTCCCACAAATA
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
*
51836861 CCTTCGGGTCTTAGCCCGGATATAGTCAA-TAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
*
51836901 CCTTCGGGACTTGGCCCGGATATAGTC-ACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
* *
51836941 CCTTTGGGACTTAACCCGGATATAGTC-ACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
51836981 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
51837004 CATTCGAATA
Statistics
Matches: 164, Mismatches: 16, Indels: 5
0.89 0.09 0.03
Matches are distributed among these distances:
39 13 0.08
40 148 0.90
41 3 0.02
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.24
Consensus pattern (41 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
Found at i:51840825 original size:40 final size:40
Alignment explanation
Indices: 51840759--51840909 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
51840749 AAATTGAATG
* * *
51840759 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
51840798 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
51840838 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
51840878 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
51840910 ACATGGTTAT
Statistics
Matches: 91, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
39 16 0.18
40 73 0.80
41 2 0.02
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:51840923 original size:40 final size:40
Alignment explanation
Indices: 51840796--51840925 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
51840786 ATGCTGGAAA
* * *
51840796 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * **
51840836 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* *
51840876 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
51840916 TTATATCCGG
1 TTATATCCGG
51840926 TTATATTCCG
Statistics
Matches: 73, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:51855068 original size:31 final size:29
Alignment explanation
Indices: 51854995--51855060 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 29
51854985 TGACGAGATT
* * *
51854995 GGCATTAAGTGTGCATGCTGGAAATATAT
1 GGCACTAAGTGTGCATGCTGGAAAAATAC
51855024 GGCACTAAGTGTGCATGCTGGAAAAAAATAC
1 GGCACTAAGTGTGCATGCTGG--AAAAATAC
51855055 GGCACT
1 GGCACT
51855061 GGGTGTGCGA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
29 20 0.62
31 12 0.38
ACGTcount: A:0.33, C:0.15, G:0.27, T:0.24
Consensus pattern (29 bp):
GGCACTAAGTGTGCATGCTGGAAAAATAC
Found at i:51858430 original size:170 final size:170
Alignment explanation
Indices: 51858173--51858516 Score: 602
Period size: 169 Copynumber: 2.0 Consensus size: 170
51858163 TATGTGTTAT
**
51858173 TTTTGAAAGACAGCCTATGTTATTTGACATGTTCTTAAAAAAAGTTACAATACATACATATTTAT
1 TTTTGAAAGACAGCCTATGTTATTTGACATGTTCTTAAAAAAAAATACAATACATACATATTTAT
51858238 TAGTAGTAATTCATCTTTTTTTTTAGCTGAAGTGATTAATTCCATAATT-TGAGAAGAAGCTCAT
66 TAGTAGTAATTCATC-TTTTTTTTAGCTGAAGTGATTAATTCCAT-ATTCTGAGAAGAAGCTCAT
*
51858302 TTGAATTCAATTGATGATAATTTATTTTTCTAGTTAGGTAA-
129 TTGAATTCAATTGATGATAAGTTATTTTTCTAGTTAGGTAAC
51858343 TTTTGAAAGACAGCCTATGTTATTTGACATGTTCTTAAAAAAAAATACAATACATACATATTTAT
1 TTTTGAAAGACAGCCTATGTTATTTGACATGTTCTTAAAAAAAAATACAATACATACATATTTAT
* *
51858408 TAGTAGTAATTCGTCTTTTTTTTAGCTTAAGTGATTAATTCCATATTCTGAGAAGAAGCTCATTT
66 TAGTAGTAATTCATCTTTTTTTTAGCTGAAGTGATTAATTCCATATTCTGAGAAGAAGCTCATTT
*
51858473 GTATTCAATTGATGATAAGTTATTTTTCTAGTTAGGTAAC
131 GAATTCAATTGATGATAAGTTATTTTTCTAGTTAGGTAAC
51858513 TTTT
1 TTTT
51858517 CAATTCAATC
Statistics
Matches: 166, Mismatches: 6, Indels: 4
0.94 0.03 0.02
Matches are distributed among these distances:
168 3 0.02
169 82 0.49
170 81 0.49
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.43
Consensus pattern (170 bp):
TTTTGAAAGACAGCCTATGTTATTTGACATGTTCTTAAAAAAAAATACAATACATACATATTTAT
TAGTAGTAATTCATCTTTTTTTTAGCTGAAGTGATTAATTCCATATTCTGAGAAGAAGCTCATTT
GAATTCAATTGATGATAAGTTATTTTTCTAGTTAGGTAAC
Found at i:51861151 original size:115 final size:115
Alignment explanation
Indices: 51860949--51861211 Score: 445
Period size: 115 Copynumber: 2.3 Consensus size: 115
51860939 TTAAAAATGA
* * * * *
51860949 GTAAGACCATAGCTAAAAGATGCTGTGGCATCATGATATAAATAAAACCATAACTGAAAGACATT
1 GTAAGACCATAGTTGAAAGATGTTATGGCATCATGATATAAATAAAACCATAACTAAAAGACATT
* *
51861014 GTGGTATCCTTTGATAGTCCATTGAGATAGTAAACACGGAGTTATTTTGT
66 ATGGTATCCTTTGATAGTCCATTGAGATAGCAAACACGGAGTTATTTTGT
*
51861064 GTAAGACCATAATTGAAAGATGTTATGGCATCATGATATAAATAAAACCATAACTAAAAGACATT
1 GTAAGACCATAGTTGAAAGATGTTATGGCATCATGATATAAATAAAACCATAACTAAAAGACATT
*
51861129 ATGGTATCCTTTGATAGTCCATTGAGATGGCAAACACGGAGTTATTTTGT
66 ATGGTATCCTTTGATAGTCCATTGAGATAGCAAACACGGAGTTATTTTGT
51861179 GTAAGACCATAGTTGAAAGATGTTATGGCATCA
1 GTAAGACCATAGTTGAAAGATGTTATGGCATCA
51861212 AGTGATGATT
Statistics
Matches: 138, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
115 138 1.00
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (115 bp):
GTAAGACCATAGTTGAAAGATGTTATGGCATCATGATATAAATAAAACCATAACTAAAAGACATT
ATGGTATCCTTTGATAGTCCATTGAGATAGCAAACACGGAGTTATTTTGT
Found at i:51861304 original size:24 final size:24
Alignment explanation
Indices: 51861272--51861317 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
51861262 TGGTGTCATA
51861272 GATACTCTGCTGAGACATTAATGG
1 GATACTCTGCTGAGACATTAATGG
* *
51861296 GATAGTCTGCTGAGATATTAAT
1 GATACTCTGCTGAGACATTAAT
51861318 CACGGATAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.30, C:0.13, G:0.24, T:0.33
Consensus pattern (24 bp):
GATACTCTGCTGAGACATTAATGG
Found at i:51865987 original size:46 final size:47
Alignment explanation
Indices: 51865881--51865996 Score: 137
Period size: 50 Copynumber: 2.4 Consensus size: 47
51865871 TGTCTTCGAC
** * *
51865881 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATCTAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCC--A-ATATATCTAAT
*
51865931 AT-GAGCTTACATGGCTCATTCCTGTCTCCAAAGCC-ATATATCTGAT
1 ATGGA-CTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
51865977 ATGGACTTACATGGCTCATT
1 ATGGACTTACATGGCTCATT
51865997 TTTGTCCTGT
Statistics
Matches: 59, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
46 27 0.46
47 2 0.03
49 2 0.03
50 28 0.47
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (47 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
Found at i:51873723 original size:46 final size:47
Alignment explanation
Indices: 51873617--51873738 Score: 147
Period size: 46 Copynumber: 2.6 Consensus size: 47
51873607 TGTCTTCGAC
** * *
51873617 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATCTAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCC--A-ATATATCTAAT
* *
51873667 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCC-ATATATCTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
*
51873713 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
51873739 CTGTCCTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
46 34 0.53
50 30 0.47
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (47 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
Found at i:51885540 original size:30 final size:30
Alignment explanation
Indices: 51885504--51885663 Score: 213
Period size: 29 Copynumber: 5.5 Consensus size: 30
51885494 GACAAGATTG
* * * * *
51885504 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
* *
51885534 GCACTAAGTGTGCGAGTTTG---ATTATACA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
51885562 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
51885591 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
51885621 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
51885650 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
51885664 GATTCACTAT
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 23 0.19
29 48 0.40
30 45 0.38
31 2 0.02
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:51885632 original size:59 final size:57
Alignment explanation
Indices: 51885504--51885663 Score: 214
Period size: 59 Copynumber: 2.8 Consensus size: 57
51885494 GACAAGATTG
* * * * * *
51885504 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATACA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATAGCACTAAGTGTGCGAGTCTGATTATACA
*
51885562 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAG-CTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTG---ATTATACA
51885621 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
51885664 GATTCACTAT
Statistics
Matches: 92, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 20 0.22
59 50 0.54
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTGATTATACA
Found at i:51893594 original size:30 final size:30
Alignment explanation
Indices: 51893558--51893717 Score: 213
Period size: 29 Copynumber: 5.5 Consensus size: 30
51893548 GACAAGATTG
* * * * *
51893558 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
* *
51893588 GCACTAAGTGTGCGAGTTTG---ATTATACA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
51893616 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
51893645 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
51893675 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
51893704 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
51893718 GATTCACTAT
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 23 0.19
29 48 0.40
30 45 0.38
31 2 0.02
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:51893686 original size:59 final size:57
Alignment explanation
Indices: 51893558--51893717 Score: 214
Period size: 59 Copynumber: 2.8 Consensus size: 57
51893548 GACAAGATTG
* * * * * *
51893558 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATACA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATAGCACTAAGTGTGCGAGTCTGATTATACA
*
51893616 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAG-CTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTG---ATTATACA
51893675 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
51893718 GATTCACTAT
Statistics
Matches: 92, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 20 0.22
59 50 0.54
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTGATTATACA
Found at i:51895425 original size:80 final size:80
Alignment explanation
Indices: 51895288--51895493 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 80
51895278 AATTGAATGA
* * ** * * *
51895288 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
*
51895353 TTGTGCTAGT-G-AC
66 TTGTGCAAGTCGTAC
* * *
51895366 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGC
* *
51895431 ATTTGTGCAAGTCGTTC
64 AATTGTGCAAGTCGTAC
* *
51895448 TATCCGGGCTAAGA-CCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
51895494 TTGTATTCCG
Statistics
Matches: 108, Mismatches: 16, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
79 29 0.27
80 75 0.69
81 1 0.01
82 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCAAGTCGTAC
Found at i:51895478 original size:39 final size:40
Alignment explanation
Indices: 51895287--51895493 Score: 213
Period size: 40 Copynumber: 5.2 Consensus size: 40
51895277 CAATTGAATG
* * ** * **
51895287 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTT
* * *
51895327 ATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGT-GACT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTCG-TT
* *
51895367 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTT
* * *
51895407 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTT
* * *
51895447 CTATCCGGGCTAAGA-CCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTT
51895486 ATATCCGG
1 ATATCCGG
51895494 TTGTATTCCG
Statistics
Matches: 142, Mismatches: 21, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
39 31 0.22
40 107 0.75
41 4 0.03
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTT
Found at i:51903329 original size:40 final size:40
Alignment explanation
Indices: 51903246--51903427 Score: 167
Period size: 40 Copynumber: 4.6 Consensus size: 40
51903236 ATTGAATGAT
* * * *
51903246 ATCCGGGCTAAGTCCCGAA-G-AATTTATGCTAGTAATTAT
1 ATCCGGGCTAAGACCCGAAGGCAA-TTGTGCTAGTGATTAA
* * *
51903285 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTAA
*
51903325 ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTG-TTAA
1 ATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATTAA
* * * **
51903365 ATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCG-TTCT
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGT-GATTAA
*
51903405 ATCCAGGCTAAGACCCGAAGGCA
1 ATCCGGGCTAAGACCCGAAGGCA
51903428 TTCGTGCATG
Statistics
Matches: 121, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
39 21 0.17
40 94 0.78
41 6 0.05
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTAA
Found at i:51903393 original size:80 final size:80
Alignment explanation
Indices: 51903285--51903450 Score: 219
Period size: 80 Copynumber: 2.1 Consensus size: 80
51903275 TAGTAATTAT
* * *
51903285 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGT-G-ACTACATCCGGGCTAAGACCCGAAGGCA
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTCGTACT--ATCCAGGCTAAGACCCGAAGGCA
*
51903348 TTCGTGCAAGTTGTTAA
64 TTCGTGCAAGTGGTTAA
* * *
51903365 ATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTCTATCCAGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTCGTACTATCCAGGCTAAGACCCGAAGGCATT
* *
51903430 CGTGCATGTGGTTAT
66 CGTGCAAGTGGTTAA
51903445 ATCCGG
1 ATCCGG
51903451 TTGTACTCCG
Statistics
Matches: 75, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
80 72 0.96
81 1 0.01
82 2 0.03
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTCGTACTATCCAGGCTAAGACCCGAAGGCATT
CGTGCAAGTGGTTAA
Found at i:51903428 original size:40 final size:39
Alignment explanation
Indices: 51903284--51903450 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 39
51903274 CTAGTAATTA
* * *
51903284 TATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTG-AC
1 TATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTGTTC
*
51903322 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTA
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAG-TGTTC
* * *
51903364 AATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTC
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTTC
* * *
51903404 TATCCAGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTTC
51903444 TATCCGG
1 TATCCGG
51903451 TTGTACTCCG
Statistics
Matches: 107, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
38 1 0.01
39 4 0.04
40 100 0.93
41 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGTTC
Found at i:51916229 original size:40 final size:40
Alignment explanation
Indices: 51916090--51916232 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
51916080 GCTACTCGTT
*
51916090 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
51916130 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
51916170 CTAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
51916211 CAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
51916233 AAACATCATT
Statistics
Matches: 91, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
39 3 0.03
40 76 0.84
41 12 0.13
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:51921343 original size:71 final size:72
Alignment explanation
Indices: 51921205--51921445 Score: 414
Period size: 71 Copynumber: 3.4 Consensus size: 72
51921195 TGCAAGACCA
*
51921205 TATGGCACTATGTGTGCGGTTTACTATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTGC
1 TATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTGC
51921270 GATTCAC
66 GATTCAC
51921277 TATGGCACTATGTGTGCGATTTACTATGGCACTA-GTGTGCGATTCACTATGGCACTATGTGTGC
1 TATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTGC
51921341 GATTCAC
66 GATTCAC
*
51921348 TATGGCACTATGTGTGCGATTTACTAT-GCACTATGTGTGCGATTTACTATGGCACTATGTGTGC
1 TATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTGC
**
51921412 GATTTGC
66 GATTCAC
* *
51921419 TATAGCACTATGTGTGCGATTTGCTAT
1 TATGGCACTATGTGTGCGATTTACTAT
51921446 AGTCACATTC
Statistics
Matches: 162, Mismatches: 6, Indels: 3
0.95 0.04 0.02
Matches are distributed among these distances:
70 6 0.04
71 123 0.76
72 33 0.20
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.36
Consensus pattern (72 bp):
TATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTGC
GATTCAC
Found at i:51921348 original size:95 final size:95
Alignment explanation
Indices: 51921205--51921439 Score: 409
Period size: 95 Copynumber: 2.5 Consensus size: 95
51921195 TGCAAGACCA
*
51921205 TATGGCACTATGTGTGCGGTTTACTATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTGC
1 TATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTGC
51921270 GATTCACTATGGCACTATGTGTGCGATTTAC
66 GATTCACTAT-GCACTATGTGTGCGATTTAC
*
51921301 TATGGCACTA-GTGTGCGATTCACTATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTGC
1 TATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTGC
*
51921365 GATTTACTATGCACTATGTGTGCGATTTAC
66 GATTCACTATGCACTATGTGTGCGATTTAC
* *
51921395 TATGGCACTATGTGTGCGATTTGCTATAGCACTATGTGTGCGATT
1 TATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATT
51921440 TGCTATAGTC
Statistics
Matches: 132, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
94 30 0.23
95 92 0.70
96 10 0.08
ACGTcount: A:0.20, C:0.18, G:0.26, T:0.36
Consensus pattern (95 bp):
TATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTGC
GATTCACTATGCACTATGTGTGCGATTTAC
Found at i:51921447 original size:24 final size:24
Alignment explanation
Indices: 51921205--51921445 Score: 396
Period size: 24 Copynumber: 10.1 Consensus size: 24
51921195 TGCAAGACCA
*
51921205 TATGGCACTATGTGTGCGGTTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
51921229 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
51921253 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
51921277 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
51921301 TATGGCACTA-GTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
51921324 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
51921348 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
51921372 TAT-GCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
51921395 TATGGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
* *
51921419 TATAGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
51921443 TAT
1 TAT
51921446 AGTCACATTC
Statistics
Matches: 208, Mismatches: 7, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
23 45 0.22
24 163 0.78
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.36
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:51929402 original size:119 final size:120
Alignment explanation
Indices: 51929204--51929439 Score: 402
Period size: 119 Copynumber: 2.0 Consensus size: 120
51929194 TGCAAGACCA
* * *
51929204 TATGGCACTATGTGTGCGGTTTACTATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTGC
1 TATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGATTCACTATAGCACTATGTGTGC
*
51929269 GATTCACTATGGCACTATGTGTGCGATTTACTATGGCACTA-GTGTGCGATTCAC
66 GATTCACTATGGCACTATGTGTGCGATTTACTATAGCACTATGTGTGCGATTCAC
*
51929323 TATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGATTTACTATAGCACTATGTGTGC
1 TATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGATTCACTATAGCACTATGTGTGC
* *
51929388 GATTTACTATGGCACTATGTGTGCGATTTGCTATAGCACTATGTGTGCGATT
66 GATTCACTATGGCACTATGTGTGCGATTTACTATAGCACTATGTGTGCGATT
51929440 TGCTATAGTC
Statistics
Matches: 109, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
119 99 0.91
120 10 0.09
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (120 bp):
TATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGATTCACTATAGCACTATGTGTGC
GATTCACTATGGCACTATGTGTGCGATTTACTATAGCACTATGTGTGCGATTCAC
Found at i:51929447 original size:24 final size:24
Alignment explanation
Indices: 51929204--51929445 Score: 396
Period size: 24 Copynumber: 10.1 Consensus size: 24
51929194 TGCAAGACCA
*
51929204 TATGGCACTATGTGTGCGGTTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
51929228 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
51929252 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
51929276 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
51929300 TATGGCACTA-GTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
51929323 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
51929347 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
51929371 TATAGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
51929395 TATGGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
* *
51929419 TATAGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
51929443 TAT
1 TAT
51929446 AGTCACATTC
Statistics
Matches: 208, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
23 22 0.11
24 186 0.89
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:51939359 original size:50 final size:46
Alignment explanation
Indices: 51939283--51939404 Score: 136
Period size: 46 Copynumber: 2.6 Consensus size: 46
51939273 TGTCTTCGAC
** * *
51939283 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATCTAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCC----ATATATCTAAT
* * *
51939333 ATGGGCTTACATGGCTCATTCTTGTCTCCAAAGCCATATATCTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATCTAAT
*
51939379 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
51939405 CTGTCCTGTC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
46 33 0.53
50 29 0.47
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (46 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATCTAAT
Found at i:51942441 original size:28 final size:27
Alignment explanation
Indices: 51942378--51942447 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
51942368 ATAGTGAGTC
51942378 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
51942405 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
51942433 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
51942448 GTACAAGTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:51948212 original size:40 final size:40
Alignment explanation
Indices: 51948167--51948333 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
51948157 CGGAATATAA
51948167 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
51948207 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
51948247 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * ** *
51948287 CCGGATATAATTTCCAGCA-TAATTTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
51948326 CCGGATAT
1 CCGGATAT
51948334 CATTCAATTT
Statistics
Matches: 104, Mismatches: 22, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
39 23 0.22
40 81 0.78
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:51955420 original size:40 final size:40
Alignment explanation
Indices: 51955375--51955542 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
51955365 CGGAATATAA
51955375 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
51955415 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
51955455 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
51955495 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
51955535 CCGGATAT
1 CCGGATAT
51955543 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:51959266 original size:28 final size:27
Alignment explanation
Indices: 51959203--51959272 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
51959193 ATAGTGAGTC
*
51959203 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAACCAACT
*
51959230 CGCACACTTAGTGCTATATGACCAAACT
1 CGCACACTTAGTGCTATATAACC-AACT
51959258 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
51959273 GTACAAGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 21 0.52
28 19 0.47
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAACCAACT
Found at i:51971906 original size:40 final size:40
Alignment explanation
Indices: 51971840--51972006 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
51971830 AAATTGAATG
* * *
51971840 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
51971879 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
51971919 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
51971959 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
51971999 ATATCCGG
1 ATATCCGG
51972007 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:51974186 original size:48 final size:48
Alignment explanation
Indices: 51974134--51974248 Score: 196
Period size: 47 Copynumber: 2.4 Consensus size: 48
51974124 GTACCTATAC
51974134 CATGGCCCGAAGGCAAATCAAGGTAACTTATATCCGAAGTATTGATAT
1 CATGGCCCGAAGGCAAATCAAGGTAACTTATATCCGAAGTATTGATAT
*
51974182 CATGGCCCGAA-GCAAATCAAGGTAACTTATATCCGCAGTATTGATAT
1 CATGGCCCGAAGGCAAATCAAGGTAACTTATATCCGAAGTATTGATAT
* *
51974229 CATGGCCTGAAGCCAAATCA
1 CATGGCCCGAAGGCAAATCA
51974249 GCCAATATTC
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
47 45 0.71
48 18 0.29
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.23
Consensus pattern (48 bp):
CATGGCCCGAAGGCAAATCAAGGTAACTTATATCCGAAGTATTGATAT
Found at i:51979289 original size:38 final size:38
Alignment explanation
Indices: 51979246--51979405 Score: 198
Period size: 38 Copynumber: 4.2 Consensus size: 38
51979236 CTGAAAGATT
*
51979246 CGCAGGCTAT-ATGCTGGAATTATATCCGGGTTAAATCC
1 CGCAGGCT-TCATGCTGGTATTATATCCGGGTTAAATCC
* *
51979284 CGCAGGCTTCGTGCTGGTATTATATCCAGGTTAAATCC
1 CGCAGGCTTCATGCTGGTATTATATCCGGGTTAAATCC
* * *
51979322 TGAAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCC
1 CGCAGGCTTCATGCTGGTATTATATCCGGGTTAAATCC
* *
51979360 CGCAGGCTT-AGTGCTGGTATTATATTCGAGCTTAAAGTCC
1 CGCAGGCTTCA-TGCTGGTATTATATCCG-GGTTAAA-TCC
51979400 CGCAGG
1 CGCAGG
51979406 TTTTGTGCTA
Statistics
Matches: 107, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
37 1 0.01
38 91 0.85
39 6 0.06
40 9 0.08
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.31
Consensus pattern (38 bp):
CGCAGGCTTCATGCTGGTATTATATCCGGGTTAAATCC
Found at i:51983944 original size:40 final size:40
Alignment explanation
Indices: 51983822--51984029 Score: 186
Period size: 40 Copynumber: 5.2 Consensus size: 40
51983812 CGGAATACAA
* *
51983822 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
* * * * *
51983862 CCAGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
*
51983902 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
* ** * *
51983942 CCGGATGTGGTC-ACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATAT-AACAACTTGCACGAAT-GCCTTCGGGTCTTAGC
* ** * ** * *
51983982 CCGGGTATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
*
51984022 CTGGATAT
1 CCGGATAT
51984030 CATTCAATTG
Statistics
Matches: 136, Mismatches: 28, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
39 3 0.02
40 129 0.95
41 4 0.03
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
Found at i:51983962 original size:80 final size:80
Alignment explanation
Indices: 51983822--51983991 Score: 209
Period size: 80 Copynumber: 2.1 Consensus size: 80
51983812 CGGAATACAA
* *
51983822 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCAGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACATGCACGAATGCCTTCGGGTCTTAGCCCAGATAGAACGACTAGCAC-AATG
*
51983886 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * * * **
51983902 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACATGCACGAATGCCTTCGGGTCTTAGCCCAGAT-AGAACGACTAGCACAATG
*
51983966 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
*
51983982 CCGGGTATAA
1 CCGGATATAA
51983992 TTACTAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
79 3 0.04
80 71 0.93
81 2 0.03
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (80 bp):
CCGGATATAACAACATGCACGAATGCCTTCGGGTCTTAGCCCAGATAGAACGACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:51990687 original size:38 final size:38
Alignment explanation
Indices: 51990638--51990727 Score: 135
Period size: 38 Copynumber: 2.4 Consensus size: 38
51990628 GCAGGCTATA
* * *
51990638 TGCTGGAATTATATCCGGGTTAAATCCCGCACGCTTCG
1 TGCTGGTATTATATCCGGGTTAAATCCCACACGCTTAG
* *
51990676 TGCTGGTATTATATCTGGGTTAAATCCCACAGGCTTAG
1 TGCTGGTATTATATCCGGGTTAAATCCCACACGCTTAG
51990714 TGCTGGTATTATAT
1 TGCTGGTATTATAT
51990728 TCAAACTTAA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 47 1.00
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.34
Consensus pattern (38 bp):
TGCTGGTATTATATCCGGGTTAAATCCCACACGCTTAG
Found at i:51994829 original size:49 final size:49
Alignment explanation
Indices: 51994759--51995164 Score: 719
Period size: 49 Copynumber: 8.3 Consensus size: 49
51994749 CCCTTCGGGA
* *
51994759 CTTATCACAT-T-TATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
* *
51994806 CTTATCACATATATATACACTTTCACATTCTTCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
51994855 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
*
51994904 CTTATCACATATATACACACTTTCACATTCTTCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
51994953 CTTATCACATATATACACA-TTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
*
51995001 CTTATCACATATATACACACTTTCACATTCATCACTTCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
51995050 CTTATCACATATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
51995101 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
51995150 CTTATCACATATATA
1 CTTATCACATATATA
51995165 TATCTCATAC
Statistics
Matches: 346, Mismatches: 8, Indels: 8
0.96 0.02 0.02
Matches are distributed among these distances:
47 10 0.03
48 48 0.14
49 240 0.69
51 48 0.14
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:51995145 original size:197 final size:194
Alignment explanation
Indices: 51994759--51995164 Score: 731
Period size: 197 Copynumber: 2.1 Consensus size: 194
51994749 CCCTTCGGGA
* * *
51994759 CTTATCACATTTATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
51994824 ACTTTCACATTCTTCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCA
*
51994889 CATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCTTCACATCGGCCATTAGGC
131 CATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
51994953 CTTATCACATATATACACATTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
1 CTTATCACATATATACAC-TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
*
51995018 CACTTTCACATTCATCACTTCGGCCATTAGGCCTTATCACATATATATACACACTTTCACATTCA
65 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACACTTTCACATTCA
51995083 TCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAG
128 TCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAG
51995148 GC
193 GC
51995150 CTTATCACATATATA
1 CTTATCACATATATA
51995165 TATCTCATAC
Statistics
Matches: 203, Mismatches: 6, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
194 17 0.08
195 82 0.40
197 104 0.51
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (194 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCA
CATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:51999197 original size:24 final size:24
Alignment explanation
Indices: 51999165--51999251 Score: 165
Period size: 24 Copynumber: 3.6 Consensus size: 24
51999155 AATCTCAAAT
51999165 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
51999189 GCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATG
51999213 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
51999237 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
51999252 ACATAATAAG
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 61 1.00
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.36
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:51999217 original size:48 final size:48
Alignment explanation
Indices: 51999165--51999273 Score: 175
Period size: 48 Copynumber: 2.3 Consensus size: 48
51999155 AATCTCAAAT
** *
51999165 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCG-ATTTACTATA
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATA-A
51999213 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
51999261 GCACTATGTGTGC
1 GCACTATGTGTGC
51999274 AACGTTTGGT
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
48 52 0.91
49 5 0.09
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (48 bp):
GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
Done.