Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168492.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_9, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 25814696
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 122000 characters in sequence are not A, C, G, or T
File 71 of 126
Found at i:14380804 original size:29 final size:28
Alignment explanation
Indices: 14380746--14380804 Score: 66
Period size: 29 Copynumber: 2.0 Consensus size: 28
14380736 TTATATTATA
* *
14380746 TTAATAAAATTATTATTTAATATATTAAT
1 TTAATAAAAATATTA-TTAATATATGAAT
14380775 TTAATAAAAATATTA-TAATTATACTGAAT
1 TTAATAAAAATATTATTAA-TATA-TGAAT
14380804 T
1 T
14380805 AAGATATGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
27 3 0.12
28 4 0.15
29 19 0.73
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (28 bp):
TTAATAAAAATATTATTAATATATGAAT
Found at i:14381274 original size:9 final size:10
Alignment explanation
Indices: 14381241--14381275 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
14381231 TCCCTATTTG
14381241 TTTATTTTCT
1 TTTATTTTCT
*
14381251 TTTGTTTTCT
1 TTTATTTTCT
14381261 TTTATTTT-T
1 TTTATTTTCT
14381270 TTTATT
1 TTTATT
14381276 AGATCAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 7 0.30
10 16 0.70
ACGTcount: A:0.09, C:0.06, G:0.03, T:0.83
Consensus pattern (10 bp):
TTTATTTTCT
Found at i:14384859 original size:78 final size:76
Alignment explanation
Indices: 14384726--14384872 Score: 177
Period size: 78 Copynumber: 1.9 Consensus size: 76
14384716 TATTACAACA
* ** *
14384726 TACATATTTATCATATAAAATTTGTTGATGTAAACATTTATATACGCAACCTTTTTTATTTCGAC
1 TACATATTTATCATATAAAATTTGTTGATATAAACATTTATATAAACAACCTTTTTT-TCT-GAC
14384791 ATGTAAGAAAATT
64 ATGTAAGAAAATT
* * * * ***
14384804 TACATATTTATCATATAAGATTTGTTGATATGAACGTTTATGTAAACAGTTTTTTTTTCTGACAT
1 TACATATTTATCATATAAAATTTGTTGATATAAACATTTATATAAACAACCTTTTTTTCTGACAT
14384869 GTAA
66 GTAA
14384873 AATTTTTTTT
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
76 9 0.16
77 2 0.03
78 47 0.81
ACGTcount: A:0.35, C:0.10, G:0.11, T:0.44
Consensus pattern (76 bp):
TACATATTTATCATATAAAATTTGTTGATATAAACATTTATATAAACAACCTTTTTTTCTGACAT
GTAAGAAAATT
Found at i:14385649 original size:20 final size:21
Alignment explanation
Indices: 14385607--14385649 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 21
14385597 TTTTAAATTA
* *
14385607 ATTTTTTAATAATTTAGATAT
1 ATTTTTTAATAATTTAAAAAT
*
14385628 ATTTTTTAA-ATTTTAAAAAT
1 ATTTTTTAATAATTTAAAAAT
14385648 AT
1 AT
14385650 GAAATGTAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (21 bp):
ATTTTTTAATAATTTAAAAAT
Found at i:14389804 original size:29 final size:28
Alignment explanation
Indices: 14389772--14389942 Score: 123
Period size: 29 Copynumber: 6.0 Consensus size: 28
14389762 AAAGGTTTAA
14389772 GATTTCGATTTTAAGATTTGGAGGTTTGG
1 GATTT-GATTTTAAGATTTGGAGGTTTGG
* **
14389801 GATTTAATTTT-AGAGTTTGGAGGGTTCAG
1 GATTTGATTTTAAGA-TTTGGA-GGTTTGG
* * * *
14389830 GATTTTGATTTTAGGGTTTGTAGGGTTTAAG
1 GA-TTTGATTTTAAGATTTGGA-GGTTT-GG
* * *
14389861 G-TTTTATTTTAGGGTTTGGAGGTTTGG
1 GATTTGATTTTAAGATTTGGAGGTTTGG
* * *
14389888 GATTTAATTTTAAGATTTGAAGGTTTGTA
1 GATTTGATTTTAAGATTTGGAGGTTTG-G
* *
14389917 GTTTTGATTTTAAGGTTTGG-GGTTTG
1 GATTTGATTTTAAGATTTGGAGGTTTG
14389943 ATTTTTGGGT
Statistics
Matches: 115, Mismatches: 20, Indels: 15
0.77 0.13 0.10
Matches are distributed among these distances:
27 5 0.04
28 43 0.37
29 45 0.39
30 18 0.16
31 4 0.03
ACGTcount: A:0.20, C:0.01, G:0.31, T:0.48
Consensus pattern (28 bp):
GATTTGATTTTAAGATTTGGAGGTTTGG
Found at i:14389819 original size:28 final size:28
Alignment explanation
Indices: 14389779--14389914 Score: 116
Period size: 28 Copynumber: 4.8 Consensus size: 28
14389769 TAAGATTTCG
14389779 ATTTTA-AGATTTGGAGGTTTGGGATTTA
1 ATTTTAGAG-TTTGGAGGTTTGGGATTTA
** *
14389807 ATTTTAGAGTTTGGAGGGTTCAGGATTTTG
1 ATTTTAGAGTTTGGA-GGTTTGGGA-TTTA
* * * *
14389837 ATTTTAGGGTTTGTAGGGTTTAAGG-TTTT
1 ATTTTAGAGTTTGGA-GGTTT-GGGATTTA
*
14389866 ATTTTAGGGTTTGGAGGTTTGGGATTTA
1 ATTTTAGAGTTTGGAGGTTTGGGATTTA
*
14389894 ATTTTA-AGATTTGAAGGTTTG
1 ATTTTAGAG-TTTGGAGGTTTG
14389915 TAGTTTTGAT
Statistics
Matches: 90, Mismatches: 12, Indels: 12
0.79 0.11 0.11
Matches are distributed among these distances:
27 3 0.03
28 37 0.41
29 26 0.29
30 21 0.23
31 3 0.03
ACGTcount: A:0.21, C:0.01, G:0.31, T:0.47
Consensus pattern (28 bp):
ATTTTAGAGTTTGGAGGTTTGGGATTTA
Found at i:14389891 original size:87 final size:86
Alignment explanation
Indices: 14389731--14389899 Score: 223
Period size: 87 Copynumber: 2.0 Consensus size: 86
14389721 ATTTTGGGGC
*
14389731 TTGGAGGGTTTAATTTTGATTTTAGGGCTCAAAAGGTTTAAGATTTCGATTTTAAGATTTGGAGG
1 TTGGAGGGTTCAATTTTGATTTTAGGGCTCAAAAGGTTTAAGATTTCGATTTTAAGATTTGGAGG
14389796 TTTGGGATTTAATTTTAGAGT
66 TTTGGGATTTAATTTTAGAGT
* *** * * * * *
14389817 TTGGAGGGTTCAGGATTTTGATTTTAGGGTTTGTAGGGTTTAAGGTTT-TATTTTAGGGTTTGGA
1 TTGGAGGGTTCA--ATTTTGATTTTAGGGCTCAAAAGGTTTAAGATTTCGATTTTAAGATTTGGA
14389881 GGTTTGGGATTTAATTTTA
64 GGTTTGGGATTTAATTTTA
14389900 AGATTTGAAG
Statistics
Matches: 71, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
86 11 0.15
87 32 0.45
88 28 0.39
ACGTcount: A:0.22, C:0.02, G:0.30, T:0.46
Consensus pattern (86 bp):
TTGGAGGGTTCAATTTTGATTTTAGGGCTCAAAAGGTTTAAGATTTCGATTTTAAGATTTGGAGG
TTTGGGATTTAATTTTAGAGT
Found at i:14389941 original size:21 final size:20
Alignment explanation
Indices: 14389901--14389947 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
14389891 TTAATTTTAA
* *
14389901 GATTTGAAGGTTTGTAGTTTT
1 GATTTTAAGGTTTGGAG-TTT
*
14389922 GATTTTAAGGTTTGGGGTTT
1 GATTTTAAGGTTTGGAGTTT
14389942 GATTTT
1 GATTTT
14389948 TGGGTTTCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 9 0.39
21 14 0.61
ACGTcount: A:0.17, C:0.00, G:0.30, T:0.53
Consensus pattern (20 bp):
GATTTTAAGGTTTGGAGTTT
Found at i:14390344 original size:20 final size:20
Alignment explanation
Indices: 14390316--14390354 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
14390306 AATCATTTGA
*
14390316 ATTTTATTATTGTTATTGTC
1 ATTTAATTATTGTTATTGTC
14390336 ATTTAATTATTGTTATTGT
1 ATTTAATTATTGTTATTGT
14390355 TAATTATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.23, C:0.03, G:0.10, T:0.64
Consensus pattern (20 bp):
ATTTAATTATTGTTATTGTC
Found at i:14391893 original size:22 final size:22
Alignment explanation
Indices: 14391868--14391923 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 22
14391858 TGCCCGAATG
14391868 TCTTA-AAATTCATG-TCCGGAGA
1 TCTTACAAA-TCATGCT-CGGAGA
*
14391890 TCTTACAAATCATGCTTGGAGA
1 TCTTACAAATCATGCTCGGAGA
14391912 TCTTACAGAATC
1 TCTTACA-AATC
14391924 GATTGGGATA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
22 22 0.73
23 8 0.27
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (22 bp):
TCTTACAAATCATGCTCGGAGA
Found at i:14392615 original size:41 final size:41
Alignment explanation
Indices: 14392554--14392662 Score: 128
Period size: 41 Copynumber: 2.7 Consensus size: 41
14392544 ATCTGAAGAA
* * * **
14392554 GGTTCCTTCTAAATAAAGGCTTTGAAATCTTGATTGAAATT
1 GGTTCCTTTTAAATAAAGGCTTTAAAATCTTAATTGAAAAC
*
14392595 GGTTCCTTTTAAATAGAGGCTTTAAAATCTTAATTGAAAAC
1 GGTTCCTTTTAAATAAAGGCTTTAAAATCTTAATTGAAAAC
* * **
14392636 GGTTCCTCTTAAACAAAGATTTTAAAA
1 GGTTCCTTTTAAATAAAGGCTTTAAAA
14392663 CTTTAAAAAC
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 57 1.00
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.37
Consensus pattern (41 bp):
GGTTCCTTTTAAATAAAGGCTTTAAAATCTTAATTGAAAAC
Found at i:14394510 original size:18 final size:17
Alignment explanation
Indices: 14394487--14394528 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
14394477 TTTTTGTTTG
*
14394487 TTTTTTTTTC-TTTTTA
1 TTTTTTTTGCTTTTTTA
14394503 CTTTTTTTTGCTTTTTTA
1 -TTTTTTTTGCTTTTTTA
14394521 TTTTTTTT
1 TTTTTTTT
14394529 ATATTTTTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 17 0.74
18 6 0.26
ACGTcount: A:0.05, C:0.07, G:0.02, T:0.86
Consensus pattern (17 bp):
TTTTTTTTGCTTTTTTA
Found at i:14394517 original size:27 final size:26
Alignment explanation
Indices: 14394476--14394538 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 26
14394466 GAAGATGTCC
14394476 CTTTTTGTTTGTTTTTT-TTTCTTTTTA
1 CTTTTT-TTTGTTTTTTATTT-TTTTTA
14394503 CTTTTTTTTGCTTTTTTATTTTTTTTA
1 CTTTTTTTTG-TTTTTTATTTTTTTTA
*
14394530 -TATTTTTTG
1 CTTTTTTTTG
14394539 GTGATGCCCC
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
26 12 0.36
27 18 0.55
28 3 0.09
ACGTcount: A:0.06, C:0.06, G:0.06, T:0.81
Consensus pattern (26 bp):
CTTTTTTTTGTTTTTTATTTTTTTTA
Found at i:14401251 original size:28 final size:28
Alignment explanation
Indices: 14401220--14401273 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
14401210 CAGATTTTGG
* * *
14401220 GGTTTAGGTTTTTTATTTTAAGGTTTTA
1 GGTTGAGGGTTTTGATTTTAAGGTTTTA
*
14401248 GGTTGAGGGTTTTGATTTTAGGGTTT
1 GGTTGAGGGTTTTGATTTTAAGGTTT
14401274 AAAGAATTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.15, C:0.00, G:0.30, T:0.56
Consensus pattern (28 bp):
GGTTGAGGGTTTTGATTTTAAGGTTTTA
Found at i:14401324 original size:58 final size:58
Alignment explanation
Indices: 14401257--14401366 Score: 150
Period size: 58 Copynumber: 1.9 Consensus size: 58
14401247 AGGTTGAGGG
* * *
14401257 TTTTGATTTTAGGG-TTTAAAGAATTTAAAGCTTCAATTTTGGGGTTTGGAGGGTTTAA
1 TTTTGATTTTAGGGCTTGAAAG-ATTTAAAGCTTCAATTTTAGGATTTGGAGGGTTTAA
* * *
14401315 TTTTGATTTTAGGGCTTGAAAGATTTAAGGTTTCGATTTTAGGATTTGGAGG
1 TTTTGATTTTAGGGCTTGAAAGATTTAAAGCTTCAATTTTAGGATTTGGAGG
14401367 TTTGGGGTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
58 39 0.87
59 6 0.13
ACGTcount: A:0.25, C:0.04, G:0.27, T:0.45
Consensus pattern (58 bp):
TTTTGATTTTAGGGCTTGAAAGATTTAAAGCTTCAATTTTAGGATTTGGAGGGTTTAA
Found at i:14401390 original size:28 final size:28
Alignment explanation
Indices: 14401350--14401485 Score: 105
Period size: 28 Copynumber: 4.8 Consensus size: 28
14401340 TAAGGTTTCG
14401350 ATTTTAG-GATTTGGAGGTTTGGGGTTTA
1 ATTTTAGAG-TTTGGAGGTTTGGGGTTTA
* ** *
14401378 ATTTTAGAGTTTGGAAGGTTCAGGATTTTG
1 ATTTTAGAGTTTGG-AGGTT-TGGGGTTTA
* * ** *
14401408 ATTTTAGGGTTTTGAGTGTTTAAGGTTTT
1 ATTTTAGAGTTTGGAG-GTTTGGGGTTTA
*
14401437 ATTTTA-AGGTTTGGAGGTTTGGGATTTA
1 ATTTTAGA-GTTTGGAGGTTTGGGGTTTA
* *
14401465 ATTTTAGGGTTTGAAGGTTTG
1 ATTTTAGAGTTTGGAGGTTTG
14401486 AAGTTTTGAT
Statistics
Matches: 82, Mismatches: 20, Indels: 12
0.72 0.18 0.11
Matches are distributed among these distances:
28 38 0.46
29 24 0.29
30 20 0.24
ACGTcount: A:0.20, C:0.01, G:0.32, T:0.48
Consensus pattern (28 bp):
ATTTTAGAGTTTGGAGGTTTGGGGTTTA
Found at i:14401465 original size:87 final size:87
Alignment explanation
Indices: 14401313--14401505 Score: 241
Period size: 87 Copynumber: 2.2 Consensus size: 87
14401303 TGGAGGGTTT
* *
14401313 AATTTTGATTTTAGGG-CTTGAAAGATTTAAGGTTTCGATTTTAGGATTTGGAGGTTTGGGGTTT
1 AATTTTGATTTTAGGGTTTTGAAAGATTTAAGGTTTCGATTTTAGGATTTGGAGGTTTGGGATTT
14401377 AATTTTAGAGTTTGGAAGGTTCAG
66 AATTTTAGAGTTT-GAAGGTT-AG
* ** *
14401401 GATTTTGATTTTAGGGTTTTGAGTG-TTTAAGGTTT-TATTTTAAGG-TTTGGAGGTTTGGGATT
1 AATTTTGATTTTAGGGTTTTGAAAGATTTAAGGTTTCGATTTT-AGGATTTGGAGGTTTGGGATT
* *
14401463 TAATTTTAGGGTTTGAAGGTTTG
65 TAATTTTAGAGTTTGAAGGTTAG
*
14401486 AAGTTTTGATTTTAAGGTTT
1 AA-TTTTGATTTTAGGGTTT
14401506 GGGTTTTGGG
Statistics
Matches: 92, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
85 2 0.02
86 23 0.25
87 34 0.37
88 28 0.30
89 5 0.05
ACGTcount: A:0.22, C:0.02, G:0.29, T:0.48
Consensus pattern (87 bp):
AATTTTGATTTTAGGGTTTTGAAAGATTTAAGGTTTCGATTTTAGGATTTGGAGGTTTGGGATTT
AATTTTAGAGTTTGAAGGTTAG
Found at i:14401498 original size:57 final size:55
Alignment explanation
Indices: 14401350--14401534 Score: 169
Period size: 57 Copynumber: 3.2 Consensus size: 55
14401340 TAAGGTTTCG
* ** * ** *
14401350 ATTTTAGGATTTGGAGGTTTGGGGTTTAATTTT-AGAGTTTGGAAGGTTCAGGATTTTG
1 ATTTTAGGGTTT-GAGGTTTGAAGTTTTATTTTAAG-GTTTGG-AGGTTTGGGA-TTTA
14401408 ATTTTAGGGTTTTGAGTGTTT-AAGGTTTTATTTTAAGGTTTGGAGGTTTGGGATTTA
1 ATTTTAGGG-TTTGAG-GTTTGAA-GTTTTATTTTAAGGTTTGGAGGTTTGGGATTTA
* *
14401465 ATTTTAGGGTTTGAAGGTTTGAAGTTTTGATTTTAAGGTTTGG-GTTTTGGGTTTTGA
1 ATTTTAGGGTTTG-AGGTTTGAAGTTTT-ATTTTAAGGTTTGGAGGTTTGGGATTT-A
*
14401522 AATTTAGGGTTTG
1 ATTTTAGGGTTTG
14401535 GATTTTAGCG
Statistics
Matches: 109, Mismatches: 10, Indels: 17
0.80 0.07 0.12
Matches are distributed among these distances:
56 23 0.21
57 43 0.39
58 19 0.17
59 22 0.20
60 2 0.02
ACGTcount: A:0.19, C:0.01, G:0.31, T:0.49
Consensus pattern (55 bp):
ATTTTAGGGTTTGAGGTTTGAAGTTTTATTTTAAGGTTTGGAGGTTTGGGATTTA
Found at i:14401519 original size:21 final size:22
Alignment explanation
Indices: 14401466--14401519 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
14401456 TGGGATTTAA
*
14401466 TTTTAGGGTTTGAAGGTTTGAAG
1 TTTT-GGGTTTTAAGGTTTGAAG
* *
14401489 TTTT-GATTTTAAGGTTTG-GG
1 TTTTGGGTTTTAAGGTTTGAAG
14401509 TTTTGGGTTTT
1 TTTTGGGTTTT
14401520 GAAATTTAGG
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
20 5 0.19
21 17 0.65
23 4 0.15
ACGTcount: A:0.15, C:0.00, G:0.31, T:0.54
Consensus pattern (22 bp):
TTTTGGGTTTTAAGGTTTGAAG
Found at i:14401532 original size:28 final size:28
Alignment explanation
Indices: 14401437--14401540 Score: 88
Period size: 28 Copynumber: 3.7 Consensus size: 28
14401427 TTAAGGTTTT
* *
14401437 ATTTTAAGGTTTGGAGGTTTGGGATTT-A
1 ATTTTAAGGTTTGG-GTTTTGGGTTTTGA
* *
14401465 ATTTTAGGGTTTGAAGG-TTTGAAGTTTTG-
1 ATTTTAAGGTTTG--GGTTTTG-GGTTTTGA
14401494 ATTTTAAGGTTTGGGTTTTGGGTTTTGA
1 ATTTTAAGGTTTGGGTTTTGGGTTTTGA
* * *
14401522 AATTTAGGGTTTGGATTTT
1 ATTTTAAGGTTTGGGTTTT
14401541 AGCGTTTAAA
Statistics
Matches: 62, Mismatches: 8, Indels: 12
0.76 0.10 0.15
Matches are distributed among these distances:
27 8 0.13
28 36 0.58
29 17 0.27
30 1 0.02
ACGTcount: A:0.19, C:0.00, G:0.31, T:0.50
Consensus pattern (28 bp):
ATTTTAAGGTTTGGGTTTTGGGTTTTGA
Found at i:14401914 original size:9 final size:9
Alignment explanation
Indices: 14401896--14401941 Score: 56
Period size: 9 Copynumber: 5.1 Consensus size: 9
14401886 TCATTTTAGT
14401896 ATAATATTA
1 ATAATATTA
*
14401905 ATAATTTTA
1 ATAATATTA
*
14401914 ATAATAATA
1 ATAATATTA
*
14401923 ATAATAATA
1 ATAATATTA
*
14401932 ATAATTTTA
1 ATAATATTA
14401941 A
1 A
14401942 AAAAATTATT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (9 bp):
ATAATATTA
Found at i:14401918 original size:3 final size:3
Alignment explanation
Indices: 14401896--14401936 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
14401886 TCATTTTAGT
* * *
14401896 ATA ATA TTA ATA ATT TTA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
14401937 TTTAAAAAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (3 bp):
ATA
Found at i:14401970 original size:7 final size:7
Alignment explanation
Indices: 14401958--14402007 Score: 50
Period size: 7 Copynumber: 7.1 Consensus size: 7
14401948 TATTTATTCT
14401958 ATAAAAA
1 ATAAAAA
14401965 ATAAAAA
1 ATAAAAA
14401972 ATAAATAA
1 ATAAA-AA
*
14401980 AGAAACAA
1 ATAAA-AA
*
14401988 A-AAAAC
1 ATAAAAA
14401994 A-AAAAA
1 ATAAAAA
14402000 ATAAAAA
1 ATAAAAA
14402007 A
1 A
14402008 CAGAAAAACA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
6 7 0.19
7 21 0.57
8 9 0.24
ACGTcount: A:0.84, C:0.04, G:0.02, T:0.10
Consensus pattern (7 bp):
ATAAAAA
Found at i:14402014 original size:16 final size:16
Alignment explanation
Indices: 14401967--14402015 Score: 52
Period size: 14 Copynumber: 3.3 Consensus size: 16
14401957 TATAAAAAAT
*
14401967 AAAAAATAAATAA-AG
1 AAAAAATAAAAAACAG
*
14401982 -AAACA-AAAAAACA-
1 AAAAAATAAAAAACAG
14401995 AAAAAATAAAAAACAG
1 AAAAAATAAAAAACAG
14402011 AAAAA
1 AAAAA
14402016 CAGAAAGTAG
Statistics
Matches: 27, Mismatches: 3, Indels: 7
0.73 0.08 0.19
Matches are distributed among these distances:
13 5 0.19
14 9 0.33
15 8 0.30
16 5 0.19
ACGTcount: A:0.84, C:0.06, G:0.04, T:0.06
Consensus pattern (16 bp):
AAAAAATAAAAAACAG
Found at i:14402014 original size:23 final size:25
Alignment explanation
Indices: 14401960--14402017 Score: 75
Period size: 23 Copynumber: 2.4 Consensus size: 25
14401950 TTTATTCTAT
*
14401960 AAAAAATAAAAAATAAATAAAGAAAC
1 AAAAAA-ACAAAATAAATAAAGAAAC
14401986 AAAAAAACAAAA-AAATAAA-AAAC
1 AAAAAAACAAAATAAATAAAGAAAC
*
14402009 AGAAAAACA
1 AAAAAAACA
14402018 GAAAGTAGGG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
23 12 0.40
24 7 0.23
25 5 0.17
26 6 0.20
ACGTcount: A:0.83, C:0.07, G:0.03, T:0.07
Consensus pattern (25 bp):
AAAAAAACAAAATAAATAAAGAAAC
Found at i:14402144 original size:11 final size:11
Alignment explanation
Indices: 14402115--14402147 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
14402105 CTTTGACCAG
14402115 CCTACAGCCAC
1 CCTACAGCCAC
14402126 CCTA-AGCCAC
1 CCTACAGCCAC
14402136 CCTACAGCCAC
1 CCTACAGCCAC
14402147 C
1 C
14402148 TTGGAGTTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.48
11 11 0.52
ACGTcount: A:0.27, C:0.55, G:0.09, T:0.09
Consensus pattern (11 bp):
CCTACAGCCAC
Found at i:14403476 original size:16 final size:16
Alignment explanation
Indices: 14403456--14403624 Score: 151
Period size: 17 Copynumber: 10.2 Consensus size: 16
14403446 CTAGGTTTCT
*
14403456 AAAACCCCTGAAATCC
1 AAAACCCCTAAAATCC
* *
14403472 GAAACTCCTAAAATCC
1 AAAACCCCTAAAATCC
* * *
14403488 TAAACCCCAAAAAATTC
1 AAAACCCC-TAAAATCC
* *
14403505 AAAATCCCTTAAATCC
1 AAAACCCCTAAAATCC
14403521 -AAACCCCTAAAAATCC
1 AAAACCCCT-AAAATCC
* *
14403537 AAAACCTCTTAAAATTC
1 AAAACC-CCTAAAATCC
*
14403554 GAAACCCCTAAAAATCC
1 AAAACCCCT-AAAATCC
*
14403571 AAAACCCCTTAAAATCT
1 AAAACCCC-TAAAATCC
* *
14403588 GAAACCCCTAAAATCT
1 AAAACCCCTAAAATCC
14403604 AAAACCCCCTAAAATCC
1 AAAA-CCCCTAAAATCC
14403621 AAAA
1 AAAA
14403625 TTCCAAACCT
Statistics
Matches: 122, Mismatches: 24, Indels: 13
0.77 0.15 0.08
Matches are distributed among these distances:
15 7 0.06
16 43 0.35
17 69 0.57
18 3 0.02
ACGTcount: A:0.48, C:0.32, G:0.02, T:0.18
Consensus pattern (16 bp):
AAAACCCCTAAAATCC
Found at i:14403662 original size:7 final size:7
Alignment explanation
Indices: 14403650--14403684 Score: 52
Period size: 7 Copynumber: 4.7 Consensus size: 7
14403640 CTCTTAAACC
14403650 CCAAAAT
1 CCAAAAT
14403657 CCAAAAT
1 CCAAAAT
14403664 CCAAAATCT
1 CCAAAA--T
14403673 CCAAAAT
1 CCAAAAT
14403680 CCAAA
1 CCAAA
14403685 CCCTTAAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
7 19 0.73
9 7 0.27
ACGTcount: A:0.54, C:0.31, G:0.00, T:0.14
Consensus pattern (7 bp):
CCAAAAT
Found at i:14403693 original size:23 final size:24
Alignment explanation
Indices: 14403637--14403694 Score: 59
Period size: 23 Copynumber: 2.5 Consensus size: 24
14403627 CCAAACCTTT
*
14403637 AAACTCTTAAA-CCCCAAAATCCA
1 AAACCCTTAAATCCCCAAAATCCA
* * *
14403660 AAATCC-AAAATCTCCAAAATCC-
1 AAACCCTTAAATCCCCAAAATCCA
14403682 AAACCCTTAAATC
1 AAACCCTTAAATC
14403695 AAAACCTTAA
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
22 8 0.30
23 19 0.70
ACGTcount: A:0.48, C:0.33, G:0.00, T:0.19
Consensus pattern (24 bp):
AAACCCTTAAATCCCCAAAATCCA
Found at i:14405408 original size:5 final size:5
Alignment explanation
Indices: 14405398--14405422 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
14405388 TTCTTGAGTC
14405398 ATTTT ATTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT
14405423 TTTGATTGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
ATTTT
Found at i:14405500 original size:12 final size:12
Alignment explanation
Indices: 14405483--14405509 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
14405473 CATTGAAAAG
14405483 AAAAAAAAGATA
1 AAAAAAAAGATA
14405495 AAAAAAAAGATA
1 AAAAAAAAGATA
14405507 AAA
1 AAA
14405510 GAACATTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.85, C:0.00, G:0.07, T:0.07
Consensus pattern (12 bp):
AAAAAAAAGATA
Found at i:14410248 original size:15 final size:15
Alignment explanation
Indices: 14410228--14410271 Score: 63
Period size: 15 Copynumber: 3.0 Consensus size: 15
14410218 AATGGGGCAT
14410228 AAAAAAAATAAAA-A
1 AAAAAAAATAAAAGA
* *
14410242 AACAAAAATAAAAGG
1 AAAAAAAATAAAAGA
14410257 AAAAAAAATAAAAGA
1 AAAAAAAATAAAAGA
14410272 GACATATTCA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
14 12 0.48
15 13 0.52
ACGTcount: A:0.84, C:0.02, G:0.07, T:0.07
Consensus pattern (15 bp):
AAAAAAAATAAAAGA
Found at i:14412419 original size:155 final size:154
Alignment explanation
Indices: 14412198--14412832 Score: 801
Period size: 155 Copynumber: 4.1 Consensus size: 154
14412188 AAGATTTTGA
* * *
14412198 GATT-TGTAAGACTTTTGGGCATAATCTCTAAAAACTTCCAGGCATAACTTTCAAGACCTCCGGG
1 GATTCTGTAAGACCTTTGGGCATAATCTCT-AAGACCTCCAGGCATAACTTTCAAGACCT-CGGG
** * *
14412262 CATAAATTCGATTCACGGTGTTATCCAAATAGATTTTTTATCTTTTGACTTGTGGAGTTATTCCA
64 CATAAATTCGATTCACGGTGTTATCCTGATAGATTCTTTATCTTTTGACTTGTGGTGTTATTCCA
*
14412327 ATTGATTCTGTAAGACCTCCGAACAT
129 ATCGATTCTGTAAGACCTCCGAACAT
* * *
14412353 GATTTTGTAAGACCTTTGGGTATAATCTCTAAGACCTCCAGGCACAACTTTCAAGACCTACGGGC
1 GATTCTGTAAGACCTTTGGGCATAATCTCTAAGACCTCCAGGCATAACTTTCAAGACCT-CGGGC
** * * *
14412418 ATAAATTCGATTCGTGGTGTTATCCTGATCGATTCTTTATCTTTTGACTTGTGGTGTTATTTCGA
65 ATAAATTCGATTCACGGTGTTATCCTGATAGATTCTTTATCTTTTGACTTGTGGTGTTATTCCAA
**
14412483 TCGATTCTGTAAGACCTCCGGGCAT
130 TCGATTCTGTAAGACCTCCGAACAT
*** ** **
14412508 GATTCTGTAAGA-CTTCCAAGCATAATCTCTAAGACCTCCAGGCATAACTTTCAAGATTTTTAGG
1 GATTCTGTAAGACCTT-TGGGCATAATCTCTAAGACCTCCAGGCATAACTTTCAAGA-CCTCGGG
* * * * *
14412572 CATAAATTCGAGTCACAGTGTTATCCTGATCGATTTTTTATCTTTTGACTTATGGTGTTATTCCA
64 CATAAATTCGATTCACGGTGTTATCCTGATAGATTCTTTATCTTTTGACTTGTGGTGTTATTCCA
* * *
14412637 ATTGATTCTATAAGACCTCCGAGCAT
129 ATCGATTCTGTAAGACCTCCGAACAT
* * * *
14412663 GATTCTGTAATA-CTTTCGGGCATAATCTCTAAGACCTTCGGGTATAACTTTCAAGACCTCTGGG
1 GATTCTGTAAGACCTTT-GGGCATAATCTCTAAGACCTCCAGGCATAACTTTCAAGACCTC-GGG
* * *
14412727 CATAAATTCGATTCATGATGTTATCCTGATCA-ATTCTTTATTTTTTGACTTGTGGTGTTATTCC
64 CATAAATTCGATTCACGGTGTTATCCTGAT-AGATTCTTTATCTTTTGACTTGTGGTGTTATTCC
*
14412791 AATCGATTCTGTAAGACCTCCGGACAT
128 AATCGATTCTGTAAGACCTCCGAACAT
14412818 GATTCTGTAAGACCT
1 GATTCTGTAAGACCT
14412833 CCAGGCATAA
Statistics
Matches: 410, Mismatches: 63, Indels: 13
0.84 0.13 0.03
Matches are distributed among these distances:
154 4 0.01
155 380 0.93
156 26 0.06
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.37
Consensus pattern (154 bp):
GATTCTGTAAGACCTTTGGGCATAATCTCTAAGACCTCCAGGCATAACTTTCAAGACCTCGGGCA
TAAATTCGATTCACGGTGTTATCCTGATAGATTCTTTATCTTTTGACTTGTGGTGTTATTCCAAT
CGATTCTGTAAGACCTCCGAACAT
Found at i:14412515 original size:23 final size:23
Alignment explanation
Indices: 14412485--14412552 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
14412475 TATTTCGATC
*
14412485 GATTCTGTAAGACCTCCGGGCAT
1 GATTCTGTAAGACCTCCAGGCAT
* *
14412508 GATTCTGTAAGACTTCCAAGCAT
1 GATTCTGTAAGACCTCCAGGCAT
* *
14412531 -AATCTCTAAGACCTCCAGGCAT
1 GATTCTGTAAGACCTCCAGGCAT
14412553 AACTTTCAAG
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
22 18 0.47
23 20 0.53
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.26
Consensus pattern (23 bp):
GATTCTGTAAGACCTCCAGGCAT
Found at i:14412547 original size:22 final size:22
Alignment explanation
Indices: 14412492--14412554 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 22
14412482 ATCGATTCTG
* * *
14412492 TAAGACCTCCGGGCATGATTCTG
1 TAAGACCTCCAGGCAT-AATCTC
* *
14412515 TAAGACTTCCAAGCATAATCTC
1 TAAGACCTCCAGGCATAATCTC
14412537 TAAGACCTCCAGGCATAA
1 TAAGACCTCCAGGCATAA
14412555 CTTTCAAGAT
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
22 20 0.61
23 13 0.39
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (22 bp):
TAAGACCTCCAGGCATAATCTC
Found at i:14412702 original size:22 final size:22
Alignment explanation
Indices: 14412677--14412731 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
14412667 CTGTAATACT
14412677 TTCGGGCATAA-TCTCTAAGACC
1 TTCGGGCATAACTCTC-AAGACC
* *
14412699 TTCGGGTATAACTTTCAAGACC
1 TTCGGGCATAACTCTCAAGACC
14412721 -TCTGGGCATAA
1 TTC-GGGCATAA
14412732 ATTCGATTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
21 2 0.07
22 23 0.82
23 3 0.11
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (22 bp):
TTCGGGCATAACTCTCAAGACC
Found at i:14412798 original size:310 final size:311
Alignment explanation
Indices: 14412216--14412864 Score: 946
Period size: 310 Copynumber: 2.1 Consensus size: 311
14412206 AGACTTTTGG
* * * *
14412216 GCATAATCTCTAAAAACTTCCAGGCATAACTTTCAAGACCTCCGGGCATAAATTCGATTCACGGT
1 GCATAATCTCTAAAGACTTCCAGGCATAACTTTCAAGACCTCCAGGCATAAATTCGAGTCACAGT
* *
14412281 GTTATCCAAATAGATTTTTTATCTTTTGACTTGTGGAGTTATTCCAATTGATTCTGTAAGACCTC
66 GTTATCCAAATAGATTTTTTATCTTTTGACTTATGGAGTTATTCCAATTGATTCTATAAGACCTC
* *
14412346 CGAACATGATTTTGTAAGACCTTTGGGTATAATCTCTAAGACCTCCAGGCACAACTTTCAAGACC
131 CGAACATGATTCTGTAAGACCTTTGGGCATAATCTCTAAGACCTCCAGGCACAACTTTCAAGACC
* * *
14412411 TACGGGCATAAATTCGATTCGTGGTGTTATCCTGATCGATTCTTTATCTTTTGACTTGTGGTGTT
196 TACGGGCATAAATTCGATTCATGATGTTATCCTGATCAATTCTTTATCTTTTGACTTGTGGTGTT
* * * *
14412476 ATTTCGATCGATTCTGTAAGACCTCCGGGCATGATTCTGTAAGACTTCCAA
261 ATTCCAATCGATTCTGTAAGACCTCCGGACATGATTCTGTAAGACCTCCAA
* ** **
14412527 GCATAATCTCT-AAGACCTCCAGGCATAACTTTCAAGATTTTTAGGCATAAATTCGAGTCACAGT
1 GCATAATCTCTAAAGACTTCCAGGCATAACTTTCAAGACCTCCAGGCATAAATTCGAGTCACAGT
** * *
14412591 GTTATCCTGATCGATTTTTTATCTTTTGACTTATGGTGTTATTCCAATTGATTCTATAAGACCTC
66 GTTATCCAAATAGATTTTTTATCTTTTGACTTATGGAGTTATTCCAATTGATTCTATAAGACCTC
* * * * * *
14412656 CGAGCATGATTCTGTAATA-CTTTCGGGCATAATCTCTAAGACCTTCGGGTATAACTTTCAAGAC
131 CGAACATGATTCTGTAAGACCTTT-GGGCATAATCTCTAAGACCTCCAGGCACAACTTTCAAGAC
*
14412720 CT-CTGGGCATAAATTCGATTCATGATGTTATCCTGATCAATTCTTTATTTTTTGACTTGTGGTG
195 CTAC-GGGCATAAATTCGATTCATGATGTTATCCTGATCAATTCTTTATCTTTTGACTTGTGGTG
*
14412784 TTATTCCAATCGATTCTGTAAGACCTCCGGACATGATTCTGTAAGACCTCCAG
259 TTATTCCAATCGATTCTGTAAGACCTCCGGACATGATTCTGTAAGACCTCCAA
* *
14412837 GCATAA-CTTTAAAGACTTCCGGGCATAA
1 GCATAATCTCTAAAGACTTCCAGGCATAA
14412865 ATTCGATTCG
Statistics
Matches: 300, Mismatches: 35, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
309 8 0.03
310 281 0.94
311 11 0.04
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (311 bp):
GCATAATCTCTAAAGACTTCCAGGCATAACTTTCAAGACCTCCAGGCATAAATTCGAGTCACAGT
GTTATCCAAATAGATTTTTTATCTTTTGACTTATGGAGTTATTCCAATTGATTCTATAAGACCTC
CGAACATGATTCTGTAAGACCTTTGGGCATAATCTCTAAGACCTCCAGGCACAACTTTCAAGACC
TACGGGCATAAATTCGATTCATGATGTTATCCTGATCAATTCTTTATCTTTTGACTTGTGGTGTT
ATTCCAATCGATTCTGTAAGACCTCCGGACATGATTCTGTAAGACCTCCAA
Found at i:14412864 original size:133 final size:132
Alignment explanation
Indices: 14412690--14412974 Score: 401
Period size: 133 Copynumber: 2.2 Consensus size: 132
14412680 GGGCATAATC
* * * * * *
14412690 TCTAAGACCTTCGGGTATAACTTTCAAGACCTCTGGGCATAAATTCGATTCATGATGTTATC-CT
1 TCTAAGACCTCCAGGCATAACTTTAAAGACCTCCGGGCATAAATTCGATTCACGATGTTATCTC-
* * *
14412754 GATCAATTCTTTATTTTTTGACTTGTGGTGTTATTCCAATCGATTCTGTAAGACCTCCGGACATG
65 GATCAATTCTTTATCTTTTGACTTGTGGTGTTATCCCAATCGATTCTATAAGACCTCCGGACATG
14412819 ATT
130 ATT
* * * *
14412822 CTGTAAGACCTCCAGGCATAACTTTAAAGACTTCCGGGCATAAATTCGATTCGCGGTGTTATCTC
1 -TCTAAGACCTCCAGGCATAACTTTAAAGACCTCCGGGCATAAATTCGATTCACGATGTTATCTC
** *
14412887 GATTGATTCTTTATCTTTTGACTTGTGGTGTTATCCCAATCGATTCTATAAGACCTCCGGGCATG
65 GATCAATTCTTTATCTTTTGACTTGTGGTGTTATCCCAATCGATTCTATAAGACCTCCGGACATG
14412952 ATT
130 ATT
14412955 TCTAAGACCTCCAGGCATAA
1 TCTAAGACCTCCAGGCATAA
14412975 ATTCAATTCA
Statistics
Matches: 134, Mismatches: 17, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
132 19 0.14
133 114 0.85
134 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (132 bp):
TCTAAGACCTCCAGGCATAACTTTAAAGACCTCCGGGCATAAATTCGATTCACGATGTTATCTCG
ATCAATTCTTTATCTTTTGACTTGTGGTGTTATCCCAATCGATTCTATAAGACCTCCGGACATGA
TT
Found at i:14413011 original size:110 final size:110
Alignment explanation
Indices: 14412818--14413193 Score: 502
Period size: 110 Copynumber: 3.4 Consensus size: 110
14412808 CTCCGGACAT
* * * * *
14412818 GATTCTGTAAGACCTCCAGGCATAACTTT-AAAGACTTCCGGGCATAAATTCGATTCGCGGTGTT
1 GATTCTGTAAGACCTCCAGGCATGA-TTTCTAAGACCTCCAGGCATAAATTCGATTCACGGTGTT
* *
14412882 ATCTCGATTGATTCTTTATCTTTTGACTTGTGGTGTTATCCCAATC
65 ATCTCGATCGATTCTTTATCTTTTGACTTGTGATGTTATCCCAATC
* * *
14412928 GATTCTATAAGACCTCCGGGCATGATTTCTAAGACCTCCAGGCATAAATTCAATTCACGGTGTTA
1 GATTCTGTAAGACCTCCAGGCATGATTTCTAAGACCTCCAGGCATAAATTCGATTCACGGTGTTA
* * *
14412993 TTTCGATCGATTCTTTATCTTTTGACTTATGATGTTATCCTAATC
66 TCTCGATCGATTCTTTATCTTTTGACTTGTGATGTTATCCCAATC
* * ** * *
14413038 GATTATGTAAGACCTTCAGGCATGATTTCTAAGACCTCCATACATAAATTCGATTCACGATATTA
1 GATTCTGTAAGACCTCCAGGCATGATTTCTAAGACCTCCAGGCATAAATTCGATTCACGGTGTTA
* * *
14413103 TCCCGATCGATTCTTTATCTTTTGACTTGTGATGTTATCCCAGTT
66 TCTCGATCGATTCTTTATCTTTTGACTTGTGATGTTATCCCAATC
* * *
14413148 GATTCTGTAAGACCTTCGGGCATGATTCTGTAAGACCTCCAGGCAT
1 GATTCTGTAAGACCTCCAGGCATGATT-TCTAAGACCTCCAGGCAT
14413194 GATTTCTAAG
Statistics
Matches: 231, Mismatches: 33, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
109 3 0.01
110 213 0.92
111 15 0.06
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.37
Consensus pattern (110 bp):
GATTCTGTAAGACCTCCAGGCATGATTTCTAAGACCTCCAGGCATAAATTCGATTCACGGTGTTA
TCTCGATCGATTCTTTATCTTTTGACTTGTGATGTTATCCCAATC
Found at i:14413177 original size:23 final size:23
Alignment explanation
Indices: 14413147--14413212 Score: 98
Period size: 23 Copynumber: 2.9 Consensus size: 23
14413137 TTATCCCAGT
*
14413147 TGATTCTGTAAGACCTTCGGGCA
1 TGATTCTGTAAGACCTCCGGGCA
*
14413170 TGATTCTGTAAGACCTCCAGGCA
1 TGATTCTGTAAGACCTCCGGGCA
*
14413193 TGATT-TCTAAGACCTCCGGG
1 TGATTCTGTAAGACCTCCGGG
14413213 TATAAATTCG
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
22 13 0.33
23 26 0.67
ACGTcount: A:0.23, C:0.24, G:0.24, T:0.29
Consensus pattern (23 bp):
TGATTCTGTAAGACCTCCGGGCA
Found at i:14413184 original size:243 final size:243
Alignment explanation
Indices: 14412928--14413427 Score: 610
Period size: 243 Copynumber: 2.1 Consensus size: 243
14412918 TATCCCAATC
* *
14412928 GATTCTATAAGACCTCCGGGCATGATTTCTAAGACCTCCAGGCATAAATTCAATTCACGGTGTTA
1 GATTCTGTAAGACCTCCAGGCATGATTTCTAAGACCTCCAGGCATAAATTCAATTCACGGTGTTA
* * *
14412993 TTTCGATCGATTCTTTATCTTTTGACTTATGATGTTATC-CTAATCGATTATGTAAGACCTTCAG
66 TCTCGATCGATTCTTTATCTTTCGACTTATGATGTTATCTC-AATCGATTATATAAGACCTTCAG
* *
14413057 GCATGATTTCTAAGACCTCCATACATAAATTCGATTCACGATATTATCCCGATCGATTCTTTATC
130 GCATGATGTCTAAGACCTCCAGACATAAATTCGATTCACGATATTATCCCGATCGATTCTTTAT-
* ** * * ** * *
14413122 TTTT-GACTTGTGATGTTATCCCAGTTGATTCTGTAAGACCTTCGGGCAT
194 TTTTCAACTTACGATATTATCCCAATCAATTCTGTAAGACCTCCGAGCAT
* * * **
14413171 GATTCTGTAAGACCTCCAGGCATGATTTCTAAGACCTCCGGGTATAAATTCGATTCGTGGTGTTA
1 GATTCTGTAAGACCTCCAGGCATGATTTCTAAGACCTCCAGGCATAAATTCAATTCACGGTGTTA
* * * * *
14413236 TCTCGATCGATTCTTTATCTTTCGACTTGTGGTGTTATCTCAGTCGATTCTATAAGACCTTCGGG
66 TCTCGATCGATTCTTTATCTTTCGACTTATGATGTTATCTCAATCGATTATATAAGACCTTCAGG
* * * * * * ** * ** *
14413301 CATGCTGTCTAAGACTTTCGGGCATAAATTTGATTCGTGATGTTATCTTGATCGATTTTTTATTT
131 CATGATGTCTAAGACCTCCAGACATAAATTCGATTCACGATATTATCCCGATCGATTCTTTATTT
*
14413366 TTCAACTTACGGTATTATCCCAATCAATTCTGTAAGACCTCCGAGCAT
196 TTCAACTTACGATATTATCCCAATCAATTCTGTAAGACCTCCGAGCAT
14413414 GATT-TGTAAGACCT
1 GATTCTGTAAGACCT
14413428 TCGGACATAA
Statistics
Matches: 216, Mismatches: 39, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
242 14 0.06
243 201 0.93
244 1 0.00
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.38
Consensus pattern (243 bp):
GATTCTGTAAGACCTCCAGGCATGATTTCTAAGACCTCCAGGCATAAATTCAATTCACGGTGTTA
TCTCGATCGATTCTTTATCTTTCGACTTATGATGTTATCTCAATCGATTATATAAGACCTTCAGG
CATGATGTCTAAGACCTCCAGACATAAATTCGATTCACGATATTATCCCGATCGATTCTTTATTT
TTCAACTTACGATATTATCCCAATCAATTCTGTAAGACCTCCGAGCAT
Found at i:14413285 original size:133 final size:133
Alignment explanation
Indices: 14413038--14413304 Score: 390
Period size: 133 Copynumber: 2.0 Consensus size: 133
14413028 TATCCTAATC
* *
14413038 GATTATGTAAGACCTTCAGGCATGATTTCTAAGACCTCCATACATAAATTCGATTCACGATATTA
1 GATTATGTAAGACCTCCAGGCATGATTTCTAAGACCTCCAGACATAAATTCGATTCACGATATTA
* * *
14413103 TCCCGATCGATTCTTTATCTTTTGACTTGTGATGTTATCCCAGTTGATTCTGTAAGACCTTCGGG
66 TCCCGATCGATTCTTTATCTTTCGACTTGTGATGTTATCCCAGTCGATTCTATAAGACCTTCGGG
14413168 CAT
131 CAT
* * ** ** * *
14413171 GATTCTGTAAGACCTCCAGGCATGATTTCTAAGACCTCCGGGTATAAATTCGATTCGTGGTGTTA
1 GATTATGTAAGACCTCCAGGCATGATTTCTAAGACCTCCAGACATAAATTCGATTCACGATATTA
* * *
14413236 TCTCGATCGATTCTTTATCTTTCGACTTGTGGTGTTATCTCAGTCGATTCTATAAGACCTTCGGG
66 TCCCGATCGATTCTTTATCTTTCGACTTGTGATGTTATCCCAGTCGATTCTATAAGACCTTCGGG
14413301 CAT
131 CAT
14413304 G
1 G
14413305 CTGTCTAAGA
Statistics
Matches: 118, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
133 118 1.00
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.37
Consensus pattern (133 bp):
GATTATGTAAGACCTCCAGGCATGATTTCTAAGACCTCCAGACATAAATTCGATTCACGATATTA
TCCCGATCGATTCTTTATCTTTCGACTTGTGATGTTATCCCAGTCGATTCTATAAGACCTTCGGG
CAT
Found at i:14413356 original size:353 final size:352
Alignment explanation
Indices: 14412727--14413484 Score: 1002
Period size: 353 Copynumber: 2.1 Consensus size: 352
14412717 GACCTCTGGG
* * * * * *
14412727 CATAAATTCGATTCATGATGTTATCCTGATCAATTCTTTATTTTTTGACTTGTGGTGTTATTCCA
1 CATAAATTCGATTCACGATATTATCCCGATCGATTCTTTA-TTTTTGACTTGTGATGTTATCCCA
*
14412792 ATCGATTCTGTAAGACCTCCGGACATGATTCTGTAAGACCTCCAGGCATAACTTTAAAGACTTCC
65 ATCGATTCTGTAAGACCTCCGGACATGATTCTGTAAGACCTCCAGGCATAACTTTAAAGACCTCC
* *
14412857 GGGCATAAATTCGATTCGCGGTGTTATCTCGATTGATTCTTTATCTTTTGACTTGTGGTGTTATC
130 GGGCATAAATTCGATTCGCGGTGTTATCTCGATCGATTCTTTATCTTTCGACTTGTGGTGTTATC
*
14412922 CCAATCGATTCTATAAGACCTCCGGGCATGATTTCTAAGACCTCCAGGCATAAATTCAATTCACG
195 CCAATCGATTCTATAAGACCTCCGGGCATGATGTCTAAGACCTCCAGGCATAAATTCAATTCACG
* * * * * *
14412987 GTGTTATTTCGATCGATTCTTTATCTTTT-GACTTATGATGTTATCCTAATCGATTATGTAAGAC
260 ATGTTATTTCGATCGATTCTTTAT-TTTTCAACTTACGATATTATCCCAATCAATTATGTAAGAC
*
14413051 CTTCAG-GCATGATTTCTAAGACCTCCATA
324 C-TCAGAGCATGATTTCTAAGACCTCCAGA
14413080 CATAAATTCGATTCACGATATTATCCCGATCGATTCTTTATCTTTTGACTTGTGATGTTATCCCA
1 CATAAATTCGATTCACGATATTATCCCGATCGATTCTTTAT-TTTTGACTTGTGATGTTATCCCA
* * * * * *
14413145 GTTGATTCTGTAAGACCTTCGGGCATGATTCTGTAAGACCTCCAGGCATGA-TTTCTAAGACCTC
65 ATCGATTCTGTAAGACCTCCGGACATGATTCTGTAAGACCTCCAGGCATAACTTT-AAAGACCTC
* *
14413209 CGGGTATAAATTCGATTCGTGGTGTTATCTCGATCGATTCTTTATCTTTCGACTTGTGGTGTTAT
129 CGGGCATAAATTCGATTCGCGGTGTTATCTCGATCGATTCTTTATCTTTCGACTTGTGGTGTTAT
* * * * * * * ** **
14413274 CTCAGTCGATTCTATAAGACCTTCGGGCATGCTGTCTAAGACTTTCGGGCATAAATTTGATTCGT
194 CCCAATCGATTCTATAAGACCTCCGGGCATGATGTCTAAGACCTCCAGGCATAAATTCAATTCAC
* * *
14413339 GATGTTATCTT-GATCGATTTTTTATTTTTCAACTTACGGTATTATCCCAATCAATTCTGTAAGA
259 GATGTTAT-TTCGATCGATTCTTTATTTTTCAACTTACGATATTATCCCAATCAATTATGTAAGA
* * * *
14413403 CCTCCGAGCATGATTTGTAAGACCTTCGGA
323 CCTCAGAGCATGATTTCTAAGACCTCCAGA
* * * *
14413433 CATAAATTCGATTCGCGATATTATCTCAATCGATTCATTATTTTTCGACTTG
1 CATAAATTCGATTCACGATATTATCCCGATCGATTCTTTATTTTT-GACTTG
14413485 AGGTGTCATC
Statistics
Matches: 352, Mismatches: 47, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
352 15 0.04
353 335 0.95
354 2 0.01
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.38
Consensus pattern (352 bp):
CATAAATTCGATTCACGATATTATCCCGATCGATTCTTTATTTTTGACTTGTGATGTTATCCCAA
TCGATTCTGTAAGACCTCCGGACATGATTCTGTAAGACCTCCAGGCATAACTTTAAAGACCTCCG
GGCATAAATTCGATTCGCGGTGTTATCTCGATCGATTCTTTATCTTTCGACTTGTGGTGTTATCC
CAATCGATTCTATAAGACCTCCGGGCATGATGTCTAAGACCTCCAGGCATAAATTCAATTCACGA
TGTTATTTCGATCGATTCTTTATTTTTCAACTTACGATATTATCCCAATCAATTATGTAAGACCT
CAGAGCATGATTTCTAAGACCTCCAGA
Found at i:14413500 original size:110 final size:110
Alignment explanation
Indices: 14413172--14413501 Score: 394
Period size: 110 Copynumber: 3.0 Consensus size: 110
14413162 TTCGGGCATG
* * *
14413172 ATTCTGTAAGACCTCC-AGGCATGATTTCTAAGACCTCCGGGTATAAATTCGATTCGTGGTGTTA
1 ATTCTGTAAGACCTCCGA-GCATGATTTCTAAGACCTTCGGGCATAAATTCGATTCGTGATGTTA
* * * *
14413236 TCTCGATCGATTCTTTATCTTTCGACTTGTGGTGTTATCTCAGTCG
65 TCTCGATCGATTCTTTATTTTTCGACTTGAGGTGTTATCTCAATCA
* * * * * * *
14413282 ATTCTATAAGACCTTCGGGCATGCTGTCTAAGACTTTCGGGCATAAATTTGATTCGTGATGTTAT
1 ATTCTGTAAGACCTCCGAGCATGATTTCTAAGACCTTCGGGCATAAATTCGATTCGTGATGTTAT
* * * * *
14413347 CTTGATCGATTTTTTATTTTTCAACTT-ACGGTATTATCCCAATCA
66 CTCGATCGATTCTTTATTTTTCGACTTGA-GGTGTTATCTCAATCA
* * * *
14413392 ATTCTGTAAGACCTCCGAGCATGATTTGTAAGACCTTCGGACATAAATTCGATTCGCGATATTAT
1 ATTCTGTAAGACCTCCGAGCATGATTTCTAAGACCTTCGGGCATAAATTCGATTCGTGATGTTAT
* * *
14413457 CTCAATCGATTCATTATTTTTCGACTTGAGGTGTCATCTCAATCA
66 CTCGATCGATTCTTTATTTTTCGACTTGAGGTGTTATCTCAATCA
14413502 TTTTGTGTTT
Statistics
Matches: 179, Mismatches: 38, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
110 178 0.99
111 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.38
Consensus pattern (110 bp):
ATTCTGTAAGACCTCCGAGCATGATTTCTAAGACCTTCGGGCATAAATTCGATTCGTGATGTTAT
CTCGATCGATTCTTTATTTTTCGACTTGAGGTGTTATCTCAATCA
Found at i:14413665 original size:3 final size:3
Alignment explanation
Indices: 14413659--14413711 Score: 53
Period size: 3 Copynumber: 19.3 Consensus size: 3
14413649 ATATTATTAT
* *
14413659 TAA TAA TAA TAT TAA TAA TAA TAA TAA T-T TAA TAA -AA -AA TAA -AA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
14413703 TAA -AA TAA T
1 TAA TAA TAA T
14413712 TATTAATAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
2 9 0.21
3 33 0.79
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:14413666 original size:15 final size:15
Alignment explanation
Indices: 14413646--14413720 Score: 68
Period size: 15 Copynumber: 5.1 Consensus size: 15
14413636 TCATTTCACT
* *
14413646 ATAATATTATTATTA
1 ATAATAATATTAATA
14413661 ATAATAATATTAATA
1 ATAATAATATTAATA
14413676 ATAATAATAATTTAATA
1 ATAATAAT-A-TTAATA
*
14413693 A-AA-AATA-AAATA
1 ATAATAATATTAATA
14413705 A-AATAATTATTAATA
1 ATAATAA-TATTAATA
14413720 A
1 A
14413721 ACAAAAAAAC
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
12 7 0.14
13 2 0.04
14 3 0.06
15 29 0.57
16 3 0.06
17 7 0.14
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
ATAATAATATTAATA
Found at i:14413729 original size:27 final size:28
Alignment explanation
Indices: 14413672--14413734 Score: 76
Period size: 27 Copynumber: 2.2 Consensus size: 28
14413662 TAATAATATT
14413672 AATAATAATAATAATTTAATAAAAAATAA
1 AATAA-AATAATAATTTAATAAAAAATAA
*
14413701 AATAAAATAATTA-TTAATAAACAAA-AA
1 AATAAAATAATAATTTAATAAA-AAATAA
*
14413728 AACAAAA
1 AATAAAA
14413735 AAAATAGAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
27 16 0.52
28 10 0.32
29 5 0.16
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.25
Consensus pattern (28 bp):
AATAAAATAATAATTTAATAAAAAATAA
Found at i:14413735 original size:28 final size:28
Alignment explanation
Indices: 14413678--14413740 Score: 67
Period size: 28 Copynumber: 2.2 Consensus size: 28
14413668 TATTAATAAT
*
14413678 AATAATAATTTAATAAAAAATAAAATAA
1 AATAATAATTTAATAAAAAATAAAAAAA
*
14413706 AATAATTA-TTAATAAACAAA-AAAACAAA
1 AATAATAATTTAATAAA-AAATAAAA-AAA
*
14413734 AAAAATA
1 AATAATA
14413741 GAAAAACAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
27 12 0.41
28 17 0.59
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (28 bp):
AATAATAATTTAATAAAAAATAAAAAAA
Found at i:14415121 original size:16 final size:16
Alignment explanation
Indices: 14415102--14415173 Score: 83
Period size: 16 Copynumber: 4.5 Consensus size: 16
14415092 CTAGGTTTCT
14415102 AAAACCCCTAAAATCC
1 AAAACCCCTAAAATCC
*
14415118 AAAATCTCCTAAAATCC
1 AAAA-CCCCTAAAATCC
* *
14415135 AAAA-TCCTAAAATTC
1 AAAACCCCTAAAATCC
* *
14415150 GAAACCCCTAAAATTC
1 AAAACCCCTAAAATCC
14415166 AAAACCCC
1 AAAACCCC
14415174 CCAAAATCTG
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
15 13 0.27
16 21 0.43
17 15 0.31
ACGTcount: A:0.49, C:0.32, G:0.01, T:0.18
Consensus pattern (16 bp):
AAAACCCCTAAAATCC
Found at i:14415179 original size:17 final size:16
Alignment explanation
Indices: 14415102--14415180 Score: 52
Period size: 17 Copynumber: 4.9 Consensus size: 16
14415092 CTAGGTTTCT
* *
14415102 AAAACCCCTAAAATCC
1 AAAACCCCCAAAATTC
* * *
14415118 AAAATCTCCTAAAATCC
1 AAAA-CCCCCAAAATTC
* *
14415135 AAAA-TCCTAAAATTC
1 AAAACCCCCAAAATTC
* *
14415150 GAAACCCCTAAAATTC
1 AAAACCCCCAAAATTC
14415166 AAAACCCCCCAAAAT
1 AAAA-CCCCCAAAAT
14415181 CTGAAATTTC
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
15 13 0.24
16 17 0.31
17 24 0.44
ACGTcount: A:0.49, C:0.32, G:0.01, T:0.18
Consensus pattern (16 bp):
AAAACCCCCAAAATTC
Found at i:14415254 original size:14 final size:14
Alignment explanation
Indices: 14415207--14415262 Score: 60
Period size: 14 Copynumber: 3.9 Consensus size: 14
14415197 TTAAACTTTT
14415207 AAATCCAAA-CCTCA
1 AAATCCAAACCCT-A
14415221 AAATCCAAAATCCCTA
1 AAATCC-AAA-CCCTA
*
14415237 AAATCCAAACCCTT
1 AAATCCAAACCCTA
*
14415251 AAATCAAAACCC
1 AAATCCAAACCC
14415263 CAAACCTCAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
14 21 0.57
15 6 0.16
16 7 0.19
17 3 0.08
ACGTcount: A:0.50, C:0.34, G:0.00, T:0.16
Consensus pattern (14 bp):
AAATCCAAACCCTA
Found at i:14415266 original size:51 final size:50
Alignment explanation
Indices: 14415211--14415320 Score: 132
Period size: 51 Copynumber: 2.2 Consensus size: 50
14415201 ACTTTTAAAT
*
14415211 CCAAACCTCAAAATCCAAAATCCCTAAAA-TCCAAACCCTTAAATCAAAACC
1 CCAAACCTCAAAATCC-AAA-CCCTAAAACTCCAAACCCTAAAATCAAAACC
* * * *
14415262 CCAAACCTCAAAATTCAAACCGTAAAATCTCCAAACTCTAAAATCAAAACT
1 CCAAACCTCAAAATCCAAACCCTAAAA-CTCCAAACCCTAAAATCAAAACC
*
14415313 CTAAACCT
1 CCAAACCT
14415321 TCCATAGTCT
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
49 7 0.14
50 3 0.06
51 41 0.80
ACGTcount: A:0.48, C:0.33, G:0.01, T:0.18
Consensus pattern (50 bp):
CCAAACCTCAAAATCCAAACCCTAAAACTCCAAACCCTAAAATCAAAACC
Found at i:14419590 original size:38 final size:38
Alignment explanation
Indices: 14419539--14419615 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
14419529 TGGAGATCAT
**
14419539 ACAGCTCTGATACCACTTGTTGGGAAATTAACACCCAC
1 ACAGCTCTGATACCACTTGTTGAAAAATTAACACCCAC
14419577 ACAGCTCTGATACCACTTGTTGAAAAATTAACACCCAC
1 ACAGCTCTGATACCACTTGTTGAAAAATTAACACCCAC
14419615 A
1 A
14419616 TGTAAAATCC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.35, C:0.29, G:0.13, T:0.23
Consensus pattern (38 bp):
ACAGCTCTGATACCACTTGTTGAAAAATTAACACCCAC
Found at i:14423964 original size:32 final size:32
Alignment explanation
Indices: 14423927--14424024 Score: 169
Period size: 32 Copynumber: 3.1 Consensus size: 32
14423917 TATTTTTACA
14423927 ATTTTATGTGCTTGTTTATTTTTTATTAGTAT
1 ATTTTATGTGCTTGTTTATTTTTTATTAGTAT
*
14423959 ATTTTATGTGCTTGTTTATTATTTATTAGTAT
1 ATTTTATGTGCTTGTTTATTTTTTATTAGTAT
* *
14423991 ATTTTATGTGCTTGATTATTTTTTGTTAGTAT
1 ATTTTATGTGCTTGTTTATTTTTTATTAGTAT
14424023 AT
1 AT
14424025 ATATGTGATA
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 62 1.00
ACGTcount: A:0.20, C:0.03, G:0.13, T:0.63
Consensus pattern (32 bp):
ATTTTATGTGCTTGTTTATTTTTTATTAGTAT
Found at i:14424997 original size:6 final size:6
Alignment explanation
Indices: 14424986--14425058 Score: 78
Period size: 6 Copynumber: 12.5 Consensus size: 6
14424976 AGTAAAATTC
* *
14424986 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTGC- TTTTCC TTTT-T
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
* * * *
14425032 TTTACT TTTTTT TTTTAT TTTCCT TTT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTT
14425059 ATTTCTTCGT
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
5 7 0.12
6 49 0.88
ACGTcount: A:0.03, C:0.15, G:0.01, T:0.81
Consensus pattern (6 bp):
TTTTCT
Found at i:14427846 original size:12 final size:12
Alignment explanation
Indices: 14427829--14427883 Score: 56
Period size: 12 Copynumber: 4.6 Consensus size: 12
14427819 GATTCACTTA
*
14427829 AAGAAGAGGAAG
1 AAGAAGATGAAG
14427841 AAGAAGATGAAG
1 AAGAAGATGAAG
* **
14427853 AGGAAGAAAAAG
1 AAGAAGATGAAG
* *
14427865 AGGAAGATGAGG
1 AAGAAGATGAAG
14427877 AAGAAGA
1 AAGAAGA
14427884 ATAATGTTGT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 35 1.00
ACGTcount: A:0.58, C:0.00, G:0.38, T:0.04
Consensus pattern (12 bp):
AAGAAGATGAAG
Found at i:14427854 original size:18 final size:18
Alignment explanation
Indices: 14427831--14427883 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
14427821 TTCACTTAAA
*
14427831 GAAGAGGAAGAAGAAGAT
1 GAAGAGGAAGAAGAAGAG
*
14427849 GAAGAGGAAGAAAAAGAG
1 GAAGAGGAAGAAGAAGAG
* *
14427867 GAAGATGAGGAAGAAGA
1 GAAGAGGAAGAAGAAGA
14427884 ATAATGTTGT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.57, C:0.00, G:0.40, T:0.04
Consensus pattern (18 bp):
GAAGAGGAAGAAGAAGAG
Found at i:14428805 original size:25 final size:25
Alignment explanation
Indices: 14428777--14428826 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
14428767 TTATTCTGCA
**
14428777 AATCAAACTTATTTATTAAAAATTC
1 AATCAAACTTACATATTAAAAATTC
14428802 AATCAAACTTACATATTAAAAATTC
1 AATCAAACTTACATATTAAAAATTC
14428827 CTTTCATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (25 bp):
AATCAAACTTACATATTAAAAATTC
Found at i:14428849 original size:42 final size:42
Alignment explanation
Indices: 14428792--14428871 Score: 117
Period size: 42 Copynumber: 1.9 Consensus size: 42
14428782 AACTTATTTA
* *
14428792 TTAAAAATTCAATCAAACTTA-CATATTAAAAATTCCTTTCAT
1 TTAAAAATTCAATCAAAATTATC-TATTAAAAATCCCTTTCAT
*
14428834 TTAAAAGTTCAATCAAAATTATCTATTAAAAATCCCTT
1 TTAAAAATTCAATCAAAATTATCTATTAAAAATCCCTT
14428872 GCCTATTAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
42 33 0.97
43 1 0.03
ACGTcount: A:0.45, C:0.16, G:0.01, T:0.38
Consensus pattern (42 bp):
TTAAAAATTCAATCAAAATTATCTATTAAAAATCCCTTTCAT
Found at i:14428893 original size:17 final size:18
Alignment explanation
Indices: 14428856--14428899 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
14428846 TCAAAATTAT
14428856 CTATTAAAAATCCCTTGC
1 CTATTAAAAATCCCTTGC
14428874 CTATTAAAAATCCCTT-C
1 CTATTAAAAATCCCTTGC
14428891 CTATTAAAA
1 CTATTAAAA
14428900 GTTCAATCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 10 0.38
18 16 0.62
ACGTcount: A:0.39, C:0.25, G:0.02, T:0.34
Consensus pattern (18 bp):
CTATTAAAAATCCCTTGC
Found at i:14428933 original size:20 final size:20
Alignment explanation
Indices: 14428908--14428947 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
14428898 AAGTTCAATC
*
14428908 AAATTTATCTATTAAAAATA
1 AAATTTAACTATTAAAAATA
14428928 AAATTTAACTATTAAAAATA
1 AAATTTAACTATTAAAAATA
14428948 TATTTCTTTT
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:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (20 bp):
AAATTTAACTATTAAAAATA
Found at i:14429114 original size:17 final size:17
Alignment explanation
Indices: 14429094--14429146 Score: 63
Period size: 17 Copynumber: 3.2 Consensus size: 17
14429084 TAGTATCCTA
14429094 CAAATCCCATAATCCCG
1 CAAATCCCATAATCCCG
* **
14429111 CAAATCCAAT-ATCCAA
1 CAAATCCCATAATCCCG
*
14429127 CAAATCCCGTAATCCCG
1 CAAATCCCATAATCCCG
14429144 CAA
1 CAA
14429147 TAAACAGCGC
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
16 12 0.43
17 16 0.57
ACGTcount: A:0.40, C:0.38, G:0.06, T:0.17
Consensus pattern (17 bp):
CAAATCCCATAATCCCG
Found at i:14429115 original size:33 final size:33
Alignment explanation
Indices: 14429078--14429146 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
14429068 CAATATCCAA
* * *
14429078 CAAATCTAGTATCCTACAAATCCCATAATCCCG
1 CAAATCCAATATCCAACAAATCCCATAATCCCG
*
14429111 CAAATCCAATATCCAACAAATCCCGTAATCCCG
1 CAAATCCAATATCCAACAAATCCCATAATCCCG
14429144 CAA
1 CAA
14429147 TAAACAGCGC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.39, C:0.35, G:0.06, T:0.20
Consensus pattern (33 bp):
CAAATCCAATATCCAACAAATCCCATAATCCCG
Found at i:14429130 original size:16 final size:16
Alignment explanation
Indices: 14429068--14429133 Score: 69
Period size: 16 Copynumber: 4.1 Consensus size: 16
14429058 TATCATTAAA
14429068 CAATATCCAACAAATC
1 CAATATCCAACAAATC
* * *
14429084 TAGTATCCTACAAATC
1 CAATATCCAACAAATC
* **
14429100 CCATAATCCCGCAAATC
1 CAAT-ATCCAACAAATC
14429117 CAATATCCAACAAATC
1 CAATATCCAACAAATC
14429133 C
1 C
14429134 CGTAATCCCG
Statistics
Matches: 38, Mismatches: 11, Indels: 2
0.75 0.22 0.04
Matches are distributed among these distances:
16 25 0.66
17 13 0.34
ACGTcount: A:0.42, C:0.33, G:0.03, T:0.21
Consensus pattern (16 bp):
CAATATCCAACAAATC
Found at i:14429169 original size:45 final size:45
Alignment explanation
Indices: 14429109--14429199 Score: 155
Period size: 45 Copynumber: 2.0 Consensus size: 45
14429099 CCCATAATCC
14429109 CGCAAATCCAATATCCAACAAATCCCGTAATCCCGCAATAAACAG
1 CGCAAATCCAATATCCAACAAATCCCGTAATCCCGCAATAAACAG
* * *
14429154 CGCAAATCCAATATCCGACAAGTCTCGTAATCCCGCAATAAACAG
1 CGCAAATCCAATATCCAACAAATCCCGTAATCCCGCAATAAACAG
14429199 C
1 C
14429200 TATCATAGTC
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.40, C:0.33, G:0.11, T:0.16
Consensus pattern (45 bp):
CGCAAATCCAATATCCAACAAATCCCGTAATCCCGCAATAAACAG
Found at i:14429738 original size:41 final size:41
Alignment explanation
Indices: 14429681--14429765 Score: 152
Period size: 41 Copynumber: 2.1 Consensus size: 41
14429671 CGTAACAGGC
*
14429681 GTTCCGAAAGCTATTCCGATAATAGGATCGCCTTTGGTAGA
1 GTTCCGAAAGCTATTCCGATAATAGGATCACCTTTGGTAGA
*
14429722 GTTCCGGAAGCTATTCCGATAATAGGATCACCTTTGGTAGA
1 GTTCCGAAAGCTATTCCGATAATAGGATCACCTTTGGTAGA
14429763 GTT
1 GTT
14429766 ATTGCGTGGA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.31
Consensus pattern (41 bp):
GTTCCGAAAGCTATTCCGATAATAGGATCACCTTTGGTAGA
Found at i:14430249 original size:43 final size:43
Alignment explanation
Indices: 14430188--14430270 Score: 166
Period size: 43 Copynumber: 1.9 Consensus size: 43
14430178 ATGCCTTTAT
14430188 CTGTTACATTGGAATTCATAACTAAGTGTCTTTGTTCCAACCA
1 CTGTTACATTGGAATTCATAACTAAGTGTCTTTGTTCCAACCA
14430231 CTGTTACATTGGAATTCATAACTAAGTGTCTTTGTTCCAA
1 CTGTTACATTGGAATTCATAACTAAGTGTCTTTGTTCCAA
14430271 AACTAAGTGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.39
Consensus pattern (43 bp):
CTGTTACATTGGAATTCATAACTAAGTGTCTTTGTTCCAACCA
Found at i:14430276 original size:21 final size:21
Alignment explanation
Indices: 14430250--14430291 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
14430240 TGGAATTCAT
14430250 AACTAAGTGTCTTTGTTCCAA
1 AACTAAGTGTCTTTGTTCCAA
14430271 AACTAAGTGTCTTTGTTCCAA
1 AACTAAGTGTCTTTGTTCCAA
14430292 CCACCGCTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (21 bp):
AACTAAGTGTCTTTGTTCCAA
Found at i:14430308 original size:64 final size:66
Alignment explanation
Indices: 14430207--14430336 Score: 219
Period size: 64 Copynumber: 2.0 Consensus size: 66
14430197 TGGAATTCAT
* * *
14430207 AACTAAGTGTCTTTGTTCCAACCACTGTTACATTGGAATTCATAACT-AA-GTGTCTTTGTTCCA
1 AACTAAGTGTCTTTGTTCCAACCACCGCTACATTGGAATTCACAACTAAATGTGTCTTTGTTCCA
14430270 A
66 A
14430271 AACTAAGTGTCTTTGTTCCAACCACCGCTACATTGGAATTCACAACTAAATGTGTCTTTGTTCCA
1 AACTAAGTGTCTTTGTTCCAACCACCGCTACATTGGAATTCACAACTAAATGTGTCTTTGTTCCA
14430336 A
66 A
14430337 CCACCGTGTA
Statistics
Matches: 61, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
64 44 0.72
65 2 0.03
66 15 0.25
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (66 bp):
AACTAAGTGTCTTTGTTCCAACCACCGCTACATTGGAATTCACAACTAAATGTGTCTTTGTTCCA
A
Found at i:14430410 original size:17 final size:17
Alignment explanation
Indices: 14430388--14430420 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
14430378 CTATGATCAA
14430388 ACCTAAGCCCCATACAG
1 ACCTAAGCCCCATACAG
14430405 ACCTAAGCCCCATACA
1 ACCTAAGCCCCATACA
14430421 ACCCATACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.42, G:0.09, T:0.12
Consensus pattern (17 bp):
ACCTAAGCCCCATACAG
Found at i:14434981 original size:52 final size:52
Alignment explanation
Indices: 14434826--14434982 Score: 160
Period size: 52 Copynumber: 3.0 Consensus size: 52
14434816 TATAACCATA
* * * *
14434826 CAAACTTGTCCATTAAGAATCC-CTCTCTTCTTAGAATTCTT-TTCCTGT-AACT
1 CAAACTTGTCTATTAAGAATCCTCTTTC-TCTTAGAATTCTTCTT--TTTCAAGT
* * * * *
14434878 CAAACTTGCCTATTAAGAAT-CTCTTTCCTTTTAGAATTTTTCTCTTACAAGT
1 CAAACTTGTCTATTAAGAATCCTCTTT-CTCTTAGAATTCTTCTTTTTCAAGT
*
14434930 CAAACTTATCTATTAAGAATCCTCTTTCTCTTAGAATTCTTCTTTTTCAAGT
1 CAAACTTGTCTATTAAGAATCCTCTTTCTCTTAGAATTCTTCTTTTTCAAGT
14434982 C
1 C
14434983 TTCTTGTCCA
Statistics
Matches: 85, Mismatches: 15, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
51 2 0.02
52 75 0.88
53 8 0.09
ACGTcount: A:0.26, C:0.24, G:0.07, T:0.43
Consensus pattern (52 bp):
CAAACTTGTCTATTAAGAATCCTCTTTCTCTTAGAATTCTTCTTTTTCAAGT
Found at i:14435543 original size:108 final size:108
Alignment explanation
Indices: 14435354--14435566 Score: 381
Period size: 108 Copynumber: 2.0 Consensus size: 108
14435344 ACACATATAA
* * *
14435354 AGGTTGGTGGATGTTGATGATTGAATGATTGGCAACAGGGGAGGCACATTTGCATCATGGTTGGA
1 AGGTTGGTGGATGTTGATGATTGAATGACTGGCAACAAGGAAGGCACATTTGCATCATGGTTGGA
*
14435419 AACCGTAGACTTCAAAAGGGTGTCTTTATTCTCCATTGGCTGC
66 AACCGTAGACTTCAAAAGGGTGTCTTCATTCTCCATTGGCTGC
*
14435462 AGGTTGGTGGATGTTGATGATTGAATGACTGGCAACAAGGAAGGCCCATTTGCATCATGGTTGGA
1 AGGTTGGTGGATGTTGATGATTGAATGACTGGCAACAAGGAAGGCACATTTGCATCATGGTTGGA
14435527 AACCGTAGACTTCAAAAGGGTGTCTTCATTCTCCATTGGC
66 AACCGTAGACTTCAAAAGGGTGTCTTCATTCTCCATTGGC
14435567 AGCATGTAAG
Statistics
Matches: 100, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
108 100 1.00
ACGTcount: A:0.25, C:0.16, G:0.30, T:0.30
Consensus pattern (108 bp):
AGGTTGGTGGATGTTGATGATTGAATGACTGGCAACAAGGAAGGCACATTTGCATCATGGTTGGA
AACCGTAGACTTCAAAAGGGTGTCTTCATTCTCCATTGGCTGC
Found at i:14436919 original size:25 final size:25
Alignment explanation
Indices: 14436891--14436940 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
14436881 TGCGGCTTAT
14436891 GTTTCTTAATAGTTTAGAGAAAAAA
1 GTTTCTTAATAGTTTAGAGAAAAAA
14436916 GTTTCTTAATAGTTTAGAGAAAAAA
1 GTTTCTTAATAGTTTAGAGAAAAAA
14436941 ATCAAAGATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.44, C:0.04, G:0.16, T:0.36
Consensus pattern (25 bp):
GTTTCTTAATAGTTTAGAGAAAAAA
Found at i:14437100 original size:22 final size:21
Alignment explanation
Indices: 14437046--14437089 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
14437036 CCGTTCAACG
*
14437046 AGAAACAGCCCTCCAAAAATA
1 AGAAACAGCGCTCCAAAAATA
14437067 AGAAACAGCGCTCCAAAAATA
1 AGAAACAGCGCTCCAAAAATA
14437088 AG
1 AG
14437090 CATACGCCGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.52, C:0.25, G:0.14, T:0.09
Consensus pattern (21 bp):
AGAAACAGCGCTCCAAAAATA
Found at i:14443696 original size:20 final size:20
Alignment explanation
Indices: 14443613--14443698 Score: 68
Period size: 20 Copynumber: 4.2 Consensus size: 20
14443603 AATTTATTCG
*
14443613 TTAAATATAATTTATATAATA
1 TTAAATTTAATTTATAT-ATA
** **
14443634 AAAAATTTAA-AAATATATA
1 TTAAATTTAATTTATATATA
*
14443653 CTTAAATTTAATTTA-ATAAAA
1 -TTAAATTTAATTTATAT-ATA
*
14443674 TTATATTTAATTTATATATA
1 TTAAATTTAATTTATATATA
14443694 TTAAA
1 TTAAA
14443699 AATAAAAATA
Statistics
Matches: 48, Mismatches: 13, Indels: 9
0.69 0.19 0.13
Matches are distributed among these distances:
19 3 0.06
20 33 0.69
21 12 0.25
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.45
Consensus pattern (20 bp):
TTAAATTTAATTTATATATA
Found at i:14443698 original size:26 final size:27
Alignment explanation
Indices: 14443643--14443699 Score: 64
Period size: 26 Copynumber: 2.1 Consensus size: 27
14443633 AAAAAATTTA
*
14443643 AAAATATATACTTAAATTTAATTTAAT
1 AAAATATATACTTAAATTTAATATAAT
* *
14443670 AAAAT-TATA-TTTAATTTATATATATT
1 AAAATATATACTTAAATTTA-ATATAAT
14443696 AAAA
1 AAAA
14443700 ATAAAAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
25 8 0.31
26 13 0.50
27 5 0.19
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (27 bp):
AAAATATATACTTAAATTTAATATAAT
Found at i:14444018 original size:14 final size:14
Alignment explanation
Indices: 14443999--14444035 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
14443989 AGAACACTTT
14443999 AAAATTTTAAATTA
1 AAAATTTTAAATTA
* *
14444013 AAAATTCTAATTTA
1 AAAATTTTAAATTA
14444027 AAAATTTTA
1 AAAATTTTA
14444036 GGTTTTGGGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (14 bp):
AAAATTTTAAATTA
Found at i:14447313 original size:11 final size:11
Alignment explanation
Indices: 14447297--14447357 Score: 59
Period size: 11 Copynumber: 5.2 Consensus size: 11
14447287 TAAATTTAAA
14447297 TTATATTATAT
1 TTATATTATAT
*
14447308 TTATATTTTATTT
1 TTATA--TTATAT
14447321 TTATATTATAT
1 TTATATTATAT
* *
14447332 TTATCTCATAT
1 TTATATTATAT
14447343 TATCATATTATAT
1 T-T-ATATTATAT
14447356 TT
1 TT
14447358 TAAACTATCA
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
11 20 0.50
12 2 0.05
13 18 0.45
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (11 bp):
TTATATTATAT
Found at i:14447318 original size:13 final size:13
Alignment explanation
Indices: 14447298--14447392 Score: 56
Period size: 11 Copynumber: 7.4 Consensus size: 13
14447288 AAATTTAAAT
14447298 TATATTATATTTA
1 TATATTATATTTA
*
14447311 TAT-TT-TATTTT
1 TATATTATATTTA
14447322 TATATTATA-TT-
1 TATATTATATTTA
* *
14447333 TATCTCATA-TTA
1 TATATTATATTTA
14447345 TCATATTATATTTTA
1 T-ATATTATA-TTTA
* * *
14447360 AACTATCATATATA
1 TA-TATTATATTTA
*
14447374 TATATATATATATA
1 TATAT-TATATTTA
14447388 TATAT
1 TATAT
14447393 ACACTTAAAA
Statistics
Matches: 64, Mismatches: 10, Indels: 15
0.72 0.11 0.17
Matches are distributed among these distances:
11 17 0.27
12 7 0.11
13 14 0.22
14 17 0.27
15 9 0.14
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (13 bp):
TATATTATATTTA
Found at i:14447343 original size:24 final size:24
Alignment explanation
Indices: 14447296--14447357 Score: 79
Period size: 24 Copynumber: 2.6 Consensus size: 24
14447286 ATAAATTTAA
**
14447296 ATTATATTATATTTATATTTTATT
1 ATTATATTATATTTATATCATATT
* *
14447320 TTTATATTATATTTATCTCATATT
1 ATTATATTATATTTATATCATATT
*
14447344 ATCATATTATATTT
1 ATTATATTATATTT
14447358 TAAACTATCA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (24 bp):
ATTATATTATATTTATATCATATT
Found at i:14447374 original size:2 final size:2
Alignment explanation
Indices: 14447367--14447393 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
14447357 TTAAACTATC
14447367 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
14447394 CACTTAAAAG
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:14447800 original size:18 final size:17
Alignment explanation
Indices: 14447769--14447803 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
14447759 TATATAAATT
*
14447769 TTTTATTTTTTATTTAA
1 TTTTATTTTATATTTAA
14447786 TTTTATATTTATATTTAA
1 TTTTAT-TTTATATTTAA
14447804 AATTAATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTATTTTATATTTAA
Found at i:14448386 original size:49 final size:50
Alignment explanation
Indices: 14448277--14448391 Score: 160
Period size: 49 Copynumber: 2.2 Consensus size: 50
14448267 ATTAAAAAAT
* *
14448277 GAACTAGATGATGAAGATGCATCACTCACCTTTGATCAGTTGTGTTAATTTAAG
1 GAACTAGA--ATGAAGATGCATCACTCACCTTTGA--AGTTGTGTCAATGTAAG
*
14448331 GGACTAGAATGAAGATGCATCACTCACCTTTG-AGTTGTGTCAATGTAAG
1 GAACTAGAATGAAGATGCATCACTCACCTTTGAAGTTGTGTCAATGTAAG
14448380 GAACTAGAATGA
1 GAACTAGAATGA
14448392 TTGAATCCTT
Statistics
Matches: 57, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
49 26 0.46
52 24 0.42
54 7 0.12
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.30
Consensus pattern (50 bp):
GAACTAGAATGAAGATGCATCACTCACCTTTGAAGTTGTGTCAATGTAAG
Found at i:14456095 original size:2 final size:2
Alignment explanation
Indices: 14456088--14456140 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
14456078 ATCCCCACTC
14456088 AT AT AT AT 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 AT AT AT AT
14456130 AT AT AT AT AT A
1 AT AT AT AT AT A
14456141 AGCTGCATGT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:14460606 original size:32 final size:32
Alignment explanation
Indices: 14460565--14460628 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
14460555 AAATATTTTG
14460565 AAAATTAAAAATATAAAGAGATAATCAACTAT
1 AAAATTAAAAATATAAAGAGATAATCAACTAT
14460597 AAAATTAAAAATATAAAGAGATAATCAACTAT
1 AAAATTAAAAATATAAAGAGATAATCAACTAT
14460629 CTTCTTAAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.62, C:0.06, G:0.06, T:0.25
Consensus pattern (32 bp):
AAAATTAAAAATATAAAGAGATAATCAACTAT
Found at i:14466792 original size:54 final size:54
Alignment explanation
Indices: 14466749--14466912 Score: 173
Period size: 54 Copynumber: 3.0 Consensus size: 54
14466739 TATCCTTAAT
14466749 TAATTAATTAAGGTAAAAAAATATAATTA-TATTATTATATATTAT-TTATATATA
1 TAATTAATTAAGGTAAAAAAATAT-ATTATTA-TATTATATATTATATTATATATA
* *
14466803 TAATTAATTAAGGTAAAAAAATATATTATTATATAATATATTATATAATATATA
1 TAATTAATTAAGGTAAAAAAATATATTATTATATTATATATTATATTATATATA
14466857 T-A-T-A-TAAGGATATAATATATAATATATTATATATATTATA-A-TATATTATAATATA
1 TAATTAATTAAGG-TA-AA-A-A-AATATATTAT-TATATTATATATTATATTAT-ATATA
14466912 T
1 T
14466913 TATAATATAT
Statistics
Matches: 97, Mismatches: 4, Indels: 17
0.82 0.03 0.14
Matches are distributed among these distances:
50 5 0.05
51 3 0.03
52 3 0.03
53 18 0.19
54 43 0.44
55 17 0.18
56 8 0.08
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (54 bp):
TAATTAATTAAGGTAAAAAAATATATTATTATATTATATATTATATTATATATA
Found at i:14466807 original size:58 final size:55
Alignment explanation
Indices: 14466727--14466863 Score: 165
Period size: 54 Copynumber: 2.4 Consensus size: 55
14466717 GTTATTGTTG
*
14466727 TATATATTATTATATCCT-TAATTAATTAATTAAGGTAAAAAAATATAATTA-TATTAT
1 TATATATTATTATAT-ATATAA-TAATTAATTAAGGTAAAAAAATAT-ATTATTA-TAT
14466784 TATATATTATT-TATATAT-ATAATTAATTAAGGTAAAAAAATATATTATTATAT
1 TATATATTATTATATATATAATAATTAATTAAGGTAAAAAAATATATTATTATAT
*
14466837 AATATATTATATAATATATATATATAA
1 TATATATTAT-T-ATATATATA-ATAA
14466864 GGATATAATA
Statistics
Matches: 71, Mismatches: 2, Indels: 13
0.83 0.02 0.15
Matches are distributed among these distances:
53 16 0.23
54 27 0.38
55 2 0.03
56 11 0.15
57 11 0.15
58 4 0.06
ACGTcount: A:0.50, C:0.01, G:0.03, T:0.46
Consensus pattern (55 bp):
TATATATTATTATATATATAATAATTAATTAAGGTAAAAAAATATATTATTATAT
Found at i:14466828 original size:2 final size:2
Alignment explanation
Indices: 14466823--14466943 Score: 98
Period size: 2 Copynumber: 69.0 Consensus size: 2
14466813 AGGTAAAAAA
14466823 AT AT AT -T AT -T AT AT A- AT AT AT -T AT AT A- AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
14466860 AT A- AGG AT AT A- AT AT AT A- AT AT AT -T AT AT AT AT -T AT A-
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14466897 AT AT AT -T AT A- AT AT AT -T AT A- AT AT AT AT -T AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14466933 AT A- AT AT AT AT
1 AT AT AT AT AT AT
14466944 CCTTAATTAT
Statistics
Matches: 99, Mismatches: 1, Indels: 38
0.72 0.01 0.28
Matches are distributed among these distances:
1 18 0.18
2 80 0.81
3 1 0.01
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:14466846 original size:12 final size:12
Alignment explanation
Indices: 14466829--14466974 Score: 107
Period size: 12 Copynumber: 12.7 Consensus size: 12
14466819 AAAAATATAT
14466829 TATTATATAATA
1 TATTATATAATA
14466841 TATTATATAATA
1 TATTATATAATA
14466853 TA-TATAT-ATA
1 TATTATATAATA
**
14466863 -AGGATATAATA
1 TATTATATAATA
* *
14466874 TATAATATATTA
1 TATTATATAATA
14466886 TATATATTATAATA
1 TAT-TA-TATAATA
14466900 TA-T-TATAATA
1 TATTATATAATA
14466910 TATTATA-ATATA
1 TATTATATA-ATA
14466922 TATTAT-T-ATA
1 TATTATATAATA
*
14466932 TATAATAT-ATA
1 TATTATATAATA
* *
14466943 TCCTTA-ATTATA
1 T-ATTATATAATA
14466955 T-TGTATATAATA
1 TAT-TATATAATA
14466967 TATTATAT
1 TATTATAT
14466975 CCTTAATTAA
Statistics
Matches: 109, Mismatches: 10, Indels: 30
0.73 0.07 0.20
Matches are distributed among these distances:
9 1 0.01
10 25 0.23
11 19 0.17
12 54 0.50
13 2 0.02
14 8 0.07
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.49
Consensus pattern (12 bp):
TATTATATAATA
Found at i:14466954 original size:19 final size:18
Alignment explanation
Indices: 14466874--14466973 Score: 76
Period size: 19 Copynumber: 5.2 Consensus size: 18
14466864 GGATATAATA
14466874 TATAATATATTAT-ATATAT
1 TATAATATA-TATCAT-TAT
*
14466893 TATAATATATTATAATATAT
1 TATAATATA-TATCAT-TAT
*
14466913 TATAATATATATTATTAT
1 TATAATATATATCATTAT
*
14466931 ATATAATATATATCCTTAAT
1 -TATAATATATATCATT-AT
* * *
14466951 TATATTGTATATAATATAT
1 TATAATATATATCAT-TAT
14466970 TATA
1 TATA
14466974 TCCTTAATTA
Statistics
Matches: 70, Mismatches: 7, Indels: 8
0.82 0.08 0.09
Matches are distributed among these distances:
18 3 0.04
19 49 0.70
20 18 0.26
ACGTcount: A:0.46, C:0.02, G:0.01, T:0.51
Consensus pattern (18 bp):
TATAATATATATCATTAT
Found at i:14471618 original size:43 final size:43
Alignment explanation
Indices: 14471553--14471639 Score: 138
Period size: 43 Copynumber: 2.0 Consensus size: 43
14471543 GACTTAAGAT
*
14471553 ATCACCTTTCCAAGAATATCAGTTCCTATTAGAAGCCAATCTA
1 ATCACCTTTCCAAGAATATCAGTTCATATTAGAAGCCAATCTA
* * *
14471596 ATCACCTTTCCAATAATGTCAGTTCATATTAGAAGCCATTCTA
1 ATCACCTTTCCAAGAATATCAGTTCATATTAGAAGCCAATCTA
14471639 A
1 A
14471640 CTTTTATATT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.34, C:0.24, G:0.09, T:0.32
Consensus pattern (43 bp):
ATCACCTTTCCAAGAATATCAGTTCATATTAGAAGCCAATCTA
Found at i:14478163 original size:51 final size:51
Alignment explanation
Indices: 14478101--14478202 Score: 134
Period size: 51 Copynumber: 2.0 Consensus size: 51
14478091 ACTAAATTCA
* * *
14478101 ATCTAATCCAACTCACGAACAAATTTAATT-TAGCGTTTTGTCTCTTTAAAT
1 ATCTAACCCAACTCACGAACAAATATAATTCT-GAGTTTTGTCTCTTTAAAT
* * *
14478152 ATCTAACCCAACTCATGAACAGATATAGTTCTGAGTTTTGTCTCTTTAAAT
1 ATCTAACCCAACTCACGAACAAATATAATTCTGAGTTTTGTCTCTTTAAAT
14478203 TATGTTTCCT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
51 43 0.98
52 1 0.02
ACGTcount: A:0.32, C:0.20, G:0.10, T:0.38
Consensus pattern (51 bp):
ATCTAACCCAACTCACGAACAAATATAATTCTGAGTTTTGTCTCTTTAAAT
Found at i:14479195 original size:2 final size:2
Alignment explanation
Indices: 14479183--14479214 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
14479173 TCCAAGCTTG
*
14479183 TA TA AA 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
14479215 ATCTCAGGCC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:14479773 original size:13 final size:15
Alignment explanation
Indices: 14479744--14479779 Score: 58
Period size: 13 Copynumber: 2.5 Consensus size: 15
14479734 ACGTAGAAAA
14479744 AAATTTATAAATATT
1 AAATTTATAAATATT
14479759 AAATTTA-AAAT-TT
1 AAATTTATAAATATT
14479772 AAATTTAT
1 AAATTTAT
14479780 TGAATATCAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 9 0.45
14 4 0.20
15 7 0.35
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
AAATTTATAAATATT
Found at i:14482937 original size:10 final size:10
Alignment explanation
Indices: 14482922--14482956 Score: 61
Period size: 10 Copynumber: 3.5 Consensus size: 10
14482912 AAGTTGTGTC
14482922 TATTTATATA
1 TATTTATATA
14482932 TATTTATATA
1 TATTTATATA
*
14482942 TATATATATA
1 TATTTATATA
14482952 TATTT
1 TATTT
14482957 TTAACGGAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (10 bp):
TATTTATATA
Found at i:14486032 original size:15 final size:15
Alignment explanation
Indices: 14486014--14486052 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
14486004 TTTTTATTAT
*
14486014 TTTATTTATTGGTTC
1 TTTATTTATTGGTTA
*
14486029 TTTATTTATTTGTTA
1 TTTATTTATTGGTTA
*
14486044 TTCATTTAT
1 TTTATTTAT
14486053 CTATAAATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.18, C:0.05, G:0.08, T:0.69
Consensus pattern (15 bp):
TTTATTTATTGGTTA
Found at i:14486110 original size:90 final size:91
Alignment explanation
Indices: 14486015--14486191 Score: 320
Period size: 90 Copynumber: 2.0 Consensus size: 91
14486005 TTTTATTATT
14486015 TTATTTATTGGTTCTTTATTTATTTGTTATTCATTTATCTATAAATATATTTTTTAAAAAAA-AT
1 TTATTTATTGGTTCTTTATTTATTTGTTATTCATTTATCTATAAATATATTTTTTAAAAAAATAT
14486079 TTAAATAAAATAAAAAGAATCTCACC
66 TTAAATAAAATAAAAAGAATCTCACC
* * *
14486105 TTATTTATTGGTTTTTTATTTATTTGTTATTCATTTATCTATAAATATTTTTTTTAAAAAAATTT
1 TTATTTATTGGTTCTTTATTTATTTGTTATTCATTTATCTATAAATATATTTTTTAAAAAAATAT
14486170 TTAAATAAAATAAAAAGAATCT
66 TTAAATAAAATAAAAAGAATCT
14486192 TATCAACACA
Statistics
Matches: 83, Mismatches: 3, Indels: 1
0.95 0.03 0.01
Matches are distributed among these distances:
90 60 0.72
91 23 0.28
ACGTcount: A:0.39, C:0.06, G:0.05, T:0.51
Consensus pattern (91 bp):
TTATTTATTGGTTCTTTATTTATTTGTTATTCATTTATCTATAAATATATTTTTTAAAAAAATAT
TTAAATAAAATAAAAAGAATCTCACC
Found at i:14486290 original size:11 final size:11
Alignment explanation
Indices: 14486274--14486323 Score: 82
Period size: 11 Copynumber: 4.4 Consensus size: 11
14486264 TTGAAAGATT
14486274 TAAATTTTTAA
1 TAAATTTTTAA
14486285 TAAATTTTTAA
1 TAAATTTTTAA
14486296 TAAATTTTTAA
1 TAAATTTTTAA
14486307 TAAATTATTTTAA
1 TAAA-T-TTTTAA
14486320 TAAA
1 TAAA
14486324 ATAAAAAGCC
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
11 26 0.70
12 1 0.03
13 10 0.27
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
TAAATTTTTAA
Found at i:14487324 original size:127 final size:127
Alignment explanation
Indices: 14487096--14487349 Score: 463
Period size: 127 Copynumber: 2.0 Consensus size: 127
14487086 AAAAAACATA
14487096 AGTGATGATTTCTCTCGTTAAGTCTAGTTATAGGTCTATAAATTTATACGTTATGACAAAAACAT
1 AGTGATGATTTCTCTCGTTAAGTCTAGTTATAGGTCTATAAATTTATACGTTATGACAAAAACAT
* *
14487161 ATTTTTAATACCATCCTACTTCCATGCTATCAAAAGAAGATGCTTAGGCCTCGTTTAATATT
66 ATTTTTAATACCAACCTACTTCCATGCTATCAAAAGAAGACGCTTAGGCCTCGTTTAATATT
14487223 AGTGATGATTTCTCTCGTTAAGTCTAGTTATAGGTCTATAAATTTATACGTTATGACAAAAACAT
1 AGTGATGATTTCTCTCGTTAAGTCTAGTTATAGGTCTATAAATTTATACGTTATGACAAAAACAT
* * *
14487288 ATTTTTAATACCAACTTACTTCCATGCTATCGAAAGAAGACGCTTAGGCCTCGTTTAGTATT
66 ATTTTTAATACCAACCTACTTCCATGCTATCAAAAGAAGACGCTTAGGCCTCGTTTAATATT
14487350 GCTTTTGGGA
Statistics
Matches: 122, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
127 122 1.00
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (127 bp):
AGTGATGATTTCTCTCGTTAAGTCTAGTTATAGGTCTATAAATTTATACGTTATGACAAAAACAT
ATTTTTAATACCAACCTACTTCCATGCTATCAAAAGAAGACGCTTAGGCCTCGTTTAATATT
Found at i:14489120 original size:52 final size:52
Alignment explanation
Indices: 14489030--14489186 Score: 226
Period size: 52 Copynumber: 3.0 Consensus size: 52
14489020 TATAACCATA
* * * * * *
14489030 CAAACTTGCCCATTAAGAATCTCTCTCCTCTTAAAATTCTTCTCTTGTAAGT
1 CAAACTTGCCTATTAAGAATCTTTTTCCTTTTAGAATTCTTCTCTTGCAAGT
14489082 CAAACTTGCCTATTAAGAATCTTTTTCCTTTTAGAATTCTTCTCTTGCAAGT
1 CAAACTTGCCTATTAAGAATCTTTTTCCTTTTAGAATTCTTCTCTTGCAAGT
* *
14489134 CAAACTTACCTATTAAGAATCTTCTTT-CTTTTAGAATTCTTCTTTTGCAAGT
1 CAAACTTGCCTATTAAGAATCTT-TTTCCTTTTAGAATTCTTCTCTTGCAAGT
14489186 C
1 C
14489187 TTCTTGTCCA
Statistics
Matches: 96, Mismatches: 8, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
52 93 0.97
53 3 0.03
ACGTcount: A:0.26, C:0.23, G:0.08, T:0.43
Consensus pattern (52 bp):
CAAACTTGCCTATTAAGAATCTTTTTCCTTTTAGAATTCTTCTCTTGCAAGT
Found at i:14489227 original size:11 final size:11
Alignment explanation
Indices: 14489211--14489241 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
14489201 GCAATATCTG
14489211 ACAAATCTCAA
1 ACAAATCTCAA
*
14489222 ACAAATCCCAA
1 ACAAATCTCAA
14489233 ACAAATCTC
1 ACAAATCTC
14489242 TTATGGGATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.52, C:0.32, G:0.00, T:0.16
Consensus pattern (11 bp):
ACAAATCTCAA
Found at i:14489555 original size:25 final size:25
Alignment explanation
Indices: 14489521--14489573 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
14489511 AACCATCGGT
* * *
14489521 TCTTTTCACATCTT-GAATCTTTAAC
1 TCTTCTCACAT-TTCGAACCTTCAAC
14489546 TCTTCTCACATTTCGAACCTTCAAC
1 TCTTCTCACATTTCGAACCTTCAAC
14489571 TCT
1 TCT
14489574 GATACCACTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 2 0.08
25 22 0.92
ACGTcount: A:0.23, C:0.30, G:0.04, T:0.43
Consensus pattern (25 bp):
TCTTCTCACATTTCGAACCTTCAAC
Found at i:14490260 original size:52 final size:52
Alignment explanation
Indices: 14490105--14490261 Score: 208
Period size: 52 Copynumber: 3.0 Consensus size: 52
14490095 TATAACCATA
* * * * *
14490105 CAAACTTACCCATTAAGAATCCCTTTCCTCTTAGAATTCTTCTCCTGTAAGT
1 CAAACTTACCTATTAAGAATCCCTTTTCTTTTAGAATTCTTCTCTTGCAAGT
* * *
14490157 CAAACTTGCCTATTAAGAAT-CTTTTTCCTTTTAGAATTCTTCTCTTACAAGT
1 CAAACTTACCTATTAAGAATCCCTTTT-CTTTTAGAATTCTTCTCTTGCAAGT
* *
14490209 CAAACTTACCTATTAAGAATCCGTTTTCTTTTAGAATTCTTCTTTTGCAAGT
1 CAAACTTACCTATTAAGAATCCCTTTTCTTTTAGAATTCTTCTCTTGCAAGT
14490261 C
1 C
14490262 TTCTTGTCCA
Statistics
Matches: 91, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
51 4 0.04
52 82 0.90
53 5 0.05
ACGTcount: A:0.27, C:0.24, G:0.08, T:0.41
Consensus pattern (52 bp):
CAAACTTACCTATTAAGAATCCCTTTTCTTTTAGAATTCTTCTCTTGCAAGT
Found at i:14490302 original size:11 final size:12
Alignment explanation
Indices: 14490286--14490317 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
14490276 GCAACATCTG
14490286 ACAAATCTC-AA
1 ACAAATCTCTAA
14490297 ACAAAT-TCTAA
1 ACAAATCTCTAA
14490308 ACAAATCTCT
1 ACAAATCTCT
14490318 CATGGGATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
10 2 0.11
11 14 0.74
12 3 0.16
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (12 bp):
ACAAATCTCTAA
Found at i:14491737 original size:14 final size:13
Alignment explanation
Indices: 14491682--14491730 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 13
14491672 TAAATATTAA
14491682 TTTTAATAAAATT
1 TTTTAATAAAATT
14491695 TATTTAATATAAATT
1 T-TTTAATA-AAATT
*
14491710 TTTTATTTAAAATT
1 TTTTA-ATAAAATT
14491724 TTTTAAT
1 TTTTAAT
14491731 CATAATTATA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
13 2 0.06
14 21 0.68
15 8 0.26
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
TTTTAATAAAATT
Found at i:14491757 original size:22 final size:23
Alignment explanation
Indices: 14491720--14491776 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
14491710 TTTTATTTAA
* *
14491720 AATTTTTTAATCATAATTATAGT
1 AATTTTTTTATCATAATAATAGT
*
14491743 AATTTTTTTAT-ATAATAATTGT
1 AATTTTTTTATCATAATAATAGT
*
14491765 AATAATTTTTAT
1 AAT-TTTTTTAT
14491777 TATTATTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 12 0.41
23 17 0.59
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.56
Consensus pattern (23 bp):
AATTTTTTTATCATAATAATAGT
Found at i:14491760 original size:25 final size:25
Alignment explanation
Indices: 14491722--14491779 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
14491712 TTATTTAAAA
* *
14491722 TTTTTTA-ATCATAATTATAGTAAT
1 TTTTTTATATAATAATTATAATAAT
*
14491746 TTTTTTATATAATAATTGTAATAAT
1 TTTTTTATATAATAATTATAATAAT
14491771 TTTTATTAT
1 TTTT-TTAT
14491780 TATTTTTAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 7 0.24
25 18 0.62
26 4 0.14
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (25 bp):
TTTTTTATATAATAATTATAATAAT
Found at i:14492961 original size:21 final size:21
Alignment explanation
Indices: 14492929--14492971 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
14492919 TTAAATAAGG
* *
14492929 TTATTTGATAAACAACTAAAA
1 TTATTTGATAAAAAAATAAAA
14492950 TTATTT-ATTAAAAAAATAAAA
1 TTATTTGA-TAAAAAAATAAAA
14492971 T
1 T
14492972 CTATATTTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (21 bp):
TTATTTGATAAAAAAATAAAA
Found at i:14493166 original size:5 final size:5
Alignment explanation
Indices: 14493156--14493188 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
14493146 ATATATATAT
*
14493156 ATTAG ATTAG ATTAG TTTAG ATTAG ATTAG ATT
1 ATTAG ATTAG ATTAG ATTAG ATTAG ATTAG ATT
14493189 TGAAATTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.45
Consensus pattern (5 bp):
ATTAG
Found at i:14496286 original size:29 final size:30
Alignment explanation
Indices: 14496253--14496310 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 30
14496243 ATTATAATAG
*
14496253 AATTTTCAATGTGATATTTAAATT-TTAAA
1 AATTTTCAATATGATATTTAAATTATTAAA
*
14496282 AATTTTTAATATGATATTTAAATTATTAA
1 AATTTTCAATATGATATTTAAATTATTAA
14496311 TTTTTTAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 22 0.85
30 4 0.15
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (30 bp):
AATTTTCAATATGATATTTAAATTATTAAA
Found at i:14499497 original size:13 final size:13
Alignment explanation
Indices: 14499479--14499526 Score: 68
Period size: 13 Copynumber: 4.0 Consensus size: 13
14499469 GACACATGTT
14499479 TATTAATATAAAA
1 TATTAATATAAAA
14499492 TATTAATATAAAA
1 TATTAATATAAAA
14499505 TATTAA-A-AAAA
1 TATTAATATAAAA
14499516 -A-TAATATAAAA
1 TATTAATATAAAA
14499527 AGTTATACTC
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
9 3 0.09
10 2 0.06
11 8 0.24
12 1 0.03
13 19 0.58
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
TATTAATATAAAA
Found at i:14501903 original size:24 final size:24
Alignment explanation
Indices: 14501862--14501908 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
14501852 TTGATGACAA
14501862 ATATTTTTCTATGATTCTAGAAAAT
1 ATATTTTTCTATGATTCTA-AAAAT
14501887 ATATTTTTGCT-TG-TTCTAAAAA
1 ATATTTTT-CTATGATTCTAAAAA
14501909 GCAAATGATG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.19
24 5 0.24
25 10 0.48
26 2 0.10
ACGTcount: A:0.34, C:0.09, G:0.09, T:0.49
Consensus pattern (24 bp):
ATATTTTTCTATGATTCTAAAAAT
Found at i:14503005 original size:14 final size:15
Alignment explanation
Indices: 14502988--14503016 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
14502978 GTATTTTTAT
14502988 ATTTTT-TTAAATAA
1 ATTTTTATTAAATAA
14503002 ATTTTTATTAAATAA
1 ATTTTTATTAAATAA
14503017 TATAAATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTTTTATTAAATAA
Found at i:14503711 original size:21 final size:23
Alignment explanation
Indices: 14503669--14503718 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
14503659 TTGTCACATT
* *
14503669 TAAAATAT-TAAAAATCTGAACA
1 TAAAATTTGTAAAAATCTCAACA
14503691 -AAAATTTGTAAAAAT-TCAACA
1 TAAAATTTGTAAAAATCTCAACA
14503712 TAAAATT
1 TAAAATT
14503719 GACCTAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
21 11 0.46
22 13 0.54
ACGTcount: A:0.58, C:0.08, G:0.04, T:0.30
Consensus pattern (23 bp):
TAAAATTTGTAAAAATCTCAACA
Found at i:14503943 original size:13 final size:14
Alignment explanation
Indices: 14503920--14503951 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
14503910 AGTCTTGAGT
14503920 TTTTTATAATTTTA
1 TTTTTATAATTTTA
14503934 TTTTTA-AATTTTA
1 TTTTTATAATTTTA
14503947 TTTTT
1 TTTTT
14503952 TTATTTATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (14 bp):
TTTTTATAATTTTA
Found at i:14503952 original size:14 final size:15
Alignment explanation
Indices: 14503919--14503952 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
14503909 AAGTCTTGAG
14503919 TTTTTTATAATTTTA
1 TTTTTTATAATTTTA
14503934 -TTTTTA-AATTTTA
1 TTTTTTATAATTTTA
14503947 TTTTTT
1 TTTTTT
14503953 TATTTATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTTTATAATTTTA
Found at i:14511557 original size:21 final size:20
Alignment explanation
Indices: 14511526--14511566 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
14511516 ATCTGAACAT
*
14511526 AAAAAATGATATAAATATTA
1 AAAAAATGATAAAAATATTA
14511546 AAAAAATAGATAAAAATATTA
1 AAAAAAT-GATAAAAATATTA
14511567 TTTTTTATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (20 bp):
AAAAAATGATAAAAATATTA
Found at i:14519598 original size:20 final size:20
Alignment explanation
Indices: 14519573--14519615 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
14519563 TTATATATAT
* *
14519573 TATTTTAAAATAATTTTTAA
1 TATTTTAAAATAAATTTAAA
14519593 TATTTTAAAATAAATTTAAA
1 TATTTTAAAATAAATTTAAA
14519613 TAT
1 TAT
14519616 AAAATAATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TATTTTAAAATAAATTTAAA
Found at i:14519619 original size:37 final size:37
Alignment explanation
Indices: 14519578--14519653 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 37
14519568 TATATTATTT
*
14519578 TAAAATAATT-TTTAATATTTTA-AAATAAATTTAAATA
1 TAAAATAATTATTT-ATATTTTATAAA-AAATTAAAATA
*
14519615 TAAAATAATTATTTTTATTTTATAAAAAATTAAAATA
1 TAAAATAATTATTTATATTTTATAAAAAATTAAAATA
14519652 TA
1 TA
14519654 TACAAAAGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
37 29 0.83
38 6 0.17
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (37 bp):
TAAAATAATTATTTATATTTTATAAAAAATTAAAATA
Found at i:14519738 original size:18 final size:17
Alignment explanation
Indices: 14519715--14519763 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 17
14519705 AATACTTTTC
*
14519715 AATTTAAAATTTGATTTA
1 AATTTAATATTT-ATTTA
*
14519733 AATTTAATATATATTTA
1 AATTTAATATTTATTTA
14519750 ATATTTAATATTTA
1 A-ATTTAATATTTA
14519764 ATATTTAAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
17 6 0.22
18 21 0.78
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (17 bp):
AATTTAATATTTATTTA
Done.