Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 17 of 204
Found at i:5039466 original size:24 final size:24
Alignment explanation
Indices: 5039437--5039488 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
5039427 TCGAATAGTG
5039437 TATATACATATACATTATAAAATA
1 TATATACATATACATTATAAAATA
* * **
5039461 TATATATATTTGGATTATAAAATA
1 TATATACATATACATTATAAAATA
5039485 TATA
1 TATA
5039489 AAAACTATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (24 bp):
TATATACATATACATTATAAAATA
Found at i:5044937 original size:16 final size:17
Alignment explanation
Indices: 5044905--5044937 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
5044895 AATGTATTCT
*
5044905 AAATTACATATATATAA
1 AAATAACATATATATAA
5044922 AAATAACATA-ATATAA
1 AAATAACATATATATAA
5044938 GCCAGAACCC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (17 bp):
AAATAACATATATATAA
Found at i:5051841 original size:83 final size:84
Alignment explanation
Indices: 5051690--5051845 Score: 217
Period size: 84 Copynumber: 1.9 Consensus size: 84
5051680 AGGGTTTTAA
* * * * * *
5051690 TTTTTTTGTAGTATTATTTATTTGTATGTTTGTCACTTAATTATAAAAAACTAAATAAATACTGA
1 TTTTTTTGTAGTATTATTTATCTGTATGCTTCTCAATTAAGTATAAAAAACTAAATAAATACTAA
5051755 AATGGTATATTTGAGAAGT
66 AATGGTATATTTGAGAAGT
* *
5051774 TTTTTTTGTATTATTATTTATCTGTATGCTTCTTAATT-AGTATAAAAAAC-AAATTAAATACTA
1 TTTTTTTGTAGTATTATTTATCTGTATGCTTCTCAATTAAGTATAAAAAACTAAA-TAAATACTA
5051837 AAATGGTAT
65 AAATGGTAT
5051846 GGTTGAGGCG
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
82 3 0.05
83 28 0.44
84 32 0.51
ACGTcount: A:0.37, C:0.06, G:0.11, T:0.47
Consensus pattern (84 bp):
TTTTTTTGTAGTATTATTTATCTGTATGCTTCTCAATTAAGTATAAAAAACTAAATAAATACTAA
AATGGTATATTTGAGAAGT
Found at i:5051852 original size:83 final size:84
Alignment explanation
Indices: 5051690--5051852 Score: 213
Period size: 83 Copynumber: 2.0 Consensus size: 84
5051680 AGGGTTTTAA
* * * * * *
5051690 TTTTTTTGTAGTATTATTTATTTGTATGTTTGTCACTTAATTATAAAAAACTAAATAAATACTGA
1 TTTTTTTGTAGTATTATTTATCTGTATGCTTCTCAATTAAGTATAAAAAACTAAATAAATACTAA
*
5051755 AATGGTATATTTGAGAAGT
66 AATGGTATAGTTGAGAAGT
* *
5051774 TTTTTTTGTATTATTATTTATCTGTATGCTTCTTAATT-AGTATAAAAAAC-AAATTAAATACTA
1 TTTTTTTGTAGTATTATTTATCTGTATGCTTCTCAATTAAGTATAAAAAACTAAA-TAAATACTA
*
5051837 AAATGGTATGGTTGAG
65 AAATGGTATAGTTGAG
5051853 GCGGGTTCTT
Statistics
Matches: 68, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
82 3 0.04
83 33 0.49
84 32 0.47
ACGTcount: A:0.36, C:0.06, G:0.13, T:0.46
Consensus pattern (84 bp):
TTTTTTTGTAGTATTATTTATCTGTATGCTTCTCAATTAAGTATAAAAAACTAAATAAATACTAA
AATGGTATAGTTGAGAAGT
Found at i:5057538 original size:16 final size:16
Alignment explanation
Indices: 5057517--5057547 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
5057507 AGAAAGAATG
5057517 AAAGAACAAAAAAAAC
1 AAAGAACAAAAAAAAC
5057533 AAAGAACAAAAAAAA
1 AAAGAACAAAAAAAA
5057548 AAACAAAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.84, C:0.10, G:0.06, T:0.00
Consensus pattern (16 bp):
AAAGAACAAAAAAAAC
Found at i:5057557 original size:17 final size:20
Alignment explanation
Indices: 5057524--5057564 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
5057514 ATGAAAGAAC
5057524 AAAAAAAACAAAGAACAAA-
1 AAAAAAAACAAAGAACAAAG
5057543 AAAAAAAAC-AA-AACAAAG
1 AAAAAAAACAAAGAACAAAG
5057561 AAAA
1 AAAA
5057565 TCCAAGAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 6 0.29
18 6 0.29
19 9 0.43
ACGTcount: A:0.85, C:0.10, G:0.05, T:0.00
Consensus pattern (20 bp):
AAAAAAAACAAAGAACAAAG
Found at i:5058998 original size:26 final size:27
Alignment explanation
Indices: 5058947--5058998 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
5058937 TACTACAACC
*
5058947 ATTCAACAAAACACAAAAATTACTACA
1 ATTCAACAAAACAAAAAAATTACTACA
*
5058974 ATTCAAGAAAACAAAAAAATT-CTAC
1 ATTCAACAAAACAAAAAAATTACTAC
5058999 TGGTGCCGCC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 4 0.17
27 19 0.83
ACGTcount: A:0.60, C:0.19, G:0.02, T:0.19
Consensus pattern (27 bp):
ATTCAACAAAACAAAAAAATTACTACA
Found at i:5059084 original size:31 final size:30
Alignment explanation
Indices: 5058995--5059085 Score: 94
Period size: 31 Copynumber: 2.9 Consensus size: 30
5058985 CAAAAAAATT
* * * *
5058995 CTACTGGTGCCGCCTAATAGTGCCCTTCCTT
1 CTACTGGTGCCGCTTGACAGTGCCC-TCCTC
5059026 CTACTGGTGCCGCTTGACAGACT-CCCTCCTC
1 CTACTGGTGCCGCTTGACAG--TGCCCTCCTC
*
5059057 CTATTGGTGCCGCTTGACATGTGCCCTCC
1 CTACTGGTGCCGCTTGACA-GTGCCCTCC
5059086 AACCTTGGTG
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
30 1 0.02
31 45 0.88
32 4 0.08
33 1 0.02
ACGTcount: A:0.12, C:0.37, G:0.21, T:0.30
Consensus pattern (30 bp):
CTACTGGTGCCGCTTGACAGTGCCCTCCTC
Found at i:5063895 original size:25 final size:25
Alignment explanation
Indices: 5063833--5063955 Score: 101
Period size: 25 Copynumber: 5.0 Consensus size: 25
5063823 GTCATTAGGA
* * *
5063833 TTACCGAT-TTCAACTCTTATGAGC
1 TTACCGTTATTCAGCTCGTATGAGC
* * *
5063857 TTATCGATACTCAGCTCGTATGAGC
1 TTACCGTTATTCAGCTCGTATGAGC
* *
5063882 TTACCGTTATTCAGCTTGGAAT-AGC
1 TTACCGTTATTCAGC-TCGTATGAGC
* * *
5063907 TTACTGTTATTCAGCTCGGAGGAGC
1 TTACCGTTATTCAGCTCGTATGAGC
5063932 TTACCGTT-TAT-AGCTCGTATGAGC
1 TTACCGTTAT-TCAGCTCGTATGAGC
5063956 ATACATGTAC
Statistics
Matches: 79, Mismatches: 16, Indels: 8
0.77 0.16 0.08
Matches are distributed among these distances:
24 22 0.28
25 53 0.67
26 4 0.05
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (25 bp):
TTACCGTTATTCAGCTCGTATGAGC
Found at i:5064097 original size:26 final size:26
Alignment explanation
Indices: 5064066--5064117 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
5064056 CACAGGTATT
5064066 TACATGAGATATATGA-AAATGATTTG
1 TACATGAGATATA-GATAAATGATTTG
* *
5064092 TACATGATATATAGATATATGATTTG
1 TACATGAGATATAGATAAATGATTTG
5064118 ATAAATTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 2 0.09
26 21 0.91
ACGTcount: A:0.40, C:0.04, G:0.17, T:0.38
Consensus pattern (26 bp):
TACATGAGATATAGATAAATGATTTG
Found at i:5067199 original size:47 final size:47
Alignment explanation
Indices: 5067082--5067260 Score: 216
Period size: 47 Copynumber: 3.7 Consensus size: 47
5067072 GGCAGTGAGT
* * *
5067082 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATAGTTCGAGGA
1 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-TCG--AGATGA
*
5067132 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTCGAGATGA
1 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTCGAGATGA
* * *
5067179 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACTGATATGT
1 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTC-GAGATGA
* * *
5067227 GATCCCA-TGTAAGACCATATCTGGGATATGGCAT
1 G-TGCCAGTGTAAGACCATGTCTGGGACATGGCAT
5067261 TGGCAGTACA
Statistics
Matches: 116, Mismatches: 11, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
47 42 0.36
48 31 0.27
49 6 0.05
50 37 0.32
ACGTcount: A:0.25, C:0.20, G:0.31, T:0.24
Consensus pattern (47 bp):
GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTCGAGATGA
Found at i:5074071 original size:14 final size:14
Alignment explanation
Indices: 5074052--5074081 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
5074042 AATTTGAATT
5074052 TTGAGTTAATCGAA
1 TTGAGTTAATCGAA
*
5074066 TTGAGTTATTCGAA
1 TTGAGTTAATCGAA
5074080 TT
1 TT
5074082 ATTCGAGTCA
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:0.30, C:0.07, G:0.20, T:0.43
Consensus pattern (14 bp):
TTGAGTTAATCGAA
Found at i:5074260 original size:20 final size:20
Alignment explanation
Indices: 5074221--5074282 Score: 72
Period size: 20 Copynumber: 3.0 Consensus size: 20
5074211 TTCTCAACAA
5074221 AAATTACAAAATAGTTCAAAAT
1 AAATTACAAAA-A-TTCAAAAT
5074243 AAATTACAAAAATTCAAAAT
1 AAATTACAAAAATTCAAAAT
* *
5074263 -ATTTATAAAAATTCCAAAAT
1 AAATTACAAAAATT-CAAAAT
5074283 TTATATTTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
19 11 0.30
20 14 0.38
21 1 0.03
22 11 0.30
ACGTcount: A:0.60, C:0.10, G:0.02, T:0.29
Consensus pattern (20 bp):
AAATTACAAAAATTCAAAAT
Found at i:5074284 original size:18 final size:19
Alignment explanation
Indices: 5074235--5074287 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
5074225 TACAAAATAG
* *
5074235 TTCAAAATAAATTACAAAAA
1 TTCAAAAT-ATTTATAAAAA
5074255 TTCAAAATATTTATAAAAA
1 TTCAAAATATTTATAAAAA
*
5074274 TTCCAAA-ATTTATA
1 TTCAAAATATTTATA
5074288 TTTTAAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
18 7 0.23
19 15 0.50
20 8 0.27
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (19 bp):
TTCAAAATATTTATAAAAA
Found at i:5086286 original size:26 final size:26
Alignment explanation
Indices: 5086250--5086306 Score: 105
Period size: 26 Copynumber: 2.2 Consensus size: 26
5086240 CCATGAATTC
5086250 CTTGAAGCTTTTCCCGATCTTGGGGA
1 CTTGAAGCTTTTCCCGATCTTGGGGA
5086276 CTTGAAGCTTTTCCCGATCTTGGGGA
1 CTTGAAGCTTTTCCCGATCTTGGGGA
*
5086302 TTTGA
1 CTTGA
5086307 TCTTCCAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.16, C:0.21, G:0.26, T:0.37
Consensus pattern (26 bp):
CTTGAAGCTTTTCCCGATCTTGGGGA
Found at i:5086887 original size:22 final size:21
Alignment explanation
Indices: 5086857--5086897 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
5086847 GACAATTGGT
*
5086857 GCATGATTGGTTGTGAATTAA
1 GCATGATTGGATGTGAATTAA
*
5086878 GCATGAATTGGATGTTAATT
1 GCATG-ATTGGATGTGAATT
5086898 TACTTGTTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.29, C:0.05, G:0.27, T:0.39
Consensus pattern (21 bp):
GCATGATTGGATGTGAATTAA
Found at i:5089418 original size:50 final size:50
Alignment explanation
Indices: 5089360--5089458 Score: 135
Period size: 50 Copynumber: 2.0 Consensus size: 50
5089350 CGACCTACTT
* *
5089360 GATTTGCCCATGTAATAGCACACGCCCGTCTGCCCCCATATGGCCTAACC
1 GATTTGCCCATGTAATAGCACACGCCCGTCTGCCCCCACACGGCCTAACC
* * * * *
5089410 GATTTGCCCGTGTAATCGCACATGCTCGTGTGCCCCCACACGGCCTAAC
1 GATTTGCCCATGTAATAGCACACGCCCGTCTGCCCCCACACGGCCTAAC
5089459 ACACGGCCAT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 42 1.00
ACGTcount: A:0.20, C:0.37, G:0.20, T:0.22
Consensus pattern (50 bp):
GATTTGCCCATGTAATAGCACACGCCCGTCTGCCCCCACACGGCCTAACC
Found at i:5091794 original size:15 final size:15
Alignment explanation
Indices: 5091774--5091810 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
5091764 ACTAAAGTAT
5091774 TAAAGTAAAAGTAAC
1 TAAAGTAAAAGTAAC
* *
5091789 TAAAGTACAATTAAC
1 TAAAGTAAAAGTAAC
5091804 TAAAGTA
1 TAAAGTA
5091811 TACTTACTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.57, C:0.08, G:0.11, T:0.24
Consensus pattern (15 bp):
TAAAGTAAAAGTAAC
Found at i:5092963 original size:267 final size:268
Alignment explanation
Indices: 5092242--5093295 Score: 2056
Period size: 268 Copynumber: 3.9 Consensus size: 268
5092232 AAACCATTTC
*
5092242 ATTATTTTTAAAAAAACTTAAATAATTATTTAATCTTTGCAGTGGAAATTTCTAGAGTTTTAATT
1 ATTATTTTAAAAAAAACTTAAATAATTATTTAATCTTTGCAGTGGAAATTTCTAGAGTTTTAATT
5092307 TTGAAAATCAAATTTTTTGTAACACCCCTAACCCATATTCGTCACCGGAACAGGGTTACGAAGCA
66 TTGAAAATCAAATTTTTTGTAACACCCCTAACCCATATTCGTCACCGGAACAGGGTTACGAAGCA
5092372 TTACCAGAGTTTATAGATTAAATACAGTTATTCCATATCATTTACTATTCATATCAGAAATCAAT
131 TTACCAGAGTTTATAGATTAAATACAGTTATTCCATATCATTTACTATTCATATCAGAAATCAAT
5092437 CATATTCAATCATTATTGTCTTTTATATGAGACATCGAGGCCCAAAATATGCATTAATTTTGAAA
196 CATATTCAATCATTATTGTCTTTTATATGAGACATCGAGGCCCAAAATATGCATTAATTTTGAAA
5092502 ATTAAATA
261 ATTAAATA
5092510 ATTATTTTAAAAAAAACTTAAATAATTATTTAATCTTTGCAGTGGAAATTTCTAGAGTTTTAATT
1 ATTATTTTAAAAAAAACTTAAATAATTATTTAATCTTTGCAGTGGAAATTTCTAGAGTTTTAATT
* *
5092575 TTGAAAATCAAATTTTTTGTAACACCCCTAACCCATATTCATCACCTGAACAGGGTTACGAAGCA
66 TTGAAAATCAAATTTTTTGTAACACCCCTAACCCATATTCGTCACCGGAACAGGGTTACGAAGCA
5092640 TTACCAGAGTTTATAGATTAAATACAGTTATTCCATATCATTTACTATTCATATCAGAAATCAAT
131 TTACCAGAGTTTATAGATTAAATACAGTTATTCCATATCATTTACTATTCATATCAGAAATCAAT
5092705 CATATTCAATCATTATTGTCTTTTATATGAGACATCGAGGCCCAAAATATGCATTAATTTTGAAA
196 CATATTCAATCATTATTGTCTTTTATATGAGACATCGAGGCCCAAAATATGCATTAATTTTGAAA
5092770 ATTAAATA
261 ATTAAATA
5092778 ATTATTTT-AAAAAAACTTAAATAATTATTTAATCTTTGCAGTGGAAATTTCTAGAGTTTTAATT
1 ATTATTTTAAAAAAAACTTAAATAATTATTTAATCTTTGCAGTGGAAATTTCTAGAGTTTTAATT
5092842 TTGAAAATCAAATTTTTTGTAACACCCCTAACCCATATTCGTCACCGGAACAGGGTTACGAAGCA
66 TTGAAAATCAAATTTTTTGTAACACCCCTAACCCATATTCGTCACCGGAACAGGGTTACGAAGCA
5092907 TTACCAGAGTTTATAGATTAAATACAGTTATTCCATATCATTTACTATTCATATCAGAAATCAAT
131 TTACCAGAGTTTATAGATTAAATACAGTTATTCCATATCATTTACTATTCATATCAGAAATCAAT
5092972 CATATTCAATCATTATTGTCTTTTATATGAGACATCGAGGCCCAAAATATGCATTAATTTTGAAA
196 CATATTCAATCATTATTGTCTTTTATATGAGACATCGAGGCCCAAAATATGCATTAATTTTGAAA
5093037 ATTAAATA
261 ATTAAATA
5093045 ATTATTTTAAAAAAAACTTAAATAATTATTTAATCTTTGCAGTGGAAATTTCTAGAGTTTTAATT
1 ATTATTTTAAAAAAAACTTAAATAATTATTTAATCTTTGCAGTGGAAATTTCTAGAGTTTTAATT
5093110 TTGAAAATCAAATTTTTTGTAACACCCCTAACCCATATTCGTCACCGGAACAGGGTTACGAAGCA
66 TTGAAAATCAAATTTTTTGTAACACCCCTAACCCATATTCGTCACCGGAACAGGGTTACGAAGCA
*
5093175 TTACCAGAGTTTATAGATTAAATACAATTATTCCATATCATTTACTATTCATATCAGAAATCAAT
131 TTACCAGAGTTTATAGATTAAATACAGTTATTCCATATCATTTACTATTCATATCAGAAATCAAT
*
5093240 CATATTCAATCATTATTGTCTTTTATATGAGACCTCGAGGCCCAAAATATGCATTA
196 CATATTCAATCATTATTGTCTTTTATATGAGACATCGAGGCCCAAAATATGCATTA
5093296 GAAATAAGTC
Statistics
Matches: 778, Mismatches: 7, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
267 265 0.34
268 513 0.66
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (268 bp):
ATTATTTTAAAAAAAACTTAAATAATTATTTAATCTTTGCAGTGGAAATTTCTAGAGTTTTAATT
TTGAAAATCAAATTTTTTGTAACACCCCTAACCCATATTCGTCACCGGAACAGGGTTACGAAGCA
TTACCAGAGTTTATAGATTAAATACAGTTATTCCATATCATTTACTATTCATATCAGAAATCAAT
CATATTCAATCATTATTGTCTTTTATATGAGACATCGAGGCCCAAAATATGCATTAATTTTGAAA
ATTAAATA
Found at i:5093256 original size:535 final size:536
Alignment explanation
Indices: 5092242--5093295 Score: 2065
Period size: 535 Copynumber: 2.0 Consensus size: 536
5092232 AAACCATTTC
5092242 ATTATTTTTAAAAAAACTTAAATAATTATTTAATCTTTGCAGTGGAAATTTCTAGAGTTTTAATT
1 ATTATTTTTAAAAAAACTTAAATAATTATTTAATCTTTGCAGTGGAAATTTCTAGAGTTTTAATT
5092307 TTGAAAATCAAATTTTTTGTAACACCCCTAACCCATATTCGTCACCGGAACAGGGTTACGAAGCA
66 TTGAAAATCAAATTTTTTGTAACACCCCTAACCCATATTCGTCACCGGAACAGGGTTACGAAGCA
5092372 TTACCAGAGTTTATAGATTAAATACAGTTATTCCATATCATTTACTATTCATATCAGAAATCAAT
131 TTACCAGAGTTTATAGATTAAATACAGTTATTCCATATCATTTACTATTCATATCAGAAATCAAT
5092437 CATATTCAATCATTATTGTCTTTTATATGAGACATCGAGGCCCAAAATATGCATTAATTTTGAAA
196 CATATTCAATCATTATTGTCTTTTATATGAGACATCGAGGCCCAAAATATGCATTAATTTTGAAA
5092502 ATTAAATAATTATTTTAAAAAAAACTTAAATAATTATTTAATCTTTGCAGTGGAAATTTCTAGAG
261 ATTAAATAATTATTTTAAAAAAAACTTAAATAATTATTTAATCTTTGCAGTGGAAATTTCTAGAG
*
5092567 TTTTAATTTTGAAAATCAAATTTTTTGTAACACCCCTAACCCATATTCATCACCTGAACAGGGTT
326 TTTTAATTTTGAAAATCAAATTTTTTGTAACACCCCTAACCCATATTCATCACCGGAACAGGGTT
*
5092632 ACGAAGCATTACCAGAGTTTATAGATTAAATACAGTTATTCCATATCATTTACTATTCATATCAG
391 ACGAAGCATTACCAGAGTTTATAGATTAAATACAATTATTCCATATCATTTACTATTCATATCAG
5092697 AAATCAATCATATTCAATCATTATTGTCTTTTATATGAGACATCGAGGCCCAAAATATGCATTAA
456 AAATCAATCATATTCAATCATTATTGTCTTTTATATGAGACATCGAGGCCCAAAATATGCATTAA
5092762 TTTTGAAAATTAAATA
521 TTTTGAAAATTAAATA
5092778 ATTA-TTTTAAAAAAACTTAAATAATTATTTAATCTTTGCAGTGGAAATTTCTAGAGTTTTAATT
1 ATTATTTTTAAAAAAACTTAAATAATTATTTAATCTTTGCAGTGGAAATTTCTAGAGTTTTAATT
5092842 TTGAAAATCAAATTTTTTGTAACACCCCTAACCCATATTCGTCACCGGAACAGGGTTACGAAGCA
66 TTGAAAATCAAATTTTTTGTAACACCCCTAACCCATATTCGTCACCGGAACAGGGTTACGAAGCA
5092907 TTACCAGAGTTTATAGATTAAATACAGTTATTCCATATCATTTACTATTCATATCAGAAATCAAT
131 TTACCAGAGTTTATAGATTAAATACAGTTATTCCATATCATTTACTATTCATATCAGAAATCAAT
5092972 CATATTCAATCATTATTGTCTTTTATATGAGACATCGAGGCCCAAAATATGCATTAATTTTGAAA
196 CATATTCAATCATTATTGTCTTTTATATGAGACATCGAGGCCCAAAATATGCATTAATTTTGAAA
5093037 ATTAAATAATTATTTTAAAAAAAACTTAAATAATTATTTAATCTTTGCAGTGGAAATTTCTAGAG
261 ATTAAATAATTATTTTAAAAAAAACTTAAATAATTATTTAATCTTTGCAGTGGAAATTTCTAGAG
*
5093102 TTTTAATTTTGAAAATCAAATTTTTTGTAACACCCCTAACCCATATTCGTCACCGGAACAGGGTT
326 TTTTAATTTTGAAAATCAAATTTTTTGTAACACCCCTAACCCATATTCATCACCGGAACAGGGTT
5093167 ACGAAGCATTACCAGAGTTTATAGATTAAATACAATTATTCCATATCATTTACTATTCATATCAG
391 ACGAAGCATTACCAGAGTTTATAGATTAAATACAATTATTCCATATCATTTACTATTCATATCAG
*
5093232 AAATCAATCATATTCAATCATTATTGTCTTTTATATGAGACCTCGAGGCCCAAAATATGCATTA
456 AAATCAATCATATTCAATCATTATTGTCTTTTATATGAGACATCGAGGCCCAAAATATGCATTA
5093296 GAAATAAGTC
Statistics
Matches: 514, Mismatches: 4, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
535 510 0.99
536 4 0.01
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (536 bp):
ATTATTTTTAAAAAAACTTAAATAATTATTTAATCTTTGCAGTGGAAATTTCTAGAGTTTTAATT
TTGAAAATCAAATTTTTTGTAACACCCCTAACCCATATTCGTCACCGGAACAGGGTTACGAAGCA
TTACCAGAGTTTATAGATTAAATACAGTTATTCCATATCATTTACTATTCATATCAGAAATCAAT
CATATTCAATCATTATTGTCTTTTATATGAGACATCGAGGCCCAAAATATGCATTAATTTTGAAA
ATTAAATAATTATTTTAAAAAAAACTTAAATAATTATTTAATCTTTGCAGTGGAAATTTCTAGAG
TTTTAATTTTGAAAATCAAATTTTTTGTAACACCCCTAACCCATATTCATCACCGGAACAGGGTT
ACGAAGCATTACCAGAGTTTATAGATTAAATACAATTATTCCATATCATTTACTATTCATATCAG
AAATCAATCATATTCAATCATTATTGTCTTTTATATGAGACATCGAGGCCCAAAATATGCATTAA
TTTTGAAAATTAAATA
Found at i:5094789 original size:26 final size:26
Alignment explanation
Indices: 5094752--5094809 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
5094742 GGAAGCTTTG
5094752 AAGAG-CTATTAATCAGGAAGCTCACA
1 AAGAGACTATTAATCAGGAAGCTC-CA
* *
5094778 AAGAGACT-TTAATCGGGAAGCTCCG
1 AAGAGACTATTAATCAGGAAGCTCCA
5094803 AAGAGAC
1 AAGAGAC
5094810 ATATATCGGG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 8 0.28
26 19 0.66
27 2 0.07
ACGTcount: A:0.40, C:0.19, G:0.24, T:0.17
Consensus pattern (26 bp):
AAGAGACTATTAATCAGGAAGCTCCA
Found at i:5094817 original size:25 final size:25
Alignment explanation
Indices: 5094738--5094820 Score: 80
Period size: 25 Copynumber: 3.3 Consensus size: 25
5094728 AGCGAGCCAT
**
5094738 ATCGGGAAGCTTTGAAGAG-CTATTA
1 ATCGGGAAGCTCCGAAGAGACTA-TA
* * *
5094763 ATCAGGAAGCTCACAAAGAGACTTTA
1 ATCGGGAAGCTC-CGAAGAGACTATA
5094789 ATCGGGAAGCTCCGAAGAGAC-ATA
1 ATCGGGAAGCTCCGAAGAGACTATA
5094813 TATCGGGA
1 -ATCGGGA
5094821 TGCTTATAAG
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
24 2 0.04
25 25 0.53
26 18 0.38
27 2 0.04
ACGTcount: A:0.36, C:0.17, G:0.27, T:0.20
Consensus pattern (25 bp):
ATCGGGAAGCTCCGAAGAGACTATA
Found at i:5100376 original size:84 final size:84
Alignment explanation
Indices: 5100273--5100474 Score: 386
Period size: 84 Copynumber: 2.4 Consensus size: 84
5100263 TGTCTTCTGA
5100273 TCAACTTGCTAAGGAGGTGGAGGATAAATATTCTAGAATTGCTGCCTGGAAACCTTTTGTTGACA
1 TCAACTTGCTAAGGAGGTGGAGGATAAATATTCTAGAATTGCTGCCTGGAAACCTTTTGTTGACA
5100338 AAACTCCCCAATCATCTTC
66 AAACTCCCCAATCATCTTC
*
5100357 TCAACTTGCTAAGGAGGTGGAAGATAAATATTCTAGAATTGCTGCCTGGAAACCTTTTGTTGACA
1 TCAACTTGCTAAGGAGGTGGAGGATAAATATTCTAGAATTGCTGCCTGGAAACCTTTTGTTGACA
5100422 AAACTCCCCAATCATCTTC
66 AAACTCCCCAATCATCTTC
*
5100441 TCAACTTGCTAAGGAGCTGGAGGATAAATATTCT
1 TCAACTTGCTAAGGAGGTGGAGGATAAATATTCT
5100475 GCTCTATCTG
Statistics
Matches: 115, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
84 115 1.00
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (84 bp):
TCAACTTGCTAAGGAGGTGGAGGATAAATATTCTAGAATTGCTGCCTGGAAACCTTTTGTTGACA
AAACTCCCCAATCATCTTC
Found at i:5119840 original size:5 final size:5
Alignment explanation
Indices: 5119830--5119876 Score: 53
Period size: 5 Copynumber: 9.8 Consensus size: 5
5119820 TTATAATGCT
* * *
5119830 TTATA TTATA TTATA TTATA TTATG TTATG TTAT- TTTTA -TATA TTAT
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTAT
5119877 GTAATTTAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
4 6 0.16
5 31 0.84
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (5 bp):
TTATA
Found at i:5119876 original size:18 final size:19
Alignment explanation
Indices: 5119830--5119884 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 19
5119820 TTATAATGCT
*
5119830 TTATATTATATTATATTATA
1 TTATATTATGTTAT-TTATA
* *
5119850 TTATGTTATGTTATTTTTA
1 TTATATTATGTTATTTATA
*
5119869 -TATATTATGTAATTTA
1 TTATATTATGTTATTTA
5119885 AAACACATTA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
18 13 0.45
19 4 0.14
20 12 0.41
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (19 bp):
TTATATTATGTTATTTATA
Found at i:5124623 original size:23 final size:25
Alignment explanation
Indices: 5124591--5124638 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
5124581 ATATAAAATA
5124591 CCAAATTTTATA-AATCATA-TTTGT
1 CCAAATTTTATACAAT-ATAGTTTGT
5124615 CCAAA-TTTATACAATATAGTTTGT
1 CCAAATTTTATACAATATAGTTTGT
5124639 GTAAAAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 9 0.41
24 13 0.59
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (25 bp):
CCAAATTTTATACAATATAGTTTGT
Found at i:5125269 original size:11 final size:11
Alignment explanation
Indices: 5125255--5125279 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
5125245 TTTTTTTAAA
5125255 TTTAAAAGATT
1 TTTAAAAGATT
5125266 TTTAAAAGATT
1 TTTAAAAGATT
5125277 TTT
1 TTT
5125280 TTTATTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (11 bp):
TTTAAAAGATT
Found at i:5125297 original size:38 final size:38
Alignment explanation
Indices: 5125246--5125330 Score: 125
Period size: 38 Copynumber: 2.2 Consensus size: 38
5125236 TTTTTAAAAT
*
5125246 TTTTTTAAATTTAAAAGATTTTTAAAAGATTTTTTTTA
1 TTTTTTAAATTTAAAAGATTTTTAAAAGATTTTTTTAA
* * *
5125284 TTTTTTAATTTTAAAATATTTTTAAAATATTTTTTTAA
1 TTTTTTAAATTTAAAAGATTTTTAAAAGATTTTTTTAA
*
5125322 ATTTTTAAA
1 TTTTTTAAA
5125331 ATAAATTTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (38 bp):
TTTTTTAAATTTAAAAGATTTTTAAAAGATTTTTTTAA
Found at i:5125320 original size:13 final size:11
Alignment explanation
Indices: 5125292--5125333 Score: 59
Period size: 11 Copynumber: 3.9 Consensus size: 11
5125282 TATTTTTTAA
5125292 TTTTAAAATAT
1 TTTTAAAATAT
5125303 TTTTAAAATAT
1 TTTTAAAATAT
**
5125314 TTTTTTAA-AT
1 TTTTAAAATAT
5125324 TTTTAAAATA
1 TTTTAAAATA
5125334 AATTTTTTGG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
10 8 0.31
11 18 0.69
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:5125339 original size:21 final size:21
Alignment explanation
Indices: 5125301--5125340 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
5125291 ATTTTAAAAT
**
5125301 ATTTTTAAAATATTTTTTTAA
1 ATTTTTAAAATAAATTTTTAA
5125322 ATTTTTAAAATAAATTTTT
1 ATTTTTAAAATAAATTTTT
5125341 TGGTATTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTTTAAAATAAATTTTTAA
Found at i:5125348 original size:23 final size:23
Alignment explanation
Indices: 5125299--5125359 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 23
5125289 TAATTTTAAA
*
5125299 ATATTTTTAAAAT--ATTTTTTT
1 ATATTTTTAAAATAAATTTTTTG
*
5125320 AAATTTTTAAAATAAATTTTTTG
1 ATATTTTTAAAATAAATTTTTTG
*
5125343 GTATTTATTAAAA-AAAT
1 ATATTT-TTAAAATAAAT
5125360 GGGCCGGGCC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 12 0.36
23 15 0.45
24 6 0.18
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (23 bp):
ATATTTTTAAAATAAATTTTTTG
Found at i:5127100 original size:17 final size:18
Alignment explanation
Indices: 5127075--5127112 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
5127065 TTTAGTTTTA
*
5127075 TTTATTTTTCA-AATAAT
1 TTTAATTTTCATAATAAT
*
5127092 TTTAATTTTCATAATACT
1 TTTAATTTTCATAATAAT
5127110 TTT
1 TTT
5127113 TAAGCTCATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTAATTTTCATAATAAT
Found at i:5127202 original size:16 final size:17
Alignment explanation
Indices: 5127168--5127202 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
5127158 TTTTGGACTG
5127168 TATTGGACCTATCTAATA
1 TATTGGACCTA-CTAATA
5127186 TATTGGACCTA-TAATA
1 TATTGGACCTACTAATA
5127202 T
1 T
5127203 TTTATTAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
18 11 0.65
ACGTcount: A:0.34, C:0.14, G:0.11, T:0.40
Consensus pattern (17 bp):
TATTGGACCTACTAATA
Found at i:5131815 original size:145 final size:145
Alignment explanation
Indices: 5131552--5131846 Score: 563
Period size: 145 Copynumber: 2.0 Consensus size: 145
5131542 TTTTTCAAAG
5131552 ATATTGTTGAAGAAGGTGATCTTGTTTGTCATTTGCAGCCATGGAAGCTTTATGTTGTTGCTTTC
1 ATATTGTTGAAGAAGGTGATCTTGTTTGTCATTTGCAGCCATGGAAGCTTTATGTTGTTGCTTTC
*
5131617 TCTTTGGATGACTGCTGCAACTACAACCCCTCTGTGATATGATTCTGGGCTGAGATCCTGCATCA
66 TCTTTGGATGACTGCCGCAACTACAACCCCTCTGTGATATGATTCTGGGCTGAGATCCTGCATCA
5131682 GCAATAACTTATATT
131 GCAATAACTTATATT
5131697 ATATTGTTGAAGAAGGTGATCTTGTTTGTCATTTGCAGCCATGGAAGCTTTATGTTGTTGCTTTC
1 ATATTGTTGAAGAAGGTGATCTTGTTTGTCATTTGCAGCCATGGAAGCTTTATGTTGTTGCTTTC
* *
5131762 TCTTTGGATGAGTGCCGCAACTACAACCCCTCTGTGATATGATTCTGGGCTGAGATGCTGCATCA
66 TCTTTGGATGACTGCCGCAACTACAACCCCTCTGTGATATGATTCTGGGCTGAGATCCTGCATCA
5131827 GCAATAACTTATATT
131 GCAATAACTTATATT
5131842 ATATT
1 ATATT
5131847 ATATATTATG
Statistics
Matches: 147, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
145 147 1.00
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.37
Consensus pattern (145 bp):
ATATTGTTGAAGAAGGTGATCTTGTTTGTCATTTGCAGCCATGGAAGCTTTATGTTGTTGCTTTC
TCTTTGGATGACTGCCGCAACTACAACCCCTCTGTGATATGATTCTGGGCTGAGATCCTGCATCA
GCAATAACTTATATT
Found at i:5137616 original size:14 final size:14
Alignment explanation
Indices: 5137594--5137626 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
5137584 TTTATTTTAC
5137594 AAATA-ATTTTTTT
1 AAATATATTTTTTT
5137607 AAATATATTTTTTT
1 AAATATATTTTTTT
5137621 -AATATA
1 AAATATA
5137627 CTCCTATAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
AAATATATTTTTTT
Found at i:5140699 original size:18 final size:18
Alignment explanation
Indices: 5140676--5140718 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
5140666 GAATAGGTTT
5140676 TTAATTAAATAATTTT-AA
1 TTAATTAAA-AATTTTAAA
5140694 TTAATTAAAAATTTTAAA
1 TTAATTAAAAATTTTAAA
5140712 TTAATTA
1 TTAATTA
5140719 CACCTTGAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 6 0.25
18 18 0.75
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TTAATTAAAAATTTTAAA
Found at i:5156205 original size:15 final size:15
Alignment explanation
Indices: 5156185--5156214 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
5156175 CACCCTAATC
5156185 ACAGATATAGAAATA
1 ACAGATATAGAAATA
*
5156200 ACAGATATAGTAATA
1 ACAGATATAGAAATA
5156215 TCGTGCATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.13, T:0.23
Consensus pattern (15 bp):
ACAGATATAGAAATA
Found at i:5160803 original size:38 final size:38
Alignment explanation
Indices: 5160761--5160840 Score: 124
Period size: 38 Copynumber: 2.1 Consensus size: 38
5160751 AGTATGGGAT
*
5160761 TATGTGCTTGTGTGCCAGTATGCACTTCGTGTACCAGG
1 TATGTGCTTATGTGCCAGTATGCACTTCGTGTACCAGG
* * *
5160799 TATGTGCTTATGTGCCAGTATGTACTTTGTGTGCCAGG
1 TATGTGCTTATGTGCCAGTATGCACTTCGTGTACCAGG
5160837 TATG
1 TATG
5160841 CGTTTTATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.16, C:0.17, G:0.29, T:0.38
Consensus pattern (38 bp):
TATGTGCTTATGTGCCAGTATGCACTTCGTGTACCAGG
Found at i:5160816 original size:19 final size:18
Alignment explanation
Indices: 5160761--5160840 Score: 79
Period size: 19 Copynumber: 4.2 Consensus size: 18
5160751 AGTATGGGAT
*
5160761 TATGTGCTTGTGTGCCAG
1 TATGTACTTGTGTGCCAG
* *
5160779 TATGCACTTCGTGTACCAGG
1 TATGTACTT-GTGTGCCA-G
* *
5160799 TATGTGCTTATGTGCCAG
1 TATGTACTTGTGTGCCAG
5160817 TATGTACTTTGTGTGCCAGG
1 TATGTAC-TTGTGTGCCA-G
5160837 TATG
1 TATG
5160841 CGTTTTATAT
Statistics
Matches: 49, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
18 14 0.29
19 22 0.45
20 13 0.27
ACGTcount: A:0.16, C:0.17, G:0.29, T:0.38
Consensus pattern (18 bp):
TATGTACTTGTGTGCCAG
Found at i:5167225 original size:29 final size:30
Alignment explanation
Indices: 5167166--5167223 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
5167156 TCCGAGCCTT
*
5167166 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
5167196 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
5167224 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:5167453 original size:13 final size:13
Alignment explanation
Indices: 5167435--5167466 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
5167425 TTTCCAGCAA
5167435 TTATGAATTTATT
1 TTATGAATTTATT
5167448 TTATGAATTTATT
1 TTATGAATTTATT
*
5167461 TGATGA
1 TTATGA
5167467 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:5167674 original size:50 final size:50
Alignment explanation
Indices: 5167561--5167802 Score: 295
Period size: 50 Copynumber: 4.7 Consensus size: 50
5167551 ATTTGGGTAA
* *
5167561 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--AAGA-C--G
* *
5167617 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGACG
* * * *
5167667 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGACG
* * * *
5167717 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACCAACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGACG
**
5167767 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
5167803 TTTGGCATGT
Statistics
Matches: 167, Mismatches: 18, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
50 93 0.56
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGACG
Found at i:5167750 original size:100 final size:103
Alignment explanation
Indices: 5167561--5167810 Score: 362
Period size: 100 Copynumber: 2.4 Consensus size: 103
5167551 ATTTGGGTAA
5167561 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* * *
5167626 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACCAACACG
* * *
5167667 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
*
5167729 TAAGACCATGTCTGGGACATGGCATGGGCACCAACATG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCAACACG
* *
5167767 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
5167811 GTTATTATCA
Statistics
Matches: 132, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
100 51 0.39
101 39 0.30
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCAACACG
Found at i:5174813 original size:29 final size:30
Alignment explanation
Indices: 5174754--5174811 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
5174744 TCCGAGCCTT
*
5174754 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
5174784 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
5174812 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:5175041 original size:13 final size:13
Alignment explanation
Indices: 5175023--5175054 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
5175013 TTTCCAGCAA
5175023 TTATGAATTTATT
1 TTATGAATTTATT
5175036 TTATGAATTTATT
1 TTATGAATTTATT
*
5175049 TGATGA
1 TTATGA
5175055 TGATCTAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:5175263 original size:50 final size:50
Alignment explanation
Indices: 5175149--5175390 Score: 268
Period size: 50 Copynumber: 4.7 Consensus size: 50
5175139 ATTTGGGTAA
* * *
5175149 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--AAGA-C--G
* *
5175205 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGACG
* ** * * *
5175255 AGAGGTCCCATGTAAGACCATGTTTGGGACATGGTGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGACG
* * * *
5175305 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACCAACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGACG
**
5175355 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
5175391 TTTGGCATGT
Statistics
Matches: 162, Mismatches: 23, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
50 88 0.54
51 29 0.18
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.24
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGACG
Found at i:5175339 original size:100 final size:102
Alignment explanation
Indices: 5175149--5175398 Score: 326
Period size: 100 Copynumber: 2.4 Consensus size: 102
5175139 ATTTGGGTAA
*
5175149 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATAAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGG-TTTGGCATCC---AGATCATAAGAGGTCCC
* * *
5175214 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
62 CTATAAGACCATGTCTGGGACATGGCATGGGCACCAACACG
* * * *
5175255 AGAGGTCCCATGTAAGACCATGTTTGGGACATGGTGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGT-TTGGCATCCAGATCATAAGAGGTCCCCTA
*
5175317 TAAGACCATGTCTGGGACATGGCATGGGCACCAACATG
65 TAAGACCATGTCTGGGACATGGCATGGGCACCAACACG
*
5175355 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGG-TTTGGCAT
5175399 GTTATTATCA
Statistics
Matches: 128, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
100 50 0.39
101 37 0.29
102 1 0.01
105 2 0.02
106 38 0.30
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.22
Consensus pattern (102 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGTTTGGCATCCAGATCATAAGAGGTCCCCTAT
AAGACCATGTCTGGGACATGGCATGGGCACCAACACG
Found at i:5176717 original size:50 final size:50
Alignment explanation
Indices: 5176642--5176747 Score: 212
Period size: 50 Copynumber: 2.1 Consensus size: 50
5176632 GCTCCGAATT
5176642 GGTAAGATAAGCTAAGTAATGCCTCGTGCTCGACTCCGGAAACGGTCTCG
1 GGTAAGATAAGCTAAGTAATGCCTCGTGCTCGACTCCGGAAACGGTCTCG
5176692 GGTAAGATAAGCTAAGTAATGCCTCGTGCTCGACTCCGGAAACGGTCTCG
1 GGTAAGATAAGCTAAGTAATGCCTCGTGCTCGACTCCGGAAACGGTCTCG
5176742 GGTAAG
1 GGTAAG
5176748 GGGTGTTACA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 56 1.00
ACGTcount: A:0.26, C:0.23, G:0.29, T:0.22
Consensus pattern (50 bp):
GGTAAGATAAGCTAAGTAATGCCTCGTGCTCGACTCCGGAAACGGTCTCG
Found at i:5177707 original size:24 final size:24
Alignment explanation
Indices: 5177680--5177729 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
5177670 AACTCCTAAG
5177680 TTAGCTTTTGTAACACCCCAATAC
1 TTAGCTTTTGTAACACCCCAATAC
5177704 TTAGCTTTTGTAACACCCCAATAC
1 TTAGCTTTTGTAACACCCCAATAC
5177728 TT
1 TT
5177730 GACCCGATCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.28, C:0.28, G:0.08, T:0.36
Consensus pattern (24 bp):
TTAGCTTTTGTAACACCCCAATAC
Found at i:5180818 original size:27 final size:27
Alignment explanation
Indices: 5180786--5180958 Score: 186
Period size: 27 Copynumber: 6.4 Consensus size: 27
5180776 CCTAAAATAT
*
5180786 GGTAAAATAACCGAAATACCCCCATAA
1 GGTAAAATGACCGAAATACCCCCATAA
* * *
5180813 GATAAAATGATCGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAA
* * *
5180840 GGTAAAATAACCAAAATACCCTCAT-A
1 GGTAAAATGACCGAAATACCCCCATAA
**
5180866 GAGTAAAATGACCGAAATAAACCCATAA
1 G-GTAAAATGACCGAAATACCCCCATAA
* * *
5180894 GGTAAAATGATCGGAATACCCCCATAT
1 GGTAAAATGACCGAAATACCCCCATAA
** * *
5180921 GGTAAAATGACTAAAATACCCTCATAG
1 GGTAAAATGACCGAAATACCCCCATAA
5180948 GGTAAAATGAC
1 GGTAAAATGAC
5180959 TGTTATACCC
Statistics
Matches: 118, Mismatches: 26, Indels: 4
0.80 0.18 0.03
Matches are distributed among these distances:
26 1 0.01
27 115 0.97
28 2 0.02
ACGTcount: A:0.46, C:0.21, G:0.14, T:0.18
Consensus pattern (27 bp):
GGTAAAATGACCGAAATACCCCCATAA
Found at i:5180925 original size:81 final size:81
Alignment explanation
Indices: 5180787--5180958 Score: 263
Period size: 81 Copynumber: 2.1 Consensus size: 81
5180777 CTAAAATATG
* **
5180787 GTAAAATAACCGAAATACCCCCATAAGATAAAATGATCGAAATACCCCCATAGGGTAAAATAACC
1 GTAAAATGACCGAAATAAACCCATAAGATAAAATGATCGAAATACCCCCATAGGGTAAAATAACC
5180852 AAAATACCCTCATAGA
66 AAAATACCCTCATAGA
* * * * *
5180868 GTAAAATGACCGAAATAAACCCATAAGGTAAAATGATCGGAATACCCCCATATGGTAAAATGACT
1 GTAAAATGACCGAAATAAACCCATAAGATAAAATGATCGAAATACCCCCATAGGGTAAAATAACC
*
5180933 AAAATACCCTCATAGG
66 AAAATACCCTCATAGA
5180949 GTAAAATGAC
1 GTAAAATGAC
5180959 TGTTATACCC
Statistics
Matches: 82, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
81 82 1.00
ACGTcount: A:0.47, C:0.21, G:0.14, T:0.19
Consensus pattern (81 bp):
GTAAAATGACCGAAATAAACCCATAAGATAAAATGATCGAAATACCCCCATAGGGTAAAATAACC
AAAATACCCTCATAGA
Found at i:5188938 original size:26 final size:26
Alignment explanation
Indices: 5188891--5188948 Score: 82
Period size: 26 Copynumber: 2.2 Consensus size: 26
5188881 CTGAACAAAT
*
5188891 TTTTGGCGATTTTACCCCTAGTAAAA
1 TTTTGACGATTTTACCCCTAGTAAAA
*
5188917 TTTTGACGAATTTT-CCCTTAGTAAAA
1 TTTTGACG-ATTTTACCCCTAGTAAAA
5188943 TTTTGA
1 TTTTGA
5188949 GAAAATATGT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 24 0.83
27 5 0.17
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.43
Consensus pattern (26 bp):
TTTTGACGATTTTACCCCTAGTAAAA
Found at i:5199950 original size:22 final size:21
Alignment explanation
Indices: 5199921--5200111 Score: 88
Period size: 22 Copynumber: 9.4 Consensus size: 21
5199911 TTTTTATTTT
5199921 AAAA-ATTTTAAAAATTTAAA
1 AAAATATTTTAAAAATTTAAA
***
5199941 AAAAGTATTTTAAAAATATTTTT
1 AAAA-TATTTTAAAAAT-TTAAA
5199964 AAAATATTTT-AAAA-TTAAA
1 AAAATATTTTAAAAATTTAAA
***
5199983 AAAAT-TAAAAAAAATTT--A
1 AAAATATTTTAAAAATTTAAA
*
5200001 AAAGTATTTT-AAAA-TTAAA
1 AAAATATTTTAAAAATTTAAA
** **
5200020 AAAA-ATTAAAAAAAAGTATTTTA
1 AAAATATT-TTAAAAA-T-TTAAA
5200043 AAAATATTTT-AAAATTT-AA
1 AAAATATTTTAAAAATTTAAA
*
5200062 AAAA-A-TTAAAAAAGTATGT-AA
1 AAAATATTTTAAAAA-T-T-TAAA
*
5200083 AAAATATTTT-AAAATTAAAA
1 AAAATATTTTAAAAATTTAAA
5200103 AAAATATTT
1 AAAATATTT
5200112 ATTAAATCGG
Statistics
Matches: 126, Mismatches: 24, Indels: 42
0.66 0.12 0.22
Matches are distributed among these distances:
17 4 0.03
18 18 0.14
19 22 0.17
20 25 0.20
21 13 0.10
22 26 0.21
23 15 0.12
24 3 0.02
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (21 bp):
AAAATATTTTAAAAATTTAAA
Found at i:5199955 original size:11 final size:10
Alignment explanation
Indices: 5199915--5199978 Score: 60
Period size: 9 Copynumber: 6.1 Consensus size: 10
5199905 GGCCCATTTT
5199915 TATTTTAAAA
1 TATTTTAAAA
5199925 -ATTTTAAAA
1 TATTTTAAAA
*
5199934 -ATTTAAAAAAA
1 TATTT--TAAAA
5199945 GTATTTTAAAAA
1 -TATTTT-AAAA
5199957 TATTTTTAAAA
1 TA-TTTTAAAA
5199968 TATTTTAAAA
1 TATTTTAAAA
5199978 T
1 T
5199979 TAAAAAAATT
Statistics
Matches: 46, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
9 13 0.28
10 9 0.20
11 12 0.26
12 8 0.17
13 4 0.09
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (10 bp):
TATTTTAAAA
Found at i:5199982 original size:42 final size:41
Alignment explanation
Indices: 5199917--5200107 Score: 191
Period size: 40 Copynumber: 4.7 Consensus size: 41
5199907 CCCATTTTTA
* *
5199917 TTTTAAAA-ATTTTAAAAATTTAAAAAAAGTATTT-TAAAAATAT
1 TTTTAAAATATTTT-AAAA-TTAAAAAAA--ATTTAAAAAAGTAT
5199960 TTTTAAAATATTTTAAAATT-AAAAAAA-TTAAAAAA--A-
1 TTTTAAAATATTTTAAAATTAAAAAAAATTTAAAAAAGTAT
* *
5199996 ATTTAAAAGTATTTTAAAATTAAAAAAAATTAAAAAAAAGTAT
1 TTTTAAAA-TATTTTAAAATTAAAAAAAATT-TAAAAAAGTAT
* *
5200039 TTTAAAAATATTTTAAAATTTAAAAAAA-TTAAAAAAGTAT
1 TTTTAAAATATTTTAAAATTAAAAAAAATTTAAAAAAGTAT
* **
5200079 GTAAAAAATATTTTAAAATTAAAAAAAAT
1 TTTTAAAATATTTTAAAATTAAAAAAAAT
5200108 ATTTATTAAA
Statistics
Matches: 128, Mismatches: 10, Indels: 22
0.80 0.06 0.14
Matches are distributed among these distances:
36 7 0.05
37 13 0.10
38 9 0.07
39 6 0.05
40 41 0.32
41 7 0.05
42 22 0.17
43 18 0.14
44 5 0.04
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (41 bp):
TTTTAAAATATTTTAAAATTAAAAAAAATTTAAAAAAGTAT
Found at i:5199993 original size:10 final size:10
Alignment explanation
Indices: 5199974--5200034 Score: 56
Period size: 10 Copynumber: 6.4 Consensus size: 10
5199964 AAAATATTTT
5199974 AAAATT-AAA
1 AAAATTAAAA
5199983 AAAATTAAAA
1 AAAATTAAAA
*
5199993 AAAATTTAAA
1 AAAATTAAAA
** **
5200003 AGTATT--TT
1 AAAATTAAAA
5200011 AAAATTAAAA
1 AAAATTAAAA
5200021 AAAATTAAAA
1 AAAATTAAAA
5200031 AAAA
1 AAAA
5200035 GTATTTTAAA
Statistics
Matches: 40, Mismatches: 9, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
8 4 0.10
9 6 0.15
10 30 0.75
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (10 bp):
AAAATTAAAA
Found at i:5200104 original size:20 final size:19
Alignment explanation
Indices: 5199916--5200111 Score: 80
Period size: 18 Copynumber: 9.8 Consensus size: 19
5199906 GCCCATTTTT
* *
5199916 ATTTTAAAAAT-TTTAAAA
1 ATTTAAAAAATATTTTAAA
5199934 ATTTAAAAAAAGTATTTTAAAAA
1 ATTT-AAAAAA-TATTTT--AAA
**
5199957 TATTTTTAAAATATTTTAAA
1 -ATTTAAAAAATATTTTAAA
**
5199977 A-TTAAAAAA-ATTAAAAAAA
1 ATTTAAAAAATATT--TTAAA
*
5199996 ATTT-AAAAGTATTTTAAA
1 ATTTAAAAAATATTTTAAA
* **
5200014 A-TTAAAAAAAATTAAAAAAAA
1 ATTTAAAAAATATT---TTAAA
*
5200035 GTATTTTAAAAATATTTTAAA
1 --ATTTAAAAAATATTTTAAA
**
5200056 ATTTAAAAAA-ATTAAAAA
1 ATTTAAAAAATATTTTAAA
5200074 AGTATGTAAAAAATATTTTAAA
1 A-T-T-TAAAAAATATTTTAAA
*
5200096 ATTAAAAAAAATATTT
1 ATT-TAAAAAATATTT
5200112 ATTAAATCGG
Statistics
Matches: 131, Mismatches: 26, Indels: 40
0.66 0.13 0.20
Matches are distributed among these distances:
17 5 0.04
18 28 0.21
19 24 0.18
20 22 0.17
21 17 0.13
22 13 0.10
23 8 0.06
24 14 0.11
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (19 bp):
ATTTAAAAAATATTTTAAA
Found at i:5200593 original size:23 final size:24
Alignment explanation
Indices: 5200541--5200593 Score: 76
Period size: 23 Copynumber: 2.3 Consensus size: 24
5200531 AGTGTTATTG
5200541 ATCAGTGGTAGCTTCGGCTACATT
1 ATCAGTGGTAGCTTCGGCTACATT
5200565 AT-AGTGGTAG-TTACGGCTACA-T
1 ATCAGTGGTAGCTT-CGGCTACATT
5200587 ATCAGTG
1 ATCAGTG
5200594 TGGCACTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
22 5 0.19
23 20 0.74
24 2 0.07
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (24 bp):
ATCAGTGGTAGCTTCGGCTACATT
Found at i:5207316 original size:27 final size:27
Alignment explanation
Indices: 5207286--5207339 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
5207276 TAGGAAAATG
5207286 ATGGAACCATTGAGTTGGAATTTATGA
1 ATGGAACCATTGAGTTGGAATTTATGA
5207313 ATGGAACCATTGAGTTGGAATTTATGA
1 ATGGAACCATTGAGTTGGAATTTATGA
5207340 GATAATTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.07, G:0.26, T:0.33
Consensus pattern (27 bp):
ATGGAACCATTGAGTTGGAATTTATGA
Found at i:5211611 original size:22 final size:22
Alignment explanation
Indices: 5211571--5211623 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
5211561 ATCCTTATTT
* *
5211571 TTTCTTCTCCTTTCTTTCTTTC
1 TTTCTTCTCCTCTCTTTCTTCC
5211593 TTTCTTCTCC-CTCTCTTCTTCC
1 TTTCTTCTCCTCTCT-TTCTTCC
5211615 TTCTCTTCT
1 TT-TCTTCT
5211624 GCTATTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 3 0.11
22 18 0.67
23 6 0.22
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (22 bp):
TTTCTTCTCCTCTCTTTCTTCC
Found at i:5211621 original size:12 final size:11
Alignment explanation
Indices: 5211571--5211623 Score: 54
Period size: 11 Copynumber: 4.7 Consensus size: 11
5211561 ATCCTTATTT
5211571 TTTCTTC-TCC
1 TTTCTTCTTCC
*
5211581 TTTCTTTCTTTC
1 TTTC-TTCTTCC
*
5211593 TTTCTTCTCCC
1 TTTCTTCTTCC
*
5211604 TCTCTTCTTCC
1 TTTCTTCTTCC
5211615 TTCTCTTCT
1 TT-TCTTCT
5211624 GCTATTTTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 4 0.12
11 18 0.53
12 12 0.35
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (11 bp):
TTTCTTCTTCC
Found at i:5216761 original size:31 final size:29
Alignment explanation
Indices: 5216723--5216799 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 29
5216713 ATTAATGCTC
*
5216723 AGTGACTAAAATGTTACAACACAATAACATA
1 AGTGACTAAAATGTAACAACAC-A-AACATA
* ***
5216754 AGTGACTAAAACGTAACATTTCAAACATA
1 AGTGACTAAAATGTAACAACACAAACATA
5216783 AGTGACTAAAATGTAAC
1 AGTGACTAAAATGTAAC
5216800 CTGAGACAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
29 22 0.55
30 1 0.03
31 17 0.43
ACGTcount: A:0.49, C:0.16, G:0.12, T:0.23
Consensus pattern (29 bp):
AGTGACTAAAATGTAACAACACAAACATA
Found at i:5217745 original size:10 final size:10
Alignment explanation
Indices: 5217732--5217911 Score: 65
Period size: 10 Copynumber: 18.3 Consensus size: 10
5217722 TTAAAAAAAT
5217732 AAAATTATAA
1 AAAATTATAA
* *
5217742 AAAAATATTTA
1 AAAATTA-TAA
*
5217753 AAAA-TAT-G
1 AAAATTATAA
*
5217761 AAAATTGATAC
1 AAAATT-ATAA
*
5217772 AAATTTAT-A
1 AAAATTATAA
* *
5217781 AATATTATTA
1 AAAATTATAA
5217791 AAAATTAT-A
1 AAAATTATAA
*
5217800 AATATTATAA
1 AAAATTATAA
* *
5217810 TAAA-TCTAA
1 AAAATTATAA
* *
5217819 CAAATTCTAAA
1 AAAATTAT-AA
5217830 AAAATTAT--
1 AAAATTATAA
5217838 AAAATTAATAA
1 AAAATT-ATAA
5217849 AAATATT-TAA
1 AAA-ATTATAA
**
5217859 AATTTTATAA
1 AAAATTATAA
*
5217869 AAACA-TAT-T
1 AAA-ATTATAA
*
5217878 AAAATTCTATA
1 AAAATTATA-A
*
5217889 AAAATCATAA
1 AAAATTATAA
*
5217899 AAATTTATAA
1 AAAATTATAA
5217909 AAA
1 AAA
5217912 GTATTAAAAT
Statistics
Matches: 126, Mismatches: 27, Indels: 34
0.67 0.14 0.18
Matches are distributed among these distances:
8 11 0.09
9 32 0.25
10 51 0.40
11 29 0.23
12 3 0.02
ACGTcount: A:0.61, C:0.04, G:0.01, T:0.34
Consensus pattern (10 bp):
AAAATTATAA
Found at i:5217849 original size:20 final size:20
Alignment explanation
Indices: 5217826--5217911 Score: 72
Period size: 20 Copynumber: 4.3 Consensus size: 20
5217816 TAACAAATTC
*
5217826 TAAAAAAATTATAAAATTAA
1 TAAAAAAATTATAAAATTTA
*
5217846 TAAAAATATT-TAAAATTTTA
1 TAAAAAAATTATAAAA-TTTA
*
5217866 TAAAAACA-TATTAAAATTCTA
1 TAAAAAAATTA-TAAAATT-TA
*
5217887 T--AAAAATCATAAAAATTTA
1 TAAAAAAATTAT-AAAATTTA
5217906 TAAAAA
1 TAAAAA
5217912 GTATTAAAAT
Statistics
Matches: 53, Mismatches: 5, Indels: 15
0.73 0.07 0.21
Matches are distributed among these distances:
19 14 0.26
20 28 0.53
21 11 0.21
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (20 bp):
TAAAAAAATTATAAAATTTA
Found at i:5217871 original size:21 final size:20
Alignment explanation
Indices: 5217826--5217935 Score: 93
Period size: 21 Copynumber: 5.5 Consensus size: 20
5217816 TAACAAATTC
* *
5217826 TAAAAAA-ATTATAAAATTAA
1 TAAAAAATATTA-AAATTTTA
5217846 T-AAAAATATTTAAAATTTTA
1 TAAAAAATA-TTAAAATTTTA
*
5217866 TAAAAACATATTAAAATTCTA
1 TAAAAA-ATATTAAAATTTTA
*
5217887 T-AAAAATCA-TAAAAATTTA
1 TAAAAAAT-ATTAAAATTTTA
* *
5217906 TAAAAAGTATTAAAATTGATA
1 TAAAAAATATTAAAATT-TTA
5217927 TAAAAAATA
1 TAAAAAATA
5217936 AAAATCATAA
Statistics
Matches: 73, Mismatches: 9, Indels: 15
0.75 0.09 0.15
Matches are distributed among these distances:
19 17 0.23
20 25 0.34
21 28 0.38
22 3 0.04
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.34
Consensus pattern (20 bp):
TAAAAAATATTAAAATTTTA
Found at i:5217919 original size:20 final size:19
Alignment explanation
Indices: 5217742--5217940 Score: 98
Period size: 19 Copynumber: 10.3 Consensus size: 19
5217732 AAAATTATAA
5217742 AAAAATATT-TAAAAATA-T
1 AAAAAT-TTATAAAAATATT
* * *
5217760 GAAAATTGATACAAAT-TT
1 AAAAATTTATAAAAATATT
* *
5217778 ATAAATATTATTAAAA-ATT
1 AAAAAT-TTATAAAAATATT
* *
5217797 ATAAATATTATAATAAAT-CT
1 AAAAAT-TTATAA-AAATATT
5217817 AACAAATTCTA-AAAAA-ATT
1 AA-AAATT-TATAAAAATATT
*
5217836 ATAAAATTAATAAAAATATTT
1 A-AAAATTTATAAAAATA-TT
*
5217857 AAAATTTTATAAAAACATATT
1 AAAAATTTAT-AAAA-ATATT
5217878 -AAAATTCTATAAAAATCA-T
1 AAAAATT-TATAAAAAT-ATT
5217897 AAAAATTTATAAAAAGTATT
1 AAAAATTTATAAAAA-TATT
5217917 -AAAATTGATATAAAAA-A-T
1 AAAAATT--TATAAAAATATT
5217935 AAAAAT
1 AAAAAT
5217941 CATAAAAACT
Statistics
Matches: 142, Mismatches: 16, Indels: 45
0.70 0.08 0.22
Matches are distributed among these distances:
17 1 0.01
18 18 0.13
19 59 0.42
20 35 0.25
21 26 0.18
22 3 0.02
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (19 bp):
AAAAATTTATAAAAATATT
Found at i:5218352 original size:27 final size:28
Alignment explanation
Indices: 5218322--5218384 Score: 74
Period size: 27 Copynumber: 2.2 Consensus size: 28
5218312 TATTTATACG
* *
5218322 TTTTTATCAATTTTAATAT-TTTTTTTA
1 TTTTTAACAATTCTAATATGTTTTTTTA
*
5218349 TTTTTAAGAATTCTAATATGTTTTTTTTA
1 TTTTTAACAATTCTAATATG-TTTTTTTA
*
5218378 ATTTTAA
1 TTTTTAA
5218385 ATATGTTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 16 0.53
29 14 0.47
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (28 bp):
TTTTTAACAATTCTAATATGTTTTTTTA
Found at i:5218380 original size:20 final size:20
Alignment explanation
Indices: 5218357--5218400 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
5218347 TATTTTTAAG
5218357 AATTCT-AATATGTTTTTTTT
1 AATTCTAAATATG-TTTTTTT
*
5218377 AATTTTAAATATGTTTTTTT
1 AATTCTAAATATGTTTTTTT
5218397 AATT
1 AATT
5218401 TTATAATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.64
Consensus pattern (20 bp):
AATTCTAAATATGTTTTTTT
Found at i:5218387 original size:21 final size:22
Alignment explanation
Indices: 5218362--5218421 Score: 83
Period size: 20 Copynumber: 2.9 Consensus size: 22
5218352 TTAAGAATTC
5218362 TAATATGTTTTTTTTAATTTTA
1 TAATATGTTTTTTTTAATTTTA
5218384 -AATATG-TTTTTTTAATTTTA
1 TAATATGTTTTTTTTAATTTTA
*
5218404 TAAT-T-TTTTTTGTAATTT
1 TAATATGTTTTTTTTAATTT
5218422 ATTTCAATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
20 26 0.74
21 9 0.26
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (22 bp):
TAATATGTTTTTTTTAATTTTA
Found at i:5218943 original size:24 final size:25
Alignment explanation
Indices: 5218915--5218963 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
5218905 TTATATTATT
*
5218915 ATTTTGAAAT-AAAAAATATATAAA
1 ATTTTAAAATCAAAAAATATATAAA
* *
5218939 ATTTTAAAATCATAAGATATATAAA
1 ATTTTAAAATCAAAAAATATATAAA
5218964 TTAATAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 9 0.43
25 12 0.57
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (25 bp):
ATTTTAAAATCAAAAAATATATAAA
Found at i:5219117 original size:17 final size:16
Alignment explanation
Indices: 5219091--5219128 Score: 58
Period size: 17 Copynumber: 2.3 Consensus size: 16
5219081 TATATGTTTA
5219091 TATATTTTTATAAATT
1 TATATTTTTATAAATT
*
5219107 TATAGTTTTTATTAATT
1 TATA-TTTTTATAAATT
5219124 TATAT
1 TATAT
5219129 ATTATATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (16 bp):
TATATTTTTATAAATT
Found at i:5231286 original size:35 final size:34
Alignment explanation
Indices: 5231218--5231291 Score: 94
Period size: 35 Copynumber: 2.1 Consensus size: 34
5231208 GGTGAGTTCA
* *
5231218 ATTTAGGACAATATGTAGTTTATATCGTGAACTT
1 ATTTAGGACAATATGTAGTTTATACCGTAAACTT
* * *
5231252 ATTTAGGATTAATATGTAGTTTATCCCTTAAACTT
1 ATTTAGGA-CAATATGTAGTTTATACCGTAAACTT
5231287 ATTTA
1 ATTTA
5231292 AAAGTACTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 8 0.24
35 26 0.76
ACGTcount: A:0.32, C:0.09, G:0.14, T:0.45
Consensus pattern (34 bp):
ATTTAGGACAATATGTAGTTTATACCGTAAACTT
Found at i:5231493 original size:20 final size:20
Alignment explanation
Indices: 5231470--5231507 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
5231460 ATAAAAAATC
*
5231470 TTTTAAAAAATTTAAATTAA
1 TTTTAAAAAATATAAATTAA
*
5231490 TTTTTAAAAATATAAATT
1 TTTTAAAAAATATAAATT
5231508 TTTGAAAAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
TTTTAAAAAATATAAATTAA
Found at i:5236234 original size:29 final size:29
Alignment explanation
Indices: 5236170--5236234 Score: 69
Period size: 29 Copynumber: 2.3 Consensus size: 29
5236160 GATTTTGGGG
5236170 AAAAT-GGCCCATTCCGGTAAATAATAAA
1 AAAATAGGCCCATTCCGGTAAATAATAAA
** * * **
5236198 TTACTAGGCCCATTTCGGTAAATTTTAAA
1 AAAATAGGCCCATTCCGGTAAATAATAAA
5236227 AAAATAGG
1 AAAATAGG
5236235 GCTTTTTTTG
Statistics
Matches: 27, Mismatches: 9, Indels: 1
0.73 0.24 0.03
Matches are distributed among these distances:
28 2 0.07
29 25 0.93
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (29 bp):
AAAATAGGCCCATTCCGGTAAATAATAAA
Found at i:5239578 original size:17 final size:17
Alignment explanation
Indices: 5239558--5239618 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
5239548 ATTTCGAGAC
5239558 TTATGTAATGTTTTTAA
1 TTATGTAATGTTTTTAA
* ***
5239575 TTATGTAGTGATTCAAAGA
1 TTATGTAATG-TTTTTA-A
*
5239594 CTTATGTAATATTTTTAA
1 -TTATGTAATGTTTTTAA
5239612 TTATGTA
1 TTATGTA
5239619 GTGATTCAAT
Statistics
Matches: 32, Mismatches: 9, Indels: 6
0.68 0.19 0.13
Matches are distributed among these distances:
17 16 0.50
18 4 0.12
19 4 0.12
20 8 0.25
ACGTcount: A:0.33, C:0.03, G:0.13, T:0.51
Consensus pattern (17 bp):
TTATGTAATGTTTTTAA
Found at i:5239595 original size:37 final size:37
Alignment explanation
Indices: 5239554--5239627 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
5239544 GTTAATTTCG
*
5239554 AGACTTATGTAATGTTTTTAATTATGTAGTGATTCAA
1 AGACTTATGTAATATTTTTAATTATGTAGTGATTCAA
5239591 AGACTTATGTAATATTTTTAATTATGTAGTGATTCAA
1 AGACTTATGTAATATTTTTAATTATGTAGTGATTCAA
5239628 TTCGAGTAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.34, C:0.05, G:0.15, T:0.46
Consensus pattern (37 bp):
AGACTTATGTAATATTTTTAATTATGTAGTGATTCAA
Found at i:5239640 original size:9 final size:10
Alignment explanation
Indices: 5239626--5239683 Score: 56
Period size: 9 Copynumber: 6.4 Consensus size: 10
5239616 GTAGTGATTC
5239626 AATTCGAG-T
1 AATTCGAGTT
**
5239635 AATTCG-GGC
1 AATTCGAGTT
5239644 AATTCG-GTT
1 AATTCGAGTT
5239653 AATTC-AGTT
1 AATTCGAGTT
5239662 AATTCG-GTT
1 AATTCGAGTT
5239671 AATTCGA-TT
1 AATTCGAGTT
5239680 AATT
1 AATT
5239684 TTTAATCAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
8 1 0.02
9 41 0.98
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.40
Consensus pattern (10 bp):
AATTCGAGTT
Found at i:5239657 original size:27 final size:27
Alignment explanation
Indices: 5239621--5239683 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
5239611 ATTATGTAGT
5239621 GATTCAATTCGAG-TAATTCGGGCAATTC
1 GATT-AATTC-AGTTAATTCGGGCAATTC
* **
5239649 GGTTAATTCAGTTAATTCGGTTAATTC
1 GATTAATTCAGTTAATTCGGGCAATTC
5239676 GATTAATT
1 GATTAATT
5239684 TTTAATCAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
26 2 0.07
27 25 0.83
28 3 0.10
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.40
Consensus pattern (27 bp):
GATTAATTCAGTTAATTCGGGCAATTC
Found at i:5244473 original size:34 final size:35
Alignment explanation
Indices: 5244434--5244500 Score: 86
Period size: 35 Copynumber: 1.9 Consensus size: 35
5244424 TTCATTCTCT
5244434 TTCTTTCCATTT-TCTT-TTC-TCTGTTGGCCGAACC
1 TTCTTT-CATTTCTCTTCTTCTTCT-TTGGCCGAACC
*
5244468 TTCTTTCTTTTCTCTTCTTCTTCTTTGGCCGAA
1 TTCTTTCATTTCTCTTCTTCTTCTTTGGCCGAA
5244501 TATTTTTCTC
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
33 4 0.14
34 10 0.34
35 12 0.41
36 3 0.10
ACGTcount: A:0.07, C:0.28, G:0.10, T:0.54
Consensus pattern (35 bp):
TTCTTTCATTTCTCTTCTTCTTCTTTGGCCGAACC
Found at i:5245308 original size:81 final size:81
Alignment explanation
Indices: 5245123--5245300 Score: 259
Period size: 81 Copynumber: 2.2 Consensus size: 81
5245113 TTGAGATTCA
* *
5245123 AAGGGTAAAATGACTAAAATACCCTCAAAGGGTAAAATAATCGAAATACCCTCGAAGGGTAAAAT
1 AAGGGTAAAATGACTGAAATACCCTCAAAGGGTAAAATAATCGAAATACCCTCGAAAGGTAAAAT
* * *
5245188 GACTGAAATATCCTCG
66 GACCGAAATACCCCCG
* * *
5245204 AAGGGTAAAATAACTGAAATACCCTCGAAGGGTAAAATGATCGAAATACCCTC-ATAAGGTAAAA
1 AAGGGTAAAATGACTGAAATACCCTCAAAGGGTAAAATAATCGAAATACCCTCGA-AAGGTAAAA
5245268 TGACCGAAATACCCCCG
65 TGACCGAAATACCCCCG
*
5245285 TAGGGTAAAATGACTG
1 AAGGGTAAAATGACTG
5245301 TTATACCCCT
Statistics
Matches: 86, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
80 1 0.01
81 85 0.99
ACGTcount: A:0.43, C:0.18, G:0.20, T:0.19
Consensus pattern (81 bp):
AAGGGTAAAATGACTGAAATACCCTCAAAGGGTAAAATAATCGAAATACCCTCGAAAGGTAAAAT
GACCGAAATACCCCCG
Found at i:5245309 original size:27 final size:27
Alignment explanation
Indices: 5245123--5245300 Score: 227
Period size: 27 Copynumber: 6.6 Consensus size: 27
5245113 TTGAGATTCA
* *
5245123 AAGGGTAAAATGACTAAAATACCCTCA
1 AAGGGTAAAATGACTGAAATACCCTCG
*
5245150 AAGGGTAAAAT-AATCGAAATACCCTCG
1 AAGGGTAAAATGACT-GAAATACCCTCG
*
5245177 AAGGGTAAAATGACTGAAATATCCTCG
1 AAGGGTAAAATGACTGAAATACCCTCG
*
5245204 AAGGGTAAAATAACTGAAATACCCTCG
1 AAGGGTAAAATGACTGAAATACCCTCG
5245231 AAGGGTAAAATGA-TCGAAATACCCTC-
1 AAGGGTAAAATGACT-GAAATACCCTCG
* * *
5245257 ATAAGGTAAAATGACCGAAATACCCCCG
1 A-AGGGTAAAATGACTGAAATACCCTCG
*
5245285 TAGGGTAAAATGACTG
1 AAGGGTAAAATGACTG
5245301 TTATACCCCT
Statistics
Matches: 131, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
26 4 0.03
27 125 0.95
28 2 0.02
ACGTcount: A:0.43, C:0.18, G:0.20, T:0.19
Consensus pattern (27 bp):
AAGGGTAAAATGACTGAAATACCCTCG
Found at i:5245466 original size:26 final size:26
Alignment explanation
Indices: 5245436--5245516 Score: 74
Period size: 26 Copynumber: 3.1 Consensus size: 26
5245426 TAGAGGAAGT
*
5245436 ATACTGTTTCTGGCAGCTTTGCTACG
1 ATACTGTTTCTGGCAGCTTTGCTGCG
* * *
5245462 ATACTGATAT-TGGCAGCTCTGTTGCG
1 ATACTG-TTTCTGGCAGCTTTGCTGCG
* ** *
5245488 ATGCTACTACTGGCAGCTTTGCTGCG
1 ATACTGTTTCTGGCAGCTTTGCTGCG
5245514 ATA
1 ATA
5245517 TTGGTGTGTT
Statistics
Matches: 41, Mismatches: 12, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
26 39 0.95
27 2 0.05
ACGTcount: A:0.19, C:0.22, G:0.25, T:0.35
Consensus pattern (26 bp):
ATACTGTTTCTGGCAGCTTTGCTGCG
Found at i:5245664 original size:28 final size:28
Alignment explanation
Indices: 5245619--5245684 Score: 71
Period size: 28 Copynumber: 2.4 Consensus size: 28
5245609 ATTGCACTGT
* *
5245619 ACTGATACTGTACTGGGCTAAAGCCCAC
1 ACTGTTACTGTACTGGGCTAAAGCCCAA
* *
5245647 ACTGTTACTGTA-TAGGGCTCAGGCCCAA
1 ACTGTTACTGTACT-GGGCTAAAGCCCAA
*
5245675 ACTGTCACTG
1 ACTGTTACTG
5245685 CATGTCGTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 1 0.03
28 31 0.97
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (28 bp):
ACTGTTACTGTACTGGGCTAAAGCCCAA
Found at i:5248079 original size:16 final size:16
Alignment explanation
Indices: 5248058--5248112 Score: 92
Period size: 16 Copynumber: 3.4 Consensus size: 16
5248048 TGAATTACTG
*
5248058 ATTACAGCTTTATTCC
1 ATTACAGCTCTATTCC
*
5248074 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCC
5248090 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
5248106 ATTACAG
1 ATTACAG
5248113 TGAACCAAAC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.29, C:0.25, G:0.07, T:0.38
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:5249219 original size:28 final size:28
Alignment explanation
Indices: 5249179--5249236 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
5249169 AATATCAAAA
5249179 TCCTGATTAGACCTGATCATGGGTCGGG
1 TCCTGATTAGACCTGATCATGGGTCGGG
*
5249207 TCCTGATTAGACCTGATCGTGGGTCGGG
1 TCCTGATTAGACCTGATCATGGGTCGGG
5249235 TC
1 TC
5249237 GAGTATCCAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.16, C:0.22, G:0.33, T:0.29
Consensus pattern (28 bp):
TCCTGATTAGACCTGATCATGGGTCGGG
Found at i:5250834 original size:21 final size:22
Alignment explanation
Indices: 5250799--5250840 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
5250789 ATAAAAAATT
5250799 ATTTTTAAAACTTTTTACAATC
1 ATTTTTAAAACTTTTTACAATC
*
5250821 ATTTTTATAA-TTTTTACAAT
1 ATTTTTAAAACTTTTTACAAT
5250841 TTTTTTACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.36, C:0.10, G:0.00, T:0.55
Consensus pattern (22 bp):
ATTTTTAAAACTTTTTACAATC
Found at i:5250846 original size:21 final size:22
Alignment explanation
Indices: 5250795--5250847 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
5250785 CTTTATAAAA
5250795 AATTATTTTTAAAACTTTTTAC
1 AATTATTTTTAAAACTTTTTAC
* *
5250817 AATCATTTTTATAA-TTTTTAC
1 AATTATTTTTAAAACTTTTTAC
5250838 AATT-TTTTTA
1 AATTATTTTTA
5250848 CATTTTTTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 6 0.21
21 10 0.36
22 12 0.43
ACGTcount: A:0.34, C:0.08, G:0.00, T:0.58
Consensus pattern (22 bp):
AATTATTTTTAAAACTTTTTAC
Found at i:5250967 original size:21 final size:20
Alignment explanation
Indices: 5250933--5250998 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 20
5250923 ATTTAGATGT
5250933 TTTTTTCTAGATTTTTTATATA
1 TTTTTT-TA-ATTTTTTATATA
*
5250955 TTTTTTTGAATTTTCTATATA
1 TTTTTTT-AATTTTTTATATA
*
5250976 TTTATTTTCA-TTTTTATAT-
1 TTT-TTTTAATTTTTTATATA
5250995 TTTT
1 TTTT
5250999 AATATGTATA
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
18 1 0.03
19 3 0.08
20 8 0.21
21 16 0.41
22 11 0.28
ACGTcount: A:0.21, C:0.05, G:0.03, T:0.71
Consensus pattern (20 bp):
TTTTTTTAATTTTTTATATA
Found at i:5252332 original size:21 final size:22
Alignment explanation
Indices: 5252308--5252349 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
5252298 ATTTAATAAA
*
5252308 AATAA-AATTTTAATTTAATTT
1 AATAACAATTTTAATATAATTT
*
5252329 AATAACATTTTTAATATAATT
1 AATAACAATTTTAATATAATT
5252350 ATATTTTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (22 bp):
AATAACAATTTTAATATAATTT
Found at i:5253698 original size:42 final size:42
Alignment explanation
Indices: 5253639--5253721 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
5253629 GGTGACTAAG
* *
5253639 TACACTGTATTGGAATCACCATTAATTTGCAAAATATTAATT
1 TACACTATATTAGAATCACCATTAATTTGCAAAATATTAATT
* ** *
5253681 TACACTATATTAGAATCATCATTCGTTTGCAAAATTTTAAT
1 TACACTATATTAGAATCACCATTAATTTGCAAAATATTAAT
5253722 ATTGTATTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.37, C:0.14, G:0.08, T:0.40
Consensus pattern (42 bp):
TACACTATATTAGAATCACCATTAATTTGCAAAATATTAATT
Found at i:5256526 original size:267 final size:266
Alignment explanation
Indices: 5256128--5256895 Score: 945
Period size: 267 Copynumber: 2.9 Consensus size: 266
5256118 AATCAATGGT
* *
5256128 ATCCTAAATCTAAAAGGTAAACCAATCGTGACAAAGATTTGGGGAAGAGAG------ATTTAAGT
1 ATCCTAAATCTAAAAGGTAAACCACTCGTGACAAAGATTTGGGGAAGAGAGACACACATATAAGT
* * * *
5256187 CAAATTGATAAAATGGACTCTATGCTATTTGTGTGATTGTATCCATAATTCAGAAAGTAATGAAT
66 CAAATGGATAAAATGGACTCCATGCAATTTGTATGATTGTATCCATAATTCAGAAAGTAATGAAT
5256252 GGATCCTAAATCTAAAAGATAAACCACTCAAGACAAAGATTTAGGGAAGAGAGACACCATATAAG
131 GGATCCTAAATCTAAAAGATAAACCACTCAAGACAAAGATTTAGGGAAGAGAGACACCATATAAG
* * *
5256317 CCAAATGGAAAAAAGCGGACTCCTTGCGATTCATATGATCATATCTGTAACTCAGAGAGTGACCA
196 CCAAATGGAAAAAAGC-GACTCCATGAGATTCATATGATCATATCTGTAACTCAAAGAGTGACCA
5256382 TT-G-GG
260 TTGGAGG
5256387 ATCCTAAATCTAAAAGGTAAACCACTCGTGACAAAAGATTTGGGGAAGAGAGACACAACATATAA
1 ATCCTAAATCTAAAAGGTAAACCACTCGTGAC-AAAGATTTGGGGAAGAGAGACAC-ACATATAA
* ** *
5256452 GTCAAATGGATAAAATGGACTCCATGCCATTCATATGATTGTATCCATAATTCAGAAAGCAATGA
64 GTCAAATGGATAAAATGGACTCCATGCAATTTGTATGATTGTATCCATAATTCAGAAAGTAATGA
*
5256517 ATGGATCCTAAATCTAAAAGATAAACCACTCAAGACAAAGATTTAGGGAAAAGAGACACCATATA
129 ATGGATCCTAAATCTAAAAGATAAACCACTCAAGACAAAGATTTAGGGAAGAGAGACACCATATA
* * *
5256582 AGCCAAATGGAAAAAAGCAGACTCCATGAG-TTCGTCTG-TCATATCTGTAACTCAAAGAGTGAT
194 AGCCAAATGGAAAAAAGC-GACTCCATGAGATTCATATGATCATATCTGTAACTCAAAGAGTGAC
5256645 CATTGGATGG
258 CATTGGA-GG
* ** * *
5256655 ATCCTAAATCTAAAAGATAAACCACTCAAGACAAAGATTTAGGGAAGAGAGACAC-CACCATAAG
1 ATCCTAAATCTAAAAGGTAAACCACTCGTGACAAAGATTTGGGGAAGAGAGACACACA-TATAAG
* * *** ** ** * * *
5256719 CCAAATGGAAAAAAACAAACTCCATGCAATTTGTATGATCATATCTGTAACTCAG--AGTGATCA
65 TCAAATGG-ATAAAATGGACTCCATGCAATTTGTATGATTGTATCCATAATTCAGAAAGTAATGA
* * ** *
5256782 TTGGGATCCTAAATCTAAAAGGT-AACCTACTCCTGACAAAAGATTTGGGGAAGAGAGACACAAC
129 AT-GGATCCTAAATCTAAAAGATAAACC-ACTCAAGAC-AAAGATTTAGGGAAGAGAGACAC--C
* * *
5256846 ATATAAGTCAAATGGATAAAA-CGACTCCATGTGATTCATATGATCATATC
189 ATATAAGCCAAATGGAAAAAAGCGACTCCATGAGATTCATATGATCATATC
5256896 CGAAATTCAG
Statistics
Matches: 440, Mismatches: 49, Indels: 30
0.85 0.09 0.06
Matches are distributed among these distances:
259 31 0.07
260 19 0.04
265 39 0.09
266 45 0.10
267 241 0.55
268 38 0.09
269 27 0.06
ACGTcount: A:0.41, C:0.17, G:0.18, T:0.23
Consensus pattern (266 bp):
ATCCTAAATCTAAAAGGTAAACCACTCGTGACAAAGATTTGGGGAAGAGAGACACACATATAAGT
CAAATGGATAAAATGGACTCCATGCAATTTGTATGATTGTATCCATAATTCAGAAAGTAATGAAT
GGATCCTAAATCTAAAAGATAAACCACTCAAGACAAAGATTTAGGGAAGAGAGACACCATATAAG
CCAAATGGAAAAAAGCGACTCCATGAGATTCATATGATCATATCTGTAACTCAAAGAGTGACCAT
TGGAGG
Found at i:5256530 original size:134 final size:131
Alignment explanation
Indices: 5256058--5256956 Score: 813
Period size: 134 Copynumber: 6.8 Consensus size: 131
5256048 CCAAAGGAGA
** * * ** * *
5256058 TCAAATGGATAAAAACAAACTCCATGCGATTTGTAAGATTGTATCCATAACTCAGAAAGCAATCA
1 TCAAATGGAT-AAAACGGACTCCATGCGATTCGTATGATCATATCCATAACTCAGAAAGTAATGA
* * * *
5256123 ATGGTATCCTAAATCTAAAAGGTAAACCAATCGTGACAAAGATTTGGGGAAGAGAG-----ATTT
65 ATGG-ATCCTAAATCTAAAAGGTAAACCACTCATGACAAAGATTTAGGGAAGAGAGACACCATAT
5256183 AAG
129 AAG
* * * * * * ** *
5256186 TCAAATTGATAAAATGGACTCTATGCTATTTGTGTGATTGTATCCATAATTCAGAAAGTAATGAA
1 TCAAATGGATAAAACGGACTCCATGCGATTCGTATGATCATATCCATAACTCAGAAAGTAATGAA
* *
5256251 TGGATCCTAAATCTAAAAGATAAACCACTCAAGACAAAGATTTAGGGAAGAGAGACACCATATAA
66 TGGATCCTAAATCTAAAAGGTAAACCACTCATGACAAAGATTTAGGGAAGAGAGACACCATATAA
5256316 G
131 G
* * * * ** * * **
5256317 CCAAATGGAAAAAAGCGGACTCCTTGCGATTCATATGATCATATCTGTAACTCAGAGAGTGACCA
1 TCAAATGGATAAAA-CGGACTCCATGCGATTCGTATGATCATATCCATAACTCAGAAAGTAATGA
* * *
5256382 TTGGGATCCTAAATCTAAAAGGTAAACCACTCGTGACAAAAGATTTGGGGAAGAGAGACACAACA
65 AT-GGATCCTAAATCTAAAAGGTAAACCACTCATGAC-AAAGATTTAGGGAAGAGAGACAC--CA
5256447 TATAAG
126 TATAAG
* * * ** * *
5256453 TCAAATGGATAAAATGGACTCCATGCCATTCATATGATTGTATCCATAATTCAGAAAGCAATGAA
1 TCAAATGGATAAAACGGACTCCATGCGATTCGTATGATCATATCCATAACTCAGAAAGTAATGAA
* * *
5256518 TGGATCCTAAATCTAAAAGATAAACCACTCAAGACAAAGATTTAGGGAAAAGAGACACCATATAA
66 TGGATCCTAAATCTAAAAGGTAAACCACTCATGACAAAGATTTAGGGAAGAGAGACACCATATAA
5256583 G
131 G
* * * * * **
5256584 CCAAATGGAAAAAAGCAGACTCCATGAG-TTCGTCTG-TCATATCTGTAACTCA-AAGAGTGATC
1 TCAAATGGATAAAA-CGGACTCCATGCGATTCGTATGATCATATCCATAACTCAGAA-AGT-A--
* * *
5256646 ATTGGATGGATCCTAAATCTAAAAGATAAACCACTCAAGACAAAGATTTAGGGAAGAGAGACACC
61 A-TGAATGGATCCTAAATCTAAAAGGTAAACCACTCATGACAAAGATTTAGGGAAGAGAGACACC
*
5256711 ACCATAAG
125 A-TATAAG
* * ** * * ** * *
5256719 CCAAATGGAAAAAAACAAACTCCATGCAATTTGTATGATCATATCTGTAACTCAG--AGTGATCA
1 TCAAATGG-ATAAAACGGACTCCATGCGATTCGTATGATCATATCCATAACTCAGAAAGTAATGA
* * *
5256782 TTGGGATCCTAAATCTAAAAGGT-AACCTACTCCTGACAAAAGATTTGGGGAAGAGAGACACAAC
65 AT-GGATCCTAAATCTAAAAGGTAAACC-ACTCATGAC-AAAGATTTAGGGAAGAGAGACAC--C
5256846 ATATAAG
125 ATATAAG
* * *
5256853 TCAAATGGATAAAAC-GACTCCATGTGATTCATATGATCATATCCGA-AATTCAGAAAGTAATGA
1 TCAAATGGATAAAACGGACTCCATGCGATTCGTATGATCATATCC-ATAACTCAGAAAGTAATGA
5256916 ATGGGATCCT-AATCTCAAAA-G-AGAACCACTCATGACAAAGA
65 AT-GGATCCTAAATCT-AAAAGGTA-AACCACTCATGACAAAGA
5256957 AAGGATATCT
Statistics
Matches: 632, Mismatches: 107, Indels: 60
0.79 0.13 0.08
Matches are distributed among these distances:
126 46 0.07
127 48 0.08
128 9 0.01
129 2 0.00
130 13 0.02
131 50 0.08
132 105 0.17
133 95 0.15
134 150 0.24
135 66 0.10
136 32 0.05
137 16 0.03
ACGTcount: A:0.42, C:0.17, G:0.18, T:0.23
Consensus pattern (131 bp):
TCAAATGGATAAAACGGACTCCATGCGATTCGTATGATCATATCCATAACTCAGAAAGTAATGAA
TGGATCCTAAATCTAAAAGGTAAACCACTCATGACAAAGATTTAGGGAAGAGAGACACCATATAA
G
Found at i:5259481 original size:31 final size:31
Alignment explanation
Indices: 5259445--5259506 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
5259435 CCTTCAAAAA
*
5259445 TTCGAAATTGTT-ATTAAGGTTTTCAA-ATTTT
1 TTCGAAATT-TTCATTAA-GCTTTCAATATTTT
5259476 TTCGAAATTTTCATTAAGCTTTCAATATTTT
1 TTCGAAATTTTCATTAAGCTTTCAATATTTT
5259507 CAAAATTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
30 9 0.32
31 19 0.68
ACGTcount: A:0.29, C:0.10, G:0.10, T:0.52
Consensus pattern (31 bp):
TTCGAAATTTTCATTAAGCTTTCAATATTTT
Found at i:5259544 original size:31 final size:31
Alignment explanation
Indices: 5259503--5259572 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
5259493 GCTTTCAATA
* *
5259503 TTTTCAAAATTTT-ATCTAAATCTTTTA-AATT
1 TTTTAAAAATTTTAAT-TAAATCATTTATAA-T
5259534 TTTTAAAAATTTTAATTAAATCATTTATAAT
1 TTTTAAAAATTTTAATTAAATCATTTATAAT
5259565 TTTTAAAA
1 TTTTAAAA
5259573 GTTATCGTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
31 31 0.89
32 4 0.11
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (31 bp):
TTTTAAAAATTTTAATTAAATCATTTATAAT
Found at i:5260000 original size:27 final size:27
Alignment explanation
Indices: 5259970--5260033 Score: 112
Period size: 27 Copynumber: 2.4 Consensus size: 27
5259960 ATAAAAAATA
5259970 ACCAAAATATTA-AACTTTTTTTTATTT
1 ACCAAAATATTATAA-TTTTTTTTATTT
5259997 ACCAAAATATTATAATTTTTTTTATTT
1 ACCAAAATATTATAATTTTTTTTATTT
5260024 ACCAAAATAT
1 ACCAAAATAT
5260034 ACCAAAAACG
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
27 34 0.94
28 2 0.06
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.48
Consensus pattern (27 bp):
ACCAAAATATTATAATTTTTTTTATTT
Found at i:5263158 original size:2 final size:2
Alignment explanation
Indices: 5263151--5263176 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
5263141 CATCTATCAC
5263151 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
5263177 TAAAGCCATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5268516 original size:17 final size:17
Alignment explanation
Indices: 5268487--5268527 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
5268477 ACTTTCCCTC
5268487 AAAC-TTTTATTCCCCA
1 AAACTTTTTATTCCCCA
* *
5268503 AAACTTTTTTTTCCCCT
1 AAACTTTTTATTCCCCA
5268520 AAACTTTT
1 AAACTTTT
5268528 ACTTCTCACC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.27, C:0.27, G:0.00, T:0.46
Consensus pattern (17 bp):
AAACTTTTTATTCCCCA
Found at i:5273963 original size:28 final size:27
Alignment explanation
Indices: 5273915--5273969 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
5273905 TAGGCGCCAA
5273915 TGAATAAAAAAATAATATATATATTTTT
1 TGAATAAAAAAATAATATATAT-TTTTT
* *
5273943 TGAAT-AAAATATAATTTTATATTTTTT
1 TGAATAAAAAAATAA-TATATATTTTTT
5273970 AATATTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 13 0.54
28 11 0.46
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (27 bp):
TGAATAAAAAAATAATATATATTTTTT
Found at i:5273967 original size:25 final size:27
Alignment explanation
Indices: 5273915--5273973 Score: 77
Period size: 26 Copynumber: 2.2 Consensus size: 27
5273905 TAGGCGCCAA
5273915 TGAATAAAAAAATAATATATATATTTTT
1 TGAAT-AAAAAATAATATATATATTTTT
* *
5273943 TGAATAAAATATAAT-TTTATATTTTT
1 TGAATAAAAAATAATATATATATTTTT
5273969 T-AATA
1 TGAATA
5273974 TTTTTTTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 4 0.14
26 11 0.38
27 9 0.31
28 5 0.17
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.47
Consensus pattern (27 bp):
TGAATAAAAAATAATATATATATTTTT
Found at i:5274072 original size:27 final size:27
Alignment explanation
Indices: 5274042--5274106 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
5274032 CCTATCAGGT
5274042 AGGCGCCAATGAAGGTGCCTCATAAAG
1 AGGCGCCAATGAAGGTGCCTCATAAAG
**
5274069 AGGCGCCAATGAAGGTGCCTCATTGAG
1 AGGCGCCAATGAAGGTGCCTCATAAAG
*
5274096 AGGCACCAATG
1 AGGCGCCAATG
5274107 GTTGGCCTTC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.31, C:0.23, G:0.31, T:0.15
Consensus pattern (27 bp):
AGGCGCCAATGAAGGTGCCTCATAAAG
Found at i:5274494 original size:19 final size:19
Alignment explanation
Indices: 5274450--5274503 Score: 81
Period size: 19 Copynumber: 2.8 Consensus size: 19
5274440 TTTTTGTATA
* *
5274450 TATGAATATTGTAATTTTTT
1 TATGAATATTGTAA-TGTTG
5274470 TATGAATATTGTAATGTTG
1 TATGAATATTGTAATGTTG
5274489 TATGAATATTGTAAT
1 TATGAATATTGTAAT
5274504 TATTTTATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 18 0.56
20 14 0.44
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (19 bp):
TATGAATATTGTAATGTTG
Found at i:5274574 original size:22 final size:22
Alignment explanation
Indices: 5274546--5274684 Score: 179
Period size: 22 Copynumber: 5.9 Consensus size: 22
5274536 GGATTAGTAA
5274546 TTTGTATGAATATTGTAATTTT
1 TTTGTATGAATATTGTAATTTT
5274568 TTTGTATGAATATTGTAATATTATAGT
1 TTTGTATGAATATTGT-A-ATT-T--T
5274595 TTTGTATGAATATTGTAATTTT
1 TTTGTATGAATATTGTAATTTT
5274617 TTTGTATGAATATTGTAATTTTGTAAT
1 TTTGTATGAATATTGTAA--TT-T--T
5274644 TTTGTATGAATATTGTAATTTT
1 TTTGTATGAATATTGTAATTTT
*
5274666 TTTATATGAATATTGTAAT
1 TTTGTATGAATATTGTAAT
5274685 ATTAGGGGTT
Statistics
Matches: 106, Mismatches: 1, Indels: 20
0.83 0.01 0.16
Matches are distributed among these distances:
22 54 0.51
23 1 0.01
24 7 0.07
25 7 0.07
26 1 0.01
27 36 0.34
ACGTcount: A:0.30, C:0.00, G:0.14, T:0.56
Consensus pattern (22 bp):
TTTGTATGAATATTGTAATTTT
Found at i:5274599 original size:49 final size:49
Alignment explanation
Indices: 5274538--5274688 Score: 250
Period size: 49 Copynumber: 3.1 Consensus size: 49
5274528 ATAGTTTTGG
5274538 ATTAGTAA-TTTGTATGAATATTGTAATTTTTTTGTATGAATATTGTAAT
1 ATTA-TAATTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGTAAT
*
5274587 ATTATAGTTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGTAAT
1 ATTATAATTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGTAAT
* * *
5274636 TTTGTAATTTTGTATGAATATTGTAATTTTTTTATATGAATATTGTAAT
1 ATTATAATTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGTAAT
5274685 ATTA
1 ATTA
5274689 GGGGTTTTTG
Statistics
Matches: 94, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
48 2 0.02
49 92 0.98
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (49 bp):
ATTATAATTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGTAAT
Found at i:5274798 original size:12 final size:12
Alignment explanation
Indices: 5274781--5274808 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
5274771 CAATTTCAAA
5274781 TTGTAGACAATT
1 TTGTAGACAATT
5274793 TTGTAGACAATT
1 TTGTAGACAATT
5274805 TTGT
1 TTGT
5274809 GATTCAAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.29, C:0.07, G:0.18, T:0.46
Consensus pattern (12 bp):
TTGTAGACAATT
Found at i:5277730 original size:13 final size:13
Alignment explanation
Indices: 5277712--5277753 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
5277702 TTATTTTTTT
5277712 CTTCTTTTCCTTC
1 CTTCTTTTCCTTC
5277725 CTTCTTTTCCTT-
1 CTTCTTTTCCTTC
*
5277737 CTGC--TTCCTTC
1 CTTCTTTTCCTTC
5277748 CTTCTT
1 CTTCTT
5277754 ATTTCTTCCG
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
10 6 0.25
11 3 0.12
12 3 0.12
13 12 0.50
ACGTcount: A:0.00, C:0.38, G:0.02, T:0.60
Consensus pattern (13 bp):
CTTCTTTTCCTTC
Found at i:5277732 original size:23 final size:24
Alignment explanation
Indices: 5277706--5277761 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 24
5277696 AATACCTTAT
*
5277706 TTTTTTCTTCT-TTTCCTTCCTTC
1 TTTTTTCTTCTGCTTCCTTCCTTC
*
5277729 -TTTTCCTTCTGCTTCCTTCCTTC
1 TTTTTTCTTCTGCTTCCTTCCTTC
*
5277752 TTATTTCTTC
1 TTTTTTCTTC
5277762 CGTTTCTCTA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 9 0.33
23 11 0.41
24 7 0.26
ACGTcount: A:0.02, C:0.32, G:0.02, T:0.64
Consensus pattern (24 bp):
TTTTTTCTTCTGCTTCCTTCCTTC
Found at i:5278627 original size:7 final size:7
Alignment explanation
Indices: 5278615--5278642 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
5278605 GAGTTTGAGC
5278615 AAATTAT
1 AAATTAT
5278622 AAATTAT
1 AAATTAT
5278629 AAATTAT
1 AAATTAT
5278636 AAATTAT
1 AAATTAT
5278643 TGAGTCTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
AAATTAT
Found at i:5286881 original size:14 final size:14
Alignment explanation
Indices: 5286841--5286881 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
5286831 CTATATTTTG
*
5286841 TTTAATTTTGA-AA
1 TTTAATTTTGATAT
5286854 TTTAATTTAT-ATAT
1 TTTAATTT-TGATAT
5286868 TTTAATTTTGATAT
1 TTTAATTTTGATAT
5286882 AATTTGGTAC
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
13 10 0.42
14 14 0.58
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (14 bp):
TTTAATTTTGATAT
Found at i:5291805 original size:11 final size:11
Alignment explanation
Indices: 5291789--5291816 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
5291779 TAATTTCGAA
5291789 GGGCGTACGAT
1 GGGCGTACGAT
5291800 GGGCGTACGAT
1 GGGCGTACGAT
5291811 GGGCGT
1 GGGCGT
5291817 CATTACCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.14, C:0.18, G:0.50, T:0.18
Consensus pattern (11 bp):
GGGCGTACGAT
Found at i:5295786 original size:22 final size:23
Alignment explanation
Indices: 5295760--5295802 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
5295750 ACTTAAATTT
5295760 TTAAATTT-GAAAAATAAAAAAA
1 TTAAATTTCGAAAAATAAAAAAA
*
5295782 TTAAATTTCTAAAAATAAAAA
1 TTAAATTTCGAAAAATAAAAA
5295803 TATAAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (23 bp):
TTAAATTTCGAAAAATAAAAAAA
Found at i:5295800 original size:14 final size:14
Alignment explanation
Indices: 5295777--5295822 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
5295767 TGAAAAATAA
5295777 AAAAATTAAATTTCT
1 AAAAATTAAA-TTCT
* * *
5295792 AAAAATAAAAATAT
1 AAAAATTAAATTCT
5295806 AAAAATTAAATTCT
1 AAAAATTAAATTCT
5295820 AAA
1 AAA
5295823 TAGACGAAGA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
14 16 0.64
15 9 0.36
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.30
Consensus pattern (14 bp):
AAAAATTAAATTCT
Found at i:5297876 original size:16 final size:17
Alignment explanation
Indices: 5297843--5297878 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
5297833 GAATACCTAT
5297843 AAAATTATCTTTTAAAA
1 AAAATTATCTTTTAAAA
5297860 AAAATTATCTTTTAAAA
1 AAAATTATCTTTTAAAA
5297877 AA
1 AA
5297879 GATAATTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.39
Consensus pattern (17 bp):
AAAATTATCTTTTAAAA
Found at i:5298975 original size:45 final size:45
Alignment explanation
Indices: 5298911--5299000 Score: 153
Period size: 45 Copynumber: 2.0 Consensus size: 45
5298901 CACTCAACCA
5298911 GGTTCGACCCAATATGTCACGATGGCAGCTCCGCCAAACCCTGCT
1 GGTTCGACCCAATATGTCACGATGGCAGCTCCGCCAAACCCTGCT
* * *
5298956 GGTTCGATCCAATATGTCACGGTGGCAGCTGCGCCAAACCCTGCT
1 GGTTCGACCCAATATGTCACGATGGCAGCTCCGCCAAACCCTGCT
5299001 TCTGCAGAGA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.21, C:0.33, G:0.24, T:0.21
Consensus pattern (45 bp):
GGTTCGACCCAATATGTCACGATGGCAGCTCCGCCAAACCCTGCT
Found at i:5303357 original size:21 final size:20
Alignment explanation
Indices: 5303337--5303381 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
5303327 TTTTACTCAT
5303337 TATTT-TTATGCACATTATCA
1 TATTTGTTATGC-CATTATCA
*
5303357 TATTTGTTATTCCATTATGCA
1 TATTTGTTATGCCATTAT-CA
5303378 TATT
1 TATT
5303382 AACACCATAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.27, C:0.13, G:0.07, T:0.53
Consensus pattern (20 bp):
TATTTGTTATGCCATTATCA
Found at i:5303655 original size:108 final size:106
Alignment explanation
Indices: 5303411--5303716 Score: 341
Period size: 108 Copynumber: 2.8 Consensus size: 106
5303401 AAAATTTTCT
* * * * * *
5303411 AAATGAGGCAATATTTAGCATTTGGAAACTT-GAGAAAATGTGTCCTAATGTGTTGGGTTTCAAT
1 AAATAAGGCAATGTTT-GCGTTTGGAAA-TTCGAGAAAACGTGCCCTAATGTGTTGGGTTTCGA-
* * * * * * *
5303475 TTTTTTCGTTTAACCAAATAGCTAAAAATCCTTTTAAAAATTTCA
63 TTTTCTCG-TTGACCAAATAGCCAAATACCCTCTTAAAAAATTCA
* * *
5303520 AAATAAGACAATGTTTTACGTTTGGAAATTCGAGAAAACATGCCCTAATGTGTTGGGTTTCGATT
1 AAATAAGGCAATG-TTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGTTGGGTTTCGATT
*
5303585 TTCTCGTTCGACCAAATAGCCGAATACCCTCTTAAAAAATTCA
65 TTCTCGTT-GACCAAATAGCCAAATACCCTCTTAAAAAATTCA
*
5303628 AAATAAGGCAATGTTTGCGTTTGGGAAA-TCGATG-AAACGTGCCCTAATGTGCTGGGTTTCGA-
1 AAATAAGGCAATGTTTGCGTTT-GGAAATTCGA-GAAAACGTGCCCTAATGTGTTGGGTTTCGAT
5303690 TTTCTCGTTGAACCAAATAGCCAAATA
64 TTTCTCGTTG-ACCAAATAGCCAAATA
5303717 TCCTTTTATA
Statistics
Matches: 169, Mismatches: 22, Indels: 15
0.82 0.11 0.07
Matches are distributed among these distances:
105 1 0.01
106 24 0.14
107 40 0.24
108 54 0.32
109 47 0.28
110 3 0.02
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (106 bp):
AAATAAGGCAATGTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGTTGGGTTTCGATTT
TCTCGTTGACCAAATAGCCAAATACCCTCTTAAAAAATTCA
Found at i:5305953 original size:16 final size:16
Alignment explanation
Indices: 5305934--5305972 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
5305924 TTAAATTAAA
5305934 ATTAAAACTAATTATT
1 ATTAAAACTAATTATT
* *
5305950 ATTAAAATTAATTGTT
1 ATTAAAACTAATTATT
*
5305966 ATCAAAA
1 ATTAAAA
5305973 TTGCATCAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (16 bp):
ATTAAAACTAATTATT
Found at i:5310965 original size:46 final size:46
Alignment explanation
Indices: 5310898--5311259 Score: 329
Period size: 46 Copynumber: 8.5 Consensus size: 46
5310888 TGAGTACTTT
5310898 TGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATC
1 TGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATC
5310944 TGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATC
1 TGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATC
* * * * * **
5310990 TGATCAAGTGAGAAAGTGATAAGT--CA-C-TTATCT-GA-TCAAG
1 TGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATC
5311030 TGA-CAAAGTG----A----TAAGTGGTAGCTTTAGCTACACTTATC
1 TGATC-AAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATC
* *
5311068 TGATCAAGTGACAAAGTAATAAGTGGTAGCTTTAGCTACACTTATT
1 TGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATC
*
5311114 TGATCAAGTGAGAAAGTGATAAGTGGTAGC-TT---T--AC---T-
1 TGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATC
* * *
5311150 T-ATCAAGTGAGAAAGTGATAAATGGTAG-TCTAGCTACACTTATC
1 TGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATC
* * *
5311194 TGATC-AGAGAC-AAGTGATAAGTGGTTGC-CTAGCTACACTTATC
1 TGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATC
* *
5311237 TGATC-AGGGAC-AAGTGACAAGTG
1 TGATCAAGTGACAAAGTGATAAGTG
5311260 ATCATACGTA
Statistics
Matches: 264, Mismatches: 24, Indels: 59
0.76 0.07 0.17
Matches are distributed among these distances:
32 5 0.02
34 1 0.00
35 28 0.11
36 7 0.03
37 2 0.01
38 11 0.04
39 2 0.01
40 14 0.05
41 1 0.00
42 7 0.03
43 52 0.20
44 6 0.02
45 5 0.02
46 123 0.47
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (46 bp):
TGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATC
Found at i:5311018 original size:32 final size:32
Alignment explanation
Indices: 5310982--5311045 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
5310972 GCTTTAGCTA
*
5310982 CACTTATCTGATCAAGTGAGAAAGTGATAAGT
1 CACTTATCTGATCAAGTGACAAAGTGATAAGT
5311014 CACTTATCTGATCAAGTGACAAAGTGATAAGT
1 CACTTATCTGATCAAGTGACAAAGTGATAAGT
5311046 GGTAGCTTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (32 bp):
CACTTATCTGATCAAGTGACAAAGTGATAAGT
Found at i:5311028 original size:78 final size:78
Alignment explanation
Indices: 5310936--5311091 Score: 294
Period size: 78 Copynumber: 2.0 Consensus size: 78
5310926 GCTTTAGCTA
5310936 CACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGA
1 CACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGA
* *
5311001 GAAAGTGATAAGT
66 CAAAGTAATAAGT
5311014 CACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGA
1 CACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGA
5311079 CAAAGTAATAAGT
66 CAAAGTAATAAGT
5311092 GGTAGCTTTA
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
78 76 1.00
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (78 bp):
CACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGA
CAAAGTAATAAGT
Found at i:5311118 original size:124 final size:126
Alignment explanation
Indices: 5310898--5311242 Score: 533
Period size: 124 Copynumber: 2.8 Consensus size: 126
5310888 TGAGTACTTT
5310898 TGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGA
1 TGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGA
5310963 TAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAGAAAGTGATAAGT-CA-C-TTATC
66 TAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAGAAAGTGATAAGTGCAGCTTTA-C
*
5311022 TGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTAA
1 TGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGA
* *
5311087 TAAGTGGTAGCTTTAGCTACACTTATTTGATCAAGTGAGAAAGTGATAAGTGGTAGCTTTAC
66 TAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAGAAAGTGATAAGT-GCAGCTTTAC
* * * * *
5311149 TTATCAAGTGAGAAAGTGATAAATGGTAG-TCTAGCTACACTTATCTGATC-AGAGAC-AAGTGA
1 TGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGA
* *
5311211 TAAGTGGTTGC-CTAGCTACACTTATCTGATCA
66 TAAGTGGTAGCTTTAGCTACACTTATCTGATCA
5311243 GGGACAAGTG
Statistics
Matches: 205, Mismatches: 12, Indels: 9
0.91 0.05 0.04
Matches are distributed among these distances:
123 19 0.09
124 129 0.63
125 5 0.02
126 21 0.10
127 28 0.14
128 3 0.01
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.30
Consensus pattern (126 bp):
TGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGA
TAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAGAAAGTGATAAGTGCAGCTTTAC
Done.