Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 150 of 255
Found at i:48596628 original size:39 final size:40
Alignment explanation
Indices: 48596507--48596729 Score: 257
Period size: 39 Copynumber: 5.7 Consensus size: 40
48596497 GCTCCTCGTT
* *
48596507 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
48596547 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
*
48596587 CAAATGCCTTCGGG-CTTAGCCCAGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
48596626 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
48596665 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
48596706 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
48596730 CATCATTCAA
Statistics
Matches: 164, Mismatches: 11, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
38 2 0.01
39 87 0.53
40 64 0.39
41 11 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:48596676 original size:78 final size:80
Alignment explanation
Indices: 48596507--48596729 Score: 244
Period size: 79 Copynumber: 2.8 Consensus size: 80
48596497 GCTCCTCGTT
**
48596507 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGAATATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
*
48596572 ATTTAGTAACTCGCA
66 AATTAGTAACTCGCA
* *
48596587 CAAATGCCTTCGGG-CTTAGCCCAGAAT-TAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCC
1 CAAATGCCTTCGGGACATAGCCC-GAATATAGTAAT-TCGCACAAATGCCTTCGGGACTTAACCC
*
48596648 GGAATTAGTATCTCGCA
64 GGAATTAGTAACTCGCA
* * * * * * *
48596665 CAAATGCCTTC-GGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CATAGCCCGAATATAGT-AATTCGCACAAATGCCTTCGGGACTTAACCC
48596727 GGA
64 GGA
48596730 CATCATTCAA
Statistics
Matches: 124, Mismatches: 11, Indels: 17
0.82 0.07 0.11
Matches are distributed among these distances:
77 2 0.02
78 47 0.38
79 53 0.43
80 21 0.17
81 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (80 bp):
CAAATGCCTTCGGGACATAGCCCGAATATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
AATTAGTAACTCGCA
Found at i:48596690 original size:118 final size:119
Alignment explanation
Indices: 48596507--48596726 Score: 283
Period size: 118 Copynumber: 1.9 Consensus size: 119
48596497 GCTCCTCGTT
*
48596507 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
*
48596572 AT-TTAGTAAC-TCGCACAAATGCCTTCGGG-CTTAGCCCAGAATTAGTATCTCGCA
66 ATATT-GTAACTTAGCAC-AA-GCCTTCGGGACTTAGCCCAGAATTAGTATCTCGCA
* **
48596626 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGT-ATCTCGCACAAATGCCTTC-GGATCTTAGTC
1 CAAATGCCTTCGGGACATAGCCCGGATA-TAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACC
*
48596687 CGGATATTGTCACTTAGCACAAGCCTTCGGGACTTAGCCC
63 CGGATATTGTAACTTAGCACAAGCCTTCGGGACTTAGCCC
48596727 GGACATCATT
Statistics
Matches: 89, Mismatches: 6, Indels: 13
0.82 0.06 0.12
Matches are distributed among these distances:
117 15 0.17
118 53 0.60
119 21 0.24
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (119 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATTGTAACTTAGCACAAGCCTTCGGGACTTAGCCCAGAATTAGTATCTCGCA
Found at i:48599231 original size:18 final size:18
Alignment explanation
Indices: 48599185--48599238 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
48599175 TGTAATAAGG
48599185 TTTTCATTATGTTATTATTA
1 TTTTCATTA--TTATTATTA
* **
48599205 CTTGAATTATTATTATTA
1 TTTTCATTATTATTATTA
*
48599223 TTTTCATTATAATTAT
1 TTTTCATTATTATTAT
48599239 GAGAAGTTGA
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
18 21 0.78
20 6 0.22
ACGTcount: A:0.30, C:0.06, G:0.04, T:0.61
Consensus pattern (18 bp):
TTTTCATTATTATTATTA
Found at i:48602341 original size:16 final size:16
Alignment explanation
Indices: 48602314--48602356 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
48602304 ATGAATCGGC
*
48602314 AAAAGCCAAAATGCCG
1 AAAAGCCGAAATGCCG
* *
48602330 AAAAGTCGAAATGTCG
1 AAAAGCCGAAATGCCG
48602346 AAAAGCCGAAA
1 AAAAGCCGAAA
48602357 GTTTTGCTAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.51, C:0.19, G:0.21, T:0.09
Consensus pattern (16 bp):
AAAAGCCGAAATGCCG
Found at i:48602620 original size:29 final size:28
Alignment explanation
Indices: 48602565--48602679 Score: 140
Period size: 29 Copynumber: 4.0 Consensus size: 28
48602555 GTGAGCATGA
* * *
48602565 ATATGAATGTGACTGGGCCTAACGGGCC
1 ATATAAATGTGATTGGGCCTAATGGGCC
48602593 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
* *
48602622 ATATATAGGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
* * *
48602651 ATATGAATATGATTGGGCTTAATGGGCC
1 ATATAAATGTGATTGGGCCTAATGGGCC
48602679 A
1 A
48602680 GATATAGGTA
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
28 27 0.36
29 49 0.64
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.29
Consensus pattern (28 bp):
ATATAAATGTGATTGGGCCTAATGGGCC
Found at i:48602687 original size:57 final size:58
Alignment explanation
Indices: 48602578--48602688 Score: 170
Period size: 57 Copynumber: 1.9 Consensus size: 58
48602568 TGAATGTGAC
* *
48602578 TGGGCCTAACGGGCCATATAAATGTGATTTGGGCCTAATGGGCCATATATAGGTGATT
1 TGGGCCTAACGGGCCATATAAATATGATTTGGGCCTAATGGGCCAGATATAGGTGATT
* * *
48602636 TGGGCCTAATGGGCCATATGAATATGA-TTGGGCTTAATGGGCCAGATATAGGT
1 TGGGCCTAACGGGCCATATAAATATGATTTGGGCCTAATGGGCCAGATATAGGT
48602689 ATGTGAATTT
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
57 24 0.50
58 24 0.50
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (58 bp):
TGGGCCTAACGGGCCATATAAATATGATTTGGGCCTAATGGGCCAGATATAGGTGATT
Found at i:48605679 original size:30 final size:30
Alignment explanation
Indices: 48605643--48605700 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
48605633 AGACCATTTT
*
48605643 CCACACGGGCTGAG-CACACGCCCTTGTGAC
1 CCACACGGGCT-AGCCACACGCCCATGTGAC
48605673 CCACACGGGCTAGCCACACGCCCATGTG
1 CCACACGGGCTAGCCACACGCCCATGTG
48605701 GTAGCCCGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 2 0.08
30 24 0.92
ACGTcount: A:0.21, C:0.41, G:0.26, T:0.12
Consensus pattern (30 bp):
CCACACGGGCTAGCCACACGCCCATGTGAC
Found at i:48608552 original size:84 final size:84
Alignment explanation
Indices: 48608397--48608595 Score: 194
Period size: 84 Copynumber: 2.4 Consensus size: 84
48608387 ATTTGTTTCA
* * ** *
48608397 GGATTTATTCCCACCATTTAACAAGATTTTTTTCGATTTTATTTTGTTTTCAAATTATAATTAAA
1 GGATTTATTCCCACCATTTAACAAGATTTTATTCGATTTTATTTTGTTTCCAAAGAAAAATTAAA
*
48608462 TTAAATAAAATCTATTTTG
66 TCAAATAAAATCTATTTTG
* * * *
48608481 GGATTTATTCTCGCCGTTTTACAAGATTTTATTCGATATTT-TTTTGTTTCCAAAGAAAAACTT-
1 GGATTTATTCCCACCATTTAACAAGATTTTATTCGAT-TTTATTTTGTTTCCAAAGAAAAA-TTA
*
48608544 AATCAAAT--AAT-TATGTTTCA
64 AATCAAATAAAATCTAT-TTT-G
* **
48608564 GAATTTATTTTCACCATTTAAC-AGATTTTATT
1 GGATTTATTCCCACCATTTAACAAGATTTTATT
48608596 TTCATTTAAT
Statistics
Matches: 95, Mismatches: 16, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
81 3 0.03
82 16 0.17
83 17 0.18
84 54 0.57
85 5 0.05
ACGTcount: A:0.32, C:0.12, G:0.09, T:0.47
Consensus pattern (84 bp):
GGATTTATTCCCACCATTTAACAAGATTTTATTCGATTTTATTTTGTTTCCAAAGAAAAATTAAA
TCAAATAAAATCTATTTTG
Found at i:48611564 original size:24 final size:25
Alignment explanation
Indices: 48611537--48611596 Score: 104
Period size: 24 Copynumber: 2.4 Consensus size: 25
48611527 AGCCCTCTCG
*
48611537 AGCATCCTGATGTATAGTTCTTG-C
1 AGCATCCTGATGTATAGTTCTTGTA
48611561 AGCATCCTGATGTATAGTTCTTGTA
1 AGCATCCTGATGTATAGTTCTTGTA
48611586 AGCATCCTGAT
1 AGCATCCTGAT
48611597 CAGGTAGTGA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
24 23 0.68
25 11 0.32
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.37
Consensus pattern (25 bp):
AGCATCCTGATGTATAGTTCTTGTA
Found at i:48623156 original size:22 final size:22
Alignment explanation
Indices: 48623130--48623190 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 22
48623120 AATTTTAAAA
48623130 TTAAAAAATATAAAAA-TATTTT
1 TTAAAAAATATAAAAATTA-TTT
*
48623152 TTAAAAAATTATTAAAATTATTT
1 TTAAAAAA-TATAAAAATTATTT
* *
48623175 TTAAAAATTTTAAAAA
1 TTAAAAAATATAAAAA
48623191 ATAATTAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
22 14 0.42
23 17 0.52
24 2 0.06
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
TTAAAAAATATAAAAATTATTT
Found at i:48623191 original size:23 final size:22
Alignment explanation
Indices: 48623130--48623192 Score: 58
Period size: 22 Copynumber: 2.8 Consensus size: 22
48623120 AATTTTAAAA
* *
48623130 TTAAAAAATATAAAAATATTTTT
1 TTAAAAATTTTAAAAA-ATTTTT
*
48623153 TAAAAAATTATT--AAAATTATTT
1 TTAAAAATT-TTAAAAAATT-TTT
48623175 TTAAAAATTTTAAAAAAT
1 TTAAAAATTTTAAAAAAT
48623193 AATTAAATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
21 5 0.16
22 14 0.44
23 12 0.38
24 1 0.03
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
TTAAAAATTTTAAAAAATTTTT
Found at i:48623950 original size:21 final size:21
Alignment explanation
Indices: 48623924--48623969 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
48623914 GAGTTCTTTT
48623924 TGCAATCAAAAGCTAAAATTA
1 TGCAATCAAAAGCTAAAATTA
48623945 TGCAATCAAAAGCTAAAATTA
1 TGCAATCAAAAGCTAAAATTA
48623966 TGCA
1 TGCA
48623970 TGGAGTAGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.50, C:0.15, G:0.11, T:0.24
Consensus pattern (21 bp):
TGCAATCAAAAGCTAAAATTA
Found at i:48627264 original size:17 final size:17
Alignment explanation
Indices: 48627238--48627285 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
48627228 GTGAATCATG
* *
48627238 TCCACCAGGCGATATTG
1 TCCACTAGGCGATATTA
*
48627255 TCCTCTAGGCGATATTA
1 TCCACTAGGCGATATTA
*
48627272 TCCACTAGACGATA
1 TCCACTAGGCGATA
48627286 CTGTTTGCCA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (17 bp):
TCCACTAGGCGATATTA
Found at i:48639253 original size:27 final size:27
Alignment explanation
Indices: 48639221--48639274 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
48639211 ATATTTGAAA
*
48639221 AAGGGTTATTAAGCTTATTTGGCGTAT
1 AAGGGTTATGAAGCTTATTTGGCGTAT
48639248 AAGGGTTATGAAGCTTATTTGGCGTAT
1 AAGGGTTATGAAGCTTATTTGGCGTAT
48639275 GAGTTGAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.26, C:0.07, G:0.28, T:0.39
Consensus pattern (27 bp):
AAGGGTTATGAAGCTTATTTGGCGTAT
Found at i:48651338 original size:24 final size:24
Alignment explanation
Indices: 48651311--48651380 Score: 68
Period size: 20 Copynumber: 3.2 Consensus size: 24
48651301 GTGAGAAAAA
48651311 ATTTTAAAGTTTGGCAAAAAGGGC
1 ATTTTAAAGTTTGGCAAAAAGGGC
48651335 ATTTT--A--TTGAG-AAAAA----
1 ATTTTAAAGTTTG-GCAAAAAGGGC
48651351 ATTTTAAAGTTTGGCAAAAAGGGC
1 ATTTTAAAGTTTGGCAAAAAGGGC
48651375 ATTTTA
1 ATTTTA
48651381 GTTATTTGGT
Statistics
Matches: 36, Mismatches: 0, Indels: 20
0.64 0.00 0.36
Matches are distributed among these distances:
16 5 0.14
18 1 0.03
19 1 0.03
20 16 0.44
21 1 0.03
22 1 0.03
24 11 0.31
ACGTcount: A:0.40, C:0.06, G:0.20, T:0.34
Consensus pattern (24 bp):
ATTTTAAAGTTTGGCAAAAAGGGC
Found at i:48651346 original size:40 final size:40
Alignment explanation
Indices: 48651302--48651380 Score: 158
Period size: 40 Copynumber: 2.0 Consensus size: 40
48651292 ATGGACATGG
48651302 TGAGAAAAAATTTTAAAGTTTGGCAAAAAGGGCATTTTAT
1 TGAGAAAAAATTTTAAAGTTTGGCAAAAAGGGCATTTTAT
48651342 TGAGAAAAAATTTTAAAGTTTGGCAAAAAGGGCATTTTA
1 TGAGAAAAAATTTTAAAGTTTGGCAAAAAGGGCATTTTA
48651381 GTTATTTGGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.43, C:0.05, G:0.20, T:0.32
Consensus pattern (40 bp):
TGAGAAAAAATTTTAAAGTTTGGCAAAAAGGGCATTTTAT
Found at i:48654514 original size:17 final size:17
Alignment explanation
Indices: 48654489--48654525 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
48654479 TGAAAATTTC
48654489 TTTCAAAAAGTTTGACA
1 TTTCAAAAAGTTTGACA
* *
48654506 TTTCGAAAATTTTGACA
1 TTTCAAAAAGTTTGACA
48654523 TTT
1 TTT
48654526 GGGTACTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.35, C:0.11, G:0.11, T:0.43
Consensus pattern (17 bp):
TTTCAAAAAGTTTGACA
Found at i:48655583 original size:27 final size:27
Alignment explanation
Indices: 48655542--48655596 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
48655532 TGTCATGTGA
* *
48655542 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGGCAAATTACTATTACATG
**
48655569 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGCAAATTACTATTACATG
48655596 A
1 A
48655597 GTTGTATGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.40, C:0.07, G:0.15, T:0.38
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTATTACATG
Found at i:48655962 original size:51 final size:52
Alignment explanation
Indices: 48655844--48656088 Score: 272
Period size: 51 Copynumber: 4.9 Consensus size: 52
48655834 TATTGTGAGG
* * * * *
48655844 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-CGGATAA-TT-GG
1 TCACGTGTGTAGTACTAAGTGTAGGCTACTATGCGTACTCAGATAACTTCGA
* *
48655893 TCTCATGTGTAGTACTAAGTGTAGGCTACTATGCGTACTC-GATAACTTCGA
1 TCACGTGTGTAGTACTAAGTGTAGGCTACTATGCGTACTCAGATAACTTCGA
* *
48655944 TCACGTGTGTAGTACTAAGTGTAGGCTACTATGCGGAC-CCGATAACTTCGA
1 TCACGTGTGTAGTACTAAGTGTAGGCTACTATGCGTACTCAGATAACTTCGA
* * * ** * *
48655995 TCACGTGTGTAGTACTAAGTGTAAGCTACTACGTGTA-TCAGAT-GGTTAGG
1 TCACGTGTGTAGTACTAAGTGTAGGCTACTATGCGTACTCAGATAACTTCGA
* *
48656045 TCATGTGTGTAGTACTAAGTGTAGGCTACTATACGTAC-CAGATA
1 TCACGTGTGTAGTACTAAGTGTAGGCTACTATGCGTACTCAGATA
48656089 GCCTTGTCTA
Statistics
Matches: 166, Mismatches: 23, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
49 38 0.23
50 44 0.27
51 84 0.51
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (52 bp):
TCACGTGTGTAGTACTAAGTGTAGGCTACTATGCGTACTCAGATAACTTCGA
Found at i:48663031 original size:42 final size:42
Alignment explanation
Indices: 48662968--48663085 Score: 148
Period size: 43 Copynumber: 2.8 Consensus size: 42
48662958 TAGGGTTAGT
*
48662968 TGAGATTACGTGTAAGACCATATCTGGGATATGACATCGATA
1 TGAGATTACATGTAAGACCATATCTGGGATATGACATCGATA
* * * *
48663010 TGAGATTTCATGTAAGGCCATAGCT-GGACTATTGCCATCGATA
1 TGAGATTACATGTAAGACCATATCTGGGA-TA-TGACATCGATA
**
48663053 TGAGATCCCATGTAAGACCATATCTGGGATATG
1 TGAGATTACATGTAAGACCATATCTGGGATATG
48663086 GCATTGGTAT
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
41 3 0.05
42 25 0.39
43 33 0.52
44 3 0.05
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.29
Consensus pattern (42 bp):
TGAGATTACATGTAAGACCATATCTGGGATATGACATCGATA
Found at i:48664790 original size:20 final size:20
Alignment explanation
Indices: 48664765--48664806 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
48664755 GCCGATAAAA
48664765 GAAAGTTTATTGAGAAAAGT
1 GAAAGTTTATTGAGAAAAGT
48664785 GAAAGTTTATTGAGAAAAGT
1 GAAAGTTTATTGAGAAAAGT
48664805 GA
1 GA
48664807 TTTTGTGGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.45, C:0.00, G:0.26, T:0.29
Consensus pattern (20 bp):
GAAAGTTTATTGAGAAAAGT
Found at i:48669171 original size:21 final size:20
Alignment explanation
Indices: 48669137--48669175 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
48669127 GAGTATTTTG
*
48669137 ATGTTTAATGATAGATTATGA
1 ATGTTTAATAATAG-TTATGA
*
48669158 ATGTTTGATAATAGTTAT
1 ATGTTTAATAATAGTTAT
48669176 ACAAGTTTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (20 bp):
ATGTTTAATAATAGTTATGA
Found at i:48673301 original size:13 final size:13
Alignment explanation
Indices: 48673283--48673307 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48673273 AGGCTATGTG
48673283 AGGGACACGAGCC
1 AGGGACACGAGCC
48673296 AGGGACACGAGC
1 AGGGACACGAGC
48673308 GTGTGCTCAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.28, G:0.40, T:0.00
Consensus pattern (13 bp):
AGGGACACGAGCC
Found at i:48674417 original size:20 final size:20
Alignment explanation
Indices: 48674388--48674426 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
48674378 TGATTGGTTG
* *
48674388 TGATTGAATTGTATTTGAAT
1 TGATTAAATTGTATGTGAAT
48674408 TGATTAAATTGTATGTGAA
1 TGATTAAATTGTATGTGAA
48674427 ATATATGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (20 bp):
TGATTAAATTGTATGTGAAT
Found at i:48684554 original size:46 final size:46
Alignment explanation
Indices: 48684504--48684679 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
48684494 TGATTGAGCA
48684504 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
48684550 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
48684595 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
48684643 -CCTGAGCTCGTTGAGTTGAGTCCGATTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
48684680 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 10, Indels: 20
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 60 0.55
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:48684660 original size:93 final size:93
Alignment explanation
Indices: 48684501--48684672 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
48684491 GGATGATTGA
*
48684501 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
48684566 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
48684594 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
*
48684658 TTGAGTCCGATTTCG
65 TTGAGTCCGAGTTCG
48684673 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:48688979 original size:90 final size:90
Alignment explanation
Indices: 48688819--48688996 Score: 218
Period size: 90 Copynumber: 2.0 Consensus size: 90
48688809 AGTAAGATGC
* * * * * *
48688819 CAACGCCATATCCCATATATGGTCTTACATGGGAATACAAGTCGATGCCAATGCCATGTCCTAGA
1 CAACGCCATATCCCAGATATGGTCTTACATGAGAACACAAGCCGATGCCAATGCCATATCCCAGA
*
48688884 CATGGTCTTACATGGGATCTCATAT
66 CATGGTCTTACACGGGATCTCATAT
*
48688909 CAACGCCATATCCTC-GATATGGTCTTACATGATAACACATA-CCGATG-CAGATGCCATATCCC
1 CAACGCCATATCC-CAGATATGGTCTTACATGAGAACACA-AGCCGATGCCA-ATGCCATATCCC
* *
48688971 AGATATGGTCTTATACGGGATCTCAT
63 AGACATGGTCTTACACGGGATCTCAT
48688997 CACCCCAAAT
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
89 2 0.03
90 71 0.95
91 2 0.03
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (90 bp):
CAACGCCATATCCCAGATATGGTCTTACATGAGAACACAAGCCGATGCCAATGCCATATCCCAGA
CATGGTCTTACACGGGATCTCATAT
Found at i:48698428 original size:48 final size:48
Alignment explanation
Indices: 48698372--48698470 Score: 189
Period size: 48 Copynumber: 2.1 Consensus size: 48
48698362 GACCATTAGC
*
48698372 CTACCGGTTGGTGTTGCCATCCGAATTGGAAAAGATTCACGATGTATT
1 CTACCGGTTGGCGTTGCCATCCGAATTGGAAAAGATTCACGATGTATT
48698420 CTACCGGTTGGCGTTGCCATCCGAATTGGAAAAGATTCACGATGTATT
1 CTACCGGTTGGCGTTGCCATCCGAATTGGAAAAGATTCACGATGTATT
48698468 CTA
1 CTA
48698471 TGTATCCATG
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.30
Consensus pattern (48 bp):
CTACCGGTTGGCGTTGCCATCCGAATTGGAAAAGATTCACGATGTATT
Found at i:48700749 original size:13 final size:13
Alignment explanation
Indices: 48700731--48700765 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
48700721 TTCATTTTGT
48700731 ATATGGC-CATGAG
1 ATATGGCTC-TGAG
48700744 ATATGGCTCTGAG
1 ATATGGCTCTGAG
48700757 ATATGGCTC
1 ATATGGCTC
48700766 ATATTGATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 20 0.95
14 1 0.05
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.29
Consensus pattern (13 bp):
ATATGGCTCTGAG
Found at i:48711151 original size:93 final size:93
Alignment explanation
Indices: 48711039--48711210 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
48711029 CGCCCATAAG
* *
48711039 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACAAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
48711103 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
*
48711132 CGAACTCGGACTCAACTCAACAAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
48711197 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
48711211 TCAATCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:48711205 original size:46 final size:46
Alignment explanation
Indices: 48711032--48711207 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
48711022 TGTAACCCGC
* *
48711032 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* *
48711078 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
48711128 -C-TCA-CGAACTCGGACTCAACTCAACAAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
48711171 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
48711208 TGCTCAATCA
Statistics
Matches: 109, Mismatches: 11, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 60 0.55
47 28 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:48712482 original size:50 final size:50
Alignment explanation
Indices: 48712407--48712505 Score: 189
Period size: 50 Copynumber: 2.0 Consensus size: 50
48712397 CCACAACCTT
48712407 ATACTACTACTGAACCACTTTAGAAATTTTATTTTCTTCTTCTCTTCTTA
1 ATACTACTACTGAACCACTTTAGAAATTTTATTTTCTTCTTCTCTTCTTA
*
48712457 ATACTACTACTGAACCACTTTAGAAATTTTCTTTTCTTCTTCTCTTCTT
1 ATACTACTACTGAACCACTTTAGAAATTTTATTTTCTTCTTCTCTTCTT
48712506 CTTTTTCTTT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.24, C:0.23, G:0.04, T:0.48
Consensus pattern (50 bp):
ATACTACTACTGAACCACTTTAGAAATTTTATTTTCTTCTTCTCTTCTTA
Found at i:48713166 original size:28 final size:30
Alignment explanation
Indices: 48713111--48713175 Score: 73
Period size: 28 Copynumber: 2.3 Consensus size: 30
48713101 AATTTAGAAT
* *
48713111 TTAG-TTTTTATATTTTTATTTTTAAAAAA
1 TTAGATTTTTATATTTTCATATTTAAAAAA
* *
48713140 TTA-ATTTTT-TATTTTCATATTTCAAAAT
1 TTAGATTTTTATATTTTCATATTTAAAAAA
48713168 TTAGATTT
1 TTAGATTT
48713176 AATTATTAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
28 18 0.60
29 12 0.40
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (30 bp):
TTAGATTTTTATATTTTCATATTTAAAAAA
Found at i:48713340 original size:31 final size:31
Alignment explanation
Indices: 48713305--48713380 Score: 89
Period size: 31 Copynumber: 2.5 Consensus size: 31
48713295 AAATTTTGTT
* * *
48713305 ATTTTAGTTACTCTTATTAAATAAGTTGTCA
1 ATTTTAGTCACTCTCATTAAATAAGTTATCA
* * * *
48713336 ATTTTAATCACTCTCGTTAGATAAGTTATTA
1 ATTTTAGTCACTCTCATTAAATAAGTTATCA
48713367 ATTTTAGTCACTCT
1 ATTTTAGTCACTCT
48713381 ACCGTTAAGA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.30, C:0.13, G:0.09, T:0.47
Consensus pattern (31 bp):
ATTTTAGTCACTCTCATTAAATAAGTTATCA
Found at i:48714167 original size:18 final size:18
Alignment explanation
Indices: 48714140--48714190 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 18
48714130 TGAGTATCTC
48714140 ATATATTTTTATAAATTTTA
1 ATATA-TTTT-TAAATTTTA
*
48714160 ATA-ATTTTT-AATTTTT
1 ATATATTTTTAAATTTTA
48714176 ATATATTTTTAAATT
1 ATATATTTTTAAATT
48714191 CAAATTCAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
16 9 0.32
17 7 0.25
18 8 0.29
19 1 0.04
20 3 0.11
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
ATATATTTTTAAATTTTA
Found at i:48721138 original size:30 final size:30
Alignment explanation
Indices: 48721104--48721160 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
48721094 TTTTCAGGCA
* *
48721104 TAGGGGTAAAATGGTTATTTTGCCAAATTC
1 TAGGGGCAAAATGGTCATTTTGCCAAATTC
48721134 TAGGGGCAAAATGGTCATTTTGCCAAA
1 TAGGGGCAAAATGGTCATTTTGCCAAA
48721161 GATGTAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.32
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATTTTGCCAAATTC
Found at i:48723013 original size:79 final size:82
Alignment explanation
Indices: 48722902--48723086 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
48722892 GCTACTCGTT
* *
48722902 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
48722965 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
48722982 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
48723045 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
48723062 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
48723087 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:48723086 original size:40 final size:40
Alignment explanation
Indices: 48722883--48723086 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
48722873 CGGAATTTAA
** *
48722883 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
48722923 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
48722963 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
48723002 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
48723042 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
48723082 CCGGA
1 CCGGA
48723087 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:48724773 original size:47 final size:47
Alignment explanation
Indices: 48724700--48724925 Score: 196
Period size: 47 Copynumber: 4.8 Consensus size: 47
48724690 CGGCCACATT
*
48724700 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCAC-AAAG
1 ATGAGTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCACGAAAG
* *
48724748 ATGAGTGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGACAG
1 ATGAGTGCCAGTGTAAGACATGTCTGGGACATGCATCAG-CACGAAAG
* * * *
48724796 A-GA-TAGCCAGTGTAAGACGTGTCTGGGACACGCATC-G-GC-TAAG
1 ATGAGT-GCCAGTGTAAGACATGTCTGGGACATGCATCAGCACGAAAG
* * * ** *
48724839 A-GTTGTGCTAGTGTAAGACATGTCTGGGACATGCATCAGGACGTGTAT
1 ATG-AGTGCCAGTGTAAGACATGTCTGGGACATGCATCAGCACG-AAAG
* *
48724887 ATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATC
1 ATGAGTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATC
48724926 GGCAATATAT
Statistics
Matches: 146, Mismatches: 20, Indels: 22
0.78 0.11 0.12
Matches are distributed among these distances:
43 4 0.03
44 29 0.20
45 2 0.01
46 10 0.07
47 47 0.32
48 35 0.24
49 14 0.10
50 5 0.03
ACGTcount: A:0.28, C:0.19, G:0.31, T:0.22
Consensus pattern (47 bp):
ATGAGTGCCAGTGTAAGACATGTCTGGGACATGCATCAGCACGAAAG
Found at i:48733285 original size:22 final size:22
Alignment explanation
Indices: 48733244--48733286 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
48733234 GACTATGCGA
*
48733244 TCTGAGCTCATGAGTTATGTGG
1 TCTGAGCTCATGAGTAATGTGG
48733266 TCTGAGCTCATGA-TAAATGTG
1 TCTGAGCTCATGAGT-AATGTG
48733287 ACACATGTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 1 0.05
22 18 0.95
ACGTcount: A:0.23, C:0.14, G:0.28, T:0.35
Consensus pattern (22 bp):
TCTGAGCTCATGAGTAATGTGG
Found at i:48741481 original size:100 final size:100
Alignment explanation
Indices: 48741308--48741495 Score: 333
Period size: 100 Copynumber: 1.9 Consensus size: 100
48741298 TATTGTGAGG
48741308 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATTGGTCGCATGTGTAGTACT
48741373 ACGTGCAGGCTACTATGCATACCCAAAAACTGTGA
66 ACGTGCAGGCTACTATGCATACCCAAAAACTGTGA
*
48741408 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACC-AGATTATTGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGA-ATAATTGGTCGCATGTGTAGTAC
* *
48741472 TAGGTGCAGGCTACTATGCGTACC
65 TACGTGCAGGCTACTATGCATACC
48741496 AGATAGCTTC
Statistics
Matches: 84, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
99 1 0.01
100 83 0.99
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.28
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATTGGTCGCATGTGTAGTACT
ACGTGCAGGCTACTATGCATACCCAAAAACTGTGA
Found at i:48741497 original size:49 final size:49
Alignment explanation
Indices: 48741313--48741500 Score: 218
Period size: 49 Copynumber: 3.8 Consensus size: 49
48741303 TGAGGTCACG
*
48741313 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACC-GAATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAG-ATAATTGGTCGCA
* * * * * * *
48741362 TGTGTAGTACTACGTGCAGGCTACTATGCATACCCA-AAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTA-CCAGATAA-T-TGGTCGCA
* *
48741413 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGGTCGCA
* *
48741462 TGTGTAGTACTAGGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATA
48741501 GCTTCGGCTA
Statistics
Matches: 113, Mismatches: 21, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
49 71 0.63
50 7 0.06
51 35 0.31
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.28
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGGTCGCA
Found at i:48756878 original size:64 final size:63
Alignment explanation
Indices: 48756797--48756980 Score: 183
Period size: 67 Copynumber: 2.8 Consensus size: 63
48756787 AGACATTATG
* *
48756797 ATGTAGCTAGGTCGCATGGGTTATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTT-TACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
48756861 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATG-G-GTTTACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
48756926 AA
62 AA
* * * * *
48756928 AT-TGGCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGT-TTACTATGTGTACACCATGTAG-ACAAGAGAGC
48756981 CGAACTATAT
Statistics
Matches: 97, Mismatches: 17, Indels: 13
0.76 0.13 0.10
Matches are distributed among these distances:
62 1 0.01
63 19 0.20
64 20 0.21
65 8 0.08
66 17 0.18
67 32 0.33
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.24
Consensus pattern (63 bp):
ATGTAGCTAGGTCGCATGGGTTTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:48767048 original size:18 final size:15
Alignment explanation
Indices: 48767006--48767045 Score: 80
Period size: 15 Copynumber: 2.7 Consensus size: 15
48766996 GTTTTCAGAA
48767006 TACTCTACCAACAAC
1 TACTCTACCAACAAC
48767021 TACTCTACCAACAAC
1 TACTCTACCAACAAC
48767036 TACTCTACCA
1 TACTCTACCA
48767046 CCATCTCGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.38, C:0.40, G:0.00, T:0.23
Consensus pattern (15 bp):
TACTCTACCAACAAC
Found at i:48770299 original size:29 final size:29
Alignment explanation
Indices: 48770265--48770330 Score: 98
Period size: 29 Copynumber: 2.3 Consensus size: 29
48770255 ATCAACCGCG
48770265 CACACTTAGTGCCATGCACTTT-AAGCTCA
1 CACACTTAGTGCCATGCA-TTTCAAGCTCA
* *
48770294 CACACTTAGTGCCATGCATTTCAAGTTCG
1 CACACTTAGTGCCATGCATTTCAAGCTCA
48770323 CACACTTA
1 CACACTTA
48770331 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.27, C:0.30, G:0.14, T:0.29
Consensus pattern (29 bp):
CACACTTAGTGCCATGCATTTCAAGCTCA
Found at i:48770443 original size:174 final size:174
Alignment explanation
Indices: 48770152--48770479 Score: 593
Period size: 174 Copynumber: 1.9 Consensus size: 174
48770142 AACTCAAGGT
* *
48770152 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
48770217 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
*
48770282 ACTTTAAGCTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
48770326 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
48770391 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
*
48770456 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
48770480 TGTACAATTT
Statistics
Matches: 147, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
174 147 1.00
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:48770471 original size:29 final size:30
Alignment explanation
Indices: 48770432--48770510 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
48770422 CTTAATAATC
48770432 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
48770462 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
48770491 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
48770511 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:48774313 original size:40 final size:40
Alignment explanation
Indices: 48774232--48774449 Score: 307
Period size: 40 Copynumber: 5.5 Consensus size: 40
48774222 CAACCAAGTA
* * *
48774232 CCTTCGGGATTTAG-CCGGACATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
48774271 CCTTCGGGATTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
48774311 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
**
48774351 CCTTCGGGACTTAGCCCAAATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
48774391 CCTTCGGGACTTAGCCTGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
48774431 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
48774450 TTATCATTCG
Statistics
Matches: 163, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 16 0.10
40 147 0.90
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:48777079 original size:40 final size:40
Alignment explanation
Indices: 48777035--48777222 Score: 304
Period size: 40 Copynumber: 4.7 Consensus size: 40
48777025 GCAAACACAT
* * * *
48777035 TTGCCTTTGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
48777075 TTGCCTTCGGGTCTTAACCCGGATATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
48777115 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
48777155 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCGTAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
48777195 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
48777223 TCCAGTGCTC
Statistics
Matches: 141, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 141 1.00
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:48783901 original size:23 final size:23
Alignment explanation
Indices: 48783875--48783929 Score: 110
Period size: 23 Copynumber: 2.4 Consensus size: 23
48783865 GGGACCACAA
48783875 AACCGATATGAGTTATGAAAAAG
1 AACCGATATGAGTTATGAAAAAG
48783898 AACCGATATGAGTTATGAAAAAG
1 AACCGATATGAGTTATGAAAAAG
48783921 AACCGATAT
1 AACCGATAT
48783930 AATTAGCCCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.47, C:0.11, G:0.20, T:0.22
Consensus pattern (23 bp):
AACCGATATGAGTTATGAAAAAG
Found at i:48785836 original size:39 final size:40
Alignment explanation
Indices: 48785741--48785963 Score: 266
Period size: 39 Copynumber: 5.7 Consensus size: 40
48785731 TTGAATGATG
*
48785741 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
48785779 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
48785820 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
48785859 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
48785898 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
48785937 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
48785964 AACGAGGAGC
Statistics
Matches: 164, Mismatches: 11, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
39 93 0.57
40 59 0.36
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:48785927 original size:79 final size:81
Alignment explanation
Indices: 48785741--48785963 Score: 282
Period size: 79 Copynumber: 2.8 Consensus size: 81
48785731 TTGAATGATG
* * *
48785741 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATATCCGGGCTAAGACCCGAAGGCAT
*
48785803 TTGTGCGAGATACTAAT
65 TTGTGCGAGATACTAAA
48785820 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGATACTAAT-TCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATATCCGGGCTAAGACCCGAAGGCAT
*
48785881 TTGTGCGAGTTACTAAA
65 TTGTGCGAGATACTAAA
* * * * *
48785898 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
48785962 TG
66 TG
48785964 AACGAGGAGC
Statistics
Matches: 127, Mismatches: 9, Indels: 15
0.84 0.06 0.10
Matches are distributed among these distances:
78 46 0.36
79 56 0.44
80 25 0.20
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:48785985 original size:79 final size:79
Alignment explanation
Indices: 48785741--48785996 Score: 217
Period size: 79 Copynumber: 3.3 Consensus size: 79
48785731 TTGAATGATG
* * * *
48785741 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
** *
48785802 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* *
48785820 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** *
48785884 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
*
48785898 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCAT
*
48785961 TTGAACGAG-GAGCTATA
63 TTGAACGAGTGA-CTAAA
* *
48785978 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
48785997 TACGTGATTT
Statistics
Matches: 153, Mismatches: 14, Indels: 20
0.82 0.07 0.11
Matches are distributed among these distances:
77 1 0.01
78 46 0.30
79 69 0.45
80 36 0.24
81 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:48789667 original size:40 final size:40
Alignment explanation
Indices: 48789623--48789810 Score: 304
Period size: 40 Copynumber: 4.7 Consensus size: 40
48789613 GCAAACACAT
* * *
48789623 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
48789663 TTGCCTTCGGGTCTTAACCCGGATATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
48789703 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* * *
48789743 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCACGTAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
48789783 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
48789811 TCCAGTGCTC
Statistics
Matches: 141, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 141 1.00
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:48805140 original size:40 final size:40
Alignment explanation
Indices: 48805096--48805280 Score: 293
Period size: 40 Copynumber: 4.6 Consensus size: 40
48805086 GCCACTAGCT
48805096 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAGCTCGCA
48805136 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAGCTCGCA
*
48805176 CAAATGCCTTCGGGACTTAGCTCGGAATTAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAGCTCGCA
* * * *
48805216 CAAATGCCTTTGGGACTTAGCCCGGAATTAGCCA-CTAGCT
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAG-TAGCTCGCA
48805256 CAAATG-CTCTCGGGACTTAGCCCGG
1 CAAATGCCT-TCGGGACTTAGCCCGG
48805281 TTATCATCCG
Statistics
Matches: 136, Mismatches: 7, Indels: 4
0.93 0.05 0.03
Matches are distributed among these distances:
39 2 0.01
40 133 0.98
41 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAGCTCGCA
Found at i:48807393 original size:34 final size:34
Alignment explanation
Indices: 48807342--48807416 Score: 123
Period size: 34 Copynumber: 2.2 Consensus size: 34
48807332 GGATATTTCA
48807342 TACGGCCCAATGAATCTCGGACTCAATTTGCCCT
1 TACGGCCCAATGAATCTCGGACTCAATTTGCCCT
* * *
48807376 TATGGCCGAATGAATCTCGGACTCAATTTGTCCT
1 TACGGCCCAATGAATCTCGGACTCAATTTGCCCT
48807410 TACGGCC
1 TACGGCC
48807417 AAATCTGAGT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (34 bp):
TACGGCCCAATGAATCTCGGACTCAATTTGCCCT
Found at i:48813249 original size:40 final size:40
Alignment explanation
Indices: 48813205--48813426 Score: 279
Period size: 40 Copynumber: 5.6 Consensus size: 40
48813195 CACTAGCTCC
* *
48813205 AATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTTGCACA
1 AATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACA
* *
48813245 AATGCCTTCGGGACTTAGCCCGGGA-TAATAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACA
* *
48813284 AATGCCTTCGGGACTTAGTCCGGAATTAGTAGCTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACA
* *
48813324 AATGCCTTCGGGACTTAGCTCGGAATTAGTAGCTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACA
* ** * *
48813364 AATGCCTTTGGGACTTAGCCCGGAATTAGCCACTAGCTCA
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACA
*
48813404 AATG-CTCTCGAGACTTAGCCCGG
1 AATGCCT-TCGGGACTTAGCCCGG
48813427 TTATCATCCG
Statistics
Matches: 161, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
39 37 0.23
40 124 0.77
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACA
Found at i:48822043 original size:34 final size:34
Alignment explanation
Indices: 48822000--48822066 Score: 125
Period size: 34 Copynumber: 2.0 Consensus size: 34
48821990 TCTTTAACTT
*
48822000 GCAACTGGTAGTATCCGAATCTCAAATCTATCTC
1 GCAACTGGTAGTATCCAAATCTCAAATCTATCTC
48822034 GCAACTGGTAGTATCCAAATCTCAAATCTATCT
1 GCAACTGGTAGTATCCAAATCTCAAATCTATCT
48822067 TTAAAAACAC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.31, C:0.25, G:0.13, T:0.30
Consensus pattern (34 bp):
GCAACTGGTAGTATCCAAATCTCAAATCTATCTC
Found at i:48825076 original size:40 final size:40
Alignment explanation
Indices: 48825022--48825246 Score: 274
Period size: 40 Copynumber: 5.6 Consensus size: 40
48825012 CTTGCACAAG
* * *
48825022 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCACAGAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
*
48825062 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
* * * *
48825102 GCCTTCGGGTCTTAGCTCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
48825142 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * *
48825182 GCCTTC-GGATCTTAGTCCAGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCA-CTAGCACAAAT
48825223 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
48825247 CATTCGAATA
Statistics
Matches: 158, Mismatches: 22, Indels: 9
0.84 0.12 0.05
Matches are distributed among these distances:
39 3 0.02
40 126 0.80
41 26 0.16
42 3 0.02
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:48825135 original size:80 final size:80
Alignment explanation
Indices: 48824986--48825246 Score: 296
Period size: 80 Copynumber: 3.3 Consensus size: 80
48824976 CTCAAGTAAT
* * * * * * * *
48824986 CTTCAGGATTTAG-CCGGATATAACTACTTGCAC-AAGGCCTTCGGGTCTTAGCCCGGATATGGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCTCGGATATAGT
*
48825049 CACTAGCACAGATGC
66 CACTAGCACAAATGC
* *
48825064 CTTCGGGACTTAGCCCGGATATAGTC-GCTAGCACAAATGCCTTCGGGTCTTAGCTCGGATATAA
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGCCTTCGGGTCTTAGCTCGGATATAG
*
48825128 TCGCTAGCACAAATGC
65 TCACTAGCACAAATGC
* * * * * *
48825144 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACGAATGCCTTCGGATCTTAG-TCCAGTTATAG
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCT-CGGATATAG
*
48825208 TCACCTAGCACAAAAGC
65 TCA-CTAGCACAAATGC
48825225 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
48825247 CATTCGAATA
Statistics
Matches: 155, Mismatches: 22, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
78 11 0.07
79 17 0.11
80 94 0.61
81 33 0.21
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCTCGGATATAGT
CACTAGCACAAATGC
Found at i:48825893 original size:38 final size:38
Alignment explanation
Indices: 48825842--48825928 Score: 174
Period size: 38 Copynumber: 2.3 Consensus size: 38
48825832 TGCTTACCTA
48825842 TGGCCGAACATACACATCAACTTATGTACTCATTCATG
1 TGGCCGAACATACACATCAACTTATGTACTCATTCATG
48825880 TGGCCGAACATACACATCAACTTATGTACTCATTCATG
1 TGGCCGAACATACACATCAACTTATGTACTCATTCATG
48825918 TGGCCGAACAT
1 TGGCCGAACAT
48825929 GCATGTCTAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 49 1.00
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (38 bp):
TGGCCGAACATACACATCAACTTATGTACTCATTCATG
Found at i:48840788 original size:37 final size:37
Alignment explanation
Indices: 48840735--48840874 Score: 244
Period size: 37 Copynumber: 3.8 Consensus size: 37
48840725 CGAATAGTCC
* * *
48840735 CCACACGTAGTTATCGGGTCTTACCTGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
48840772 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
*
48840809 CCACACGTAGTCATCGGGTCTTACCCAGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
48840846 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
48840875 TATACCTCCA
Statistics
Matches: 98, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 98 1.00
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.24
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
Found at i:48841082 original size:26 final size:26
Alignment explanation
Indices: 48841053--48841106 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
48841043 ACTTTACCAA
48841053 ATATACATATCTCATACATATTTCAC
1 ATATACATATCTCATACATATTTCAC
48841079 ATATACATATCTCATACATATTTCAC
1 ATATACATATCTCATACATATTTCAC
48841105 AT
1 AT
48841107 TAGCCATTCG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.39, C:0.22, G:0.00, T:0.39
Consensus pattern (26 bp):
ATATACATATCTCATACATATTTCAC
Found at i:48841137 original size:74 final size:73
Alignment explanation
Indices: 48841014--48841151 Score: 224
Period size: 74 Copynumber: 1.9 Consensus size: 73
48841004 ATATACACAC
*
48841014 ATCTCCTACATATTCACATTAGCCATTCGACTTTACCAAATATACATATCTCATACATATTTCAC
1 ATCTCATACATATTCACATTAGCCATTCGACTTTACCAAATATACATATCTCATACATATTTCAC
48841079 ATATACAT
66 ATATACAT
* *
48841087 ATCTCATACATATTTCACATTAGCCATTCGGA-TTTACCACATATATATATCTCATACATATTTC
1 ATCTCATACATA-TTCACATTAGCCATTC-GACTTTACCAAATATACATATCTCATACATATTTC
48841151 A
64 A
48841152 TGTTAGCCAT
Statistics
Matches: 60, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
73 11 0.18
74 47 0.78
75 2 0.03
ACGTcount: A:0.35, C:0.25, G:0.04, T:0.37
Consensus pattern (73 bp):
ATCTCATACATATTCACATTAGCCATTCGACTTTACCAAATATACATATCTCATACATATTTCAC
ATATACAT
Found at i:48841147 original size:48 final size:47
Alignment explanation
Indices: 48841076--48841614 Score: 520
Period size: 48 Copynumber: 12.3 Consensus size: 47
48841066 ATACATATTT
* *
48841076 CACATATACATATCTCATACATATTTCACATTAGCCATTCGGATTTAC
1 CACATATATATATCTCATA-ATATTTCACATTAGCCATTCGGCTTTAC
**
48841124 CACATATATATATCTCATACATATTTCATGTTAGCCATTCGGCTTTAC
1 CACATATATATATCTCATA-ATATTTCACATTAGCCATTCGGCTTTAC
* *
48841172 CACATATACATATCTCATATATATTTCACATTAGCCATTTGGCTTTAC
1 CACATATATATATCTCATA-ATATTTCACATTAGCCATTCGGCTTTAC
48841220 CACATATATATATCTCATACATATTTCACATTAGCCATTCGGCTTTA-
1 CACATATATATATCTCATA-ATATTTCACATTAGCCATTCGGCTTTAC
*
48841267 C-CAT-TACATATCT-AT-ATATTTCACATTAGCCATTCGGCTTTAC
1 CACATATATATATCTCATAATATTTCACATTAGCCATTCGGCTTTAC
*
48841310 CAC--ATATATAT-TC-T-AT-TTT-ATATTA--CATTC-GC-TTA-
1 CACATATATATATCTCATAATATTTCACATTAGCCATTCGGCTTTAC
* *
48841345 C-CATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTAC
1 CACATATATATATCTCATA-ATATTTCACATTAGCCATTCGGCTTTAC
* *
48841392 CACATATACATATCTCATATATAGTT-ACATTAGCC-TTC-GCTTTAC
1 CACATATATATATCTCATA-ATATTTCACATTAGCCATTCGGCTTTAC
* *
48841437 C-C--ATATATATCTTAT-ATATTTCACATTAG-CATT-TGCTTTAC
1 CACATATATATATCTCATAATATTTCACATTAGCCATTCGGCTTTAC
*
48841478 CAC-TATACATATCTCAT-ATATTT--CATTAGCCATTC-GCTTTA-
1 CACATATATATATCTCATAATATTTCACATTAGCCATTCGGCTTTAC
*
48841519 C-C--ATATAT-TCT-AT-ATATTTC-CGTTAG-CATTC-GCTTTAC
1 CACATATATATATCTCATAATATTTCACATTAGCCATTCGGCTTTAC
* *
48841557 CACATATA-CTATCTCATACATA-TTCACACTAGCCATTC-GCTTTAC
1 CACATATATATATCTCATA-ATATTTCACATTAGCCATTCGGCTTTAC
* *
48841602 CACACACATATAT
1 CACATATATATAT
48841615 ATTTATCTTC
Statistics
Matches: 420, Mismatches: 34, Indels: 76
0.79 0.06 0.14
Matches are distributed among these distances:
34 1 0.00
35 1 0.00
36 10 0.02
37 23 0.05
38 15 0.04
39 6 0.01
40 15 0.04
41 36 0.09
42 59 0.14
43 27 0.06
44 16 0.04
45 36 0.09
46 12 0.03
47 10 0.02
48 153 0.36
ACGTcount: A:0.30, C:0.24, G:0.06, T:0.39
Consensus pattern (47 bp):
CACATATATATATCTCATAATATTTCACATTAGCCATTCGGCTTTAC
Found at i:48841549 original size:37 final size:38
Alignment explanation
Indices: 48841189--48841603 Score: 239
Period size: 42 Copynumber: 9.8 Consensus size: 38
48841179 ACATATCTCA
*
48841189 TATATATTTCACATTAGCCATTTGGCTTTACCACATATATATATC
1 TATATATTTC-CATTAG-CA-TTCGCTTTA-C-C--ATATATATC
*
48841234 TCATACATATTTCACATTAGCCATTCGGCTTTACCATTACATATC
1 T-AT--ATATTTC-CATTAG-CATTC-GCTTTACCA-TATATATC
48841279 TATATATTTCACATTAGCCATTCGGCTTTACCACATATATAT-
1 TATATATTTC-CATTAG-CATTC-GCTTTA-C-CATATATATC
* **
48841321 TCTAT-TTTATATTA-CATTCGC-TTACCATATACATATC
1 TATATATTTCCATTAGCATTCGCTTTACCATAT--ATATC
*
48841358 TCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATC
1 T-AT--ATATTTC-CATTAG-CATTC-GCTTTA-C-CATAT--ATATC
* *
48841406 TCATATATAGTTACATTAGCCTTCGCTTTACCCATATATATC
1 T-ATATAT--TTCCATTAGCATTCGCTTTA-CCATATATATC
*
48841448 TTATATATTTCACATTAGCATTTGCTTTACCACTATACATATC
1 -TATATATTTC-CATTAGCATTCGCTTTACCA-TAT--ATATC
48841491 TCATATATTT-CATTAGCCATTCGCTTTACCATATAT-TC
1 T-ATATATTTCCATTAG-CATTCGCTTTACCATATATATC
*
48841529 TATATATTTCCGTTAGCATTCGCTTTACCACATATACTATC
1 TATATATTTCCATTAGCATTCGCTTTA-C-CATATA-TATC
* *
48841570 TCATACATATTCACACTAGCCATTCGCTTTACCA
1 T-ATATAT-TTC-CATTAG-CATTCGCTTTACCA
48841604 CACACATATA
Statistics
Matches: 310, Mismatches: 21, Indels: 80
0.75 0.05 0.19
Matches are distributed among these distances:
34 5 0.02
35 1 0.00
36 7 0.02
37 22 0.07
38 15 0.05
39 8 0.03
40 12 0.04
41 36 0.12
42 64 0.21
43 26 0.08
44 20 0.06
45 30 0.10
46 14 0.05
47 9 0.03
48 41 0.13
ACGTcount: A:0.29, C:0.24, G:0.06, T:0.40
Consensus pattern (38 bp):
TATATATTTCCATTAGCATTCGCTTTACCATATATATC
Found at i:48841599 original size:82 final size:84
Alignment explanation
Indices: 48841096--48841603 Score: 490
Period size: 82 Copynumber: 5.9 Consensus size: 84
48841086 TATCTCATAC
* * *
48841096 ATATTTCACATTAGCCATTCGGATTTACCACATATATATATCTCATACATATTTCATGTTAGCCA
1 ATATTTCACATTAG-CATTC-GCTTTACCACATATACATATCTCATA-ATATTACA--TTAGCCA
48841161 TTCGGCTTTACCACATATACATATCTCATAT
61 TTC-GCTTTA-C-CATAT--ATATCT--TAT
* *
48841192 ATATTTCACATTAGCCATTTGGCTTTACCACATATATATATCTCATACATATTTCACATTAGCCA
1 ATATTTCACATTAG-CA-TTCGCTTTACCACATATACATATCTCATA-ATA-TT-ACATTAGCCA
*
48841257 TTCGGCTTTACCATTACATATC-TAT
61 TTC-GCTTTACCA-TATATATCTTAT
* *
48841282 ATATTTCACATTAGCCATTCGGCTTTACCACATAT--ATAT-TC-T-ATTTTATATTA--CATTC
1 ATATTTCACATTAG-CATTC-GCTTTACCACATATACATATCTCATAATATTACATTAGCCATTC
*
48841340 GC-TTACCATATACATATCTCATAC
64 GCTTTACCATAT--ATATCT--TAT
*
48841364 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATAGTTACATTAGCC-T
1 ATATTTCACATTAG-CATTC-GCTTTACCACATATACATATCTCATA-ATA-TTACATTAGCCAT
48841428 TCGCTTTACCCATATATATCTTAT
62 TCGCTTTA-CCATATATATCTTAT
* *
48841452 ATATTTCACATTAGCATTTGCTTTACCAC-TATACATATCTCAT-ATATTTCATTAGCCATTCGC
1 ATATTTCACATTAGCATTCGCTTTACCACATATACATATCTCATAATATTACATTAGCCATTCGC
48841515 TTTACCATATAT-TC-TAT
66 TTTACCATATATATCTTAT
* *
48841532 ATATTTC-CGTTAGCATTCGCTTTACCACATATAC-TATCTCATACATATTCACACTAGCCATTC
1 ATATTTCACATTAGCATTCGCTTTACCACATATACATATCTCATA-ATATT-ACATTAGCCATTC
48841595 GCTTTACCA
64 GCTTTACCA
48841604 CACACATATA
Statistics
Matches: 366, Mismatches: 20, Indels: 66
0.81 0.04 0.15
Matches are distributed among these distances:
77 2 0.01
78 6 0.02
79 34 0.09
80 20 0.05
81 7 0.02
82 79 0.22
83 14 0.04
84 6 0.02
85 16 0.04
86 12 0.03
87 6 0.02
88 21 0.06
89 9 0.02
90 45 0.12
91 4 0.01
92 6 0.02
93 5 0.01
94 2 0.01
95 3 0.01
96 63 0.17
97 4 0.01
98 2 0.01
ACGTcount: A:0.30, C:0.24, G:0.06, T:0.40
Consensus pattern (84 bp):
ATATTTCACATTAGCATTCGCTTTACCACATATACATATCTCATAATATTACATTAGCCATTCGC
TTTACCATATATATCTTAT
Found at i:48847839 original size:28 final size:28
Alignment explanation
Indices: 48847799--48847862 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
48847789 TGTACTAGAG
*
48847799 TACCCCTATGTATGCAAAATTACCAT-TA
1 TACCCCTATGTATGCAAAATGACC-TCTA
48847827 TACCCCTATGTATGCAAAATGACCTCTA
1 TACCCCTATGTATGCAAAATGACCTCTA
48847855 TACCCCTA
1 TACCCCTA
48847863 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 1 0.03
28 33 0.97
ACGTcount: A:0.33, C:0.30, G:0.08, T:0.30
Consensus pattern (28 bp):
TACCCCTATGTATGCAAAATGACCTCTA
Found at i:48848026 original size:27 final size:28
Alignment explanation
Indices: 48847968--48848057 Score: 112
Period size: 27 Copynumber: 3.2 Consensus size: 28
48847958 AGGAAGCGTC
*
48847968 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAAATATCTGTT
* **
48847996 CTGGTGGCCCTGCCAC-GTATATCTGTT
1 CTGGTGGCACTGCCACAAAATATCTGTT
48848023 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAAATATCTGT-T
48848052 CTGGTG
1 CTGGTG
48848058 ACTCTGTCAC
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.44
28 22 0.42
29 7 0.13
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.32
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAAATATCTGTT
Found at i:48848068 original size:29 final size:28
Alignment explanation
Indices: 48847978--48848068 Score: 94
Period size: 27 Copynumber: 3.2 Consensus size: 28
48847968 CTGGTGGCTA
* * *
48847978 TGCCACAAATTATCTGTTCTGGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGACAC
** *
48848006 TGCCAC-GTATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
48848033 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
48848062 TGTCACA
1 TGCCACA
48848069 TTTTCTGTAT
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
27 23 0.44
28 14 0.27
29 15 0.29
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:48848545 original size:19 final size:19
Alignment explanation
Indices: 48848521--48848559 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
48848511 TTTTAATTAT
* *
48848521 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
48848540 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
48848559 T
1 T
48848560 ATGATGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:48849066 original size:41 final size:41
Alignment explanation
Indices: 48849009--48849088 Score: 133
Period size: 41 Copynumber: 2.0 Consensus size: 41
48848999 TGTTACACGT
** *
48849009 CGCTAAAAACCAGAGCATTAGTTGCGCTTTCGGTAAAACGC
1 CGCTAAAAACCAGAGCATTAGCGGCGCTTTAGGTAAAACGC
48849050 CGCTAAAAACCAGAGCATTAGCGGCGCTTTAGGTAAAAC
1 CGCTAAAAACCAGAGCATTAGCGGCGCTTTAGGTAAAAC
48849089 TATAACACCC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.34, C:0.24, G:0.23, T:0.20
Consensus pattern (41 bp):
CGCTAAAAACCAGAGCATTAGCGGCGCTTTAGGTAAAACGC
Found at i:48850763 original size:29 final size:29
Alignment explanation
Indices: 48850688--48850766 Score: 97
Period size: 29 Copynumber: 2.7 Consensus size: 29
48850678 CTTAATAATC
* *
48850688 AACCACGCACACTTAGTACCATGTACTTTA
1 AACC-CGCACACTTAGTGCCATGCACTTTA
*
48850718 AACTCGCACACTTAGTGCCATGCA-TTTCA
1 AACCCGCACACTTAGTGCCATGCACTTT-A
*
48850747 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
48850767 ATCTCACAAC
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
28 3 0.07
29 37 0.86
30 3 0.07
ACGTcount: A:0.29, C:0.33, G:0.14, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCACTTTA
Found at i:48858583 original size:29 final size:29
Alignment explanation
Indices: 48858544--48858622 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
48858534 CTTAATAATC
*
48858544 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
48858574 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
48858603 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
48858623 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:48860487 original size:14 final size:14
Alignment explanation
Indices: 48860465--48860504 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
48860455 TTAATTATCA
* *
48860465 TTATAGTTTAAGGT
1 TTATGGTTTAAGAT
48860479 TTATGGTTTAAGAT
1 TTATGGTTTAAGAT
*
48860493 ATATGGTTTAAG
1 TTATGGTTTAAG
48860505 CAGGTTTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.30, C:0.00, G:0.23, T:0.47
Consensus pattern (14 bp):
TTATGGTTTAAGAT
Found at i:48861383 original size:15 final size:15
Alignment explanation
Indices: 48861363--48861394 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
48861353 TTTAATTTAG
*
48861363 AAGATAAATGTATAT
1 AAGATAAATATATAT
48861378 AAGATAAATATATAT
1 AAGATAAATATATAT
48861393 AA
1 AA
48861395 ATTATTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.31
Consensus pattern (15 bp):
AAGATAAATATATAT
Found at i:48861431 original size:22 final size:22
Alignment explanation
Indices: 48861387--48861431 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
48861377 TAAGATAAAT
* *
48861387 ATATATAAATTATTATTTTAAA
1 ATATATAAATTATTATATGAAA
48861409 ATATATAAA-TATATATATGAAA
1 ATATATAAATTAT-TATATGAAA
48861431 A
1 A
48861432 GTGGTTTAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 3 0.15
22 17 0.85
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (22 bp):
ATATATAAATTATTATATGAAA
Found at i:48864256 original size:133 final size:133
Alignment explanation
Indices: 48864018--48864269 Score: 477
Period size: 133 Copynumber: 1.9 Consensus size: 133
48864008 TGGTGATTCC
*
48864018 ATTTTGGTTATTTAGATGTTTTTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAATG
1 ATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAATG
48864083 TGGACTTAGATTGATTTAAGAGTTTAATGCTGTCTTGTTGCTCACGTTTTATATAATAAAATTGT
66 TGGACTTAGATTGATTTAAGAGTTTAATGCTGTCTTGTTGCTCACGTTTTATATAATAAAATTGT
48864148 TAT
131 TAT
*
48864151 ATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTG
1 ATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAATG
*
48864216 TGGACTTAGATTGATTTAAGAGTTTATTGCTGTCTTGTTGCTCACGTTTTATAT
66 TGGACTTAGATTGATTTAAGAGTTTAATGCTGTCTTGTTGCTCACGTTTTATAT
48864270 TGTTGAATTC
Statistics
Matches: 116, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
133 116 1.00
ACGTcount: A:0.20, C:0.10, G:0.18, T:0.52
Consensus pattern (133 bp):
ATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAATG
TGGACTTAGATTGATTTAAGAGTTTAATGCTGTCTTGTTGCTCACGTTTTATATAATAAAATTGT
TAT
Found at i:48866367 original size:21 final size:21
Alignment explanation
Indices: 48866338--48866377 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
48866328 GTTTTTATAT
*
48866338 TTTGGTTCAACTTAAGTATTA
1 TTTGATTCAACTTAAGTATTA
48866359 TTTGATTCAACTTAAGTAT
1 TTTGATTCAACTTAAGTAT
48866378 GAATTAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.10, G:0.12, T:0.47
Consensus pattern (21 bp):
TTTGATTCAACTTAAGTATTA
Found at i:48872554 original size:21 final size:21
Alignment explanation
Indices: 48872528--48872568 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
48872518 CTTAGAGCGG
48872528 AGGCAGCAGCGAGGGAGGCGA
1 AGGCAGCAGCGAGGGAGGCGA
48872549 AGGCAGCAGCGAGGGAGGCG
1 AGGCAGCAGCGAGGGAGGCG
48872569 GAGCAGAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.27, C:0.20, G:0.54, T:0.00
Consensus pattern (21 bp):
AGGCAGCAGCGAGGGAGGCGA
Found at i:48872921 original size:43 final size:42
Alignment explanation
Indices: 48872873--48873296 Score: 316
Period size: 43 Copynumber: 10.4 Consensus size: 42
48872863 GCAAATTAGA
*
48872873 GGCGTTTTTTATAAAAGCGCCACTAAAGTTCTTGGTCTATAGC
1 GGCGTTTTTTATAAAAGCGCCGCTAAAGTTC-TGGTCTATAGC
* * *
48872916 GGCGTTTTTT-T---A------CAAAAGTACAGGTCTATAGC
1 GGCGTTTTTTATAAAAGCGCCGCTAAAGTTCTGGTCTATAGC
*
48872948 GGCGATTTTTATAAAAGCGCCGCTAAAGTTCTTGG----T--C
1 GGCGTTTTTTATAAAAGCGCCGCTAAAGTTC-TGGTCTATAGC
* * * **
48872985 -G-TTTTTTTACAAAAGCGCCGCTAAAAGTACACGTCTATAGC
1 GGCGTTTTTTATAAAAGCGCCGCT-AAAGTTCTGGTCTATAGC
* * *
48873026 GGCGTTTTTTATAAAAGGGCCGCTAAAAGTGCAGGTCTATAGC
1 GGCGTTTTTTATAAAAGCGCCGCT-AAAGTTCTGGTCTATAGC
* * * *
48873069 GGCGTTTTTTATAAATGTGCCGCTAAAAGTACAGGTCTATAGC
1 GGCGTTTTTTATAAAAGCGCCGCT-AAAGTTCTGGTCTATAGC
*
48873112 AGCGTTTTTTATAAAAGCGCCGCTAAAGTTCTTGGTCTATAGC
1 GGCGTTTTTTATAAAAGCGCCGCTAAAGTTC-TGGTCTATAGC
* * * *
48873155 GGCATTTTTTAAAAAAGCGCCGCTAAAGGTCCTGGTCTTTAGC
1 GGCGTTTTTTATAAAAGCGCCGCTAAA-GTTCTGGTCTATAGC
* * * * *
48873198 GGCG-GTTTTATAAAAAACGCCGCTAAAGGTCCTGGTCTTTGGC
1 GGCGTTTTTTAT-AAAAGCGCCGCTAAA-GTTCTGGTCTATAGC
* * * *
48873241 GGTG-TTTTT-TAAGAGCGCCGCTAAAGGTCCTGGTCTTTAGC
1 GGCGTTTTTTATAAAAGCGCCGCTAAA-GTTCTGGTCTATAGC
*
48873282 GGCG-CTTTTATAAAA
1 GGCGTTTTTTATAAAA
48873297 AACGCCGTGA
Statistics
Matches: 313, Mismatches: 44, Indels: 49
0.77 0.11 0.12
Matches are distributed among these distances:
32 19 0.06
33 8 0.03
35 19 0.06
36 8 0.03
37 1 0.00
39 3 0.01
41 36 0.12
42 25 0.08
43 191 0.61
44 3 0.01
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.32
Consensus pattern (42 bp):
GGCGTTTTTTATAAAAGCGCCGCTAAAGTTCTGGTCTATAGC
Found at i:48873394 original size:31 final size:33
Alignment explanation
Indices: 48873335--48873395 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
48873325 ATAGCGACGT
* *
48873335 TTTTTGCGGCGCTTGGGAAAGCGCCGCTAATAC
1 TTTTAGCGGCGCTTGAGAAAGCGCCGCTAATAC
48873368 TTTTAGCGGCGCTT-AGAAA-CGCCGCTAA
1 TTTTAGCGGCGCTTGAGAAAGCGCCGCTAA
48873396 AAGTCTGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 9 0.35
32 4 0.15
33 13 0.50
ACGTcount: A:0.21, C:0.25, G:0.28, T:0.26
Consensus pattern (33 bp):
TTTTAGCGGCGCTTGAGAAAGCGCCGCTAATAC
Found at i:48875118 original size:25 final size:25
Alignment explanation
Indices: 48875084--48875137 Score: 108
Period size: 25 Copynumber: 2.2 Consensus size: 25
48875074 CCTCTAACTA
48875084 CTTACTTTTAATCTGCTCAATGCAT
1 CTTACTTTTAATCTGCTCAATGCAT
48875109 CTTACTTTTAATCTGCTCAATGCAT
1 CTTACTTTTAATCTGCTCAATGCAT
48875134 CTTA
1 CTTA
48875138 GTTTAACTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.24, C:0.24, G:0.07, T:0.44
Consensus pattern (25 bp):
CTTACTTTTAATCTGCTCAATGCAT
Found at i:48879159 original size:34 final size:34
Alignment explanation
Indices: 48879113--48879180 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 34
48879103 TTGAATAGTC
* *
48879113 TGGGCTTAAGCCCA-TATCTATAGTAGTAACAGTG
1 TGGGCTTAAGCCCATTA-CAATAGCAGTAACAGTG
48879147 TGGGCCTT-AGCCCATTACAATAGCAGTAACAGTG
1 TGGG-CTTAAGCCCATTACAATAGCAGTAACAGTG
48879181 ATGCATAAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 25 0.83
35 5 0.17
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (34 bp):
TGGGCTTAAGCCCATTACAATAGCAGTAACAGTG
Found at i:48883880 original size:27 final size:27
Alignment explanation
Indices: 48883850--48884027 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
48883840 ATATTGAGTC
* * * *
48883850 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
48883877 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
48883904 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
48883932 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
48883959 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
48883986 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
48884013 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
48884028 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:48883989 original size:82 final size:81
Alignment explanation
Indices: 48883871--48884026 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
48883861 TGCTATATAA
* *
48883871 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
48883936 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
48883953 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
48884017 CACTTAGTGC
65 CACTTAGTGC
48884027 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:48891955 original size:27 final size:27
Alignment explanation
Indices: 48891925--48892102 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
48891915 ATATTGAGTC
* * * *
48891925 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
48891952 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
48891979 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
48892007 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
48892034 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
48892061 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
48892088 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
48892103 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:48892064 original size:82 final size:81
Alignment explanation
Indices: 48891946--48892101 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
48891936 TGCTATATAA
* *
48891946 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
48892011 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
48892028 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
48892092 CACTTAGTGC
65 CACTTAGTGC
48892102 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:48897225 original size:30 final size:29
Alignment explanation
Indices: 48897184--48897248 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
48897174 ATGGCCTAAG
* *
48897184 ACACGGGCGTGTGACTCAATTGTGTGAGGC
1 ACACAGGCGTGTGA-TCAATCGTGTGAGGC
* *
48897214 ACACAGGCGTGTGATTAGTCGTGTGAGGC
1 ACACAGGCGTGTGATCAATCGTGTGAGGC
48897243 ACACAG
1 ACACAG
48897249 CCTGACAACA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 18 0.58
30 13 0.42
ACGTcount: A:0.23, C:0.20, G:0.35, T:0.22
Consensus pattern (29 bp):
ACACAGGCGTGTGATCAATCGTGTGAGGC
Found at i:48900581 original size:28 final size:27
Alignment explanation
Indices: 48900533--48900638 Score: 117
Period size: 27 Copynumber: 3.9 Consensus size: 27
48900523 CTGCCAGAAT
** *
48900533 AGATAATGTGATAGAGTCACCAGATAC
1 AGATAATGTGGCAGAGCCACCAGATAC
48900560 AGATAATCGTGGCAGAGCCACCAGA-AC
1 AGATAAT-GTGGCAGAGCCACCAGATAC
* *
48900587 AGATATATGCGGCAGAGCCACCAAAT-C
1 AGATA-ATGTGGCAGAGCCACCAGATAC
*
48900614 AGATAATTGTGGCATAGCCACCAGA
1 AGATAA-TGTGGCAGAGCCACCAGA
48900639 ACGCTTCCTC
Statistics
Matches: 67, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
26 1 0.01
27 50 0.75
28 16 0.24
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.17
Consensus pattern (27 bp):
AGATAATGTGGCAGAGCCACCAGATAC
Found at i:48900591 original size:54 final size:54
Alignment explanation
Indices: 48900526--48900640 Score: 142
Period size: 54 Copynumber: 2.1 Consensus size: 54
48900516 AGCATGGCTG
* * * * *
48900526 CCAGAATAGATA-ATGTGATAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGCGACAGAGCCACCAAAT-CAGATAATCGTGGCAGAGCCA
* * *
48900580 CCAGAACAGATATATGCGGCAGAGCCACCAAATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATATATGCGACAGAGCCACCAAATCAGATAATCGTGGCAGAGCCA
48900634 CCAGAAC
1 CCAGAAC
48900641 GCTTCCTCCA
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
54 37 0.71
55 15 0.29
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGCGACAGAGCCACCAAATCAGATAATCGTGGCAGAGCCA
Found at i:48903941 original size:40 final size:39
Alignment explanation
Indices: 48903897--48904121 Score: 272
Period size: 40 Copynumber: 5.7 Consensus size: 39
48903887 GCCACTAGCT
* *
48903897 CAAATGCCTTCGAGACTTAGTCCGGTTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTTGCA
* *
48903937 CAAATGCCTTCGGGACTTAGCCCGGTATAATAACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTTGCA
*
48903976 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAGCTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTTGCA
* * *
48904016 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAACTTGCA
* * ** * *
48904056 CAAATGCCTTCGGGACTTAGCCCAGAATTAGCCACTAGCT
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAACTTGCA
48904096 CAAATG-CTCTCGGGACTTAGCCCGGT
1 CAAATGCCT-TCGGGACTTAGCCCGGT
48904122 TATCATCCGA
Statistics
Matches: 165, Mismatches: 17, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
39 40 0.24
40 125 0.76
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTTGCA
Found at i:48903995 original size:79 final size:80
Alignment explanation
Indices: 48903890--48904120 Score: 297
Period size: 79 Copynumber: 2.9 Consensus size: 80
48903880 GGATATAGCC
* * * *
48903890 ACTAGCTCAAATGCCTTCGAGACTTAGTCCGGTTATAGTAACTTGCACAAATGCCTTCGGGACTT
1 ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTT
*
48903955 AGCCCGGTA-TAATA
66 AGCCCGGAATTAATA
*
48903969 ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAGCTTGCACAAATGCCTTCGGGACTT
1 ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTT
*
48904034 AGCCCGGAATTAGTA
66 AGCCCGGAATTAATA
* * * ** * *
48904049 GCTCGCACAAATGCCTTCGGGACTTAGCCCAGA-ATTAGCCACTAGCTCAAATG-CTCTCGGGAC
1 ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTTGCACAAATGCCT-TCGGGAC
48904112 TTAGCCCGG
64 TTAGCCCGG
48904121 TTATCATCCG
Statistics
Matches: 134, Mismatches: 15, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
79 71 0.53
80 63 0.47
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (80 bp):
ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTT
AGCCCGGAATTAATA
Found at i:48909911 original size:55 final size:54
Alignment explanation
Indices: 48909816--48909965 Score: 149
Period size: 55 Copynumber: 2.8 Consensus size: 54
48909806 CTACTTTGTT
* ** * *
48909816 GCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAATGTGCGAGTTGACTAT-ATAGCACTAAGTGTGCGAATTGACCACGCG
* * * * ** *
48909870 GCACTAAGTGTGCGGGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAATGTGCGAG-TTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
* *
48909925 GCACTAAATGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCG
48909966 GGCTCAATAT
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 37 0.47
55 42 0.53
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
Found at i:48909928 original size:27 final size:27
Alignment explanation
Indices: 48909788--48909965 Score: 146
Period size: 27 Copynumber: 6.6 Consensus size: 27
48909778 TAAATTGTAC
48909788 AGCACTAAGTGTGCGATTCT-ACTT-TGT
1 AGCACTAAGTGTGCGATT-TGA-TTATGT
* ** *
48909815 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGATTATGT
* ** *
48909841 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGATTATGT
* * *
48909869 GGCACTAAGTGTGCGGGTTTGACTATGT
1 AGCACTAAGTGTGC-GATTTGATTATGT
*
48909897 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGATTATGT
* * * *
48909924 GGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGATTATGT
*
48909951 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
48909966 GGCTCAATAT
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 97 0.80
28 22 0.18
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGATTATGT
Found at i:48909929 original size:82 final size:81
Alignment explanation
Indices: 48909789--48909944 Score: 190
Period size: 82 Copynumber: 1.9 Consensus size: 81
48909779 AAATTGTACA
* * * *
48909789 GCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
48909854 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* ** *
48909870 GCACTAAGTGTGCGGGTT-TGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACTAAA
1 GCACTAAGTGTGC-GATTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAA
*
48909933 TGTGCGAGTTGA
63 TGTGCGAATTGA
48909945 TTATATAGCA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
81 15 0.24
82 48 0.76
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
GCGAATTGACCATGCG
Found at i:48917917 original size:55 final size:54
Alignment explanation
Indices: 48917822--48917971 Score: 149
Period size: 55 Copynumber: 2.8 Consensus size: 54
48917812 CTACTTTGTT
* ** * *
48917822 GCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAATGTGCGAGTTGACTAT-ATAGCACTAAGTGTGCGAATTGACCACGCG
* * * * ** *
48917876 GCACTAAGTGTGCGGGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAATGTGCGAG-TTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
* *
48917931 GCACTAAATGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCG
48917972 GGCTCAATAT
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 37 0.47
55 42 0.53
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
Found at i:48917934 original size:27 final size:27
Alignment explanation
Indices: 48917794--48917971 Score: 146
Period size: 27 Copynumber: 6.6 Consensus size: 27
48917784 TAAATTGTAC
48917794 AGCACTAAGTGTGCGATTCT-ACTT-TGT
1 AGCACTAAGTGTGCGATT-TGA-TTATGT
* ** *
48917821 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGATTATGT
* ** *
48917847 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGATTATGT
* * *
48917875 GGCACTAAGTGTGCGGGTTTGACTATGT
1 AGCACTAAGTGTGC-GATTTGATTATGT
*
48917903 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGATTATGT
* * * *
48917930 GGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGATTATGT
*
48917957 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
48917972 GGCTCAATAT
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 97 0.80
28 22 0.18
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGATTATGT
Found at i:48917935 original size:82 final size:81
Alignment explanation
Indices: 48917795--48917950 Score: 190
Period size: 82 Copynumber: 1.9 Consensus size: 81
48917785 AAATTGTACA
* * * *
48917795 GCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
48917860 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* ** *
48917876 GCACTAAGTGTGCGGGTT-TGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACTAAA
1 GCACTAAGTGTGC-GATTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAA
*
48917939 TGTGCGAGTTGA
63 TGTGCGAATTGA
48917951 TTATATAGCA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
81 15 0.24
82 48 0.76
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
GCGAATTGACCATGCG
Found at i:48934332 original size:29 final size:29
Alignment explanation
Indices: 48934266--48934448 Score: 278
Period size: 29 Copynumber: 6.3 Consensus size: 29
48934256 AACTCTACAA
* *
48934266 ACATGCATATGGCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* *
48934294 TCATTCATATGGCCCATTAAGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
48934323 ACATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
48934352 ACATTCATACGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* *
48934381 ATATTCGTATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* *
48934410 ACATTCATACGACCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
48934439 ACATTCATAT
1 ACATTCATAT
48934449 ACATGATTTC
Statistics
Matches: 139, Mismatches: 15, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
28 20 0.14
29 119 0.86
ACGTcount: A:0.31, C:0.32, G:0.13, T:0.24
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:48939102 original size:45 final size:44
Alignment explanation
Indices: 48939005--48939110 Score: 133
Period size: 45 Copynumber: 2.4 Consensus size: 44
48938995 TGTATCGCTC
* * *
48939005 ACTCAACAAGCTCGGATGCTCGCATCCATAATGAACTCGGACCA
1 ACTCAACGAGCTCGGATGCTCGCATACATAATGAACCCGGACCA
*
48939049 ACTCAACGAGCTCGGATGC-CTCATACATATCATGAACCCGGACCA
1 ACTCAACGAGCTCGGATGCTCGCATACATA--ATGAACCCGGACCA
* *
48939094 ACTTAACGAGTTCGGAT
1 ACTCAACGAGCTCGGAT
48939111 TTCTAAATTC
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
43 8 0.15
44 18 0.33
45 28 0.52
ACGTcount: A:0.31, C:0.30, G:0.19, T:0.20
Consensus pattern (44 bp):
ACTCAACGAGCTCGGATGCTCGCATACATAATGAACCCGGACCA
Found at i:48939321 original size:16 final size:16
Alignment explanation
Indices: 48939300--48939330 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
48939290 ATTTACATAA
48939300 CATATATCACATATTT
1 CATATATCACATATTT
*
48939316 CATATATCACTTATT
1 CATATATCACATATT
48939331 ATGTATCATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.19, G:0.00, T:0.45
Consensus pattern (16 bp):
CATATATCACATATTT
Found at i:48954414 original size:39 final size:41
Alignment explanation
Indices: 48954313--48954496 Score: 206
Period size: 40 Copynumber: 4.6 Consensus size: 41
48954303 TTGAATGATG
* *
48954313 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA
*
48954353 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAATA
*
48954393 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATA
* *
48954432 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATA
* *
48954472 ACCGGGCTATGT-CCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
48954497 AACGAGGAGC
Statistics
Matches: 127, Mismatches: 9, Indels: 17
0.83 0.06 0.11
Matches are distributed among these distances:
39 49 0.39
40 65 0.51
41 12 0.09
42 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATA
Found at i:48954449 original size:79 final size:80
Alignment explanation
Indices: 48954313--48954496 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 80
48954303 TTGAATGATG
*
48954313 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
48954377 TGTGCGAGATACTA-A
65 TGTGCGAGATACTATA
* * * **
48954392 TTCCGGGCTAAGCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 -TCCGGGCTAAGCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
*
48954455 TTGTGCGAGTTACTATA
64 TTGTGCGAGATACTATA
* * *
48954472 ACCGGGCTATGTCCGAAGGCATTTG
1 TCCGGGCTAAGCCCGAAGGCATTTG
48954497 AACGAGGAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
78 1 0.01
79 71 0.78
80 19 0.21
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTATA
Found at i:48954514 original size:79 final size:78
Alignment explanation
Indices: 48954314--48954529 Score: 197
Period size: 79 Copynumber: 2.7 Consensus size: 78
48954304 TGAATGATGT
** * * * *
48954314 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTGACTAAATCCGG-TTAA-ATCCCGAAGGCATT
*
48954377 TGTGCGAGATACTAATT
62 TGTGCGAGATACTAATA
** * *
48954394 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCC-GGTTAAATCCCGAAGGCATTTGT
*
48954459 GCGAGTTACT-ATAA
65 GCGAGATACTAAT-A
* * * *
48954473 CCGGGCTATGTCCGAAGGCATTTGAACGAG-GAGCTATATCCGGTTAAATTCCGAAGG
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGTTAAATCCCGAAGG
48954530 TACGTGATTT
Statistics
Matches: 115, Mismatches: 16, Indels: 12
0.80 0.11 0.08
Matches are distributed among these distances:
78 18 0.16
79 78 0.68
80 19 0.17
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (78 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGTTAAATCCCGAAGGCATTTGTG
CGAGATACTAATA
Found at i:48955944 original size:39 final size:39
Alignment explanation
Indices: 48955896--48956036 Score: 228
Period size: 39 Copynumber: 3.6 Consensus size: 39
48955886 ACTAAGATCT
48955896 GAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCC
1 GAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCC
48955935 GAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCC
1 GAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCC
* * *
48955974 GAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCC
1 GAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-CCC
* *
48956014 GAAGGCAATTGTGCGAGTTACTA
1 GAAGGCATTTGTGCGAGATACTA
48956037 TAACTGGGCT
Statistics
Matches: 97, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
39 72 0.74
40 25 0.26
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (39 bp):
GAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCC
Found at i:48956053 original size:40 final size:39
Alignment explanation
Indices: 48955896--48956064 Score: 207
Period size: 39 Copynumber: 4.3 Consensus size: 39
48955886 ACTAAGATCT
*
48955896 GAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCC
1 GAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCC
*
48955935 GAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCC
1 GAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCC
* *
48955974 GAAGGCATTTGTGCGAGTTACTAA-ATCCGGGTTAAGTCCC
1 GAAGGCATTTGTGCGAGATACTAATA-CCGGGCTAAG-CCC
* * * *
48956014 GAAGGCAATTGTGCGAGTTACT-ATAACTGGGCTATGTCCC
1 GAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCC
*
48956054 GAAGGCGTTTG
1 GAAGGCATTTG
48956065 AATGAGTAGC
Statistics
Matches: 117, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
39 72 0.62
40 44 0.38
41 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (39 bp):
GAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCC
Found at i:48956086 original size:79 final size:79
Alignment explanation
Indices: 48955896--48956097 Score: 196
Period size: 79 Copynumber: 2.6 Consensus size: 79
48955886 ACTAAGATCT
** * * * *
48955896 GAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 GAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGATACTAAT
*
48955960 TCCGGGCTAAGCCC
66 ACCGGGCTAAGCCC
** *
48955974 GAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACT-AT
1 GAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGATACTAAT
* *
48956038 AACTGGGCTATGTCCC
66 -ACCGGGCTAAG-CCC
* * * * *
48956054 GAAGGCGTTTGAATGAG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 GAAGGCATTTGAACGAGTTA-CTAAATCCGGGTTAAGTCCCGAAGG
48956098 TACGTGGTTT
Statistics
Matches: 105, Mismatches: 15, Indels: 7
0.83 0.12 0.06
Matches are distributed among these distances:
78 35 0.33
79 47 0.45
80 23 0.22
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (79 bp):
GAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGATACTAAT
ACCGGGCTAAGCCC
Found at i:48958311 original size:24 final size:24
Alignment explanation
Indices: 48958279--48958325 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
48958269 CTGTCAGGAG
**
48958279 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGCAGATAAGGGAT
48958303 AGGATTTAGGAGCAGATAAGGGA
1 AGGATTTAGGAGCAGATAAGGGA
48958326 GGAAATCTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.36, C:0.02, G:0.38, T:0.23
Consensus pattern (24 bp):
AGGATTTAGGAGCAGATAAGGGAT
Found at i:48959802 original size:27 final size:26
Alignment explanation
Indices: 48959744--48959856 Score: 95
Period size: 27 Copynumber: 4.2 Consensus size: 26
48959734 AGGAAGCGTC
* *
48959744 CTGGTGGTTATGCCACAAATTATCTGA-T
1 CTGGTGGCTCTGCCAC--ATTATCT-ATT
48959772 CTGGTGGCTCTGCCACATATATCTATT
1 CTGGTGGCTCTGCCACAT-TATCTATT
*
48959799 CTGGTGGTTCTGCCACGATTATCTGTATT
1 CTGGTGGCTCTGCCAC-ATTATC--TATT
* * *
48959828 -TGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTATT
48959853 CTGG
1 CTGG
48959857 CAGCCATGCT
Statistics
Matches: 72, Mismatches: 7, Indels: 14
0.77 0.08 0.15
Matches are distributed among these distances:
25 3 0.04
26 6 0.08
27 31 0.43
28 28 0.39
29 4 0.06
ACGTcount: A:0.18, C:0.21, G:0.22, T:0.39
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTATT
Found at i:48959832 original size:55 final size:54
Alignment explanation
Indices: 48959744--48959856 Score: 147
Period size: 55 Copynumber: 2.1 Consensus size: 54
48959734 AGGAAGCGTC
*
48959744 CTGGTGGTTATGCCACAAATTATCTGATCTGGTGGCTCTGCCACATATATCTATT
1 CTGGTGGTTATGCCACAAATTATCTGATCTGGTGACTCTGCCACAT-TATCTATT
* * * * *
48959799 CTGGTGGTTCTGCCAC-GATTATCTGTATTTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGTTATGCCACAAATTATCTG-ATCTGGTGACTCTGCCACATTATCTATT
48959853 CTGG
1 CTGG
48959857 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
54 19 0.37
55 32 0.63
ACGTcount: A:0.18, C:0.21, G:0.22, T:0.39
Consensus pattern (54 bp):
CTGGTGGTTATGCCACAAATTATCTGATCTGGTGACTCTGCCACATTATCTATT
Found at i:48981296 original size:40 final size:40
Alignment explanation
Indices: 48981252--48981548 Score: 287
Period size: 40 Copynumber: 7.5 Consensus size: 40
48981242 AAGTATAAAT
* * * *
48981252 AGGGCACCTATGTGCGTTTAAGGGTACTGAAGTACAAACA
1 AGGGCACGTATGTGCATTTAGGGGTACTAAAGTACAAACA
* * **
48981292 AGGGCATGTATGTGCATTCAGGGGTACCGAAGTACAAACA
1 AGGGCACGTATGTGCATTTAGGGGTACTAAAGTACAAACA
* * *
48981332 GGGGCATGTATGTGCATTCAGGGGTA-TCAAAGTACAAACA
1 AGGGCACGTATGTGCATTTAGGGGTACT-AAAGTACAAACA
* * *
48981372 TGGGCACCTATGTGCATTTAGGGGTA-TCGAAGTACAAA-A
1 AGGGCACGTATGTGCATTTAGGGGTACT-AAAGTACAAACA
* * *
48981411 AGGGGCACGTATGTGAATTTA-GGGTACAAAAGTACAAATA
1 A-GGGCACGTATGTGCATTTAGGGGTACTAAAGTACAAACA
* * * * *
48981451 AGGGCATGTATGTACGTTCAGGGGTACCAAAGTACAAACA
1 AGGGCACGTATGTGCATTTAGGGGTACTAAAGTACAAACA
* * **
48981491 AGGGCACGTATGTGCGTTTAGGGGTATTAAAGTACAAGTA
1 AGGGCACGTATGTGCATTTAGGGGTACTAAAGTACAAACA
* *
48981531 GGGGCACATATGTGCATT
1 AGGGCACGTATGTGCATT
48981549 ATATAATAAT
Statistics
Matches: 216, Mismatches: 36, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
39 29 0.13
40 187 0.87
ACGTcount: A:0.33, C:0.15, G:0.29, T:0.23
Consensus pattern (40 bp):
AGGGCACGTATGTGCATTTAGGGGTACTAAAGTACAAACA
Found at i:48981344 original size:80 final size:80
Alignment explanation
Indices: 48981228--48981527 Score: 336
Period size: 80 Copynumber: 3.8 Consensus size: 80
48981218 ATACTATATG
* * * * * *
48981228 ATTCAGGGTTACCAAAGTATAAATA-GGGCACCTATGTGCGTTTAAGGGTACTGAAGTACAAACA
1 ATTCAGGGGTACCAAAGTACAAACAGGGGCACGTATGTGCATTTAAGGGTACTAAAGTACAAACA
48981292 AGGGCATGTATGTGC
66 AGGGCATGTATGTGC
* * * *
48981307 ATTCAGGGGTACCGAAGTACAAACAGGGGCATGTATGTGCATTCAGGGGTA-TCAAAGTACAAAC
1 ATTCAGGGGTACCAAAGTACAAACAGGGGCACGTATGTGCATTTAAGGGTACT-AAAGTACAAAC
* **
48981371 ATGGGCACCTATGTGC
65 AAGGGCATGTATGTGC
* * * * * * *
48981387 ATTTAGGGGTATCGAAGTACAAAAAGGGGCACGTATGTGAATTT-AGGGTACAAAAGTACAAATA
1 ATTCAGGGGTACCAAAGTACAAACAGGGGCACGTATGTGCATTTAAGGGTACTAAAGTACAAACA
*
48981451 AGGGCATGTATGTAC
66 AGGGCATGTATGTGC
* * * * *
48981466 GTTCAGGGGTACCAAAGTACAAACAAGGGCACGTATGTGCGTTTAGGGGTATTAAAGTACAA
1 ATTCAGGGGTACCAAAGTACAAACAGGGGCACGTATGTGCATTTAAGGGTACTAAAGTACAA
48981528 GTAGGGGCAC
Statistics
Matches: 180, Mismatches: 37, Indels: 7
0.80 0.17 0.03
Matches are distributed among these distances:
79 85 0.47
80 95 0.53
ACGTcount: A:0.34, C:0.15, G:0.28, T:0.23
Consensus pattern (80 bp):
ATTCAGGGGTACCAAAGTACAAACAGGGGCACGTATGTGCATTTAAGGGTACTAAAGTACAAACA
AGGGCATGTATGTGC
Found at i:48981353 original size:20 final size:20
Alignment explanation
Indices: 48981293--48981355 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
48981283 GTACAAACAA
48981293 GGGCATGTATGTGCATTCAG
1 GGGCATGTATGTGCATTCAG
* * * * **
48981313 GGGTACCG-AAGTACAAACAG
1 GGGCA-TGTATGTGCATTCAG
48981333 GGGCATGTATGTGCATTCAG
1 GGGCATGTATGTGCATTCAG
48981353 GGG
1 GGG
48981356 TATCAAAGTA
Statistics
Matches: 29, Mismatches: 12, Indels: 4
0.64 0.27 0.09
Matches are distributed among these distances:
19 1 0.03
20 27 0.93
21 1 0.03
ACGTcount: A:0.25, C:0.16, G:0.37, T:0.22
Consensus pattern (20 bp):
GGGCATGTATGTGCATTCAG
Found at i:48981457 original size:119 final size:119
Alignment explanation
Indices: 48981228--48981544 Score: 388
Period size: 119 Copynumber: 2.7 Consensus size: 119
48981218 ATACTATATG
* * * *
48981228 ATTCAGGGTTACCAAAGTATAAATAGGGCACCTATGTGCGTTTAAGGGTA-CTGAAGTACAAACA
1 ATTCAGGGGTACCAAAGTACAAACAGGGCACCTATGTGCGTTTAGGGGTATC-GAAGTACAAA-A
* * ** * *
48981292 A-GGGCATGTATGTGCATTCAGGGGTACCGAAGTACAAACAGGGGCATGTATGTGC
64 AGGGGCACGTATGTGAATTCAGGGGTACAAAAGTACAAACAAGGGCATGTATGTAC
* *
48981347 ATTCAGGGGTATCAAAGTACAAACATGGGCACCTATGTGCATTTAGGGGTATCGAAGTACAAAAA
1 ATTCAGGGGTACCAAAGTACAAACA-GGGCACCTATGTGCGTTTAGGGGTATCGAAGTACAAAAA
* *
48981412 GGGGCACGTATGTGAATTTA-GGGTACAAAAGTACAAATAAGGGCATGTATGTAC
65 GGGGCACGTATGTGAATTCAGGGGTACAAAAGTACAAACAAGGGCATGTATGTAC
* * ** **
48981466 GTTCAGGGGTACCAAAGTACAAACAAGGGCACGTATGTGCGTTTAGGGGTATTAAAGTACAAGTA
1 ATTCAGGGGTACCAAAGTACAAAC-AGGGCACCTATGTGCGTTTAGGGGTATCGAAGTACAAAAA
*
48981531 GGGGCACATATGTG
65 GGGGCACGTATGTG
48981545 CATTATATAA
Statistics
Matches: 171, Mismatches: 23, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
119 120 0.70
120 50 0.29
121 1 0.01
ACGTcount: A:0.33, C:0.15, G:0.29, T:0.23
Consensus pattern (119 bp):
ATTCAGGGGTACCAAAGTACAAACAGGGCACCTATGTGCGTTTAGGGGTATCGAAGTACAAAAAG
GGGCACGTATGTGAATTCAGGGGTACAAAAGTACAAACAAGGGCATGTATGTAC
Found at i:48985217 original size:11 final size:11
Alignment explanation
Indices: 48985201--48985225 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
48985191 GCGTTAAATG
48985201 ATTATGTGTGT
1 ATTATGTGTGT
48985212 ATTATGTGTGT
1 ATTATGTGTGT
48985223 ATT
1 ATT
48985226 CGACTTAGGT
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:0.20, C:0.00, G:0.24, T:0.56
Consensus pattern (11 bp):
ATTATGTGTGT
Found at i:48988096 original size:50 final size:49
Alignment explanation
Indices: 48987931--48988097 Score: 192
Period size: 49 Copynumber: 3.4 Consensus size: 49
48987921 CTAGTACGCA
* * * ** *
48987931 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTAT-CAAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACCATCCGA-TACACG
* ** *
48987980 TAGCAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACCATCCGATACACG
* *
48988029 TAGTAGCCTGCACTTAGTATTACACACGTGACCCAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAACCATCCGATACACG
*
48988079 TCGTAGCCTGCACTTAGTA
1 TAGTAGCCTGCACTTAGTA
48988098 GCCTGCACTT
Statistics
Matches: 103, Mismatches: 13, Indels: 3
0.87 0.11 0.03
Matches are distributed among these distances:
49 70 0.68
50 33 0.32
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAACCATCCGATACACG
Found at i:48988100 original size:14 final size:14
Alignment explanation
Indices: 48988081--48988111 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
48988071 GATACACGTC
48988081 GTAGCCTGCACTTA
1 GTAGCCTGCACTTA
48988095 GTAGCCTGCACTTA
1 GTAGCCTGCACTTA
48988109 GTA
1 GTA
48988112 CTACACACGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.29
Consensus pattern (14 bp):
GTAGCCTGCACTTA
Found at i:48990363 original size:15 final size:15
Alignment explanation
Indices: 48990308--48990371 Score: 62
Period size: 15 Copynumber: 4.4 Consensus size: 15
48990298 AAAAGATAAC
*
48990308 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
*
48990322 AAAAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
48990337 GA-AAACCCAGAATA
1 AAGAAATCCAGAATA
48990351 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
48990366 AAGAAA
1 AAGAAA
48990372 CCCAAGATAC
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
14 18 0.45
15 22 0.55
ACGTcount: A:0.64, C:0.14, G:0.12, T:0.09
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Done.