Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 170 of 230
Found at i:50549467 original size:32 final size:32
Alignment explanation
Indices: 50549421--50549561 Score: 160
Period size: 32 Copynumber: 4.5 Consensus size: 32
50549411 GCTGCGATGC
* * *
50549421 TACTGATAGATTTGTGTCGATCATATTACCGT
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
*
50549453 TACTGATGGCTTTGTGTCGATCATATTACCGT
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
* * * *
50549485 TACTGATGGCTGTGTGCCGATCATATCACTGC
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
* * *
50549517 TACTGATGGCTGTGTGCCAATCATATTACTG-
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
*
50549548 TACTTATGG-TTTGT
1 TACTGATGGCTTTGT
50549562 ATCCATTCTG
Statistics
Matches: 98, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
30 4 0.04
31 8 0.08
32 86 0.88
ACGTcount: A:0.21, C:0.18, G:0.22, T:0.39
Consensus pattern (32 bp):
TACTGATGGCTTTGTGCCGATCATATTACCGT
Found at i:50553047 original size:23 final size:23
Alignment explanation
Indices: 50553020--50553095 Score: 107
Period size: 23 Copynumber: 3.3 Consensus size: 23
50553010 AGTGTTATTG
50553020 ATCAGTGGTAGCTTCAGCTACAT
1 ATCAGTGGTAGCTTCAGCTACAT
* * *
50553043 TTCAGTTGTAGCTACAGCTACAT
1 ATCAGTGGTAGCTTCAGCTACAT
* *
50553066 ATCAGTGGTAACTTCGGCTACAT
1 ATCAGTGGTAGCTTCAGCTACAT
50553089 ATCAGTG
1 ATCAGTG
50553096 TGGCACTTAT
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCAGCTACAT
Found at i:50555525 original size:42 final size:42
Alignment explanation
Indices: 50555466--50555579 Score: 156
Period size: 42 Copynumber: 2.7 Consensus size: 42
50555456 TTGATTTATT
* *
50555466 AACTGAGATTTTATTTGCATGTTAAGCATGTTGACTATGATA
1 AACTGAGATTTAATTTGCATGTTAAGCATGTCGACTATGATA
* *
50555508 AACTGAGATTTAATTTGCATGTTAAGCATGTCGACTATGTTG
1 AACTGAGATTTAATTTGCATGTTAAGCATGTCGACTATGATA
* * **
50555550 AACTTAGATTTGATTCACATGTTAAGCATG
1 AACTGAGATTTAATTTGCATGTTAAGCATG
50555580 CCTACTGACA
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 64 1.00
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (42 bp):
AACTGAGATTTAATTTGCATGTTAAGCATGTCGACTATGATA
Found at i:50555700 original size:24 final size:24
Alignment explanation
Indices: 50555670--50555788 Score: 130
Period size: 24 Copynumber: 5.0 Consensus size: 24
50555660 GTTATTGCAA
***
50555670 TATTGAGTGGCTTGACCACAATAT
1 TATTGAGTGGCTTGACCACAACGC
*
50555694 TATTGAGTGGCTTGGCCACAACGC
1 TATTGAGTGGCTTGACCACAACGC
* * *
50555718 TATTAAGTGTCTTGCCCACAACGC
1 TATTGAGTGGCTTGACCACAACGC
* * * * *
50555742 TATTAAGTGTCTTGCCCACAATGT
1 TATTGAGTGGCTTGACCACAACGC
50555766 TATTGAGTGGCTTGACCACAACG
1 TATTGAGTGGCTTGACCACAACG
50555789 ATGCAGCTTG
Statistics
Matches: 82, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 82 1.00
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (24 bp):
TATTGAGTGGCTTGACCACAACGC
Found at i:50563938 original size:50 final size:50
Alignment explanation
Indices: 50563865--50564053 Score: 164
Period size: 50 Copynumber: 3.7 Consensus size: 50
50563855 TCCTGTACTA
* * * * **
50563865 CCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTG
1 CCAACGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATATCGGTG
* * * * *
50563915 CGC-ATGTCATGTCCCAGACATGGTCTTACGGGGGACCTCTCTTCTCGGTG
1 C-CAACGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATATCGGTG
* ** *
50563965 CCAACGCCATGTCCCAGACATGGCCTTACGTGGGACCTCTCATAATGTCAATAA
1 CCAACGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCAT-A--TCGGT-G
** *
50564019 CCAATTCCATGTCCCAGACATGGTCTTACATGGGA
1 CCAACGCCATGTCCCAGACATGGTCTTACGTGGGA
50564054 TCTCCATCCT
Statistics
Matches: 111, Mismatches: 22, Indels: 8
0.79 0.16 0.06
Matches are distributed among these distances:
49 1 0.01
50 75 0.68
51 1 0.01
53 3 0.03
54 31 0.28
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.26
Consensus pattern (50 bp):
CCAACGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATATCGGTG
Found at i:50576516 original size:41 final size:41
Alignment explanation
Indices: 50576471--50576582 Score: 143
Period size: 41 Copynumber: 2.7 Consensus size: 41
50576461 AACATGATAA
* * **
50576471 ACCGGCATGAAGCCTGCTAGGCTTAAAGCTTGATATGGTAC
1 ACCGGCATAAAGCCTGCTAGGCTTAAAGCTTGAAATAATAC
* * * *
50576512 ACCGGCATTAAGCCTGCTAGGCGTAAAGCCTGAAATAATTC
1 ACCGGCATAAAGCCTGCTAGGCTTAAAGCTTGAAATAATAC
*
50576553 ACCGGCATAAAGCCTGCTAGGCTGAAAGCT
1 ACCGGCATAAAGCCTGCTAGGCTTAAAGCT
50576583 CGATTATCAC
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 60 1.00
ACGTcount: A:0.29, C:0.24, G:0.25, T:0.21
Consensus pattern (41 bp):
ACCGGCATAAAGCCTGCTAGGCTTAAAGCTTGAAATAATAC
Found at i:50584247 original size:51 final size:49
Alignment explanation
Indices: 50584080--50584270 Score: 181
Period size: 51 Copynumber: 3.8 Consensus size: 49
50584070 AGTGAAAGTG
* * * *
50584080 ATGGTCACGTGTGTAGTACTATGTACAGGCTACTACGTGTACCGGAATGAT
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTA-C-GAATGGT
* * * *
50584131 A-GGTCGCATGTGTAGTACTATGTGCAGGGTACTAT-TCGTACCAGATAGT
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGT-GTACGA-ATGGT
* * * *
50584180 TTCGATCACGTATGTAGTACTATGTGCAGGAC-ACTATGTGTATCGAATGGT
1 AT-GGTCACATGTGTAGTACTATGTGCAGG-CTACTATGTGTA-CGAATGGT
50584231 AATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTG
1 -ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTG
50584271 AACCAAACAT
Statistics
Matches: 111, Mismatches: 20, Indels: 18
0.74 0.13 0.12
Matches are distributed among these distances:
48 1 0.01
49 5 0.05
50 33 0.30
51 68 0.61
52 4 0.04
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.31
Consensus pattern (49 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACGAATGGT
Found at i:50584266 original size:102 final size:101
Alignment explanation
Indices: 50584084--50584267 Score: 264
Period size: 101 Copynumber: 1.8 Consensus size: 101
50584074 AAAGTGATGG
* *
50584084 TCACGTGTGTAGTACTATGTACAGGCTACTACGTGTACCGGAATGATAGGTCGCATGTGTAGTAC
1 TCACGTATGTAGTACTATGTACAGGCTACTACGTGTACCGGAATGATAGGTCACATGTGTAGTAC
*
50584149 TATGTGCAGGGTACTATTCGTACCAGATAGTTTCGA
66 TATGTGCAGGCTACTATTCGTACCAGATAGTTTCGA
* * * *
50584185 TCACGTATGTAGTACTATGTGCAGGAC-ACTATGTGTATC-GAATGGTAATGGTCACATGTGTAG
1 TCACGTATGTAGTACTATGTACAGG-CTACTACGTGTACCGGAATGAT-A-GGTCACATGTGTAG
50584248 TACTATGTGCAGGCTACTAT
63 TACTATGTGCAGGCTACTAT
50584268 GTGAACCAAA
Statistics
Matches: 73, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
100 6 0.08
101 34 0.47
102 33 0.45
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.32
Consensus pattern (101 bp):
TCACGTATGTAGTACTATGTACAGGCTACTACGTGTACCGGAATGATAGGTCACATGTGTAGTAC
TATGTGCAGGCTACTATTCGTACCAGATAGTTTCGA
Found at i:50615310 original size:3 final size:3
Alignment explanation
Indices: 50615302--50615350 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
50615292 ATAAAGAAGG
50615302 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
50615350 A
1 A
50615351 GGATTAAAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:50615394 original size:5 final size:6
Alignment explanation
Indices: 50615375--50615426 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
50615365 TTTGGAATTC
* * *
50615375 AAATAA AAATAA AAATAA AACATTAC AAATAG AAATAA AAAGGAA AAATAA
1 AAATAA AAATAA AAATAA AA-A-TAA AAATAA AAATAA AAA-TAA AAATAA
50615426 A
1 A
50615427 GATATACTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
6 27 0.71
7 7 0.18
8 4 0.11
ACGTcount: A:0.75, C:0.04, G:0.06, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:50616908 original size:27 final size:27
Alignment explanation
Indices: 50616878--50617055 Score: 171
Period size: 27 Copynumber: 6.6 Consensus size: 27
50616868 ATATTGAGCC
* *
50616878 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
50616905 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
50616932 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
50616960 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
50616987 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
50617014 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
50617041 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
50617056 GTACAATTTA
Statistics
Matches: 127, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
27 102 0.80
28 25 0.20
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:50617017 original size:82 final size:81
Alignment explanation
Indices: 50616899--50617054 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
50616889 TGCTATATAA
* * *
50616899 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTC-GAATCGCA
50616964 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
50616981 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCA
50617045 CACTTAGTGC
65 CACTTAGTGC
50617055 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 19 0.29
82 47 0.71
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:50624919 original size:27 final size:27
Alignment explanation
Indices: 50624889--50625093 Score: 189
Period size: 27 Copynumber: 7.6 Consensus size: 27
50624879 ATATTGAGCC
* *
50624889 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
50624916 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
50624943 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
50624971 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
50624998 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * **
50625025 CGCACACTTAGTGCAACATATTCATTT
1 CGCACACTTAGTGCTACATAATCAACT
* *
50625052 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
50625079 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
50625094 GTACAATTTA
Statistics
Matches: 154, Mismatches: 20, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
27 129 0.84
28 25 0.16
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:50625054 original size:54 final size:54
Alignment explanation
Indices: 50624889--50625092 Score: 225
Period size: 54 Copynumber: 3.8 Consensus size: 54
50624879 ATATTGAGCC
* * * *
50624889 CGCACACTCAGTGCTAT-ATAATCAACTCGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGC-ATCATAGTCAACTCGCACACTTAGTGCCACATAATCAATT
* **
50624943 CGCACACTTAGTGC-TACATAGTCAGACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCAT-CATAGTCA-ACTCGCACACTTAGTGCCACATAATCAATT
* ** * * *
50624998 CGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATATTCATTT
1 CGCACACTTAGTGCATCATAGTCAACTCGCACACTTAGTGCCACATAATCAATT
*
50625052 CGCACACTTAGTGCAACATAGTCGAA-TCGCACACTTAGTGC
1 CGCACACTTAGTGCATCATAGTC-AACTCGCACACTTAGTGC
50625093 TGTACAATTT
Statistics
Matches: 127, Mismatches: 18, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
52 1 0.01
54 78 0.61
55 47 0.37
56 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCATCATAGTCAACTCGCACACTTAGTGCCACATAATCAATT
Found at i:50625107 original size:109 final size:109
Alignment explanation
Indices: 50624888--50625092 Score: 272
Period size: 109 Copynumber: 1.9 Consensus size: 109
50624878 TATATTGAGC
* * *
50624888 CCGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTA
1 CCGCACACTTAGTGCTATATAATCAACTCGCACACTTAGTGCAACATAATCAAATCGCACACTTA
* *
50624953 GTGCTACATAGTCAGACTCGCACACTTAGTGCCGCATGGTCAATT
66 GTGCAACATAGTCAGAATCGCACACTTAGTGCCGCAT-GTCAATT
* ** * **
50624998 -CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATATTCATTTCGCACACTT
1 CCGCACACTTAGTGCTAT-ATAATCAACTCGCACACTTAGTGCAACATAATCAAATCGCACACTT
50625061 AGTGCAACATAGTC-GAATCGCACACTTAGTGC
65 AGTGCAACATAGTCAGAATCGCACACTTAGTGC
50625093 TGTACAATTT
Statistics
Matches: 83, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
108 19 0.23
109 64 0.77
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.27
Consensus pattern (109 bp):
CCGCACACTTAGTGCTATATAATCAACTCGCACACTTAGTGCAACATAATCAAATCGCACACTTA
GTGCAACATAGTCAGAATCGCACACTTAGTGCCGCATGTCAATT
Found at i:50628398 original size:27 final size:28
Alignment explanation
Indices: 50628335--50628398 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 28
50628325 AACACTCCGG
* * *
50628335 AGAAATGGAAGTCTTTGTGGCAATTTAT
1 AGAAATGGAAGCCTTTATGGCAATCTAT
*
50628363 -GAAATGGAAGCCTTTATGGCGATCTAT
1 AGAAATGGAAGCCTTTATGGCAATCTAT
50628390 AGAAA-GGAA
1 AGAAATGGAA
50628399 TGTCTTCATG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
27 27 0.87
28 4 0.13
ACGTcount: A:0.36, C:0.09, G:0.27, T:0.28
Consensus pattern (28 bp):
AGAAATGGAAGCCTTTATGGCAATCTAT
Found at i:50628575 original size:5 final size:5
Alignment explanation
Indices: 50628565--50628606 Score: 84
Period size: 5 Copynumber: 8.4 Consensus size: 5
50628555 GTTTATTTAA
50628565 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT AT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT AT
50628607 GACTTTTAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 37 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATAAT
Found at i:50628669 original size:18 final size:18
Alignment explanation
Indices: 50628632--50628669 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
50628622 AATATTTTTA
*
50628632 TTATATTTTTTGTAAGTT
1 TTATATTTTTTATAAGTT
50628650 TTATAATTTTTTATAA-TT
1 TTAT-ATTTTTTATAAGTT
50628668 TT
1 TT
50628670 TTGCATGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.68
Consensus pattern (18 bp):
TTATATTTTTTATAAGTT
Found at i:50629266 original size:11 final size:11
Alignment explanation
Indices: 50629247--50629287 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
50629237 CCTTGTAATC
*
50629247 TTCTCTTTTTT
1 TTCTTTTTTTT
50629258 TTCTTTTTTTT
1 TTCTTTTTTTT
50629269 TTCTGTTTTTTT
1 TTCT-TTTTTTT
50629281 TT-TTTTT
1 TTCTTTTT
50629288 GCATTTTGCA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
10 4 0.14
11 15 0.54
12 9 0.32
ACGTcount: A:0.00, C:0.10, G:0.02, T:0.88
Consensus pattern (11 bp):
TTCTTTTTTTT
Found at i:50629277 original size:22 final size:21
Alignment explanation
Indices: 50629247--50629287 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
50629237 CCTTGTAATC
50629247 TTCTCTTTTTTTTCTTTTTTTT
1 TTCTCTTTTTTTT-TTTTTTTT
*
50629269 TTCTGTTTTTTTTTTTTTT
1 TTCTCTTTTTTTTTTTTTT
50629288 GCATTTTGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.00, C:0.10, G:0.02, T:0.88
Consensus pattern (21 bp):
TTCTCTTTTTTTTTTTTTTTT
Found at i:50630252 original size:29 final size:29
Alignment explanation
Indices: 50630219--50630293 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
50630209 AAAAACATGT
*
50630219 TGACGTGGACGCACTTT-AGTAAAAAGAGC
1 TGACGAGGACGC-CTTTCAGTAAAAAGAGC
* * *
50630248 TGACGAGGGCGCGTTTCAGTAAAAAGCGC
1 TGACGAGGACGCCTTTCAGTAAAAAGAGC
50630277 TGACGAGGACGCGCTTT
1 TGACGAGGACGC-CTTT
50630294 TCCCCGTGTT
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
28 3 0.08
29 32 0.84
30 3 0.08
ACGTcount: A:0.28, C:0.20, G:0.32, T:0.20
Consensus pattern (29 bp):
TGACGAGGACGCCTTTCAGTAAAAAGAGC
Found at i:50630777 original size:84 final size:85
Alignment explanation
Indices: 50630617--50630783 Score: 223
Period size: 84 Copynumber: 2.0 Consensus size: 85
50630607 TGTACCGTTG
* *
50630617 ATTCTAAAAAAATAATTTTGAAACGATGGTTCTGAAAACATATCTCGGGATCCTCAAGAAATCTG
1 ATTCTAAAAAAATAATTTTGAAACGATGGTTCTGAAAACAAATCTCGGGATCCACAAGAAATCTG
50630682 ATAGTTGGGGTTAAAAAATA
66 ATAGTTGGGGTTAAAAAATA
* * * * *
50630702 ATTCTGAAAAAATAATTTTTAGAA-GATGGTTTTGAAAA-AAATC-CTGGGATTCACGAGAAATC
1 ATTCTAAAAAAATAATTTTGA-AACGATGGTTCTGAAAACAAATCTC-GGGATCCACAAGAAATC
*
50630764 TGATAGTTGGGGTTGAAAAA
64 TGATAGTTGGGGTTAAAAAA
50630784 CGCTTCAAGT
Statistics
Matches: 72, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
83 1 0.01
84 37 0.51
85 32 0.44
86 2 0.03
ACGTcount: A:0.41, C:0.10, G:0.20, T:0.30
Consensus pattern (85 bp):
ATTCTAAAAAAATAATTTTGAAACGATGGTTCTGAAAACAAATCTCGGGATCCACAAGAAATCTG
ATAGTTGGGGTTAAAAAATA
Found at i:50634052 original size:59 final size:58
Alignment explanation
Indices: 50633983--50634149 Score: 217
Period size: 59 Copynumber: 2.8 Consensus size: 58
50633973 TAACTCCTAA
* *
50633983 TTTATTAAATGAAACAATGAAAAAATAATTTGTACAAACATATTTAAAAGAAATTCTAT
1 TTTATTAAATGAAACAAT-AAAAAATAATTTGTACAAAAATATTCAAAAGAAATTCTAT
* * * *
50634042 TTTATTAAATGAAACAATTTAAAAATAATTTATACAAAAATATTCAAAAGAACTTCTGT
1 TTTATTAAATGAAACAA-TAAAAAATAATTTGTACAAAAATATTCAAAAGAAATTCTAT
* * * *
50634101 TTCATTAAATGAAACAATATAAAAACAGTTTGTACAAATATATTCAAAA
1 TTTATTAAATGAAACAATA-AAAAATAATTTGTACAAAAATATTCAAAA
50634150 ATAAATCAAT
Statistics
Matches: 94, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
58 1 0.01
59 92 0.98
60 1 0.01
ACGTcount: A:0.52, C:0.08, G:0.06, T:0.34
Consensus pattern (58 bp):
TTTATTAAATGAAACAATAAAAAATAATTTGTACAAAAATATTCAAAAGAAATTCTAT
Found at i:50634555 original size:18 final size:18
Alignment explanation
Indices: 50634512--50634547 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
50634502 GAGTGGAAAA
*
50634512 AGGAAACATATAAGGGTT
1 AGGATACATATAAGGGTT
50634530 AGGATACATATAAGGGTT
1 AGGATACATATAAGGGTT
50634548 CAGATACACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.42, C:0.06, G:0.28, T:0.25
Consensus pattern (18 bp):
AGGATACATATAAGGGTT
Found at i:50641254 original size:8 final size:8
Alignment explanation
Indices: 50641238--50641274 Score: 67
Period size: 8 Copynumber: 4.8 Consensus size: 8
50641228 AGCTTCCATT
50641238 TTTTC-TC
1 TTTTCTTC
50641245 TTTTCTTC
1 TTTTCTTC
50641253 TTTTCTTC
1 TTTTCTTC
50641261 TTTTCTTC
1 TTTTCTTC
50641269 TTTTCT
1 TTTTCT
50641275 ACTCATTCTC
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
7 5 0.17
8 24 0.83
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTTCTTC
Found at i:50652377 original size:16 final size:17
Alignment explanation
Indices: 50652358--50652390 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
50652348 TTTTTTAATA
50652358 AAAATA-TTATAATTTT
1 AAAATATTTATAATTTT
50652374 AAAATATTTATAATTTT
1 AAAATATTTATAATTTT
50652391 TTAATAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
AAAATATTTATAATTTT
Found at i:50652419 original size:20 final size:20
Alignment explanation
Indices: 50652347--50652428 Score: 77
Period size: 19 Copynumber: 4.2 Consensus size: 20
50652337 TGGTATTGTT
*
50652347 ATTTTTTAATAAAAATATTATA
1 ATTTTTTAAT--AAATTTTATA
50652369 A--TTTT-A-AAATATTTATA
1 ATTTTTTAATAAAT-TTTATA
*
50652386 ATTTTTTAAT-AATTTTATG
1 ATTTTTTAATAAATTTTATA
50652405 ATTTTTTAATAAATTTTA-A
1 ATTTTTTAATAAATTTTATA
50652424 ATTTT
1 ATTTT
50652429 AAAAGGGCTT
Statistics
Matches: 51, Mismatches: 3, Indels: 15
0.74 0.04 0.22
Matches are distributed among these distances:
16 4 0.08
17 6 0.12
19 25 0.49
20 15 0.29
22 1 0.02
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.57
Consensus pattern (20 bp):
ATTTTTTAATAAATTTTATA
Found at i:50656912 original size:13 final size:13
Alignment explanation
Indices: 50656894--50656918 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50656884 TGTATTTTGA
50656894 ACAAAATATTTAC
1 ACAAAATATTTAC
50656907 ACAAAATATTTA
1 ACAAAATATTTA
50656919 AATTTAATTC
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:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (13 bp):
ACAAAATATTTAC
Found at i:50657765 original size:21 final size:21
Alignment explanation
Indices: 50657741--50657793 Score: 81
Period size: 21 Copynumber: 2.5 Consensus size: 21
50657731 CATTATTTCT
50657741 AATCTCACCGCTACAGT-ATCC
1 AATCTCACCGCTACAGTAAT-C
*
50657762 AATCTCACCGCTACAGTAATT
1 AATCTCACCGCTACAGTAATC
50657783 AATCTCACCGC
1 AATCTCACCGC
50657794 CACCGTTGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 28 0.93
22 2 0.07
ACGTcount: A:0.30, C:0.36, G:0.09, T:0.25
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAATC
Found at i:50659841 original size:13 final size:13
Alignment explanation
Indices: 50659804--50659870 Score: 89
Period size: 13 Copynumber: 5.1 Consensus size: 13
50659794 AGTTCTTCGT
50659804 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
50659817 TACTTTTTGAAAAG
1 TGC-TTTTGAAAAG
* *
50659831 TGCTGTGGAAAAG
1 TGCTTTTGAAAAG
*
50659844 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
50659857 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
50659870 T
1 T
50659871 TTGGTTTAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
13 33 0.73
14 12 0.27
ACGTcount: A:0.30, C:0.07, G:0.25, T:0.37
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:50667072 original size:41 final size:41
Alignment explanation
Indices: 50667042--50667241 Score: 217
Period size: 41 Copynumber: 4.9 Consensus size: 41
50667032 GTGAAATTGT
* * *
50667042 TCAGACTATACGTCTAGCAGGCTAAGTGCCAGTGAATTGAA
1 TCAGACTATACGCCTAGCAGGCTAAGTGCCGGTGAACTGAA
*
50667083 TC-GAACTATACGTCC-AGCAGTCTAAGTGCCGGTGAACTGAA
1 TCAG-ACTATACG-CCTAGCAGGCTAAGTGCCGGTGAACTGAA
* * * *
50667124 TCAGGCTACAAGCCTAGCAGGCTAAATGCCGGTGAACTGAA
1 TCAGACTATACGCCTAGCAGGCTAAGTGCCGGTGAACTGAA
* * *
50667165 TCAGGCTATAGGCCTAGCAGGCTAAGTGCCGGTGAACGGAA
1 TCAGACTATACGCCTAGCAGGCTAAGTGCCGGTGAACTGAA
* * * *
50667206 TTAGACTATAAGCCTATCAGG-TGAAGTGCCAGTGAA
1 TCAGACTATACGCCTAGCAGGCT-AAGTGCCGGTGAA
50667242 TCTGTTTAAA
Statistics
Matches: 136, Mismatches: 18, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
40 4 0.03
41 130 0.96
42 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.21
Consensus pattern (41 bp):
TCAGACTATACGCCTAGCAGGCTAAGTGCCGGTGAACTGAA
Found at i:50667464 original size:31 final size:31
Alignment explanation
Indices: 50667429--50667490 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
50667419 TTTAAGTGTG
50667429 TATATGTATGCATTCGGCATAGGTGGATATA
1 TATATGTATGCATTCGGCATAGGTGGATATA
*
50667460 TATATGTATGCATTCGGCATAGGTGGGTATA
1 TATATGTATGCATTCGGCATAGGTGGATATA
50667491 AGTGAATATG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.27, C:0.10, G:0.27, T:0.35
Consensus pattern (31 bp):
TATATGTATGCATTCGGCATAGGTGGATATA
Found at i:50674919 original size:41 final size:41
Alignment explanation
Indices: 50674746--50674945 Score: 224
Period size: 41 Copynumber: 4.9 Consensus size: 41
50674736 GTGAAATTGT
* * *
50674746 TCAGACTATACGTCTAGCAGGCTAAGTGCCGGTGAATTGAA
1 TCAGACTATAAGCCTAGCAGGCTAAGTGCCGGTGAACTGAA
* *
50674787 TCGGACTATACGTCC-AGCAGGCTAAGTGCCGGTGAACTGAA
1 TCAGACTATAAG-CCTAGCAGGCTAAGTGCCGGTGAACTGAA
* * *
50674828 TCAGGCTACAAGCCTAGCAGGCTAAGCGCCGGTGAACTGAA
1 TCAGACTATAAGCCTAGCAGGCTAAGTGCCGGTGAACTGAA
* * * * *
50674869 TCAGGCTATAGGCCTAGCAGGCTAAGTGTCGGTGGACGGAA
1 TCAGACTATAAGCCTAGCAGGCTAAGTGCCGGTGAACTGAA
* * *
50674910 TTAGACTATAAGCCTATCAGG-TGAAGTGCCAGTGAA
1 TCAGACTATAAGCCTAGCAGGCT-AAGTGCCGGTGAA
50674946 TCTGTTTAAA
Statistics
Matches: 135, Mismatches: 21, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
40 3 0.02
41 131 0.97
42 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.20
Consensus pattern (41 bp):
TCAGACTATAAGCCTAGCAGGCTAAGTGCCGGTGAACTGAA
Found at i:50675171 original size:31 final size:31
Alignment explanation
Indices: 50675133--50675194 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
50675123 TTTAAGTGTG
*
50675133 TATATGTATGCATTTGGCATAGGTGGATATA
1 TATATGTATGCATTCGGCATAGGTGGATATA
*
50675164 TATATGTATGCATTCGGCATAGGTGGGTATA
1 TATATGTATGCATTCGGCATAGGTGGATATA
50675195 AGTAAATATG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.27, C:0.08, G:0.27, T:0.37
Consensus pattern (31 bp):
TATATGTATGCATTCGGCATAGGTGGATATA
Found at i:50675214 original size:33 final size:31
Alignment explanation
Indices: 50675139--50675215 Score: 91
Period size: 31 Copynumber: 2.4 Consensus size: 31
50675129 TGTGTATATG
* * *
50675139 TATGCATTTGGCATAGGTGGATATATATATG
1 TATGCATTCGGCATAGGTGGATATATAAATA
*
50675170 TATGCATTCGGCATAGGTGGGTATAAGTAAATA
1 TATGCATTCGGCATAGGTGGATAT-A-TAAATA
*
50675203 TGTGCATTCGGCA
1 TATGCATTCGGCA
50675216 CTTATAGTTG
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
31 22 0.56
32 1 0.03
33 16 0.41
ACGTcount: A:0.29, C:0.10, G:0.27, T:0.34
Consensus pattern (31 bp):
TATGCATTCGGCATAGGTGGATATATAAATA
Found at i:50700566 original size:25 final size:25
Alignment explanation
Indices: 50700538--50700686 Score: 126
Period size: 25 Copynumber: 6.0 Consensus size: 25
50700528 CCTGAAAAAT
* *
50700538 CTTTGTGGCATATTATCTGGAAAGC
1 CTTTGTGGCGTATTATATGGAAAGC
* * *
50700563 CTTTGTGGCGTATTATCTAGAAGGC
1 CTTTGTGGCGTATTATATGGAAAGC
*
50700588 CTTTGTGGC-TAATCT-TATGAAAAGC
1 CTTTGTGGCGT-AT-TATATGGAAAGC
* * * *
50700613 TTTTGAGGCGTATTATTTGGAACGC
1 CTTTGTGGCGTATTATATGGAAAGC
*
50700638 CTTTGTGGC-TAGTCT-TATGAAAAGC
1 CTTTGTGGCGTA-T-TATATGGAAAGC
*
50700663 CTTTGTGGCGTATTGTATGGAAAG
1 CTTTGTGGCGTATTATATGGAAAG
50700687 ACTATCTAAC
Statistics
Matches: 98, Mismatches: 18, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
24 5 0.05
25 88 0.90
26 5 0.05
ACGTcount: A:0.23, C:0.14, G:0.26, T:0.37
Consensus pattern (25 bp):
CTTTGTGGCGTATTATATGGAAAGC
Found at i:50700623 original size:50 final size:50
Alignment explanation
Indices: 50700558--50700676 Score: 184
Period size: 50 Copynumber: 2.4 Consensus size: 50
50700548 TATTATCTGG
*
50700558 AAAGCCTTTGTGGCGTATTATCTAGAAGGCCTTTGTGGCTAATCTTATGA
1 AAAGCCTTTGTGGCGTATTATCTAGAACGCCTTTGTGGCTAATCTTATGA
* * * * *
50700608 AAAGCTTTTGAGGCGTATTATTTGGAACGCCTTTGTGGCTAGTCTTATGA
1 AAAGCCTTTGTGGCGTATTATCTAGAACGCCTTTGTGGCTAATCTTATGA
50700658 AAAGCCTTTGTGGCGTATT
1 AAAGCCTTTGTGGCGTATT
50700677 GTATGGAAAG
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 61 1.00
ACGTcount: A:0.23, C:0.15, G:0.25, T:0.37
Consensus pattern (50 bp):
AAAGCCTTTGTGGCGTATTATCTAGAACGCCTTTGTGGCTAATCTTATGA
Found at i:50705460 original size:17 final size:18
Alignment explanation
Indices: 50705438--50705473 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
50705428 CTTTAAACTT
*
50705438 TTAAAA-CTCTAAAATTC
1 TTAAAACCTCCAAAATTC
50705455 TTAAAACCTCCAAAATTC
1 TTAAAACCTCCAAAATTC
50705473 T
1 T
50705474 AGACTCACTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.44, C:0.22, G:0.00, T:0.33
Consensus pattern (18 bp):
TTAAAACCTCCAAAATTC
Found at i:50706340 original size:85 final size:84
Alignment explanation
Indices: 50706197--50706369 Score: 337
Period size: 85 Copynumber: 2.0 Consensus size: 84
50706187 TCAATTTCTG
50706197 TGCACTAGAATAGTTCTTACTTTGAATGTTTCTAATGTCAATACTTTTTGAGCGATTTTGCTTTA
1 TGCACTAGAATAGTTCTTACTTTGAATGTTTCTAATGTCAATACTTTTTGAGCGATTTTGCTTTA
50706262 CGCTATTTTGCAAAAAACAA
66 CGCTATTTTGCAAAAAA-AA
50706282 TGCACTAGAATAGTTCTTACTTTGAATGTTTCTAATGTCAATACTTTTTGAGCGATTTTGCTTTA
1 TGCACTAGAATAGTTCTTACTTTGAATGTTTCTAATGTCAATACTTTTTGAGCGATTTTGCTTTA
50706347 CGCTATTTTGCAAAAAAAA
66 CGCTATTTTGCAAAAAAAA
50706366 TGCA
1 TGCA
50706370 TTGGAACGTG
Statistics
Matches: 88, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
84 6 0.07
85 82 0.93
ACGTcount: A:0.29, C:0.15, G:0.14, T:0.41
Consensus pattern (84 bp):
TGCACTAGAATAGTTCTTACTTTGAATGTTTCTAATGTCAATACTTTTTGAGCGATTTTGCTTTA
CGCTATTTTGCAAAAAAAA
Found at i:50707329 original size:22 final size:22
Alignment explanation
Indices: 50707301--50707346 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
50707291 CAAATTTGGC
50707301 ATTAAGTTCTATATATTACACT
1 ATTAAGTTCTATATATTACACT
50707323 ATTAAGTTCTATATATTACACT
1 ATTAAGTTCTATATATTACACT
50707345 AT
1 AT
50707347 AAATAGACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.37, C:0.13, G:0.04, T:0.46
Consensus pattern (22 bp):
ATTAAGTTCTATATATTACACT
Found at i:50708028 original size:19 final size:19
Alignment explanation
Indices: 50708004--50708042 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
50707994 AATAATGCGA
50708004 TGTTAGATATTTTACCGTT
1 TGTTAGATATTTTACCGTT
*
50708023 TGTTAGATATTTTACTGTT
1 TGTTAGATATTTTACCGTT
50708042 T
1 T
50708043 ATTTAAACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.08, G:0.15, T:0.56
Consensus pattern (19 bp):
TGTTAGATATTTTACCGTT
Found at i:50714939 original size:22 final size:22
Alignment explanation
Indices: 50714907--50714958 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
50714897 GGGTAGGAAA
* * *
50714907 CTGCATTTGTATTTGATTTGTT
1 CTGCATCTGTATCTGATATGTT
*
50714929 TTGCATCTGTATCTGATATGTT
1 CTGCATCTGTATCTGATATGTT
50714951 CTGCATCT
1 CTGCATCT
50714959 TATATGAACT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.15, C:0.15, G:0.17, T:0.52
Consensus pattern (22 bp):
CTGCATCTGTATCTGATATGTT
Found at i:50716721 original size:25 final size:25
Alignment explanation
Indices: 50716693--50716740 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
50716683 AAGCTCATAT
* *
50716693 GAGCCATGTAACAGGAAGCTTATCC
1 GAGCCATATAACAGGAAACTTATCC
**
50716718 GAGCTGTATAACAGGAAACTTAT
1 GAGCCATATAACAGGAAACTTAT
50716741 AAGAGTTTGA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (25 bp):
GAGCCATATAACAGGAAACTTATCC
Found at i:50716809 original size:24 final size:25
Alignment explanation
Indices: 50716782--50716830 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
50716772 TAACAGGTAA
*
50716782 CTCCGAAGAGCTAT-TATCAGGAAG
1 CTCCGAAGAGCCATGTATCAGGAAG
* *
50716806 CTCCGGATAGCCATGTATCAGGAAG
1 CTCCGAAGAGCCATGTATCAGGAAG
50716831 TTCAAGTGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.31, C:0.22, G:0.27, T:0.20
Consensus pattern (25 bp):
CTCCGAAGAGCCATGTATCAGGAAG
Found at i:50720396 original size:3 final size:3
Alignment explanation
Indices: 50720390--50720415 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
50720380 TGGTCACAAC
50720390 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
50720416 GTTCTTGATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:50721611 original size:19 final size:18
Alignment explanation
Indices: 50721565--50721610 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
50721555 TATATTTTTT
50721565 TAAATATTTTGATAATTA
1 TAAATATTTTGATAATTA
*
50721583 TTAATATTTTGATAATTTA
1 TAAATATTTTGATAA-TTA
50721602 TAAAT-TTTT
1 TAAATATTTT
50721611 TTATACTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 18 0.72
19 7 0.28
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (18 bp):
TAAATATTTTGATAATTA
Found at i:50721793 original size:27 final size:26
Alignment explanation
Indices: 50721710--50721793 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 26
50721700 TAGATATGCC
* *
50721710 TTTTTATTAATTTTTATAAATTATTAA
1 TTTTTTTTAATTTTTAAAAATTA-TAA
** * *
50721737 TATTTTGTTTGAATTTTTTCATATTTTAA
1 T-TTTT-TTT-AATTTTTAAAAATTATAA
50721766 TTTTTTTTAAATTTTTAAAAATTATAA
1 TTTTTTTT-AATTTTTAAAAATTATAA
50721793 T
1 T
50721794 AAATTGTATA
Statistics
Matches: 44, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
27 19 0.43
28 8 0.18
29 6 0.14
30 11 0.25
ACGTcount: A:0.33, C:0.01, G:0.02, T:0.63
Consensus pattern (26 bp):
TTTTTTTTAATTTTTAAAAATTATAA
Found at i:50724228 original size:25 final size:25
Alignment explanation
Indices: 50724181--50724233 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
50724171 TTTGTTATGT
* *
50724181 TATGCCATGATCTGATTTAATATTA
1 TATGCCATGATCTGATCTAATATAA
* * *
50724206 TATGCTATGGTCTGATCTGATATAA
1 TATGCCATGATCTGATCTAATATAA
50724231 TAT
1 TAT
50724234 ACTACGATTC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.30, C:0.11, G:0.15, T:0.43
Consensus pattern (25 bp):
TATGCCATGATCTGATCTAATATAA
Found at i:50734575 original size:20 final size:20
Alignment explanation
Indices: 50734546--50734587 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
50734536 TCAGAAATAG
*
50734546 TGGTTTCAGGACCACAATTC
1 TGGTTGCAGGACCACAATTC
*
50734566 TGGTTGCAGGACTACAATTC
1 TGGTTGCAGGACCACAATTC
50734586 TG
1 TG
50734588 ATGAGTGAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.31
Consensus pattern (20 bp):
TGGTTGCAGGACCACAATTC
Found at i:50754752 original size:20 final size:21
Alignment explanation
Indices: 50754722--50754762 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
50754712 AATTCCTTAG
50754722 CACATAAATTACTAAAATTCT
1 CACATAAATTACTAAAATTCT
*
50754743 CACA-AAATTACTCAAATTCT
1 CACATAAATTACTAAAATTCT
50754763 TTGTAATGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (21 bp):
CACATAAATTACTAAAATTCT
Found at i:50757190 original size:27 final size:27
Alignment explanation
Indices: 50757123--50757193 Score: 92
Period size: 27 Copynumber: 2.6 Consensus size: 27
50757113 GAGGTCAATT
50757123 AATGACTGAAATACCCCCATAGAGTAA
1 AATGACTGAAATACCCCCATAGAGTAA
50757150 AATGA-TCGAAATACCCCCATAG-GATAA
1 AATGACT-GAAATACCCCCATAGAG-TAA
**
50757177 AATGACTGTTATACCCC
1 AATGACTGAAATACCCC
50757194 TAGGAGATGA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
26 2 0.05
27 36 0.92
28 1 0.03
ACGTcount: A:0.41, C:0.24, G:0.14, T:0.21
Consensus pattern (27 bp):
AATGACTGAAATACCCCCATAGAGTAA
Found at i:50757503 original size:33 final size:33
Alignment explanation
Indices: 50757455--50757526 Score: 83
Period size: 33 Copynumber: 2.2 Consensus size: 33
50757445 TGTATTATTG
* *
50757455 CACTATACTGATACTGTATCA-GGCTAAGGCCCA
1 CACTGTACTGATACTGAAT-AGGGCTAAGGCCCA
* *
50757488 CACTGTACTGTTACTGAATAGGGCTCAGGCCCA
1 CACTGTACTGATACTGAATAGGGCTAAGGCCCA
*
50757521 GACTGT
1 CACTGT
50757527 TATTGCATGT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
32 1 0.03
33 32 0.97
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (33 bp):
CACTGTACTGATACTGAATAGGGCTAAGGCCCA
Found at i:50760382 original size:15 final size:15
Alignment explanation
Indices: 50760338--50760383 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
50760328 AGGAATTTTG
50760338 AAAAAATTAAGAAAA
1 AAAAAATTAAGAAAA
*
50760353 AATAAAA-TAATAAAA
1 AA-AAAATTAAGAAAA
50760368 ATAAAAATTAA-AAAA
1 A-AAAAATTAAGAAAA
50760383 A
1 A
50760384 CCAAACTCCC
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
15 19 0.70
16 8 0.30
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.17
Consensus pattern (15 bp):
AAAAAATTAAGAAAA
Found at i:50765459 original size:23 final size:23
Alignment explanation
Indices: 50765429--50765474 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
50765419 TATTATTATA
*
50765429 TTTTATATATATT-CGTTTATTTT
1 TTTTATATACATTAC-TTTATTTT
50765452 TTTTATATACATTACTTTATTTT
1 TTTTATATACATTACTTTATTTT
50765475 ATATACATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 20 0.95
24 1 0.05
ACGTcount: A:0.24, C:0.07, G:0.02, T:0.67
Consensus pattern (23 bp):
TTTTATATACATTACTTTATTTT
Found at i:50765474 original size:21 final size:20
Alignment explanation
Indices: 50765424--50765482 Score: 50
Period size: 23 Copynumber: 2.8 Consensus size: 20
50765414 TATTGTATTA
*
50765424 TTATATTTTATATATATTCGT
1 TTAT-TTTTATATACATTCGT
50765445 TTATTTTTTTTATATACATTAC-T
1 TTA---TTTTTATATACATT-CGT
50765468 TTA-TTTTATATACAT
1 TTATTTTTATATACAT
50765483 CATTGTTTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
19 12 0.36
21 3 0.09
23 16 0.48
24 2 0.06
ACGTcount: A:0.29, C:0.07, G:0.02, T:0.63
Consensus pattern (20 bp):
TTATTTTTATATACATTCGT
Found at i:50779767 original size:28 final size:28
Alignment explanation
Indices: 50779715--50779777 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
50779705 AAATAGAAAT
50779715 ATAATTAAATATAATAATATCAATAACA
1 ATAATTAAATATAATAATATCAATAACA
50779743 ATAA-TAAATAGTAATAATAAT-AATAA-A
1 ATAATTAAATA-TAATAAT-ATCAATAACA
*
50779770 TTAATTAA
1 ATAATTAA
50779778 TAGCACAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
27 10 0.32
28 19 0.61
29 2 0.06
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (28 bp):
ATAATTAAATATAATAATATCAATAACA
Found at i:50782850 original size:21 final size:21
Alignment explanation
Indices: 50782811--50782851 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
50782801 AAAATTAAGA
*
50782811 AAAATTAAAATAATAAAAATT
1 AAAATTAAAATAACAAAAATT
*
50782832 AAAATTAAAATAACCAAAAT
1 AAAATTAAAATAACAAAAAT
50782852 CCCAACTCCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (21 bp):
AAAATTAAAATAACAAAAATT
Found at i:50792515 original size:21 final size:21
Alignment explanation
Indices: 50792489--50792541 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
50792479 CATCTTCAGC
*
50792489 AACTTCTTCTTCT-TCAGCAAA
1 AACTTCTTCTTCTAT-AACAAA
*
50792510 AACTTCCTCTTCTATAACAAA
1 AACTTCTTCTTCTATAACAAA
50792531 AACTTCCTTCT
1 AACTT-CTTCT
50792542 CAACAACAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 22 0.81
22 5 0.19
ACGTcount: A:0.30, C:0.30, G:0.02, T:0.38
Consensus pattern (21 bp):
AACTTCTTCTTCTATAACAAA
Found at i:50792549 original size:21 final size:21
Alignment explanation
Indices: 50792506--50792560 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
50792496 TCTTCTTCAG
* *
50792506 CAAAAACTTCCTCTTCTATAA
1 CAAAAACTTCCTCTTCAACAA
50792527 CAAAAACTTCCT-TCTCAACAA
1 CAAAAACTTCCTCT-TCAACAA
50792548 C--AAACTTCCTCTT
1 CAAAAACTTCCTCTT
50792561 GATCAGCAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
19 10 0.33
20 2 0.07
21 18 0.60
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.31
Consensus pattern (21 bp):
CAAAAACTTCCTCTTCAACAA
Found at i:50800712 original size:15 final size:15
Alignment explanation
Indices: 50800692--50800727 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
50800682 TGCTTTTTTT
**
50800692 ATTAATATTATTTCC
1 ATTAATATTATCACC
50800707 ATTAATATTATCACC
1 ATTAATATTATCACC
50800722 ATTAAT
1 ATTAAT
50800728 GTCTATCATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.39, C:0.14, G:0.00, T:0.47
Consensus pattern (15 bp):
ATTAATATTATCACC
Found at i:50800743 original size:3 final size:3
Alignment explanation
Indices: 50800735--50800770 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
50800725 AATGTCTATC
50800735 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
50800771 GTGATTGATG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:50801229 original size:18 final size:18
Alignment explanation
Indices: 50801197--50801243 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
50801187 AAAAAATATC
* *
50801197 GAAAATT-ATTTTACTTT
1 GAAAATTAAATTTACTTA
50801214 GAAAATTAAATTTACTTA
1 GAAAATTAAATTTACTTA
*
50801232 GAAAATAAAATT
1 GAAAATTAAATT
50801244 GTTATATTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 7 0.27
18 19 0.73
ACGTcount: A:0.49, C:0.04, G:0.06, T:0.40
Consensus pattern (18 bp):
GAAAATTAAATTTACTTA
Found at i:50803328 original size:67 final size:67
Alignment explanation
Indices: 50803188--50803332 Score: 200
Period size: 67 Copynumber: 2.2 Consensus size: 67
50803178 TCACCTGTGA
*
50803188 AAACATAGAGAGTCAGCCAGGACATTAAACATGGGGTATAATGTGTAAGACCATAGCTCGACTAT
1 AAACATAGAGAGTCAGCCAGGACATTAAACATGGGGTATAATGTGTAAGACCATAGCTCAACTAT
50803253 AG
66 AG
** ** * ** *
50803255 CTACATAGAGAGTCCTCTAGGACATTAAACATGGGGTATGCTGTGTAAGATCATAGCTCAACTAT
1 AAACATAGAGAGTCAGCCAGGACATTAAACATGGGGTATAATGTGTAAGACCATAGCTCAACTAT
*
50803320 GG
66 AG
50803322 AAACATAGAGA
1 AAACATAGAGA
50803333 ATCTGCAAGA
Statistics
Matches: 66, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
67 66 1.00
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (67 bp):
AAACATAGAGAGTCAGCCAGGACATTAAACATGGGGTATAATGTGTAAGACCATAGCTCAACTAT
AG
Found at i:50809175 original size:10 final size:10
Alignment explanation
Indices: 50809133--50809175 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
50809123 AAAAATAGTC
*
50809133 AAAATTAATC
1 AAAATTAATT
50809143 AAAATTAACTAT
1 AAAATTAA-T-T
50809155 AAAATTAATT
1 AAAATTAATT
*
50809165 AAAATTCATT
1 AAAATTAATT
50809175 A
1 A
50809176 TGTACATATT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
10 19 0.66
11 2 0.07
12 8 0.28
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.35
Consensus pattern (10 bp):
AAAATTAATT
Found at i:50821969 original size:20 final size:20
Alignment explanation
Indices: 50821946--50821988 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
50821936 GTAACCTTAT
* *
50821946 AAGAAATTTTGTAATGTTGA
1 AAGAAATTTAGTAATATTGA
**
50821966 AAGAGGTTTAGTAATATTGA
1 AAGAAATTTAGTAATATTGA
50821986 AAG
1 AAG
50821989 TGATCAATTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (20 bp):
AAGAAATTTAGTAATATTGA
Found at i:50825202 original size:20 final size:20
Alignment explanation
Indices: 50825177--50825254 Score: 93
Period size: 20 Copynumber: 3.9 Consensus size: 20
50825167 TCGTACGGGA
**
50825177 TTGCACTTTGGTGCCTCTAT
1 TTGCACTTCAGTGCCTCTAT
* *
50825197 TTGCACTTCAGTGCCTTTCT
1 TTGCACTTCAGTGCCTCTAT
*
50825217 ATGCACTTCAGTGCCTCTAT
1 TTGCACTTCAGTGCCTCTAT
**
50825237 TTGCACTTTGGTGCCTCT
1 TTGCACTTCAGTGCCTCT
50825255 GTTAGCAATT
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.12, C:0.28, G:0.18, T:0.42
Consensus pattern (20 bp):
TTGCACTTCAGTGCCTCTAT
Found at i:50832478 original size:21 final size:20
Alignment explanation
Indices: 50832433--50832478 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
50832423 TGCCTAGGCT
50832433 GTGTGAAAGCTCACACACCC
1 GTGTGAAAGCTCACACACCC
*
50832453 ATGTGAAAGCT-ACACGTACCC
1 GTGTGAAAGCTCACAC--ACCC
50832474 GTGTG
1 GTGTG
50832479 GAGGAGACAC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 4 0.18
20 10 0.45
21 8 0.36
ACGTcount: A:0.28, C:0.28, G:0.24, T:0.20
Consensus pattern (20 bp):
GTGTGAAAGCTCACACACCC
Found at i:50843764 original size:51 final size:50
Alignment explanation
Indices: 50843603--50843781 Score: 175
Period size: 51 Copynumber: 3.5 Consensus size: 50
50843593 AGTTGCTAGA
* * *
50843603 TCACATGTGTAGTACTATGTGCAGGCTACTTCGTGTACTG--GAATGATAGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACAGATGAA-AAT-GG
* * * * * *** *
50843653 TCGCATGTGTAGTACTATGTGCAGGCTACAATGCGTACCGGAT-AGCTTTGA
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTA-CAGATGA-AAATGG
*
50843704 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCAGATGAAAATGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTA-CAGATGAAAATGG
50843755 TCACATGTGTAGTACTATGTGCAGGCT
1 TCACATGTGTAGTACTATGTGCAGGCT
50843782 GCTATGTGAA
Statistics
Matches: 102, Mismatches: 22, Indels: 9
0.77 0.17 0.07
Matches are distributed among these distances:
50 32 0.31
51 67 0.66
52 3 0.03
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (50 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACAGATGAAAATGG
Found at i:50847947 original size:49 final size:49
Alignment explanation
Indices: 50847891--50847984 Score: 161
Period size: 49 Copynumber: 1.9 Consensus size: 49
50847881 ATTATGGGAA
* *
50847891 CACTCTTGATGGGATCTACCTATGTGAGTGAAAGTGTGGCCACTTTTAG
1 CACTCTTGATGGAATCTACCTATATGAGTGAAAGTGTGGCCACTTTTAG
*
50847940 CACTCTTGATGGAATCTACCTATATGAGTGGAAGTGTGGCCACTT
1 CACTCTTGATGGAATCTACCTATATGAGTGAAAGTGTGGCCACTT
50847985 CTAGGAGTTC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 42 1.00
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (49 bp):
CACTCTTGATGGAATCTACCTATATGAGTGAAAGTGTGGCCACTTTTAG
Found at i:50849024 original size:20 final size:19
Alignment explanation
Indices: 50848979--50849056 Score: 66
Period size: 20 Copynumber: 3.9 Consensus size: 19
50848969 ACAAATTTGT
* *
50848979 AAATTACTAAATATCTTATG
1 AAATTACTAAATTTCTTA-C
* *
50848999 GAATTACTGAATTTCTTAC
1 AAATTACTAAATTTCTTAC
* * *
50849018 TAGATTATTATATTTCTTAC
1 -AAATTACTAAATTTCTTAC
50849038 AAATTTACTAAATTTCTTA
1 AAA-TTACTAAATTTCTTA
50849057 TGTTGAGGCA
Statistics
Matches: 44, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
19 2 0.05
20 42 0.95
ACGTcount: A:0.37, C:0.12, G:0.05, T:0.46
Consensus pattern (19 bp):
AAATTACTAAATTTCTTAC
Found at i:50849517 original size:22 final size:23
Alignment explanation
Indices: 50849477--50849520 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
50849467 TAGAAAAGCT
*
50849477 AAAACAAAAATCAAGATTAAAAA
1 AAAACAAAAATCAACATTAAAAA
*
50849500 AAAACTAAAA-CAACATTAAAA
1 AAAACAAAAATCAACATTAAAA
50849521 TCCTAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.73, C:0.11, G:0.02, T:0.14
Consensus pattern (23 bp):
AAAACAAAAATCAACATTAAAAA
Found at i:50863900 original size:3 final size:3
Alignment explanation
Indices: 50863892--50863917 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
50863882 ATAACAAATC
50863892 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
50863918 AGAGACTACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:50869201 original size:20 final size:20
Alignment explanation
Indices: 50869176--50869222 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
50869166 TGATGGTTAA
50869176 AATAATAAAATAATAAATTC
1 AATAATAAAATAATAAATTC
* *
50869196 AATAATTACATAATAAATTC
1 AATAATAAAATAATAAATTC
50869216 -ATAATAA
1 AATAATAA
50869223 CTATATAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 6 0.25
20 18 0.75
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (20 bp):
AATAATAAAATAATAAATTC
Found at i:50869841 original size:32 final size:29
Alignment explanation
Indices: 50869767--50869846 Score: 90
Period size: 30 Copynumber: 2.6 Consensus size: 29
50869757 GATGGTATTA
50869767 TATTTA-TTTTTTATTAACCATATTTTAT
1 TATTTATTTTTTTATTAACCATATTTTAT
*
50869795 TATTTATTTCTTTTATTAGCCATATGTTTAGT
1 TATTTATTT-TTTTATTAACCATAT-TTTA-T
*
50869827 TATTTGTCTTTTTTAATTAA
1 TATTTAT-TTTTTT-ATTAA
50869847 ATTTGATTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
28 6 0.14
29 2 0.05
30 14 0.33
31 4 0.09
32 11 0.26
33 6 0.14
ACGTcount: A:0.25, C:0.07, G:0.05, T:0.62
Consensus pattern (29 bp):
TATTTATTTTTTTATTAACCATATTTTAT
Found at i:50870081 original size:62 final size:61
Alignment explanation
Indices: 50869968--50870085 Score: 168
Period size: 62 Copynumber: 1.9 Consensus size: 61
50869958 CTAACGGTAC
*
50869968 CATAATAAAACATATATTGATAGTTCAAGTACCACATTGGACATTTATAAAAGTACATGCAT
1 CATAATAAAACACATATTGATAGTTCAAGTACCACATTGGACATTTATAAAA-TACATGCAT
* *
50870030 CATAATAAAATACATATTGATAGTTCAGGTA-CAGTCATTGGACATTT-TAAAATACA
1 CATAATAAAACACATATTGATAGTTCAAGTACCA--CATTGGACATTTATAAAATACA
50870086 GATATCACAT
Statistics
Matches: 51, Mismatches: 3, Indels: 5
0.86 0.05 0.08
Matches are distributed among these distances:
61 6 0.12
62 33 0.65
63 12 0.24
ACGTcount: A:0.43, C:0.14, G:0.12, T:0.31
Consensus pattern (61 bp):
CATAATAAAACACATATTGATAGTTCAAGTACCACATTGGACATTTATAAAATACATGCAT
Found at i:50870403 original size:14 final size:13
Alignment explanation
Indices: 50870371--50870404 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
50870361 ATCAATGTCA
*
50870371 TTAAAATATTTAT
1 TTAAAATATTTAG
50870384 TTAAAATATTTAAG
1 TTAAAATATTT-AG
50870398 TTAAAAT
1 TTAAAAT
50870405 TGATTTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (13 bp):
TTAAAATATTTAG
Found at i:50874487 original size:42 final size:43
Alignment explanation
Indices: 50874379--50874550 Score: 134
Period size: 43 Copynumber: 4.0 Consensus size: 43
50874369 AGCTCATTCA
* * *
50874379 ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAAATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATATCG
* * * * **
50874422 ATGCCACTGTCCTC-GGCAGGGTCTTACACGAACTCTTATAT-G
1 ATGCCAATGTCC-CAGACATGGTCTTACACGAAATCAAATATCG
* * *
50874464 ATGCCAATGTCCCAGACATGGTCTTACATGTAAATCGTAA-ATCA
1 ATGCCAATGTCCCAGACATGGTCTTACACG-AAATC-AAATATCG
* * * * * *
50874508 ATGCCAAAGTGCCAAACGTGGTCTTACACGTAATCACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATATCG
50874551 GAATCCTATG
Statistics
Matches: 98, Mismatches: 25, Indels: 12
0.73 0.19 0.09
Matches are distributed among these distances:
41 1 0.01
42 26 0.27
43 43 0.44
44 28 0.29
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATATCG
Found at i:50878464 original size:102 final size:102
Alignment explanation
Indices: 50878288--50878493 Score: 376
Period size: 102 Copynumber: 2.0 Consensus size: 102
50878278 AAGAAAGAAA
* * *
50878288 AATAATGGGTCCTGAGTTAGTACAGGAAACTGAAGACAAAATTTGAGTAATTCAAGAGAGGTTAA
1 AATAATGGGTCCTGAGTTAGTACAAGAAACCGAAGAAAAAATTTGAGTAATTCAAGAGAGGTTAA
*
50878353 AAACAACTTCTAACAGACAAAAATCATATGCAGACCT
66 AAACAACTTCTAACAGAAAAAAATCATATGCAGACCT
50878390 AATAATGGGTCCTGAGTTAGTACAAGAAACCGAAGAAAAAATTTGAGTAATTCAAGAGAGGTTAA
1 AATAATGGGTCCTGAGTTAGTACAAGAAACCGAAGAAAAAATTTGAGTAATTCAAGAGAGGTTAA
50878455 AAACAACTTCTAACAGAAAAAAATCATATGCAGACCT
66 AAACAACTTCTAACAGAAAAAAATCATATGCAGACCT
50878492 AA
1 AA
50878494 AAAGAAAAGA
Statistics
Matches: 100, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
102 100 1.00
ACGTcount: A:0.46, C:0.14, G:0.18, T:0.22
Consensus pattern (102 bp):
AATAATGGGTCCTGAGTTAGTACAAGAAACCGAAGAAAAAATTTGAGTAATTCAAGAGAGGTTAA
AAACAACTTCTAACAGAAAAAAATCATATGCAGACCT
Found at i:50882424 original size:16 final size:16
Alignment explanation
Indices: 50882403--50882433 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
50882393 TGAAAAAAAA
*
50882403 AATTGTTTCTGTAAAC
1 AATTGTTTCCGTAAAC
50882419 AATTGTTTCCGTAAA
1 AATTGTTTCCGTAAA
50882434 TCTTTTTGTT
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:0.32, C:0.13, G:0.13, T:0.42
Consensus pattern (16 bp):
AATTGTTTCCGTAAAC
Found at i:50897131 original size:91 final size:91
Alignment explanation
Indices: 50897036--50897327 Score: 266
Period size: 91 Copynumber: 3.2 Consensus size: 91
50897026 GATTCGTGTA
*
50897036 TGGTTATACATTGTCGAATTATTTGGTATATGGATATAAGTTGCTGACTTGATTCATACAGGGTT
1 TGGTTATACATTGTCGAATTATTTGGTATATGGATATAAGTTGCTGACTTGATTCGTACAGGGTT
* *
50897101 GTACATTACTAAAATTAATTCGTACT
66 GTACATTGCTGAAATTAATTCGTACT
* * * * * * * * * * * ** *
50897127 TGGTTATATATTGTCGATAGTGAATT-GTTTATGAATATAGGATGCCGAATTTAATTTGTGTATG
1 TGGTTATACATTGTCGA-A-TTATTTGGTATATGGATATAAGTTGCTG-ACTTGATTCGTACAGG
* * * * ** * *
50897191 ATTATATATTGCCGATCTTGATTCGT-GT
63 GTTGTACATTGCTGAAATTAATTCGTACT
*
50897219 ATGGTTATACATTG-CTGAATTGTTTGGTATATGGATATAAGTTGCTGACTTGATTCGTACAGGG
1 -TGGTTATACATTGTC-GAATTATTTGGTATATGGATATAAGTTGCTGACTTGATTCGTACAGGG
*
50897283 TTGTACATTGTTGAAATTAATTCGTACT
64 TTGTACATTGCTGAAATTAATTCGTACT
*
50897311 TGGTTATATATTGTCGA
1 TGGTTATACATTGTCGA
50897328 TAGTGAATTG
Statistics
Matches: 143, Mismatches: 50, Indels: 16
0.68 0.24 0.08
Matches are distributed among these distances:
91 61 0.43
92 38 0.27
93 44 0.31
ACGTcount: A:0.27, C:0.09, G:0.21, T:0.42
Consensus pattern (91 bp):
TGGTTATACATTGTCGAATTATTTGGTATATGGATATAAGTTGCTGACTTGATTCGTACAGGGTT
GTACATTGCTGAAATTAATTCGTACT
Found at i:50897204 original size:31 final size:31
Alignment explanation
Indices: 50897169--50897239 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
50897159 GAATATAGGA
* *
50897169 TGCCGAATTTAATTTGTGTATGATTATATAT
1 TGCCGAATTTAATTCGTGTATGATTATACAT
* *
50897200 TGCCG-ATCTTGATTCGTGTATGGTTATACAT
1 TGCCGAAT-TTAATTCGTGTATGATTATACAT
*
50897231 TGCTGAATT
1 TGCCGAATT
50897240 GTTTGGTATA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
30 2 0.06
31 29 0.88
32 2 0.06
ACGTcount: A:0.24, C:0.11, G:0.20, T:0.45
Consensus pattern (31 bp):
TGCCGAATTTAATTCGTGTATGATTATACAT
Found at i:50897247 original size:184 final size:182
Alignment explanation
Indices: 50896930--50897440 Score: 749
Period size: 184 Copynumber: 2.8 Consensus size: 182
50896920 TACCTTGCTG
* * * *
50896930 AAATTAACTT-GTACATGGTTATATATTGGCGATATTGAATT-TGTTATGTATAT-GGATGCCGA
1 AAATTAA-TTCGTACTTGGTTATATATTGTCGATAGTGAATTGT-TTATGAATATAGGATGCCGA
* * * ** * *
50896992 ATTGGATTTGTATTGATTATACATTATCGAACTTGATTCGTGTATGGTTATACATTGTCGAATTA
64 ATTTGATTTGTGTTGATTATATATTGCCGATCTTGATTCGTGTATGGTTATACATTGT-GAATTG
50897057 TTTGGTATATGGATATAAGTTGCTGACTTGATTCATACAGGGTTGTACATTACTA
128 TTTGGTATATGGATATAAGTTGCTGACTTGATTCATACAGGGTTGTACATTACTA
50897112 AAATTAATTCGTACTTGGTTATATATTGTCGATAGTGAATTGTTTATGAATATAGGATGCCGAAT
1 AAATTAATTCGTACTTGGTTATATATTGTCGATAGTGAATTGTTTATGAATATAGGATGCCGAAT
*
50897177 TTAATTTGTGTATGATTATATATTGCCGATCTTGATTCGTGTATGGTTATACATTGCTGAATTGT
66 TTGATTTGTGT-TGATTATATATTGCCGATCTTGATTCGTGTATGGTTATACATTG-TGAATTGT
* ** *
50897242 TTGGTATATGGATATAAGTTGCTGACTTGATTCGTACAGGGTTGTACATTGTTG
129 TTGGTATATGGATATAAGTTGCTGACTTGATTCATACAGGGTTGTACATTACTA
*
50897296 AAATTAATTCGTACTTGGTTATATATTGTCGATAGTGAATTGTTTATGAATATAGGATGCTGAAT
1 AAATTAATTCGTACTTGGTTATATATTGTCGATAGTGAATTGTTTATGAATATAGGATGCCGAAT
* *
50897361 TTGATTTGTGTCTGATTATATATTGCCGATCTTGATTCGTGAATAGTTATACATTGTTGAATTGT
66 TTGATTTGTGT-TGATTATATATTGCCGATCTTGATTCGTGTATGGTTATACATTG-TGAATTGT
* *
50897426 TGGGTATATCGATAT
129 TTGGTATATGGATAT
50897441 TCATTCCTGA
Statistics
Matches: 300, Mismatches: 24, Indels: 8
0.90 0.07 0.02
Matches are distributed among these distances:
181 2 0.01
182 44 0.15
183 20 0.07
184 233 0.78
185 1 0.00
ACGTcount: A:0.27, C:0.09, G:0.21, T:0.43
Consensus pattern (182 bp):
AAATTAATTCGTACTTGGTTATATATTGTCGATAGTGAATTGTTTATGAATATAGGATGCCGAAT
TTGATTTGTGTTGATTATATATTGCCGATCTTGATTCGTGTATGGTTATACATTGTGAATTGTTT
GGTATATGGATATAAGTTGCTGACTTGATTCATACAGGGTTGTACATTACTA
Found at i:50897483 original size:31 final size:31
Alignment explanation
Indices: 50897408--50897485 Score: 81
Period size: 31 Copynumber: 2.5 Consensus size: 31
50897398 CGTGAATAGT
*
50897408 TATACATTGTTGAATT-GTTGGGTATATCGA
1 TATACATTGTTGAATTGGTTGCGTATATCGA
* **
50897438 TATTCATTCCTGAATTGGATT-CGTATAT-GAA
1 TATACATTGTTGAATTGG-TTGCGTATATCG-A
50897469 TATACATTGTTGAATTG
1 TATACATTGTTGAATTG
50897486 ATTTGAGCAT
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
30 14 0.37
31 22 0.58
32 2 0.05
ACGTcount: A:0.28, C:0.09, G:0.19, T:0.44
Consensus pattern (31 bp):
TATACATTGTTGAATTGGTTGCGTATATCGA
Found at i:50898899 original size:29 final size:29
Alignment explanation
Indices: 50898867--50898942 Score: 107
Period size: 29 Copynumber: 2.6 Consensus size: 29
50898857 ATTATGTGAG
* *
50898867 CCTATATGTGAACCTTAGGTACATGCGAC
1 CCTATATGCGAACCCTAGGTACATGCGAC
* *
50898896 CCTACATGCGAACCCTAGGTACATGCGAG
1 CCTATATGCGAACCCTAGGTACATGCGAC
*
50898925 CCTATGTGCGAACCCTAG
1 CCTATATGCGAACCCTAG
50898943 AAACTTACGA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.22
Consensus pattern (29 bp):
CCTATATGCGAACCCTAGGTACATGCGAC
Found at i:50898953 original size:29 final size:29
Alignment explanation
Indices: 50898864--50898970 Score: 88
Period size: 29 Copynumber: 3.7 Consensus size: 29
50898854 AGAATTATGT
* * ** *
50898864 GAGCCTATATGTGAACCTTAGGTACATGC
1 GAGCCTATATGCGAACCCTAGAAACATAC
* * ** *
50898893 GACCCTACATGCGAACCCTAGGTACATGC
1 GAGCCTATATGCGAACCCTAGAAACATAC
* *
50898922 GAGCCTATGTGCGAACCCTAGAAACTTAC
1 GAGCCTATATGCGAACCCTAGAAACATAC
* *
50898951 GAGCCTTTATGCGATCCCTA
1 GAGCCTATATGCGAACCCTA
50898971 AGAGCATGCA
Statistics
Matches: 64, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 64 1.00
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.23
Consensus pattern (29 bp):
GAGCCTATATGCGAACCCTAGAAACATAC
Found at i:50899249 original size:24 final size:24
Alignment explanation
Indices: 50899217--50899268 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
50899207 ATGATAAAAA
50899217 GCATAGAACTTGCTAAGTTCATGT
1 GCATAGAACTTGCTAAGTTCATGT
50899241 GCATAGAACTTGCTAAGTTCATGT
1 GCATAGAACTTGCTAAGTTCATGT
50899265 GCAT
1 GCAT
50899269 CATTACACGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (24 bp):
GCATAGAACTTGCTAAGTTCATGT
Found at i:50901302 original size:23 final size:22
Alignment explanation
Indices: 50901248--50901304 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 22
50901238 CCACTTTTTA
50901248 TATTAAAATA-TTTTTTACTTT
1 TATTAAAATATTTTTTTACTTT
* *
50901269 AAATAAAATATTATTATTTA-TTT
1 TATTAAAATATT-TT-TTTACTTT
50901292 TATTAAAATATTT
1 TATTAAAATATTT
50901305 AAATATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
21 8 0.28
22 2 0.07
23 15 0.52
24 4 0.14
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (22 bp):
TATTAAAATATTTTTTTACTTT
Found at i:50901604 original size:20 final size:20
Alignment explanation
Indices: 50901579--50901642 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
50901569 GGTGCACCGG
** *
50901579 AAAGAGAAGAAAGGAGAGAA
1 AAAGAGAAGAAAAAAAAGAA
*
50901599 AAAGAGAAAAAAAAAAAGAA
1 AAAGAGAAGAAAAAAAAGAA
*
50901619 AAAGAAGAAGAGAAAGAAAGAA
1 AAAG-AGAAGA-AAAAAAAGAA
50901641 AA
1 AA
50901643 GGTAAGTTTA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
20 20 0.56
21 5 0.14
22 11 0.31
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (20 bp):
AAAGAGAAGAAAAAAAAGAA
Found at i:50901675 original size:16 final size:16
Alignment explanation
Indices: 50901654--50901691 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
50901644 GTAAGTTTAT
50901654 TTTATAAATAATTTTG
1 TTTATAAATAATTTTG
**
50901670 TTTATAAATTGTTTTG
1 TTTATAAATAATTTTG
50901686 -TTATAA
1 TTTATAA
50901692 TTATTATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (16 bp):
TTTATAAATAATTTTG
Found at i:50901726 original size:28 final size:28
Alignment explanation
Indices: 50901661--50901716 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
50901651 TATTTTATAA
*
50901661 ATAATT-TTGTTTATAAATTGTTTTGTT
1 ATAATTATTATTTATAAATTGTTTTGTT
50901688 ATAATTATTATTTATAAATTGTTTATGTT
1 ATAATTATTATTTATAAATTGTTT-TGTT
50901717 TAGTGTTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 6 0.23
28 16 0.62
29 4 0.15
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.61
Consensus pattern (28 bp):
ATAATTATTATTTATAAATTGTTTTGTT
Found at i:50902068 original size:31 final size:31
Alignment explanation
Indices: 50902001--50902076 Score: 75
Period size: 31 Copynumber: 2.5 Consensus size: 31
50901991 AGTTATTTAT
* *
50902001 TTTGTTAGTAATTTATGGAATTAGGTTACAA
1 TTTGTTAGTAATTTATGAAATTAGATTACAA
* * *
50902032 ATTGTTAGTAATTTATTAAATGTTGATTA-AA
1 TTTGTTAGTAATTTATGAAAT-TAGATTACAA
*
50902063 TTTGTT-GTTATTTA
1 TTTGTTAGTAATTTA
50902077 ATTTTATAGG
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
30 7 0.19
31 25 0.68
32 5 0.14
ACGTcount: A:0.32, C:0.01, G:0.16, T:0.51
Consensus pattern (31 bp):
TTTGTTAGTAATTTATGAAATTAGATTACAA
Found at i:50904054 original size:33 final size:31
Alignment explanation
Indices: 50904015--50904088 Score: 78
Period size: 31 Copynumber: 2.3 Consensus size: 31
50904005 ATCCAACTCA
50904015 GTACTCCACTCCTTCCAACCCTGTATCCA-CGTC
1 GTACTCCACTCC--CCAACCC-GTATCCACCGTC
* **
50904048 GTACTCCATTCCCCGGCCCGTATCCACCGTC
1 GTACTCCACTCCCCAACCCGTATCCACCGTC
*
50904079 GTACACCACT
1 GTACTCCACT
50904089 TCTCCCGGCT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
30 7 0.20
31 17 0.49
33 11 0.31
ACGTcount: A:0.18, C:0.46, G:0.12, T:0.24
Consensus pattern (31 bp):
GTACTCCACTCCCCAACCCGTATCCACCGTC
Found at i:50904082 original size:31 final size:32
Alignment explanation
Indices: 50904037--50904097 Score: 90
Period size: 31 Copynumber: 1.9 Consensus size: 32
50904027 TTCCAACCCT
*
50904037 GTATCCACGTCGTACTCCA-TTC-CCCGGCCC
1 GTATCCACGTCGTACACCACTTCTCCCGGCCC
50904067 GTATCCACCGTCGTACACCACTTCTCCCGGC
1 GTATCCA-CGTCGTACACCACTTCTCCCGGC
50904098 TCAAGTTCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 7 0.26
31 11 0.41
32 3 0.11
33 6 0.22
ACGTcount: A:0.15, C:0.46, G:0.16, T:0.23
Consensus pattern (32 bp):
GTATCCACGTCGTACACCACTTCTCCCGGCCC
Found at i:50904387 original size:75 final size:76
Alignment explanation
Indices: 50904279--50904509 Score: 355
Period size: 76 Copynumber: 3.1 Consensus size: 76
50904269 TTTAATATAA
* * * *
50904279 AACTTCATATTTA-GTAATGATTTTTTTCCCATTTATTTAT-AATTTTATGATTTATTTTTTTCG
1 AACTTCATATTTATGTAATGAATTTGTTGCCATTTATTTATCAATTTTATGATTT-TTTTTTTCA
50904342 A-TTAAATAGTC
65 ATTTAAATAGTC
50904353 AACTTCATATTTATGTAATGAATTTGTTGCCATTTTATTTATCAATTTTATGA-TTTTTTTTTCA
1 AACTTCATATTTATGTAATGAATTTGTTGCCA-TTTATTTATCAATTTTATGATTTTTTTTTTCA
50904417 ATTTAAATAGTC
65 ATTTAAATAGTC
*
50904429 AACTTCATATTTATGTAATGAATTTGTTGTCATTTATTTATCAATTTTATG-TTTTTTTTTTACA
1 AACTTCATATTTATGTAATGAATTTGTTGCCATTTATTTATCAATTTTATGATTTTTTTTTT-CA
50904493 ATTTAAATAGTC
65 ATTTAAATAGTC
50904505 AACTT
1 AACTT
50904510 TGTATTTAAA
Statistics
Matches: 146, Mismatches: 5, Indels: 10
0.91 0.03 0.06
Matches are distributed among these distances:
74 13 0.09
75 52 0.36
76 71 0.49
77 10 0.07
ACGTcount: A:0.29, C:0.09, G:0.07, T:0.55
Consensus pattern (76 bp):
AACTTCATATTTATGTAATGAATTTGTTGCCATTTATTTATCAATTTTATGATTTTTTTTTTCAA
TTTAAATAGTC
Found at i:50904544 original size:75 final size:75
Alignment explanation
Indices: 50904313--50904548 Score: 203
Period size: 76 Copynumber: 3.1 Consensus size: 75
50904303 TTTCCCATTT
* ** * *
50904313 ATTTAT-AATTTTATGATTTATTTTTTTCGA-TTAAATAGTCAACTTCATATTTATGTAATGAAT
1 ATTTATCAATTTTATGA-TT-TTTTTTTCAATTTAAATAGTCAACTTCATATTTAAATAATAAAC
* * **
50904376 TTGTTGCCATTTT
64 TTGTAGACA-TAG
** * *
50904389 ATTTATCAATTTTATGATTTTTTTTTCAATTTAAATAGTCAACTTCATATTTATGTAATGAATTT
1 ATTTATCAATTTTATGATTTTTTTTTCAATTTAAATAGTCAACTTCATATTTAAATAATAAACTT
* * **
50904454 GTTGTCATTT
66 GTAGACATAG
* **
50904464 ATTTATCAATTTTATGTTTTTTTTTTACAATTTAAATAGTCAACTTTGTATTTAAATAAATAAAC
1 ATTTATCAATTTTATGATTTTTTTTT-CAATTTAAATAGTCAACTTCATATTTAAAT-AATAAAC
50904529 TT-TAGAC-TAG
64 TTGTAGACATAG
*
50904539 CTTTAT-AATT
1 ATTTATCAATT
50904549 CAAATTAGAT
Statistics
Matches: 142, Mismatches: 14, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
74 4 0.03
75 43 0.30
76 78 0.55
77 17 0.12
ACGTcount: A:0.31, C:0.08, G:0.08, T:0.53
Consensus pattern (75 bp):
ATTTATCAATTTTATGATTTTTTTTTCAATTTAAATAGTCAACTTCATATTTAAATAATAAACTT
GTAGACATAG
Found at i:50918698 original size:21 final size:21
Alignment explanation
Indices: 50918651--50918691 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
50918641 TAACCTGGCC
*
50918651 CTTAACCCATAAACCCTAAAT
1 CTTAAACCATAAACCCTAAAT
* *
50918672 CCTAAACCATTAACCCTAAA
1 CTTAAACCATAAACCCTAAA
50918692 CTTTAAAACC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.44, C:0.34, G:0.00, T:0.22
Consensus pattern (21 bp):
CTTAAACCATAAACCCTAAAT
Found at i:50918751 original size:22 final size:23
Alignment explanation
Indices: 50918700--50918752 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 23
50918690 AACTTTAAAA
*
50918700 CCCTAAA-CTCATAACCCTCAGC
1 CCCTAAACCTCATAACCCTCAAC
50918722 CCCT-AACCTC-TAACCC-CTAAC
1 CCCTAAACCTCATAACCCTC-AAC
50918743 CCCTAAACCT
1 CCCTAAACCT
50918753 TATTTAATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 1 0.04
21 14 0.52
22 12 0.44
ACGTcount: A:0.30, C:0.49, G:0.02, T:0.19
Consensus pattern (23 bp):
CCCTAAACCTCATAACCCTCAAC
Found at i:50919397 original size:41 final size:42
Alignment explanation
Indices: 50919352--50919626 Score: 246
Period size: 41 Copynumber: 6.7 Consensus size: 42
50919342 ATTTGTTTTT
*
50919352 GCGGCGCTT-TACAAAAAATGCCGCTAAAGGTCTGCGCATTA
1 GCGGCGCTTCTACAAAAAACGCCGCTAAAGGTCTGCGCATTA
* * * *
50919393 GCGGCGCTTC-ATAAAAAACGCCGCTACAGGTTTGCACATTA
1 GCGGCGCTTCTACAAAAAACGCCGCTAAAGGTCTGCGCATTA
* * * *
50919434 GCGGCGATTCCTTAC---AAACGCTGCTAAAGGTCAGTGCATTA
1 GCGGCGCTT-C-TACAAAAAACGCCGCTAAAGGTCTGCGCATTA
* * *
50919475 GTGGCGCTTCCT-C-AAAAACACCGCTAAAGGTCTGCGTATTA
1 GCGGCGCTT-CTACAAAAAACGCCGCTAAAGGTCTGCGCATTA
* * * *
50919516 GCGACGCTTCT-TAAAAAACACCGCTAAAGGTTTGCGCATTA
1 GCGGCGCTTCTACAAAAAACGCCGCTAAAGGTCTGCGCATTA
* **
50919557 GCGGCGCTTCTA-GAAAAACGCCGCTAAAGGTCCACGCATTA
1 GCGGCGCTTCTACAAAAAACGCCGCTAAAGGTCTGCGCATTA
* ** *
50919598 GCGACGCTTCT-TGAAAAACGCCACTAAAG
1 GCGGCGCTTCTACAAAAAACGCCGCTAAAG
50919627 ACCCACAAGG
Statistics
Matches: 192, Mismatches: 33, Indels: 18
0.79 0.14 0.07
Matches are distributed among these distances:
39 1 0.01
40 3 0.02
41 186 0.97
42 1 0.01
44 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.23, T:0.22
Consensus pattern (42 bp):
GCGGCGCTTCTACAAAAAACGCCGCTAAAGGTCTGCGCATTA
Found at i:50919596 original size:123 final size:123
Alignment explanation
Indices: 50919372--50919626 Score: 325
Period size: 123 Copynumber: 2.1 Consensus size: 123
50919362 ACAAAAAATG
* * *
50919372 CCGCTAAAGGTCTGCGCATTAGCGGCGCTTCATAAAAAACGCCGCTACAGGTTTGCACATTAGCG
1 CCGCTAAAGGTCTGCGCATTAGCGACGCTTCATAAAAAACACCGCTAAAGGTTTGCACATTAGCG
* * * * * *
50919437 GCGATTCCTTACAAACGCTGCTAAAGGTCAGTGCATTAGTGGCGCTTCCTCAAAAACA
66 GCGATTCCTGAAAAACGCCGCTAAAGGTCAGCGCATTAGCGACGCTTCCTCAAAAACA
* * *
50919495 CCGCTAAAGGTCTGCGTATTAGCGACGCTTCTTAAAAAACACCGCTAAAGGTTTGCGCATTAGCG
1 CCGCTAAAGGTCTGCGCATTAGCGACGCTTCATAAAAAACACCGCTAAAGGTTTGCACATTAGCG
* * * *
50919560 GCGCTT-CTAGAAAAACGCCGCTAAAGGTCCA-CGCATTAGCGACGCTTCTTGAAAAACG
66 GCGATTCCT-GAAAAACGCCGCTAAAGGT-CAGCGCATTAGCGACGCTTCCTCAAAAACA
*
50919618 CCACTAAAG
1 CCGCTAAAG
50919627 ACCCACAAGG
Statistics
Matches: 113, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
122 2 0.02
123 109 0.96
124 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (123 bp):
CCGCTAAAGGTCTGCGCATTAGCGACGCTTCATAAAAAACACCGCTAAAGGTTTGCACATTAGCG
GCGATTCCTGAAAAACGCCGCTAAAGGTCAGCGCATTAGCGACGCTTCCTCAAAAACA
Found at i:50919980 original size:18 final size:18
Alignment explanation
Indices: 50919946--50919994 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
50919936 CCAAAAAATA
*
50919946 TTGAAAATT-ATTTTACT
1 TTGAAAATTAAATTTACT
50919963 TTGAAAATTAAATTTACT
1 TTGAAAATTAAATTTACT
* *
50919981 TAGAAAATAAAATT
1 TTGAAAATTAAATT
50919995 GTTATATTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
17 9 0.32
18 19 0.68
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (18 bp):
TTGAAAATTAAATTTACT
Found at i:50922123 original size:11 final size:11
Alignment explanation
Indices: 50922107--50922132 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
50922097 ATTTTTTTAA
50922107 TTTTAAAATAC
1 TTTTAAAATAC
50922118 TTTTAAAATAC
1 TTTTAAAATAC
50922129 TTTT
1 TTTT
50922133 TTTTAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:50922144 original size:9 final size:9
Alignment explanation
Indices: 50922130--50922173 Score: 56
Period size: 9 Copynumber: 5.0 Consensus size: 9
50922120 TTAAAATACT
50922130 TTTTTTTAA
1 TTTTTTTAA
50922139 TTTTTTTAA
1 TTTTTTTAA
*
50922148 --TTTTAAA
1 TTTTTTTAA
50922155 TTTTTTTAAA
1 TTTTTTT-AA
50922165 TTTTTTTAA
1 TTTTTTTAA
50922174 AAATATTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
7 6 0.20
9 15 0.50
10 9 0.30
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (9 bp):
TTTTTTTAA
Found at i:50922144 original size:10 final size:10
Alignment explanation
Indices: 50922129--50922174 Score: 55
Period size: 10 Copynumber: 5.0 Consensus size: 10
50922119 TTTAAAATAC
*
50922129 TTTTTTTTAA
1 TTTTTTTAAA
50922139 TTTTTTT-AA
1 TTTTTTTAAA
50922148 ---TTTTAAA
1 TTTTTTTAAA
50922155 TTTTTTTAAA
1 TTTTTTTAAA
50922165 TTTTTTTAAA
1 TTTTTTTAAA
50922175 AATATTTTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
6 4 0.12
7 2 0.06
9 2 0.06
10 24 0.75
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (10 bp):
TTTTTTTAAA
Found at i:50922156 original size:16 final size:17
Alignment explanation
Indices: 50922132--50922168 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
50922122 AAAATACTTT
*
50922132 TTTTTAATTTTTTT-AA
1 TTTTAAATTTTTTTAAA
50922148 TTTTAAATTTTTTTAAA
1 TTTTAAATTTTTTTAAA
50922165 TTTT
1 TTTT
50922169 TTTAAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTTAAATTTTTTTAAA
Found at i:50922174 original size:50 final size:52
Alignment explanation
Indices: 50922107--50922245 Score: 144
Period size: 50 Copynumber: 2.7 Consensus size: 52
50922097 ATTTTTTTAA
*
50922107 TTTTAAAATA-CTTTTAAAATACTTTTTTTTAATTTTTTTAATTTT-AAAT-T
1 TTTTAAAATATTTTTTAAAATA-TTTTTTTTAATTTTTTTAATTTTAAAATAT
* *** *
50922157 TTTTTAAAT-TTTTTTAAAAATATTTTTAAAAATATTTTTAATTTTAAAATAT
1 TTTTAAAATATTTTTT-AAAATATTTTTTTTAATTTTTTTAATTTTAAAATAT
**
50922209 TTTTAAAATATTTTTTTTAAT-TTTTATTTTAATTTTT
1 TTTTAAAATATTTTTTAAAATATTTT-TTTTAATTTTT
50922246 AAAATAAATT
Statistics
Matches: 70, Mismatches: 13, Indels: 10
0.75 0.14 0.11
Matches are distributed among these distances:
50 31 0.44
51 14 0.20
52 19 0.27
53 6 0.09
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.63
Consensus pattern (52 bp):
TTTTAAAATATTTTTTAAAATATTTTTTTTAATTTTTTTAATTTTAAAATAT
Found at i:50922187 original size:11 final size:11
Alignment explanation
Indices: 50922148--50922223 Score: 67
Period size: 12 Copynumber: 7.4 Consensus size: 11
50922138 ATTTTTTTAA
50922148 TTTT-AAAT-T
1 TTTTAAAATAT
* *
50922157 TTTTTAAATTT
1 TTTTAAAATAT
50922168 TTTTAAAAATAT
1 TTTT-AAAATAT
50922180 TTTTAAAAATAT
1 TTTT-AAAATAT
50922192 TTTT---A-A-
1 TTTTAAAATAT
50922198 TTTTAAAATAT
1 TTTTAAAATAT
50922209 TTTTAAAATAT
1 TTTTAAAATAT
50922220 TTTT
1 TTTT
50922224 TTTAATTTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 14
0.78 0.03 0.19
Matches are distributed among these distances:
6 4 0.07
7 1 0.02
8 1 0.02
9 5 0.09
10 5 0.09
11 20 0.35
12 21 0.37
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:50922207 original size:17 final size:18
Alignment explanation
Indices: 50922180--50922214 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
50922170 TTAAAAATAT
50922180 TTTTAAAAATATTTTTAA
1 TTTTAAAAATATTTTTAA
50922198 TTTT-AAAATATTTTTAA
1 TTTTAAAAATATTTTTAA
50922215 AATATTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TTTTAAAAATATTTTTAA
Found at i:50924272 original size:21 final size:20
Alignment explanation
Indices: 50924235--50924273 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
50924225 TAATACAAAT
* *
50924235 AGATAATTTTTTTTTTAAAA
1 AGATAATTTATTATTTAAAA
50924255 AGATAAATTTATTATTTAA
1 AGAT-AATTTATTATTTAA
50924274 TTTACTGTAC
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:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (20 bp):
AGATAATTTATTATTTAAAA
Found at i:50927194 original size:297 final size:293
Alignment explanation
Indices: 50926631--50927195 Score: 631
Period size: 297 Copynumber: 1.9 Consensus size: 293
50926621 CATTACTAAT
* * *
50926631 ATATACAATCGATGAAGGTAATAAGTTGTTGTATTAAAATAAAAATATATAAAACACATTAAAAT
1 ATATACAATCAATGAAGGTAATAAATTGTTATATTAAAATAAAAATATATAAAACACATTAAAAT
* * * ** *
50926696 GAATCTGATTGAGCGATAAATTTAATATTTTACCAATTAAATTGGTGTGGGTTCAAATTCCCCCA
66 AAATCTGATTGAGAGATAAATTTAAAATTTTACCAATTAAATTGGCATAGGTTCAAATTCCCCCA
* * * * **
50926761 TTTGTATATTTTTATTGTTTTTTAATTAAAAAGATTAAAATACCCTCGAAAAATATAACTTATTT
131 TTTGCACAGTTTTATTGTTTTTTAATTAAAAAGATTAAAATACCATCGAAAAATATAACTTAAAT
* * * *** *
50926826 TAAATACAGAATGTTATTTTTGTAATTTACCTAACTGAGTTGGGGCTTGGTTGACTAGTGATACC
196 TAAATACAGAATGTTATTTTAGTAATTTACCTAACGGAATTGGGGCTCAATTGACTAGTGACACC
50926891 AACTCAGTTAGGGGTTTATTAATAGTAATATAG
261 AACTCAGTTAGGGGTTTATTAATAGTAATATAG
* **
50926924 ATATACAATCAATGAAGGTAATAAATT-TTACATATTAAAATAAAAATATATAAAATATGTTAAA
1 ATATACAATCAATGAAGGTAATAAATTGTT--ATATTAAAATAAAAATATATAAAACACATTAAA
* * *
50926988 ATAAAGTTTTAGTTGA-ATAGTAAATTTAAAATTTTACCAATCT-AATTGGCATAGGTTCAAA-T
64 ATAAA-TCTGA-TTGAGAGA-TAAATTTAAAATTTTACCAAT-TAAATTGGCATAGGTTCAAATT
* * * * *
50927050 CCGTGCCATTTGCACAGTTTTATTGTTTTTTTAATTAAAAATATTAAAGTACCATTGAATAATAT
125 CC--CCCATTTGCACAGTTTTATTG-TTTTTTAATTAAAAAGATTAAAATACCATCGAAAAATAT
* ** *
50927115 AACTTAAATTAAATA-GGAA-GATTATTTTAGTAATTTTTCTAACGGAATTGGTG-TCCAATTGA
187 AACTTAAATTAAATACAGAATG-TTATTTTAGTAATTTACCTAACGGAATTGGGGCT-CAATTGA
* *
50927177 CTTGTGACACTAACTCAGT
250 CTAGTGACACCAACTCAGT
50927196 CAAAGTTTTT
Statistics
Matches: 222, Mismatches: 39, Indels: 18
0.80 0.14 0.06
Matches are distributed among these distances:
292 2 0.01
293 25 0.11
294 33 0.15
295 7 0.03
296 41 0.18
297 67 0.30
298 47 0.21
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.38
Consensus pattern (293 bp):
ATATACAATCAATGAAGGTAATAAATTGTTATATTAAAATAAAAATATATAAAACACATTAAAAT
AAATCTGATTGAGAGATAAATTTAAAATTTTACCAATTAAATTGGCATAGGTTCAAATTCCCCCA
TTTGCACAGTTTTATTGTTTTTTAATTAAAAAGATTAAAATACCATCGAAAAATATAACTTAAAT
TAAATACAGAATGTTATTTTAGTAATTTACCTAACGGAATTGGGGCTCAATTGACTAGTGACACC
AACTCAGTTAGGGGTTTATTAATAGTAATATAG
Found at i:50928052 original size:21 final size:21
Alignment explanation
Indices: 50927990--50928054 Score: 73
Period size: 21 Copynumber: 3.1 Consensus size: 21
50927980 CCTGAGGTTC
*
50927990 AAGGTTTG-GGTTTAGAATTT
1 AAGGTTTGAGGTTTAGGATTT
*
50928010 AAGGTTTTGA-GTTCGAGG-TTT
1 AAGG-TTTGAGGTT-TAGGATTT
50928031 AAGGTTTGAGGTTTAGGATTT
1 AAGGTTTGAGGTTTAGGATTT
50928052 AAG
1 AAG
50928055 AATTTGGGGA
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
20 12 0.32
21 23 0.62
22 2 0.05
ACGTcount: A:0.25, C:0.02, G:0.32, T:0.42
Consensus pattern (21 bp):
AAGGTTTGAGGTTTAGGATTT
Found at i:50929206 original size:30 final size:30
Alignment explanation
Indices: 50929165--50929223 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
50929155 GGGGTTATAC
* * *
50929165 GGCCATGTGGCCATTCTGTGTTACTCACAT
1 GGCCATGTGGCCATGCCGTGTGACTCACAT
*
50929195 GGCCGTGTGGCCATGCCGTGTGACTCACA
1 GGCCATGTGGCCATGCCGTGTGACTCACA
50929224 CTACCAAGAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.15, C:0.29, G:0.29, T:0.27
Consensus pattern (30 bp):
GGCCATGTGGCCATGCCGTGTGACTCACAT
Found at i:50932743 original size:17 final size:17
Alignment explanation
Indices: 50932717--50932757 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
50932707 ATTAGAATGT
*
50932717 AAAAATTAAACTAAAAAC
1 AAAAATAAAAC-AAAAAC
*
50932735 AAAAATAAAACAAAAAT
1 AAAAATAAAACAAAAAC
50932752 AAAAAT
1 AAAAAT
50932758 GGCTAAATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.78, C:0.07, G:0.00, T:0.15
Consensus pattern (17 bp):
AAAAATAAAACAAAAAC
Found at i:50932744 original size:11 final size:11
Alignment explanation
Indices: 50932730--50932755 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
50932720 AATTAAACTA
50932730 AAAACAAAAAT
1 AAAACAAAAAT
50932741 AAAACAAAAAT
1 AAAACAAAAAT
50932752 AAAA
1 AAAA
50932756 ATGGCTAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.85, C:0.08, G:0.00, T:0.08
Consensus pattern (11 bp):
AAAACAAAAAT
Found at i:50936273 original size:151 final size:152
Alignment explanation
Indices: 50936093--50936451 Score: 469
Period size: 151 Copynumber: 2.3 Consensus size: 152
50936083 ACTTTCTTTT
* * * *
50936093 AAACAAATTTTTATTTTTCAAAATGTAAACTTTT-TTATTTTATTAAAAAAACACTGTTTTTCTT
1 AAACAGATTTTTATTATTCAAAATCTAAACTTTTCTT-TTTT-TTAAAAAAA-ACTATTTTTCTT
* * *
50936157 AAAGATTAAAGCTTTTATTTTGAAGTAGTT-AAAAAAAATCAAAAC--TGTTTTTTAGAAATTTA
63 AAAGATTAAAGCTTTTACTTTGAAATAGTTGAAAAAAAATCAAAACGTTG-TTTTTAAAAATTTA
*
50936219 AAATTTCCTTTAAAATAACTA-AAAA
127 AAATTTCCTTTAAAATAAATATAAAA
* *
50936244 AAATAGATTTTTATTATTCAAAATCTAAACTTTATCTTTTTTTTAAAAAAAATTATTTTTCTTAA
1 AAACAGATTTTTATTATTCAAAATCTAAACTTT-TCTTTTTTTTAAAAAAAACTATTTTTCTTAA
50936309 AGATTAAAGCTTTTACTTTGAAATAGTTGAAAAAAAATCAAAACGTTGTTTTTAAAAATTTAAAA
65 AGATTAAAGCTTTTACTTTGAAATAGTTGAAAAAAAATCAAAACGTTGTTTTTAAAAATTTAAAA
*
50936374 TTTCTTTTAAAATAAATATTAAAA
130 TTTCCTTTAAAATAAATA-TAAAA
* * *
50936398 AAACATATTTTTATTTCTTCAAAATCTAAA-TTTTCTCCTTTTTGTAAAAAAAAC
1 AAACAGATTTTTA-TTATTCAAAATCTAAACTTTTCT--TTTTTTTAAAAAAAAC
50936452 ACTATTTTCC
Statistics
Matches: 182, Mismatches: 16, Indels: 16
0.85 0.07 0.07
Matches are distributed among these distances:
150 38 0.21
151 53 0.29
152 37 0.20
153 7 0.04
154 18 0.10
155 29 0.16
ACGTcount: A:0.43, C:0.08, G:0.05, T:0.43
Consensus pattern (152 bp):
AAACAGATTTTTATTATTCAAAATCTAAACTTTTCTTTTTTTTAAAAAAAACTATTTTTCTTAAA
GATTAAAGCTTTTACTTTGAAATAGTTGAAAAAAAATCAAAACGTTGTTTTTAAAAATTTAAAAT
TTCCTTTAAAATAAATATAAAA
Found at i:50937253 original size:39 final size:39
Alignment explanation
Indices: 50937194--50937272 Score: 131
Period size: 39 Copynumber: 2.0 Consensus size: 39
50937184 TGAAAAGTAG
*
50937194 ACTAGAAAAGTAAACGGACCTCCACACCTAGGCCTCTAA
1 ACTAGAAAAGTAAACAGACCTCCACACCTAGGCCTCTAA
* *
50937233 ACTAGAAAAGTAAACAGACCTCCACACCTGGGTCTCTAA
1 ACTAGAAAAGTAAACAGACCTCCACACCTAGGCCTCTAA
50937272 A
1 A
50937273 TGCAATCAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.39, C:0.29, G:0.15, T:0.16
Consensus pattern (39 bp):
ACTAGAAAAGTAAACAGACCTCCACACCTAGGCCTCTAA
Found at i:50937297 original size:42 final size:42
Alignment explanation
Indices: 50937198--50937573 Score: 492
Period size: 42 Copynumber: 9.1 Consensus size: 42
50937188 AAGTAGACTA
* * * * *
50937198 GAAAAGTAAACGGACCTCCACACCTAGGCCTCTAAA--CTA-
1 GAAAAGTGAATGGACCTCCACACCTGGGTCTCTAAATGCAAT
* **
50937237 GAAAAGTAAACAGACCTCCACACCTGGGTCTCTAAATGCAAT
1 GAAAAGTGAATGGACCTCCACACCTGGGTCTCTAAATGCAAT
* *
50937279 CAAAAGTGAATGGACCTCCACACCTTGGTCTCTAAATGCAAT
1 GAAAAGTGAATGGACCTCCACACCTGGGTCTCTAAATGCAAT
* *
50937321 GAAAAGTGAATGAACCTCCACACCTAGGTCTCTAAATGCAAT
1 GAAAAGTGAATGGACCTCCACACCTGGGTCTCTAAATGCAAT
* *
50937363 GAAAAGTGAAT-AACCTCCACACCTGGGTCTCTAGATGCAAT
1 GAAAAGTGAATGGACCTCCACACCTGGGTCTCTAAATGCAAT
* * *
50937404 GAAAAGTGAATGGACCTTCACACCTGGGTCTTTAAATGTAAT
1 GAAAAGTGAATGGACCTCCACACCTGGGTCTCTAAATGCAAT
*
50937446 GAAAAGTGAATGGACCTCCACACCTGGGTCTCTAGATGCAAT
1 GAAAAGTGAATGGACCTCCACACCTGGGTCTCTAAATGCAAT
* ** * *
50937488 GAAAAGTGAATCGACCTCTGCACCTAGGTCTTTAAATGCAAT
1 GAAAAGTGAATGGACCTCCACACCTGGGTCTCTAAATGCAAT
* *
50937530 GAAAAGTGAAT-AACCTCCACACCTGGGTCTCTAGATGCAAT
1 GAAAAGTGAATGGACCTCCACACCTGGGTCTCTAAATGCAAT
50937571 GAA
1 GAA
50937574 CGTTTTCCTT
Statistics
Matches: 298, Mismatches: 35, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
39 33 0.11
41 68 0.23
42 197 0.66
ACGTcount: A:0.35, C:0.24, G:0.19, T:0.22
Consensus pattern (42 bp):
GAAAAGTGAATGGACCTCCACACCTGGGTCTCTAAATGCAAT
Found at i:50937418 original size:125 final size:125
Alignment explanation
Indices: 50937211--50937573 Score: 500
Period size: 125 Copynumber: 2.9 Consensus size: 125
50937201 AAGTAAACGG
* * * *
50937211 ACCTCCACACCTAGGCCTCTAAA--CTA-GAAAAGTAAACAGACCTCCACACCTGGGTCTCTAAA
1 ACCTCCACACCTAGGTCTCTAAATGCAATGAAAAGTGAATA-ACCTCCACACCTGGGTCTCTAAA
* *
50937273 TGCAATCAAAAGTGAATGGACCTCCACACCTTGGTCTCTAAATGCAATGAAAAGTGAATGA
65 TGCAATGAAAAGTGAATGGACCTCCACACCTGGGTCTCTAAATGCAATGAAAAGTGAATGA
*
50937334 ACCTCCACACCTAGGTCTCTAAATGCAATGAAAAGTGAATAACCTCCACACCTGGGTCTCTAGAT
1 ACCTCCACACCTAGGTCTCTAAATGCAATGAAAAGTGAATAACCTCCACACCTGGGTCTCTAAAT
* * * *
50937399 GCAATGAAAAGTGAATGGACCTTCACACCTGGGTCTTTAAATGTAATGAAAAGTGAATGG
66 GCAATGAAAAGTGAATGGACCTCCACACCTGGGTCTCTAAATGCAATGAAAAGTGAATGA
* * * ** * *
50937459 ACCTCCACACCTGGGTCTCTAGATGCAATGAAAAGTGAATCGACCTCTGCACCTAGGTCTTTAAA
1 ACCTCCACACCTAGGTCTCTAAATGCAATGAAAAGTGAAT-AACCTCCACACCTGGGTCTCTAAA
* *
50937524 TGCAATGAAAAGTGAAT-AACCTCCACACCTGGGTCTCTAGATGCAATGAA
65 TGCAATGAAAAGTGAATGGACCTCCACACCTGGGTCTCTAAATGCAATGAA
50937574 CGTTTTCCTT
Statistics
Matches: 212, Mismatches: 24, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
123 22 0.10
125 145 0.68
126 45 0.21
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (125 bp):
ACCTCCACACCTAGGTCTCTAAATGCAATGAAAAGTGAATAACCTCCACACCTGGGTCTCTAAAT
GCAATGAAAAGTGAATGGACCTCCACACCTGGGTCTCTAAATGCAATGAAAAGTGAATGA
Found at i:50937428 original size:167 final size:167
Alignment explanation
Indices: 50937249--50937573 Score: 553
Period size: 167 Copynumber: 1.9 Consensus size: 167
50937239 AAAGTAAACA
*
50937249 GACCTCCACACCTGGGTCTCTAAATGCAATCAAAAGTGAATGGACCTCCACACCTTGGTCTCTAA
1 GACCTCCACACCTGGGTCTCTAAATGCAATCAAAAGTGAATGGACCTCCACACCTGGGTCTCTAA
50937314 ATGCAATGAAAAGTGAAT-GAACCTCCACACCTAGGTCTCTAAATGCAATGAAAAGTGAATAACC
66 ATGCAATGAAAAGTGAATCG-ACCTCCACACCTAGGTCTCTAAATGCAATGAAAAGTGAATAACC
50937378 TCCACACCTGGGTCTCTAGATGCAATGAAAAGTGAATG
130 TCCACACCTGGGTCTCTAGATGCAATGAAAAGTGAATG
* * * * *
50937416 GACCTTCACACCTGGGTCTTTAAATGTAATGAAAAGTGAATGGACCTCCACACCTGGGTCTCTAG
1 GACCTCCACACCTGGGTCTCTAAATGCAATCAAAAGTGAATGGACCTCCACACCTGGGTCTCTAA
** *
50937481 ATGCAATGAAAAGTGAATCGACCTCTGCACCTAGGTCTTTAAATGCAATGAAAAGTGAATAACCT
66 ATGCAATGAAAAGTGAATCGACCTCCACACCTAGGTCTCTAAATGCAATGAAAAGTGAATAACCT
50937546 CCACACCTGGGTCTCTAGATGCAATGAA
131 CCACACCTGGGTCTCTAGATGCAATGAA
50937574 CGTTTTCCTT
Statistics
Matches: 148, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
167 147 0.99
168 1 0.01
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (167 bp):
GACCTCCACACCTGGGTCTCTAAATGCAATCAAAAGTGAATGGACCTCCACACCTGGGTCTCTAA
ATGCAATGAAAAGTGAATCGACCTCCACACCTAGGTCTCTAAATGCAATGAAAAGTGAATAACCT
CCACACCTGGGTCTCTAGATGCAATGAAAAGTGAATG
Found at i:50937999 original size:8 final size:8
Alignment explanation
Indices: 50937988--50938020 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
50937978 ATTTTTTTGG
50937988 TTTCTTTT
1 TTTCTTTT
50937996 TTTCTTTT
1 TTTCTTTT
*
50938004 TCT-TTTT
1 TTTCTTTT
50938011 TTTCTTTT
1 TTTCTTTT
50938019 TT
1 TT
50938021 CTTGATTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
7 6 0.27
8 16 0.73
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTCTTTT
Found at i:50938018 original size:14 final size:14
Alignment explanation
Indices: 50937988--50938019 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
50937978 ATTTTTTTGG
50937988 TTTCTTTTTTTCTT
1 TTTCTTTTTTTCTT
50938002 TTTCTTTTTTTTCTT
1 TTTC-TTTTTTTCTT
50938017 TTT
1 TTT
50938020 TCTTGATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (14 bp):
TTTCTTTTTTTCTT
Done.