Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr5
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: 43060996
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2186021 characters in sequence are not A, C, G, or T
File 2 of 128
Found at i:492375 original size:44 final size:44
Alignment explanation
Indices: 492346--492566 Score: 137
Period size: 44 Copynumber: 4.8 Consensus size: 44
492336 CCTTTATTTT
*
492346 AATCTGCTCCACTGTAATCAT-AGGGAGATAGGATTACTAGCTTC
1 AATCTGCTCCACTGTAATC-TCAGGGAGATAAGATTACTAGCTTC
* * * *
492390 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGTTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTC
* * * * * *
492434 AATCTGATGTGATCTACTCTACTGTAA-CTTTAGAGAGATAATATCCT-TTA-TTTT
1 AATC-----TG--CT-C-C-ACTGTAATC-TCAGGGAGATAAGAT--TACTAGCTTC
* *
492488 AATCCGCTCCACTGTAATATCAGGGAGAT-AGAATTACTAGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAG-ATTACTAGCTTC
**
492532 AATCTGCTCTGCTGTAATCTCAGGGAGATAAGATT
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATT
492567 TCTGGTTTCA
Statistics
Matches: 134, Mismatches: 24, Indels: 38
0.68 0.12 0.19
Matches are distributed among these distances:
42 1 0.01
43 4 0.03
44 88 0.66
45 3 0.02
46 1 0.01
47 2 0.01
49 3 0.02
51 2 0.01
52 1 0.01
53 2 0.01
54 25 0.19
55 1 0.01
56 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (44 bp):
AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTC
Found at i:492470 original size:142 final size:143
Alignment explanation
Indices: 492248--492681 Score: 748
Period size: 142 Copynumber: 3.1 Consensus size: 143
492238 CATTTATCTT
* * * *
492248 AATCCGCTCCACTGTAATCTCAGGGAAATAAGATTTCTAGTTTCAATCTGATGCGATCTACTCTA
1 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGTTTCAATCTGATGCGATCTACTCTA
* * *
492313 CTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCTGCTCCACTGTAATCAT-AGGGAGATAG
66 CTGTAACTTTAGAGAGATAATATCCTTTATTTTAATCCGCTCCACTGTAATCATCAGGGAGATAG
492377 GATTACTAGCTTC
131 GATTACTAGCTTC
*
492390 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGTTTCAATCTGATGTGATCTACTCTA
1 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGTTTCAATCTGATGCGATCTACTCTA
492455 CTGTAACTTTAGAGAGATAATATCCTTTATTTTAATCCGCTCCACTGTAAT-ATCAGGGAGATAG
66 CTGTAACTTTAGAGAGATAATATCCTTTATTTTAATCCGCTCCACTGTAATCATCAGGGAGATAG
*
492519 AATTACTAGCTTC
131 GATTACTAGCTTC
* *
492532 AATCTGCTCTGCTGTAATCTCAGGGAGATAAGATTTCTGGTTTCAATTTGATGCGATCTACTCTA
1 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGTTTCAATCTGATGCGATCTACTCTA
492597 CTGTAACTTTAGAGAGATAATATCCTTTATTTTAATCCGCTCCACTGTAATC-TCAGGGAGATAG
66 CTGTAACTTTAGAGAGATAATATCCTTTATTTTAATCCGCTCCACTGTAATCATCAGGGAGATAG
492661 GATTACTAGCTTC
131 GATTACTAGCTTC
492674 AATCTGCT
1 AATCTGCT
492682 TCCTTACACT
Statistics
Matches: 277, Mismatches: 13, Indels: 4
0.94 0.04 0.01
Matches are distributed among these distances:
141 2 0.01
142 275 0.99
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.35
Consensus pattern (143 bp):
AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGTTTCAATCTGATGCGATCTACTCTA
CTGTAACTTTAGAGAGATAATATCCTTTATTTTAATCCGCTCCACTGTAATCATCAGGGAGATAG
GATTACTAGCTTC
Found at i:505447 original size:23 final size:24
Alignment explanation
Indices: 505396--505448 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 24
505386 ATAATAATTT
*
505396 ATTACATTTTAAACTATCATAATA
1 ATTAAATTTTAAACTATCATAATA
*
505420 A-TAAATTTTAAAC-ATTATTAA-A
1 ATTAAATTTTAAACTATCA-TAATA
505442 ATTAAAT
1 ATTAAAT
505449 GCTATAAGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
22 5 0.20
23 19 0.76
24 1 0.04
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.42
Consensus pattern (24 bp):
ATTAAATTTTAAACTATCATAATA
Found at i:506961 original size:18 final size:18
Alignment explanation
Indices: 506940--506980 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
506930 ATTTGGCTTA
506940 TTATGAAAATTATGTAAG
1 TTATGAAAATTATGTAAG
506958 TTATGAAAATTATGTAAG
1 TTATGAAAATTATGTAAG
506976 TTATG
1 TTATG
506981 TAAGTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.41, C:0.00, G:0.17, T:0.41
Consensus pattern (18 bp):
TTATGAAAATTATGTAAG
Found at i:506979 original size:9 final size:9
Alignment explanation
Indices: 506949--507191 Score: 95
Period size: 9 Copynumber: 28.0 Consensus size: 9
506939 ATTATGAAAA
506949 TTATGTAAG
1 TTATGTAAG
* *
506958 TTATGAAAA
1 TTATGTAAG
506967 TTATGTAAG
1 TTATGTAAG
506976 TTATGTAAG
1 TTATGTAAG
* *
506985 TT-TTTTA-
1 TTATGTAAG
* *
506992 TTATGAAAA
1 TTATGTAAG
* *
507001 TTAAGTAAC
1 TTATGTAAG
507010 TTATGT-A-
1 TTATGTAAG
* *
507017 TTATGAAAA
1 TTATGTAAG
507026 TTATGTAAG
1 TTATGTAAG
*
507035 TTCA-AT-A-
1 TT-ATGTAAG
507042 TTATGTAAG
1 TTATGTAAG
507051 TTATGT-A-
1 TTATGTAAG
* * *
507058 CTATGAAAA
1 TTATGTAAG
507067 TTATGTAAG
1 TTATGTAAG
507076 TTATGTATA-
1 TTATGTA-AG
* *
507085 TTGTGT-AT
1 TTATGTAAG
507093 TATATGTAAG
1 T-TATGTAAG
*
507103 TTATGTATGTG
1 TTATGTA--AG
*
507114 TATAATGAAAG
1 T-T-ATGTAAG
507125 TTATGTAAG
1 TTATGTAAG
*
507134 TTGTGT-A-
1 TTATGTAAG
*
507141 TAATGTAAG
1 TTATGTAAG
507150 TTATGTAAG
1 TTATGTAAG
*
507159 TTAAGT-A-
1 TTATGTAAG
*
507166 TAAT-TAAG
1 TTATGTAAG
*
507174 CTATGTAAG
1 TTATGTAAG
*
507183 TTATATAAG
1 TTATGTAAG
507192 ATGTGATAGT
Statistics
Matches: 170, Mismatches: 41, Indels: 46
0.66 0.16 0.18
Matches are distributed among these distances:
6 2 0.01
7 22 0.13
8 17 0.10
9 115 0.68
10 5 0.03
11 4 0.02
12 1 0.01
13 4 0.02
ACGTcount: A:0.37, C:0.02, G:0.17, T:0.44
Consensus pattern (9 bp):
TTATGTAAG
Found at i:507055 original size:41 final size:41
Alignment explanation
Indices: 507000--507077 Score: 129
Period size: 41 Copynumber: 1.9 Consensus size: 41
506990 TATTATGAAA
*
507000 ATTAAGTAACTTATGTATTATGAAAATTATGTAAGTTCAAT
1 ATTAAGTAACTTATGTACTATGAAAATTATGTAAGTTCAAT
* *
507041 ATTATGTAAGTTATGTACTATGAAAATTATGTAAGTT
1 ATTAAGTAACTTATGTACTATGAAAATTATGTAAGTT
507078 ATGTATATTG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.40, C:0.04, G:0.14, T:0.42
Consensus pattern (41 bp):
ATTAAGTAACTTATGTACTATGAAAATTATGTAAGTTCAAT
Found at i:507094 original size:25 final size:25
Alignment explanation
Indices: 506938--507184 Score: 155
Period size: 25 Copynumber: 9.9 Consensus size: 25
506928 AAATTTGGCT
* * *
506938 TATTATGAAAATTATGTAAGTTATG
1 TATTATGTAAGTTATGTAAGTTGTG
* * *
506963 AAAATTATGTAAGTTATGTAAGTTTTT
1 --TATTATGTAAGTTATGTAAGTTGTG
* * * * *
506990 TATTATGAAAATTAAGTAACTTATG
1 TATTATGTAAGTTATGTAAGTTGTG
* * ***
507015 TATTATGAAAATTATGTAAGTTCAA
1 TATTATGTAAGTTATGTAAGTTGTG
* **
507040 TATTATGTAAGTTATGT-ACTATGAA
1 TATTATGTAAGTTATGTAAGT-TGTG
*
507065 AATTATGTAAGTTATGTATA-TTGTG
1 TATTATGTAAGTTATGTA-AGTTGTG
507090 TATTATATGTAAGTTATGT-A--TGTG
1 TA-T-TATGTAAGTTATGTAAGTTGTG
* *
507114 TATAATGAAAGTTATGTAAGTTGTG
1 TATTATGTAAGTTATGTAAGTTGTG
* **
507139 TATAATGTAAGTTATGTAAGTTAAG
1 TATTATGTAAGTTATGTAAGTTGTG
* *
507164 TATAAT-TAAGCTATGTAAGTT
1 TATTATGTAAGTTATGTAAGTT
507185 ATATAAGATG
Statistics
Matches: 181, Mismatches: 31, Indels: 19
0.78 0.13 0.08
Matches are distributed among these distances:
22 12 0.07
23 2 0.01
24 22 0.12
25 108 0.60
26 2 0.01
27 35 0.19
ACGTcount: A:0.38, C:0.02, G:0.17, T:0.44
Consensus pattern (25 bp):
TATTATGTAAGTTATGTAAGTTGTG
Found at i:507190 original size:47 final size:47
Alignment explanation
Indices: 507088--507189 Score: 109
Period size: 47 Copynumber: 2.1 Consensus size: 47
507078 ATGTATATTG
* *
507088 TGTAT-TATATGTAAGTTATGTATGTGTATAATGAAAGTTATGTAAGT
1 TGTATATA-ATGTAAGTTATGTAAGTGTATAATGAAAGCTATGTAAGT
* *
507135 TGTGTATAATGTAAGTTATGTAAGTTAAGTATAAT-TAAGCTATGTAAGT
1 TGTATATAATGTAAGTTATGTAAG-T--GTATAATGAAAGCTATGTAAGT
*
507184 TATATA
1 TGTATA
507190 AGATGTGATA
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
47 19 0.42
48 3 0.07
49 16 0.36
50 7 0.16
ACGTcount: A:0.36, C:0.01, G:0.20, T:0.43
Consensus pattern (47 bp):
TGTATATAATGTAAGTTATGTAAGTGTATAATGAAAGCTATGTAAGT
Found at i:507871 original size:21 final size:20
Alignment explanation
Indices: 507847--507919 Score: 56
Period size: 21 Copynumber: 3.4 Consensus size: 20
507837 AGATGTTTAT
507847 ATAAATACGCTGAAAATATAA
1 ATAAATACGCT-AAAATATAA
*** *
507868 ATAAATAATATAATATCAATAA
1 ATAAATACGCTAAAAT--ATAA
507890 TATTAAATACGCTAAAAATATAA
1 -A-TAAATACGCT-AAAATATAA
507913 ATAAATA
1 ATAAATA
507920 GTCACAAAAC
Statistics
Matches: 39, Mismatches: 8, Indels: 10
0.68 0.14 0.18
Matches are distributed among these distances:
20 4 0.10
21 14 0.36
22 5 0.13
23 5 0.13
24 7 0.18
25 4 0.10
ACGTcount: A:0.60, C:0.07, G:0.04, T:0.29
Consensus pattern (20 bp):
ATAAATACGCTAAAATATAA
Found at i:508332 original size:19 final size:19
Alignment explanation
Indices: 508308--508344 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
508298 CAGAATCTCA
508308 TATGCTTAACATTCAAAAC
1 TATGCTTAACATTCAAAAC
508327 TATGCTTAACATTCAAAA
1 TATGCTTAACATTCAAAA
508345 TGTTTAACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.43, C:0.19, G:0.05, T:0.32
Consensus pattern (19 bp):
TATGCTTAACATTCAAAAC
Found at i:508676 original size:13 final size:14
Alignment explanation
Indices: 508660--508693 Score: 52
Period size: 13 Copynumber: 2.4 Consensus size: 14
508650 AATAAATATA
508660 TATTTTTT-ATTTT
1 TATTTTTTAATTTT
508673 TATTTTTTAATTTT
1 TATTTTTTAATTTT
508687 TAATTTT
1 T-ATTTT
508694 AAAATACTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 8 0.42
14 6 0.32
15 5 0.26
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (14 bp):
TATTTTTTAATTTT
Found at i:509289 original size:13 final size:14
Alignment explanation
Indices: 509271--509304 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
509261 ATAATAAATA
509271 TATTTTTT-ATTTT
1 TATTTTTTAATTTT
509284 TATTTTTTAATTTT
1 TATTTTTTAATTTT
*
509298 TAATTTT
1 TATTTTT
509305 AAAATACTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 8 0.42
14 11 0.58
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (14 bp):
TATTTTTTAATTTT
Found at i:509296 original size:14 final size:13
Alignment explanation
Indices: 509271--509304 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
509261 ATAATAAATA
509271 TATTTTTTATTTT
1 TATTTTTTATTTT
509284 TATTTTTTAATTTT
1 TATTTTTT-ATTTT
509298 TAATTTT
1 T-ATTTT
509305 AAAATACTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 8 0.42
14 6 0.32
15 5 0.26
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (13 bp):
TATTTTTTATTTT
Found at i:511272 original size:14 final size:14
Alignment explanation
Indices: 511253--511288 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
511243 ACTAAAGTGG
511253 CCTAAACCCCAAAC
1 CCTAAACCCCAAAC
511267 CCTAAACCCCAAAC
1 CCTAAACCCCAAAC
*
511281 ACTAAACC
1 CCTAAACC
511289 TACATCATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.44, C:0.47, G:0.00, T:0.08
Consensus pattern (14 bp):
CCTAAACCCCAAAC
Found at i:512028 original size:114 final size:114
Alignment explanation
Indices: 511846--512591 Score: 1174
Period size: 114 Copynumber: 6.5 Consensus size: 114
511836 CTTTTTCATA
511846 ACTAATTCTAATATACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCG-TTTTG
1 ACTAATTCTAATATACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTT-
* *
511910 TATAATGCGCCGCTAATACTGTGCTTTAGCGGCGTTTTTCCATAAGCGCC
65 TACAATGCGCCGCTAATACTGTGCTTTAGCGGCGTTTTTGCATAAGCGCC
* *
511960 ACTAATTCTAATATACCTTAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGTGGCGCTTTTT
1 ACTAATTCTAATATACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTT
* * *
512025 ATAATGCGCCGCTAATACTGTGCTTTAGCAGCGTTTTTGCATAATCGCC
66 ACAATGCGCCGCTAATACTGTGCTTTAGCGGCGTTTTTGCATAAGCGCC
* * *
512074 ACTAATTCTAATATACCTTAAGACCAAACGCTGAGTTTTGGTTAAGATATTTTGCGGCGTTTTTT
1 ACTAATTCTAATATACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTT
* *
512139 ACAATGCGCCGCTAATACTGTGCTTTAGCGGCGTTTTTCCATAAACGCC
66 ACAATGCGCCGCTAATACTGTGCTTTAGCGGCGTTTTTGCATAAGCGCC
* * *
512188 ACTAATTCTAATATACCTCAAGACCAAACGCTTCGTTTTGGTTAAGATATTTTACGGCGCCTTTT
1 ACTAATTCTAATATACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTT
*
512253 ATAATGCGCCGCTAATACTGTGCTTTAGCGGCGTTTTTGCATAAGCGCC
66 ACAATGCGCCGCTAATACTGTGCTTTAGCGGCGTTTTTGCATAAGCGCC
* * *
512302 ACTAATTCTAATATACCTCAAAACCAAACGCTGTGTTTTGGTTAAGATATTTTGCGGCGTTTTTT
1 ACTAATTCTAATATACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTT
*
512367 ACAATGCGCCGCTAATAATGTGCTTTAGCGGCGTTTTTGCATAAGCGCC
66 ACAATGCGCCGCTAATACTGTGCTTTAGCGGCGTTTTTGCATAAGCGCC
* * *
512416 ACTAATTCTAATATACCTCAAAACCAAACGCTGTGTTTTGGTTAAGATATTTTGCGGCGTTTTTT
1 ACTAATTCTAATATACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTT
* * *
512481 ACAATGCGCCGCTAAAGCACAGT--ATTAGCGGCGTTTTTGCATAAGCGCC
66 ACAATGCGCCGCT-AA-TACTGTGCTTTAGCGGCGTTTTTGCATAAGCGCC
* * * *
512530 ACTAATTCTAATATACCTCAAGACCTAACGTTGCGTTTTGGTTAAGATGTTTTGTGGCGCTT
1 ACTAATTCTAATATACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTT
512592 GCAAATAAAC
Statistics
Matches: 589, Mismatches: 40, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
114 580 0.98
115 6 0.01
116 3 0.01
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (114 bp):
ACTAATTCTAATATACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTT
ACAATGCGCCGCTAATACTGTGCTTTAGCGGCGTTTTTGCATAAGCGCC
Found at i:512760 original size:342 final size:339
Alignment explanation
Indices: 511846--512760 Score: 954
Period size: 342 Copynumber: 2.7 Consensus size: 339
511836 CTTTTTCATA
* * ** **
511846 ACTAATTCTAATATACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGTTTTGT
1 ACTAATTCTAATATACCTCAAGACCAAACGCTTCGTTTTGGTTAAGATATTTTACGGCGCCTTAA
* * * *
511911 ATAATGCGCCGCTAATACTGTGCTTTAGCGGCGTTTTTCCATAAGCGCCACTAATTCTAATATAC
66 ATAATACGCCGCTAATA-TGTGCTTTAACGGCGTTTTT-CATAAGCGCCACTAATGCCAATATAC
* * * ** * * ** * *
511976 CTTAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGTGGCGCTTTTTATAATGCGCCGCTAAT
129 CTCAAAACCAAACGATGCGTTTTGGTTAAGATATTTTACGGCGTTTTTTACAAAACGCCACTAAC
* * * * * *
512041 ACTGTGCTTTAGCAGCGTTTTTGCATAATCGCCACTAATTCTAATATACCTTAAGACCAAACGCT
194 AATGTGCTTTAGCGGCGTTTTTGCAAAAACGCCACTAATTCTAATATACCTCAAAACCAAACGCT
* * *
512106 GAGTTTTGGTTAAGATATTTTGCGGCGTTTTTTACAATGCGCCGCTAATACTGTGCTTTAGCGGC
259 GAGTTTTGGTTAAGATATTTTGCGGCGTTTTTTACAATGCGCCGCTAACACAGT-CATTAGCGGC
512171 GTTTTTCCATAAACGCC
323 GTTTTTCCATAAACGCC
**
512188 ACTAATTCTAATATACCTCAAGACCAAACGCTTCGTTTTGGTTAAGATATTTTACGGCGCCTTTT
1 ACTAATTCTAATATACCTCAAGACCAAACGCTTCGTTTTGGTTAAGATATTTTACGGCGCCTTAA
* * * *
512253 ATAATGCGCCGCTAATACTGTGCTTTAGCGGCGTTTTTGCATAAGCGCCACTAATTCTAATATAC
66 ATAATACGCCGCTAATA-TGTGCTTTAACGGCGTTTTT-CATAAGCGCCACTAATGCCAATATAC
* * * ** * *
512318 CTCAAAACCAAACGCTGTGTTTTGGTTAAGATATTTTGCGGCGTTTTTTACAATGCGCCGCTAAT
129 CTCAAAACCAAACGATGCGTTTTGGTTAAGATATTTTACGGCGTTTTTTACAAAACGCCACTAAC
* *
512383 AATGTGCTTTAGCGGCGTTTTTGCATAAGCGCCACTAATTCTAATATACCTCAAAACCAAACGCT
194 AATGTGCTTTAGCGGCGTTTTTGCAAAAACGCCACTAATTCTAATATACCTCAAAACCAAACGCT
*
512448 GTGTTTTGGTTAAGATATTTTGCGGCGTTTTTTACAATGCGCCGCTAAAGCACAGT-ATTAGCGG
259 GAGTTTTGGTTAAGATATTTTGCGGCGTTTTTTACAATGCGCCGCT-AA-CACAGTCATTAGCGG
* *
512512 CGTTTTTGCATAAGCGCC
322 CGTTTTTCCATAAACGCC
* * **
512530 ACTAATTCTAATATACCTCAAGACCTAACG-TTGCGTTTTGGTTAAGATGTTTTGTGGCG-CTTG
1 ACTAATTCTAATATACCTCAAGACCAAACGCTT-CGTTTTGGTTAAGATATTTTACGGCGCCTT-
* * * * **
512593 CAAATAA-ACGCCGCTAAT-TGTGCTATATAATGGCGTTTTT-ATAGTGCGCCGCTACTGCCGCT
64 -AAATAATACGCCGCTAATATGTGCT-T-TAACGGCGTTTTTCATA-AGCGCCACTAATGCCAAT
* * ** ** * *
512655 ATTCCTGATGATTAAACGATGCGTTTT-G-TCAGCAT-TTTTACGGCATTTTTGTTTA-AAAACG
125 ATACCTCAAAACCAAACGATGCGTTTTGGTTAAG-ATATTTTACGGC--GTTT-TTTACAAAACG
* *
512716 CCACTAACGATGTTCTTTTA-CGGCGTTTGTT-CAGAAAACGCCACT
186 CCACTAACAATGTGC-TTTAGCGGCGTTT-TTGCA-AAAACGCCACT
512761 GAAGGTCTGA
Statistics
Matches: 500, Mismatches: 58, Indels: 30
0.85 0.10 0.05
Matches are distributed among these distances:
339 11 0.02
340 12 0.02
341 64 0.13
342 403 0.81
343 6 0.01
344 4 0.01
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (339 bp):
ACTAATTCTAATATACCTCAAGACCAAACGCTTCGTTTTGGTTAAGATATTTTACGGCGCCTTAA
ATAATACGCCGCTAATATGTGCTTTAACGGCGTTTTTCATAAGCGCCACTAATGCCAATATACCT
CAAAACCAAACGATGCGTTTTGGTTAAGATATTTTACGGCGTTTTTTACAAAACGCCACTAACAA
TGTGCTTTAGCGGCGTTTTTGCAAAAACGCCACTAATTCTAATATACCTCAAAACCAAACGCTGA
GTTTTGGTTAAGATATTTTGCGGCGTTTTTTACAATGCGCCGCTAACACAGTCATTAGCGGCGTT
TTTCCATAAACGCC
Found at i:518472 original size:2 final size:2
Alignment explanation
Indices: 518467--518492 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
518457 CAAAAAATTG
518467 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
518493 CTCTTTTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:519924 original size:52 final size:52
Alignment explanation
Indices: 519862--519965 Score: 199
Period size: 52 Copynumber: 2.0 Consensus size: 52
519852 GAGATTGTTA
519862 GTGCAACTTGTTGTTTGTCTAATTACAAAGGACAATGCAACAAGTCTTAACT
1 GTGCAACTTGTTGTTTGTCTAATTACAAAGGACAATGCAACAAGTCTTAACT
*
519914 GTGCAACTTGTTGTTTGTCTAGTTACAAAGGACAATGCAACAAGTCTTAACT
1 GTGCAACTTGTTGTTTGTCTAATTACAAAGGACAATGCAACAAGTCTTAACT
519966 AAGTGTGTTT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (52 bp):
GTGCAACTTGTTGTTTGTCTAATTACAAAGGACAATGCAACAAGTCTTAACT
Found at i:523956 original size:28 final size:28
Alignment explanation
Indices: 523901--523958 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 28
523891 ATTCGAATAA
*
523901 TATAATTCGAATAAGTCGAGTTAAATTT
1 TATAATTCGAATAAGTCGAGATAAATTT
523929 TATAATTCGAATAAGTCGA-ATAATATTT
1 TATAATTCGAATAAGTCGAGATAA-ATTT
523957 TA
1 TA
523959 GTGTAAATAC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
27 3 0.11
28 25 0.89
ACGTcount: A:0.41, C:0.07, G:0.12, T:0.40
Consensus pattern (28 bp):
TATAATTCGAATAAGTCGAGATAAATTT
Found at i:524048 original size:19 final size:19
Alignment explanation
Indices: 524026--524071 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
524016 AAATTACAAA
524026 AAAAAATTAAAATAATTTT
1 AAAAAATTAAAATAATTTT
** *
524045 AAAATTTTCAAATAATTTT
1 AAAAAATTAAAATAATTTT
*
524064 TAAAAATT
1 AAAAAATT
524072 TCAAATTTAT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (19 bp):
AAAAAATTAAAATAATTTT
Found at i:524048 original size:20 final size:20
Alignment explanation
Indices: 524025--524116 Score: 53
Period size: 20 Copynumber: 4.3 Consensus size: 20
524015 AAAATTACAA
524025 AAAAAAATTAAAATAATTTT
1 AAAAAAATTAAAATAATTTT
** *
524045 -AAAATTTTCAAATAATTTT
1 AAAAAAATTAAAATAATTTT
* *
524064 TAAAAATTTCAAATTTATATATTTTT
1 AAAAAAATT-AAA---ATA-A-TTTT
*
524090 ACAAAAATTATAAA-AATTTT
1 AAAAAAATTA-AAATAATTTT
524110 AAAAAAA
1 AAAAAAA
524117 AATCTAAAGA
Statistics
Matches: 55, Mismatches: 9, Indels: 16
0.69 0.11 0.20
Matches are distributed among these distances:
19 16 0.29
20 17 0.31
21 3 0.05
22 1 0.02
23 1 0.02
24 3 0.05
25 2 0.04
26 12 0.22
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (20 bp):
AAAAAAATTAAAATAATTTT
Found at i:525873 original size:27 final size:26
Alignment explanation
Indices: 525830--525892 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 26
525820 GAAGGATTAA
525830 AATAATAAATAGATAAATGAATAAAT
1 AATAATAAATAGATAAATGAATAAAT
525856 AATACATAAATA-AGTAAATGAATAAAT
1 AATA-ATAAATAGA-TAAATGAATAAAT
*
525883 AA-AATGAATA
1 AATAATAAATA
525893 AAATAAAAGG
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
25 6 0.18
26 6 0.18
27 22 0.65
ACGTcount: A:0.65, C:0.02, G:0.08, T:0.25
Consensus pattern (26 bp):
AATAATAAATAGATAAATGAATAAAT
Found at i:525879 original size:23 final size:23
Alignment explanation
Indices: 525829--525919 Score: 67
Period size: 23 Copynumber: 3.8 Consensus size: 23
525819 AGAAGGATTA
* *
525829 AAATAATAAATAGATAAATGAAT
1 AAATAATAAATAAATAAATAAAT
* *
525852 AAATAATACATAAATAAGTAAAT
1 AAATAATAAATAAATAAATAAAT
* *
525875 GAATAAATAAAATGAATAAAATAAA-
1 AAAT-AAT-AAATAAAT-AAATAAAT
*
525900 AGGAATAATGAATAAATAAA
1 A--AATAATAAATAAATAAA
525920 CAAGCGAAAA
Statistics
Matches: 52, Mismatches: 11, Indels: 9
0.72 0.15 0.12
Matches are distributed among these distances:
23 22 0.42
24 6 0.12
25 12 0.23
26 9 0.17
27 3 0.06
ACGTcount: A:0.67, C:0.01, G:0.09, T:0.23
Consensus pattern (23 bp):
AAATAATAAATAAATAAATAAAT
Found at i:525898 original size:14 final size:14
Alignment explanation
Indices: 525871--525907 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
525861 ATAAATAAGT
525871 AAATGAAT-AAATA
1 AAATGAATAAAATA
525884 AAATGAATAAAATA
1 AAATGAATAAAATA
*
525898 AAAGGAATAA
1 AAATGAATAA
525908 TGAATAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 8 0.36
14 14 0.64
ACGTcount: A:0.70, C:0.00, G:0.11, T:0.19
Consensus pattern (14 bp):
AAATGAATAAAATA
Found at i:525919 original size:4 final size:4
Alignment explanation
Indices: 525829--525899 Score: 56
Period size: 4 Copynumber: 17.8 Consensus size: 4
525819 AGAAGGATTA
* * * *
525829 AAAT -AAT AAAT AGAT AAAT GAAT AAAT -AAT ACAT AAAT AAGT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
* *
525875 GAAT AAAT AAAAT GAAT AAAAT AAA
1 AAAT AAAT -AAAT AAAT -AAAT AAA
525900 AGGAATAATG
Statistics
Matches: 51, Mismatches: 12, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
3 6 0.12
4 38 0.75
5 7 0.14
ACGTcount: A:0.68, C:0.01, G:0.07, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:527676 original size:45 final size:44
Alignment explanation
Indices: 527574--528329 Score: 342
Period size: 44 Copynumber: 16.6 Consensus size: 44
527564 GCTCCACTGT
* *
527574 TCCACT-CTAACTTCAGGGAGATAATG-TTTGTAGCTTTAATATGC
1 TCCACTAC-AACTTCAGGGAGATAA-GATTTGTAACTTTAATCTGC
* * ** * *
527618 TCTACTGCAACTTCAAAGAGATAAGATTTGCT-ATTTTCAGTCTGC
1 TCCACTACAACTTCAGGGAGATAAGATTTG-TAACTTT-AATCTGC
* * *
527663 TCCACTACAACTTCAGGGAGATAAGACTTGTAACTTTAACCTGT
1 TCCACTACAACTTCAGGGAGATAAGATTTGTAACTTTAATCTGC
* * **
527707 TCCACTACAACTTTAGGGAGATAAGGTTTGTGGCTTTAATCTGC
1 TCCACTACAACTTCAGGGAGATAAGATTTGTAACTTTAATCTGC
* ** * *
527751 TCAACTGTAACTTCAGGGAGATAAGATTTGTTATA-TTCAATTTGC
1 TCCACTACAACTTCAGGGAGATAAGATTTG-TA-ACTTTAATCTGC
* * *
527796 CCCACTACAACTTCAAGGG-TATAAGATTTGTCATGA-TGAGTTCAATCCGC
1 TCCACTACAACTTC-AGGGAGATAAGATTTGT-A--ACT---TT-AATCTGC
* * ** * *
527846 ACCATTGTAACTTCAGGGAAATAAGATTTGTAACTTATAGCTTTAATCTGT
1 TCCACTACAACTTCAGGGAGATAAGATTTG-----TA-A-CTTTAATCTGC
* * * * * * *
527897 TCCACTATAATTTCAGGGAAATAAGATTCGTTATCTTCAATCTCC
1 TCCACTACAACTTCAGGGAGATAAGATTTG-TAACTTTAATCTGC
* ** *
527942 TCCACTACAACTTCAAGGAGATAAGATTTGTTTATTTTTAACCTGC
1 TCCACTACAACTTCAGGGAGATAAGATTTG--TAACTTTAATCTGC
* * * ** *
527988 TCTACTGCAACTTCAGGGAGATTAGA-TTGATGGCTTCAATCTGC
1 TCCACTACAACTTCAGGGAGATAAGATTTG-TAACTTTAATCTGC
* * * * * ** *
528032 TCTATTGCAACTTCAGGGAGATAATATTCGTTTATTTTTAACCTGC
1 TCCACTACAACTTCAGGGAGATAAGATT--TGTAACTTTAATCTGC
* * ** * * *
528078 TCCACTGCAACTTTAGGGAGATAAGATTAATAGCTTCAATCTAC
1 TCCACTACAACTTCAGGGAGATAAGATTTGTAACTTTAATCTGC
* * * * ** * *
528122 TCCACTGCAAATTTAGGGAGATAAGATTCGTTTATTTTTAACCTAC
1 TCCACTACAACTTCAGGGAGATAAGATT--TGTAACTTTAATCTGC
* * *
528168 TCCACT-CAACTTCAGGGAGA-AGAGGTTTATAGCTTTAATCTGC
1 TCCACTACAACTTCAGGGAGATA-AGATTTGTAACTTTAATCTGC
* * * * * *
528211 TCTACTGCAACTTTAGAGAGATAAGATTTGCTATCTGTCTTCAATCTAC
1 TCCACTACAACTTCAGGGAGATAAGATTTG-TAAC--T-TT-AATCTGC
* * * * * * * ** *
528260 TCCAATGCAACTTTAGGGAGGTAGGGTATGTGGCTTCAATCTGC
1 TCCACTACAACTTCAGGGAGATAAGATTTGTAACTTTAATCTGC
528304 TCCACTACAACTTCAGGGAGATAAGA
1 TCCACTACAACTTCAGGGAGATAAGA
528330 CTTATCACAA
Statistics
Matches: 540, Mismatches: 136, Indels: 72
0.72 0.18 0.10
Matches are distributed among these distances:
43 17 0.03
44 206 0.38
45 124 0.23
46 89 0.16
47 5 0.01
48 4 0.01
49 34 0.06
50 25 0.05
51 30 0.06
52 2 0.00
53 1 0.00
54 1 0.00
55 2 0.00
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (44 bp):
TCCACTACAACTTCAGGGAGATAAGATTTGTAACTTTAATCTGC
Found at i:527821 original size:133 final size:133
Alignment explanation
Indices: 527570--527810 Score: 349
Period size: 133 Copynumber: 1.8 Consensus size: 133
527560 ATGTGCTCCA
* *
527570 CTGTTCCACTCTAACTTCAGGGAGATAATGTTTGTAGCTTTAATATGCTCTACTGCAACTTCAAA
1 CTGTTCCACTCTAACTTCAGGGAGATAAGGTTTGTAGCTTTAATATGCTCAACTGCAACTTCAAA
* * *
527635 GAGATAAGATTTGCTATTTTCAGTCTGCTCCACTACAACTTCAGGGAGATAAGACTTGTAACTTT
66 GAGATAAGATTTGCTATATTCAATCTGCCCCACTACAACTTCAGGGAGATAAGACTTGTAACTTT
527700 AAC
131 AAC
* * * * *
527703 CTGTTCCACTAC-AACTTTAGGGAGATAAGGTTTGTGGCTTTAATCTGCTCAACTGTAACTTCAG
1 CTGTTCCACT-CTAACTTCAGGGAGATAAGGTTTGTAGCTTTAATATGCTCAACTGCAACTTCAA
* * *
527767 GGAGATAAGATTTGTTATATTCAATTTGCCCCACTACAACTTCA
65 AGAGATAAGATTTGCTATATTCAATCTGCCCCACTACAACTTCA
527811 AGGGTATAAG
Statistics
Matches: 94, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
133 93 0.99
134 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (133 bp):
CTGTTCCACTCTAACTTCAGGGAGATAAGGTTTGTAGCTTTAATATGCTCAACTGCAACTTCAAA
GAGATAAGATTTGCTATATTCAATCTGCCCCACTACAACTTCAGGGAGATAAGACTTGTAACTTT
AAC
Found at i:528052 original size:90 final size:89
Alignment explanation
Indices: 527574--528329 Score: 504
Period size: 90 Copynumber: 8.3 Consensus size: 89
527564 GCTCCACTGT
** ** * **
527574 TCCACT-CTAACTTCAGGGAGATAATG-TTTG-TAGCTTTAATATGCTCTACTGCAACTTCAAAG
1 TCCACTGC-AACTTCAGGGAGATAA-GATTTGTTATTTTTAACCTGCTCCACTGCAACTTCAGGG
* ** *
527636 AGATAAGATTTGCTATTTTCAGTCTGC
64 AGATAAGA-TTGATAGCTTCAATCTGC
* * ** * * *
527663 TCCACTACAACTTCAGGGAGATAAGACTTG-TAACTTTAACCTGTTCCACTACAACTTTAGGGAG
1 TCCACTGCAACTTCAGGGAGATAAGATTTGTTATTTTTAACCTGCTCCACTGCAACTTCAGGGAG
* * *
527727 ATAAGGTTTG-TGGCTTTAATCTGC
66 ATAA-GATTGATAGCTTCAATCTGC
* * * * ** * *
527751 TCAACTGTAACTTCAGGGAGATAAGATTTGTTATATTCAATTTGCCCCACTACAACTTCAAGGG-
1 TCCACTGCAACTTCAGGGAGATAAGATTTGTTATTTTTAACCTGCTCCACTGCAACTTC-AGGGA
* * *
527815 TATAAGATTTGTCATGATGAGTTCAATCCGC
65 GATAAGA-TTG--AT-A-G-CTTCAATCTGC
* * * * * * * ** *
527846 ACCATTGTAACTTCAGGGAAATAAGATTTGTAACTTATAGCTTTAATCTGTTCCACTATAATTTC
1 TCCACTGCAACTTCAGGGAGATAAGATTTG----TTAT--TTTTAACCTGCTCCACTGCAACTTC
* * * *
527911 AGGGAAATAAGATTCGTTATCTTCAATCTCC
60 AGGGAGATAAGATT-GATAGCTTCAATCTGC
* * *
527942 TCCACTACAACTTCAAGGAGATAAGATTTGTTTATTTTTAACCTGCTCTACTGCAACTTCAGGGA
1 TCCACTGCAACTTCAGGGAGATAAGATTTG-TTATTTTTAACCTGCTCCACTGCAACTTCAGGGA
* *
528007 GATTAGATTGATGGCTTCAATCTGC
65 GATAAGATTGATAGCTTCAATCTGC
* * * * *
528032 TCTATTGCAACTTCAGGGAGATAATATTCGTTTATTTTTAACCTGCTCCACTGCAACTTTAGGGA
1 TCCACTGCAACTTCAGGGAGATAAGATTTG-TTATTTTTAACCTGCTCCACTGCAACTTCAGGGA
* *
528097 GATAAGATTAATAGCTTCAATCTAC
65 GATAAGATTGATAGCTTCAATCTGC
* * * *
528122 TCCACTGCAAATTTAGGGAGATAAGATTCGTTTATTTTTAACCTACTCCACT-CAACTTCAGGGA
1 TCCACTGCAACTTCAGGGAGATAAGATTTG-TTATTTTTAACCTGCTCCACTGCAACTTCAGGGA
* * *
528186 GA-AGAGGTTTATAGCTTTAATCTGC
65 GATA-AGATTGATAGCTTCAATCTGC
* * * * * * * *
528211 TCTACTGCAACTTTAGAGAGATAAGATTTGCTATCTGTCTTCAATCTACTCCAATGCAACTTTAG
1 TCCACTGCAACTTCAGGGAGATAAGATTTGTTAT-T-T-TT-AACCTGCTCCACTGCAACTTCAG
* * * *
528276 GGAGGTAGGGTATG-TGGCTTCAATCTGC
62 GGAGATAAGAT-TGATAGCTTCAATCTGC
*
528304 TCCACTACAACTTCAGGGAGATAAGA
1 TCCACTGCAACTTCAGGGAGATAAGA
528330 CTTATCACAA
Statistics
Matches: 528, Mismatches: 111, Indels: 52
0.76 0.16 0.08
Matches are distributed among these distances:
88 41 0.08
89 141 0.27
90 143 0.27
91 32 0.06
92 12 0.02
93 53 0.10
94 3 0.01
95 34 0.06
96 32 0.06
98 1 0.00
99 5 0.01
100 6 0.01
101 25 0.05
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (89 bp):
TCCACTGCAACTTCAGGGAGATAAGATTTGTTATTTTTAACCTGCTCCACTGCAACTTCAGGGAG
ATAAGATTGATAGCTTCAATCTGC
Found at i:534526 original size:4 final size:4
Alignment explanation
Indices: 534499--534568 Score: 54
Period size: 4 Copynumber: 17.8 Consensus size: 4
534489 AGAAGGATTA
* * ** *
534499 AAAT -AAT AAAT AGAT AAAT GAAT AAAT -AAT TCAT AAAT AAGT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
* *
534545 GAAT AAAT AAAAT GAAT AAAT AAA
1 AAAT AAAT -AAAT AAAT AAAT AAA
534569 CAAGCGAAAA
Statistics
Matches: 50, Mismatches: 13, Indels: 6
0.72 0.19 0.09
Matches are distributed among these distances:
3 6 0.12
4 40 0.80
5 4 0.08
ACGTcount: A:0.66, C:0.01, G:0.07, T:0.26
Consensus pattern (4 bp):
AAAT
Found at i:548297 original size:14 final size:14
Alignment explanation
Indices: 548278--548307 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
548268 AAAAGGAATG
548278 GAAAAAAGAAAGAA
1 GAAAAAAGAAAGAA
*
548292 GAAAAAGGAAAGAA
1 GAAAAAAGAAAGAA
548306 GA
1 GA
548308 GTTAAAAGAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (14 bp):
GAAAAAAGAAAGAA
Found at i:548961 original size:14 final size:14
Alignment explanation
Indices: 548942--548971 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
548932 AAAAGGAATG
548942 GAAAAAAGAAAGAA
1 GAAAAAAGAAAGAA
*
548956 GAAAAAGGAAAGAA
1 GAAAAAAGAAAGAA
548970 GA
1 GA
548972 GTTAAAAGAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (14 bp):
GAAAAAAGAAAGAA
Found at i:549364 original size:664 final size:664
Alignment explanation
Indices: 548096--549423 Score: 2638
Period size: 664 Copynumber: 2.0 Consensus size: 664
548086 ATAATAATAT
*
548096 TCTTTCTGTTTTGTTTTAAACTTCAAACAAAAGCAACAAAGAAGCTGAACCCCCCCCCCCTAAAA
1 TCTTTCTGTTTTGTTTTAAACTTCAAACAAAAGCAAAAAAGAAGCTGAACCCCCCCCCCCTAAAA
548161 ACCCAAAAGAAGAAGTTTTTTGAGAAGAAATGAATGGAGAGGGCTTTGGTTTTAAAGGAAATGTG
66 ACCCAAAAGAAGAAGTTTTTTGAGAAGAAATGAATGGAGAGGGCTTTGGTTTTAAAGGAAATGTG
548226 ATTATATGCAAAGTTTTCGCCTTTGGTTTTGTAAGAAAGCTTAAAAGGAATGGAAAAAAGAAAGA
131 ATTATATGCAAAGTTTTCGCCTTTGGTTTTGTAAGAAAGCTTAAAAGGAATGGAAAAAAGAAAGA
548291 AGAAAAAGGAAAGAAGAGTTAAAAGAGAAGATGAAGAAGAGAGAGCGACAAAAATGGGACCGGCT
196 AGAAAAAGGAAAGAAGAGTTAAAAGAGAAGATGAAGAAGAGAGAGCGACAAAAATGGGACCGGCT
548356 ACTCTTACATGAAGAGAACTTGGACGCTCTTTTGAACCAAAACGTCCTCTTCATACGAGGACTTC
261 ACTCTTACATGAAGAGAACTTGGACGCTCTTTTGAACCAAAACGTCCTCTTCATACGAGGACTTC
548421 ACAATTCCATATGGTATTTTCTGCTAATAATATCTTCTTTTATAATTATATTTTTAAATATTATA
326 ACAATTCCATATGGTATTTTCTGCTAATAATATCTTCTTTTATAATTATATTTTTAAATATTATA
548486 TATTCTTTTTTAGGTATATAATATATAGATATATAAGGTCAAAATACATATTCTATATTTTGGTA
391 TATTCTTTTTTAGGTATATAATATATAGATATATAAGGTCAAAATACATATTCTATATTTTGGTA
548551 TAAAGTAACATTTATCCCTTGAATTTAGCTATTTTTTTCAATTTAATCTTTAAATTTTTGGTCCA
456 TAAAGTAACATTTATCCCTTGAATTTAGCTATTTTTTTCAATTTAATCTTTAAATTTTTGGTCCA
548616 TATTCATTTTTGAACTTAGTAACTTTTTCAATTTGTTCTATAAACTAGAATTCCGTTAATATATG
521 TATTCATTTTTGAACTTAGTAACTTTTTCAATTTGTTCTATAAACTAGAATTCCGTTAATATATG
548681 ATTATGTGGCACTCAAAGTATCATCACCTAAAAGTTTAAAAGTACATATATATAATTTAGAAAAT
586 ATTATGTGGCACTCAAAGTATCATCACCTAAAAGTTTAAAAGTACATATATATAATTTAGAAAAT
548746 ATTTAAGAATTTAA
651 ATTTAAGAATTTAA
*
548760 TCTTTCTTTTTTGTTTTAAACTTCAAACAAAAGCAAAAAAGAAGCTGAACCCCCCCCCCCTAAAA
1 TCTTTCTGTTTTGTTTTAAACTTCAAACAAAAGCAAAAAAGAAGCTGAACCCCCCCCCCCTAAAA
548825 ACCCAAAAGAAGAAGTTTTTTGAGAAGAAATGAATGGAGAGGGCTTTGGTTTTAAAGGAAATGTG
66 ACCCAAAAGAAGAAGTTTTTTGAGAAGAAATGAATGGAGAGGGCTTTGGTTTTAAAGGAAATGTG
548890 ATTATATGCAAAGTTTTCGCCTTTGGTTTTGTAAGAAAGCTTAAAAGGAATGGAAAAAAGAAAGA
131 ATTATATGCAAAGTTTTCGCCTTTGGTTTTGTAAGAAAGCTTAAAAGGAATGGAAAAAAGAAAGA
548955 AGAAAAAGGAAAGAAGAGTTAAAAGAGAAGATGAAGAAGAGAGAGCGACAAAAATGGGACCGGCT
196 AGAAAAAGGAAAGAAGAGTTAAAAGAGAAGATGAAGAAGAGAGAGCGACAAAAATGGGACCGGCT
549020 ACTCTTACATGAAGAGAACTTGGACGCTCTTTTGAACCAAAACGTCCTCTTCATACGAGGACTTC
261 ACTCTTACATGAAGAGAACTTGGACGCTCTTTTGAACCAAAACGTCCTCTTCATACGAGGACTTC
549085 ACAATTCCATATGGTATTTTCTGCTAATAATATCTTCTTTTATAATTATATTTTTAAATATTATA
326 ACAATTCCATATGGTATTTTCTGCTAATAATATCTTCTTTTATAATTATATTTTTAAATATTATA
549150 TATTCTTTTTTAGGTATATAATATATAGATATATAAGGTCAAAATACATATTCTATATTTTGGTA
391 TATTCTTTTTTAGGTATATAATATATAGATATATAAGGTCAAAATACATATTCTATATTTTGGTA
549215 TAAAGTAACATTTATCCCTTGAATTTAGCTATTTTTTTCAATTTAATCTTTAAATTTTTGGTCCA
456 TAAAGTAACATTTATCCCTTGAATTTAGCTATTTTTTTCAATTTAATCTTTAAATTTTTGGTCCA
549280 TATTCATTTTTGAACTTAGTAACTTTTTCAATTTGTTCTATAAACTAGAATTCCGTTAATATATG
521 TATTCATTTTTGAACTTAGTAACTTTTTCAATTTGTTCTATAAACTAGAATTCCGTTAATATATG
549345 ATTATGTGGCACTCAAAGTATCATCACCTAAAAGTTTAAAAGTACATATATATAATTTAGAAAAT
586 ATTATGTGGCACTCAAAGTATCATCACCTAAAAGTTTAAAAGTACATATATATAATTTAGAAAAT
549410 ATTTAAGAATTTAA
651 ATTTAAGAATTTAA
549424 ATTTTTCAAA
Statistics
Matches: 662, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
664 662 1.00
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.35
Consensus pattern (664 bp):
TCTTTCTGTTTTGTTTTAAACTTCAAACAAAAGCAAAAAAGAAGCTGAACCCCCCCCCCCTAAAA
ACCCAAAAGAAGAAGTTTTTTGAGAAGAAATGAATGGAGAGGGCTTTGGTTTTAAAGGAAATGTG
ATTATATGCAAAGTTTTCGCCTTTGGTTTTGTAAGAAAGCTTAAAAGGAATGGAAAAAAGAAAGA
AGAAAAAGGAAAGAAGAGTTAAAAGAGAAGATGAAGAAGAGAGAGCGACAAAAATGGGACCGGCT
ACTCTTACATGAAGAGAACTTGGACGCTCTTTTGAACCAAAACGTCCTCTTCATACGAGGACTTC
ACAATTCCATATGGTATTTTCTGCTAATAATATCTTCTTTTATAATTATATTTTTAAATATTATA
TATTCTTTTTTAGGTATATAATATATAGATATATAAGGTCAAAATACATATTCTATATTTTGGTA
TAAAGTAACATTTATCCCTTGAATTTAGCTATTTTTTTCAATTTAATCTTTAAATTTTTGGTCCA
TATTCATTTTTGAACTTAGTAACTTTTTCAATTTGTTCTATAAACTAGAATTCCGTTAATATATG
ATTATGTGGCACTCAAAGTATCATCACCTAAAAGTTTAAAAGTACATATATATAATTTAGAAAAT
ATTTAAGAATTTAA
Found at i:560678 original size:3 final size:3
Alignment explanation
Indices: 560662--560760 Score: 139
Period size: 3 Copynumber: 33.7 Consensus size: 3
560652 TTACTATTTA
*
560662 ATT ATT -TT -TT ATT ATT ATT ATT ATT ATT ATT ATT GTT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * *
560708 ATT ATT ATC ATT ATT ATT ATT ATT AAT ATC AAT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
560756 ATT AT
1 ATT AT
560761 ATTTCCATTA
Statistics
Matches: 85, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
2 4 0.05
3 81 0.95
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:569200 original size:89 final size:89
Alignment explanation
Indices: 569027--569755 Score: 859
Period size: 89 Copynumber: 8.1 Consensus size: 89
569017 NNNNNNNNNN
* * * *
569027 AGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCGAAGGAAAAAGCAGATCTTGTTTTCATGT
1 AGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAA-G--AAAGCAGATCTTGTCTTCATGT
* *
569092 ACTGGCGTGAAGTAGATCAGAGATACC
63 ATTGGCGTGAAGTAGATCAAAGATACC
* * * * *
569119 AGATCTTGCCTTCCCATACTGGTGGTGAAGCAGATCAAAGAAAGCAAATCTTGTCTTCATGTACT
1 AGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATT
* * *
569184 GGCGTGAAGTAAATCAGAGATACT
66 GGCGTGAAGTAGATCAAAGATACC
* * * * *
569208 AGATCTTGCCTTCCTATACTGGTGGTGGAGTAGATCGAAGAAAACAGATCTTGTCCTCATGTATT
1 AGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATT
569273 GGCGTGAAGTAGATCAAAGATACC
66 GGCGTGAAGTAGATCAAAGATACC
* * * *
569297 AGATCTTGTCTCCCCATACTGGTGGTGGAGTAGATCGAAGAAAACAGATCTTGTCCTCATGTATT
1 AGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATT
569362 GGCGTGAAGTAGATCAAAGATACC
66 GGCGTGAAGTAGATCAAAGATACC
* * *
569386 AGATCTTGTCTCCCCATACTGGTGGTGGAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATT
1 AGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATT
* * *
569451 GGTGTGAAGTACATCAAAGATAGC
66 GGCGTGAAGTAGATCAAAGATACC
* * * * * *
569475 AGATTTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGTAAATCCTATCTTGC-TATAT
1 AGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTT-CATGTAT
* * * ** * *
569539 TGGTAGCGAAGTGGATCGTAGGTAGC
65 TGG-CGTGAAGTAGATCAAAGATACC
* * *
569565 AGATCTTATCTCCCCATACTGGTGGTGGAA-CAGATCGAAGAAAGCAGATCTTGTCTTCATGTAT
1 AGATCTTGTCTTCCCATACTGGTGGT-GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTAT
* * * **
569629 TGGCATGAAGTAGAACGAAGATGGC
65 TGGCGTGAAGTAGATCAAAGATACC
* ** * * *
569654 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAATCAAGCAAATCTTATCTTCATGTATG
1 AGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATT
* *
569719 GGCGTGAAGTAGATCAAAGAAAAC
66 GGCGTGAAGTAGATCAAAGATACC
*
569743 AGATCTTATCTTC
1 AGATCTTGTCTTC
569756 ATGTATTGGC
Statistics
Matches: 559, Mismatches: 73, Indels: 13
0.87 0.11 0.02
Matches are distributed among these distances:
88 3 0.01
89 447 0.80
90 68 0.12
91 4 0.01
92 37 0.07
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.28
Consensus pattern (89 bp):
AGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATT
GGCGTGAAGTAGATCAAAGATACC
Found at i:569611 original size:45 final size:45
Alignment explanation
Indices: 569027--569749 Score: 389
Period size: 45 Copynumber: 16.2 Consensus size: 45
569017 NNNNNNNNNN
* * * *
569027 AGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCGAAGGAAAAAGC
1 AGATCTTGTCTCCCCATACTGGTGGTGAAGTAGATCGAA-G--AAAGC
* * *** * * *
569075 AGATCTTGTTTTCATGTACTGG-CGTGAAGTAGATC-AGAGATACC
1 AGATCTTGTCTCCCCATACTGGTGGTGAAGTAGATCGA-AGAAAGC
* * * *
569119 AGATCTTGCCTTCCCATACTGGTGGTGAAGCAGATCAAAGAAAGC
1 AGATCTTGTCTCCCCATACTGGTGGTGAAGTAGATCGAAGAAAGC
* * *** * * *
569164 AAATCTTGTCTTCATGTACTGG-CGTGAAGTAAATC-AGAGATA-C
1 AGATCTTGTCTCCCCATACTGGTGGTGAAGTAGATCGA-AGAAAGC
* * * * *
569207 TAGATCTTGCCTTCCTATACTGGTGGTGGAGTAGATCGAAGAAAAC
1 -AGATCTTGTCTCCCCATACTGGTGGTGAAGTAGATCGAAGAAAGC
* * * * * *
569253 AGATCTTG--TCCTCATGTATTGG-CGTGAAGTAGATCAAAGATACC
1 AGATCTTGTCTCCCCA--TACTGGTGGTGAAGTAGATCGAAGAAAGC
* *
569297 AGATCTTGTCTCCCCATACTGGTGGTGGAGTAGATCGAAGAAAAC
1 AGATCTTGTCTCCCCATACTGGTGGTGAAGTAGATCGAAGAAAGC
* * * * * *
569342 AGATCTTG--TCCTCATGTATTGG-CGTGAAGTAGATCAAAGATACC
1 AGATCTTGTCTCCCCA--TACTGGTGGTGAAGTAGATCGAAGAAAGC
* *
569386 AGATCTTGTCTCCCCATACTGGTGGTGGAGTAGATCGAAGAAAGT
1 AGATCTTGTCTCCCCATACTGGTGGTGAAGTAGATCGAAGAAAGC
* *** * * * *
569431 AGATCTTGTCTTCATGTATTGGT-GTGAAGTACATCAAAGATAGC
1 AGATCTTGTCTCCCCATACTGGTGGTGAAGTAGATCGAAGAAAGC
* * *
569475 AGATTTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGT
1 AGATCTTGTCTCCCCATACTGGTGGTGAAGTAGATCGAAGAAAGC
* * * ** * * * * * * **
569520 AAATCCTATCTTGCTATATTGGTAGCGAAGTGGATCGTAGGTAGC
1 AGATCTTGTCTCCCCATACTGGTGGTGAAGTAGATCGAAGAAAGC
* *
569565 AGATCTTATCTCCCCATACTGGTGGTGGAA-CAGATCGAAGAAAGC
1 AGATCTTGTCTCCCCATACTGGTGGT-GAAGTAGATCGAAGAAAGC
* *** * ** * **
569610 AGATCTTGTCTTCATGTATTGG-CATGAAGTAGAACGAAGATGGC
1 AGATCTTGTCTCCCCATACTGGTGGTGAAGTAGATCGAAGAAAGC
* * **
569654 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAATCAAGC
1 AGATCTTGTCTCCCCATACTGGTGGTGAAGTAGATCGAAGAAAGC
* * * *** * *
569699 AAATCTTATCTTCATGTA-TGG-GCGTGAAGTAGATCAAAGAAAAC
1 AGATCTTGTCTCCCCATACTGGTG-GTGAAGTAGATCGAAGAAAGC
569743 AGATCTT
1 AGATCTT
569750 ATCTTCATGT
Statistics
Matches: 504, Mismatches: 148, Indels: 50
0.72 0.21 0.07
Matches are distributed among these distances:
43 14 0.03
44 201 0.40
45 243 0.48
46 18 0.04
47 11 0.02
48 17 0.03
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.28
Consensus pattern (45 bp):
AGATCTTGTCTCCCCATACTGGTGGTGAAGTAGATCGAAGAAAGC
Found at i:569733 original size:44 final size:44
Alignment explanation
Indices: 569680--569780 Score: 148
Period size: 44 Copynumber: 2.3 Consensus size: 44
569670 TACTGGTGGC
* ** *
569680 GAAGTAGATCGAATCAAGCAAATCTTATCTTCATGTATGGGCGT
1 GAAGTAGATCAAAGAAAACAAATCTTATCTTCATGTATGGGCGT
* *
569724 GAAGTAGATCAAAGAAAACAGATCTTATCTTCATGTATTGGCGT
1 GAAGTAGATCAAAGAAAACAAATCTTATCTTCATGTATGGGCGT
569768 GAAGTAGATCAAA
1 GAAGTAGATCAAA
569781 TATAGTAGGT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 51 1.00
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.28
Consensus pattern (44 bp):
GAAGTAGATCAAAGAAAACAAATCTTATCTTCATGTATGGGCGT
Found at i:571319 original size:3 final size:3
Alignment explanation
Indices: 571306--571342 Score: 65
Period size: 3 Copynumber: 12.0 Consensus size: 3
571296 TTACTATTTA
571306 ATT ATTT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
571343 GTCATTTATA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 30 0.91
4 3 0.09
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:575414 original size:6 final size:6
Alignment explanation
Indices: 575405--575439 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
575395 AAAGTATTCA
575405 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
575440 AGCTTATCTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:576234 original size:21 final size:21
Alignment explanation
Indices: 576201--576241 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
576191 AATTAATATT
* *
576201 AATTTTTTTTAATTTATAATA
1 AATTATTTATAATTTATAATA
576222 AATTATTTATAATTTATAAT
1 AATTATTTATAATTTATAAT
576242 TTTTTAGAAA
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:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
AATTATTTATAATTTATAATA
Found at i:576247 original size:17 final size:17
Alignment explanation
Indices: 576200--576259 Score: 57
Period size: 17 Copynumber: 3.3 Consensus size: 17
576190 GAATTAATAT
*
576200 TAATTTTTTTTAATTTA
1 TAATTTTTTATAATTTA
576217 TAATAAATTATTTATAATTTA
1 TAAT---TT-TTTATAATTTA
* *
576238 TAATTTTTTAGAAATTA
1 TAATTTTTTATAATTTA
576255 TAATT
1 TAATT
576260 GATAATTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
17 18 0.50
18 2 0.06
20 2 0.06
21 14 0.39
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (17 bp):
TAATTTTTTATAATTTA
Found at i:576968 original size:22 final size:22
Alignment explanation
Indices: 576943--576985 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
576933 TATCCAAATA
576943 ATAACAACAAAATAGTAGCAAT
1 ATAACAACAAAATAGTAGCAAT
* * *
576965 ATAATAGCAAAATGGTAGCAA
1 ATAACAACAAAATAGTAGCAA
576986 AGCAGTGGCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.14, T:0.19
Consensus pattern (22 bp):
ATAACAACAAAATAGTAGCAAT
Found at i:582809 original size:28 final size:28
Alignment explanation
Indices: 582777--582830 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
582767 AATTTGGTAA
* *
582777 TTAAAT-TAATTTTGGTACTTGTACTTTT
1 TTAAATCT-ATTTTAGTACTTGAACTTTT
582805 TTAAATCTATTTTAGTACTTGAACTT
1 TTAAATCTATTTTAGTACTTGAACTT
582831 AATTACGGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 22 0.96
29 1 0.04
ACGTcount: A:0.28, C:0.09, G:0.09, T:0.54
Consensus pattern (28 bp):
TTAAATCTATTTTAGTACTTGAACTTTT
Found at i:583807 original size:3 final size:3
Alignment explanation
Indices: 583799--583850 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
583789 CACCTCAAAT
583799 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
583847 TAA T
1 TAA T
583851 GTTAAAATAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:584477 original size:22 final size:20
Alignment explanation
Indices: 584446--584494 Score: 53
Period size: 22 Copynumber: 2.3 Consensus size: 20
584436 TAAGTTGGTA
*
584446 AATTACATTAGGAAGTACAACT
1 AATTA-ATTAAGAAGTACAA-T
*
584468 ATATTAATTAAGAATTACAAT
1 A-ATTAATTAAGAAGTACAAT
584489 AATTAA
1 AATTAA
584495 ATAGTATTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 5 0.21
21 2 0.08
22 13 0.54
23 4 0.17
ACGTcount: A:0.51, C:0.08, G:0.08, T:0.33
Consensus pattern (20 bp):
AATTAATTAAGAAGTACAAT
Found at i:585249 original size:6 final size:6
Alignment explanation
Indices: 585242--585275 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
585232 GAGAAATTAG
* *
585242 GGTTAG GGTTAA AGTTAA GGTTAA GGTTAA GGTT
1 GGTTAA GGTTAA GGTTAA GGTTAA GGTTAA GGTT
585276 CAGAAATGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.29, C:0.00, G:0.35, T:0.35
Consensus pattern (6 bp):
GGTTAA
Found at i:590563 original size:54 final size:54
Alignment explanation
Indices: 590481--590597 Score: 200
Period size: 54 Copynumber: 2.2 Consensus size: 54
590471 TCAAACCTGA
590481 AAAAT-CTAACCTTATCAATTTGTAATTAAATCTGACTCAATCTGATTTTATCAT
1 AAAATACT-ACCTTATCAATTTGTAATTAAATCTGACTCAATCTGATTTTATCAT
* *
590535 AAAATACTACCTTATCAATTTGTAATTAAATTTGACTCAATTTGATTTTATCAT
1 AAAATACTACCTTATCAATTTGTAATTAAATCTGACTCAATCTGATTTTATCAT
590589 AAAATACTA
1 AAAATACTA
590598 ACAATCCAAA
Statistics
Matches: 60, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
54 58 0.97
55 2 0.03
ACGTcount: A:0.39, C:0.15, G:0.05, T:0.41
Consensus pattern (54 bp):
AAAATACTACCTTATCAATTTGTAATTAAATCTGACTCAATCTGATTTTATCAT
Found at i:591968 original size:11 final size:11
Alignment explanation
Indices: 591954--591979 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
591944 ATCTTTTTAA
591954 TTTTAAAATAT
1 TTTTAAAATAT
591965 TTTTAAAATAT
1 TTTTAAAATAT
591976 TTTT
1 TTTT
591980 TTATTTTTAA
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:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:591999 original size:20 final size:19
Alignment explanation
Indices: 591962--592000 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
591952 AATTTTAAAA
*
591962 TATTTTTAAAATATTTTTT
1 TATTTTTAAAATAATTTTT
591981 TATTTTTAAAATAAATTTTT
1 TATTTTTAAAAT-AATTTTT
592001 GGTGTTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
TATTTTTAAAATAATTTTT
Found at i:597237 original size:15 final size:17
Alignment explanation
Indices: 597219--597253 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
597209 AATATGGGTA
597219 AACGA-AATAAT-ACAC
1 AACGACAATAATCACAC
597234 AACGACAATAATCACAC
1 AACGACAATAATCACAC
597251 AAC
1 AAC
597254 ACACCAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.28
16 6 0.33
17 7 0.39
ACGTcount: A:0.57, C:0.26, G:0.06, T:0.11
Consensus pattern (17 bp):
AACGACAATAATCACAC
Found at i:597376 original size:20 final size:20
Alignment explanation
Indices: 597341--597383 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 20
597331 ACAAATGATT
597341 AATGAAGACGATTCAAAATA
1 AATGAAGACGATTCAAAATA
597361 AATGATAGACGA-TCAAAATA
1 AATGA-AGACGATTCAAAATA
597381 AAT
1 AAT
597384 AGAATATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.56, C:0.09, G:0.14, T:0.21
Consensus pattern (20 bp):
AATGAAGACGATTCAAAATA
Found at i:597394 original size:2 final size:2
Alignment explanation
Indices: 597387--597411 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
597377 AATAAATAGA
597387 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
597412 AAATTAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:599278 original size:25 final size:26
Alignment explanation
Indices: 599228--599278 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
599218 AAAGTTGTAG
*
599228 AGAAAATTCTCTGAAGAGATTATTCT
1 AGAAAATTCTCTAAAGAGATTATTCT
* *
599254 AGAAAATT-TCTAAAGATATTTTTCT
1 AGAAAATTCTCTAAAGAGATTATTCT
599279 GATTTACAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 14 0.64
26 8 0.36
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (26 bp):
AGAAAATTCTCTAAAGAGATTATTCT
Found at i:601318 original size:106 final size:106
Alignment explanation
Indices: 601133--601648 Score: 1005
Period size: 106 Copynumber: 4.9 Consensus size: 106
601123 CCTCATCATT
601133 AATAAGGCAATGTTTTGCGTTTGAAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTTTCGATTTC
1 AATAAGGCAATGTTTTGCGTTTGAAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTTTCGATTTC
601198 TCGTTCAACCAAATAGCTAAATATCCTTTCAAAAATTACAG
66 TCGTTCAACCAAATAGCTAAATATCCTTTCAAAAATTACAG
601239 AATAAGGCAATGTTTTGCGTTTGAAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTTTCGATTTC
1 AATAAGGCAATGTTTTGCGTTTGAAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTTTCGATTTC
601304 TCGTTCAACCAAATAGCTAAATATCCTTTCAAAAATTACAG
66 TCGTTCAACCAAATAGCTAAATATCCTTTCAAAAATTACAG
601345 AATAAGGCAATGTTTTGCGTTTGAAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTTTCGATTTC
1 AATAAGGCAATGTTTTGCGTTTGAAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTTTCGATTTC
601410 TCGTTCAACCAAATAGCTAAATATCCTTTCAAAAATTACAG
66 TCGTTCAACCAAATAGCTAAATATCCTTTCAAAAATTACAG
601451 AATAAGGCAATGTTTTGCGTTTGAAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTTTCGATTTC
1 AATAAGGCAATGTTTTGCGTTTGAAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTTTCGATTTC
601516 TCGTTCAACCAAATAGCTAAATATCCTTTCAAAAATTACAG
66 TCGTTCAACCAAATAGCTAAATATCCTTTCAAAAATTACAG
601557 AATAAGGCAATGTTTTGCGTTTGAAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTTTCGATTTC
1 AATAAGGCAATGTTTTGCGTTTGAAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTTTCGATTTC
* * *
601622 TTGTTTAACCAAATTGCTAAATATCCT
66 TCGTTCAACCAAATAGCTAAATATCCT
601649 CTTGAATTTT
Statistics
Matches: 407, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
106 407 1.00
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (106 bp):
AATAAGGCAATGTTTTGCGTTTGAAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTTTCGATTTC
TCGTTCAACCAAATAGCTAAATATCCTTTCAAAAATTACAG
Found at i:607594 original size:19 final size:19
Alignment explanation
Indices: 607570--607634 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 19
607560 CACTTCTAGT
607570 TTTAAATTAATTTTTAAAA
1 TTTAAATTAATTTTTAAAA
* **
607589 TTTAAA-AAATTTAAAAAAAA
1 TTTAAATTAATTT--TTAAAA
607609 TTATAAAATT-ATTTTTAAAA
1 TT-T-AAATTAATTTTTAAAA
607629 TTTAAA
1 TTTAAA
607635 AACCATCAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 11
0.67 0.12 0.21
Matches are distributed among these distances:
18 8 0.23
19 7 0.20
20 12 0.34
21 1 0.03
22 7 0.20
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
TTTAAATTAATTTTTAAAA
Found at i:608794 original size:24 final size:25
Alignment explanation
Indices: 608767--608815 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
608757 TAAGACATTA
608767 AAATTTTAATA-TTTTTTTATATAT
1 AAATTTTAATATTTTTTTTATATAT
608791 AAATTTTAATATTTTTTTTATATAT
1 AAATTTTAATATTTTTTTTATATAT
608816 TACTAATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 11 0.46
25 13 0.54
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (25 bp):
AAATTTTAATATTTTTTTTATATAT
Found at i:609235 original size:41 final size:41
Alignment explanation
Indices: 609190--609269 Score: 142
Period size: 41 Copynumber: 2.0 Consensus size: 41
609180 TATAATATTT
*
609190 TCTATTATAGTTAGTGATTAAAACCGAATCAACCGACCACA
1 TCTATTATAGTTAGCGATTAAAACCGAATCAACCGACCACA
*
609231 TCTATTATAGTTAGCGATTAAAACCGACTCAACCGACCA
1 TCTATTATAGTTAGCGATTAAAACCGAATCAACCGACCA
609270 AATTGAGCCA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.38, C:0.24, G:0.12, T:0.26
Consensus pattern (41 bp):
TCTATTATAGTTAGCGATTAAAACCGAATCAACCGACCACA
Found at i:609732 original size:32 final size:32
Alignment explanation
Indices: 609691--609751 Score: 122
Period size: 32 Copynumber: 1.9 Consensus size: 32
609681 AATGAGTTTA
609691 TTGGTTCAGTAATAAGGTTTTAGCTTACTTTG
1 TTGGTTCAGTAATAAGGTTTTAGCTTACTTTG
609723 TTGGTTCAGTAATAAGGTTTTAGCTTACT
1 TTGGTTCAGTAATAAGGTTTTAGCTTACT
609752 CTTTTGTCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.23, C:0.10, G:0.21, T:0.46
Consensus pattern (32 bp):
TTGGTTCAGTAATAAGGTTTTAGCTTACTTTG
Found at i:613664 original size:28 final size:28
Alignment explanation
Indices: 613633--613690 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
613623 CATAGTGTTT
613633 TTTGAATTGAATTAATTTATAGAATTAA
1 TTTGAATTGAATTAATTTATAGAATTAA
* * *
613661 TTTGAATTGAGTTGATTTATAGGATTAA
1 TTTGAATTGAATTAATTTATAGAATTAA
613689 TT
1 TT
613691 ATTTAATTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (28 bp):
TTTGAATTGAATTAATTTATAGAATTAA
Found at i:616821 original size:21 final size:22
Alignment explanation
Indices: 616778--616822 Score: 58
Period size: 21 Copynumber: 2.0 Consensus size: 22
616768 CCATTAATGT
616778 ATTTAATAAAGGTTATATTAGTA
1 ATTTAATAAA-GTTATATTAGTA
616801 ATTTAATAAA-TTA-AGTTAGTA
1 ATTTAATAAAGTTATA-TTAGTA
616822 A
1 A
616823 AAATGATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 1 0.05
21 10 0.48
23 10 0.48
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.42
Consensus pattern (22 bp):
ATTTAATAAAGTTATATTAGTA
Found at i:622067 original size:29 final size:29
Alignment explanation
Indices: 622025--622080 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 29
622015 TATTTTCTTT
622025 TGAATAAATTCAAAAAAT-AGCAAAAATGC
1 TGAATAAATTCAAAAAATCAG-AAAAATGC
622054 TGAA-AAATCTCAAAAAATCAGAAAAAT
1 TGAATAAAT-TCAAAAAATCAGAAAAAT
622081 ATAAAAATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
28 4 0.16
29 19 0.76
30 2 0.08
ACGTcount: A:0.61, C:0.11, G:0.09, T:0.20
Consensus pattern (29 bp):
TGAATAAATTCAAAAAATCAGAAAAATGC
Found at i:622291 original size:24 final size:24
Alignment explanation
Indices: 622258--622310 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
622248 AATTTTAAAA
* * *
622258 ATATATTTTCCTTTTTAAATATAT
1 ATATACTTTCATTTTAAAATATAT
622282 ATATACTTTCATTTTAAAATATAT
1 ATATACTTTCATTTTAAAATATAT
622306 A-ATAC
1 ATATAC
622311 AAAAAAAGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 4 0.15
24 22 0.85
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (24 bp):
ATATACTTTCATTTTAAAATATAT
Found at i:622305 original size:20 final size:21
Alignment explanation
Indices: 622249--622306 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 21
622239 CTTCCAGAAA
*
622249 ATTTTAAAA-ATATATTTTCC
1 ATTTTAAAATATATACTTTCC
*
622269 TTTTTAAATATATATATACTTT-C
1 ATTTT-AA-A-ATATATACTTTCC
622292 ATTTTAAAATATATA
1 ATTTTAAAATATATA
622307 ATACAAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
20 11 0.35
21 3 0.10
22 3 0.10
23 6 0.19
24 8 0.26
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (21 bp):
ATTTTAAAATATATACTTTCC
Found at i:622567 original size:17 final size:17
Alignment explanation
Indices: 622554--622590 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
622544 AACTTTTTTG
*
622554 TTTTTACTTTTTTTGTT
1 TTTTTAATTTTTTTGTT
*
622571 TTTTTAATTTTTTTCTT
1 TTTTTAATTTTTTTGTT
622588 TTT
1 TTT
622591 ATTCCCCAAA
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:0.08, C:0.05, G:0.03, T:0.84
Consensus pattern (17 bp):
TTTTTAATTTTTTTGTT
Found at i:624521 original size:24 final size:24
Alignment explanation
Indices: 624494--624541 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
624484 TTAAAAAAAC
624494 CATAACTCTTGACCTTTCATTTAA
1 CATAACTCTTGACCTTTCATTTAA
*
624518 CATAACTCTTGACTTTTCATTTAA
1 CATAACTCTTGACCTTTCATTTAA
624542 GTTTATTCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.29, C:0.23, G:0.04, T:0.44
Consensus pattern (24 bp):
CATAACTCTTGACCTTTCATTTAA
Found at i:628750 original size:43 final size:42
Alignment explanation
Indices: 628689--628852 Score: 167
Period size: 43 Copynumber: 3.9 Consensus size: 42
628679 ATTTTGATAC
* *
628689 GTGTTTTCGTGTAAGACCACGTCTGGGACGTGGGCATCGACTT
1 GTGTTTACGTGTAAGACCACGTCTGGGACGTTGGCATCGA-TT
* * *
628732 GTGTTTACGTGTAAGACCATGTCTGGGACATTGGTATCGTATT
1 GTGTTTACGTGTAAGACCACGTCTGGGACGTTGGCATCG-ATT
*
628775 -TGATTTA--TGTAAGACC-CTGCCTGGGACAG-TGGCATCGATAT
1 GTG-TTTACGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGAT-T
* *
628816 GTGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 GTGTTTACGTGTAAGACCACGTCTGGGACGTTGGCAT
628853 TGTACGAGTC
Statistics
Matches: 100, Mismatches: 11, Indels: 20
0.76 0.08 0.15
Matches are distributed among these distances:
40 2 0.02
41 28 0.28
42 5 0.05
43 63 0.63
44 2 0.02
ACGTcount: A:0.21, C:0.18, G:0.29, T:0.31
Consensus pattern (42 bp):
GTGTTTACGTGTAAGACCACGTCTGGGACGTTGGCATCGATT
Found at i:632907 original size:24 final size:24
Alignment explanation
Indices: 632875--632924 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
632865 CCATTAAAAA
632875 AACATAACTCTTGACCTTTCATTT
1 AACATAACTCTTGACCTTTCATTT
*
632899 AACATAACTCTTGACTTTTCATTT
1 AACATAACTCTTGACCTTTCATTT
632923 AA
1 AA
632925 GTTTATTCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.32, C:0.22, G:0.04, T:0.42
Consensus pattern (24 bp):
AACATAACTCTTGACCTTTCATTT
Found at i:636754 original size:31 final size:31
Alignment explanation
Indices: 636718--636776 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
636708 AAGAATATGA
* *
636718 GATAGTGAATTGAAAATAGAATGTGAAAAAC
1 GATAGTGAATTGAAAACAGAATATGAAAAAC
636749 GATAGTGAATTGAAAACAGAATATGAAA
1 GATAGTGAATTGAAAACAGAATATGAAA
636777 TATGTTATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.53, C:0.03, G:0.22, T:0.22
Consensus pattern (31 bp):
GATAGTGAATTGAAAACAGAATATGAAAAAC
Found at i:644068 original size:25 final size:25
Alignment explanation
Indices: 644040--644093 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
644030 TTTAGCGCGT
**
644040 TCTCTGAT-TATTAGCACGTTGGTGC
1 TCTCTGATAT-TTAGCACGTCAGTGC
644065 TCTCTGATATTTAGCACGTCAGTGC
1 TCTCTGATATTTAGCACGTCAGTGC
644090 TCTC
1 TCTC
644094 CGTATAGCAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 25 0.96
26 1 0.04
ACGTcount: A:0.17, C:0.24, G:0.20, T:0.39
Consensus pattern (25 bp):
TCTCTGATATTTAGCACGTCAGTGC
Found at i:644110 original size:22 final size:22
Alignment explanation
Indices: 644076--644137 Score: 106
Period size: 22 Copynumber: 2.8 Consensus size: 22
644066 CTCTGATATT
* *
644076 TAGCACGTCAGTGCTCTCCGTA
1 TAGCACTTTAGTGCTCTCCGTA
644098 TAGCACTTTAGTGCTCTCCGTA
1 TAGCACTTTAGTGCTCTCCGTA
644120 TAGCACTTTAGTGCTCTC
1 TAGCACTTTAGTGCTCTC
644138 TGTTCATTAG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.18, C:0.29, G:0.19, T:0.34
Consensus pattern (22 bp):
TAGCACTTTAGTGCTCTCCGTA
Found at i:644267 original size:31 final size:31
Alignment explanation
Indices: 644231--644289 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
644221 AAGAATATGA
* *
644231 GATAGTGAATTGAAAATAGAATGTGAAAAAC
1 GATAGTGAATTGAAAACAGAATATGAAAAAC
644262 GATAGTGAATTGAAAACAGAATATGAAA
1 GATAGTGAATTGAAAACAGAATATGAAA
644290 TATGTTATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.53, C:0.03, G:0.22, T:0.22
Consensus pattern (31 bp):
GATAGTGAATTGAAAACAGAATATGAAAAAC
Found at i:645161 original size:22 final size:22
Alignment explanation
Indices: 645136--645207 Score: 81
Period size: 22 Copynumber: 3.2 Consensus size: 22
645126 CAAGAATCAA
645136 GAAAATCAAGATTTCAAATCTT
1 GAAAATCAAGATTTCAAATCTT
* * ***
645158 GAAATTCATGATTTCAAGAATGAA
1 GAAAATCAAGATTTC-A-AATCTT
645182 GAAAATCAAGATTTCAAATCTT
1 GAAAATCAAGATTTCAAATCTT
645204 GAAA
1 GAAA
645208 TTCTTGGTCC
Statistics
Matches: 38, Mismatches: 10, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
22 20 0.53
23 2 0.05
24 16 0.42
ACGTcount: A:0.47, C:0.11, G:0.12, T:0.29
Consensus pattern (22 bp):
GAAAATCAAGATTTCAAATCTT
Found at i:645172 original size:46 final size:46
Alignment explanation
Indices: 645119--645210 Score: 175
Period size: 46 Copynumber: 2.0 Consensus size: 46
645109 ACTGTTATGG
645119 ATGATTTCAAGAATCAAGAAAATCAAGATTTCAAATCTTGAAATTC
1 ATGATTTCAAGAATCAAGAAAATCAAGATTTCAAATCTTGAAATTC
*
645165 ATGATTTCAAGAATGAAGAAAATCAAGATTTCAAATCTTGAAATTC
1 ATGATTTCAAGAATCAAGAAAATCAAGATTTCAAATCTTGAAATTC
645211 TTGGTCCAAG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.46, C:0.12, G:0.12, T:0.30
Consensus pattern (46 bp):
ATGATTTCAAGAATCAAGAAAATCAAGATTTCAAATCTTGAAATTC
Found at i:645194 original size:24 final size:24
Alignment explanation
Indices: 645121--645198 Score: 97
Period size: 24 Copynumber: 3.3 Consensus size: 24
645111 TGTTATGGAT
645121 GATTTCAAGAATCAAGAAAATCAA
1 GATTTCAAGAATCAAGAAAATCAA
** * *
645145 GATTTC-A-AATCTTGAAATTCAT
1 GATTTCAAGAATCAAGAAAATCAA
*
645167 GATTTCAAGAATGAAGAAAATCAA
1 GATTTCAAGAATCAAGAAAATCAA
645191 GATTTCAA
1 GATTTCAA
645199 ATCTTGAAAT
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
22 17 0.40
23 2 0.05
24 24 0.56
ACGTcount: A:0.47, C:0.12, G:0.13, T:0.28
Consensus pattern (24 bp):
GATTTCAAGAATCAAGAAAATCAA
Found at i:651935 original size:9 final size:9
Alignment explanation
Indices: 651908--651952 Score: 63
Period size: 9 Copynumber: 4.8 Consensus size: 9
651898 ATTTAAAGGC
651908 TTATAAAAA
1 TTATAAAAA
651917 TTCATAAAAA
1 TT-ATAAAAA
651927 CTTATAAAAA
1 -TTATAAAAA
*
651937 TTAAAAAAA
1 TTATAAAAA
651946 TTATAAA
1 TTATAAA
651953 TTATTGAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
9 16 0.50
10 14 0.44
11 2 0.06
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.31
Consensus pattern (9 bp):
TTATAAAAA
Found at i:653255 original size:29 final size:29
Alignment explanation
Indices: 653223--653278 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
653213 TTTAAAAGCT
*
653223 TATA-AAAATTGATGAAAACTTATAAATAA
1 TATAGAAAATT-ATAAAAACTTATAAATAA
*
653252 TATAGAAAATTATAAAAATTTATAAAT
1 TATAGAAAATTATAAAAACTTATAAAT
653279 TATTGAAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 18 0.75
30 6 0.25
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (29 bp):
TATAGAAAATTATAAAAACTTATAAATAA
Found at i:653274 original size:10 final size:9
Alignment explanation
Indices: 653222--653281 Score: 52
Period size: 9 Copynumber: 6.4 Consensus size: 9
653212 ATTTAAAAGC
653222 TTATAAAAA
1 TTATAAAAA
*
653231 TTGATGAAAAC
1 TT-AT-AAAAA
653242 TTATAAATAA
1 TTATAAA-AA
653252 -TATAGAAAA
1 TTATA-AAAA
653261 TTATAAAAA
1 TTATAAAAA
*
653270 TT-TATAAA
1 TTATAAAAA
653278 TTAT
1 TTAT
653282 TGAAAAGGAC
Statistics
Matches: 42, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
8 7 0.17
9 18 0.43
10 11 0.26
11 6 0.14
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.37
Consensus pattern (9 bp):
TTATAAAAA
Found at i:653275 original size:20 final size:21
Alignment explanation
Indices: 653216--653275 Score: 65
Period size: 20 Copynumber: 3.0 Consensus size: 21
653206 AAACATATTT
*
653216 AAAAGCTTATAAAAATTGAT-G
1 AAAA-CTTATAAAAATTTATAG
653237 AAAACTTATAAATAA--TATAG
1 AAAACTTATAAA-AATTTATAG
653257 AAAA-TTATAAAAATTTATA
1 AAAACTTATAAAAATTTATA
653276 AATTATTGAA
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
18 2 0.06
19 9 0.26
20 17 0.50
21 6 0.18
ACGTcount: A:0.58, C:0.03, G:0.07, T:0.32
Consensus pattern (21 bp):
AAAACTTATAAAAATTTATAG
Found at i:653667 original size:9 final size:10
Alignment explanation
Indices: 653647--653682 Score: 58
Period size: 10 Copynumber: 3.8 Consensus size: 10
653637 CATTCTCTTT
653647 TTTATAAAAA
1 TTTATAAAAA
653657 TTTAT-AAAA
1 TTTATAAAAA
653666 -TTATAAAAA
1 TTTATAAAAA
653675 TTTATAAA
1 TTTATAAA
653683 TTATTGAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
8 4 0.17
9 8 0.33
10 12 0.50
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (10 bp):
TTTATAAAAA
Found at i:653693 original size:18 final size:18
Alignment explanation
Indices: 653648--653686 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
653638 ATTCTCTTTT
653648 TTATAAAAATTTATAAAA
1 TTATAAAAATTTATAAAA
653666 TTATAAAAATTTAT-AAA
1 TTATAAAAATTTATAAAA
653683 TTAT
1 TTAT
653687 TGAAAATGAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TTATAAAAATTTATAAAA
Found at i:653884 original size:15 final size:16
Alignment explanation
Indices: 653846--653882 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
653836 AGACATTCTC
653846 TTTTTTATTGATAAAT
1 TTTTTTATTGATAAAT
**
653862 TTTTTTATTTTTAAAT
1 TTTTTTATTGATAAAT
653878 TTTTT
1 TTTTT
653883 ATCTCTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (16 bp):
TTTTTTATTGATAAAT
Found at i:654138 original size:19 final size:20
Alignment explanation
Indices: 654098--654140 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
654088 AATTATAAAA
*
654098 AAAAATTATTAGAAATATTT
1 AAAAATTATTAGAAATACTT
654118 AAAAATATATTA-AAAT-CTT
1 AAAAAT-TATTAGAAATACTT
654137 AAAA
1 AAAA
654141 TTTTATNNNN
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 6 0.29
20 10 0.48
21 5 0.24
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (20 bp):
AAAAATTATTAGAAATACTT
Found at i:654325 original size:20 final size:19
Alignment explanation
Indices: 654296--654350 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 19
654286 ATAACATGTT
*
654296 TAAAAGCTTATAAAAATTCA
1 TAAAAACTTATAAAAATT-A
654316 TAAAAACTTATAAATAA-TA
1 TAAAAACTTATAAA-AATTA
*
654335 TAAAAA-TTAAAAAAAT
1 TAAAAACTTATAAAAAT
654351 ACAAATTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
17 2 0.06
18 6 0.19
19 7 0.23
20 14 0.45
21 2 0.06
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.29
Consensus pattern (19 bp):
TAAAAACTTATAAAAATTA
Found at i:660674 original size:23 final size:24
Alignment explanation
Indices: 660648--660693 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
660638 CTTTTCAAAA
*
660648 TAAA-TTGT-TGGCATTTTTTTTAT
1 TAAATTTGTGTGG-ATTTATTTTAT
660671 TAAATTTGTGTGGATTTATTTTA
1 TAAATTTGTGTGGATTTATTTTA
660694 AGGATTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 4 0.20
24 13 0.65
25 3 0.15
ACGTcount: A:0.24, C:0.02, G:0.15, T:0.59
Consensus pattern (24 bp):
TAAATTTGTGTGGATTTATTTTAT
Found at i:663657 original size:106 final size:106
Alignment explanation
Indices: 663499--663711 Score: 320
Period size: 106 Copynumber: 2.0 Consensus size: 106
663489 AAATATCGCT
* *
663499 AATTAAATCAAAATTTATGAAAAATGCCTTCGTATTTCGAGTTAATATGGAAGAAAATCATGTCT
1 AATTAAATCAAAATTTATGAAAAATGCCTTCGTATTTCGAGTTAATATGGAAGAAAATCATGCCC
* * * *
663564 TGTAAGTTAGGGCATGATGCCTCGAATTCCCAAAAATAAGA
66 CGTAACTTAGGGCACGATGCCTCAAATTCCCAAAAATAAGA
* * *
663605 AATTAAATCAAATTTTATGAAGAATGTCTTCGTATTTCGAGTTAATCA-GGAAGAAAATCATGCC
1 AATTAAATCAAAATTTATGAAAAATGCCTTCGTATTTCGAGTTAAT-ATGGAAGAAAATCATGCC
*
663669 CCGTAACTTAGGGCACGATGTCTCAAATTCCCAAAAATAAGA
65 CCGTAACTTAGGGCACGATGCCTCAAATTCCCAAAAATAAGA
663711 A
1 A
663712 TGCTCATTTT
Statistics
Matches: 96, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
106 95 0.99
107 1 0.01
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.29
Consensus pattern (106 bp):
AATTAAATCAAAATTTATGAAAAATGCCTTCGTATTTCGAGTTAATATGGAAGAAAATCATGCCC
CGTAACTTAGGGCACGATGCCTCAAATTCCCAAAAATAAGA
Found at i:664129 original size:14 final size:14
Alignment explanation
Indices: 664094--664130 Score: 67
Period size: 13 Copynumber: 2.7 Consensus size: 14
664084 CAACCAACAG
664094 AACAACAAATAGAA
1 AACAACAAATAGAA
664108 AA-AACAAATAGAA
1 AACAACAAATAGAA
664121 AACAACAAAT
1 AACAACAAAT
664131 GAAGCAGAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 13 0.59
14 9 0.41
ACGTcount: A:0.73, C:0.14, G:0.05, T:0.08
Consensus pattern (14 bp):
AACAACAAATAGAA
Found at i:665533 original size:46 final size:45
Alignment explanation
Indices: 665427--665547 Score: 192
Period size: 46 Copynumber: 2.7 Consensus size: 45
665417 CATATGACCT
* *
665427 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCTAGGCTACCA
1 CTTATCACTTTATCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
665470 CTTATCACTTTACCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTATCACTTGATCAGATAAGTGTAGCT-AAGCTACCA
665516 CTTATCACTTTATCACTTGATCAGATAAGTGT
1 CTTATCACTTTATCACTTGATCAGATAAGTGT
665548 TTATTTTTGT
Statistics
Matches: 71, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 8 0.11
44 3 0.04
45 21 0.30
46 39 0.55
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (45 bp):
CTTATCACTTTATCACTTGATCAGATAAGTGTAGCTAAGCTACCA
Found at i:672650 original size:28 final size:28
Alignment explanation
Indices: 672619--672680 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
672609 GAAAATAGAG
672619 AAAAAAATCAAAATCAAAACAA-AAAAAC
1 AAAAAAATCAAAATCAAAA-AAGAAAAAC
* * *
672647 AAAAAAATCAAAGTTAAAAAAGAAAAGC
1 AAAAAAATCAAAATCAAAAAAGAAAAAC
672675 AAAAAA
1 AAAAAA
672681 GGAAAAGGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
27 2 0.07
28 28 0.93
ACGTcount: A:0.77, C:0.10, G:0.05, T:0.08
Consensus pattern (28 bp):
AAAAAAATCAAAATCAAAAAAGAAAAAC
Found at i:674200 original size:88 final size:88
Alignment explanation
Indices: 673933--674938 Score: 1215
Period size: 88 Copynumber: 11.5 Consensus size: 88
673923 ATGAAGTTAC
673933 CAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAG--ACAAACCTTGCCTCTCTCGGTT
1 CAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGTT
* *
673996 GTAGCAGAACTGGTTGAAGACAA
66 GTAGCGGAGCTGGTTGAAGACAA
*
674019 CAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAG--ACAAACCATGCCTCTCTCGGTT
1 CAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGTT
* *
674082 GTAGTGGAGCTGGTTAAAGACAA
66 GTAGCGGAGCTGGTTGAAGACAA
* * *
674105 CAGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTATCTCGGTT
1 CAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGTT
674170 GTAGCGGAGCTGGTTGAAGACAA
66 GTAGCGGAGCTGGTTGAAGACAA
* *
674193 CAGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTT
1 CAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGTT
674258 GTAGCGGAGCTGGTTGAAGACAA
66 GTAGCGGAGCTGGTTGAAGACAA
* * *
674281 CAGATCTTGCCTTCCTGTATTGACAGCGAAGCAGACCAAAGACACAAACCTTGCCTCTCTCGGTT
1 CAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGTT
*
674346 GTAG-GAGAGCTGGTTGAATACAA
66 GTAGCG-GAGCTGGTTGAAGACAA
* * * * *
674369 CAGATCTTGCCTTCCTGCATTGATAGTGAAGCAGATCAAAGACACAAACCTTGCCTCCCTCGTTT
1 CAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGTT
* *
674434 GTAGTGGAGCTGGTTGAAGATAA
66 GTAGCGGAGCTGGTTGAAGACAA
* * *
674457 CAGATTTTTCCTTCCTGGATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGTT
1 CAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGTT
* *
674522 GTAGCAGAACTGGTTGAAGACAA
66 GTAGCGGAGCTGGTTGAAGACAA
* * *
674545 CAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCG-A-ACACAAACCTTACCTCCCTCGTTT
1 CAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGTT
* * * **
674608 GCAGTGGAGCTAGTTGAAGATGA
66 GTAGCGGAGCTGGTTGAAGACAA
* *
674631 CAGATTTTGCCTTCCTGCATTGATAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGTT
1 CAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGTT
* *
674696 GTAGCAGAGCTAGTTGAAGACAA
66 GTAGCGGAGCTGGTTGAAGACAA
* * ** * * * * ** *
674719 CAGATATTGTCTTCCTATACTGACGGCGAAGCAGATCGAAGAAACCAGTCTTGCCT-TC-CTGTA
1 CAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGT-
** * * * * *
674782 CTAACAGCGGAGCAGGCTAAAGATAG
65 -T-GTAGCGGAGCTGGTTGAAGACAA
* * * * * ** **
674808 TAGATCTTGCCTTCCTGTATTGACGGCGAAGCAGATCGAAGAAACTAGTCTTGCCT-TC-CTATA
1 CAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGT-
* * * ** * *
674871 CTGACAGCAGAGCAGACTGAAGATAG
65 -TG-TAGCGGAGCTGGTTGAAGACAA
*
674897 CAGATCTTGCATTCCTGCATTGACAGCGAAGCAGATCGAAGA
1 CAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGA
674939 TGGCGGATTT
Statistics
Matches: 815, Mismatches: 95, Indels: 17
0.88 0.10 0.02
Matches are distributed among these distances:
86 196 0.24
87 5 0.01
88 484 0.59
89 130 0.16
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (88 bp):
CAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGTT
GTAGCGGAGCTGGTTGAAGACAA
Found at i:674845 original size:89 final size:89
Alignment explanation
Indices: 674719--674938 Score: 314
Period size: 89 Copynumber: 2.5 Consensus size: 89
674709 TTGAAGACAA
* * * * *
674719 CAGATATTGTCTTCCTATACTGACGGCGAAGCAGATCGAAGAAACCAGTCTTGCCTTCCTGTACT
1 CAGATCTTGCCTTCCTGTATTGACGGCGAAGCAGATCGAAGAAACCAGTCTTGCCTTCCTATACT
* *
674784 AACAGCGGAGCAGGCTAAAGATAG
66 AACAGCAGAGCAGACTAAAGATAG
* *
674808 TAGATCTTGCCTTCCTGTATTGACGGCGAAGCAGATCGAAGAAACTAGTCTTGCCTTCCTATACT
1 CAGATCTTGCCTTCCTGTATTGACGGCGAAGCAGATCGAAGAAACCAGTCTTGCCTTCCTATACT
* *
674873 GACAGCAGAGCAGACTGAAGATAG
66 AACAGCAGAGCAGACTAAAGATAG
* * *
674897 CAGATCTTGCATTCCTGCATTGACAGCGAAGCAGATCGAAGA
1 CAGATCTTGCCTTCCTGTATTGACGGCGAAGCAGATCGAAGA
674939 TGGCGGATTT
Statistics
Matches: 116, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
89 116 1.00
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.23
Consensus pattern (89 bp):
CAGATCTTGCCTTCCTGTATTGACGGCGAAGCAGATCGAAGAAACCAGTCTTGCCTTCCTATACT
AACAGCAGAGCAGACTAAAGATAG
Found at i:674885 original size:44 final size:45
Alignment explanation
Indices: 674711--674938 Score: 200
Period size: 45 Copynumber: 5.1 Consensus size: 45
674701 AGAGCTAGTT
* * * *
674711 GAAGACAAC-AGATATTGTCTTCCTATACTGACGGCGAAGCAGATC
1 GAAGA-AACTAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATC
* * * *
674756 GAAGAAACCAG-TCTTGCCTTCCTGTACTAACAGCGGAGCAG-GC
1 GAAGAAACTAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATC
* * * * *
674799 TAAAGATAGTAGATCTTGCCTTCCTGTATTGACGGCGAAGCAGATC
1 -GAAGAAACTAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATC
*
674845 GAAGAAACTAG-TCTTGCCTTCCTATACTGACAGC-AGAGCAGA-C
1 GAAGAAACTAGATCTTGCCTTCCTGTACTGACAGCGA-AGCAGATC
* * * *
674888 TGAAGATAGC-AGATCTTGCATTCCTGCATTGACAGCGAAGCAGATC
1 -GAAGA-AACTAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATC
674934 GAAGA
1 GAAGA
674939 TGGCGGATTT
Statistics
Matches: 146, Mismatches: 27, Indels: 20
0.76 0.14 0.10
Matches are distributed among these distances:
43 3 0.02
44 67 0.46
45 73 0.50
46 3 0.02
ACGTcount: A:0.31, C:0.23, G:0.24, T:0.22
Consensus pattern (45 bp):
GAAGAAACTAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATC
Found at i:675082 original size:40 final size:40
Alignment explanation
Indices: 675034--675186 Score: 191
Period size: 40 Copynumber: 3.8 Consensus size: 40
675024 AGATTACTGA
*
675034 TCTTATCTCCCTAAGCAGTAGTTGAGCAGATCGCATCAAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAG
* *
675074 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CAGAACCACAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-GCATCA-AG
* *
675115 ACCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAG
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAG
* **
675156 TCTTAGCTCCCTGAAGTTGTAGTGGAGCAGA
1 TCTTATCTCCCT-AAGCAGTAGTGGAGCAGA
675187 CTAAAACCAC
Statistics
Matches: 97, Mismatches: 11, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
39 1 0.01
40 43 0.44
41 20 0.21
42 32 0.33
43 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (40 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAG
Found at i:675131 original size:82 final size:84
Alignment explanation
Indices: 675035--675197 Score: 258
Period size: 82 Copynumber: 2.0 Consensus size: 84
675025 GATTACTGAT
* * *
675035 CTTATCTCCCTAAGCAGTAGTTGAGCAGATCGCATCAAGTCTTATCTCCCT-AAGCAGTAGTGGA
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTAGCTCCCTGAAGCAGTAGTGGA
*
675099 GCAGAC-AGAACCACAGAC
66 GCAGACTAAAACCACAGAC
**
675117 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTAGCTCCCTGAAGTTGTAGTGGA
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTAGCTCCCTGAAGCAGTAGTGGA
675182 GCAGACTAAAACCACA
66 GCAGACTAAAACCACA
675198 AATCTCATCC
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
82 48 0.66
83 17 0.23
84 8 0.11
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.23
Consensus pattern (84 bp):
CTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTAGCTCCCTGAAGCAGTAGTGGA
GCAGACTAAAACCACAGAC
Found at i:675758 original size:14 final size:13
Alignment explanation
Indices: 675725--675750 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
675715 CCAACAGAAC
675725 AACAAATAGAAAA
1 AACAAATAGAAAA
675738 AACAAATAGAAAA
1 AACAAATAGAAAA
675751 CGACAAATGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.77, C:0.08, G:0.08, T:0.08
Consensus pattern (13 bp):
AACAAATAGAAAA
Found at i:687862 original size:11 final size:10
Alignment explanation
Indices: 687840--687872 Score: 50
Period size: 11 Copynumber: 3.3 Consensus size: 10
687830 CCAGGTAATC
687840 CTTCCTTTCT
1 CTTCCTTTCT
687850 CTTCCTCTTCT
1 CTTCCT-TTCT
687861 CTTCC-TTCT
1 CTTCCTTTCT
687870 CTT
1 CTT
687873 TCCAGATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 7 0.32
10 6 0.27
11 9 0.41
ACGTcount: A:0.00, C:0.42, G:0.00, T:0.58
Consensus pattern (10 bp):
CTTCCTTTCT
Found at i:691574 original size:21 final size:23
Alignment explanation
Indices: 691548--691589 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
691538 CCAAAATTGA
*
691548 ATGCAAG-CCAA-TTTTTTAACC
1 ATGCAAGTCCAAGATTTTTAACC
691569 ATGCAAGTCCAAGATTTTTAA
1 ATGCAAGTCCAAGATTTTTAA
691590 TCTCTAGGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 4 0.22
23 7 0.39
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.33
Consensus pattern (23 bp):
ATGCAAGTCCAAGATTTTTAACC
Found at i:700447 original size:9 final size:11
Alignment explanation
Indices: 700423--700447 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
700413 ATTTAGTATT
700423 TATATAATAAA
1 TATATAATAAA
700434 TATATAATAAA
1 TATATAATAAA
700445 TAT
1 TAT
700448 TTTTATTTTT
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
TATATAATAAA
Found at i:704094 original size:26 final size:26
Alignment explanation
Indices: 704063--704134 Score: 74
Period size: 26 Copynumber: 2.7 Consensus size: 26
704053 TAGGTTAGTA
704063 ATTTAATATAAATATATATAATAATT
1 ATTTAATATAAATATATATAATAATT
* *
704089 ATTTAATATATATAATTAATATAATTATT
1 ATTTAATATAAAT-A-T-ATATAATAATT
*
704118 TTTATAATAT-AATATAT
1 ATT-TAATATAAATATAT
704135 TCAAGCCGGG
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
26 14 0.37
27 2 0.05
28 2 0.05
29 14 0.37
30 6 0.16
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (26 bp):
ATTTAATATAAATATATATAATAATT
Found at i:708068 original size:30 final size:30
Alignment explanation
Indices: 708028--708093 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
708018 ACCACTAACT
*
708028 ATTTTCTGTTAGAGACGTAACAGAGCTACC
1 ATTTTCTGTTACAGACGTAACAGAGCTACC
* * * **
708058 ATTTTTTGTTACAGACTTAACGGAGCTGTC
1 ATTTTCTGTTACAGACGTAACAGAGCTACC
708088 ATTTTC
1 ATTTTC
708094 CATCTCCCAC
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.38
Consensus pattern (30 bp):
ATTTTCTGTTACAGACGTAACAGAGCTACC
Found at i:714689 original size:35 final size:36
Alignment explanation
Indices: 714638--714708 Score: 90
Period size: 35 Copynumber: 2.0 Consensus size: 36
714628 CTGACCTTTA
* *
714638 AAAAAGGTTAGGATAAAC-CGGTCTAAGGCAACCTT
1 AAAAAGCTTAGAATAAACTCGGTCTAAGGCAACCTT
** *
714673 AAAAAGCTTAGAATAAACTTTGTCTAAGGCGACCTT
1 AAAAAGCTTAGAATAAACTCGGTCTAAGGCAACCTT
714709 TAGACAGTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
35 16 0.53
36 14 0.47
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.24
Consensus pattern (36 bp):
AAAAAGCTTAGAATAAACTCGGTCTAAGGCAACCTT
Found at i:718228 original size:95 final size:95
Alignment explanation
Indices: 718113--718304 Score: 294
Period size: 95 Copynumber: 2.0 Consensus size: 95
718103 ATCTTCATAT
* * * *
718113 ATATATATATGTATATAAGTTACAATCCATTAACATGACGTGCTAACGGTAATTAGGCGTCATGC
1 ATATATATATATATAAAAGTTACAATCCATTAACATGACATGCTAACGGTAATTAGGCGCCATGC
718178 ATGGCGACACGTTACTTCCCTAGAGATTAC
66 ATGGCGACACGTTACTTCCCTAGAGATTAC
** * * *
718208 ATATATATATATATAAAAGTTATGATCCATTAACGTGACATGCTAAGGGTAATTAGGTGCCATGC
1 ATATATATATATATAAAAGTTACAATCCATTAACATGACATGCTAACGGTAATTAGGCGCCATGC
*
718273 ATGGTGACACGTTACTTCCCTAGAGATTAC
66 ATGGCGACACGTTACTTCCCTAGAGATTAC
718303 AT
1 AT
718305 GTGTCTTCAA
Statistics
Matches: 87, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
95 87 1.00
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.31
Consensus pattern (95 bp):
ATATATATATATATAAAAGTTACAATCCATTAACATGACATGCTAACGGTAATTAGGCGCCATGC
ATGGCGACACGTTACTTCCCTAGAGATTAC
Found at i:720025 original size:42 final size:42
Alignment explanation
Indices: 719973--720072 Score: 182
Period size: 42 Copynumber: 2.4 Consensus size: 42
719963 GATCTTGGTA
* *
719973 TCGCACACTTAGTGCCCGTTATTCGACATCGTCATTTTTGTT
1 TCGCACACTTAGTGCCCGTTATTCAACATCGTCATTTTAGTT
720015 TCGCACACTTAGTGCCCGTTATTCAACATCGTCATTTTAGTT
1 TCGCACACTTAGTGCCCGTTATTCAACATCGTCATTTTAGTT
720057 TCGCACACTTAGTGCC
1 TCGCACACTTAGTGCC
720073 ATTCGTATAG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 56 1.00
ACGTcount: A:0.19, C:0.28, G:0.16, T:0.37
Consensus pattern (42 bp):
TCGCACACTTAGTGCCCGTTATTCAACATCGTCATTTTAGTT
Found at i:720341 original size:2 final size:2
Alignment explanation
Indices: 720334--720367 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
720324 NNGGCTACAC
720334 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
720368 TTGCATTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:720949 original size:31 final size:31
Alignment explanation
Indices: 720913--720975 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
720903 TAAACTTCCA
720913 ACCATTTTGCAAAATAGTCCCCTCATTAGCT
1 ACCATTTTGCAAAATAGTCCCCTCATTAGCT
720944 ACCATTTTGCAAAATAGTCCCCTCATTAGCT
1 ACCATTTTGCAAAATAGTCCCCTCATTAGCT
720975 A
1 A
720976 GCTCAAGCTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.30, C:0.29, G:0.10, T:0.32
Consensus pattern (31 bp):
ACCATTTTGCAAAATAGTCCCCTCATTAGCT
Found at i:723629 original size:7 final size:7
Alignment explanation
Indices: 723617--723642 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
723607 ACGAAGTGTG
723617 AATAAAT
1 AATAAAT
723624 AATAAAT
1 AATAAAT
723631 AATAAAT
1 AATAAAT
723638 AATAA
1 AATAA
723643 TAAAACCTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
AATAAAT
Found at i:727311 original size:20 final size:20
Alignment explanation
Indices: 727278--727343 Score: 55
Period size: 22 Copynumber: 3.2 Consensus size: 20
727268 CCGAATTATA
727278 TATTAAATACATAT-TTTTT
1 TATTAAATACATATATTTTT
*
727297 TATTCAAATATATATATTTTAT
1 TATT-AAATACATATATTTT-T
* *
727319 T-TTTAATCAAAATATATTTTT
1 TATTAAAT--ACATATATTTTT
727340 TATT
1 TATT
727344 TTTAATCAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
19 4 0.11
20 12 0.32
21 8 0.21
22 14 0.37
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.58
Consensus pattern (20 bp):
TATTAAATACATATATTTTT
Found at i:727316 original size:22 final size:22
Alignment explanation
Indices: 727288--727386 Score: 74
Period size: 22 Copynumber: 4.3 Consensus size: 22
727278 TATTAAATAC
*
727288 ATATTTTTTTATTCAAATATAT
1 ATATTTTTTTAATCAAATATAT
727310 ATATTTTATTTTTAATCAAAATATAT
1 ATA--TT-TTTTTAATC-AAATATAT
* * *
727336 TTTTTATTTTTAATCAAACATAT
1 ATATT-TTTTTAATCAAATATAT
* * *
727359 AT-TTTATATATATTAAATATAT
1 ATATTTTTTTA-ATCAAATATAT
727381 ATATTT
1 ATATTT
727387 AATATGGGCC
Statistics
Matches: 62, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
21 4 0.06
22 16 0.26
23 11 0.18
24 14 0.23
25 8 0.13
26 9 0.15
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (22 bp):
ATATTTTTTTAATCAAATATAT
Found at i:727333 original size:24 final size:24
Alignment explanation
Indices: 727293--727365 Score: 103
Period size: 24 Copynumber: 3.0 Consensus size: 24
727283 AATACATATT
*
727293 TTTTTATTCAAATATATATATTTTA
1 TTTTTAATCAAA-ATATATATTTTA
*
727318 TTTTTAATCAAAATATATTTTTTA
1 TTTTTAATCAAAATATATATTTTA
*
727342 TTTTTAATC-AAACATATATTTTA
1 TTTTTAATCAAAATATATATTTTA
727365 T
1 T
727366 ATATATTAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
23 13 0.30
24 20 0.45
25 11 0.25
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (24 bp):
TTTTTAATCAAAATATATATTTTA
Found at i:727382 original size:24 final size:24
Alignment explanation
Indices: 727274--727391 Score: 77
Period size: 24 Copynumber: 5.1 Consensus size: 24
727264 CGGCCCGAAT
*
727274 TATATATTAAATACATAT-TTTT-
1 TATATATTAAATATATATATTTTA
*
727296 T-TAT-TCAAATATATATATTTTA
1 TATATATTAAATATATATATTTTA
* * * *
727318 TTTTTAATCAAA-ATATATTTTTTA
1 TATAT-ATTAAATATATATATTTTA
* * * * *
727342 TTTTTAATCAA-ACATATATTTTA
1 TATATATTAAATATATATATTTTA
*
727365 TATATATTAAATATATATATTTAA
1 TATATATTAAATATATATATTTTA
727389 TAT
1 TAT
727392 GGGCCGGCTC
Statistics
Matches: 75, Mismatches: 15, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
20 10 0.13
21 7 0.09
22 2 0.03
23 22 0.29
24 29 0.39
25 5 0.07
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (24 bp):
TATATATTAAATATATATATTTTA
Found at i:727794 original size:18 final size:16
Alignment explanation
Indices: 727765--727799 Score: 52
Period size: 18 Copynumber: 2.1 Consensus size: 16
727755 TTTCAATTAA
727765 ATAAATTTAATTAATT
1 ATAAATTTAATTAATT
727781 ATAAATTATAAATTAATT
1 ATAAATT-T-AATTAATT
727799 A
1 A
727800 CACCTTAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 1 0.06
18 9 0.53
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
ATAAATTTAATTAATT
Found at i:728395 original size:25 final size:26
Alignment explanation
Indices: 728366--728415 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
728356 GAATAAATTC
* *
728366 AATGTTTCAATTTTTTTTAT-TTTAA
1 AATGTTTCAATCTTTTATATGTTTAA
728391 AATGTTTCAATCTTTTATATGTTTA
1 AATGTTTCAATCTTTTATATGTTTA
728416 TTTAATTTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 18 0.82
26 4 0.18
ACGTcount: A:0.28, C:0.06, G:0.06, T:0.60
Consensus pattern (26 bp):
AATGTTTCAATCTTTTATATGTTTAA
Found at i:738126 original size:18 final size:20
Alignment explanation
Indices: 738089--738126 Score: 53
Period size: 18 Copynumber: 2.0 Consensus size: 20
738079 TTTGGGTTTG
*
738089 AGTTTGGGGTTCTTAGTTCA
1 AGTTTGGGGTTCTGAGTTCA
738109 AGTTT-GGGTT-TGAGTTCA
1 AGTTTGGGGTTCTGAGTTCA
738127 GGGTTTTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 7 0.41
19 5 0.29
20 5 0.29
ACGTcount: A:0.16, C:0.08, G:0.32, T:0.45
Consensus pattern (20 bp):
AGTTTGGGGTTCTGAGTTCA
Found at i:739203 original size:3 final size:3
Alignment explanation
Indices: 739195--739263 Score: 52
Period size: 3 Copynumber: 22.3 Consensus size: 3
739185 ATATTATCAC
* * *
739195 AAT AAT AAT AAAT AAAT AA- AAG AAA AAT AA- AACT AAT AAT GAT CAAT
1 AAT AAT AAT -AAT -AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT -AAT
*
739242 AAT AAT AAT AAT AGT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT A
739264 TGAAATTTAT
Statistics
Matches: 55, Mismatches: 6, Indels: 10
0.77 0.08 0.14
Matches are distributed among these distances:
2 4 0.07
3 40 0.73
4 11 0.20
ACGTcount: A:0.67, C:0.03, G:0.04, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:739736 original size:7 final size:7
Alignment explanation
Indices: 739716--739745 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
739706 CTCTCAAAAC
739716 CTCCCTT
1 CTCCCTT
739723 C-CCCTT
1 CTCCCTT
739729 CTCCCTT
1 CTCCCTT
739736 CTCCCTT
1 CTCCCTT
739743 CTC
1 CTC
739746 GATATAGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.00, C:0.60, G:0.00, T:0.40
Consensus pattern (7 bp):
CTCCCTT
Found at i:739743 original size:14 final size:13
Alignment explanation
Indices: 739716--739745 Score: 51
Period size: 13 Copynumber: 2.2 Consensus size: 13
739706 CTCTCAAAAC
739716 CTCCCTTCCCCTT
1 CTCCCTTCCCCTT
739729 CTCCCTTCTCCCTT
1 CTCCCTTC-CCCTT
739743 CTC
1 CTC
739746 GATATAGATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.00, C:0.60, G:0.00, T:0.40
Consensus pattern (13 bp):
CTCCCTTCCCCTT
Found at i:746928 original size:19 final size:19
Alignment explanation
Indices: 746904--746947 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
746894 TTCAATAACA
746904 ATAATAA-AATAATAGCAAT
1 ATAATAACAA-AATAGCAAT
*
746923 ATAATAACAAAATAGTAAT
1 ATAATAACAAAATAGCAAT
*
746942 AAAATA
1 ATAATA
746948 GTTTGTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 20 0.91
20 2 0.09
ACGTcount: A:0.66, C:0.05, G:0.05, T:0.25
Consensus pattern (19 bp):
ATAATAACAAAATAGCAAT
Found at i:755485 original size:22 final size:23
Alignment explanation
Indices: 755433--755500 Score: 79
Period size: 23 Copynumber: 3.0 Consensus size: 23
755423 GCGGTTCATT
*
755433 AATTTAGCACTTCA-GTGCTCTTG
1 AATTTAGCACTT-ATGTGCTCCTG
*
755456 AATTTAGCA-TTTTGGTGCTCCTG
1 AATTTAGCACTTAT-GTGCTCCTG
755479 -ATTTAGCACTTATGTGCTCCTG
1 AATTTAGCACTTATGTGCTCCTG
755501 TATTAGTGAT
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
22 19 0.49
23 20 0.51
ACGTcount: A:0.19, C:0.21, G:0.19, T:0.41
Consensus pattern (23 bp):
AATTTAGCACTTATGTGCTCCTG
Found at i:755506 original size:22 final size:22
Alignment explanation
Indices: 755434--755500 Score: 75
Period size: 22 Copynumber: 3.0 Consensus size: 22
755424 CGGTTCATTA
*
755434 ATTTAGCACTTCA-GTGCTCTTG
1 ATTTAGCACTT-ATGTGCTCCTG
*
755456 AATTTAGCA-TTTTGGTGCTCCTG
1 -ATTTAGCACTTAT-GTGCTCCTG
755479 ATTTAGCACTTATGTGCTCCTG
1 ATTTAGCACTTATGTGCTCCTG
755501 TATTAGTGAT
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
22 19 0.50
23 19 0.50
ACGTcount: A:0.18, C:0.21, G:0.19, T:0.42
Consensus pattern (22 bp):
ATTTAGCACTTATGTGCTCCTG
Found at i:757712 original size:83 final size:83
Alignment explanation
Indices: 757618--757872 Score: 492
Period size: 83 Copynumber: 3.1 Consensus size: 83
757608 TTTGACTGTG
*
757618 AAGATAGTAGTGATGACAAATTTAGGGAGGTTTTGTATTTCACCTTATGAGAATCTGTTGATTTT
1 AAGATAATAGTGATGACAAATTTAGGGAGGTTTTGTATTTCACCTTATGAGAATCTGTTGATTTT
757683 AGGTTACCAAAGAGCTTC
66 AGGTTACCAAAGAGCTTC
757701 AAGATAATAGTGATGACAAATTTAGGGAGGTTTTGTATTTCACCTTATGAGAATCTGTTGATTTT
1 AAGATAATAGTGATGACAAATTTAGGGAGGTTTTGTATTTCACCTTATGAGAATCTGTTGATTTT
757766 AGGTTACCAAAGAGCTTC
66 AGGTTACCAAAGAGCTTC
*
757784 AAGATAATAGTGATGACAAATTTAGGGAGGTTTTGTATTTCACCTTATGAGAATCTGTCGATTTT
1 AAGATAATAGTGATGACAAATTTAGGGAGGTTTTGTATTTCACCTTATGAGAATCTGTTGATTTT
757849 AGGTTACCAAAGAGCTTC
66 AGGTTACCAAAGAGCTTC
757867 AAGATA
1 AAGATA
757873 CAATGGCACA
Statistics
Matches: 170, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 170 1.00
ACGTcount: A:0.32, C:0.11, G:0.22, T:0.35
Consensus pattern (83 bp):
AAGATAATAGTGATGACAAATTTAGGGAGGTTTTGTATTTCACCTTATGAGAATCTGTTGATTTT
AGGTTACCAAAGAGCTTC
Found at i:771667 original size:30 final size:31
Alignment explanation
Indices: 771633--771702 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 31
771623 TGGCAATTGC
*
771633 TCCCACATTGGGACCTGGACTT-GAAACTT-T
1 TCCCACATTGGGACCTAGACTTGGAAA-TTAT
* * *
771663 TCCCATATTGGGGCCTAGACTTGGCAATTAT
1 TCCCACATTGGGACCTAGACTTGGAAATTAT
771694 TCCCACATT
1 TCCCACATT
771703 AAGGCTTGAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
30 21 0.64
31 12 0.36
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.31
Consensus pattern (31 bp):
TCCCACATTGGGACCTAGACTTGGAAATTAT
Found at i:784198 original size:38 final size:39
Alignment explanation
Indices: 784121--784198 Score: 88
Period size: 40 Copynumber: 2.0 Consensus size: 39
784111 GTTATGCCTA
* *
784121 AAATAAAATATAAAAATAATATAGATATTTATATAATGT
1 AAATAAAATATAAAAATAATATAGATATTAAAATAATGT
* * *
784160 AAATAAATATATAAAATTTATATA-A-ATTAAAATTATGT
1 AAATAAA-ATATAAAAATAATATAGATATTAAAATAATGT
784198 A
1 A
784199 GGTGAAAAGA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
38 11 0.33
39 8 0.24
40 14 0.42
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (39 bp):
AAATAAAATATAAAAATAATATAGATATTAAAATAATGT
Done.