Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 183 of 250
Found at i:57835432 original size:35 final size:35
Alignment explanation
Indices: 57835393--57835512 Score: 188
Period size: 35 Copynumber: 3.4 Consensus size: 35
57835383 AGAAAATTTT
*
57835393 TGAAACGTAGGTATGGTATCATCCATACTGAGTTG
1 TGAAACGTAGGTATGGTATTATCCATACTGAGTTG
*
57835428 TGAAACGTAGGTATGGTATTAACCATACTGAGTTG
1 TGAAACGTAGGTATGGTATTATCCATACTGAGTTG
* *
57835463 TGAAACGTAAGTATGGTATTATCCATACTGAGTTAA
1 TGAAACGTAGGTATGGTATTATCCATACTGAGTT-G
57835499 T-AAACGTAGGTATG
1 TGAAACGTAGGTATG
57835513 ACATTTCCTG
Statistics
Matches: 78, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
35 77 0.99
36 1 0.01
ACGTcount: A:0.33, C:0.12, G:0.24, T:0.32
Consensus pattern (35 bp):
TGAAACGTAGGTATGGTATTATCCATACTGAGTTG
Found at i:57836171 original size:18 final size:17
Alignment explanation
Indices: 57836150--57836205 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 17
57836140 TAATAGTCAG
57836150 TTATTCGATAACAATCAA
1 TTATTC-ATAACAATCAA
* *
57836168 TTATTCAATAATAATCAG
1 TTATTC-ATAACAATCAA
*
57836186 TTATTCAGTATCAATCAA
1 TTATTCA-TAACAATCAA
57836204 TT
1 TT
57836206 GATCGGTTAT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
17 1 0.03
18 30 0.97
ACGTcount: A:0.41, C:0.14, G:0.05, T:0.39
Consensus pattern (17 bp):
TTATTCATAACAATCAA
Found at i:57836277 original size:19 final size:19
Alignment explanation
Indices: 57836212--57836284 Score: 69
Period size: 18 Copynumber: 3.9 Consensus size: 19
57836202 AATTGATCGG
* *
57836212 TTATCCAGTAACAGTC-AA
1 TTATTCAGTAACAATCAAA
* *
57836230 TTATTCACTAAAAATCAAA
1 TTATTCAGTAACAATCAAA
* *
57836249 -TATACAGTAACAATTAAA
1 TTATTCAGTAACAATCAAA
*
57836267 TTATTCAGTAACAGTCAA
1 TTATTCAGTAACAATCAA
57836285 TCTTTCCAGT
Statistics
Matches: 42, Mismatches: 11, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
18 26 0.62
19 16 0.38
ACGTcount: A:0.47, C:0.16, G:0.07, T:0.30
Consensus pattern (19 bp):
TTATTCAGTAACAATCAAA
Found at i:57836661 original size:28 final size:23
Alignment explanation
Indices: 57836606--57836650 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
57836596 CTAGCATGAC
57836606 TAGTTAATAGGGTATTTAATTTT
1 TAGTTAATAGGGTATTTAATTTT
57836629 TAGTTAATAGGGTATTTAATTT
1 TAGTTAATAGGGTATTTAATTT
57836651 ACTTTTCAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.31, C:0.00, G:0.18, T:0.51
Consensus pattern (23 bp):
TAGTTAATAGGGTATTTAATTTT
Found at i:57836690 original size:20 final size:22
Alignment explanation
Indices: 57836662--57836717 Score: 71
Period size: 21 Copynumber: 2.5 Consensus size: 22
57836652 CTTTTCAGTT
57836662 TTCAATTAATTCATATTTT-AA
1 TTCAATTAATTCATATTTTCAA
*
57836683 TT-AATTAATTATATATTTTCAA
1 TTCAATTAATT-CATATTTTCAA
57836705 TTCAATATAATTC
1 TTCAAT-TAATTC
57836718 CATTCACTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
20 8 0.28
21 9 0.31
22 4 0.14
23 3 0.10
24 5 0.17
ACGTcount: A:0.39, C:0.09, G:0.00, T:0.52
Consensus pattern (22 bp):
TTCAATTAATTCATATTTTCAA
Found at i:57845321 original size:38 final size:37
Alignment explanation
Indices: 57845279--57845522 Score: 274
Period size: 38 Copynumber: 6.7 Consensus size: 37
57845269 GGCTTAAAGA
*
57845279 CCCGCAGGCTTCGTGCTGATAATATATCCAGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTAATATATCC-GGTTAAAT
*
57845317 CCCGCAGGCTTCGTGCTGGTATTATATCCGAGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTAATATATCCG-GTTAAAT
* *
57845355 CCCGTAGGCTTCGTGCTGGTATTATATCCGG----A-
1 CCCGCAGGCTTCGTGCTGGTAATATATCCGGTTAAAT
57845387 -----AGGCTTCGTGCTGGTAATATATCCGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTAATATATCC-GGTTAAAT
57845420 CCCGCAGGCTTCGTGCTGGTAATATATCCGAGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTAATATATCCG-GTTAAAT
* * *
57845458 CCTGTAGGCTTCGTGCTGGTATTATATCCGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTAATATATCC-GGTTAAAT
* * * *
57845496 CCCGCAGGCCTAGTACTGGTATTATAT
1 CCCGCAGGCTTCGTGCTGGTAATATAT
57845523 TCAGGCCTAG
Statistics
Matches: 180, Mismatches: 12, Indels: 28
0.82 0.05 0.13
Matches are distributed among these distances:
27 23 0.13
28 2 0.01
32 1 0.01
33 1 0.01
37 3 0.02
38 149 0.83
39 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.32
Consensus pattern (37 bp):
CCCGCAGGCTTCGTGCTGGTAATATATCCGGTTAAAT
Found at i:57845369 original size:76 final size:73
Alignment explanation
Indices: 57845263--57845522 Score: 302
Period size: 76 Copynumber: 3.6 Consensus size: 73
57845253 ATTTGATGTG
* *
57845263 TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGATAATATATCCAGGTTAAATCCCGCAGGCTT
1 TATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTAATATATCC-GGTTAAAT-CCG-AGGCTT
57845328 CGTGCTGGTATTA
61 CGTGCTGGTATTA
* * *
57845341 TATCCGAGTTAAATCCCGTAGGCTTCGTGCTGGTATTATATCCGG----A----AGGCTTCGTGC
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATCCGGTTAAATCCGAGGCTTCGTGC
*
57845398 TGGTAATA
66 TGGTATTA
57845406 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATCCGAGTTAAATCCTGTAGGCTTCG
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATCCG-GTTAAATCC-G-AGGCTTCG
57845471 TGCTGGTATTA
63 TGCTGGTATTA
* * * *
57845482 TATCCGGGTTAAATCCCGCAGGCCTAGTACTGGTATTATAT
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATAT
57845523 TCAGGCCTAG
Statistics
Matches: 157, Mismatches: 14, Indels: 24
0.81 0.07 0.12
Matches are distributed among these distances:
65 59 0.38
66 1 0.01
70 1 0.01
71 1 0.01
75 2 0.01
76 81 0.52
77 5 0.03
78 7 0.04
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.31
Consensus pattern (73 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATCCGGTTAAATCCGAGGCTTCGTGC
TGGTATTA
Found at i:57845391 original size:27 final size:27
Alignment explanation
Indices: 57845360--57845412 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
57845350 TAAATCCCGT
*
57845360 AGGCTTCGTGCTGGTATTATATCCGGA
1 AGGCTTCGTGCTGGTAATATATCCGGA
57845387 AGGCTTCGTGCTGGTAATATATCCGG
1 AGGCTTCGTGCTGGTAATATATCCGG
57845413 GTTAAATCCC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.19, C:0.19, G:0.30, T:0.32
Consensus pattern (27 bp):
AGGCTTCGTGCTGGTAATATATCCGGA
Found at i:57845429 original size:65 final size:68
Alignment explanation
Indices: 57845322--57845522 Score: 246
Period size: 65 Copynumber: 2.9 Consensus size: 68
57845312 TAAATCCCGC
* *
57845322 AGGCTTCGTGCTGGTATTATATCCGAGTTAAATCCCGTAGGCTTCGTGCTGGTATTATATCCG-G
1 AGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGAG
57845386 -A-
66 AAT
* *
57845387 AGGCTTCGTGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATCCGAG
1 AGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGAG
57845452 TTAAATCCTGT
66 ---AA-----T
* * *
57845463 AGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCCTAGTACTGGTATTATAT
1 AGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATAT
57845523 TCAGGCCTAG
Statistics
Matches: 116, Mismatches: 9, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
65 59 0.51
66 1 0.01
70 1 0.01
76 55 0.47
ACGTcount: A:0.21, C:0.20, G:0.25, T:0.33
Consensus pattern (68 bp):
AGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGAG
AAT
Found at i:57845465 original size:103 final size:103
Alignment explanation
Indices: 57845284--57845488 Score: 374
Period size: 103 Copynumber: 2.0 Consensus size: 103
57845274 AAAGACCCGC
*
57845284 AGGCTTCGTGCTGATAATATATCCAGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGAG
1 AGGCTTCGTGCTGATAATATATCCAGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATCCGAG
57845349 TTAAATCCCGTAGGCTTCGTGCTGGTATTATATCCGGA
66 TTAAATCCCGTAGGCTTCGTGCTGGTATTATATCCGGA
* *
57845387 AGGCTTCGTGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATCCGAG
1 AGGCTTCGTGCTGATAATATATCCAGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATCCGAG
*
57845452 TTAAATCCTGTAGGCTTCGTGCTGGTATTATATCCGG
66 TTAAATCCCGTAGGCTTCGTGCTGGTATTATATCCGG
57845489 GTTAAATCCC
Statistics
Matches: 98, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 98 1.00
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.32
Consensus pattern (103 bp):
AGGCTTCGTGCTGATAATATATCCAGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATCCGAG
TTAAATCCCGTAGGCTTCGTGCTGGTATTATATCCGGA
Found at i:57845574 original size:44 final size:44
Alignment explanation
Indices: 57845519--57845649 Score: 144
Period size: 45 Copynumber: 3.0 Consensus size: 44
57845509 TACTGGTATT
* * *
57845519 ATATTCAGGCCTAGAGCCTAGCAGGTTATTATGCCGGTGAGAT-
1 ATATTCGGGCCTAGAGCCTAGCAGGTTATAATGCCGGTGACATG
*
57845562 ACTATTCGGGCCTTTGAGCCTAGCAGGTTATAATGCCGGTGACATG
1 A-TATTCGGGCC-TAGAGCCTAGCAGGTTATAATGCCGGTGACATG
* * **
57845608 ATA-TCGAGCCTCGAGCCTAGCAGGCGA-AATGCCGGTGA-ATG
1 ATATTCGGGCCTAGAGCCTAGCAGGTTATAATGCCGGTGACATG
57845649 A
1 A
57845650 ATAAAAGTCT
Statistics
Matches: 77, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
41 4 0.05
42 11 0.14
43 15 0.19
44 15 0.19
45 31 0.40
46 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.24
Consensus pattern (44 bp):
ATATTCGGGCCTAGAGCCTAGCAGGTTATAATGCCGGTGACATG
Found at i:57847780 original size:97 final size:97
Alignment explanation
Indices: 57847677--57847854 Score: 250
Period size: 97 Copynumber: 1.8 Consensus size: 97
57847667 CGCCTCTATT
* * * *
57847677 GTGGAAGATGGTTAGGAATGAGTAATAAAGTATTAAATTTCCAAAGTAGACAGATAAATGCATAA
1 GTGGAAGATGATTAAGAATGAGTAATAAAGCATTAAATTTCCAAAGTAGACAGATAAATGCACAA
57847742 GTGAG-AAAAACTAAAATTTCTGATTTTGCCCC
66 GTG-GCAAAAACTAAAATTTCTGATTTTGCCCC
* * * ***
57847774 GTGGAAGATGATTAAGCATGAGTAATGAAGCATTAAATTTTCAAAGTAGTTGGATAAATGCACAA
1 GTGGAAGATGATTAAGAATGAGTAATAAAGCATTAAATTTCCAAAGTAGACAGATAAATGCACAA
57847839 GTGGCAAAAACTAAAA
66 GTGGCAAAAACTAAAA
57847855 GTTTATATTC
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
96 1 0.01
97 69 0.99
ACGTcount: A:0.43, C:0.10, G:0.21, T:0.26
Consensus pattern (97 bp):
GTGGAAGATGATTAAGAATGAGTAATAAAGCATTAAATTTCCAAAGTAGACAGATAAATGCACAA
GTGGCAAAAACTAAAATTTCTGATTTTGCCCC
Found at i:57852219 original size:7 final size:7
Alignment explanation
Indices: 57852207--57852232 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
57852197 TCACTTTAAA
57852207 AATTTAT
1 AATTTAT
57852214 AATTTAT
1 AATTTAT
57852221 AATTTAT
1 AATTTAT
57852228 AATTT
1 AATTT
57852233 TTTATTAGTG
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:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
AATTTAT
Found at i:57862840 original size:9 final size:9
Alignment explanation
Indices: 57862828--57862882 Score: 53
Period size: 9 Copynumber: 6.2 Consensus size: 9
57862818 ATTTTTTTGG
57862828 AATTTTTAA
1 AATTTTTAA
57862837 AATTTTTAA
1 AATTTTTAA
*
57862846 AA-ATTT-A
1 AATTTTTAA
*
57862853 AA-TTTTGA
1 AATTTTTAA
57862861 AATTTTTATA
1 AATTTTTA-A
57862871 AATATTTTAA
1 AAT-TTTTAA
57862881 AA
1 AA
57862883 ATTAAAAATG
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
7 6 0.15
8 6 0.15
9 15 0.38
10 7 0.18
11 5 0.13
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (9 bp):
AATTTTTAA
Found at i:57863687 original size:15 final size:15
Alignment explanation
Indices: 57863641--57863687 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
57863631 TAAGTTATAT
57863641 ATATATATAATTCAA
1 ATATATATAATTCAA
** *
57863656 ATATA-CCAATTAAAA
1 ATATATATAATT-CAA
57863671 ATATATATAATTCAA
1 ATATATATAATTCAA
57863686 AT
1 AT
57863688 GTGTTTTTAT
Statistics
Matches: 24, Mismatches: 6, Indels: 4
0.71 0.18 0.12
Matches are distributed among these distances:
14 4 0.17
15 16 0.67
16 4 0.17
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (15 bp):
ATATATATAATTCAA
Found at i:57871185 original size:47 final size:47
Alignment explanation
Indices: 57871064--57871241 Score: 200
Period size: 47 Copynumber: 3.8 Consensus size: 47
57871054 ATAATTTCAC
* *
57871064 CCATAATGAACTCGGAACGCAACTCAACGAGCTCGGGTG-TTCACAT
1 CCATAATGAACTCGGAACGCAACTCAACGAGTTCGGATGCTTCACAT
* * * *
57871110 CCATAATGAACTCGAAACACAACTCAACGAGTTTGGATGCTT-GCAT
1 CCATAATGAACTCGGAACGCAACTCAACGAGTTCGGATGCTTCACAT
* *
57871156 CCATAAGTGAACTCGGAACGCAACTCAACGAGTTCGGATGCCTCATAAT
1 CCATAA-TGAACTCGGAACGCAACTCAACGAGTTCGGATGCTTCA-CAT
* * * * *
57871205 TC-TCACGAATTCGGAATGCAACTCAACGAGTTCGGAT
1 CCATAATGAACTCGGAACGCAACTCAACGAGTTCGGAT
57871242 CTCAATTTCC
Statistics
Matches: 111, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
46 43 0.39
47 63 0.57
48 2 0.02
49 3 0.03
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (47 bp):
CCATAATGAACTCGGAACGCAACTCAACGAGTTCGGATGCTTCACAT
Found at i:57874329 original size:25 final size:23
Alignment explanation
Indices: 57874303--57874347 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
57874293 TATACTAAAT
* *
57874303 ATATATATTTTTTATTTTTAATC
1 ATATTTATATTTTATTTTTAATC
57874326 ATATTTATATTTTATTTTTAAT
1 ATATTTATATTTTATTTTTAAT
57874348 TTTAATATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (23 bp):
ATATTTATATTTTATTTTTAATC
Found at i:57874344 original size:29 final size:27
Alignment explanation
Indices: 57874311--57874365 Score: 74
Period size: 29 Copynumber: 2.0 Consensus size: 27
57874301 ATATATATAT
* *
57874311 TTTTTATTTTTAATCATATTTATATTTTA
1 TTTTTAATTTTAAT-ATAATTA-ATTTTA
57874340 TTTTTAATTTTAATATAATTAATTTT
1 TTTTTAATTTTAATATAATTAATTTT
57874366 TATTATATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 5 0.21
28 6 0.25
29 13 0.54
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (27 bp):
TTTTTAATTTTAATATAATTAATTTTA
Found at i:57874433 original size:39 final size:40
Alignment explanation
Indices: 57874363--57874447 Score: 109
Period size: 39 Copynumber: 2.1 Consensus size: 40
57874353 TATAATTAAT
*
57874363 TTTTATTATATTTTCAATTTGTGTATTGTTTTAAAAATTG
1 TTTTAATATATTTTCAATTTGTGTATTGTTTTAAAAATTG
* * * * *
57874403 TTTTAATATATTTT-TATTTGTTTTTTGTTTTAATATTTG
1 TTTTAATATATTTTCAATTTGTGTATTGTTTTAAAAATTG
57874442 TTTTAA
1 TTTTAA
57874448 ATGTATTTGA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 26 0.67
40 13 0.33
ACGTcount: A:0.25, C:0.01, G:0.08, T:0.66
Consensus pattern (40 bp):
TTTTAATATATTTTCAATTTGTGTATTGTTTTAAAAATTG
Found at i:57875590 original size:18 final size:18
Alignment explanation
Indices: 57875537--57875590 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 18
57875527 CTTATAAAAT
57875537 ATAATTTATTTAATTATAAA
1 ATAATTT-TTT-ATTATAAA
* **
57875557 ATAAATTTAAATTTATAAA
1 ATAATTTTTTA-TTATAAA
57875576 ATAATTTTTTATTAT
1 ATAATTTTTTATTAT
57875591 TACTTTTTTT
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
18 5 0.19
19 16 0.59
20 6 0.22
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
ATAATTTTTTATTATAAA
Found at i:57882708 original size:62 final size:62
Alignment explanation
Indices: 57882642--57882766 Score: 216
Period size: 62 Copynumber: 2.0 Consensus size: 62
57882632 CTGTTCAAAA
57882642 AAAAAATATCAATTAAATGTAATAGTTT-AGATTAAACTATGATGAGTGGATTAATCTATTAC
1 AAAAAATATCAATTAAATGTAATAGTTTGA-ATTAAACTATGATGAGTGGATTAATCTATTAC
* *
57882704 AAAAATTATCAATTAAATGTAATAGTTTGAATTAAACTATGATGAGTGGATTTATCTATTAC
1 AAAAAATATCAATTAAATGTAATAGTTTGAATTAAACTATGATGAGTGGATTAATCTATTAC
57882766 A
1 A
57882767 TATTTTATTA
Statistics
Matches: 60, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
62 59 0.98
63 1 0.02
ACGTcount: A:0.44, C:0.06, G:0.13, T:0.37
Consensus pattern (62 bp):
AAAAAATATCAATTAAATGTAATAGTTTGAATTAAACTATGATGAGTGGATTAATCTATTAC
Found at i:57886827 original size:12 final size:12
Alignment explanation
Indices: 57886808--57886854 Score: 69
Period size: 12 Copynumber: 3.9 Consensus size: 12
57886798 AAGTCTCATT
57886808 TAATTTTTTATA
1 TAATTTTTTATA
*
57886820 TTATTTTTTATA
1 TAATTTTTTATA
57886832 -AATTTTTTATA
1 TAATTTTTTATA
57886843 TAAATTTTTTAT
1 T-AATTTTTTAT
57886855 TTTAATAATC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
11 10 0.32
12 11 0.35
13 10 0.32
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TAATTTTTTATA
Found at i:57886835 original size:23 final size:24
Alignment explanation
Indices: 57886809--57886854 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
57886799 AGTCTCATTT
*
57886809 AATTTTTTATAT-TATTTTTTATA
1 AATTTTTTATATAAATTTTTTATA
57886832 AATTTTTTATATAAATTTTTTAT
1 AATTTTTTATATAAATTTTTTAT
57886855 TTTAATAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 12 0.57
24 9 0.43
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (24 bp):
AATTTTTTATATAAATTTTTTATA
Found at i:57886853 original size:13 final size:13
Alignment explanation
Indices: 57886809--57886854 Score: 62
Period size: 13 Copynumber: 3.8 Consensus size: 13
57886799 AGTCTCATTT
57886809 AATTTTTTATAT-
1 AATTTTTTATATA
*
57886821 TA-TTTTT-TATA
1 AATTTTTTATATA
57886832 AATTTTTTATATA
1 AATTTTTTATATA
57886845 AATTTTTTAT
1 AATTTTTTAT
57886855 TTTAATAATC
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
10 3 0.10
11 6 0.21
12 6 0.21
13 14 0.48
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
AATTTTTTATATA
Found at i:57888508 original size:31 final size:31
Alignment explanation
Indices: 57888450--57888509 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
57888440 TTAACAGCCT
* **
57888450 AATGACTTAAATGAACACTTTTGAATAGTTC
1 AATGACTTAAATAAACACTTTCAAATAGTTC
57888481 AATGACTTAAATAAA-ACCTTTCAAATAGT
1 AATGACTTAAATAAACA-CTTTCAAATAGT
57888510 CCAGTGTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 1 0.04
31 24 0.96
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.33
Consensus pattern (31 bp):
AATGACTTAAATAAACACTTTCAAATAGTTC
Found at i:57891283 original size:42 final size:42
Alignment explanation
Indices: 57891237--57891330 Score: 134
Period size: 42 Copynumber: 2.2 Consensus size: 42
57891227 CTTCTGCTGG
* * *
57891237 TCCTACTTCTTCCGGGTTACTTAGGAGTTCTCCTATGACTGC
1 TCCTACTTCTTCCAGGTTACTTAGGAGTTCTCCTATAACTAC
* *
57891279 TCCTACTTCTTCTAGGTTACTTAGGAGTTTTCCTATAACTAC
1 TCCTACTTCTTCCAGGTTACTTAGGAGTTCTCCTATAACTAC
*
57891321 TCATACTTCT
1 TCCTACTTCT
57891331 CCTATGACTG
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.18, C:0.27, G:0.14, T:0.41
Consensus pattern (42 bp):
TCCTACTTCTTCCAGGTTACTTAGGAGTTCTCCTATAACTAC
Found at i:57891333 original size:21 final size:21
Alignment explanation
Indices: 57891309--57891351 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
57891299 TTAGGAGTTT
57891309 TCCTATAACTACTCATACTTC
1 TCCTATAACTACTCATACTTC
* * *
57891330 TCCTATGACTGCTCCTACTTC
1 TCCTATAACTACTCATACTTC
57891351 T
1 T
57891352 TCTGGGTTAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.21, C:0.35, G:0.05, T:0.40
Consensus pattern (21 bp):
TCCTATAACTACTCATACTTC
Found at i:57891342 original size:63 final size:63
Alignment explanation
Indices: 57891264--57891393 Score: 233
Period size: 63 Copynumber: 2.1 Consensus size: 63
57891254 TACTTAGGAG
57891264 TTCTCCTATGACTGCTCCTACTTCTTCTAGGTTACTTAGGAGTTTTCCTATAACTACTCATAC
1 TTCTCCTATGACTGCTCCTACTTCTTCTAGGTTACTTAGGAGTTTTCCTATAACTACTCATAC
* * *
57891327 TTCTCCTATGACTGCTCCTACTTCTTCTGGGTTACTTAGGAGTTTTTCTATAACTACTCCTAC
1 TTCTCCTATGACTGCTCCTACTTCTTCTAGGTTACTTAGGAGTTTTCCTATAACTACTCATAC
57891390 TTCT
1 TTCT
57891394 TCCGGGTAAA
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
63 64 1.00
ACGTcount: A:0.18, C:0.27, G:0.12, T:0.43
Consensus pattern (63 bp):
TTCTCCTATGACTGCTCCTACTTCTTCTAGGTTACTTAGGAGTTTTCCTATAACTACTCATAC
Found at i:57895695 original size:57 final size:58
Alignment explanation
Indices: 57895626--57895736 Score: 170
Period size: 57 Copynumber: 1.9 Consensus size: 58
57895616 GTGCCCACTG
* *
57895626 ACCGATCTCGCACACATAGTGCTTGGTT-GAAGAACTCGCACACACAGTGCCTCAATT
1 ACCGATCTCGCACACATAGTGCTCGGTTAAAAGAACTCGCACACACAGTGCCTCAATT
* * *
57895683 ACCGATTTCGCACACATAGTGCTCGGTTAAAAGAATTTGCACACACAGTGCCTC
1 ACCGATCTCGCACACATAGTGCTCGGTTAAAAGAACTCGCACACACAGTGCCTC
57895737 TAATCTTTTG
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
57 26 0.54
58 22 0.46
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (58 bp):
ACCGATCTCGCACACATAGTGCTCGGTTAAAAGAACTCGCACACACAGTGCCTCAATT
Found at i:57897583 original size:38 final size:38
Alignment explanation
Indices: 57897496--57897690 Score: 255
Period size: 38 Copynumber: 5.0 Consensus size: 38
57897486 AAACCTGAAC
* * * *
57897496 ATAACACCAGCACGAAGCCTACGGGACTTTAAACTCAGAT
1 ATAATACCAGCACGAAGCCTGCGGGA-TTT-AACCCGGAT
* *
57897536 ATAATACCAGCACTAGGCCTGCGGGATTTAACCCGGAT
1 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
57897574 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
1 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
*
57897612 ATAATACCAGCACGAAGCCTACGGGATTTAACCCGGAT
1 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
* ** *
57897650 ATAATTCCAGCATAAAGCCTGCGGGCCTTTAAGCCCGGAT
1 ATAATACCAGCACGAAGCCTGCGGG-ATTTAA-CCCGGAT
57897690 A
1 A
57897691 CACATCAAAT
Statistics
Matches: 139, Mismatches: 14, Indels: 4
0.89 0.09 0.03
Matches are distributed among these distances:
38 101 0.73
39 8 0.06
40 30 0.22
ACGTcount: A:0.32, C:0.27, G:0.22, T:0.19
Consensus pattern (38 bp):
ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
Found at i:57902830 original size:984 final size:981
Alignment explanation
Indices: 57900913--57902870 Score: 3409
Period size: 984 Copynumber: 2.0 Consensus size: 981
57900903 AATGTGTTTT
57900913 TCTTATAGTAAATGTCTACCGACAAAGCTCAATCTGAGGAAGCTGGGAGTCATGCTCCGGCTTCA
1 TCTTATAGTAAATGTCTACCGACAAAGCTCAATCTGAGGAAGCTGGGAGTCATGCTCCGGCTTCA
* * * * * *
57900978 GTACAAAGAGAAGAAACTAGCAGTAGAAGGCCCGAGACAAATGGTCAAAGGGATGAGGCAAAAAT
66 GTACAAAGAGAAAAAACTACCAGTAGAAGGCCCGAGACAAAGGGACAAAGGGAGGAGGCAAAAAC
57901043 AGCCTTCTTTCAAATGATGAATGAATGGTTTAATTAATACTTAAGAACTAACCCTATAGTGCAGC
131 AGCCTTCTTTCAAATGATGAATGAATGGTTTAATTAATACTTAAGAACTAACCCTATAGTGCAGC
*
57901108 AAGTTCAAGCTCCCCCTCCTACTCCTCCATCGGTTCCCGAGATTCCACAGGGTACAGATACTGAA
196 AAGTTCAAACTCCCCCTCCTACTCCTCCATCGGTTCCCGAGATTCCACAGGGTACAGATACTGAA
* * *
57901173 TCTATCAGAAAAGAGAAAGCTCCAGTAGATAAAATTCGAAAATATGGGGCCGAAGAATTTCGAGC
261 TCTATCAGAAAAGAGAAAGCTCCAGTAGATAAAATTCAAAAATATAGGGCCGAAGAATTTCGAGA
* * * *
57901238 AGCAGTTGATGATGATTCTGAACGGGCTGAATTCTGGTTAGAAAACACTACTCGGGTTCTGGAGG
326 AGCAGTTGATGATGATTCCGAACAGGCTAAATTCTGGTTAAAAAACACTACTCGGGTTCTGGAGG
57901303 AATTATCTTGTACAACAAAAGAATGTCTGAAATGTGACGTCTCACTGCTAAAAGACACAGCTTAC
391 AATTATCTTGTACAACAAAAGAATGTCTGAAATGTGACGTCTCACTGCTAAAAGACACAGCTTAC
*
57901368 CATTGGTGGAATACTAAAGCTTCAGTTTTCCGTAAGAAGAAATTACATGGGAATTCTTTCAGACT
456 CATTGGCGGAATACTAAAGCTTCAGTTTTCCGTAAGAAGAAATTACATGGGAATTCTTTCAGACT
57901433 GAGTTCAGAAAGAAATATATCAGTCAGAGGTTTCTCAATCAGAAGAGAAAAGAATTTCTTGAGCT
521 GAGTTCAGAAAGAAATATATCAGTCAGAGGTTTCTCAATCAGAAGAGAAAAGAATTTCTTGAGCT
* **
57901498 GAAACAAGGTAACAGATCAGTATTTGAGTATGAAAGAGAATTTGTTCGATTGAGTAAATATGCTC
586 GAAACAAGGTAACAAATCAGTAACTGAGTATGAAAGAGAATTTGTTCGATTGAGTAAATATGCTC
*
57901563 GAGAATGGGTACAGTCAGAATCTGAAATGTGCAAACGATTCGAAGAAGGGTTGAATGAAGATATT
651 GAGAATGGGTACAGTCAAAATCTGAAATGTGCAAACGATTCGAAGAAGGGTTGAATGAAGATATT
57901628 AAACTACTGATCGGAATTCTTGAAATTCGAGAGTTTGCTACATTGGCAAAGAAAGCTTATAAAGC
716 AAACTACTGATCGGAATTCTTGAAATTCGAGAGTTTGCTACATTGGCAAAGAAAGCTTATAAAGC
* * * * *
57901693 AGAAGAATTGAGCAAAGAAAAGAAATAGGCTGAGAGGGAAGCTCGAATTTTTAGTAAAAGACCAA
781 AAAAGAATTGAGCAAAGAAAAGAAACAGGCTAAGAGGAAAGCTAGAATTTTTAGTAAAAGACCAA
57901758 TGGAAAAATCTCATTTTTCTGCCTCAAAGAAATTGAAGGAGTATCAGGATCGTTCTACCTCAGCC
846 TGGAAAAATCTCATTTTTCTGCCTCAAAGAAATTGAAGGAGTATCAGGATCGTTCTACCTCAGCC
* * * * *
57901823 ACTGGGTATTTGGGTAGAGAGCGAGGTTCTCAATGCACTAATCCAAGACCTTCTACTCCATCAGT
911 ACTGGATATTCGGGCAAAGAGCGAGGTTCTCAACGCACTAATCC---ACCTTCTACTCCATCAGT
57901888 GATTCAGTA
973 GATTCAGTA
57901897 TCTTATAGTAAATGTCTACCGACAAAGCTCAATCTGAGGAAGCTGGGAGTCATGCTCCGGCTTCA
1 TCTTATAGTAAATGTCTACCGACAAAGCTCAATCTGAGGAAGCTGGGAGTCATGCTCCGGCTTCA
* * *
57901962 GTACAAAGAGAAAAAACTACCAGTAGAAGGCCCGAGACAGAGGGACGAGGGGAGGAGGCAAAAAC
66 GTACAAAGAGAAAAAACTACCAGTAGAAGGCCCGAGACAAAGGGACAAAGGGAGGAGGCAAAAAC
57902027 AGCCTTCTTTCAAATGATGAATGAATGGTTTAATTAATACTTAAGAACTAACCCTATAGTGCAGC
131 AGCCTTCTTTCAAATGATGAATGAATGGTTTAATTAATACTTAAGAACTAACCCTATAGTGCAGC
* *
57902092 AAGTTCAAACTCCCCCTCCTACTCCTCCA-CTGGTTTCCGAGATTTCACAGGGTACAGATACTGA
196 AAGTTCAAACTCCCCCTCCTACTCCTCCATC-GGTTCCCGAGATTCCACAGGGTACAGATACTGA
* * * *
57902156 ATCTATCAGAAAAGGGAAAGCTCCAGTAGATAAAATTTAAAAATATAGGGTCGAATAATTTCGAG
260 ATCTATCAGAAAAGAGAAAGCTCCAGTAGATAAAATTCAAAAATATAGGGCCGAAGAATTTCGAG
57902221 AAGCAGTTGATGATGATTCCGAACAGGCTAAATTCTGGTTAAAAAACACTACTCGGGTT-TGGAG
325 AAGCAGTTGATGATGATTCCGAACAGGCTAAATTCTGGTTAAAAAACACTACTCGGGTTCTGGAG
* *
57902285 GAATTATCTTGTACAACAGAAGAATGTCTGAAATGTGCCGTCTCACTGCTAAAAGACACAGCTTA
390 GAATTATCTTGTACAACAAAAGAATGTCTGAAATGTGACGTCTCACTGCTAAAAGACACAGCTTA
*
57902350 CCATTGGCGGAATACTAAAGCTTCAGTTGTTCTGTAAGAAGAAATTACATGGGAATTCTTTCAGA
455 CCATTGGCGGAATACTAAAGCTTCAGTT-TTCCGTAAGAAGAAATTACATGGGAATTCTTTCAGA
57902415 CTGAGTTCAGAAAGAAATATATCAGTCAGAGGTTTCTCAATCAGAAGAGAAAAGAATTTCTTGAG
519 CTGAGTTCAGAAAGAAATATATCAGTCAGAGGTTTCTCAATCAGAAGAGAAAAGAATTTCTTGAG
*
57902480 CTGAAACAGGGTAACAAATCAGTAACTGAGTATGAAAGAGAATTTGTTCGATTGAGTAAATATGC
584 CTGAAACAAGGTAACAAATCAGTAACTGAGTATGAAAGAGAATTTGTTCGATTGAGTAAATATGC
57902545 TCGAGAATGGGTACAGTCAAAATCTGAAATGTGCAAACGATTCGAAGAAGGGTTGAATGAAGATA
649 TCGAGAATGGGTACAGTCAAAATCTGAAATGTGCAAACGATTCGAAGAAGGGTTGAATGAAGATA
* *
57902610 TTAAGCTACTGATCGGAATTCTTGAAATTCGAGAGTTTGCTACATTGGCAGAA-AGAGCTTATAA
714 TTAAACTACTGATCGGAATTCTTGAAATTCGAGAGTTTGCTACATTGGCA-AAGAAAGCTTATAA
57902674 AGCAAAAGAATTGAGCAAAGAAAAGAAACAGGCTAAGAGGAAAGCTAGAATTTTTAGTAAAAGAC
778 AGCAAAAGAATTGAGCAAAGAAAAGAAACAGGCTAAGAGGAAAGCTAGAATTTTTAGTAAAAGAC
* * *
57902739 CGATGGAAAAATCTCATTTTTTTGCTTCAAAGAAATTGAAGGAGTATCAGGATCGTTCTACCTCA
843 CAATGGAAAAATCTCATTTTTCTGCCTCAAAGAAATTGAAGGAGTATCAGGATCGTTCTACCTCA
*
57902804 GCCACTGGATATTCGGGCAAAGAGCGAGGTTCTCAACGCACTAATCCACCTTCTACTCCATTAGT
908 GCCACTGGATATTCGGGCAAAGAGCGAGGTTCTCAACGCACTAATCCACCTTCTACTCCATCAGT
57902869 GA
973 GA
57902871 CTAGTGTTGG
Statistics
Matches: 923, Mismatches: 48, Indels: 9
0.94 0.05 0.01
Matches are distributed among these distances:
981 19 0.02
983 96 0.10
984 806 0.87
985 2 0.00
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.25
Consensus pattern (981 bp):
TCTTATAGTAAATGTCTACCGACAAAGCTCAATCTGAGGAAGCTGGGAGTCATGCTCCGGCTTCA
GTACAAAGAGAAAAAACTACCAGTAGAAGGCCCGAGACAAAGGGACAAAGGGAGGAGGCAAAAAC
AGCCTTCTTTCAAATGATGAATGAATGGTTTAATTAATACTTAAGAACTAACCCTATAGTGCAGC
AAGTTCAAACTCCCCCTCCTACTCCTCCATCGGTTCCCGAGATTCCACAGGGTACAGATACTGAA
TCTATCAGAAAAGAGAAAGCTCCAGTAGATAAAATTCAAAAATATAGGGCCGAAGAATTTCGAGA
AGCAGTTGATGATGATTCCGAACAGGCTAAATTCTGGTTAAAAAACACTACTCGGGTTCTGGAGG
AATTATCTTGTACAACAAAAGAATGTCTGAAATGTGACGTCTCACTGCTAAAAGACACAGCTTAC
CATTGGCGGAATACTAAAGCTTCAGTTTTCCGTAAGAAGAAATTACATGGGAATTCTTTCAGACT
GAGTTCAGAAAGAAATATATCAGTCAGAGGTTTCTCAATCAGAAGAGAAAAGAATTTCTTGAGCT
GAAACAAGGTAACAAATCAGTAACTGAGTATGAAAGAGAATTTGTTCGATTGAGTAAATATGCTC
GAGAATGGGTACAGTCAAAATCTGAAATGTGCAAACGATTCGAAGAAGGGTTGAATGAAGATATT
AAACTACTGATCGGAATTCTTGAAATTCGAGAGTTTGCTACATTGGCAAAGAAAGCTTATAAAGC
AAAAGAATTGAGCAAAGAAAAGAAACAGGCTAAGAGGAAAGCTAGAATTTTTAGTAAAAGACCAA
TGGAAAAATCTCATTTTTCTGCCTCAAAGAAATTGAAGGAGTATCAGGATCGTTCTACCTCAGCC
ACTGGATATTCGGGCAAAGAGCGAGGTTCTCAACGCACTAATCCACCTTCTACTCCATCAGTGAT
TCAGTA
Found at i:57911013 original size:27 final size:24
Alignment explanation
Indices: 57910983--57911037 Score: 58
Period size: 23 Copynumber: 2.2 Consensus size: 24
57910973 GTTGAATGTC
*
57910983 AAATTTAACTCAAAAAATAATAAAATT
1 AAATTTAA-TAAAAAAAT-AT-AAATT
*
57911010 AAA-TTGATAAAAAAATATAAATT
1 AAATTTAATAAAAAAATATAAATT
57911033 AAATT
1 AAATT
57911038 GATATTATGC
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
23 8 0.32
24 3 0.12
25 8 0.32
26 3 0.12
27 3 0.12
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.31
Consensus pattern (24 bp):
AAATTTAATAAAAAAATATAAATT
Found at i:57911024 original size:17 final size:18
Alignment explanation
Indices: 57910999--57911032 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
57910989 AACTCAAAAA
*
57910999 ATAATAAAAT-TAAATTG
1 ATAAAAAAATATAAATTG
57911016 ATAAAAAAATATAAATT
1 ATAAAAAAATATAAATT
57911033 AAATTGATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (18 bp):
ATAAAAAAATATAAATTG
Found at i:57911031 original size:23 final size:25
Alignment explanation
Indices: 57910994--57911041 Score: 82
Period size: 23 Copynumber: 2.0 Consensus size: 25
57910984 AATTTAACTC
57910994 AAAAAATAATAAAATTAAATTGATA
1 AAAAAATAATAAAATTAAATTGATA
57911019 AAAAAAT-AT-AAATTAAATTGATA
1 AAAAAATAATAAAATTAAATTGATA
57911042 TTATGCCCCC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 14 0.61
24 2 0.09
25 7 0.30
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (25 bp):
AAAAAATAATAAAATTAAATTGATA
Found at i:57912456 original size:26 final size:26
Alignment explanation
Indices: 57912420--57912474 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
57912410 TTAAAAATTT
*
57912420 AAAATCTTAAAAAT-AAAAAAATTCAA
1 AAAATATT-AAAATCAAAAAAATTCAA
**
57912446 AAAATATTAAAATCTTAAAAATTCAA
1 AAAATATTAAAATCAAAAAAATTCAA
57912472 AAA
1 AAA
57912475 TAATGAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 5 0.20
26 20 0.80
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.25
Consensus pattern (26 bp):
AAAATATTAAAATCAAAAAAATTCAA
Found at i:57912467 original size:17 final size:17
Alignment explanation
Indices: 57912410--57912467 Score: 66
Period size: 17 Copynumber: 3.5 Consensus size: 17
57912400 TAATATAGTA
57912410 TTAAAAAT-TTAAAATC
1 TTAAAAATATTAAAATC
**
57912426 TTAAAAATAAAAAAAT-
1 TTAAAAATATTAAAATC
*
57912442 TCAAAAAATATTAAAATC
1 T-TAAAAATATTAAAATC
57912460 TTAAAAAT
1 TTAAAAAT
57912468 TCAAAAATAA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
16 9 0.27
17 23 0.70
18 1 0.03
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (17 bp):
TTAAAAATATTAAAATC
Found at i:57912474 original size:17 final size:16
Alignment explanation
Indices: 57912410--57912475 Score: 53
Period size: 17 Copynumber: 3.9 Consensus size: 16
57912400 TAATATAGTA
*
57912410 TTAAAAATTTAAAATC
1 TTAAAAATTAAAAATC
*
57912426 TTAAAAATAAAAAAAT-
1 TTAAAAAT-TAAAAATC
* *
57912442 TCAAAAAATATTAAAATC
1 T-TAAAAAT-TAAAAATC
57912460 TTAAAAATTCAAAAAT
1 TTAAAAATT-AAAAAT
57912476 AATGAATTTA
Statistics
Matches: 39, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
16 10 0.26
17 28 0.72
18 1 0.03
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAAAAATTAAAAATC
Found at i:57912575 original size:20 final size:19
Alignment explanation
Indices: 57912550--57912594 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
57912540 AGGTTTTGAA
*
57912550 AAAATTACAAAATAATCTTT
1 AAAATT-CAAAATAATCATT
* *
57912570 AAAATTCCAAATATTCATT
1 AAAATTCAAAATAATCATT
57912589 AAAATT
1 AAAATT
57912595 TCTAAAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.36
Consensus pattern (19 bp):
AAAATTCAAAATAATCATT
Found at i:57922436 original size:47 final size:46
Alignment explanation
Indices: 57922368--57922461 Score: 161
Period size: 47 Copynumber: 2.0 Consensus size: 46
57922358 AGTTAGCTGA
* *
57922368 TCATAGGACAAACTAGCCTAACAGCGAAGCTAAAATGCTGGACAGT
1 TCATAGGACAAACTAGCCTAACAACGAAGCTAAAATACTGGACAGT
57922414 TCATAGGGACAAACTAGCCTAACAACGAAGCTAAAATACTGGACAGT
1 TCATA-GGACAAACTAGCCTAACAACGAAGCTAAAATACTGGACAGT
57922461 T
1 T
57922462 TATGTGGATG
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
46 5 0.11
47 40 0.89
ACGTcount: A:0.40, C:0.21, G:0.20, T:0.18
Consensus pattern (46 bp):
TCATAGGACAAACTAGCCTAACAACGAAGCTAAAATACTGGACAGT
Found at i:57926540 original size:14 final size:15
Alignment explanation
Indices: 57926516--57926550 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
57926506 TATATATATT
57926516 ACCATATAAATACTA
1 ACCATATAAATACTA
57926531 ACCATA-AAATACTA
1 ACCATATAAATACTA
57926545 ATCCAT
1 A-CCAT
57926551 GATTAAAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (15 bp):
ACCATATAAATACTA
Found at i:57927249 original size:41 final size:41
Alignment explanation
Indices: 57927218--57927706 Score: 631
Period size: 41 Copynumber: 11.9 Consensus size: 41
57927208 CTATATAAAA
* * * ** * *
57927218 CACCGGCATAAAGCCTGCTAGGCACAAAGCC-CGATTCATTT
1 CACCGGCATCAAGCCTGCTAGACATAAAGCCTAAAATAAT-T
* ** *
57927259 CACCGGCA-CAAAGCCTGCTAGACATAAAGTCGGAATTAATT
1 CACCGGCATC-AAGCCTGCTAGACATAAAGCCTAAAATAATT
*
57927300 CACCGGCATCAAGCCTGCTAGACATAAAGTCTAAAATAATT
1 CACCGGCATCAAGCCTGCTAGACATAAAGCCTAAAATAATT
* * * *
57927341 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATC
1 CACCGGCATCAAGCCTGCTAGACATAAAGCCTAAAATAATT
*
57927382 CACCGGCATCAAGCCTGCTAGACATAAAGTCTAAAATAATT
1 CACCGGCATCAAGCCTGCTAGACATAAAGCCTAAAATAATT
* * * *
57927423 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATC
1 CACCGGCATCAAGCCTGCTAGACATAAAGCCTAAAATAATT
*
57927464 CACCGGCATCAAGCCTGCTAGACATAAAGTCTAAAATAATT
1 CACCGGCATCAAGCCTGCTAGACATAAAGCCTAAAATAATT
* * * *
57927505 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATC
1 CACCGGCATCAAGCCTGCTAGACATAAAGCCTAAAATAATT
*
57927546 CACCGGCATCAAGCCTGCTAGACATAAAGTCTAAAATAATT
1 CACCGGCATCAAGCCTGCTAGACATAAAGCCTAAAATAATT
* * * *
57927587 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATC
1 CACCGGCATCAAGCCTGCTAGACATAAAGCCTAAAATAATT
*
57927628 CACCGGCATCAAGCCTGCTAGACATAAAGTCTAAAATAATT
1 CACCGGCATCAAGCCTGCTAGACATAAAGCCTAAAATAATT
* *
57927669 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAAAT
1 CACCGGCATCAAGCCTGCTAGACATAAAGCCT-AAAAT
57927707 CTCATATACA
Statistics
Matches: 391, Mismatches: 53, Indels: 7
0.87 0.12 0.02
Matches are distributed among these distances:
41 380 0.97
42 11 0.03
ACGTcount: A:0.35, C:0.27, G:0.18, T:0.20
Consensus pattern (41 bp):
CACCGGCATCAAGCCTGCTAGACATAAAGCCTAAAATAATT
Found at i:57927343 original size:82 final size:82
Alignment explanation
Indices: 57927257--57927704 Score: 826
Period size: 82 Copynumber: 5.5 Consensus size: 82
57927247 CCCGATTCAT
* * * * * *
57927257 TTCACCGGCA-CAAAGCCTGCTAGACATAAAGTCGGAATTAATTCACCGGCATCAAGCCTGCTAG
1 TTCACCGGCATC-AAGCCTGCTAGGCATTAAGCCTGAAATAATCCACCGGCATCAAGCCTGCTAG
57927321 ACATAAAGTCTAAAATAA
65 ACATAAAGTCTAAAATAA
57927339 TTCACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATCCACCGGCATCAAGCCTGCTAGA
1 TTCACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATCCACCGGCATCAAGCCTGCTAGA
57927404 CATAAAGTCTAAAATAA
66 CATAAAGTCTAAAATAA
57927421 TTCACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATCCACCGGCATCAAGCCTGCTAGA
1 TTCACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATCCACCGGCATCAAGCCTGCTAGA
57927486 CATAAAGTCTAAAATAA
66 CATAAAGTCTAAAATAA
57927503 TTCACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATCCACCGGCATCAAGCCTGCTAGA
1 TTCACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATCCACCGGCATCAAGCCTGCTAGA
57927568 CATAAAGTCTAAAATAA
66 CATAAAGTCTAAAATAA
57927585 TTCACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATCCACCGGCATCAAGCCTGCTAGA
1 TTCACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATCCACCGGCATCAAGCCTGCTAGA
57927650 CATAAAGTCTAAAATAA
66 CATAAAGTCTAAAATAA
57927667 TTCACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAA
1 TTCACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAA
57927705 ATCTCATATA
Statistics
Matches: 359, Mismatches: 6, Indels: 2
0.98 0.02 0.01
Matches are distributed among these distances:
82 358 1.00
83 1 0.00
ACGTcount: A:0.35, C:0.27, G:0.17, T:0.21
Consensus pattern (82 bp):
TTCACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATCCACCGGCATCAAGCCTGCTAGA
CATAAAGTCTAAAATAA
Found at i:57927937 original size:64 final size:63
Alignment explanation
Indices: 57927819--57927999 Score: 262
Period size: 64 Copynumber: 2.9 Consensus size: 63
57927809 GCAAACAAAC
*
57927819 ATTCGAACCACATATGT-AT-AATTTACA-ACATTAAAATTCAGCTCAAAGAA-TTTGTAACCTA
1 ATTCGAACCACATATGTAATAAAATT-CATACATT-AAATTCAGCTC-AAGAACTTTGTAACCTA
57927880 T
63 T
57927881 ATTCGAACCACATATGTAAGTAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTAT
1 ATTCGAACCACATATGTAA-TAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTAT
* *
57927945 ATTTGAACCACATATGTATATAAAATTCATACATTAAATACAGCTCAAGAACTTT
1 ATTCGAACCACATATGTA-ATAAAATTCATACATTAAATTCAGCTCAAGAACTTT
57928000 AAATATATAT
Statistics
Matches: 110, Mismatches: 3, Indels: 10
0.89 0.02 0.08
Matches are distributed among these distances:
62 17 0.15
63 6 0.05
64 77 0.70
65 10 0.09
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.32
Consensus pattern (63 bp):
ATTCGAACCACATATGTAATAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTAT
Found at i:57930885 original size:19 final size:20
Alignment explanation
Indices: 57930849--57930899 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
57930839 AAAATTACAA
*
57930849 AAAAATTCAATATAATTT-T
1 AAAAATTCAAAATAATTTAT
57930868 CAAAAATTCAAAAT-ATTTAT
1 -AAAAATTCAAAATAATTTAT
57930888 AAAAATTTCAAA
1 AAAAA-TTCAAA
57930900 TTTTATATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 9 0.32
20 19 0.68
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.35
Consensus pattern (20 bp):
AAAAATTCAAAATAATTTAT
Found at i:57930900 original size:19 final size:18
Alignment explanation
Indices: 57930869--57930906 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
57930859 TATAATTTTC
57930869 AAAAATTCAAAATATTTAT
1 AAAAATTCAAAAT-TTTAT
57930888 AAAAATTTC-AAATTTTAT
1 AAAAA-TTCAAAATTTTAT
57930906 A
1 A
57930907 TTTTTAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
19 9 0.50
20 3 0.17
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.39
Consensus pattern (18 bp):
AAAAATTCAAAATTTTAT
Found at i:57931584 original size:131 final size:131
Alignment explanation
Indices: 57931306--57932121 Score: 987
Period size: 131 Copynumber: 6.2 Consensus size: 131
57931296 CACCCCTAAT
* *
57931306 GATCACAACCTAAGTTTATTTGATTTAC-TATCATGAACAAATTT-TTTGAGTTAGTTGATTTTC
1 GATCACAACCTAAGTTCATTTGATTT-CTTATCATGAACAATTTTCTTTGAGTTAGTTGATTTTC
* * *
57931369 TATCGCTACTCCAAACAACTCGTTGATTT-AGTATCACAGTTGATATTATTAAAGCTCATTGATT
65 TATCGCTACTCCAAACAACTCGCTGATTTAAG-ATCACAGTTGATATTATTAAGGCTCGTTGATT
*
57931433 AAA
129 AAC
* * * * * *
57931436 AATCA-AAGCCTATGTTCATTTGATTTATTATCGTGAATAATTTTCTTTGAGTTACTTGATTTTC
1 GATCACAA-CCTAAGTTCATTTGATTTCTTATCATGAACAATTTTCTTTGAGTTAGTTGATTTTC
* * *
57931500 TATCGCTATTCCAAACAGCTCGCTGATTTAAGATCACAGTTGATATTATTAAGGCTTGTTGATTA
65 TATCGCTACTCCAAACAACTCGCTGATTTAAGATCACAGTTGATATTATTAAGGCTCGTTGATTA
*
57931565 GC
130 AC
*
57931567 GATCACAACCTAAGTTCATTTGATTTCTTATCATGAACAATTTTCTTTGAGTTAGTTGATTTTGT
1 GATCACAACCTAAGTTCATTTGATTTCTTATCATGAACAATTTTCTTTGAGTTAGTTGATTTTCT
* * ** * *
57931632 ATCGCTACTCTAAACAACTCGCTCATTTAAGATCACACATGATATTATTAAGGCTCGCTAATTAA
66 ATCGCTACTCCAAACAACTCGCTGATTTAAGATCACAGTTGATATTATTAAGGCTCGTTGATTAA
57931697 C
131 C
** * * *
57931698 GATCTGAGCCTAAGTTCATTTGATTT-TCTATCATGAACAATTTTCTTTGAGTTAGCTAATTTTC
1 GATCACAACCTAAGTTCATTTGATTTCT-TATCATGAACAATTTTCTTTGAGTTAGTTGATTTTC
* * * * *
57931762 TATCGCTACTCTAAACAACTTG-TCGATTTAAGATCACAGTTGATATTATTAAGCCTCATCGATT
65 TATCGCTACTCCAAACAACTCGCT-GATTTAAGATCACAGTTGATATTATTAAGGCTCGTTGATT
*
57931826 AAT
129 AAC
* * * ** * *
57931829 AATCACAGCCTATGTTCATTTGATTTCTTATCGCGAATAATTTTCTCTGAGTTAGTTGATTTTCT
1 GATCACAACCTAAGTTCATTTGATTTCTTATCATGAACAATTTTCTTTGAGTTAGTTGATTTTCT
* * ** * * *
57931894 ATCACTACTCCAAACAGCTCGCTGATTTAAGATCACAACTAATATTATGAATGCTCGTTGATTAA
66 ATCGCTACTCCAAACAACTCGCTGATTTAAGATCACAGTTGATATTATTAAGGCTCGTTGATTAA
*
57931959 T
131 C
* *
57931960 GATCACAACCTAAGTTCATTTGATTTCCTATCATGAACAATTTTCTTTGAGTTAGTTAATTTTCT
1 GATCACAACCTAAGTTCATTTGATTTCTTATCATGAACAATTTTCTTTGAGTTAGTTGATTTTCT
* * * * * ** *
57932025 ATCGCTACTCCAAACAGCTCTCTAATTTAATACCACACCTAATATTATTAAGGCTCGTTGATTAA
66 ATCGCTACTCCAAACAACTCGCTGATTTAAGATCACAGTTGATATTATTAAGGCTCGTTGATTAA
57932090 C
131 C
* * *
57932091 AATCAGAGCCTAAGTTCATTTGATTTCTTAT
1 GATCACAACCTAAGTTCATTTGATTTCTTAT
57932122 TGATACGATC
Statistics
Matches: 584, Mismatches: 93, Indels: 17
0.84 0.13 0.02
Matches are distributed among these distances:
129 2 0.00
130 35 0.06
131 541 0.93
132 6 0.01
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.40
Consensus pattern (131 bp):
GATCACAACCTAAGTTCATTTGATTTCTTATCATGAACAATTTTCTTTGAGTTAGTTGATTTTCT
ATCGCTACTCCAAACAACTCGCTGATTTAAGATCACAGTTGATATTATTAAGGCTCGTTGATTAA
C
Found at i:57932075 original size:393 final size:392
Alignment explanation
Indices: 57931314--57932116 Score: 1205
Period size: 393 Copynumber: 2.0 Consensus size: 392
57931304 ATGATCACAA
* * *
57931314 CCTAAGTTTATTTGATTTACTATCATGAACAAATTTTTTGAGTTAGTTGATTTTCTATCGCTACT
1 CCTAAGTTCATTTGATTTACTATCATGAACAAATTTTTTGAGTTAGCTAATTTTCTATCGCTACT
* *
57931379 CCAAACAACTCGTTGATTTAGTATCACAGTTGATATTATTAAAGCTCATTGATTAAAAATCAAAG
66 CCAAACAACTCGTCGATTTAGTATCACAGTTGATATTATTAAAGCTCATCGATTAAAAATCAAAG
* * * *
57931444 CCTATGTTCATTTGATTTATTATCGTGAATAATTTTCTTTGAGTTACTTGATTTTCTATCGCTAT
131 CCTATGTTCATTTGATTTATTATCGCGAATAATTTTCTCTGAGTTACTTGATTTTCTATCACTAC
** * * * *
57931509 TCCAAACAGCTCGCTGATTTAAGATCACAGTTGATATTATTAAGGCTTGTTGATTAGCGATCACA
196 TCCAAACAGCTCGCTGATTTAAGATCACAACTAATATTATGAAGGCTCGTTGATTAACGATCACA
* * *
57931574 ACCTAAGTTCATTTGATTTCTTATCATGAACAATTTTCTTTGAGTTAGTTGATTTTGTATCGCTA
261 ACCTAAGTTCATTTGATTTCCTATCATGAACAATTTTCTTTGAGTTAGTTAATTTTCTATCGCTA
* * * * * *
57931639 CTCTAAACAACTCGCTCATTTAAGATCACACATGATATTATTAAGGCTCGCTAATTAACGATCTG
326 CTCCAAACAACTCGCTAATTTAAGACCACACATAATATTATTAAGGCTCGCTAATTAACAATCAG
57931704 AG
391 AG
* *
57931706 CCTAAGTTCATTTGATTTTCTATCATGAACAATTTTCTTTGAGTTAGCTAATTTTCTATCGCTAC
1 CCTAAGTTCATTTGATTTACTATCATGAACAAATTT-TTTGAGTTAGCTAATTTTCTATCGCTAC
* * *
57931771 TCTAAACAACTTGTCGATTTAAG-ATCACAGTTGATATTATT-AAGCCTCATCGATTAATAATCA
65 TCCAAACAACTCGTCGATTT-AGTATCACAGTTGATATTATTAAAG-CTCATCGATTAAAAATCA
* * *
57931834 CAGCCTATGTTCATTTGATTTCTTATCGCGAATAATTTTCTCTGAGTTAGTTGATTTTCTATCAC
128 AAGCCTATGTTCATTTGATTTATTATCGCGAATAATTTTCTCTGAGTTACTTGATTTTCTATCAC
* *
57931899 TACTCCAAACAGCTCGCTGATTTAAGATCACAACTAATATTATGAATGCTCGTTGATTAATGATC
193 TACTCCAAACAGCTCGCTGATTTAAGATCACAACTAATATTATGAAGGCTCGTTGATTAACGATC
57931964 ACAACCTAAGTTCATTTGATTTCCTATCATGAACAATTTTCTTTGAGTTAGTTAATTTTCTATCG
258 ACAACCTAAGTTCATTTGATTTCCTATCATGAACAATTTTCTTTGAGTTAGTTAATTTTCTATCG
* * * * * *
57932029 CTACTCCAAACAGCTCTCTAATTTAATACCACACCTAATATTATTAAGGCTCGTTGATTAACAAT
323 CTACTCCAAACAACTCGCTAATTTAAGACCACACATAATATTATTAAGGCTCGCTAATTAACAAT
57932094 CAGAG
388 CAGAG
57932099 CCTAAGTTCATTTGATTT
1 CCTAAGTTCATTTGATTT
57932117 CTTATTGATA
Statistics
Matches: 368, Mismatches: 40, Indels: 5
0.89 0.10 0.01
Matches are distributed among these distances:
392 36 0.10
393 330 0.90
394 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.40
Consensus pattern (392 bp):
CCTAAGTTCATTTGATTTACTATCATGAACAAATTTTTTGAGTTAGCTAATTTTCTATCGCTACT
CCAAACAACTCGTCGATTTAGTATCACAGTTGATATTATTAAAGCTCATCGATTAAAAATCAAAG
CCTATGTTCATTTGATTTATTATCGCGAATAATTTTCTCTGAGTTACTTGATTTTCTATCACTAC
TCCAAACAGCTCGCTGATTTAAGATCACAACTAATATTATGAAGGCTCGTTGATTAACGATCACA
ACCTAAGTTCATTTGATTTCCTATCATGAACAATTTTCTTTGAGTTAGTTAATTTTCTATCGCTA
CTCCAAACAACTCGCTAATTTAAGACCACACATAATATTATTAAGGCTCGCTAATTAACAATCAG
AG
Found at i:57932602 original size:72 final size:72
Alignment explanation
Indices: 57932523--57932666 Score: 288
Period size: 72 Copynumber: 2.0 Consensus size: 72
57932513 AATATAATGA
57932523 GTTGCTTCTTTAATTAATCTAGTTACTAGGTTAATTTATTGGTGCATGAGTTAAAGTTCATTAAA
1 GTTGCTTCTTTAATTAATCTAGTTACTAGGTTAATTTATTGGTGCATGAGTTAAAGTTCATTAAA
57932588 TACTTCT
66 TACTTCT
57932595 GTTGCTTCTTTAATTAATCTAGTTACTAGGTTAATTTATTGGTGCATGAGTTAAAGTTCATTAAA
1 GTTGCTTCTTTAATTAATCTAGTTACTAGGTTAATTTATTGGTGCATGAGTTAAAGTTCATTAAA
57932660 TACTTCT
66 TACTTCT
57932667 TTTAATTAAC
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 72 1.00
ACGTcount: A:0.28, C:0.11, G:0.15, T:0.46
Consensus pattern (72 bp):
GTTGCTTCTTTAATTAATCTAGTTACTAGGTTAATTTATTGGTGCATGAGTTAAAGTTCATTAAA
TACTTCT
Found at i:57933607 original size:29 final size:29
Alignment explanation
Indices: 57933574--57933631 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
57933564 ATAACCAAAC
*
57933574 CTACAAAAACTTTATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
*
57933603 CTACATAAACTTCATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
57933632 ATTTGAATCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.43, C:0.29, G:0.00, T:0.28
Consensus pattern (29 bp):
CTACAAAAACTTCATATCCATAAACCCAT
Found at i:57933626 original size:15 final size:15
Alignment explanation
Indices: 57933580--57933627 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
57933570 AAACCTACAA
*
57933580 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* * *
57933595 AAAC-CCATCTACAT
1 AAACTTCATATCCAT
57933609 AAACTTCATATCCAT
1 AAACTTCATATCCAT
57933624 AAAC
1 AAAC
57933628 CCATATTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.44, C:0.27, G:0.00, T:0.29
Consensus pattern (15 bp):
AAACTTCATATCCAT
Found at i:57935269 original size:20 final size:21
Alignment explanation
Indices: 57935231--57935270 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
57935221 GGACTAATTT
* *
57935231 GAAACAAGTTAGAAGATTTGG
1 GAAACAAGTTACAAAATTTGG
57935252 GAAA-AAGTTACAAAATTTG
1 GAAACAAGTTACAAAATTTG
57935271 AAAACAGGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.47, C:0.05, G:0.23, T:0.25
Consensus pattern (21 bp):
GAAACAAGTTACAAAATTTGG
Found at i:57940354 original size:302 final size:302
Alignment explanation
Indices: 57939808--57940417 Score: 1001
Period size: 302 Copynumber: 2.0 Consensus size: 302
57939798 AAAGTGTATA
57939808 CAATAAGTTTCTCTCTCAGTAATCTCGCACCTCGCGAAGCCAAGTTCTCAAAAGAGTCACTTTAT
1 CAATAAGTTTCTCTCTCAGTAATCTCGCACCTCGCGAAGCCAAGTTCTCAAAAGAGTCACTTTAT
* *
57939873 AACTCTTCTTCGAACTAGGTGGGGGACAAATTATTATGGTATTCATCAGTACCATCCCGCTACCT
66 AACTCTTATTCGAACTAGGTGGGGGACAAATTATTATGGTATTCATCAGTACCATCCCACTACCT
* * * *
57939938 AGTTACCTGATTGGATTTCGACCCGTAGCCTACATTGTTTGCACCCTGAGTTCATACAAGAGGTG
131 AGTTACCTAATCGGATTCCGACCCGTAGCCTACATTGTTCGCACCCTGAGTTCATACAAGAGGTG
*
57940003 TTAGCGTCTTTTAATGAGCTCGCACGATGTGGATTCGCACTACCATGCAGGCAAACCCATACATA
196 TTAGCGTCTTTTAATGAGCTCGCACGATGTGGATTCGCACTACCATGCAGGCAAACCCATACACA
* **
57940068 GAAAACACGTGTTAATTTTAGAGTAG-GATAGGTATTGGCATG
261 GAAAACACGTGTTAATTTTAAAGTAGAG-TACATATTGGCATG
* * *
57940110 CAATAAGTTTCTCTCTCAGTAATCTCTCACCTCGCGAAGCCAAGTTCTTAGAAGAGTCACTTTAT
1 CAATAAGTTTCTCTCTCAGTAATCTCGCACCTCGCGAAGCCAAGTTCTCAAAAGAGTCACTTTAT
* * *
57940175 AACTCTTATTCGAACTAGGTGGGGGACAAATTGTTATGGTATTCATCATTACCATCGCACTACCT
66 AACTCTTATTCGAACTAGGTGGGGGACAAATTATTATGGTATTCATCAGTACCATCCCACTACCT
* *
57940240 AGTTACCTAATCGGATTCCGACCTGTAGCCTACATTGTTCGCACCCTGAGTTCATACATGAGGTG
131 AGTTACCTAATCGGATTCCGACCCGTAGCCTACATTGTTCGCACCCTGAGTTCATACAAGAGGTG
*
57940305 TTAGCGT-TCTTTAATGAGCTCGCACGATGTGGGTTCGCACTACCATGCAGGCAAACCCATACAC
196 TTAGCGTCT-TTTAATGAGCTCGCACGATGTGGATTCGCACTACCATGCAGGCAAACCCATACAC
*
57940369 AGAAAACATGTGTTAATTTTAAAGTAGAGTACATATTGGCATG
260 AGAAAACACGTGTTAATTTTAAAGTAGAGTACATATTGGCATG
57940412 C-ATAAG
1 CAATAAG
57940418 AACCTACCTA
Statistics
Matches: 286, Mismatches: 20, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
301 6 0.02
302 279 0.98
303 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.30
Consensus pattern (302 bp):
CAATAAGTTTCTCTCTCAGTAATCTCGCACCTCGCGAAGCCAAGTTCTCAAAAGAGTCACTTTAT
AACTCTTATTCGAACTAGGTGGGGGACAAATTATTATGGTATTCATCAGTACCATCCCACTACCT
AGTTACCTAATCGGATTCCGACCCGTAGCCTACATTGTTCGCACCCTGAGTTCATACAAGAGGTG
TTAGCGTCTTTTAATGAGCTCGCACGATGTGGATTCGCACTACCATGCAGGCAAACCCATACACA
GAAAACACGTGTTAATTTTAAAGTAGAGTACATATTGGCATG
Found at i:57945150 original size:38 final size:38
Alignment explanation
Indices: 57945089--57945161 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 38
57945079 AAGTTCAGAT
*
57945089 TCTACATTTAGATTTTATAGTTTTCGGGTTTAGTTAAAA
1 TCTACATTTAGATTTTATAGTTTT-GGATTTAGTTAAAA
* *
57945128 TCTACA-TTAGTTTTTATGGTTTTGGATTTAGTTA
1 TCTACATTTAGATTTTATAGTTTTGGATTTAGTTA
57945162 TTGTATTTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
37 10 0.32
38 15 0.48
39 6 0.19
ACGTcount: A:0.25, C:0.07, G:0.16, T:0.52
Consensus pattern (38 bp):
TCTACATTTAGATTTTATAGTTTTGGATTTAGTTAAAA
Found at i:57945204 original size:21 final size:20
Alignment explanation
Indices: 57945167--57945205 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
57945157 AGTTATTGTA
*
57945167 TTTTAGTGTTGTTATTTTTT
1 TTTTAGTGTTGTCATTTTTT
*
57945187 TTTTAGTTTTTGTCATTTT
1 TTTTAG-TGTTGTCATTTT
57945206 GGAAATTTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.10, C:0.03, G:0.13, T:0.74
Consensus pattern (20 bp):
TTTTAGTGTTGTCATTTTTT
Found at i:57945889 original size:18 final size:18
Alignment explanation
Indices: 57945854--57945891 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
57945844 AACTGACCGA
*
57945854 TTAACCGAATTCAGTCGG
1 TTAACCGAATTAAGTCGG
*
57945872 TTAACCGAATTAATTCGG
1 TTAACCGAATTAAGTCGG
57945890 TT
1 TT
57945892 TTATCGGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.34
Consensus pattern (18 bp):
TTAACCGAATTAAGTCGG
Found at i:57947623 original size:29 final size:30
Alignment explanation
Indices: 57947571--57947627 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
57947561 TTTTATTTTA
* *
57947571 AAAAAATTTAAAAATTCTAAAAAATATATT
1 AAAAAAGTTAAAAAATCTAAAAAATATATT
*
57947601 AAAAAAGTTAAAAAAT-TATAAAATATA
1 AAAAAAGTTAAAAAATCTAAAAAATATA
57947628 ATTTTGGGGC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 10 0.42
30 14 0.58
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (30 bp):
AAAAAAGTTAAAAAATCTAAAAAATATATT
Found at i:57949239 original size:3 final size:3
Alignment explanation
Indices: 57949233--57949717 Score: 196
Period size: 3 Copynumber: 162.3 Consensus size: 3
57949223 AATATTGTTG
* * * * * *
57949233 ATA ATA ATA ATA ATA ATA GTA GTA GTA AAA ATA ATA ATA CTA ATG ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
57949281 ATA ATA A-A AGTA ATA ATA AGA ATA TTA ATA TTA GTA ATA ATA ATA
1 ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
57949326 ATA ATA ATA GTA CATTA ATA ATG ATA GTA TATG TTA ATA ATA ATA ATA
1 ATA ATA ATA ATA -A-TA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA
* * *
57949374 TATA A-A ATA GGA-A ATA ATA TATG GTA AAA ATA ATA ATA ATA ATA ATA
1 -ATA ATA ATA --ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * * *
57949421 ACA AAA ATA GTA ATA ATA GTA TGTG A-A ATA ATA ATT GTA A-A A-A
1 ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * *
57949464 ACTA ATA GTA ATA ATT ATA TTG ATA ATA CTA ATA ATA ATA GTA GTA
1 A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
57949510 A-A AAA ATA A-A A-A AT- ATA AAA ATA ATA ATA ATA ATA GTA AAA ATG
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
57949554 ACA ATA A-A ATA A-G ATA ATA ATA ATG ATA ATA AAA ATA A-A A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* ** * * *
57949598 A-A A-A AGTA ATA ATG GCA ATA ATA ATA CCATA ATA A-A AGA AAA AGAA
1 ATA ATA A-TA ATA ATA ATA ATA ATA ATA --ATA ATA ATA ATA ATA A-TA
* * * * * *
57949644 ATA ATA ACA TGTAA ATA ATA ATA ACA ATA ATA AAA ATA AT- ATA TTT
1 ATA ATA ATA -AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
57949690 ATA ATA ATA ATA ATA GTA AAA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
57949718 AATTAACTAA
Statistics
Matches: 355, Mismatches: 97, Indels: 60
0.69 0.19 0.12
Matches are distributed among these distances:
2 33 0.09
3 295 0.83
4 20 0.06
5 7 0.02
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:57949346 original size:17 final size:18
Alignment explanation
Indices: 57949324--57949370 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 18
57949314 GTAATAATAA
57949324 TAATAATAATAGTACA-T
1 TAATAATAATAGTACAGT
* *
57949341 TAATAATGATAGTATATGT
1 TAATAATAATAGTACA-GT
57949360 TAATAATAATA
1 TAATAATAATA
57949371 ATATATAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 14 0.56
19 11 0.44
ACGTcount: A:0.51, C:0.02, G:0.09, T:0.38
Consensus pattern (18 bp):
TAATAATAATAGTACAGT
Found at i:57949364 original size:19 final size:19
Alignment explanation
Indices: 57949321--57949411 Score: 69
Period size: 19 Copynumber: 4.7 Consensus size: 19
57949311 TTAGTAATAA
**
57949321 TAATAATAATAATAGTACAT
1 TAATAATAATAATA-TATGT
* *
57949341 TAATAATGATAGTATATGT
1 TAATAATAATAATATATGT
*
57949360 TAATAATAATAATATAT-A
1 TAATAATAATAATATATGT
* *
57949378 AAATAGGA-AATAATATATGG
1 TAATA--ATAATAATATATGT
*
57949398 TAAAAATAATAATA
1 TAATAATAATAATA
57949412 ATAATAATAA
Statistics
Matches: 56, Mismatches: 11, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
18 5 0.09
19 35 0.62
20 16 0.29
ACGTcount: A:0.56, C:0.01, G:0.09, T:0.34
Consensus pattern (19 bp):
TAATAATAATAATATATGT
Found at i:57949428 original size:47 final size:45
Alignment explanation
Indices: 57949360--57949455 Score: 115
Period size: 47 Copynumber: 2.1 Consensus size: 45
57949350 TAGTATATGT
*
57949360 TAATAATAATAATATATAAAATAGGAAATAATA-TATGGTAAAAATAA
1 TAATAATAATAATATAAAAAATA-GAAATAATAGTAT-GT-AAAATAA
* *
57949407 TAATAATAATAATA-ACAAAAATAGTAATAATAGTATGTGAAATAA
1 TAATAATAATAATATA-AAAAATAGAAATAATAGTATGTAAAATAA
57949452 TAAT
1 TAAT
57949456 TGTAAAAAAC
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
45 10 0.23
46 11 0.25
47 23 0.52
ACGTcount: A:0.60, C:0.01, G:0.08, T:0.30
Consensus pattern (45 bp):
TAATAATAATAATATAAAAAATAGAAATAATAGTATGTAAAATAA
Found at i:57949682 original size:32 final size:32
Alignment explanation
Indices: 57949646--57949714 Score: 84
Period size: 32 Copynumber: 2.2 Consensus size: 32
57949636 AAAAAGAAAT
*
57949646 AATAACATGTAAATAATAATAACAATAATAAA
1 AATAACATATAAATAATAATAACAATAATAAA
* ** * *
57949678 AATAATATATTTATAATAATAATAATAGTAAA
1 AATAACATATAAATAATAATAACAATAATAAA
57949710 AATAA
1 AATAA
57949715 TAAAATTAAC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (32 bp):
AATAACATATAAATAATAATAACAATAATAAA
Found at i:57949961 original size:23 final size:23
Alignment explanation
Indices: 57949935--57949979 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
57949925 AATTGCAGGG
* *
57949935 TAAAATTAAAAATAATGAAAAAT
1 TAAAATTAAAAACAATAAAAAAT
* *
57949958 TAAATTTCAAAACAATAAAAAA
1 TAAAATTAAAAACAATAAAAAA
57949980 GCAGAAGGGC
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.24
Consensus pattern (23 bp):
TAAAATTAAAAACAATAAAAAAT
Found at i:57950360 original size:5 final size:5
Alignment explanation
Indices: 57950350--57950382 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
57950340 AAATAGGTTC
*
57950350 AAAAT AAAAT AAAAT AAAAT AAAA- AAAAC AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
57950383 ACGAAAATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.85, C:0.03, G:0.00, T:0.12
Consensus pattern (5 bp):
AAAAT
Found at i:57951134 original size:44 final size:44
Alignment explanation
Indices: 57951071--57951314 Score: 170
Period size: 44 Copynumber: 5.4 Consensus size: 44
57951061 ATCTACTCTG
* *
57951071 CTGCAACTTTAGGGAGATAAGACTTGCAACTTCAACCTGCTCCA
1 CTGCAACTTCAGGGAGATAAGACTTGCAACTTCAATCTGCTCCA
** * ** **
57951115 CTGCAACTTCAGGGAGATAAGGTTTG---TTTTGATCTGCTTTA
1 CTGCAACTTCAGGGAGATAAGACTTGCAACTTCAATCTGCTCCA
* * *
57951156 CTGCAACTTCAGAGAGATAAGATCTGTTTATTCATAGCTTCAATCTGTTCCA
1 CTGCAACTTCAGGGAGATAAGA-C----T-TGCA-A-CTTCAATCTGCTCCA
* * * * *
57951208 CTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTTTGCTCCA
1 CTGCAACTTCAGGGAGATAAGACTTGC-AACTTCAATCTGCTCCA
** * *
57951253 CTGCAACTTCAGGGAGATAAGACTTGTGACTTCAATCTACTCCG
1 CTGCAACTTCAGGGAGATAAGACTTGCAACTTCAATCTGCTCCA
* * *
57951297 CTGAAACTTTAAGGAGAT
1 CTGCAACTTCAGGGAGAT
57951315 CTGCTGTGGC
Statistics
Matches: 149, Mismatches: 39, Indels: 24
0.70 0.18 0.11
Matches are distributed among these distances:
41 29 0.19
44 49 0.33
45 36 0.24
46 3 0.02
47 3 0.02
52 29 0.19
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (44 bp):
CTGCAACTTCAGGGAGATAAGACTTGCAACTTCAATCTGCTCCA
Found at i:57951143 original size:85 final size:84
Alignment explanation
Indices: 57951000--57951180 Score: 222
Period size: 85 Copynumber: 2.1 Consensus size: 84
57950990 ACTTTTAAGA
* * * * *
57951000 AGATAAGATCTTCAACTTCAATCTGTTCCATTGCCACTTTAGGGAGATGGAATTTGTTTTGATCT
1 AGATAAGATCTTCAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATGG-ATTTGTTTTGATCT
* * *
57951065 ACTCTGCTGCAACTTTAGGG
65 ACTCTACTGCAACTTCAGAG
57951085 AGATAAGA-CTTGCAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGG-TTTGTTTTGAT
1 AGATAAGATCTT-CAACTTCAACCTGCTCCACTGCAACTTCAGGGAGAT--GGATTTGTTTTGAT
* *
57951148 CTGCTTTACTGCAACTTCAGAG
63 CTACTCTACTGCAACTTCAGAG
57951170 AGATAAGATCT
1 AGATAAGATCT
57951181 GTTTATTCAT
Statistics
Matches: 82, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
84 3 0.04
85 75 0.91
86 2 0.02
87 2 0.02
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (84 bp):
AGATAAGATCTTCAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATGGATTTGTTTTGATCTA
CTCTACTGCAACTTCAGAG
Found at i:57951407 original size:68 final size:68
Alignment explanation
Indices: 57951293--57951699 Score: 589
Period size: 68 Copynumber: 6.0 Consensus size: 68
57951283 TTCAATCTAC
* * * * * *
57951293 TCCGCTGAAACTTTAAGGAGATCTGCTGTGGCTTCGAGCCGTTCCAATGCCATTTTAGGGAGAAG
1 TCCGCTGAAACTTCAAGGAGATCTGCTGTGGCTTCTAGCCGCTCCAACGCCATTTCAGGGAGAAA
57951358 AGA
66 AGA
* ** *
57951361 TCCGCTGAAAGTTCAAGGAGATCTGCTGTGGCTTCTAGCTACTCCAACGCCATTTCAAGGAGAAA
1 TCCGCTGAAACTTCAAGGAGATCTGCTGTGGCTTCTAGCCGCTCCAACGCCATTTCAGGGAGAAA
57951426 AGAA
66 AG-A
*
57951430 TCAGCTGAAACTTCAAGGAGATCTGCTGTGGCTTCTAGCCGCTCCAACGCCATTTCAGGGAGAAA
1 TCCGCTGAAACTTCAAGGAGATCTGCTGTGGCTTCTAGCCGCTCCAACGCCATTTCAGGGAGAAA
*
57951495 AAA
66 AGA
* * * * * *
57951498 TCCGCTGAAACTTCAAGGAGATCTGTTATGGATTTTAGCCGCTCCAACGCCATTTCAAGGAGAAG
1 TCCGCTGAAACTTCAAGGAGATCTGCTGTGGCTTCTAGCCGCTCCAACGCCATTTCAGGGAGAAA
57951563 AGA
66 AGA
* * * * *
57951566 TCCGCTGAAACTTTAAGGAGATCTGTTGTGGCTTCTAGCCGTTCCAACGCTATTTTAGGGAGAAA
1 TCCGCTGAAACTTCAAGGAGATCTGCTGTGGCTTCTAGCCGCTCCAACGCCATTTCAGGGAGAAA
57951631 AGA
66 AGA
*
57951634 TCTGCTGAAACTTCAAGGAGATCTGCTGTGGCTTCTAGCCGCTCCAACGCCATTTCAGGGAGAAA
1 TCCGCTGAAACTTCAAGGAGATCTGCTGTGGCTTCTAGCCGCTCCAACGCCATTTCAGGGAGAAA
57951699 A
66 A
57951700 AATCTATAAT
Statistics
Matches: 299, Mismatches: 39, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
68 237 0.79
69 62 0.21
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.25
Consensus pattern (68 bp):
TCCGCTGAAACTTCAAGGAGATCTGCTGTGGCTTCTAGCCGCTCCAACGCCATTTCAGGGAGAAA
AGA
Found at i:57951857 original size:87 final size:87
Alignment explanation
Indices: 57951711--57952322 Score: 836
Period size: 87 Copynumber: 7.0 Consensus size: 87
57951701 ATCTATAATT
* * * *
57951711 TTCAGCCTGTTACCCTACTGCTTAGGGGGTCAAGGCTCATTGCCTTCAATCTGTTTCCCTACTGC
1 TTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCATCGCCTTCGATCTGTTTCCCTACTGC
57951776 TTAGGGTGATAAGATCTGTAAA
66 TTAGGGTGATAAGATCTGTAAA
* * **
57951798 TTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCATCACTTTCGATCTGTTTCCCTACTAA
1 TTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCATCGCCTTCGATCTGTTTCCCTACTGC
57951863 TTAGGGTGATAAGATCTGTAAA
66 TTAGGGTGATAAGATCTGTAAA
* * * *
57951885 TTCAGCCTGTTACCCTACTACCTAGGGGGTTAAGGCCCATCGCATTCGATCTGTTTCCCTACTAC
1 TTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCATCGCCTTCGATCTGTTTCCCTACTGC
* *
57951950 TTAGGGTGATAAAATCTATAAA
66 TTAGGGTGATAAGATCTGTAAA
* * *
57951972 TTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCATCACCTTCGATCTGTTTCCCTACTGT
1 TTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCATCGCCTTCGATCTGTTTCCCTACTGC
57952037 TTAGGGTGATAAGATCTGTAAA
66 TTAGGGTGATAAGATCTGTAAA
* *
57952059 TTCAGCCTGTTATCCTACTGCTTAGGGGGTTAAAGCCCATCGCCTTCGATCTGTTTCCCTACTGC
1 TTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCATCGCCTTCGATCTGTTTCCCTACTGC
*
57952124 TTAGGGTGATAAGATCTGTAAT
66 TTAGGGTGATAAGATCTGTAAA
* * * * * * * *
57952146 TTCAACCTGTTGCCCTACTACTTAGGAGGTTAAGGCCCATCGTCTTCGATCTG-CTCCACCACTA
1 TTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCATCGCCTTCGATCTGTTTCC-CTACTG
* *
57952210 CTTAGGGAGACAAGATCTGT-AA
65 CTTAGGGTGATAAGATCTGTAAA
* * * * *
57952232 TTC-GACCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCGATCTG-CTCCACTACC
1 TTCAG-CCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCATCGCCTTCGATCTGTTTCC-CTACT
* *
57952295 GCTTAGGGAGATAAGATCTGTGAA
64 GCTTAGGGTGATAAGATCTGTAAA
57952319 TTCA
1 TTCA
57952323 CCGATGTTGC
Statistics
Matches: 468, Mismatches: 53, Indels: 7
0.89 0.10 0.01
Matches are distributed among these distances:
86 77 0.16
87 391 0.84
ACGTcount: A:0.22, C:0.25, G:0.21, T:0.32
Consensus pattern (87 bp):
TTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCATCGCCTTCGATCTGTTTCCCTACTGC
TTAGGGTGATAAGATCTGTAAA
Found at i:57951867 original size:44 final size:44
Alignment explanation
Indices: 57951804--57952267 Score: 196
Period size: 44 Copynumber: 10.7 Consensus size: 44
57951794 TAAATTCAGC
* *
57951804 CTGTTACCCTACTGCTTAGGGGGTTAAGGCCCATCACTTTCGAT
1 CTGTTACCCTACTACTTAGGGGGTTAAGGCCCATCACATTCGAT
* * * * ** ** * *
57951848 CTGTTTCCCTACTAATTAGGGTGATAAGATCTGT-AAATTC-AGC
1 CTGTTACCCTACTACTTAGGGGGTTAAGGCCCATCACATTCGA-T
* *
57951891 CTGTTACCCTACTACCTAGGGGGTTAAGGCCCATCGCATTCGAT
1 CTGTTACCCTACTACTTAGGGGGTTAAGGCCCATCACATTCGAT
* * * *** * * * *
57951935 CTGTTTCCCTACTACTTAGGGTGATAAAATCTAT-AAATT-TAGC
1 CTGTTACCCTACTACTTAGGGGGTTAAGGCCCATCACATTCGA-T
* *
57951978 CTGTTACCCTACTGCTTAGGGGGTTAAGGCCCATCACCTTCGAT
1 CTGTTACCCTACTACTTAGGGGGTTAAGGCCCATCACATTCGAT
* ** * * ** ** * *
57952022 CTGTTTCCCTACTGTTTAGGGTGATAAGATCTGT-AAATTC-AGC
1 CTGTTACCCTACTACTTAGGGGGTTAAGGCCCATCACATTCGA-T
* * * * *
57952065 CTGTTATCCTACTGCTTAGGGGGTTAAAGCCCATCGCCTTCGAT
1 CTGTTACCCTACTACTTAGGGGGTTAAGGCCCATCACATTCGAT
* * * * ** ** * *
57952109 CTGTTTCCCTACTGCTTAGGGTGATAAGATCTGT-A-ATTTCAAC
1 CTGTTACCCTACTACTTAGGGGGTTAAGGCCCATCACA-TTCGAT
* * *
57952152 CTGTTGCCCTACTACTTAGGAGGTTAAGGCCCATCGTC-TTCGAT
1 CTGTTACCCTACTACTTAGGGGGTTAAGGCCCATC-ACATTCGAT
* * * ** ** ** *
57952196 CTGCT-CCACCACTACTTAGGGAGACAAGATCTGT-A-ATTCGAC
1 CTGTTACC-CTACTACTTAGGGGGTTAAGGCCCATCACATTCGAT
*
57952238 CTGTTACCCTACTGCTTAGGGGGTTAAGGC
1 CTGTTACCCTACTACTTAGGGGGTTAAGGC
57952268 TCACCGTCTT
Statistics
Matches: 286, Mismatches: 118, Indels: 34
0.65 0.27 0.08
Matches are distributed among these distances:
42 27 0.09
43 119 0.42
44 137 0.48
45 3 0.01
ACGTcount: A:0.22, C:0.25, G:0.21, T:0.32
Consensus pattern (44 bp):
CTGTTACCCTACTACTTAGGGGGTTAAGGCCCATCACATTCGAT
Found at i:57952542 original size:66 final size:66
Alignment explanation
Indices: 57952380--57952579 Score: 341
Period size: 66 Copynumber: 3.1 Consensus size: 66
57952370 TTCATGTATC
* * *
57952380 TATGCTTATGCCAAATAATTAGGATGCTATGATCGGAATGAATCAAATGCTCCTAACTAGATGTG
1 TATGCTTGTGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
57952445 -
66 T
57952445 -ATGCTTGTGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
1 TATGCTTGTGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
57952509 T
66 T
* *
57952510 TATGCTTGTGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCATAATTAGATGTG
1 TATGCTTGTGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
57952575 T
66 T
57952576 TATG
1 TATG
57952580 AATGATATAT
Statistics
Matches: 128, Mismatches: 5, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
64 61 0.48
66 67 0.52
ACGTcount: A:0.34, C:0.13, G:0.20, T:0.33
Consensus pattern (66 bp):
TATGCTTGTGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
T
Found at i:57957635 original size:3 final size:3
Alignment explanation
Indices: 57957627--57957814 Score: 98
Period size: 3 Copynumber: 62.7 Consensus size: 3
57957617 GATGAAAACG
* * * * * * *
57957627 ATA ATA ATA ATA ATA ATA ATG TTG ATA ATA ATA ATA GTA GTA GTA AAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
57957675 ATA ATA ATA CTA ATG ATA ATA ATA A-A AGTA ATA ATA AGA ATA TTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA
* * * * * * *
57957720 ATA TTA GTA TTA ATA ATA ATG ATA ATA GTA ATA GAAA AAA ATA A-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA
* * * *
57957765 AAA ATA A-A AAA AGTA ATA GTA ATA A-A AGTGA AT- ATA ATA GTA ATA
1 ATA ATA ATA ATA A-TA ATA ATA ATA ATA A-T-A ATA ATA ATA ATA ATA
57957810 ATA AT
1 ATA AT
57957815 GGTAAATACA
Statistics
Matches: 143, Mismatches: 32, Indels: 20
0.73 0.16 0.10
Matches are distributed among these distances:
2 10 0.07
3 124 0.87
4 7 0.05
5 2 0.01
ACGTcount: A:0.60, C:0.01, G:0.09, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:57957692 original size:39 final size:39
Alignment explanation
Indices: 57957627--57957771 Score: 112
Period size: 39 Copynumber: 3.6 Consensus size: 39
57957617 GATGAAAACG
* **
57957627 ATAATAATAATAATAATAATGTTGATAATAATAATAGTA
1 ATAATAAAAATAATAATAATAATGATAATAATAATAGTA
* * * *
57957666 GTAGTAAAAATAATAATACTAATGATAATAATAAAAGTA
1 ATAATAAAAATAATAATAATAATGATAATAATAATAGTA
* * *
57957705 ATAATAAGAATATTAATATTAGTATTAATAATAATGATAATAGTA
1 ATAATAA-AA-A-TAATA--A-TAATAATGATAATAATAATAGTA
* *
57957750 ATAGAAAAAAATAA-AAAAATAA
1 ATA-ATAAAAATAATAATAATAA
57957772 AAAAAGTAAT
Statistics
Matches: 83, Mismatches: 16, Indels: 14
0.73 0.14 0.12
Matches are distributed among these distances:
39 41 0.49
40 3 0.04
41 1 0.01
42 6 0.07
43 3 0.04
44 2 0.02
45 24 0.29
46 3 0.04
ACGTcount: A:0.60, C:0.01, G:0.08, T:0.31
Consensus pattern (39 bp):
ATAATAAAAATAATAATAATAATGATAATAATAATAGTA
Found at i:57957822 original size:24 final size:22
Alignment explanation
Indices: 57957778--57957832 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 22
57957768 ATAAAAAAAG
*
57957778 TAATAGTAATAAAAGTGAATA-
1 TAATAGTAATAAAAGTAAATAC
57957799 TAATAGTAATAATAATGGTAAATAC
1 TAATAGTAATAA-AA--GTAAATAC
*
57957824 AAATAGTAA
1 TAATAGTAA
57957833 CAACAATGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 12 0.43
22 2 0.07
24 6 0.21
25 8 0.29
ACGTcount: A:0.56, C:0.02, G:0.13, T:0.29
Consensus pattern (22 bp):
TAATAGTAATAAAAGTAAATAC
Found at i:57958025 original size:3 final size:3
Alignment explanation
Indices: 57958014--57958560 Score: 238
Period size: 3 Copynumber: 184.3 Consensus size: 3
57958004 ACAAAAAAAT
57958014 ATA AT- ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
57958061 ATA GTA ATA AT- ACA ATA GTA ACA ATA ATA A-A AGGT- ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A--TA ATA ATA ATA
* * * * * * * *
57958105 ACA ACA ATA ATA ATA ATA ATA ATA ATA ATG GTA ATA GTG ATA TTA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * *
57958153 ATA ATA ATA ATA AGA AGAA ATA AGA GTA CATTA ATA ATG ATA GTA TATG
1 ATA ATA ATA ATA ATA A-TA ATA ATA ATA -A-TA ATA ATA ATA ATA -ATA
* * * * *
57958202 TTA ATA ACA ATA ATA ATA TATA AAA ATA GGA-A ATA ATA AT- ATG GTA
1 ATA ATA ATA ATA ATA ATA -ATA ATA ATA --ATA ATA ATA ATA ATA ATA
* * * * * * *
57958248 AAA ATA ATA ATA ATA ATA ACA AAA ATA GTA ATA ATA GTA TGTG A-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA
* * * * * * *
57958293 ATA ATA ATT GTA A-A A-A ATA ATA GTA ATA ATT ATA TTG ATA ATA CTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
57958339 ATA ATA ATA GTA GTA A-A A-A ATA A-A A-A AT- ATA A-A AAA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
57958381 ATA ATA GTA AAA ATG ACA ATA A-A ATA A-G ATA ATA ATA ATG ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * **
57958427 ATA A-A A-A ATA A-A AAA AGTA ATA ATG GCA ATA ATA ATA ATA CCATA
1 ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA --ATA
* * * * * *
57958472 ATA A-A AGA AAA AGAA ATA ATA ACA TGTAA ATA ATA ATA ACA ATA ATA
1 ATA ATA ATA ATA A-TA ATA ATA ATA -AT-A ATA ATA ATA ATA ATA ATA
* * * * *
57958519 ACA ATA AT- ATA TTT ATA ATA ATA ATA ATA GTA AAA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
57958561 AATTAACTAA
Statistics
Matches: 402, Mismatches: 108, Indels: 68
0.70 0.19 0.12
Matches are distributed among these distances:
2 39 0.10
3 339 0.84
4 17 0.04
5 7 0.02
ACGTcount: A:0.61, C:0.03, G:0.07, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:57958268 original size:58 final size:58
Alignment explanation
Indices: 57958203--57958322 Score: 147
Period size: 58 Copynumber: 2.1 Consensus size: 58
57958193 TAGTATATGT
*
57958203 TAATAACAATAATAATATATAAAAATA-G-GAAATAATAATATGGT-AAAAATAATAATAA
1 TAATAACAAAAATAATA-ATAAAAATATGTGAAATAATAAT-T-GTAAAAAATAATAATAA
* * * *
57958261 TAATAACAAAAATAGTAATAATAGTATGTGAAATAATAATTGTAAAAAATAATAGTAA
1 TAATAACAAAAATAATAATAAAAATATGTGAAATAATAATTGTAAAAAATAATAATAA
57958319 TAAT
1 TAAT
57958323 TATATTGATA
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
57 9 0.17
58 34 0.63
59 11 0.20
ACGTcount: A:0.61, C:0.02, G:0.08, T:0.29
Consensus pattern (58 bp):
TAATAACAAAAATAATAATAAAAATATGTGAAATAATAATTGTAAAAAATAATAATAA
Found at i:57958392 original size:28 final size:31
Alignment explanation
Indices: 57958361--57958417 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
57958351 GTAAAAAATA
*
57958361 AAAAAT-ATAAAAAAAT-A-ATAATAATAGT
1 AAAAATGACAAAAAAATAAGATAATAATAGT
*
57958389 AAAAATGACAATAAAATAAGATAATAATA
1 AAAAATGACAAAAAAATAAGATAATAATA
57958418 ATGATAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 6 0.25
29 8 0.33
30 1 0.04
31 9 0.38
ACGTcount: A:0.70, C:0.02, G:0.05, T:0.23
Consensus pattern (31 bp):
AAAAATGACAAAAAAATAAGATAATAATAGT
Found at i:57958448 original size:34 final size:34
Alignment explanation
Indices: 57958340--57958450 Score: 118
Period size: 34 Copynumber: 3.2 Consensus size: 34
57958330 ATAATACTAA
* *
57958340 TAATAATAGTAGTAAAAAATAAAAAATATAAAAAAA
1 TAATAATAATAGT-AAAAATAAAAAATA-AAAAAAG
* * *
57958376 TAATAATAATAGTAAAAAT-GACAATAAAATAAG
1 TAATAATAATAGTAAAAATAAAAAATAAAAAAAG
*
57958409 ATAATAATAAT-GATAATAATAAAAAATAAAAAAAG
1 -TAATAATAATAG-TAAAAATAAAAAATAAAAAAAG
57958444 TAATAAT
1 TAATAAT
57958451 GGCAATAATA
Statistics
Matches: 63, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
33 6 0.10
34 28 0.44
35 17 0.27
36 12 0.19
ACGTcount: A:0.68, C:0.01, G:0.06, T:0.24
Consensus pattern (34 bp):
TAATAATAATAGTAAAAATAAAAAATAAAAAAAG
Found at i:57958805 original size:23 final size:23
Alignment explanation
Indices: 57958779--57958823 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
57958769 AATTACAGGG
*
57958779 TAAAATTAAAAATAATAAAAAAT
1 TAAAATTAAAAACAATAAAAAAT
* *
57958802 TAAATTTCAAAACAATAAAAAA
1 TAAAATTAAAAACAATAAAAAA
57958824 GCAGAAGGGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.24
Consensus pattern (23 bp):
TAAAATTAAAAACAATAAAAAAT
Found at i:57960617 original size:34 final size:34
Alignment explanation
Indices: 57960576--57960642 Score: 125
Period size: 34 Copynumber: 2.0 Consensus size: 34
57960566 AAAGAATTGT
*
57960576 TTTTTAATGTTATCGTTGGTGAGATTATCTCATG
1 TTTTTAATGATATCGTTGGTGAGATTATCTCATG
57960610 TTTTTAATGATATCGTTGGTGAGATTATCTCAT
1 TTTTTAATGATATCGTTGGTGAGATTATCTCAT
57960643 ATAAAAGATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.22, C:0.09, G:0.19, T:0.49
Consensus pattern (34 bp):
TTTTTAATGATATCGTTGGTGAGATTATCTCATG
Found at i:57963001 original size:14 final size:13
Alignment explanation
Indices: 57962969--57963004 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
57962959 AAAGCCTCAT
57962969 TTATTTATTTTTA
1 TTATTTATTTTTA
*
57962982 TCATTTATTTTTA
1 TTATTTATTTTTA
57962995 TATATTTATT
1 T-TATTTATT
57963005 ATATAAATGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 13 0.65
14 7 0.35
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (13 bp):
TTATTTATTTTTA
Found at i:57963124 original size:19 final size:18
Alignment explanation
Indices: 57963100--57963149 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
57963090 TTCACTTAAA
* *
57963100 TTAATTATTTGTTTTAATT
1 TTAATTATTT-TTTGAAAT
57963119 TTAATTTATTTTTTGAAAT
1 TTAA-TTATTTTTTGAAAT
*
57963138 ATAATTATTTTT
1 TTAATTATTTTT
57963150 AATGAATACT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 8 0.30
19 13 0.48
20 6 0.22
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (18 bp):
TTAATTATTTTTTGAAAT
Found at i:57963348 original size:17 final size:17
Alignment explanation
Indices: 57963328--57963383 Score: 53
Period size: 17 Copynumber: 3.3 Consensus size: 17
57963318 TTCAATACTA
*
57963328 TATATTTTAAT-ATAAT
1 TATATTATAATAATAAT
*
57963344 CTATAATATAATAATAAT
1 -TATATTATAATAATAAT
*
57963362 TATA-TATAGTAATACAT
1 TATATTATAATAATA-AT
57963379 TATAT
1 TATAT
57963384 ATTATATATT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
16 9 0.27
17 19 0.58
18 5 0.15
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (17 bp):
TATATTATAATAATAAT
Found at i:57963374 original size:24 final size:24
Alignment explanation
Indices: 57963347--57963392 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
57963337 ATATAATCTA
57963347 TAATATAATAATA-ATTATATATAG
1 TAATA-AATAATATATTATATATAG
* *
57963371 TAATACATTATATATTATATAT
1 TAATAAATAATATATTATATAT
57963393 TAATTATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (24 bp):
TAATAAATAATATATTATATATAG
Found at i:57963384 original size:17 final size:16
Alignment explanation
Indices: 57963335--57963399 Score: 60
Period size: 17 Copynumber: 3.8 Consensus size: 16
57963325 CTATATATTT
57963335 TAAT-ATAATCTATAATA
1 TAATAATAAT-TAT-ATA
57963352 TAATAATAATTATATA
1 TAATAATAATTATATA
*
57963368 TAGTAATACATTATATA
1 TAATAATA-ATTATATA
*
57963385 TTATATATTAATTAT
1 -TA-ATAATAATTAT
57963400 TATTTTTTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
16 10 0.24
17 15 0.37
18 12 0.29
19 4 0.10
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46
Consensus pattern (16 bp):
TAATAATAATTATATA
Found at i:57963639 original size:17 final size:17
Alignment explanation
Indices: 57963617--57963651 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
57963607 ATAGTAGTAC
57963617 ATTATATATTACATATT
1 ATTATATATTACATATT
*
57963634 ATTATATATTATATATT
1 ATTATATATTACATATT
57963651 A
1 A
57963652 CTGTTTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTATATATTACATATT
Found at i:57963643 original size:7 final size:7
Alignment explanation
Indices: 57963559--57963651 Score: 57
Period size: 7 Copynumber: 12.9 Consensus size: 7
57963549 ATGTTATGTA
57963559 ATATTAT
1 ATATTAT
*
57963566 ATATTTT
1 ATATTAT
*
57963573 ATTATAAT
1 A-TATTAT
*
57963581 ATATAAT
1 ATATTAT
*
57963588 ATAATA-
1 ATATTAT
57963594 ATAGTTAT
1 ATA-TTAT
57963602 ATA-TA-
1 ATATTAT
*
57963607 ATAGTAGT
1 ATATTA-T
*
57963615 ACATTAT
1 ATATTAT
57963622 ATATTACAT
1 ATATT--AT
57963631 ATTATTAT
1 A-TATTAT
57963639 ATATTAT
1 ATATTAT
57963646 ATATTA
1 ATATTA
57963652 CTGTTTATTA
Statistics
Matches: 68, Mismatches: 9, Indels: 18
0.72 0.09 0.19
Matches are distributed among these distances:
5 3 0.04
6 7 0.10
7 36 0.53
8 15 0.22
9 3 0.04
10 4 0.06
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.49
Consensus pattern (7 bp):
ATATTAT
Found at i:57963645 original size:24 final size:25
Alignment explanation
Indices: 57963617--57963669 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 25
57963607 ATAGTAGTAC
57963617 ATTATATATTACAT-ATTATTA-TAT
1 ATTATATATTAC-TGATTATTATTAT
*
57963641 ATTATATATTACTGTTTATTATTAT
1 ATTATATATTACTGATTATTATTAT
57963666 ATTA
1 ATTA
57963670 GTTGAAATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 1 0.04
24 18 0.69
25 7 0.27
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.57
Consensus pattern (25 bp):
ATTATATATTACTGATTATTATTAT
Found at i:57963684 original size:250 final size:248
Alignment explanation
Indices: 57963374--57963893 Score: 640
Period size: 248 Copynumber: 2.1 Consensus size: 248
57963364 TATATAGTAA
* * * *
57963374 TACATTATATATTATATATTA-ATTATTATTTTTTATAATTGTATTGGTTGAAATATACTCTAAA
1 TACA-TAT-TATTATATATTATATTATTACTGTTTATAATTATATTAGTTGAAATATACTCTAAA
* * * *
57963438 TCCCTATA-TTTTCCATGCGTATATGAAAGTTAGCCCTCTTATCATATTATATAATACTATAT-T
64 TCCATATACTTTT-CATAC--ATATGAAAGATAGCACTC--AT-ATATTATATAATACTATATAT
* * * * * *
57963501 ATACCATATTAGTAGTTTATATATATACATAAATGGA-TAAACGTTATAATGTTATGTAATATTA
123 ATAACATATTAATAGTTTATATATATACATAAAT-GATTAAACATTATAATATCATGTAATACTA
*
57963565 TATA-TTTTATTATAATATATAATATAATAATAGTTATATATAATAGTAGTACATTATATAT
187 TATATTTTTATTATAATACATAATATAATAATAGTTATATATAATAGTAGTACATTATATAT
* *
57963626 TACATATTATTATATATTATA-TATTACTGTTTATTATTATATTAGTTGAAATATACTCTAAGTC
1 TACATATTATTATATATTATATTATTACTGTTTATAATTATATTAGTTGAAATATACTCTAAATC
* * * * *
57963690 CATATACTTTTCATACATTTGGAAGATAGCACTCCTATATTATATAATGCTATATCATATAATAT
66 CATATACTTTTCATACATATGAAAGATAGCACTCATATATTATATAATACTATAT-ATATAACAT
*
57963755 ATTAATAGTTTATATATATGCATAAATGATTAAACATTATAATATCATGTAATACTATATATTTT
130 ATTAATAGTTTATATATATACATAAATGATTAAACATTATAATATCATGTAATACTATATATTTT
* * *
57963820 TATTATAATCCATATTATAATAATAGTTATATATAATAGTAGTATATTATATAT
195 TATTATAATACATAATATAATAATAGTTATATATAATAGTAGTACATTATATAT
* *
57963874 TACTTGTTA-TATATTATTAT
1 TACATATTATTATA-TATTAT
57963894 TTACTATTAT
Statistics
Matches: 233, Mismatches: 28, Indels: 18
0.84 0.10 0.06
Matches are distributed among these distances:
245 18 0.08
246 3 0.01
247 62 0.27
248 80 0.34
250 58 0.25
251 8 0.03
252 4 0.02
ACGTcount: A:0.39, C:0.08, G:0.07, T:0.46
Consensus pattern (248 bp):
TACATATTATTATATATTATATTATTACTGTTTATAATTATATTAGTTGAAATATACTCTAAATC
CATATACTTTTCATACATATGAAAGATAGCACTCATATATTATATAATACTATATATATAACATA
TTAATAGTTTATATATATACATAAATGATTAAACATTATAATATCATGTAATACTATATATTTTT
ATTATAATACATAATATAATAATAGTTATATATAATAGTAGTACATTATATAT
Found at i:57963856 original size:16 final size:16
Alignment explanation
Indices: 57963835--57963887 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
57963825 TAATCCATAT
57963835 TATAATAATAGTTATA
1 TATAATAATAGTTATA
*
57963851 TATAATAGTAGTATATTA
1 TATAATAATAGT-TA-TA
* * *
57963869 TATATTACTTGTTATA
1 TATAATAATAGTTATA
57963885 TAT
1 TAT
57963888 TATTATTTAC
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
16 16 0.52
17 4 0.13
18 11 0.35
ACGTcount: A:0.42, C:0.02, G:0.08, T:0.49
Consensus pattern (16 bp):
TATAATAATAGTTATA
Found at i:57964292 original size:20 final size:20
Alignment explanation
Indices: 57964252--57964304 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 20
57964242 TTTAGATTTT
**
57964252 TTTAAATTAAAAATATTAAA
1 TTTAAATTAAAAATAGAAAA
57964272 TTTAAATTAAAAATAGAAAA
1 TTTAAATTAAAAATAGAAAA
57964292 TTATAATATTAAA
1 TT-TAA-ATTAAA
57964305 CATTTCAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 20 0.69
21 3 0.10
22 6 0.21
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (20 bp):
TTTAAATTAAAAATAGAAAA
Found at i:57964857 original size:19 final size:19
Alignment explanation
Indices: 57964794--57964857 Score: 69
Period size: 19 Copynumber: 3.5 Consensus size: 19
57964784 TTTTGTAAAT
57964794 TTTAT-TTTTATATATTT-
1 TTTATATTTTATATATTTA
* * *
57964811 TTAATAATTTATATATATA
1 TTTATATTTTATATATTTA
*
57964830 TTTAGATTTTATATATTTA
1 TTTATATTTTATATATTTA
*
57964849 TTTCTATTT
1 TTTATATTT
57964858 CCATTTTTTT
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
17 4 0.11
18 10 0.28
19 22 0.61
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (19 bp):
TTTATATTTTATATATTTA
Found at i:57971473 original size:38 final size:40
Alignment explanation
Indices: 57971413--57971497 Score: 111
Period size: 39 Copynumber: 2.1 Consensus size: 40
57971403 CTAAGCCCAT
** *
57971413 TACAGATTCAGATACAGTTTA-GGCCTTAGCCCAT-TTAGA
1 TACAG-TTCAGATACAACTTAGGGCCTTAGCCCATCTCAGA
*
57971452 TACAGTTCAGATATAACTTAGGGCCTTAGCCCATCTCAGA
1 TACAGTTCAGATACAACTTAGGGCCTTAGCCCATCTCAGA
57971492 TACAGT
1 TACAGT
57971498 ATGTATACAG
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
38 12 0.30
39 18 0.45
40 10 0.25
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (40 bp):
TACAGTTCAGATACAACTTAGGGCCTTAGCCCATCTCAGA
Found at i:57979613 original size:22 final size:23
Alignment explanation
Indices: 57979587--57979641 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
57979577 TGCATTTTGG
* *
57979587 TTTTG-TTGCTTTTCTGCTTATT
1 TTTTGATTGCTTCTCTACTTATT
*
57979609 TTTTGATTGCTTCTCTACTTGTTT
1 TTTTGATTGCTTCTCTACTT-ATT
57979633 TTTTGATTG
1 TTTTGATTG
57979642 GTTTTTATAG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 5 0.18
23 12 0.43
24 11 0.39
ACGTcount: A:0.07, C:0.13, G:0.15, T:0.65
Consensus pattern (23 bp):
TTTTGATTGCTTCTCTACTTATT
Found at i:57979619 original size:23 final size:24
Alignment explanation
Indices: 57979587--57979646 Score: 70
Period size: 24 Copynumber: 2.6 Consensus size: 24
57979577 TGCATTTTGG
*
57979587 TTTTG-TTGCTTTTCTGCTT-ATT
1 TTTTGATTGCTTTTCTACTTGATT
* *
57979609 TTTTGATTGCTTCTCTACTTGTTT
1 TTTTGATTGCTTTTCTACTTGATT
*
57979633 TTTTGATTGGTTTT
1 TTTTGATTGCTTTT
57979647 TATAGGCATT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
22 5 0.16
23 12 0.39
24 14 0.45
ACGTcount: A:0.07, C:0.12, G:0.15, T:0.67
Consensus pattern (24 bp):
TTTTGATTGCTTTTCTACTTGATT
Found at i:57984213 original size:5 final size:5
Alignment explanation
Indices: 57984203--57984248 Score: 65
Period size: 5 Copynumber: 8.6 Consensus size: 5
57984193 TAAGAATAAT
57984203 AAATA AAATA AAATA AATTAGTA AAATA AAATA AAATA AAATA AAA
1 AAATA AAATA AAATA AA--A-TA AAATA AAATA AAATA AAATA AAA
57984249 ATAGGGTGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
5 32 0.84
6 1 0.03
7 1 0.03
8 4 0.11
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (5 bp):
AAATA
Found at i:57987957 original size:132 final size:132
Alignment explanation
Indices: 57987719--57987981 Score: 386
Period size: 132 Copynumber: 2.0 Consensus size: 132
57987709 ACTTAAAACT
*
57987719 TCTTGAAAACGAAGGCGAGATTTGATATTTGGCAACTCGCAGAATCGTGCCCTAACGTGTTGGAT
1 TCTTGAAAACGAAGGCGAGACTTGATATTTGGCAACTCGCAGAATCGTGCCCTAACGTGTTGGAT
* * *
57987784 TGCAAATTCGTGTTTGCTCAAAATAATCAAATGTCCTTTCAAAATTTCA-TCCATGTCTTCTAAA
66 TGCAAATTCCTGTTTGCTCAAAATAATCAAATATCCCTTCAAAATTTCACT-CATGTCTTCTAAA
57987848 AAG
130 AAG
* * ** *
57987851 TCTTGAAAACGAAGGCGAGGCTTGATATTTGGCAATTCGTGGAATCGTGCCCTAACGTGTTGGGT
1 TCTTGAAAACGAAGGCGAGACTTGATATTTGGCAACTCGCAGAATCGTGCCCTAACGTGTTGGAT
** *
57987916 TGC-AATTCCTCGTTTGCTCAAAATGTTCAAATATCCCTTCAAAATTTTACTCATGTCTTCTAAA
66 TGCAAATTCCT-GTTTGCTCAAAATAATCAAATATCCCTTCAAAATTTCACTCATGTCTTCTAAA
57987980 AA
130 AA
57987982 TCCTTTAAGA
Statistics
Matches: 117, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
131 6 0.05
132 110 0.94
133 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (132 bp):
TCTTGAAAACGAAGGCGAGACTTGATATTTGGCAACTCGCAGAATCGTGCCCTAACGTGTTGGAT
TGCAAATTCCTGTTTGCTCAAAATAATCAAATATCCCTTCAAAATTTCACTCATGTCTTCTAAAA
AG
Found at i:57987998 original size:132 final size:131
Alignment explanation
Indices: 57987719--57988085 Score: 371
Period size: 132 Copynumber: 2.8 Consensus size: 131
57987709 ACTTAAAACT
* * * * *
57987719 TCTTGAAAACGAAGGCGAGATTTGATATTTGGCAACTCGCAGAATCGTGCCCTAACGTGTTGGAT
1 TCTTGAAAACAAAGGCGAGACTTGATATTTGGCAATTCG-GGAATCGTGCCCTAACGTGTTGGGT
* * *
57987784 TGCAAATTCGTGTTTGCTCAAAATAATCAAATGTCCTTTCAAAATTTCATCCATGTCTTCTAAAA
65 TGCAAATTCCTGTTTGCTCAAAATAATCAAATATCCCTTCAAAATTTCATCCATGTCTTCTAAAA
57987849 AG
130 AG
* *
57987851 TCTTGAAAACGAAGGCGAGGCTTGATATTTGGCAATTCGTGGAATCGTGCCCTAACGTGTTGGGT
1 TCTTGAAAACAAAGGCGAGACTTGATATTTGGCAATTCG-GGAATCGTGCCCTAACGTGTTGGGT
** *
57987916 TGC-AATTCCTCGTTTGCTCAAAATGTTCAAATATCCCTTCAAAATTTTA-CTCATGTCTTCTAA
65 TGCAAATTCCT-GTTTGCTCAAAATAATCAAATATCCCTTCAAAATTTCATC-CATGTCTTCTAA
57987979 AAA-
128 AAAG
* * * * * * * * * * * *
57987982 TCCTTTAAGATAAAGGCAATACTCGGTGTTTGACAATTCGGGAATCATGCCCTATCGTGCTGGGT
1 T-CTTGAAAACAAAGGCGAGACTTGATATTTGGCAATTCGGGAATCGTGCCCTAACGTGTTGGGT
** * * * * * *
57988047 TGTGATTTCTTGTTTGTTCAAAACAATCGAATATTCCTT
65 TGCAAATTCCTGTTTGCTCAAAATAATCAAATATCCCTT
57988086 TAGGTTTTCA
Statistics
Matches: 196, Mismatches: 35, Indels: 9
0.82 0.15 0.04
Matches are distributed among these distances:
131 54 0.28
132 142 0.72
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (131 bp):
TCTTGAAAACAAAGGCGAGACTTGATATTTGGCAATTCGGGAATCGTGCCCTAACGTGTTGGGTT
GCAAATTCCTGTTTGCTCAAAATAATCAAATATCCCTTCAAAATTTCATCCATGTCTTCTAAAAA
G
Found at i:57991827 original size:42 final size:42
Alignment explanation
Indices: 57991715--57991871 Score: 149
Period size: 42 Copynumber: 3.7 Consensus size: 42
57991705 TTTCGATATG
* *
57991715 TGATTTCATGTAAGACCACGTCTGGGACA-CTGGCATCG-ATT
1 TGATTACATGTAAGACCATGTCTGGGACATC-GGCATCGTATT
* * *
57991756 TGAGAATTACGTGTAAGACCATGTTTGGGACATCGACATCGTATT
1 T--G-ATTACATGTAAGACCATGTCTGGGACATCGGCATCGTATT
* * *
57991801 TGATTTCGTGTAAGACCTTGTCTGGGACAGT-GGCATCGATATT
1 TGATTACATGTAAGACCATGTCTGGGACA-TCGGCATCG-TATT
**
57991844 TGATTACATGTAAGACCACATCTGGGAC
1 TGATTACATGTAAGACCATGTCTGGGAC
57991872 GTTGACATTG
Statistics
Matches: 95, Mismatches: 14, Indels: 12
0.79 0.12 0.10
Matches are distributed among these distances:
41 1 0.01
42 30 0.32
43 30 0.32
44 29 0.31
45 5 0.05
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (42 bp):
TGATTACATGTAAGACCATGTCTGGGACATCGGCATCGTATT
Found at i:57991858 original size:43 final size:42
Alignment explanation
Indices: 57991707--57991871 Score: 163
Period size: 43 Copynumber: 3.9 Consensus size: 42
57991697 ACATAGGATT
* * *
57991707 TCGATATGTGATTTCATGTAAGACCACGTCTGGGACACTGGCA
1 TCGATATTTGATTACATGTAAGACCATGTCTGGGACA-TGGCA
* * * *
57991750 TCGAT-TTGAGAATTACGTGTAAGACCATGTTTGGGACATCGACA
1 TCGATATT-TG-ATTACATGTAAGACCATGTCTGGGACAT-GGCA
* * *
57991794 TCG-TATTTGATTTCGTGTAAGACCTTGTCTGGGACAGTGGCA
1 TCGATATTTGATTACATGTAAGACCATGTCTGGGACA-TGGCA
**
57991836 TCGATATTTGATTACATGTAAGACCACATCTGGGAC
1 TCGATATTTGATTACATGTAAGACCATGTCTGGGAC
57991872 GTTGACATTG
Statistics
Matches: 99, Mismatches: 17, Indels: 12
0.77 0.13 0.09
Matches are distributed among these distances:
42 31 0.31
43 37 0.37
44 31 0.31
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (42 bp):
TCGATATTTGATTACATGTAAGACCATGTCTGGGACATGGCA
Found at i:57993501 original size:16 final size:17
Alignment explanation
Indices: 57993480--57993512 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
57993470 GAAAAGAGCG
57993480 AAAG-AAGAGAAAAGTT
1 AAAGAAAGAGAAAAGTT
*
57993496 AAAGAAAGAGCAAAGTT
1 AAAGAAAGAGAAAAGTT
57993513 TCGGCAAGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.61, C:0.03, G:0.24, T:0.12
Consensus pattern (17 bp):
AAAGAAAGAGAAAAGTT
Found at i:58003706 original size:19 final size:20
Alignment explanation
Indices: 58003682--58003720 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
58003672 TCTTATTTTT
*
58003682 TATTTGTTTT-TTGTTTTAA
1 TATTTGTTTTCATGTTTTAA
58003701 TATTTGTTTTCATGTTTTAA
1 TATTTGTTTTCATGTTTTAA
58003721 ATGTATTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.18, C:0.03, G:0.10, T:0.69
Consensus pattern (20 bp):
TATTTGTTTTCATGTTTTAA
Found at i:58004140 original size:13 final size:13
Alignment explanation
Indices: 58004122--58004148 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
58004112 CGAGGGAATA
58004122 ACGTCTGATATGC
1 ACGTCTGATATGC
58004135 ACGTCTGATATGC
1 ACGTCTGATATGC
58004148 A
1 A
58004149 TAACTTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (13 bp):
ACGTCTGATATGC
Found at i:58013401 original size:16 final size:16
Alignment explanation
Indices: 58013380--58013450 Score: 99
Period size: 16 Copynumber: 4.4 Consensus size: 16
58013370 GTTTGGTTCA
58013380 CTGTAATGGAATA-AGG
1 CTGTAATGGAATAGA-G
*
58013396 CTGTAATTGAATAGAG
1 CTGTAATGGAATAGAG
*
58013412 TTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
58013428 CTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
*
58013444 TTGTAAT
1 CTGTAAT
58013451 CAGTAATTCA
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
16 48 0.98
17 1 0.02
ACGTcount: A:0.37, C:0.04, G:0.28, T:0.31
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:58013422 original size:32 final size:32
Alignment explanation
Indices: 58013381--58013450 Score: 115
Period size: 32 Copynumber: 2.2 Consensus size: 32
58013371 TTTGGTTCAC
*
58013381 TGTAATGGAATA-AGGCTGTAATTGAATAGAGT
1 TGTAATGGAATAGA-GCTGTAATGGAATAGAGT
58013413 TGTAATGGAATAGAGCTGTAATGGAATAGAGT
1 TGTAATGGAATAGAGCTGTAATGGAATAGAGT
58013445 TGTAAT
1 TGTAAT
58013451 CAGTAATTCA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
32 35 0.97
33 1 0.03
ACGTcount: A:0.37, C:0.03, G:0.29, T:0.31
Consensus pattern (32 bp):
TGTAATGGAATAGAGCTGTAATGGAATAGAGT
Found at i:58013488 original size:46 final size:44
Alignment explanation
Indices: 58013432--58013520 Score: 115
Period size: 44 Copynumber: 2.0 Consensus size: 44
58013422 ATAGAGCTGT
**
58013432 AATGGAATAGAGTTGTAATCAGTAATTCAACTGTTTGGTTGAATGA
1 AATGGAATAGAACTGTAAT-AGT-ATTCAACTGTTTGGTTGAATGA
***
58013478 AATGGAATAGAACTGTAATAGTATTCTTGTGTTTGGTTGAATG
1 AATGGAATAGAACTGTAATAGTATTCAACTGTTTGGTTGAATG
58013521 GAATAATGTT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
44 18 0.47
45 3 0.08
46 17 0.45
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.37
Consensus pattern (44 bp):
AATGGAATAGAACTGTAATAGTATTCAACTGTTTGGTTGAATGA
Found at i:58013742 original size:58 final size:57
Alignment explanation
Indices: 58013610--58013768 Score: 171
Period size: 58 Copynumber: 2.8 Consensus size: 57
58013600 TATTGTTATT
* * * *
58013610 AAATTTTAATAAAATTACTATTAAAAATAATTTAATAAAAATAATAAATAATTTAACC
1 AAATTTTAATAAAATTATTATTAAATATAAATTAAT-AAAATAATAAATAATTTAACA
* * * * * * *
58013668 ATATTTTAACATAATTATTATTAAATATAACTTAATAAAATGATATATAATTTAATA
1 AAATTTTAATAAAATTATTATTAAATATAAATTAATAAAATAATAAATAATTTAACA
*
58013725 AAATTCTTAATAAAATTATTATT--ATATAAATTAA-AAAATCATAA
1 AAATT-TTAATAAAATTATTATTAAATATAAATTAATAAAATAATAA
58013769 CTATTATTAT
Statistics
Matches: 84, Mismatches: 16, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
55 8 0.10
56 10 0.12
57 21 0.25
58 45 0.54
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.40
Consensus pattern (57 bp):
AAATTTTAATAAAATTATTATTAAATATAAATTAATAAAATAATAAATAATTTAACA
Found at i:58016875 original size:23 final size:23
Alignment explanation
Indices: 58016833--58016883 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
58016823 CTTTGAGAGT
*
58016833 TTTTCCTCTGCTACTATAGCTCG
1 TTTTCCTCTGCTACTATAGCACG
*
58016856 TTTTCCTCTGCTTA-TGTAGCACG
1 TTTTCCTCTGC-TACTATAGCACG
58016879 TTTTC
1 TTTTC
58016884 TAGGTTTTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 23 0.92
24 2 0.08
ACGTcount: A:0.12, C:0.27, G:0.14, T:0.47
Consensus pattern (23 bp):
TTTTCCTCTGCTACTATAGCACG
Found at i:58021069 original size:21 final size:21
Alignment explanation
Indices: 58021043--58021088 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
58021033 GGGATTTGAT
58021043 TGACTTACTTTTTATAGCTGC
1 TGACTTACTTTTTATAGCTGC
58021064 TGACTTACTTTTTATAGCTGC
1 TGACTTACTTTTTATAGCTGC
58021085 TGAC
1 TGAC
58021089 GCAATCCTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.20, C:0.20, G:0.15, T:0.46
Consensus pattern (21 bp):
TGACTTACTTTTTATAGCTGC
Found at i:58022203 original size:27 final size:27
Alignment explanation
Indices: 58022165--58022217 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
58022155 CAAAAGACTG
58022165 TCGTCTTCATGAACCTCCATAGAACTA
1 TCGTCTTCATGAACCTCCATAGAACTA
58022192 TCGTCTTCATGAACCTCCATAGAACT
1 TCGTCTTCATGAACCTCCATAGAACT
58022218 GTTGGTTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.28, C:0.30, G:0.11, T:0.30
Consensus pattern (27 bp):
TCGTCTTCATGAACCTCCATAGAACTA
Found at i:58025061 original size:17 final size:17
Alignment explanation
Indices: 58024974--58025062 Score: 56
Period size: 17 Copynumber: 5.1 Consensus size: 17
58024964 TTTTTAATTT
*
58024974 TTTTAATATTTACATTA
1 TTTTAATATTTATATTA
58024991 TTTTAATTTAATGTTA-ATTA
1 TTTTAA--T-AT-TTATATTA
*
58025011 TTTTATATATTTTTA-TA
1 TTTTA-ATATTTATATTA
** * * *
58025028 TAGTCATCTTAATATTA
1 TTTTAATATTTATATTA
58025045 TTTTAATATTTATATTA
1 TTTTAATATTTATATTA
58025062 T
1 T
58025063 AGTAGTATTA
Statistics
Matches: 53, Mismatches: 12, Indels: 14
0.67 0.15 0.18
Matches are distributed among these distances:
16 6 0.11
17 27 0.51
18 3 0.06
19 2 0.04
20 11 0.21
21 4 0.08
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (17 bp):
TTTTAATATTTATATTA
Found at i:58025071 original size:17 final size:17
Alignment explanation
Indices: 58025051--58025083 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
58025041 ATTATTTTAA
58025051 TATT-TATATTATAGTAG
1 TATTATATATT-TAGTAG
58025068 TATTATATATTTAGTA
1 TATTATATATTTAGTA
58025084 TATGTTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (17 bp):
TATTATATATTTAGTAG
Found at i:58035600 original size:20 final size:21
Alignment explanation
Indices: 58035575--58035667 Score: 67
Period size: 20 Copynumber: 4.6 Consensus size: 21
58035565 TCAAAGATTG
58035575 TATT-TATTAAAATATATATA
1 TATTATATTAAAATATATATA
58035595 TATT-TATTTAATAAT-TA-AGTA
1 TATTATA-TTAA-AATATATA-TA
* *
58035616 TATTATATTATATTATAT-TA
1 TATTATATTAAAATATATATA
*
58035636 TATTATATT-ATAT-TATAT-
1 TATTATATTAAAATATATATA
58035654 TATTATATATAAAA
1 TATTATAT-TAAAA
58035668 GAAACAAATA
Statistics
Matches: 58, Mismatches: 6, Indels: 18
0.71 0.07 0.22
Matches are distributed among these distances:
18 11 0.19
19 3 0.05
20 22 0.38
21 17 0.29
22 5 0.09
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (21 bp):
TATTATATTAAAATATATATA
Found at i:58035624 original size:5 final size:5
Alignment explanation
Indices: 58035614--58035656 Score: 86
Period size: 5 Copynumber: 8.6 Consensus size: 5
58035604 AATAATTAAG
58035614 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TAT
58035657 TATATATAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 38 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:58036751 original size:12 final size:12
Alignment explanation
Indices: 58036734--58036758 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
58036724 GCCGACTACT
58036734 GTTACTGTTACC
1 GTTACTGTTACC
58036746 GTTACTGTTACC
1 GTTACTGTTACC
58036758 G
1 G
58036759 ATTTGACACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (12 bp):
GTTACTGTTACC
Found at i:58036800 original size:6 final size:6
Alignment explanation
Indices: 58036781--58036811 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
58036771 GTGTGTCGAA
*
58036781 TACTGT TACCGT TACTGT TACTGT TACTGT T
1 TACTGT TACTGT TACTGT TACTGT TACTGT T
58036812 TCGGATTTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.16, C:0.19, G:0.16, T:0.48
Consensus pattern (6 bp):
TACTGT
Found at i:58037627 original size:3 final size:3
Alignment explanation
Indices: 58037594--58037646 Score: 69
Period size: 3 Copynumber: 19.0 Consensus size: 3
58037584 GTCGAAATTT
*
58037594 ATA AAA ATA A-A ATA A-A ATA A-A ATA A-A ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
58037638 ATA ATA ATA
1 ATA ATA ATA
58037647 TTGGAATACT
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
2 8 0.18
3 36 0.82
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (3 bp):
ATA
Found at i:58039029 original size:18 final size:17
Alignment explanation
Indices: 58038994--58039029 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
58038984 CTTGATTATT
*
58038994 AAAATTTTAAAATTAAA
1 AAAATTTTAAAATAAAA
58039011 AAAATTTTAAAAATAAAA
1 AAAATTTT-AAAATAAAA
58039029 A
1 A
58039030 TTATTTAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
AAAATTTTAAAATAAAA
Found at i:58039035 original size:18 final size:17
Alignment explanation
Indices: 58038994--58039029 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
58038984 CTTGATTATT
*
58038994 AAAATTTTAAAATTAAA
1 AAAATTTTAAAAATAAA
58039011 AAAATTTTAAAAATAAA
1 AAAATTTTAAAAATAAA
58039028 AA
1 AA
58039030 TTATTTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
AAAATTTTAAAAATAAA
Found at i:58039093 original size:20 final size:20
Alignment explanation
Indices: 58039052--58039096 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
58039042 TTATTTTCCA
* *
58039052 ATAAAAATACATAAAATTTT
1 ATAAAAATACACAAAATATT
58039072 ATAAAAATACACACAAA-ATT
1 ATAAAAATACACA-AAATATT
58039092 ATAAA
1 ATAAA
58039097 TAAATGAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 19 0.86
21 3 0.14
ACGTcount: A:0.64, C:0.09, G:0.00, T:0.27
Consensus pattern (20 bp):
ATAAAAATACACAAAATATT
Found at i:58058835 original size:3 final size:3
Alignment explanation
Indices: 58058827--58058888 Score: 97
Period size: 3 Copynumber: 20.7 Consensus size: 3
58058817 AATAAATAGG
* * *
58058827 TAA TAA TAA TAA TAG TAG TAG 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
58058875 TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TA
58058889 GGACTAATTC
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:58059681 original size:11 final size:11
Alignment explanation
Indices: 58059655--58059687 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
58059645 AAACGATTGC
58059655 AGAAAAAT-AA
1 AGAAAAATAAA
*
58059665 ACAAAAATAAA
1 AGAAAAATAAA
58059676 AGAAAAATAAA
1 AGAAAAATAAA
58059687 A
1 A
58059688 TGAATAAGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
10 7 0.35
11 13 0.65
ACGTcount: A:0.82, C:0.03, G:0.06, T:0.09
Consensus pattern (11 bp):
AGAAAAATAAA
Done.