Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 107 of 427
Found at i:28277134 original size:40 final size:41
Alignment explanation
Indices: 28277036--28277134 Score: 114
Period size: 41 Copynumber: 2.4 Consensus size: 41
28277026 TTCGAATGGT
* ** * *
28277036 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTTACTAA
1 ATCCGGGCTATGTCCCGAAGGCAATTGTGCGAAGTAACTAA
28277077 ATCCGGGCTAAT-TCCCGAAGGCAATTGTGCGAA-TAACTATA
1 ATCCGGGCT-ATGTCCCGAAGGCAATTGTGCGAAGTAACTA-A
28277118 A-CCGGGCTATGTCCCGA
1 ATCCGGGCTATGTCCCGA
28277135 GGACAATCGA
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
39 2 0.04
40 18 0.36
41 29 0.58
42 1 0.02
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.25
Consensus pattern (41 bp):
ATCCGGGCTATGTCCCGAAGGCAATTGTGCGAAGTAACTAA
Found at i:28279984 original size:49 final size:49
Alignment explanation
Indices: 28279856--28280113 Score: 420
Period size: 49 Copynumber: 5.4 Consensus size: 49
28279846 TACATATATG
* * * *
28279856 TGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
28279905 TGTGAT-AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
28279953 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
28280002 --TG---AGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
28280046 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
28280095 TGTGATAAGGCCTAATGGC
1 TGTGATAAGGCCTAATGGC
28280114 TAATGTAAAA
Statistics
Matches: 199, Mismatches: 4, Indels: 12
0.93 0.02 0.06
Matches are distributed among these distances:
44 42 0.21
46 2 0.01
47 2 0.01
48 45 0.23
49 108 0.54
ACGTcount: A:0.29, C:0.09, G:0.33, T:0.29
Consensus pattern (49 bp):
TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
Found at i:28280029 original size:93 final size:94
Alignment explanation
Indices: 28279856--28280096 Score: 394
Period size: 93 Copynumber: 2.5 Consensus size: 94
28279846 TACATATATG
* * * *
28279856 TGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATGTATATGTGATAGGCCTAATG
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA--TGA-AGGCCTAATG
28279921 GCCGATGTGATGAATGTGAAAGTGTATGTATA
63 GCCGATGTGATGAATGTGAAAGTGTATGTATA
*
28279953 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATG-AGGCCTAATGGCC
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGAAGGCCTAATGGCC
*
28280017 GATGTGGTGAATGTGAAAGTGTATGTATA
66 GATGTGATGAATGTGAAAGTGTATGTATA
28280046 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATG
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATG
28280097 TGATAAGGCC
Statistics
Matches: 137, Mismatches: 7, Indels: 4
0.93 0.05 0.03
Matches are distributed among these distances:
93 91 0.66
95 2 0.01
97 44 0.32
ACGTcount: A:0.29, C:0.09, G:0.33, T:0.30
Consensus pattern (94 bp):
TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGAAGGCCTAATGGCC
GATGTGATGAATGTGAAAGTGTATGTATA
Found at i:28280129 original size:142 final size:141
Alignment explanation
Indices: 28279863--28280129 Score: 410
Period size: 142 Copynumber: 1.9 Consensus size: 141
28279853 ATGTGTGATA
28279863 AGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATGTATATGTGATAGGCCTAATGGCCGATG
1 AGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATGTATATGTGATAGGCCTAATGGCCGATG
* * ***
28279928 TGATGAATGTGAAAGTGTATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGT
66 TGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCAATGTGAAAAATGTGAAAGT
28279993 GTATGTATATG
131 GTATGTATATG
* * * *
28280004 AGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGAT
1 AGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATGTATATGTGAT-AGGCCTAATGGCCGAT
* *
28280069 GTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCTAATGT-AAAATATGTG
65 GTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCAATGTGAAAA-ATGTG
28280130 TGATATGCAT
Statistics
Matches: 113, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
141 45 0.40
142 68 0.60
ACGTcount: A:0.30, C:0.09, G:0.32, T:0.30
Consensus pattern (141 bp):
AGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATGTATATGTGATAGGCCTAATGGCCGATG
TGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCAATGTGAAAAATGTGAAAGT
GTATGTATATG
Found at i:28280310 original size:37 final size:37
Alignment explanation
Indices: 28280213--28280333 Score: 217
Period size: 37 Copynumber: 3.3 Consensus size: 37
28280203 GGAATATGTT
*
28280213 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
28280250 CCGGGTAAGA-CCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
28280286 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
28280323 CCGGGTAAGAC
1 CCGGGTAAGAC
28280334 TTCTTTTATA
Statistics
Matches: 81, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
36 36 0.44
37 45 0.56
ACGTcount: A:0.26, C:0.19, G:0.34, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:28283619 original size:49 final size:49
Alignment explanation
Indices: 28283508--28283766 Score: 438
Period size: 49 Copynumber: 5.4 Consensus size: 49
28283498 TACATATATG
* *
28283508 TGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAA--G--TGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
28283553 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
28283602 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
28283651 TGTGATAAGGCCTAATGGCCGATGTGGTGTATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
28283700 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
28283749 TGTGATAAGGCCT-ATGGC
1 TGTGATAAGGCCTAATGGC
28283767 TAATGTAAAA
Statistics
Matches: 204, Mismatches: 6, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
45 35 0.17
47 1 0.00
48 5 0.02
49 163 0.80
ACGTcount: A:0.27, C:0.09, G:0.34, T:0.30
Consensus pattern (49 bp):
TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
Found at i:28283916 original size:37 final size:37
Alignment explanation
Indices: 28283866--28283987 Score: 226
Period size: 37 Copynumber: 3.3 Consensus size: 37
28283856 GGAATATGTT
*
28283866 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
28283903 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
28283940 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
28283977 CCGGGTAAGAC
1 CCGGGTAAGAC
28283988 TTCTTTTATA
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 83 1.00
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:28286568 original size:20 final size:19
Alignment explanation
Indices: 28286545--28286586 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 19
28286535 GTACATATGC
*
28286545 TCTTTTTTTTTTCTTTCTTT
1 TCTTTTCTTTTTCTTT-TTT
28286565 TCTTTTCTTTTTCTTTTTT
1 TCTTTTCTTTTTCTTTTTT
28286584 TCT
1 TCT
28286587 CAAGCATATG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (19 bp):
TCTTTTCTTTTTCTTTTTT
Found at i:28286584 original size:14 final size:14
Alignment explanation
Indices: 28286548--28286586 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
28286538 CATATGCTCT
28286548 TTTTTTTTTCTTTC
1 TTTTTTTTTCTTTC
*
28286562 TTTTCTTTTCTTT-
1 TTTTTTTTTCTTTC
28286575 TTCTTTTTTTCT
1 TT-TTTTTTTCT
28286587 CAAGCATATG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 2 0.09
14 20 0.91
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (14 bp):
TTTTTTTTTCTTTC
Found at i:28292641 original size:17 final size:17
Alignment explanation
Indices: 28292619--28292651 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
28292609 TTTTTATCAT
*
28292619 TTATTATTTATCGGGCA
1 TTATTATTGATCGGGCA
28292636 TTATTATTGATCGGGC
1 TTATTATTGATCGGGC
28292652 TTTGTCAGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.12, G:0.21, T:0.45
Consensus pattern (17 bp):
TTATTATTGATCGGGCA
Found at i:28299541 original size:15 final size:16
Alignment explanation
Indices: 28299518--28299551 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
28299508 TTATATGATA
28299518 TTATATAAATT-TTAT
1 TTATATAAATTATTAT
*
28299533 TTATTTAAATTATTAT
1 TTATATAAATTATTAT
28299549 TTA
1 TTA
28299552 GAATATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TTATATAAATTATTAT
Found at i:28299974 original size:16 final size:16
Alignment explanation
Indices: 28299949--28299987 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
28299939 CATGCATTAA
*
28299949 AAAATATCAAAATTTT
1 AAAATATCAAAATTTC
*
28299965 AAAATTTCAAAATTTC
1 AAAATATCAAAATTTC
28299981 AAAATAT
1 AAAATAT
28299988 TTTAAAATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (16 bp):
AAAATATCAAAATTTC
Found at i:28302419 original size:24 final size:24
Alignment explanation
Indices: 28302388--28302449 Score: 99
Period size: 24 Copynumber: 2.6 Consensus size: 24
28302378 TGAATTTTCA
28302388 AAAT-CAAATACATATTCATAATC
1 AAATGCAAATACATATTCATAATC
*
28302411 AGATGCAAATACATATTCATAATC
1 AAATGCAAATACATATTCATAATC
*
28302435 AAATGCAGATACATA
1 AAATGCAAATACATA
28302450 CTTAGGTCCT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
23 3 0.09
24 32 0.91
ACGTcount: A:0.50, C:0.16, G:0.06, T:0.27
Consensus pattern (24 bp):
AAATGCAAATACATATTCATAATC
Found at i:28304520 original size:46 final size:45
Alignment explanation
Indices: 28304467--28304639 Score: 188
Period size: 46 Copynumber: 3.8 Consensus size: 45
28304457 TTGGGCATCT
28304467 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTCC
* *** * *
28304513 GAACTCGTTGAGTTGAGTCTGAGTTCGAGAGATGTAACTAG-GCA-TCC
1 GAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAGTCC
* * *
28304560 GAGCTCGTTGAGTTGAGTCCGAGTTCAATTATGGATGCGAACGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTCC
*
28304606 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
28304640 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 15, Indels: 14
0.78 0.11 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 64 0.61
47 31 0.30
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.29
Consensus pattern (45 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGTCC
Found at i:28304619 original size:93 final size:93
Alignment explanation
Indices: 28304460--28304631 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
28304450 GGGATATTTG
* * * *
28304460 GGCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAATTATGGATGCGAACGCCCGAACTCGTTGAG
*
28304525 TTGAGTCTGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
28304553 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCAATTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAATTATGGATGCGAACGCCCGAACTCGTTGAG
28304618 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
28304632 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAATTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:28307245 original size:29 final size:29
Alignment explanation
Indices: 28307213--28307275 Score: 108
Period size: 29 Copynumber: 2.2 Consensus size: 29
28307203 ATGGCCTAAC
28307213 CACATGACCGTGTACCAGGCCATGTGTCA
1 CACATGACCGTGTACCAGGCCATGTGTCA
* *
28307242 CACACGACCGTGTACCAGGCCGTGTGTCA
1 CACATGACCGTGTACCAGGCCATGTGTCA
28307271 CACAT
1 CACAT
28307276 CTGCCGGTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.24, C:0.33, G:0.24, T:0.19
Consensus pattern (29 bp):
CACATGACCGTGTACCAGGCCATGTGTCA
Found at i:28313092 original size:46 final size:46
Alignment explanation
Indices: 28313040--28313404 Score: 419
Period size: 46 Copynumber: 8.0 Consensus size: 46
28313030 GCTTTCTGAA
* *
28313040 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATTGCAACATGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
28313086 ATGAAATGTGTAAGACCGTGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
28313132 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * * * *
28313178 ATAAAATGTGTAAGACCATGGTTGAAAGATTCCATGGCAACGTGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * *
28313224 ATAAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGA-
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
** * * * ** * *
28313269 CGGGAATGAATAAGATCATGGTTGAAAGATACCATGGCAATGTAAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
** * * *
28313315 ATGAAATGAACAAAACCATGGTTGAAAGATACCATGACAACCTGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * * *
28313361 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
28313405 TCGAAGATAA
Statistics
Matches: 274, Mismatches: 43, Indels: 4
0.85 0.13 0.01
Matches are distributed among these distances:
45 37 0.14
46 237 0.86
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.22
Consensus pattern (46 bp):
ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
Found at i:28313376 original size:183 final size:184
Alignment explanation
Indices: 28313050--28313389 Score: 475
Period size: 183 Copynumber: 1.9 Consensus size: 184
28313040 ATGAAATGTG
* * ** *
28313050 TAAGACCATGGTTGAAAGATACCATTGCAACATGATATGAAATGTGTAAGACCGTGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGATAGGAAATGAATAAGACCATGGTTGAAAGA
* * *** * * *
28313115 TACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGATAT
66 TACCATGGCAACATAACATGAAATGAACAAAACCATGGTTGAAAGATACCATGACAACAGGATAG
* *
28313180 AAAATGTGTAAGACCATGGTTGAAAGATTCCATGGCAACGTGACATAAAAAGAA
131 AAAATGAGTAAGACCATAGTTGAAAGATTCCATGGCAACGTGACATAAAAAGAA
* * *
28313234 TAAGACCATGGTTGAAAGATACCATGGCAACATGA-CGGGAATGAATAAGATCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGATAGGAAATGAATAAGACCATGGTTGAAAGA
** **
28313298 TACCATGGCAATGTAACATGAAATGAACAAAACCATGGTTGAAAGATACCATGACAACCTGATAG
66 TACCATGGCAACATAACATGAAATGAACAAAACCATGGTTGAAAGATACCATGACAACAGGATAG
28313363 AAAATGAGTAAGACCATAGTTGAAAGA
131 AAAATGAGTAAGACCATAGTTGAAAGA
28313390 CACTATGGCA
Statistics
Matches: 134, Mismatches: 22, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
183 100 0.75
184 34 0.25
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.21
Consensus pattern (184 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGATAGGAAATGAATAAGACCATGGTTGAAAGA
TACCATGGCAACATAACATGAAATGAACAAAACCATGGTTGAAAGATACCATGACAACAGGATAG
AAAATGAGTAAGACCATAGTTGAAAGATTCCATGGCAACGTGACATAAAAAGAA
Found at i:28313418 original size:137 final size:136
Alignment explanation
Indices: 28313054--28313426 Score: 394
Period size: 137 Copynumber: 2.7 Consensus size: 136
28313044 AATGTGTAAG
* *
28313054 ACCATGGTTGAAAGATACCATTGCAACATGATATG-AAATGTGTAAGACCGTGGTTGAAAGATAC
1 ACCATGGTTGAAAGATACCA-TGCAACATGATA-GAAAATGAGTAAGACCATGGTTGAAAGATAC
* ** * *
28313118 CATGGCAACATGATATGAA-ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGATATAA
64 CATGGCAACATG-T-CGAAGATGAATAAGACCATGGTTGAAAGATACCATGGCAACAGAACATAA
*** *
28313182 AATGTGTAAG
127 AATGAACAAA
* * * * * *
28313192 ACCATGGTTGAAAGATTCCATGGCAACGTGACATAAAAAGAATAAGACCATGGTTGAAAGATACC
1 ACCATGGTTGAAAGATACCAT-GCAACATGATAGAAAATGAGTAAGACCATGGTTGAAAGATACC
* * * * *
28313257 ATGGCAACATGACG-GGAATGAATAAGATCATGGTTGAAAGATACCATGGCAA-TGTAACATGAA
65 ATGGCAACATGTCGAAG-ATGAATAAGACCATGGTTGAAAGATACCATGGCAACAG-AACATAAA
28313320 ATGAACAAA
128 ATGAACAAA
* * * *
28313329 ACCATGGTTGAAAGATACCATGACAACCTGATAGAAAATGAGTAAGACCATAGTTGAAAGACACT
1 ACCATGGTTGAAAGATACCATG-CAACATGATAGAAAATGAGTAAGACCATGGTTGAAAGATACC
* *
28313394 ATGGCATCATGTCGAAGATAAATAAGACCATGG
65 ATGGCAACATGTCGAAGATGAATAAGACCATGG
28313427 ATGGGAATTG
Statistics
Matches: 192, Mismatches: 36, Indels: 15
0.79 0.15 0.06
Matches are distributed among these distances:
136 3 0.02
137 123 0.64
138 66 0.34
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.21
Consensus pattern (136 bp):
ACCATGGTTGAAAGATACCATGCAACATGATAGAAAATGAGTAAGACCATGGTTGAAAGATACCA
TGGCAACATGTCGAAGATGAATAAGACCATGGTTGAAAGATACCATGGCAACAGAACATAAAATG
AACAAA
Found at i:28317016 original size:6 final size:6
Alignment explanation
Indices: 28316997--28317029 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
28316987 AAGTTTTGGG
*
28316997 AAATTA AAAT-A AAATAA AAATAA AAATAA AAAT
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAAT
28317030 TAAGATTACT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (6 bp):
AAATAA
Found at i:28322880 original size:62 final size:62
Alignment explanation
Indices: 28322810--28322934 Score: 250
Period size: 62 Copynumber: 2.0 Consensus size: 62
28322800 AACATGTCAC
28322810 AAGTAACCATTTTCAAGCCATCATCAACATGCCAAAAGAACCTTATAAACAAACATTTGAAA
1 AAGTAACCATTTTCAAGCCATCATCAACATGCCAAAAGAACCTTATAAACAAACATTTGAAA
28322872 AAGTAACCATTTTCAAGCCATCATCAACATGCCAAAAGAACCTTATAAACAAACATTTGAAA
1 AAGTAACCATTTTCAAGCCATCATCAACATGCCAAAAGAACCTTATAAACAAACATTTGAAA
28322934 A
1 A
28322935 TGACTAAAAT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.47, C:0.22, G:0.08, T:0.22
Consensus pattern (62 bp):
AAGTAACCATTTTCAAGCCATCATCAACATGCCAAAAGAACCTTATAAACAAACATTTGAAA
Found at i:28332894 original size:45 final size:47
Alignment explanation
Indices: 28332841--28332951 Score: 127
Period size: 49 Copynumber: 2.4 Consensus size: 47
28332831 TCTATATAGA
* * *
28332841 ACTACACTTCTTTTATT-CTATT-TTAGAATAAGGTTTTTCAACCTT
1 ACTACACTTCTTCTATTGATATTATTAGAATAAGGTGTTTCAACCTT
* * *
28332886 ATTACACTTCATCTATTTGATATTGATTAGAATTAGGTGTTTCAACCTT
1 ACTACACTTCTTCTA-TTGATATT-ATTAGAATAAGGTGTTTCAACCTT
*
28332935 ACTACACTCCTTCTATT
1 ACTACACTTCTTCTATT
28332952 AGAATATTGT
Statistics
Matches: 53, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
45 12 0.23
46 2 0.04
47 4 0.08
48 2 0.04
49 33 0.62
ACGTcount: A:0.27, C:0.19, G:0.08, T:0.46
Consensus pattern (47 bp):
ACTACACTTCTTCTATTGATATTATTAGAATAAGGTGTTTCAACCTT
Found at i:28332916 original size:49 final size:50
Alignment explanation
Indices: 28332863--28332960 Score: 135
Period size: 49 Copynumber: 2.0 Consensus size: 50
28332853 TTATTCTATT
* * * *
28332863 TTAGAATAAGGTTTTTCAACCTTATTACACTTCATCTATTTG-ATATTGA
1 TTAGAATAAGGTGTTTCAACCTTACTACACTCCATCTATTAGAATATTGA
* *
28332912 TTAGAATTAGGTGTTTCAACCTTACTACACTCCTTCTATTAGAATATTG
1 TTAGAATAAGGTGTTTCAACCTTACTACACTCCATCTATTAGAATATTG
28332961 TTTTACAAGC
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
49 36 0.86
50 6 0.14
ACGTcount: A:0.30, C:0.16, G:0.11, T:0.43
Consensus pattern (50 bp):
TTAGAATAAGGTGTTTCAACCTTACTACACTCCATCTATTAGAATATTGA
Found at i:28334745 original size:28 final size:27
Alignment explanation
Indices: 28334695--28334747 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
28334685 TATATCTGAG
* *
28334695 ACTGTATCTGAATGGGCTAAGGCCCAA
1 ACTGAATCTGAAAGGGCTAAGGCCCAA
*
28334722 ACTGAATCTGTAAAGGGCTTAGGCCC
1 ACTGAATCTG-AAAGGGCTAAGGCCC
28334748 CAGACTGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 9 0.41
28 13 0.59
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (27 bp):
ACTGAATCTGAAAGGGCTAAGGCCCAA
Found at i:28335685 original size:21 final size:21
Alignment explanation
Indices: 28335661--28335700 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
28335651 GAGGTATCTG
28335661 TGGACAGGGTAC-TAGAGGCCA
1 TGGA-AGGGTACGTAGAGGCCA
*
28335682 TGGAAGGGTCCGTAGAGGC
1 TGGAAGGGTACGTAGAGGC
28335701 TCGAGCTGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.25, C:0.17, G:0.42, T:0.15
Consensus pattern (21 bp):
TGGAAGGGTACGTAGAGGCCA
Found at i:28344922 original size:17 final size:17
Alignment explanation
Indices: 28344900--28344937 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
28344890 AATCCAAGTC
*
28344900 GGCTTAATTTATAACTT
1 GGCTTAACTTATAACTT
*
28344917 GGCTTAACTTGTAACTT
1 GGCTTAACTTATAACTT
28344934 GGCT
1 GGCT
28344938 AACAATCTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.24, C:0.16, G:0.18, T:0.42
Consensus pattern (17 bp):
GGCTTAACTTATAACTT
Found at i:28352929 original size:43 final size:43
Alignment explanation
Indices: 28352903--28353018 Score: 137
Period size: 43 Copynumber: 2.7 Consensus size: 43
28352893 TATCTCATAT
*
28352903 CGATGCCACTGTCCCAGACAGGGTCTTACACATAATCAATTAA
1 CGATGCCAATGTCCCAGACAGGGTCTTACACATAATCAATTAA
* *
28352946 CGATGCCAATGTCCCAGACATGGTCTTACACGTAATTACAA-T-A
1 CGATGCCAATGTCCCAGACAGGGTCTTACACATAA-T-CAATTAA
* * **
28352989 CAATGCCAATGTCCTAGACTTGGTCTTACA
1 CGATGCCAATGTCCCAGACAGGGTCTTACA
28353019 TGTAATCACA
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
43 60 0.92
44 2 0.03
45 3 0.05
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (43 bp):
CGATGCCAATGTCCCAGACAGGGTCTTACACATAATCAATTAA
Found at i:28358582 original size:24 final size:24
Alignment explanation
Indices: 28358555--28358632 Score: 111
Period size: 24 Copynumber: 3.2 Consensus size: 24
28358545 AAGGCTGTTA
*
28358555 GGAGAAGATTTGGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
* *
28358579 GGAGAGGATTTAGGAACTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
* *
28358603 GGAGAGGATTTAGGAGCTGATTAG
1 GGAGAAGATTTAGGAGCTGATAAG
28358627 GGAGAA
1 GGAGAA
28358633 TGGTGTTGGC
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 48 1.00
ACGTcount: A:0.35, C:0.04, G:0.41, T:0.21
Consensus pattern (24 bp):
GGAGAAGATTTAGGAGCTGATAAG
Found at i:28360149 original size:54 final size:53
Alignment explanation
Indices: 28360065--28360175 Score: 161
Period size: 54 Copynumber: 2.1 Consensus size: 53
28360055 AGGAAGCGTC
* *
28360065 CTGGTGGTTATGCCACATTTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGTTATGCCACAATTATCTGATCTGGTGACTCTGCCACAT-TATCTGTT
* *
28360119 CTGGTGGCTT-TGCCACAATTATCTGTTCTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGG-TTATGCCACAATTATCTGATCTGGTGACTCTGCCACATTATCTGTT
28360172 CTGG
1 CTGG
28360176 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
53 12 0.23
54 38 0.73
55 2 0.04
ACGTcount: A:0.15, C:0.23, G:0.23, T:0.40
Consensus pattern (53 bp):
CTGGTGGTTATGCCACAATTATCTGATCTGGTGACTCTGCCACATTATCTGTT
Found at i:28360172 original size:26 final size:26
Alignment explanation
Indices: 28360065--28360175 Score: 141
Period size: 27 Copynumber: 4.2 Consensus size: 26
28360055 AGGAAGCGTC
* * *
28360065 CTGGTGGTTATGCCACATTTATCTGAT
1 CTGGTGGCTCTGCCACA-TTATCTGTT
28360092 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
*
28360119 CTGGTGGCTTTGCCACAATTATCTGTT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
* *
28360146 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
28360172 CTGG
1 CTGG
28360176 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
26 15 0.20
27 58 0.77
28 2 0.03
ACGTcount: A:0.15, C:0.23, G:0.23, T:0.40
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:28368017 original size:54 final size:53
Alignment explanation
Indices: 28367934--28368037 Score: 136
Period size: 54 Copynumber: 1.9 Consensus size: 53
28367924 GGAAGCGTCC
* * * *
28367934 TGGTGGCTATGCCACATTTATTTGATCTAGTGGCTCTGCCACATATATCTGCTT
1 TGGTGGCCATGCCACAATTATCTGATCTAGTGACTCTGCCACAT-TATCTGCTT
* * *
28367988 TGGTGGCCCTGCCACAATTATCTGTTCTAGTGACTCTGTCACATTATCTG
1 TGGTGGCCATGCCACAATTATCTGATCTAGTGACTCTGCCACATTATCTG
28368038 TTCTGGCAGC
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
53 6 0.14
54 37 0.86
ACGTcount: A:0.18, C:0.24, G:0.20, T:0.38
Consensus pattern (53 bp):
TGGTGGCCATGCCACAATTATCTGATCTAGTGACTCTGCCACATTATCTGCTT
Found at i:28368038 original size:26 final size:26
Alignment explanation
Indices: 28367936--28368041 Score: 106
Period size: 27 Copynumber: 4.0 Consensus size: 26
28367926 AAGCGTCCTG
* * *
28367936 GTGGCTATGCCACATTTATTTGATCTA
1 GTGGCTCTGCCACA-TTATCTGTTCTA
*
28367963 GTGGCTCTGCCACATATATCTGCTT-TG
1 GTGGCTCTGCCACAT-TATCTG-TTCTA
*
28367990 GTGGCCCTGCCACAATTATCTGTTCTA
1 GTGGCTCTGCCAC-ATTATCTGTTCTA
* *
28368017 GTGACTCTGTCACATTATCTGTTCT
1 GTGGCTCTGCCACATTATCTGTTCT
28368042 GGCAGCCATG
Statistics
Matches: 66, Mismatches: 9, Indels: 9
0.79 0.11 0.11
Matches are distributed among these distances:
26 15 0.23
27 48 0.73
28 3 0.05
ACGTcount: A:0.18, C:0.25, G:0.19, T:0.39
Consensus pattern (26 bp):
GTGGCTCTGCCACATTATCTGTTCTA
Found at i:28373902 original size:14 final size:14
Alignment explanation
Indices: 28373858--28373893 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
28373848 GCAACACGAG
*
28373858 AAAGAACACAAACA
1 AAAGAACAAAAACA
*
28373872 AAAGAACAAAAAAA
1 AAAGAACAAAAACA
28373886 AAAGAACA
1 AAAGAACA
28373894 GAAGCAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.78, C:0.14, G:0.08, T:0.00
Consensus pattern (14 bp):
AAAGAACAAAAACA
Found at i:28377074 original size:25 final size:24
Alignment explanation
Indices: 28377040--28377092 Score: 70
Period size: 25 Copynumber: 2.2 Consensus size: 24
28377030 AAGTTCAAGC
*
28377040 GAGCCATATCAGGAAGCTCACAAA
1 GAGCCATATCAAGAAGCTCACAAA
* *
28377064 GAGCCTATATCAAGACGCTCATAAA
1 GAGCC-ATATCAAGAAGCTCACAAA
28377089 GAGC
1 GAGC
28377093 TACATTTGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 5 0.20
25 20 0.80
ACGTcount: A:0.40, C:0.25, G:0.21, T:0.15
Consensus pattern (24 bp):
GAGCCATATCAAGAAGCTCACAAA
Found at i:28377428 original size:22 final size:22
Alignment explanation
Indices: 28377403--28377448 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
28377393 AACGTTTATA
* *
28377403 CAATT-CACACATATTCAATGTT
1 CAATTCCAAACATATT-AATATT
28377425 CAATTCCAAACATATTAATATT
1 CAATTCCAAACATATTAATATT
28377447 CA
1 CA
28377449 TAATCTAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 12 0.57
23 9 0.43
ACGTcount: A:0.41, C:0.22, G:0.02, T:0.35
Consensus pattern (22 bp):
CAATTCCAAACATATTAATATT
Found at i:28381639 original size:40 final size:41
Alignment explanation
Indices: 28381550--28381699 Score: 212
Period size: 41 Copynumber: 3.7 Consensus size: 41
28381540 CGCTGACTCA
* *
28381550 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACATTGGCCC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
* * * * * * *
28381591 GAAGGCCCTTCGAAACTAGGTTCGG-TTATGACACTGGCTT
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
28381631 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
28381672 AAAAGCCCTTCGAGACCAAGCTCGGATT
1 AAAAGCCCTTCGAGACCAAGCTCGGATT
28381700 TAAACCCCGA
Statistics
Matches: 92, Mismatches: 16, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
40 31 0.34
41 61 0.66
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.21
Consensus pattern (41 bp):
AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
Found at i:28389732 original size:40 final size:41
Alignment explanation
Indices: 28389643--28389792 Score: 221
Period size: 41 Copynumber: 3.7 Consensus size: 41
28389633 CGCTGACTCA
* *
28389643 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACATTGGCCC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
* * * * * *
28389684 GAAGGCCCTTCGAAACTAGGTTCGG-TTATGACACTGGCTC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
28389724 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
28389765 AAAAGCCCTTCGAGACCAAGCTCGGATT
1 AAAAGCCCTTCGAGACCAAGCTCGGATT
28389793 TAAACCCCGA
Statistics
Matches: 94, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
40 32 0.34
41 62 0.66
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.21
Consensus pattern (41 bp):
AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
Found at i:28397605 original size:41 final size:41
Alignment explanation
Indices: 28397552--28397697 Score: 186
Period size: 41 Copynumber: 3.6 Consensus size: 41
28397542 CGCTGACTCA
* * *
28397552 AAAAACCCTTCGAGACCAAGCTCGGATTATGACATTGGCCC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
* * * * * * *
28397593 GAAGGCCCTTCGAAACTAGGTTCGG-TTATGACACTGGCTT
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
*
28397633 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTAGCTC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
28397674 AAAAGCCCTTCGAGACCAAGCTCG
1 AAAAGCCCTTCGAGACCAAGCTCG
28397698 AATTTAAACC
Statistics
Matches: 86, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
40 31 0.36
41 55 0.64
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.21
Consensus pattern (41 bp):
AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
Found at i:28398714 original size:30 final size:30
Alignment explanation
Indices: 28398673--28398732 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
28398663 TTTTGGCATG
*
28398673 GGCTGAGTAAGAAACAAGATGTATAAAAAA
1 GGCTAAGTAAGAAACAAGATGTATAAAAAA
28398703 GGCTAAGTAAGAAACAAGATGTATAAAAAA
1 GGCTAAGTAAGAAACAAGATGTATAAAAAA
28398733 AGCCACACCC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.55, C:0.07, G:0.22, T:0.17
Consensus pattern (30 bp):
GGCTAAGTAAGAAACAAGATGTATAAAAAA
Found at i:28409295 original size:19 final size:17
Alignment explanation
Indices: 28409268--28409317 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
28409258 AATGATGTTA
28409268 TTTC-TTTTTAATTTAT
1 TTTCATTTTTAATTTAT
28409284 TTATCATCTTTTAA-TTAT
1 TT-TCAT-TTTTAATTTAT
*
28409302 TTTCATTTCTAATTTA
1 TTTCATTTTTAATTTA
28409318 GTCCTTATCC
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
16 7 0.24
17 9 0.31
18 7 0.24
19 6 0.21
ACGTcount: A:0.24, C:0.10, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTCATTTTTAATTTAT
Found at i:28409295 original size:20 final size:17
Alignment explanation
Indices: 28409273--28409307 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 17
28409263 TGTTATTTCT
28409273 TTTTAATTTATTTATCATC
1 TTTTAA-TTATTT-TCATC
28409292 TTTTAATTATTTTCAT
1 TTTTAATTATTTTCAT
28409308 TTCTAATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 6 0.38
19 6 0.38
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTTAATTATTTTCATC
Found at i:28410486 original size:2 final size:2
Alignment explanation
Indices: 28410479--28410538 Score: 102
Period size: 2 Copynumber: 30.0 Consensus size: 2
28410469 AGTATACTCT
* *
28410479 TA TA TA TA TA TA TA TG TG TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
28410521 TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA
28410539 GGGAGATCAG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:28410677 original size:24 final size:24
Alignment explanation
Indices: 28410618--28410673 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
28410608 ATTATGGAAC
* *
28410618 ATGAAAGATGAAAGGTTGAGAAAG
1 ATGAAAGGTGAAAGGTTAAGAAAG
* *
28410642 ATGAGAGGTGAAAGGTTAAGGAAG
1 ATGAAAGGTGAAAGGTTAAGAAAG
28410666 AT-AAAGGT
1 ATGAAAGGT
28410674 TGAATATCCA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 5 0.19
24 22 0.81
ACGTcount: A:0.46, C:0.00, G:0.36, T:0.18
Consensus pattern (24 bp):
ATGAAAGGTGAAAGGTTAAGAAAG
Found at i:28412047 original size:6 final size:6
Alignment explanation
Indices: 28412036--28412066 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
28412026 TTCTCTCTCA
28412036 TCTCCG TCTCCG TCTCCG TCTCCG TCTCCG T
1 TCTCCG TCTCCG TCTCCG TCTCCG TCTCCG T
28412067 ATCCCTTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.16, T:0.35
Consensus pattern (6 bp):
TCTCCG
Found at i:28412119 original size:7 final size:7
Alignment explanation
Indices: 28412107--28412142 Score: 72
Period size: 7 Copynumber: 5.1 Consensus size: 7
28412097 TTAAAAAAAA
28412107 TTAATTT
1 TTAATTT
28412114 TTAATTT
1 TTAATTT
28412121 TTAATTT
1 TTAATTT
28412128 TTAATTT
1 TTAATTT
28412135 TTAATTT
1 TTAATTT
28412142 T
1 T
28412143 CTTTCATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
TTAATTT
Found at i:28413092 original size:231 final size:231
Alignment explanation
Indices: 28412710--28413183 Score: 630
Period size: 231 Copynumber: 2.1 Consensus size: 231
28412700 GATCTCCAAT
* * * *
28412710 TTAGTGTAGAACAATGTGAGCAGCAATGTAAGGAGTTTAAGTTGATGGAGGAAGTGGTAAATGAT
1 TTAGTGTAAAACAATGTGAGCAGCAATGTAAGGAGTTTAAGTTGATGGAGGAAATAGTAAAAGAT
* * * * * * *
28412775 AAGTTGGGGGAAATTAGGTTAAAAGAGAATGATTTGGAGAATTGCTTGAGTGATTATGTGTTGAG
66 AAGTTGGAGGAAATTAGGGTAAAAGAGAATGATTTGGAGAAGTGCTTGAGCGAGTATGAGTTGAA
* * * ***
28412840 AGAACAACAATTTGGGTTGAAAGAGAAGAGTTTTGAGAAGCGGTGTATGGAGTTTGAGTTGGAAG
131 AGAACAACAAATTGAGTTGAAAGAGAAGAGTTTTGAGAAGCGGTATATGGAGTTTGAAAGGGAAG
**
28412905 AAAAGGCTTTGGAAGAACGTCGCAGAGATCTTGAAG
196 AAAAGGCTTTCAAAGAACGTCGCAGAGATCTTGAAG
*
28412941 TTAGTGTAAAACAATGTGAGCGGCAATGTGAA-GAGTTTAAGTTGATGGA-GAAATCAGTAAAAG
1 TTAGTGTAAAACAATGTGAGCAGCAATGT-AAGGAGTTTAAGTTGATGGAGGAAAT-AGTAAAAG
* * *
28413004 ATAAGTTGGAGGAAGTTGGGGTGAAAGAGAAAT-ATTTGGAGAAGTGCTTGAGCGAGTATGAGTT
64 ATAAGTTGGAGGAAATTAGGGTAAAAGAG-AATGATTTGGAGAAGTGCTTGAGCGAGTATGAGTT
* * *
28413068 GAAAGAAGAACAAATTGAGTTGAAAGAGAAGAGTTTTGTGAAGCGTTATATGGAGTTTGAAAGGG
128 GAAAGAACAACAAATTGAGTTGAAAGAGAAGAGTTTTGAGAAGCGGTATATGGAGTTTGAAAGGG
* * *
28413133 AAGAGAAGGCTTTCAAAGAACGTTGTAGAGATCTTGAAG
193 AAGAAAAGGCTTTCAAAGAACGTCGCAGAGATCTTGAAG
*
28413172 TTAATGTAAAAC
1 TTAGTGTAAAAC
28413184 TGTATGAGCA
Statistics
Matches: 210, Mismatches: 30, Indels: 6
0.85 0.12 0.02
Matches are distributed among these distances:
230 4 0.02
231 201 0.96
232 5 0.02
ACGTcount: A:0.36, C:0.05, G:0.32, T:0.26
Consensus pattern (231 bp):
TTAGTGTAAAACAATGTGAGCAGCAATGTAAGGAGTTTAAGTTGATGGAGGAAATAGTAAAAGAT
AAGTTGGAGGAAATTAGGGTAAAAGAGAATGATTTGGAGAAGTGCTTGAGCGAGTATGAGTTGAA
AGAACAACAAATTGAGTTGAAAGAGAAGAGTTTTGAGAAGCGGTATATGGAGTTTGAAAGGGAAG
AAAAGGCTTTCAAAGAACGTCGCAGAGATCTTGAAG
Found at i:28413263 original size:231 final size:231
Alignment explanation
Indices: 28412796--28413263 Score: 507
Period size: 231 Copynumber: 2.0 Consensus size: 231
28412786 AATTAGGTTA
* * * * * * *
28412796 AAAGAGAATGATTTGGAGAATTGCTTGAGTGATTATGTGTTGAGAGAACAACAATTTGGGTTGAA
1 AAAGAGAATGATTTGGAGAAGTGCTTGAGCGAGTATGAGTTGAAAGAACAACAAATTGAGTTGAA
* *** **
28412861 AGAGAAGAGTTTTGAGAAGCGGTGTATGGAGTTTGAGTTGGAAGAAAAGGCTTTGGAAGAACGTC
66 AGAGAAGAGTTTTGAGAAGCGGTATATGGAGTTTGAAAGGGAAGAAAAGGCTTTCAAAGAACGTC
* * * * * * **
28412926 GCAGAGATCTTGAAGTTAGTGTAAAACAATGTGAGCGGCAATGTGAAGAGTTTAAGTTGATGGAG
131 GCAGAGATCTTGAAGTTAATGTAAAACAATATGAGCAGAAATATGAAGAGTTGAAGTTGACAGAG
* * ***
28412991 AAATCAGTAAAAGATAAGTTGGAGGAAGTTGGGGTG
196 AAATCAGTAAAAGATAAGTTGGAAGAAATTAAAGTG
*
28413027 AAAGAGAAAT-ATTTGGAGAAGTGCTTGAGCGAGTATGAGTTGAAAGAAGAACAAATTGAGTTGA
1 AAAGAG-AATGATTTGGAGAAGTGCTTGAGCGAGTATGAGTTGAAAGAACAACAAATTGAGTTGA
* * *
28413091 AAGAGAAGAGTTTTGTGAAGCGTTATATGGAGTTTGAAAGGGAAGAGAAGGCTTTCAAAGAACGT
65 AAGAGAAGAGTTTTGAGAAGCGGTATATGGAGTTTGAAAGGGAAGAAAAGGCTTTCAAAGAACGT
* * **
28413156 TGTAGAGATCTTGAAGTTAATGTAAAACTGTATGAGCAGAAATAT-AAGAGGCTTGAAG-TGACA
130 CGCAGAGATCTTGAAGTTAATGTAAAACAATATGAGCAGAAATATGAAGA-G-TTGAAGTTGACA
** *
28413219 GAGAAATGGGTGCAAAA-A-CAGTTGGAAGAAATTAAAAG-G
193 GAGAAATCAGT--AAAAGATAAGTTGGAAGAAATT-AAAGTG
28413258 AAAGAG
1 AAAGAG
28413264 GAGGAATTTG
Statistics
Matches: 194, Mismatches: 37, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
230 4 0.02
231 176 0.91
232 10 0.05
233 4 0.02
ACGTcount: A:0.38, C:0.06, G:0.31, T:0.25
Consensus pattern (231 bp):
AAAGAGAATGATTTGGAGAAGTGCTTGAGCGAGTATGAGTTGAAAGAACAACAAATTGAGTTGAA
AGAGAAGAGTTTTGAGAAGCGGTATATGGAGTTTGAAAGGGAAGAAAAGGCTTTCAAAGAACGTC
GCAGAGATCTTGAAGTTAATGTAAAACAATATGAGCAGAAATATGAAGAGTTGAAGTTGACAGAG
AAATCAGTAAAAGATAAGTTGGAAGAAATTAAAGTG
Found at i:28422884 original size:13 final size:14
Alignment explanation
Indices: 28422851--28422884 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
28422841 TAGTATGATG
28422851 GAAATTTCGTACAA
1 GAAATTTCGTACAA
*
28422865 AAAATTTCGTA-AA
1 GAAATTTCGTACAA
28422878 GAAATTT
1 GAAATTT
28422885 TACCGATTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.47, C:0.09, G:0.12, T:0.32
Consensus pattern (14 bp):
GAAATTTCGTACAA
Found at i:28423216 original size:37 final size:37
Alignment explanation
Indices: 28423170--28423241 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
28423160 ATTTCCATTG
* *
28423170 AAACTCTAGCTAAGAAAAAGTAGCTCAAGCAAGCTAA
1 AAACCCTAGCTAAGAAAAAGTAGCTAAAGCAAGCTAA
*
28423207 AAACCCTAGCTAAGAGAAAGTAGCTAAAGCAAGCT
1 AAACCCTAGCTAAGAAAAAGTAGCTAAAGCAAGCT
28423242 TACTTTGATA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.47, C:0.19, G:0.18, T:0.15
Consensus pattern (37 bp):
AAACCCTAGCTAAGAAAAAGTAGCTAAAGCAAGCTAA
Found at i:28423614 original size:25 final size:23
Alignment explanation
Indices: 28423556--28423615 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 23
28423546 ATAGCTCTTA
*
28423556 CGAGCATCCCGTTATAAGCCTTCT
1 CGAGCATCCCGTTATAA-CATTCT
*
28423580 CGAGCTTCCCGTTATATA-ATTCCT
1 CGAGCATCCCGTTATA-ACATT-CT
28423604 GCGAGCATCCCG
1 -CGAGCATCCCG
28423616 ATCGGTATTG
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
23 2 0.07
24 17 0.57
25 11 0.37
ACGTcount: A:0.20, C:0.33, G:0.18, T:0.28
Consensus pattern (23 bp):
CGAGCATCCCGTTATAACATTCT
Found at i:28426460 original size:28 final size:28
Alignment explanation
Indices: 28426428--28426484 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
28426418 TTATTGTAAG
28426428 TCTGGTTGATTCATGAGTGGTATTGCTC
1 TCTGGTTGATTCATGAGTGGTATTGCTC
28426456 TCTGGTTGATTCATGAGTGGTATTGCTC
1 TCTGGTTGATTCATGAGTGGTATTGCTC
28426484 T
1 T
28426485 ATTTTTCTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.14, C:0.14, G:0.28, T:0.44
Consensus pattern (28 bp):
TCTGGTTGATTCATGAGTGGTATTGCTC
Found at i:28428343 original size:72 final size:72
Alignment explanation
Indices: 28428223--28428378 Score: 242
Period size: 72 Copynumber: 2.2 Consensus size: 72
28428213 AAATGGGCTC
*
28428223 ACACGCCCGTGT-GGCCCACATGCCCAAATTGGCCTTACTCGTGTGGATCACACGGCCTGGCACA
1 ACACGCCCGTGTGGGCCCACATGCCCAAATTGGCCTTACCCGTGTGGATCACACGGCCTGGCACA
28428287 ATATTCG
66 ATATTCG
* * * * * *
28428294 ACATGCCCGTGTGGGCTCACATGCCCAAATTGGCCTTGCCCGTGTGGATCACACTGCTTGGCCCA
1 ACACGCCCGTGTGGGCCCACATGCCCAAATTGGCCTTACCCGTGTGGATCACACGGCCTGGCACA
28428359 ATATTCG
66 ATATTCG
28428366 ACACGCCCGTGTG
1 ACACGCCCGTGTG
28428379 TCTTACCTGT
Statistics
Matches: 76, Mismatches: 8, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
71 11 0.14
72 65 0.86
ACGTcount: A:0.19, C:0.33, G:0.25, T:0.22
Consensus pattern (72 bp):
ACACGCCCGTGTGGGCCCACATGCCCAAATTGGCCTTACCCGTGTGGATCACACGGCCTGGCACA
ATATTCG
Found at i:28430680 original size:30 final size:29
Alignment explanation
Indices: 28430644--28430706 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 29
28430634 TTGTCGTTAT
*
28430644 TCAAATTTGCATACAATTACAGTTATATAG
1 TCAAATTTGCATACAATAACAGTTATA-AG
28430674 TCAAATTTGCATACAATAACAGTTATAAG
1 TCAAATTTGCATACAATAACAGTTATAAG
28430703 TCAA
1 TCAA
28430707 GTATAAAATG
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 6 0.19
30 26 0.81
ACGTcount: A:0.43, C:0.14, G:0.10, T:0.33
Consensus pattern (29 bp):
TCAAATTTGCATACAATAACAGTTATAAG
Found at i:28432423 original size:26 final size:26
Alignment explanation
Indices: 28432376--28432430 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
28432366 GAGTTTTCAT
* *
28432376 TTAAAAGCTCTTCATGAGCTTCCTGA
1 TTAAAAGCTCTTCATGAACTTCCTAA
* **
28432402 TTAAAAGTTCTTTGTGAACTTCCTAA
1 TTAAAAGCTCTTCATGAACTTCCTAA
28432428 TTA
1 TTA
28432431 TGGCTCTTAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (26 bp):
TTAAAAGCTCTTCATGAACTTCCTAA
Found at i:28440116 original size:49 final size:49
Alignment explanation
Indices: 28440041--28440137 Score: 149
Period size: 49 Copynumber: 2.0 Consensus size: 49
28440031 CTAATATTGA
* * *
28440041 AGTTGGATTGGTAAACTGTTAGGTGTTGTTCGTCTCGGTGTGATTTTAG
1 AGTTGGATTGGTAAACTATTAAGTGTTGTTCATCTCGGTGTGATTTTAG
* *
28440090 AGTTGGATTGGTCAACTATTAAGTGTTGTTCATCTTGGTGTGATTTTA
1 AGTTGGATTGGTAAACTATTAAGTGTTGTTCATCTCGGTGTGATTTTA
28440138 ACTTCAAACG
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 43 1.00
ACGTcount: A:0.19, C:0.08, G:0.29, T:0.44
Consensus pattern (49 bp):
AGTTGGATTGGTAAACTATTAAGTGTTGTTCATCTCGGTGTGATTTTAG
Found at i:28442275 original size:31 final size:31
Alignment explanation
Indices: 28442197--28442278 Score: 119
Period size: 31 Copynumber: 2.6 Consensus size: 31
28442187 TATAAAATAC
* * *
28442197 TTTAAAAAATTAAATACAATAATAAATAAGA
1 TTTAAATAATTTAATATAATAATAAATAAGA
* *
28442228 TTTAAATAATTTAATATAATAATAAATTATA
1 TTTAAATAATTTAATATAATAATAAATAAGA
28442259 TTTAAATAATTTAATATAAT
1 TTTAAATAATTTAATATAAT
28442279 GAGATATAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (31 bp):
TTTAAATAATTTAATATAATAATAAATAAGA
Found at i:28442296 original size:31 final size:30
Alignment explanation
Indices: 28442197--28442296 Score: 101
Period size: 31 Copynumber: 3.2 Consensus size: 30
28442187 TATAAAATAC
* * * *
28442197 TTTAAAAAATTAAATACAATAATAAATAAGA
1 TTTAAATAATTTAATATAATAAGAAATAA-A
* *
28442228 TTTAAATAATTTAATATAATAATAAATTATA
1 TTTAAATAATTTAATATAATAAGAAA-TAAA
* *
28442259 TTTAAATAATTTAATATAATGAGATATAAA
1 TTTAAATAATTTAATATAATAAGAAATAAA
28442289 TTATAAAT
1 TT-TAAAT
28442297 TAATCTATTT
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
30 5 0.08
31 52 0.88
32 2 0.03
ACGTcount: A:0.57, C:0.01, G:0.03, T:0.39
Consensus pattern (30 bp):
TTTAAATAATTTAATATAATAAGAAATAAA
Found at i:28444297 original size:19 final size:19
Alignment explanation
Indices: 28444273--28444370 Score: 164
Period size: 19 Copynumber: 5.2 Consensus size: 19
28444263 AATCTTTAAG
28444273 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
28444292 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
28444311 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
28444328 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
28444347 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
28444368 GAT
1 GAT
28444371 CTTGTAATCT
Statistics
Matches: 75, Mismatches: 0, Indels: 6
0.93 0.00 0.07
Matches are distributed among these distances:
17 17 0.23
19 49 0.65
21 9 0.12
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:28444303 original size:36 final size:35
Alignment explanation
Indices: 28444263--28444370 Score: 112
Period size: 36 Copynumber: 2.9 Consensus size: 35
28444253 ATGGAAATAT
28444263 AATCTTTAAGGATATGCAATCTTAGATATGATATGC
1 AATCTTTAA-GATATGCAATCTTAGATATGATATGC
28444299 AATC-TT-AGATATGATACAATCTTAGATATGATATGC
1 AATCTTTAAGATATG---CAATCTTAGATATGATATGC
*
28444335 AATCTTAGATATGATATGCAATCTTGAAGATATGAT
1 AATCTT---TAAGATATGCAATCTT--AGATATGAT
28444371 CTTGTAATCT
Statistics
Matches: 61, Mismatches: 1, Indels: 16
0.78 0.01 0.21
Matches are distributed among these distances:
33 6 0.10
34 1 0.02
35 2 0.03
36 28 0.46
37 1 0.02
38 7 0.11
40 10 0.16
41 6 0.10
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (35 bp):
AATCTTTAAGATATGCAATCTTAGATATGATATGC
Found at i:28444921 original size:18 final size:18
Alignment explanation
Indices: 28444898--28444932 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
28444888 CCCTGATTTC
28444898 TTTTTTT-ATATATTTTAA
1 TTTTTTTAATA-ATTTTAA
28444916 TTTTTTTAATAATTTTA
1 TTTTTTTAATAATTTTA
28444933 GTATCATATC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.81
19 3 0.19
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTTTTTAATAATTTTAA
Found at i:28450564 original size:1 final size:1
Alignment explanation
Indices: 28450558--28450614 Score: 51
Period size: 1 Copynumber: 57.0 Consensus size: 1
28450548 CTTCTATTTC
* * * * * * *
28450558 AAAAAAAAAGAAAAAAGAAAAGAAAAAAAAAAAAAGAGAAAAAAGAAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
28450615 TGGGGAGGCT
Statistics
Matches: 42, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 42 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (1 bp):
A
Found at i:28450573 original size:7 final size:7
Alignment explanation
Indices: 28450561--28450614 Score: 76
Period size: 7 Copynumber: 7.7 Consensus size: 7
28450551 CTATTTCAAA
28450561 AAAAAAG
1 AAAAAAG
28450568 AAAAAAG
1 AAAAAAG
28450575 AAAAGAA-
1 AAAA-AAG
28450582 AAAAAA-
1 AAAAAAG
28450588 AAAAAGAG
1 AAAAA-AG
28450596 AAAAAAG
1 AAAAAAG
28450603 AAAAAAG
1 AAAAAAG
28450610 AAAAA
1 AAAAA
28450615 TGGGGAGGCT
Statistics
Matches: 44, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
6 7 0.16
7 30 0.68
8 7 0.16
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:28450597 original size:28 final size:26
Alignment explanation
Indices: 28450558--28450614 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 26
28450548 CTTCTATTTC
28450558 AAAAAAAAAGAAAAAAGAAAAGAAAAA
1 AAAAAAAAAGAAAAAAGAAAA-AAAAA
*
28450585 AAAAAAAAGAGAAAAAAGAAAAAAGAA
1 AAAAAAAA-AGAAAAAAGAAAAAAAAA
28450612 AAA
1 AAA
28450615 TGGGGAGGCT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
27 15 0.54
28 13 0.46
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (26 bp):
AAAAAAAAAGAAAAAAGAAAAAAAAA
Found at i:28451900 original size:88 final size:88
Alignment explanation
Indices: 28451798--28452090 Score: 264
Period size: 88 Copynumber: 3.3 Consensus size: 88
28451788 CAAATCAAAG
* *
28451798 ACATAGCAGATCTAACTTTTAGATATTTTCACATCAAAGCAGATCCAAGATAACAGATCTGGCAT
1 ACATAGCAGATCTAACCTTCAGATATTTTCACATCAAAGCAGATCCAAGATAACAGATCTGGCAT
28451863 CTCCATTTCGACGGAGAGCAGAT
66 CTCCATTTCGACGGAGAGCAGAT
* * *
28451886 ACATAACAGATCTAACCTTCAGATATTTAT-AC-T-AAAGTAGATCCAAGAT----GATTTGGCA
1 ACATAGCAGATCTAACCTTCAGATATTT-TCACATCAAAGCAGATCCAAGATAACAGATCTGGCA
*** * *
28451944 TTCTTGTGTTTAC-AAGGA-A-CAAATCGAAA
65 -TC-TCCATTT-CGACGGAGAGC--A--G-AT
* * * * * * *
28451973 ACATAGCAGATTTGACTTTCGGATGTTCTCACACCAAAGCAGATCCAAGATAACAGATCTGGCAT
1 ACATAGCAGATCTAACCTTCAGATATTTTCACATCAAAGCAGATCCAAGATAACAGATCTGGCAT
*
28452038 CTCCATTTCGACGGAGAGTAGAT
66 CTCCATTTCGACGGAGAGCAGAT
28452061 ACATAGCAGATCTAACCTTCAGATGATTTT
1 ACATAGCAGATCTAACCTTCAGAT-ATTTT
28452091 ACTGAAGCGG
Statistics
Matches: 153, Mismatches: 32, Indels: 39
0.68 0.14 0.17
Matches are distributed among these distances:
82 9 0.06
83 3 0.02
84 9 0.06
85 1 0.01
86 17 0.11
87 25 0.16
88 48 0.31
89 20 0.13
90 1 0.01
91 9 0.06
92 3 0.02
93 8 0.05
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (88 bp):
ACATAGCAGATCTAACCTTCAGATATTTTCACATCAAAGCAGATCCAAGATAACAGATCTGGCAT
CTCCATTTCGACGGAGAGCAGAT
Found at i:28452159 original size:175 final size:176
Alignment explanation
Indices: 28451674--28452168 Score: 771
Period size: 175 Copynumber: 2.8 Consensus size: 176
28451664 GGCTAAAATT
* * *
28451674 ACAGATCTGGCGTCTCCATATTCGATGGAGAGTAGACACATAGCAGATCTAACCTTCAGATG-TT
1 ACAGATCTGGCATCTCCAT-TTCGACGGAGAGTAGATACATAGCAGATCTAACCTTCAGATGATT
* *
28451738 TATACTGAAGCAGATCTAAGATGATTTGGCATTCTTGTGTTTACAAGGAGCAAATCAAAGACATA
65 TATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAGCAAATCGAAGACATA
* * * * *
28451803 GCAGATCTAACTTTTAGATATTTTCACATCAAAGCAGATCCAAGATA
130 GCAGATTTGACTTTCAGATATTCTCACACCAAAGCAGATCCAAGATA
* *
28451850 ACAGATCTGGCATCTCCATTTCGACGGAGAGCAGATACATAACAGATCTAACCTTCAGAT-ATTT
1 ACAGATCTGGCATCTCCATTTCGACGGAGAGTAGATACATAGCAGATCTAACCTTCAGATGATTT
* * * *
28451914 ATACTAAAGTAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAACAAATCGAAAACATAG
66 ATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAGCAAATCGAAGACATAG
* *
28451979 CAGATTTGACTTTCGGATGTTCTCACACCAAAGCAGATCCAAGATA
131 CAGATTTGACTTTCAGATATTCTCACACCAAAGCAGATCCAAGATA
28452025 ACAGATCTGGCATCTCCATTTCGACGGAGAGTAGATACATAGCAGATCTAACCTTCAGATGATTT
1 ACAGATCTGGCATCTCCATTTCGACGGAGAGTAGATACATAGCAGATCTAACCTTCAGATGATTT
* *
28452090 -TACTGAAGCGGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAGCAAATCGAAGACATAG
66 ATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAGCAAATCGAAGACATAG
*
28452154 CAGATTTGGCTTTCA
131 CAGATTTGACTTTCA
28452169 CGTGTTTACG
Statistics
Matches: 289, Mismatches: 28, Indels: 5
0.90 0.09 0.02
Matches are distributed among these distances:
175 267 0.92
176 22 0.08
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (176 bp):
ACAGATCTGGCATCTCCATTTCGACGGAGAGTAGATACATAGCAGATCTAACCTTCAGATGATTT
ATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAGCAAATCGAAGACATAG
CAGATTTGACTTTCAGATATTCTCACACCAAAGCAGATCCAAGATA
Found at i:28452635 original size:19 final size:19
Alignment explanation
Indices: 28452611--28452708 Score: 155
Period size: 19 Copynumber: 5.2 Consensus size: 19
28452601 AATCTTTAAG
*
28452611 GATATGCAATCTTGGATAT
1 GATATGCAATCTTAGATAT
28452630 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
28452649 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
28452666 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
28452685 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
28452706 GAT
1 GAT
28452709 CTTGTAATCT
Statistics
Matches: 74, Mismatches: 1, Indels: 6
0.91 0.01 0.07
Matches are distributed among these distances:
17 17 0.23
19 48 0.65
21 9 0.12
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:28452641 original size:36 final size:35
Alignment explanation
Indices: 28452601--28452708 Score: 103
Period size: 36 Copynumber: 2.9 Consensus size: 35
28452591 ATGGAAATAT
28452601 AATCTTTAAGGATATGCAATCTTGGATATGATATGC
1 AATCTTTAA-GATATGCAATCTTGGATATGATATGC
*
28452637 AATC-TT-AGATATGATACAATCTTAGATATGATATGC
1 AATCTTTAAGATATG---CAATCTTGGATATGATATGC
*
28452673 AATCTTAGATATGATATGCAATCTTGAAGATATGAT
1 AATCTT---TAAGATATGCAATCTTG--GATATGAT
28452709 CTTGTAATCT
Statistics
Matches: 59, Mismatches: 3, Indels: 16
0.76 0.04 0.21
Matches are distributed among these distances:
33 6 0.10
34 1 0.02
35 2 0.03
36 27 0.46
37 1 0.02
38 7 0.12
40 9 0.15
41 6 0.10
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.36
Consensus pattern (35 bp):
AATCTTTAAGATATGCAATCTTGGATATGATATGC
Found at i:28452647 original size:14 final size:15
Alignment explanation
Indices: 28452630--28452686 Score: 53
Period size: 17 Copynumber: 3.5 Consensus size: 15
28452620 TCTTGGATAT
28452630 GATATG-CAATCTTA
1 GATATGACAATCTTA
28452644 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
28452661 GATATGATATGCAATCTTA
1 GATATG--A--CAATCTTA
28452680 GATATGA
1 GATATGA
28452687 TATGCAATCT
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
14 6 0.16
17 18 0.47
19 14 0.37
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.35
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:28453253 original size:17 final size:17
Alignment explanation
Indices: 28453229--28453263 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
28453219 ATGTTTCCCT
*
28453229 ATTTTTTTATATATTTTA
1 ATTTTTTAATA-ATTTTA
28453247 ATTTTTTAATAATTTTA
1 ATTTTTTAATAATTTTA
28453264 GTATCATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTTTTAATAATTTTA
Found at i:28459292 original size:78 final size:79
Alignment explanation
Indices: 28459141--28459442 Score: 270
Period size: 78 Copynumber: 3.7 Consensus size: 79
28459131 AGTCTTGAGT
* * * * * * *
28459141 TCTTCGATCTACTCCCCAT-TGAATACATAAATGCCCAAATTATCTTGGATCTTCCTTGACA--A
1 TCTTCGATCTACTCCCCGTCT-AATACAGAGATG-CCAAATCATCTTAGATC-TGCTTCACATGA
*
28459203 AGGTCAGATCTGTTATG
63 AGGTCAAATCTGTTATG
*
28459220 TCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCA-ATGAAGG
1 TCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATCTTAGATCTGCTTCACATGAAGG
*
28459284 TCAAATCTGCTATG
66 TCAAATCTGTTATG
* * * *
28459298 TCTTCGATCTGCTTCCCGTCTAATATAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAAC
1 TCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATCTTAGATCTGC-T-----T---C
* * *
28459363 ACATGAAAGCCAAATCAGTTATG
57 ACATGAAGGTCAAATCTGTTATG
** * * *
28459386 TCTTCGATCTACTTTCCGTCAAACACAGAGATGCCAAATCATCTTAGATTTGCTTCA
1 TCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATCTTAGATCTGCTTCA
28459443 ACGTAAACAC
Statistics
Matches: 188, Mismatches: 22, Indels: 26
0.80 0.09 0.11
Matches are distributed among these distances:
76 1 0.01
77 5 0.03
78 80 0.43
79 31 0.16
80 1 0.01
82 1 0.01
84 1 0.01
87 3 0.02
88 65 0.35
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.32
Consensus pattern (79 bp):
TCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATCTTAGATCTGCTTCACATGAAGG
TCAAATCTGTTATG
Found at i:28459426 original size:88 final size:88
Alignment explanation
Indices: 28459285--28460131 Score: 385
Period size: 88 Copynumber: 9.6 Consensus size: 88
28459275 CAATGAAGGT
* * * * *
28459285 CAAATCTGCTATGTCTTCGATCTGCTTCCCGTCTAATATAGAGATGCCAAATCATCTTAGATTTG
1 CAAATCAGCTATGTCTTCGATCTGCTTTCCGTCAAACACAGAGATGCCAAATCATCTTAGATTTG
28459350 CTTCAACGTAAACACATGAAAGC
66 CTTCAACGTAAACACATGAAAGC
* *
28459373 CAAATCAGTTATGTCTTCGATCTACTTTCCGTCAAACACAGAGATGCCAAATCATCTTAGATTTG
1 CAAATCAGCTATGTCTTCGATCTGCTTTCCGTCAAACACAGAGATGCCAAATCATCTTAGATTTG
28459438 CTTCAACGTAAACACATGAAAGC
66 CTTCAACGTAAACACATGAAAGC
* * *
28459461 CAAATCAGCTATGTCTTCGATCTGCTCTCTGTCAAACACAGAGACGCCAAATCTGCTATCTTAGA
1 CAAATCAGCTATGTCTTCGATCTGCTTTCCGTCAAACACAGAGATGCCAAA--T-C-ATCTTAGA
** * *
28459526 TTTGC-TCCTCGTCGAATAC--GAAGATGC
62 TTTGCTTCAACGT-AAACACATGAA-A-GC
* * * * *
28459553 CAAAT---C-A--TCATAGATTTGC-TTCAACGT-AAACAC-GTGAAAGCCAAATCAGCTATGTC
1 CAAATCAGCTATGTCTTCGATCTGCTTTC--CGTCAAACACAGAG-ATGCCAAAT---C-A--TC
* *
28459609 TTCGATTTGCTCTCCATCG--AACACA-GAAACGC
57 TTAGATTTGCT-T-CAACGTAAACACATGAAA-GC
* * * * *
28459641 CAAAT---C-A--TCTTAGATTTGC-TTCAACG-GAAACAC-GTGAAAGCCAAATTAGCTATGCC
1 CAAATCAGCTATGTCTTCGATCTGCTTTC--CGTCAAACACAGAG-ATGCCAAA-T--C-AT--C
* * ** *
28459697 TTCGATCTGCTCTC--CGTCGA-ACATAGAGACGC
57 TTAGATTTGCT-TCAACGTAAACACAT-GA-AAGC
* * * *
28459729 CAAAT---C-A--TCTTAGATTTGC-TTCAACGT-AAACAC-GTGAAAGCCAAATCAGCTATGTC
1 CAAATCAGCTATGTCTTCGATCTGCTTTC--CGTCAAACACAGAG-ATGCCAAAT---C-A--TC
* * * *
28459785 TTTGATCTGCTCTC--CGTCGAACACA-GAGACGC
57 TTAGATTTGCT-TCAACGT-AAACACATGA-AAGC
* * * * *
28459817 CAAATCTGCTA--TCTTGGATTTGCTCTT-CGTCGAATA-AGAAGATGCCAAATCATCTTAGATT
1 CAAATCAGCTATGTCTTCGATCTGCT-TTCCGTCAAACACAG-AGATGCCAAATCATCTTAGATT
* * * *
28459878 TGCTTCAATGTAAAAACGTGAAACC
64 TGCTTCAACGTAAACACATGAAAGC
* * * *
28459903 CAAATCAGCTATGTCTTTGATTTGCTCTCCGTCAAGCACAGAGATGCCAAATCATCTTAGATTTG
1 CAAATCAGCTATGTCTTCGATCTGCTTTCCGTCAAACACAGAGATGCCAAATCATCTTAGATTTG
*
28459968 CTTCAACGTAAACACGTGAAAGC
66 CTTCAACGTAAACACATGAAAGC
* * ** * *
28459991 CAAATCAGCTATGTCTTTGATCTGCTCTCCGTTGAACACAGAAACGCCAAATCATCTTAGATTTG
1 CAAATCAGCTATGTCTTCGATCTGCTTTCCGTCAAACACAGAGATGCCAAATCATCTTAGATTTG
*
28460056 CTTCAACGTAAACACGTGAAAGC
66 CTTCAACGTAAACACATGAAAGC
* * * * * * *
28460079 CAAATAAGCTATGTCTTTGATCTGCTCTCCATCGAACATAGAGACGCCAAATC
1 CAAATCAGCTATGTCTTCGATCTGCTTTCCGTCAAACACAGAGATGCCAAATC
28460132 TGCTATCTTG
Statistics
Matches: 643, Mismatches: 67, Indels: 98
0.80 0.08 0.12
Matches are distributed among these distances:
84 1 0.00
85 8 0.01
86 57 0.09
87 10 0.02
88 482 0.75
89 10 0.02
90 9 0.01
91 15 0.02
92 48 0.07
93 1 0.00
94 2 0.00
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (88 bp):
CAAATCAGCTATGTCTTCGATCTGCTTTCCGTCAAACACAGAGATGCCAAATCATCTTAGATTTG
CTTCAACGTAAACACATGAAAGC
Found at i:28459567 original size:133 final size:129
Alignment explanation
Indices: 28459414--28459660 Score: 395
Period size: 133 Copynumber: 1.9 Consensus size: 129
28459404 TCAAACACAG
*
28459414 AGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACACATGAAAGCCAAATCAGCTATGTCTTC
1 AGATGCCAAATCATCATAGATTTGCTTCAACGTAAACACATGAAAGCCAAATCAGCTATGTCTTC
** *
28459479 GATCTGCTCTCTGTCAAACACAGAGACGCCAAATCTGCTATCTTAGATTTGCTCCTCGTCGAATA
66 GATCTGCTCTCCATCAAACACAGAAACGCCAAA--T-C-ATCTTAGATTTGCTCCTCGTCGAATA
28459544 CGA
127 CGA
*
28459547 AGATGCCAAATCATCATAGATTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATGTCTTC
1 AGATGCCAAATCATCATAGATTTGCTTCAACGTAAACACATGAAAGCCAAATCAGCTATGTCTTC
* *
28459612 GATTTGCTCTCCATCGAACACAGAAACGCCAAATCATCTTAGATTTGCT
66 GATCTGCTCTCCATCAAACACAGAAACGCCAAATCATCTTAGATTTGCT
28459661 TCAACGGAAA
Statistics
Matches: 107, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
129 14 0.13
130 1 0.01
131 1 0.01
133 91 0.85
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (129 bp):
AGATGCCAAATCATCATAGATTTGCTTCAACGTAAACACATGAAAGCCAAATCAGCTATGTCTTC
GATCTGCTCTCCATCAAACACAGAAACGCCAAATCATCTTAGATTTGCTCCTCGTCGAATACGA
Found at i:28459709 original size:221 final size:217
Alignment explanation
Indices: 28459326--28459969 Score: 674
Period size: 221 Copynumber: 2.9 Consensus size: 217
28459316 TCTAATATAG
* *
28459326 AGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACACATGAAAGCCAAATCAGTTATGTCTTC
1 AGATGCCAAATCATCATAGATTTGCTTCAACGTAAACACATGAAAGCCAAATCAGCTATGTCTTC
* * * * *
28459391 GATCTACTTTCCGTCAAACACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACACATG
66 GATCTACTCTCCATCAAACACAGAAACGCCAAATCATCTTAGATTTGCTTCAACGGAAACACATG
* *
28459456 AAAGCCAAATCAGCTATGTCTTCGATCTGCTCTCTGTCAAACACAGAGACGCCAAATCTGCTATC
131 AAAGCCAAATCAGCTATGCCTTCGATCTGCTCTCCGTCAAACACAGAGACGCCAAA--T-C-ATC
28459521 TTAGATTTGCTCCTCGTCGAATACGA
192 TTAGATTTGCTCCTCGTCGAATACGA
*
28459547 AGATGCCAAATCATCATAGATTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATGTCTTC
1 AGATGCCAAATCATCATAGATTTGCTTCAACGTAAACACATGAAAGCCAAATCAGCTATGTCTTC
* * * *
28459612 GATTTGCTCTCCATCGAACACAGAAACGCCAAATCATCTTAGATTTGCTTCAACGGAAACACGTG
66 GATCTACTCTCCATCAAACACAGAAACGCCAAATCATCTTAGATTTGCTTCAACGGAAACACATG
* * *
28459677 AAAGCCAAATTAGCTATGCCTTCGATCTGCTCTCCGTCGAACATAGAGACGCCAAATCATCTTAG
131 AAAGCCAAATCAGCTATGCCTTCGATCTGCTCTCCGTCAAACACAGAGACGCCAAATCATCTTAG
** * *
28459742 ATTTGCTTCAACGT-AAACACGTGA
196 ATTTGC-TCCTCGTCGAATAC--GA
* * ** * * *
28459766 A-A-GCCAAATCAGC-TATGTCTTTGATCTGCTCTCCGTCGAACACA-GAGACGCCAAATCTGCT
1 AGATGCCAAATCATCATA-G-ATTTG--CT--TCAACGT-AAACACATGA-AAGCCAAATCAGCT
* * * * * * * * * *
28459827 A--TCTTGGATTTGCTCTTCGTCGAATA-AGAAGATGCCAAATCATCTTAGATTTGCTTCAATGT
58 ATGTCTTCGATCTACTCTCCATCAAACACAGAA-ACGCCAAATCATCTTAGATTTGCTTCAACGG
* * * * * * * *
28459889 AAAAACGTGAAACCCAAATCAGCTATGTCTTTGATTTGCTCTCCGTCAAGCACAGAGATGCCAAA
122 AAACACATGAAAGCCAAATCAGCTATGCCTTCGATCTGCTCTCCGTCAAACACAGAGACGCCAAA
28459954 TCATCTTAGATTTGCT
187 TCATCTTAGATTTGCT
28459970 TCAACGTAAA
Statistics
Matches: 365, Mismatches: 46, Indels: 25
0.84 0.11 0.06
Matches are distributed among these distances:
216 2 0.01
217 28 0.08
218 11 0.03
219 4 0.01
220 7 0.02
221 288 0.79
222 7 0.02
223 18 0.05
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.28
Consensus pattern (217 bp):
AGATGCCAAATCATCATAGATTTGCTTCAACGTAAACACATGAAAGCCAAATCAGCTATGTCTTC
GATCTACTCTCCATCAAACACAGAAACGCCAAATCATCTTAGATTTGCTTCAACGGAAACACATG
AAAGCCAAATCAGCTATGCCTTCGATCTGCTCTCCGTCAAACACAGAGACGCCAAATCATCTTAG
ATTTGCTCCTCGTCGAATACGA
Found at i:28459851 original size:309 final size:308
Alignment explanation
Indices: 28459285--28460351 Score: 1751
Period size: 309 Copynumber: 3.5 Consensus size: 308
28459275 CAATGAAGGT
* * *
28459285 CAAATCTGCTATGTCTTCGATCTGCT-TCCCGTCTAATATAGAGATGCCAAATCATCTTAGATTT
1 CAAATCAGCTATGTCTTCGATCTGCTCT-CCGTC-AACACAGAGATGCCAAATCATCTTAGATTT
* * * * *
28459349 GCTTCAACGTAAACACATGAAAGCCAAATCAGTTATGTCTTCGATCTACTTTCCGTCAAACACAG
64 GCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATCTGCTCTCCGTCGAACACAG
* * *
28459414 AGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACACATGAAAGCCAAATCAGCTATGTCTTC
129 AGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATGTCTTT
* * *
28459479 GATCTGCTCTCTGTCAAACACAGAGACGCCAAATCTGCTATCTTAGATTTGCTCCTCGTCGAATA
194 GATCTGCTCTCCGTCGAACACAGAGACGCCAAATCTGCTATCTTGGATTTGCTCCTCGTCGAATA
*
28459544 CGAAGATGCCAAATCATCATAGATTTGCTTCAACGTAAACACGTGAAAGC
259 CGAAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAAGC
* * * *
28459594 CAAATCAGCTATGTCTTCGATTTGCTCTCCATCGAACACAGAAACGCCAAATCATCTTAGATTTG
1 CAAATCAGCTATGTCTTCGATCTGCTCTCCGTC-AACACAGAGATGCCAAATCATCTTAGATTTG
* * * *
28459659 CTTCAACGGAAACACGTGAAAGCCAAATTAGCTATGCCTTCGATCTGCTCTCCGTCGAACATAGA
65 CTTCAACGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATCTGCTCTCCGTCGAACACAGA
28459724 GACGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATGTCTTTG
130 GACGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATGTCTTTG
* *
28459789 ATCTGCTCTCCGTCGAACACAGAGACGCCAAATCTGCTATCTTGGATTTGCTCTTCGTCGAATAA
195 ATCTGCTCTCCGTCGAACACAGAGACGCCAAATCTGCTATCTTGGATTTGCTCCTCGTCGAATAC
* * *
28459854 GAAGATGCCAAATCATCTTAGATTTGCTTCAATGTAAAAACGTGAAACC
260 GAAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAAGC
* *
28459903 CAAATCAGCTATGTCTTTGATTTGCTCTCCGTCAAGCACAGAGATGCCAAATCATCTTAGATTTG
1 CAAATCAGCTATGTCTTCGATCTGCTCTCCGTCAA-CACAGAGATGCCAAATCATCTTAGATTTG
* *
28459968 CTTCAACGTAAACACGTGAAAGCCAAATCAGCTATGTCTTTGATCTGCTCTCCGTTGAACACAGA
65 CTTCAACGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATCTGCTCTCCGTCGAACACAGA
* *
28460033 AACGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAAGCCAAATAAGCTATGTCTTTG
130 GACGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATGTCTTTG
* *
28460098 ATCTGCTCTCCATCGAACATAGAGACGCCAAATCTGCTATCTTGGATTTGCTCCTCGTCGAATAC
195 ATCTGCTCTCCGTCGAACACAGAGACGCCAAATCTGCTATCTTGGATTTGCTCCTCGTCGAATAC
28460163 GAAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAAGC
260 GAAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAAGC
28460212 CAAATCAGCTATGTCTTCGATCTGCTCTCCGTCAAACACAGAGATGCCAAATCATCTTAGATTTG
1 CAAATCAGCTATGTCTTCGATCTGCTCTCCGTC-AACACAGAGATGCCAAATCATCTTAGATTTG
28460277 CTTCAACGTAAACACGTGAAAGCC-AATCAGCTATGTCTTCGATCTGCTCTCCGTCGAACACAGA
65 CTTCAACGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATCTGCTCTCCGTCGAACACAGA
28460341 GACGCCAAATC
130 GACGCCAAATC
28460352 TGCTATCTTG
Statistics
Matches: 702, Mismatches: 53, Indels: 7
0.92 0.07 0.01
Matches are distributed among these distances:
308 50 0.07
309 649 0.92
310 3 0.00
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (308 bp):
CAAATCAGCTATGTCTTCGATCTGCTCTCCGTCAACACAGAGATGCCAAATCATCTTAGATTTGC
TTCAACGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATCTGCTCTCCGTCGAACACAGAG
ACGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATGTCTTTGA
TCTGCTCTCCGTCGAACACAGAGACGCCAAATCTGCTATCTTGGATTTGCTCCTCGTCGAATACG
AAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAAGC
Found at i:28459864 original size:45 final size:46
Alignment explanation
Indices: 28459459--28460379 Score: 178
Period size: 47 Copynumber: 20.8 Consensus size: 46
28459449 ACACATGAAA
* * *
28459459 GCCAAATCAGCTATGTCTTCGATCTGCTCTCTGTCAAACACAGAGAC
1 GCCAAATCAGCTA-GTCTTGGATCTGCTCTCCGTCGAACACAGAGAC
* * * * *
28459506 GCCAAATCTGCTA-TCTTAGATTTGCTC-CTCGTCGAATAC-GAAGAT
1 GCCAAATCAGCTAGTCTTGGATCTGCTCTC-CGTCGAACACAG-AGAC
* ** * * *
28459551 GCCAAATCATCATAGAT-TT-G--CT--TCAACGT-AAACAC-GTGAAA
1 GCCAAATCAGC-TAG-TCTTGGATCTGCTCTCCGTCGAACACAGAG-AC
* * * *
28459592 GCCAAATCAGCTATGTCTTCGATTTGCTCTCCATCGAACACAGAAAC
1 GCCAAATCAGCTA-GTCTTGGATCTGCTCTCCGTCGAACACAGAGAC
* * * *
28459639 GCCAAAT---C-A-TCTTAGATTTGCT-TCAACG--GAA-ACACGTGAAA
1 GCCAAATCAGCTAGTCTTGGATCTGCTCTC--CGTCGAACACA-GAG-AC
* * * *
28459680 GCCAAATTAGCTATGCCTTCGATCTGCTCTCCGTCGAACATAGAGAC
1 GCCAAATCAGCTA-GTCTTGGATCTGCTCTCCGTCGAACACAGAGAC
* * * * *
28459727 GCCAAAT---C-A-TCTTAGATTTGCT-TCAACGT-AAACAC-GTGAAA
1 GCCAAATCAGCTAGTCTTGGATCTGCTCTC--CGTCGAACACAGAG-AC
*
28459768 GCCAAATCAGCTATGTCTTTGATCTGCTCTCCGTCGAACACAGAGAC
1 GCCAAATCAGCTA-GTCTTGGATCTGCTCTCCGTCGAACACAGAGAC
* * * * *
28459815 GCCAAATCTGCTA-TCTTGGATTTGCTCTTCGTCGAATA-AGAAGAT
1 GCCAAATCAGCTAGTCTTGGATCTGCTCTCCGTCGAACACAG-AGAC
* * * * * * *
28459860 GCCAAAT---C-A-TCTTAGATTTGCT-TCAATGT-AAAAACGTGAAAC
1 GCCAAATCAGCTAGTCTTGGATCTGCTCTC--CGTCGAACAC-AGAGAC
* * *
28459902 -CCAAATCAGCTATGTCTTTGATTTGCTCTCCGTC-AAGCACAGAGAT
1 GCCAAATCAGCTA-GTCTTGGATCTGCTCTCCGTCGAA-CACAGAGAC
* * * * *
28459948 GCCAAAT---C-A-TCTTAGATTTGCT-TCAACGT-AAACAC-GTGAAA
1 GCCAAATCAGCTAGTCTTGGATCTGCTCTC--CGTCGAACACAGAG-AC
* * *
28459989 GCCAAATCAGCTATGTCTTTGATCTGCTCTCCGTTGAACACAGAAAC
1 GCCAAATCAGCTA-GTCTTGGATCTGCTCTCCGTCGAACACAGAGAC
* * * * *
28460036 GCCAAAT---C-A-TCTTAGATTTGCT-TCAACGT-AAACAC-GTGAAA
1 GCCAAATCAGCTAGTCTTGGATCTGCTCTC--CGTCGAACACAGAG-AC
* * * *
28460077 GCCAAATAAGCTATGTCTTTGATCTGCTCTCCATCGAACATAGAGAC
1 GCCAAATCAGCTA-GTCTTGGATCTGCTCTCCGTCGAACACAGAGAC
* * * *
28460124 GCCAAATCTGCTA-TCTTGGATTTGCTC-CTCGTCGAATAC-GAAGAT
1 GCCAAATCAGCTAGTCTTGGATCTGCTCTC-CGTCGAACACAG-AGAC
* * * * *
28460169 GCCAAAT---C-A-TCTTAGATTTGCT-TCAACGT-AAACAC-GTGAAA
1 GCCAAATCAGCTAGTCTTGGATCTGCTCTC--CGTCGAACACAGAG-AC
* * *
28460210 GCCAAATCAGCTATGTCTTCGATCTGCTCTCCGTCAAACACAGAGAT
1 GCCAAATCAGCTA-GTCTTGGATCTGCTCTCCGTCGAACACAGAGAC
* * * * *
28460257 GCCAAAT---C-A-TCTTAGATTTGCT-TCAACGT-AAACAC-GTGAAA
1 GCCAAATCAGCTAGTCTTGGATCTGCTCTC--CGTCGAACACAGAG-AC
*
28460298 GCC-AATCAGCTATGTCTTCGATCTGCTCTCCGTCGAACACAGAGAC
1 GCCAAATCAGCTA-GTCTTGGATCTGCTCTCCGTCGAACACAGAGAC
* *
28460344 GCCAAATCTGCTA-TCTTGGATTTGCTC-CTCGTCGAA
1 GCCAAATCAGCTAGTCTTGGATCTGCTCTC-CGTCGAA
28460380 TATGAAGATG
Statistics
Matches: 645, Mismatches: 119, Indels: 222
0.65 0.12 0.23
Matches are distributed among these distances:
39 3 0.00
40 30 0.05
41 178 0.28
42 30 0.05
43 7 0.01
44 21 0.03
45 119 0.18
46 47 0.07
47 182 0.28
48 26 0.04
49 2 0.00
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.27
Consensus pattern (46 bp):
GCCAAATCAGCTAGTCTTGGATCTGCTCTCCGTCGAACACAGAGAC
Found at i:28459995 original size:221 final size:221
Alignment explanation
Indices: 28459402--28460278 Score: 808
Period size: 221 Copynumber: 4.0 Consensus size: 221
28459392 ATCTACTTTC
* * * *
28459402 CGTCAAACACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACACATGAAAGCCAAATC
1 CGTCGAACACAGAAATGCCAAATCATCTTAGATTTGCTTCAACGTAAAAACATGAAACCCAAATC
* *
28459467 AGCTATGTCTTCGATCTGCTCTCTGTCAAACACAGAGACGCCAAATCTGCTATCTTAGATTTGC-
66 AGCTATGTCTTCGATCTGCTCTCCGTCGAACACAGAGACGCCAAA--T-C-ATCTTAGATTTGCT
** * * * * **
28459531 TCCTCGTCGAATAC--GAAGATGCCAAATCATC-ATAG-ATTTG--CT--TCAACGT-AAACAC-
127 TCAACGT-AAACACGTGAA-A-GCCAAATCAGCTAT-GTCTTTGATCTGCTCTCCGTCAAACACA
* * * * *
28459586 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCTC
188 GAG-ACGCCAAATCTGCTA--TCTTAGATTTGCTCTA
* * * * * * *
28459623 CATCGAACACAGAAACGCCAAATCATCTTAGATTTGCTTCAACGGAAACACGTGAAAGCCAAATT
1 CGTCGAACACAGAAATGCCAAATCATCTTAGATTTGCTTCAACGTAAAAACATGAAACCCAAATC
* *
28459688 AGCTATGCCTTCGATCTGCTCTCCGTCGAACATAGAGACGCCAAATCATCTTAGATTTGCTTCAA
66 AGCTATGTCTTCGATCTGCTCTCCGTCGAACACAGAGACGCCAAATCATCTTAGATTTGCTTCAA
*
28459753 CGTAAACACGTGAAAGCCAAATCAGCTATGTCTTTGATCTGCTCTCCGTCGAACACAGAGACGCC
131 CGTAAACACGTGAAAGCCAAATCAGCTATGTCTTTGATCTGCTCTCCGTCAAACACAGAGACGCC
* *
28459818 AAATCTGCTATCTTGGATTTGCTCTT
196 AAATCTGCTATCTTAGATTTGCTCTA
* * *
28459844 CGTCGAATA-AGAAGATGCCAAATCATCTTAGATTTGCTTCAATGTAAAAACGTGAAACCCAAAT
1 CGTCGAACACAGAA-ATGCCAAATCATCTTAGATTTGCTTCAACGTAAAAACATGAAACCCAAAT
* * *
28459908 CAGCTATGTCTTTGATTTGCTCTCCGTC-AAGCACAGAGATGCCAAATCATCTTAGATTTGCTTC
65 CAGCTATGTCTTCGATCTGCTCTCCGTCGAA-CACAGAGACGCCAAATCATCTTAGATTTGCTTC
** *
28459972 AACGTAAACACGTGAAAGCCAAATCAGCTATGTCTTTGATCTGCTCTCCGTTGAACACAGAAACG
129 AACGTAAACACGTGAAAGCCAAATCAGCTATGTCTTTGATCTGCTCTCCGTCAAACACAGAGACG
*
28460037 CCAAA--T-C-ATCTTAGATTTGCTTCAA
194 CCAAATCTGCTATCTTAGATTTGC-TCTA
* * * * *
28460062 CGT-AAACACGTGAAA-GCCAAATAAGCTATGTCTTTGATCTGCTCTCCATCG----AACATAGA
1 CGTCGAACAC-AGAAATGCCAAAT---C-A--TCTTAGATTTGCT-T-CAACGTAAAAACAT-GA
* * * * * *
28460121 GACGCCAAATCTGCTA--TCTTGGATTTGCTC-CTCGTCGAATAC-GAAGATGCCAAATCATCTT
56 AAC-CCAAATCAGCTATGTCTTCGATCTGCTCTC-CGTCGAACACAG-AGACGCCAAATCATCTT
*
28460182 AGATTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATCTGCTCTCCGTCAA
118 AGATTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATGTCTTTGATCTGCTCTCCGTCAA
*
28460247 ACACAGAGATGCCAAA--T-C-ATCTTAGATTTGCT
183 ACACAGAGACGCCAAATCTGCTATCTTAGATTTGCT
28460279 TCAACGTAAA
Statistics
Matches: 567, Mismatches: 60, Indels: 59
0.83 0.09 0.09
Matches are distributed among these distances:
217 50 0.09
218 20 0.04
219 8 0.01
220 12 0.02
221 420 0.74
222 11 0.02
223 40 0.07
224 3 0.01
225 3 0.01
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (221 bp):
CGTCGAACACAGAAATGCCAAATCATCTTAGATTTGCTTCAACGTAAAAACATGAAACCCAAATC
AGCTATGTCTTCGATCTGCTCTCCGTCGAACACAGAGACGCCAAATCATCTTAGATTTGCTTCAA
CGTAAACACGTGAAAGCCAAATCAGCTATGTCTTTGATCTGCTCTCCGTCAAACACAGAGACGCC
AAATCTGCTATCTTAGATTTGCTCTA
Found at i:28460260 original size:88 final size:87
Alignment explanation
Indices: 28460165--28460351 Score: 347
Period size: 87 Copynumber: 2.1 Consensus size: 87
28460155 TCGAATACGA
28460165 AGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATGTCTTC
1 AGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAAGCC-AATCAGCTATGTCTTC
28460230 GATCTGCTCTCCGTCAAACACAG
65 GATCTGCTCTCCGTCAAACACAG
28460253 AGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAAGCCAATCAGCTATGTCTTCG
1 AGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAAGCCAATCAGCTATGTCTTCG
*
28460318 ATCTGCTCTCCGTCGAACACAG
66 ATCTGCTCTCCGTCAAACACAG
*
28460340 AGACGCCAAATC
1 AGATGCCAAATC
28460352 TGCTATCTTG
Statistics
Matches: 97, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
87 49 0.51
88 48 0.49
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.25
Consensus pattern (87 bp):
AGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAAGCCAATCAGCTATGTCTTCG
ATCTGCTCTCCGTCAAACACAG
Found at i:28461115 original size:59 final size:59
Alignment explanation
Indices: 28461049--28461164 Score: 178
Period size: 59 Copynumber: 2.0 Consensus size: 59
28461039 TTAATCTGAA
* * * *
28461049 AGCCTATCTTTAAGAAGAAATAGAATCTACAGATAGCAAACAGGATAAAAGTTAGATAT
1 AGCCTATCTTTAAGAAGAAAAAGAATCTAAAGATAACAAACAGGACAAAAGTTAGATAT
* *
28461108 AGCCTATCTTTGAGAAGAAAAAGAATCTAAAGATAACAAACATGACAAAAGTTAGAT
1 AGCCTATCTTTAAGAAGAAAAAGAATCTAAAGATAACAAACAGGACAAAAGTTAGAT
28461165 GCCCTAGATA
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
59 51 1.00
ACGTcount: A:0.49, C:0.12, G:0.16, T:0.22
Consensus pattern (59 bp):
AGCCTATCTTTAAGAAGAAAAAGAATCTAAAGATAACAAACAGGACAAAAGTTAGATAT
Found at i:28472686 original size:20 final size:21
Alignment explanation
Indices: 28472661--28472700 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
28472651 ATTTACTGAA
28472661 TAATATA-ATA-ATAATAAAAC
1 TAATATATATATAT-ATAAAAC
28472681 TAATATATATATATATAAAA
1 TAATATATATATATATAAAA
28472701 GGATTAATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 9 0.50
22 2 0.11
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (21 bp):
TAATATATATATATATAAAAC
Found at i:28474220 original size:6 final size:6
Alignment explanation
Indices: 28474201--28474237 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
28474191 AAACAATATC
*
28474201 AAAAT- AAAAGA AAAATA AAAATA AAAATA AAAATA AA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AA
28474238 TAAACAAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
5 4 0.14
6 25 0.86
ACGTcount: A:0.84, C:0.00, G:0.03, T:0.14
Consensus pattern (6 bp):
AAAATA
Found at i:28474852 original size:5 final size:5
Alignment explanation
Indices: 28474828--28474905 Score: 63
Period size: 5 Copynumber: 15.2 Consensus size: 5
28474818 GAAATGAATG
* *
28474828 ATAT- ATATA ATAAGA ATATA ATATA ATATA ATATA AT-TT ATA-A ATATA
1 ATATA ATATA AT-ATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
*
28474876 ATATTAA AAATA ATATA ATAAATA ATATA A
1 ATA-T-A ATATA ATATA AT--ATA ATATA A
28474906 ACAAAAAGAA
Statistics
Matches: 60, Mismatches: 6, Indels: 15
0.74 0.07 0.19
Matches are distributed among these distances:
4 10 0.17
5 36 0.60
6 6 0.10
7 8 0.13
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (5 bp):
ATATA
Found at i:28474898 original size:12 final size:12
Alignment explanation
Indices: 28474832--28474905 Score: 61
Period size: 12 Copynumber: 6.5 Consensus size: 12
28474822 TGAATGATAT
*
28474832 ATATAAT-AAGA
1 ATATAATAAATA
28474843 ATATAAT--ATA
1 ATATAATAAATA
28474853 ATATAATATAAT-
1 ATATAATA-AATA
* *
28474865 TTATAA-ATATA
1 ATATAATAAATA
28474876 ATATTAA-AAATA
1 ATA-TAATAAATA
28474888 ATATAATAAATA
1 ATATAATAAATA
28474900 ATATAA
1 ATATAA
28474906 ACAAAAAGAA
Statistics
Matches: 52, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
10 11 0.21
11 13 0.25
12 26 0.50
13 2 0.04
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.36
Consensus pattern (12 bp):
ATATAATAAATA
Found at i:28475011 original size:29 final size:27
Alignment explanation
Indices: 28474971--28475025 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
28474961 TATAAGGTAT
28474971 TTAAAATAAATTAAATATATAAAAAATA
1 TTAAAATAAATTAAATATA-AAAAAATA
* * *
28474999 TTAAAAGTTAATTTAATTTAAAAAAAT
1 TTAAAA-TAAATTAAATATAAAAAAAT
28475026 TAGGATTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 13 0.57
29 10 0.43
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (27 bp):
TTAAAATAAATTAAATATAAAAAAATA
Found at i:28476156 original size:12 final size:13
Alignment explanation
Indices: 28476133--28476167 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
28476123 ATTCGGGTAG
28476133 AATTTTTAGG-TTT
1 AATTTTT-GGTTTT
28476146 AATTTTTGGTTTT
1 AATTTTTGGTTTT
28476159 AATTTTTGG
1 AATTTTTGG
28476168 GCTGTGGTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 2 0.10
13 19 0.90
ACGTcount: A:0.20, C:0.00, G:0.17, T:0.63
Consensus pattern (13 bp):
AATTTTTGGTTTT
Found at i:28476944 original size:40 final size:40
Alignment explanation
Indices: 28476898--28477031 Score: 128
Period size: 40 Copynumber: 3.2 Consensus size: 40
28476888 GAATACGAAG
28476898 ATGCCAAATCATCTTTGATCTGCTCCTTGACCATACAGGA
1 ATGCCAAATCATCTTTGATCTGCTCCTTGACCATACAGGA
* * * * * *
28476938 ATGCCAAATCTTCTTCTTGGATTTGCTCCTCGTCGAATAC-GAA
1 ATGCCAAATCATC-T-TT-GATCTGCTCCTTGAC-CATACAGGA
* *
28476981 GATGCCAAATCATCTTGGATCTGCTCGC-TGAACATACAGGA
1 -ATGCCAAATCATCTTTGATCTGCTC-CTTGACCATACAGGA
28477022 ATGCCAAATC
1 ATGCCAAATC
28477032 TGCTTCTTGG
Statistics
Matches: 73, Mismatches: 14, Indels: 14
0.72 0.14 0.14
Matches are distributed among these distances:
40 26 0.36
41 12 0.16
42 4 0.05
43 15 0.21
44 16 0.22
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (40 bp):
ATGCCAAATCATCTTTGATCTGCTCCTTGACCATACAGGA
Found at i:28476945 original size:84 final size:84
Alignment explanation
Indices: 28476857--28477133 Score: 407
Period size: 84 Copynumber: 3.3 Consensus size: 84
28476847 TACAGAGACC
*
28476857 CCAAATCTGCTTCTTGGATTTGCTCCTCGTCGAATACGAAGATGCCAAATCATCTTTGATCTGCT
1 CCAAATCTGCTTCTTGGATTTGCTCCTCGTCGAATACGAAGATGCCAAATCATCTTGGATCTGCT
28476922 CCTTGACCATACAGGAATG
66 CCTTGACCATACAGGAATG
*
28476941 CCAAATCTTCTTCTTGGATTTGCTCCTCGTCGAATACGAAGATGCCAAATCATCTTGGATCTGCT
1 CCAAATCTGCTTCTTGGATTTGCTCCTCGTCGAATACGAAGATGCCAAATCATCTTGGATCTGCT
*
28477006 CGC-TGAACATACAGGAATG
66 C-CTTGACCATACAGGAATG
* * *
28477025 CCAAATCTGCTTCTTGGGTTTGCTCCTCGTTGAATATGAAGATGCCAAATCATCTTGGATCTGCT
1 CCAAATCTGCTTCTTGGATTTGCTCCTCGTCGAATACGAAGATGCCAAATCATCTTGGATCTGCT
* * *
28477090 -CTCTAACAATACA-GAGACG
66 CCT-TGACCATACAGGA-ATG
*
28477109 CCAAATCTGCTATCTTCGATTTGCT
1 CCAAATCTGCT-TCTTGGATTTGCT
28477134 TTCTGACAAT
Statistics
Matches: 175, Mismatches: 13, Indels: 9
0.89 0.07 0.05
Matches are distributed among these distances:
82 1 0.01
83 2 0.01
84 160 0.91
85 12 0.07
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.31
Consensus pattern (84 bp):
CCAAATCTGCTTCTTGGATTTGCTCCTCGTCGAATACGAAGATGCCAAATCATCTTGGATCTGCT
CCTTGACCATACAGGAATG
Found at i:28477006 original size:41 final size:41
Alignment explanation
Indices: 28476868--28477090 Score: 179
Period size: 41 Copynumber: 5.3 Consensus size: 41
28476858 CAAATCTGCT
*
28476868 TCTTGGATTTGCTCCTCGTCGAATACGAAGATGCCAAATCA
1 TCTTGGATCTGCTCCTCGTCGAATACGAAGATGCCAAATCA
* * * * * *
28476909 TCTTTGATCTGCTCCTTGAC-CATAC-AGGAATGCCAAATCTTCT
1 TCTTGGATCTGCTCCTCGTCGAATACGAAG-ATGCCAAA---TCA
*
28476952 TCTTGGATTTGCTCCTCGTCGAATACGAAGATGCCAAATCA
1 TCTTGGATCTGCTCCTCGTCGAATACGAAGATGCCAAATCA
* * *
28476993 TCTTGGATCTGCTCGCT-G--AACATAC-AGGAATGCCAAATCTGCT
1 TCTTGGATCTGCTC-CTCGTCGA-ATACGAAG-ATGCCAAA--T-CA
* * * *
28477036 TCTTGGGTTTGCTCCTCGTTGAATATGAAGATGCCAAATCA
1 TCTTGGATCTGCTCCTCGTCGAATACGAAGATGCCAAATCA
28477077 TCTTGGATCTGCTC
1 TCTTGGATCTGCTC
28477091 TCTAACAATA
Statistics
Matches: 140, Mismatches: 26, Indels: 32
0.71 0.13 0.16
Matches are distributed among these distances:
39 5 0.04
40 24 0.17
41 45 0.32
42 6 0.04
43 32 0.23
44 23 0.16
45 5 0.04
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (41 bp):
TCTTGGATCTGCTCCTCGTCGAATACGAAGATGCCAAATCA
Found at i:28477245 original size:44 final size:44
Alignment explanation
Indices: 28476602--28477248 Score: 547
Period size: 44 Copynumber: 15.0 Consensus size: 44
28476592 GCCAAATACA
* * *
28476602 CTATCTTTGATCTGCTCTCTGACAACACAGAGATGCCAAATTTG
1 CTATCTTCGATCTGCTCTCTGACAATACAGAGATGCCAAATCTG
* *
28476646 CTACCTTTGATCTGCTCTCTGACAATACAGAGATGCCAAATCTG
1 CTATCTTCGATCTGCTCTCTGACAATACAGAGATGCCAAATCTG
* **
28476690 -TCATCTTCAATCTGCTCTCTGACAATACAGAGACACCAAATCTG
1 CT-ATCTTCGATCTGCTCTCTGACAATACAGAGATGCCAAATCTG
* * * * * **
28476734 CCATCTTCAATATGTTCTCTGTCAATACAGAGACACCAAATCTG
1 CTATCTTCGATCTGCTCTCTGACAATACAGAGATGCCAAATCTG
** *
28476778 CTATCTTCGATCTGCTCTCTGACAATACAGAGACACCAAATTTG
1 CTATCTTCGATCTGCTCTCTGACAATACAGAGATGCCAAATCTG
**
28476822 CTATCTTCGATCTGCTCTCTGACAATACAGAGACCCCAAATCTG
1 CTATCTTCGATCTGCTCTCTGACAATACAGAGATGCCAAATCTG
* * *
28476866 CT-TCTTGGATTTGCTC-CTCGTCGAATAC-GAAGATGCCAAA--T-
1 CTATCTTCGATCTGCTCTCT-GAC-AATACAG-AGATGCCAAATCTG
* * *
28476907 C-ATCTTTGATCTGCTC-CTTGACCATACAG-GAATGCCAAATCTT
1 CTATCTTCGATCTGCTCTC-TGACAATACAGAG-ATGCCAAATCTG
* * *
28476950 CT-TCTTGGATTTGCTC-CTCGTCGAATAC-GAAGATGCCAAA--T-
1 CTATCTTCGATCTGCTCTCT-GAC-AATACAG-AGATGCCAAATCTG
* *
28476991 C-ATCTTGGATCTGCTCGCTGA-ACATACAG-GAATGCCAAATCTG
1 CTATCTTCGATCTGCTCTCTGACA-ATACAGAG-ATGCCAAATCTG
* * * *
28477034 CT-TCTTGGGTTTGCTCCTCGTTG--AATA-TGAAGATGCCAAA--T-
1 CTATCTTCGATCTGCT-CTC--TGACAATACAG-AGATGCCAAATCTG
* * *
28477075 C-ATCTTGGATCTGCTCTCTAACAATACAGAGACGCCAAATCTG
1 CTATCTTCGATCTGCTCTCTGACAATACAGAGATGCCAAATCTG
* * * *
28477118 CTATCTTCGATTTGCTTTCTGACAATACAGAGACGCTAAATCTG
1 CTATCTTCGATCTGCTCTCTGACAATACAGAGATGCCAAATCTG
* *
28477162 CTATCTTCGATCTGCTCTCTGACAATACAGAGATACCAAATATG
1 CTATCTTCGATCTGCTCTCTGACAATACAGAGATGCCAAATCTG
* * *
28477206 CTATCTTCGATCTGCTTTTTGACAATACAGAAATGCCAAATCT
1 CTATCTTCGATCTGCTCTCTGACAATACAGAGATGCCAAATCT
28477249 TCTTAGATTC
Statistics
Matches: 504, Mismatches: 60, Indels: 78
0.79 0.09 0.12
Matches are distributed among these distances:
38 1 0.00
39 3 0.01
40 40 0.08
41 46 0.09
42 12 0.02
43 47 0.09
44 350 0.69
45 3 0.01
46 2 0.00
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (44 bp):
CTATCTTCGATCTGCTCTCTGACAATACAGAGATGCCAAATCTG
Found at i:28488831 original size:33 final size:33
Alignment explanation
Indices: 28488748--28488815 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
28488738 AGTATAAAAA
28488748 ATCATGGATAATGGCATAATTTACATAATATAC
1 ATCATGGATAATGGCATAATTTACATAATATAC
28488781 ATCATGGATAATGGCATAATTTACATAATATAC
1 ATCATGGATAATGGCATAATTTACATAATATAC
28488814 AT
1 AT
28488816 TATTACTTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.34
Consensus pattern (33 bp):
ATCATGGATAATGGCATAATTTACATAATATAC
Found at i:28489087 original size:24 final size:25
Alignment explanation
Indices: 28489050--28489113 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 25
28489040 AACAATATCA
*
28489050 AAATAAAATAAAAAT-TA-AAATAAAT
1 AAATCAAATAAAAATGTATAAAT--AT
*
28489075 AAA-CAAATTAAAATGTATAAATAT
1 AAATCAAATAAAAATGTATAAATAT
28489099 AAATCAAATAAAAAT
1 AAATCAAATAAAAAT
28489114 AAGGTATTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
24 14 0.42
25 15 0.45
26 4 0.12
ACGTcount: A:0.70, C:0.03, G:0.02, T:0.25
Consensus pattern (25 bp):
AAATCAAATAAAAATGTATAAATAT
Found at i:28489095 original size:18 final size:18
Alignment explanation
Indices: 28489038--28489088 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 18
28489028 TTTAACCTAC
*
28489038 TAAACAATATCAAAATAAA
1 TAAACAA-ATTAAAATAAA
28489057 -ATAA-AAATTAAAATAAA
1 TA-AACAAATTAAAATAAA
28489074 TAAACAAATTAAAAT
1 TAAACAAATTAAAAT
28489089 GTATAAATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
17 12 0.43
18 14 0.50
19 2 0.07
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.24
Consensus pattern (18 bp):
TAAACAAATTAAAATAAA
Found at i:28489692 original size:5 final size:5
Alignment explanation
Indices: 28489672--28489740 Score: 52
Period size: 5 Copynumber: 13.2 Consensus size: 5
28489662 AATGAATGAT
* *
28489672 ATATA ATAAGA ATATA ATATA ATATA AT-TT ATA-A ATATA ATATTAA
1 ATATA AT-ATA ATATA ATATA ATATA ATATA ATATA ATATA ATA-T-A
*
28489718 AAATA ATATA ATAAATA ATATA A
1 ATATA ATATA AT--ATA ATATA A
28489741 ACAAAAAGAA
Statistics
Matches: 51, Mismatches: 6, Indels: 14
0.72 0.08 0.20
Matches are distributed among these distances:
4 6 0.12
5 31 0.61
6 6 0.12
7 8 0.16
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.36
Consensus pattern (5 bp):
ATATA
Found at i:28489733 original size:12 final size:11
Alignment explanation
Indices: 28489701--28489741 Score: 55
Period size: 12 Copynumber: 3.5 Consensus size: 11
28489691 TAATATAATT
*
28489701 TATAAATATAA
1 TATAAAAATAA
28489712 TATTAAAAATAA
1 TA-TAAAAATAA
28489724 TATAATAAATAA
1 TATAA-AAATAA
28489736 TATAAA
1 TATAAA
28489742 CAAAAAGAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
11 6 0.22
12 21 0.78
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (11 bp):
TATAAAAATAA
Found at i:28491305 original size:24 final size:24
Alignment explanation
Indices: 28491277--28491325 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
28491267 CTCCCCACTA
28491277 ACCCATTAACAACCCAACTAACTC
1 ACCCATTAACAACCCAACTAACTC
28491301 ACCCATTAACAACCCAACTAACTC
1 ACCCATTAACAACCCAACTAACTC
28491325 A
1 A
28491326 GAATTTCACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.43, C:0.41, G:0.00, T:0.16
Consensus pattern (24 bp):
ACCCATTAACAACCCAACTAACTC
Found at i:28492163 original size:2 final size:2
Alignment explanation
Indices: 28492156--28492198 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
28492146 ATCATTCTGC
28492156 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
28492198 A
1 A
28492199 AAGAATATAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:28493210 original size:21 final size:21
Alignment explanation
Indices: 28493186--28493253 Score: 93
Period size: 21 Copynumber: 3.2 Consensus size: 21
28493176 ATTGCTTAGA
28493186 TCTTCCTCAGAATTTTCAGAT
1 TCTTCCTCAGAATTTTCAGAT
* * *
28493207 TCTTCCTTAGAAATTTCAAAT
1 TCTTCCTCAGAATTTTCAGAT
28493228 TCTTCC-CAAGAATTTTCAGAT
1 TCTTCCTC-AGAATTTTCAGAT
28493249 TCTTC
1 TCTTC
28493254 TACCATCTAC
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.26, C:0.24, G:0.07, T:0.43
Consensus pattern (21 bp):
TCTTCCTCAGAATTTTCAGAT
Found at i:28498456 original size:23 final size:24
Alignment explanation
Indices: 28498413--28498462 Score: 59
Period size: 23 Copynumber: 2.1 Consensus size: 24
28498403 AATAATATTG
*
28498413 AATAAATATAATGAGATACATA-A
1 AATAAATAAAATGAGATACATACA
*
28498436 AATAAATAAAATTATGA-ACATACA
1 AATAAATAAAATGA-GATACATACA
28498460 AAT
1 AAT
28498463 CAAAAATGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 17 0.74
24 6 0.26
ACGTcount: A:0.62, C:0.06, G:0.06, T:0.26
Consensus pattern (24 bp):
AATAAATAAAATGAGATACATACA
Found at i:28499108 original size:23 final size:23
Alignment explanation
Indices: 28499082--28499183 Score: 93
Period size: 23 Copynumber: 4.3 Consensus size: 23
28499072 ACATACAAAA
28499082 ATATAATAAAATAAT-TAATATAT
1 ATATAATAAAATAATATAATA-AT
* *
28499105 ATATAATATAAAAATATATAATAAC
1 ATATAATA-AAATA-ATATAATAAT
* *
28499130 ATATACTAAAAT-TTATAAATAAT
1 ATATAATAAAATAATAT-AATAAT
*
28499153 ATA-AATAAAATAATATAAAGAAT
1 ATATAATAAAATAATAT-AATAAT
28499176 ATATAATA
1 ATATAATA
28499184 TTTAAAATAT
Statistics
Matches: 64, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
22 10 0.16
23 28 0.44
24 11 0.17
25 10 0.16
26 5 0.08
ACGTcount: A:0.63, C:0.02, G:0.01, T:0.34
Consensus pattern (23 bp):
ATATAATAAAATAATATAATAAT
Found at i:28499440 original size:22 final size:22
Alignment explanation
Indices: 28499412--28499455 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
28499402 TATTAGGGTT
28499412 AAATTAAAAATA-AAATAAAATG
1 AAATTAAAAATATAAA-AAAATG
28499434 AAATTAAAAATATAAAAAAATG
1 AAATTAAAAATATAAAAAAATG
28499456 GAAGGACCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 18 0.86
23 3 0.14
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.23
Consensus pattern (22 bp):
AAATTAAAAATATAAAAAAATG
Found at i:28500727 original size:44 final size:44
Alignment explanation
Indices: 28500679--28501035 Score: 193
Period size: 44 Copynumber: 8.2 Consensus size: 44
28500669 CTTAGGAATA
* ** * * *
28500679 CCAAATCTGTTATTTTTTATCTGCTCTCTGCCAATACAGAGATG
1 CCAAATCTGCTATTTTCGATCTACTCTCTGACAATACAGAGACG
28500723 CCAAATCTGCTATTTTCGATCTACTCTCTGACAATACAGAGACG
1 CCAAATCTGCTATTTTCGATCTACTCTCTGACAATACAGAGACG
* * * * * *
28500767 CCAAA--T-C-ATCTTAGATCTGCT-TC-AACGTAA-ACACGTGAAAG
1 CCAAATCTGCTATTTTCGATCTACTCTCTGAC--AATACA-GAG-ACG
* * * *
28500808 CCAAATCTGCTATGTCTTCAATTTGCTCTCTGACAATACAGAGATG
1 CCAAATCTGCTAT-T-TTCGATCTACTCTCTGACAATACAGAGACG
* * *
28500854 CCAAATTTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACG
1 CCAAATCTGCTATTTTCGATCTACTCTCTGACAATACAGAGACG
* * * * * *
28500898 CCAAA--T-C-ATCTTAGATCTGCT-TC-AACGTAA-ACACGTGAAAG
1 CCAAATCTGCTATTTTCGATCTACTCTCTGAC--AATACA-GAG-ACG
* * * * * *
28500939 CCAAATCTGCTATGTCTTCAATTTGCTCTCTAATAATACAGAGATG
1 CCAAATCTGCTAT-T-TTCGATCTACTCTCTGACAATACAGAGACG
* * **
28500985 CCAAATTTGCTATCTTCGATCTGTTCTCTGACAATACAGAGACG
1 CCAAATCTGCTATTTTCGATCTACTCTCTGACAATACAGAGACG
28501029 CCAAATC
1 CCAAATC
28501036 ATCTTAGATC
Statistics
Matches: 243, Mismatches: 44, Indels: 52
0.72 0.13 0.15
Matches are distributed among these distances:
38 4 0.02
39 10 0.04
40 32 0.13
41 16 0.07
42 2 0.01
43 2 0.01
44 107 0.44
45 4 0.02
46 28 0.12
47 24 0.10
48 10 0.04
49 4 0.02
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (44 bp):
CCAAATCTGCTATTTTCGATCTACTCTCTGACAATACAGAGACG
Found at i:28500852 original size:131 final size:131
Alignment explanation
Indices: 28500700--28501097 Score: 706
Period size: 131 Copynumber: 3.0 Consensus size: 131
28500690 ATTTTTTATC
* * * *
28500700 TGCTCTCTGCCAATACAGAGATGCCAAATCTGCTATTTTCGATCTACTCTCTGACAATACAGAGA
1 TGCTCTCTGACAATACAGAGATGCCAAATTTGCTATCTTCGATCTGCTCTCTGACAATACAGAGA
28500765 CGCCAAATCATCTTAGATCTGCTTCAACGTAAACACGTGAAAGCCAAATCTGCTATGTCTTCAAT
66 CGCCAAATCATCTTAGATCTGCTTCAACGTAAACACGTGAAAGCCAAATCTGCTATGTCTTCAAT
28500830 T
131 T
28500831 TGCTCTCTGACAATACAGAGATGCCAAATTTGCTATCTTCGATCTGCTCTCTGACAATACAGAGA
1 TGCTCTCTGACAATACAGAGATGCCAAATTTGCTATCTTCGATCTGCTCTCTGACAATACAGAGA
28500896 CGCCAAATCATCTTAGATCTGCTTCAACGTAAACACGTGAAAGCCAAATCTGCTATGTCTTCAAT
66 CGCCAAATCATCTTAGATCTGCTTCAACGTAAACACGTGAAAGCCAAATCTGCTATGTCTTCAAT
28500961 T
131 T
* * *
28500962 TGCTCTCTAATAATACAGAGATGCCAAATTTGCTATCTTCGATCTGTTCTCTGACAATACAGAGA
1 TGCTCTCTGACAATACAGAGATGCCAAATTTGCTATCTTCGATCTGCTCTCTGACAATACAGAGA
* *
28501027 CGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGTGAAAGCCAAATCTGCTATGTCTTCGAT
66 CGCCAAATCATCTTAGATCTGCTTCAACGTAAACACGTGAAAGCCAAATCTGCTATGTCTTCAAT
*
28501092 C
131 T
28501093 TGCTC
1 TGCTC
28501098 CTTGTAAACG
Statistics
Matches: 257, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
131 257 1.00
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.29
Consensus pattern (131 bp):
TGCTCTCTGACAATACAGAGATGCCAAATTTGCTATCTTCGATCTGCTCTCTGACAATACAGAGA
CGCCAAATCATCTTAGATCTGCTTCAACGTAAACACGTGAAAGCCAAATCTGCTATGTCTTCAAT
T
Found at i:28501182 original size:89 final size:87
Alignment explanation
Indices: 28501025--28501186 Score: 218
Period size: 89 Copynumber: 1.8 Consensus size: 87
28501015 ACAATACAGA
* * *
28501025 GACGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGTGAAAGCCAAATCTGCTATGTCTTCG
1 GACGCCAAATCATCTTAGATCTACTTCAACGGAAACACGTGAAAGCCAAATCTGCTATGTCTTCG
28501090 ATCTGCTCCTTGTAAACGTAAG
66 ATCTGCTCCTTGTAAACGTAAG
* ** *
28501112 GACGCCAAATCATCTTAGATCTACTTCGATATGGAAACATC-TGAAAGTTAGATCTGCTATGTCT
1 GACGCCAAATCATCTTAGATCTACTTC-A-ACGGAAACA-CGTGAAAGCCAAATCTGCTATGTCT
*
28501176 TTGATCTGCTC
63 TCGATCTGCTC
28501187 TCTGTCGAAT
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
87 26 0.41
88 1 0.02
89 36 0.56
90 1 0.02
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.30
Consensus pattern (87 bp):
GACGCCAAATCATCTTAGATCTACTTCAACGGAAACACGTGAAAGCCAAATCTGCTATGTCTTCG
ATCTGCTCCTTGTAAACGTAAG
Found at i:28507264 original size:40 final size:40
Alignment explanation
Indices: 28507207--28507396 Score: 195
Period size: 40 Copynumber: 4.8 Consensus size: 40
28507197 ATTGAATGAT
* * *
28507207 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAATTAC
* * *
28507247 ATCCGGGTTAAGACCCGAAGGCCA-TTGTGCTAGTGACTAC
1 ATCCGGGCTAAGACCCGAAGG-CATTTGTGCTAGTAATTAC
* * ** *
28507287 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAATTAC
* * **
28507327 ATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT-C
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAATTAC
* *
28507366 TGTCCGGGCTAAGACCCGAAGGCATTCGTGC
1 -ATCCGGGCTAAGACCCGAAGGCATTTGTGC
28507397 ATGTGGTTAT
Statistics
Matches: 127, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
39 2 0.02
40 123 0.97
41 2 0.02
ACGTcount: A:0.25, C:0.25, G:0.26, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAATTAC
Found at i:28507343 original size:80 final size:80
Alignment explanation
Indices: 28507206--28507412 Score: 222
Period size: 80 Copynumber: 2.6 Consensus size: 80
28507196 AATTGAATGA
* * ** * * * *
28507206 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTACATCCGGGTTAAGACCCGAAGGCCA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGG-CA
*
28507271 -TTGTGCTAGT-G-AC
65 TTTGTGCAAGTCGTAC
* *
28507284 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGC
*
28507349 ATTTGTGCAAGTCGTTC
64 ATTTGTGCAAGTCGTAC
* * * *
28507366 TGTCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGG
28507413 TTGTATTCCG
Statistics
Matches: 108, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
78 1 0.01
79 2 0.02
80 102 0.94
81 1 0.01
82 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.25
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGCAT
TTGTGCAAGTCGTAC
Found at i:28515275 original size:40 final size:40
Alignment explanation
Indices: 28515203--28515409 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 40
28515193 CAATTGAATG
* * ** *
28515203 ATATCCGGGCTAAG-TCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
* * * *
28515242 ATATCCGGGTTAAGACCCGAAGGCCATT-GTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGG-CATTCGTGCAAGTAATT
* **
28515282 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
* * * **
28515322 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
* * **
28515362 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
28515402 ATATCCGG
1 ATATCCGG
28515410 TTGTATTCCG
Statistics
Matches: 142, Mismatches: 23, Indels: 5
0.84 0.14 0.03
Matches are distributed among these distances:
39 17 0.12
40 121 0.85
41 4 0.03
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
Found at i:28521270 original size:15 final size:15
Alignment explanation
Indices: 28521250--28521281 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
28521240 TTCCATCCTC
28521250 TTTTCAACCTATAAA
1 TTTTCAACCTATAAA
28521265 TTTTCAACCTATAAA
1 TTTTCAACCTATAAA
28521280 TT
1 TT
28521282 CTTTCTCTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.19, G:0.00, T:0.44
Consensus pattern (15 bp):
TTTTCAACCTATAAA
Found at i:28524143 original size:23 final size:24
Alignment explanation
Indices: 28524100--28524149 Score: 59
Period size: 23 Copynumber: 2.1 Consensus size: 24
28524090 AATAATATTG
*
28524100 AATAAATATAATGAGATACATA-A
1 AATAAATAAAATGAGATACATACA
*
28524123 AATAAATAAAATTATGA-ACATACA
1 AATAAATAAAATGA-GATACATACA
28524147 AAT
1 AAT
28524150 CAAAAATGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 17 0.74
24 6 0.26
ACGTcount: A:0.62, C:0.06, G:0.06, T:0.26
Consensus pattern (24 bp):
AATAAATAAAATGAGATACATACA
Found at i:28525727 original size:19 final size:19
Alignment explanation
Indices: 28525689--28525744 Score: 98
Period size: 19 Copynumber: 3.1 Consensus size: 19
28525679 TTCAAGATTG
28525689 CATATCTAAGATTG--TAT
1 CATATCTAAGATTGCATAT
28525706 CATATCTAAGATTGCATAT
1 CATATCTAAGATTGCATAT
28525725 CATATCTAAGATTGCATAT
1 CATATCTAAGATTGCATAT
28525744 C
1 C
28525745 CTTAAAGATT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
17 14 0.38
19 23 0.62
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (19 bp):
CATATCTAAGATTGCATAT
Found at i:28525744 original size:14 final size:14
Alignment explanation
Indices: 28525682--28525725 Score: 61
Period size: 17 Copynumber: 2.9 Consensus size: 14
28525672 TCATATCTTC
28525682 AAGATTGCATATCT
1 AAGATTGCATATCT
28525696 AAGATTGTATCATATCT
1 AAGATTG---CATATCT
28525713 AAGATTGCATATC
1 AAGATTGCATATC
28525726 ATATCTAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
14 13 0.48
17 14 0.52
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (14 bp):
AAGATTGCATATCT
Found at i:28526111 original size:17 final size:17
Alignment explanation
Indices: 28526089--28526122 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
28526079 TCGATCTGCT
28526089 CTCCGTCAAACACAGAG
1 CTCCGTCAAACACAGAG
28526106 CTCCGTCAAACACAGAG
1 CTCCGTCAAACACAGAG
28526123 ATGCCAAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.35, G:0.18, T:0.12
Consensus pattern (17 bp):
CTCCGTCAAACACAGAG
Found at i:28526305 original size:87 final size:84
Alignment explanation
Indices: 28526165--28526661 Score: 282
Period size: 87 Copynumber: 5.7 Consensus size: 84
28526155 ACAATACAGA
* * ** *
28526165 GATGCCAAATCATCTTAGATCTGCTTCAGTGTAAACACAT-GAAA-GCCAAATCTGCTATGTCTT
1 GATGCCAAATCATCTTGGATCTGCTTCA--GTAAA-ACATCTAAAGGTTAGATCTGCTATGTCTT
28526228 CGATTTGCTCCTTATGAACACAAG
63 CGATTTGCTCCTT-TGAACA-AAG
* *
28526252 GATGCCAAATCATCTTGGATCTGATTCAATAAAATCATCTAAAGGTTAGATCTGCTAT-T-TATC
1 GATGCCAAATCATCTTGGATCTGCTTCAGTAAAA-CATCTAAAGGTTAGATCTGCTATGTCT-TC
* * * * **
28526315 TACTT--TCCGTCGAA-ATGG
64 GATTTGCTCCTTTGAACAAAG
* ** * * * *
28526333 AGATGCCAGATCTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCCGAAA-GTCAAATCTGCTA
1 -GATGCCAAATC----ATCTTGGATCTGC-TT-CAGT-AAAACAT-CTAAAGGTTAGATCTGCTA
* *
28526397 TGTCTTCGATTTGTTCCTTGTAAACATAAG
57 TGTCTTCGATTTGCTCCTT-TGAACA-AAG
* * * *
28526427 AATGCCAAATCATCTTGGATCTGCTTCAGTATAAACATATGAAGGTTAGATCTGCTATGT-ATC-
1 GATGCCAAATCATCTTGGATCTGCTTCAGTA-AAACATCTAAAGGTTAGATCTGCTATGTCTTCG
* * * **
28526490 -TGCT-CTCCGTCGAA-ATGG
65 AT-TTGCTCCTTTGAACAAAG
* * * *
28526508 AGATGCCAGATCTGTTATCTTGGATCTGCTTTGATGTGAAAACATCTAAAAGTCAGATCTGCTAT
1 -GATGCCAAATC----ATCTTGGATCTGC-TTCA-GT-AAAACATCTAAAGGTTAGATCTGCTAT
*
28526573 GTCTTCGATTTGCTCCTTGTAAACACAAG
58 GTCTTCGATTTGCTCCTT-TGAACA-AAG
* *
28526602 AATGCCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGT
1 GATGCCAAATCATCTTGGATCTGCTTCAGTA-AAACATCTAAAGGTTAGATCTGCTATGT
28526662 GTCTGCTCTC
Statistics
Matches: 304, Mismatches: 67, Indels: 78
0.68 0.15 0.17
Matches are distributed among these distances:
81 2 0.01
82 21 0.07
83 5 0.02
84 10 0.03
85 9 0.03
86 40 0.13
87 90 0.30
88 47 0.15
89 42 0.14
90 2 0.01
91 10 0.03
92 4 0.01
93 20 0.07
94 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.33
Consensus pattern (84 bp):
GATGCCAAATCATCTTGGATCTGCTTCAGTAAAACATCTAAAGGTTAGATCTGCTATGTCTTCGA
TTTGCTCCTTTGAACAAAG
Found at i:28526502 original size:175 final size:175
Alignment explanation
Indices: 28526205--28526698 Score: 783
Period size: 175 Copynumber: 2.8 Consensus size: 175
28526195 GTAAACACAT
* * * *
28526205 GAAAGCCAAATCTGCTATGTCTTCGATTTGCTCCTTATGAACACAAGGATGCCAAATCATCTTGG
1 GAAAGTCAAATCTGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGAATGCCAAATCATCTTGG
* * * * * *
28526270 ATCTGATTCAATA-AAATCATCTAAAGGTTAGATCTGCTATTTATCTACTTTCCGTCGAAATGGA
66 ATCTGCTTCAGTATAAA-CATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGA
* *
28526334 GATGCCAGATCTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCC
130 GATGCCAGATCTGTTATCTTGGATCTGCTTTGATGTGAAAACATCC
* *
28526380 GAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACATAAGAATGCCAAATCATCTTGG
1 GAAAGTCAAATCTGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGAATGCCAAATCATCTTGG
*
28526445 ATCTGCTTCAGTATAAACATATGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAG
66 ATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAG
*
28526510 ATGCCAGATCTGTTATCTTGGATCTGCTTTGATGTGAAAACATCT
131 ATGCCAGATCTGTTATCTTGGATCTGCTTTGATGTGAAAACATCC
* *
28526555 AAAAGTCAGATCTGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGAATGCCAAATCATCTTGG
1 GAAAGTCAAATCTGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGAATGCCAAATCATCTTGG
*
28526620 ATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGA
66 ATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAA-ATGGA
*
28526685 GACGCCAGATCTGT
130 GATGCCAGATCTGT
28526699 AATTTTAGCC
Statistics
Matches: 294, Mismatches: 23, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
175 273 0.93
176 21 0.07
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (175 bp):
GAAAGTCAAATCTGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGAATGCCAAATCATCTTGG
ATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAG
ATGCCAGATCTGTTATCTTGGATCTGCTTTGATGTGAAAACATCC
Found at i:28526571 original size:88 final size:87
Alignment explanation
Indices: 28526282--28526574 Score: 237
Period size: 88 Copynumber: 3.3 Consensus size: 87
28526272 CTGATTCAAT
* * * *
28526282 AAAATCATCTAAAGGTTAGATCTGCTATTTATCTACTTTCCGTCGAAATGGAGATGCCAGATCTG
1 AAAA-CATCTAAAAGTCAGATCTGCTATGTATCTGC-TTCCGTCGAAATGGAGATGCCAGATCTG
*
28526347 TTATCTTGGATCTGCTTTGGTGTG
64 TTATCTTGGATCTGCTTTGATGTG
* ** * * * *
28526371 AGAACATCCGAAAGTCAAATCTGCTATGTCTTCGATTTG-TTCCTTGT-AAACAT-AAGAATGCC
1 AAAACATCTAAAAGTCAGATCTGCTATG---T--ATCTGCTTCC--GTCGAA-ATGGAG-ATGCC
* *
28526433 AAATC----ATCTTGGATCTGC-TTCA-GT-
57 AGATCTGTTATCTTGGATCTGCTTTGATGTG
* * * *
28526457 ATAAACATATGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGATGCCAGATCTG
1 A-AAACATCTAAAAGTCAGATCTGCTATGTATCTGCT-TCCGTCGAAATGGAGATGCCAGATCTG
28526522 TTATCTTGGATCTGCTTTGATGTG
64 TTATCTTGGATCTGCTTTGATGTG
28526546 AAAACATCTAAAAGTCAGATCTGCTATGT
1 AAAACATCTAAAAGTCAGATCTGCTATGT
28526575 CTTCGATTTG
Statistics
Matches: 154, Mismatches: 29, Indels: 43
0.68 0.13 0.19
Matches are distributed among these distances:
82 17 0.11
83 5 0.03
84 4 0.03
86 14 0.09
87 26 0.17
88 46 0.30
89 17 0.11
91 5 0.03
92 4 0.03
93 16 0.10
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (87 bp):
AAAACATCTAAAAGTCAGATCTGCTATGTATCTGCTTCCGTCGAAATGGAGATGCCAGATCTGTT
ATCTTGGATCTGCTTTGATGTG
Found at i:28527770 original size:7 final size:7
Alignment explanation
Indices: 28527758--28527817 Score: 79
Period size: 7 Copynumber: 8.4 Consensus size: 7
28527748 GGCCTCTCCA
28527758 TTTTTCT
1 TTTTTCT
28527765 TTTTTCTT
1 TTTTTC-T
28527773 TTTTCTCT
1 TTTT-TCT
28527781 TTTTTCT
1 TTTTTCT
28527788 TTTTT-T
1 TTTTTCT
28527794 TCTTTTCT
1 T-TTTTCT
28527802 TTTTTCT
1 TTTTTCT
28527809 TTTTT-T
1 TTTTTCT
28527815 TTT
1 TTT
28527818 GAAATAGAAG
Statistics
Matches: 49, Mismatches: 0, Indels: 9
0.84 0.00 0.16
Matches are distributed among these distances:
6 6 0.12
7 29 0.59
8 12 0.24
9 2 0.04
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (7 bp):
TTTTTCT
Found at i:28527781 original size:9 final size:9
Alignment explanation
Indices: 28527764--28527813 Score: 57
Period size: 9 Copynumber: 5.6 Consensus size: 9
28527754 TCCATTTTTC
28527764 TTTTT-TCT
1 TTTTTCTCT
28527772 TTTTTCTCT
1 TTTTTCTCT
*
28527781 TTTTTCTTT
1 TTTTTCTCT
*
28527790 TTTTTCTTT
1 TTTTTCTCT
*
28527799 TCTTTTTTCT
1 T-TTTTCTCT
28527809 TTTTT
1 TTTTT
28527814 TTTTGAAATA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
8 5 0.14
9 25 0.68
10 7 0.19
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (9 bp):
TTTTTCTCT
Found at i:28527788 original size:23 final size:21
Alignment explanation
Indices: 28527758--28527817 Score: 93
Period size: 21 Copynumber: 2.8 Consensus size: 21
28527748 GGCCTCTCCA
28527758 TTTTTCTTTTTTCTTTTTTCTCT
1 TTTTTCTTTTTT-TTTTTT-TCT
*
28527781 TTTTTCTTTTTTTTCTTTTCT
1 TTTTTCTTTTTTTTTTTTTCT
28527802 TTTTTCTTTTTTTTTT
1 TTTTTCTTTTTTTTTT
28527818 GAAATAGAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
21 18 0.51
22 5 0.14
23 12 0.34
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (21 bp):
TTTTTCTTTTTTTTTTTTTCT
Found at i:28527815 original size:16 final size:16
Alignment explanation
Indices: 28527758--28527817 Score: 79
Period size: 16 Copynumber: 3.8 Consensus size: 16
28527748 GGCCTCTCCA
28527758 TTTTTCTTTTTTCTTT
1 TTTTTCTTTTTTCTTT
*
28527774 TTTCTCTTTTTTCTTT
1 TTTTTCTTTTTTCTTT
28527790 TTTTTCTTTTCTT-TTT
1 TTTTTCTTTT-TTCTTT
28527806 TCTTTT-TTTTTT
1 T-TTTTCTTTTTT
28527818 GAAATAGAAG
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
15 2 0.05
16 32 0.80
17 6 0.15
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (16 bp):
TTTTTCTTTTTTCTTT
Found at i:28530595 original size:30 final size:30
Alignment explanation
Indices: 28530561--28530620 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
28530551 TCCTTAACTC
28530561 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
28530591 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
28530621 TGGCTCGGGA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:28537034 original size:17 final size:17
Alignment explanation
Indices: 28537012--28537045 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
28537002 GATATGATAC
28537012 TAAAAT-TATTAAAAAAA
1 TAAAATATA-TAAAAAAA
28537029 TAAAATATATAAAAAAA
1 TAAAATATATAAAAAAA
28537046 AAATCAGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 14 0.88
18 2 0.12
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (17 bp):
TAAAATATATAAAAAAA
Found at i:28537045 original size:18 final size:17
Alignment explanation
Indices: 28537012--28537046 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
28537002 GATATGATAC
*
28537012 TAAAATTATTAAAAAAA
1 TAAAATTATAAAAAAAA
28537029 TAAAATATATAAAAAAAA
1 TAAAAT-TATAAAAAAAA
28537047 AATCAGGGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (17 bp):
TAAAATTATAAAAAAAA
Done.