Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr6
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: 56482370
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1659275 characters in sequence are not A, C, G, or T
File 145 of 172
Found at i:47618936 original size:19 final size:20
Alignment explanation
Indices: 47618896--47618939 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
47618886 GTCTCTTTAG
* *
47618896 GCATT-CATTTCATGCATCT
1 GCATTACATTGCATGCATAT
47618915 GCATTACATTGCAT-CATAT
1 GCATTACATTGCATGCATAT
47618934 GCATTA
1 GCATTA
47618940 GATTTTCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.27, C:0.23, G:0.11, T:0.39
Consensus pattern (20 bp):
GCATTACATTGCATGCATAT
Found at i:47621534 original size:7 final size:8
Alignment explanation
Indices: 47621513--47621542 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
47621503 TCTCATGAAT
47621513 TCAAAAAA
1 TCAAAAAA
47621521 TCAAAAAA
1 TCAAAAAA
47621529 TCAAAAAAA
1 TC-AAAAAA
47621538 TCAAA
1 TCAAA
47621543 GTCAAAATAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.73, C:0.13, G:0.00, T:0.13
Consensus pattern (8 bp):
TCAAAAAA
Found at i:47623744 original size:43 final size:43
Alignment explanation
Indices: 47623695--47624004 Score: 158
Period size: 44 Copynumber: 7.2 Consensus size: 43
47623685 AAAACAAGCA
*
47623695 TTGCCTTCATTGGTTACAGTGGAGCTGGTTAAAGAAGCAGATC
1 TTGCCTTCATTGGTTACAGTGGAGCTGGTTGAAGAAGCAGATC
* * * * * *
47623738 TTGCCTTC-CTGCGTTAACAGCGAAG-TAGATCGAA-AA-CA-AGCC
1 TTGCCTTCATTG-GTT-ACAGTGGAGCT-GGTTGAAGAAGCAGA-TC
* * *
47623780 TTGCCTTCATTGGTTGCAGTGGAGCTGGTTAAAGAAGTAGATC
1 TTGCCTTCATTGGTTACAGTGGAGCTGGTTGAAGAAGCAGATC
* * * * * * *
47623823 TTGCCTTC-CTGCGTTAACAGCGAAGCAGATCGAA-AA-CA-AGC
1 TTGCCTTCATTG-GTT-ACAGTGGAGCTGGTTGAAGAAGCAGATC
47623864 TTTGCCTTCATTGGTTACAGTGGAGCTGGTTGAAGATAGCAGATC
1 -TTGCCTTCATTGGTTACAGTGGAGCTGGTTGAAGA-AGCAGATC
* * * * * * * * *
47623909 TTGCCTTC-CTGCATTAACAGCGAAG-TAGATCGAA-AAACAAAGCC
1 TTGCCTTCATTG-GTT-ACAGTGGAGCT-GGTTGAAGAAGCAGA-TC
* * *
47623953 TTGCCTCCATCGGTTGCAGTGGAGCTGGTTGAAGATAGCAGATC
1 TTGCCTTCATTGGTTACAGTGGAGCTGGTTGAAGA-AGCAGATC
47623997 TTGCCTTC
1 TTGCCTTC
47624005 CTACGTTAAC
Statistics
Matches: 187, Mismatches: 55, Indels: 49
0.64 0.19 0.17
Matches are distributed among these distances:
41 26 0.14
42 34 0.18
43 51 0.27
44 57 0.30
45 19 0.10
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.27
Consensus pattern (43 bp):
TTGCCTTCATTGGTTACAGTGGAGCTGGTTGAAGAAGCAGATC
Found at i:47623788 original size:85 final size:86
Alignment explanation
Indices: 47623640--47624045 Score: 636
Period size: 85 Copynumber: 4.7 Consensus size: 86
47623630 CAGATCAGTG
* * *
47623640 AAGACAGCAGATCTTGCCTTCCTGCGTTAACAGTGAAGCAGATCGAAAACAAGCATTGCCTTCAT
1 AAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAGCCTTGCCTTCAT
47623705 TGGTTACAGTGGAGCTGGTTA
66 TGGTTACAGTGGAGCTGGTTA
*
47623726 AAGA-AGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGTAGATCGAAAACAAGCCTTGCCTTCAT
1 AAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAGCCTTGCCTTCAT
*
47623790 TGGTTGCAGTGGAGCTGGTTA
66 TGGTTACAGTGGAGCTGGTTA
* *
47623811 AAGA-AGTAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAGCTTTGCCTTCAT
1 AAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAGCCTTGCCTTCAT
*
47623875 TGGTTACAGTGGAGCTGGTTG
66 TGGTTACAGTGGAGCTGGTTA
* * *
47623896 AAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGTAGATCGAAAAACAAAGCCTTGCCTCC
1 AAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCG-AAAAC-AAGCCTTGCCTTC
* * *
47623961 ATCGGTTGCAGTGGAGCTGGTTG
64 ATTGGTTACAGTGGAGCTGGTTA
*
47623984 AAGATAGCAGATCTTGCCTTCCTACGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCT
1 AAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAAC-AAGCCTTGCCT
47624046 CTCTCGGGTG
Statistics
Matches: 298, Mismatches: 19, Indels: 5
0.93 0.06 0.02
Matches are distributed among these distances:
85 161 0.54
86 41 0.14
87 22 0.07
88 74 0.25
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (86 bp):
AAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAGCCTTGCCTTCAT
TGGTTACAGTGGAGCTGGTTA
Found at i:47624001 original size:88 final size:86
Alignment explanation
Indices: 47623638--47624171 Score: 635
Period size: 85 Copynumber: 6.2 Consensus size: 86
47623628 AACAGATCAG
* * * *
47623638 TGAAGACAGCAGATCTTGCCTTCCTGCGTTAACAGTGAAGCAGATCGAAAACAAGCATTGCCTTC
1 TGAAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAGCCTTGCCTCC
* *
47623703 ATTGGTTACAGTGGAGCTGGT
66 ATCGGTTGCAGTGGAGCTGGT
* * *
47623724 TAAAGA-AGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGTAGATCGAAAACAAGCCTTGCCTTC
1 TGAAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAGCCTTGCCTCC
*
47623788 ATTGGTTGCAGTGGAGCTGGT
66 ATCGGTTGCAGTGGAGCTGGT
* * * *
47623809 TAAAGA-AGTAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAGCTTTGCCTTC
1 TGAAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAGCCTTGCCTCC
* *
47623873 ATTGGTTACAGTGGAGCTGGT
66 ATCGGTTGCAGTGGAGCTGGT
* *
47623894 TGAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGTAGATCGAAAAACAAAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCG-AAAAC-AAGCCTTGCCT
47623959 CCATCGGTTGCAGTGGAGCTGGT
64 CCATCGGTTGCAGTGGAGCTGGT
*
47623982 TGAAGATAGCAGATCTTGCCTTCCTACGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTC
1 TGAAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAAC-AAGCCTTGCCTC
* * ** *
47624047 TC-TCGGGTGTAGAAGAGTTGGT
65 -CATCGGTTGCAGTGGAGCTGGT
* * * * ** * * * * * * *
47624069 TGAAGACAACTGATTTTATCTTCCTGCGTTGACAGTGAAGCGGGTCGAAGACAAACCTTACCTCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAGCCTTGCCTC-
*
47624134 C-TCGGTTGTAGTGGAGCTGGT
65 CATCGGTTGCAGTGGAGCTGGT
*
47624155 TGAAGAATTGCAGATCT
1 TGAAG-ATAGCAGATCT
47624172 GATCTCCCTG
Statistics
Matches: 395, Mismatches: 48, Indels: 9
0.87 0.11 0.02
Matches are distributed among these distances:
85 161 0.41
86 75 0.19
87 84 0.21
88 75 0.19
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (86 bp):
TGAAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAGCCTTGCCTCC
ATCGGTTGCAGTGGAGCTGGT
Found at i:47624264 original size:44 final size:44
Alignment explanation
Indices: 47624167--47624275 Score: 103
Period size: 44 Copynumber: 2.5 Consensus size: 44
47624157 AAGAATTGCA
* * * *
47624167 GATCTGATCTCCCTGAGATTACAGAAGAGCAGATCAAAGATAGT
1 GATCTTATCTCCCTGAGATTACAGAAGAGCAGATAAAACAAAGT
* * ** *
47624211 AATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAACAAAG-
1 GATCTTATCTCCCTGAGATTACAGAAGAGCAGA-TAAAACAAAGT
* *
47624255 GATCTTATCTCTCTGAAATTA
1 GATCTTATCTCCCTGAGATTA
47624276 TAGTAGAGTA
Statistics
Matches: 51, Mismatches: 13, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
44 44 0.86
45 7 0.14
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (44 bp):
GATCTTATCTCCCTGAGATTACAGAAGAGCAGATAAAACAAAGT
Found at i:47627032 original size:61 final size:57
Alignment explanation
Indices: 47626919--47627040 Score: 131
Period size: 61 Copynumber: 2.1 Consensus size: 57
47626909 NNNNNNNNNN
** *
47626919 ATATATATATATGTATCTATATATATACTTTTTATATTTTATGATAGTTACATACGT
1 ATATATATATATGTATCTATATATATACTTTTTATATTTTAAAATAGTTACATACAT
* *
47626976 ATATATGTATATGTTTACTTATATATATA-TTTTATAATGATTTTAAAATA-TGTACATACAT
1 ATATATATATATGTAT-C-TATATATATACTTTT-T-AT-ATTTTAAAATAGT-TACATACAT
47627037 ATAT
1 ATAT
47627041 TTTTTATATT
Statistics
Matches: 54, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
57 14 0.26
58 5 0.09
59 11 0.20
60 3 0.06
61 21 0.39
ACGTcount: A:0.38, C:0.06, G:0.07, T:0.50
Consensus pattern (57 bp):
ATATATATATATGTATCTATATATATACTTTTTATATTTTAAAATAGTTACATACAT
Found at i:47630677 original size:63 final size:64
Alignment explanation
Indices: 47630610--47630748 Score: 255
Period size: 63 Copynumber: 2.2 Consensus size: 64
47630600 ATTTTTTAAT
47630610 TCTGATATTTTTATATTTTTTTTATTTTTTGAAATTATCATTAATAAAATTTTAAAATATC-AA
1 TCTGATATTTTTATATTTTTTTTATTTTTTGAAATTATCATTAATAAAATTTTAAAATATCAAA
47630673 TCTGATATTTTTATATTTTTTTTATTTTTTGAAATTATCATTAATAAAATTTTAAAATATCAAA
1 TCTGATATTTTTATATTTTTTTTATTTTTTGAAATTATCATTAATAAAATTTTAAAATATCAAA
*
47630737 T-TAATATTTTTA
1 TCTGATATTTTTA
47630749 ACTATAATTC
Statistics
Matches: 74, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
63 71 0.96
64 3 0.04
ACGTcount: A:0.37, C:0.04, G:0.03, T:0.56
Consensus pattern (64 bp):
TCTGATATTTTTATATTTTTTTTATTTTTTGAAATTATCATTAATAAAATTTTAAAATATCAAA
Found at i:47631426 original size:27 final size:27
Alignment explanation
Indices: 47631340--47631413 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
47631330 TAGAATATTT
* * * *
47631340 TTTTAAAATTCTTATAATTCTTTTAAAAA
1 TTTT-AAATT-TTAAAATTTTTATAAATA
* *
47631369 TTATAAATTTTAGAATTTTTATAAATA
1 TTTTAAATTTTAAAATTTTTATAAATA
47631396 TTTTAAATTTTAAAATTT
1 TTTTAAATTTTAAAATTT
47631414 ATTTTGAATT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
27 30 0.79
28 5 0.13
29 3 0.08
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.54
Consensus pattern (27 bp):
TTTTAAATTTTAAAATTTTTATAAATA
Found at i:47631782 original size:26 final size:25
Alignment explanation
Indices: 47631733--47631783 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
47631723 CTAACATTTC
**
47631733 TTTAAAATAATAAAAATATCATAAA
1 TTTAAAATAATAAAAATAAAATAAA
*
47631758 TTTAAAATTTATAAAAATAAAATAAA
1 TTTAAAA-TAATAAAAATAAAATAAA
47631784 AATAAAACCC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 7 0.32
26 15 0.68
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (25 bp):
TTTAAAATAATAAAAATAAAATAAA
Found at i:47632865 original size:18 final size:17
Alignment explanation
Indices: 47632831--47632864 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
47632821 TTTCTTCTTC
47632831 CCCTCTTCTCTCTCTCT
1 CCCTCTTCTCTCTCTCT
47632848 CCCTCTT-TCTCTCTCT
1 CCCTCTTCTCTCTCTCT
47632864 C
1 C
47632865 TGCATTCGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (17 bp):
CCCTCTTCTCTCTCTCT
Found at i:47635242 original size:24 final size:24
Alignment explanation
Indices: 47635210--47635257 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
47635200 ATGTAATAAG
47635210 CCTCAATTCAAATGATTACATTTA
1 CCTCAATTCAAATGATTACATTTA
47635234 CCTCAATTCAAATGATTACATTTA
1 CCTCAATTCAAATGATTACATTTA
47635258 TGGTTTCATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.21, G:0.04, T:0.38
Consensus pattern (24 bp):
CCTCAATTCAAATGATTACATTTA
Found at i:47651275 original size:23 final size:23
Alignment explanation
Indices: 47651249--47651295 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
47651239 CTCATAAGAC
47651249 TTATCTTTTTCTCCTTTACTAAT
1 TTATCTTTTTCTCCTTTACTAAT
47651272 TTATCTTTTTCTCCTTTACTAAT
1 TTATCTTTTTCTCCTTTACTAAT
47651295 T
1 T
47651296 GCGAATGTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.17, C:0.21, G:0.00, T:0.62
Consensus pattern (23 bp):
TTATCTTTTTCTCCTTTACTAAT
Found at i:47651645 original size:18 final size:18
Alignment explanation
Indices: 47651622--47651659 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
47651612 TGGACAAATA
47651622 CAAGGCTATTTTCTAAGC
1 CAAGGCTATTTTCTAAGC
47651640 CAAGGCTATTTTCTAAGC
1 CAAGGCTATTTTCTAAGC
47651658 CA
1 CA
47651660 TTTTGTCACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.32
Consensus pattern (18 bp):
CAAGGCTATTTTCTAAGC
Found at i:47657730 original size:50 final size:50
Alignment explanation
Indices: 47657553--47657707 Score: 303
Period size: 50 Copynumber: 3.1 Consensus size: 50
47657543 TTACATGACT
47657553 AATACTACCTTAATAACAAGCCAATGCCTTTGGCTAAATCATAATATTAC
1 AATACTACCTTAATAACAAGCCAATGCCTTTGGCTAAATCATAATATTAC
47657603 AATACTACCTTAATAACAAGCCAATGCCTTTGGCTAAATCATAATATTAC
1 AATACTACCTTAATAACAAGCCAATGCCTTTGGCTAAATCATAATATTAC
47657653 AATACTACCTTAATAACAAGCCAATGCCTTTGGCTAAATCATAATATTAC
1 AATACTACCTTAATAACAAGCCAATGCCTTTGGCTAAATCATAATATTAC
47657703 -ATACT
1 AATACT
47657708 CACATTAAAA
Statistics
Matches: 105, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
49 5 0.05
50 100 0.95
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.30
Consensus pattern (50 bp):
AATACTACCTTAATAACAAGCCAATGCCTTTGGCTAAATCATAATATTAC
Found at i:47662459 original size:46 final size:46
Alignment explanation
Indices: 47662364--47662580 Score: 226
Period size: 46 Copynumber: 4.7 Consensus size: 46
47662354 CCGTGCTGAC
* *
47662364 GCATGTCCCAGACATGTCTTACACTAG--CACATCTCGTA-GCCGAC
1 GCATGTCCCAGACATGTCTTACACTGGCTCACATCTCG-AGGCCGAT
* *
47662408 GCATGTCCCAGACATGTCTGACACTGGCTAACATCTCGAGGCCGAT
1 GCATGTCCCAGACATGTCTTACACTGGCTCACATCTCGAGGCCGAT
* * *
47662454 GCATGTCCCAGACATGTCTTACACTGGCTCTCATACT-GTGGCTGAT
1 GCATGTCCCAGACATGTCTTACACTGGCTCACAT-CTCGAGGCCGAT
* * * * * * * *
47662500 GCATGTCCTAGACATGTCTTACACTAGCCCTCTTCTCAATGTCGAT
1 GCATGTCCCAGACATGTCTTACACTGGCTCACATCTCGAGGCCGAT
*
47662546 GCCATGTCCCAGACATGGTCTTACACTGGCACACA
1 G-CATGTCCCAGACAT-GTCTTACACTGGCTCACA
47662581 AATCTCATGT
Statistics
Matches: 143, Mismatches: 23, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
44 25 0.17
45 3 0.02
46 86 0.60
47 15 0.10
48 14 0.10
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.26
Consensus pattern (46 bp):
GCATGTCCCAGACATGTCTTACACTGGCTCACATCTCGAGGCCGAT
Found at i:47667594 original size:21 final size:21
Alignment explanation
Indices: 47667568--47667621 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
47667558 AAATAATAAT
47667568 TAAAGAAAGAAAATAAAGA-AA
1 TAAAGAAAGAAAATAAA-ACAA
*
47667589 TAAAGAATGAAAATAAAACAA
1 TAAAGAAAGAAAATAAAACAA
*
47667610 -AAATAAAGAAAA
1 TAAAGAAAGAAAA
47667622 AGTTAAGGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
20 11 0.38
21 18 0.62
ACGTcount: A:0.76, C:0.02, G:0.11, T:0.11
Consensus pattern (21 bp):
TAAAGAAAGAAAATAAAACAA
Found at i:47673109 original size:25 final size:24
Alignment explanation
Indices: 47673064--47673159 Score: 86
Period size: 25 Copynumber: 3.9 Consensus size: 24
47673054 CAAACATGTA
* *
47673064 AACGGGAAGCTC-TTCTTAGCCATAT
1 AACGGGAAGCTCATAC-GAGCCAT-T
47673089 AACGGGAAGCTCATACGAGCCATGT
1 AACGGGAAGCTCATACGAGCCAT-T
* ** *
47673114 AACGGGAAACTCCGAAGAGCCATT
1 AACGGGAAGCTCATACGAGCCATT
* *
47673138 AATGGGAAGATCATACGAGCCA
1 AACGGGAAGCTCATACGAGCCA
47673160 ATATCTTGAA
Statistics
Matches: 57, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
24 17 0.30
25 38 0.67
26 2 0.04
ACGTcount: A:0.34, C:0.23, G:0.25, T:0.18
Consensus pattern (24 bp):
AACGGGAAGCTCATACGAGCCATT
Found at i:47677548 original size:51 final size:51
Alignment explanation
Indices: 47677477--47677598 Score: 226
Period size: 51 Copynumber: 2.4 Consensus size: 51
47677467 CTGATCACAT
47677477 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
47677528 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
* *
47677579 TTGTCACTTGTCACTTATCA
1 TTATCACTTGTCACTGATCA
47677599 CTGATCACAT
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
51 69 1.00
ACGTcount: A:0.30, C:0.24, G:0.13, T:0.34
Consensus pattern (51 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
Found at i:47677580 original size:58 final size:58
Alignment explanation
Indices: 47677518--47677649 Score: 192
Period size: 58 Copynumber: 2.3 Consensus size: 58
47677508 CTAAAGCTAC
* * *
47677518 CACTTATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
1 CACTTGTCACTTATCACTTATCACTGATCACATAAGTGTAGCTAAAGCTACCACTTAT
* * * *
47677576 CACTTGTCACTTGTCACTTATCACTGATCACATAAGTGTAGCTGAGGCTACTACTTAT
1 CACTTGTCACTTATCACTTATCACTGATCACATAAGTGTAGCTAAAGCTACCACTTAT
*
47677634 CACTTGTCACTGATCA
1 CACTTGTCACTTATCA
47677650 GAAGTACTCA
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
58 65 1.00
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (58 bp):
CACTTGTCACTTATCACTTATCACTGATCACATAAGTGTAGCTAAAGCTACCACTTAT
Found at i:47677637 original size:51 final size:51
Alignment explanation
Indices: 47677480--47677649 Score: 196
Period size: 51 Copynumber: 3.2 Consensus size: 51
47677470 ATCACATTTA
* * *
47677480 TCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTA
1 TCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACTACTTATCACTTG
* *
47677531 TCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCACTTG
1 TCACTTATCACTGATCAGATAAGTGTAGCTAAAGCT---AC---T-ACTTATCACTTG
* * *
47677589 TCACTTATCACTGATCACATAAGTGTAGCTGAGGCTACTACTTATCACTTG
1 TCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACTACTTATCACTTG
*
47677640 TCACTGATCA
1 TCACTTATCA
47677650 GAAGTACTCA
Statistics
Matches: 103, Mismatches: 9, Indels: 14
0.82 0.07 0.11
Matches are distributed among these distances:
51 56 0.54
52 1 0.01
54 2 0.02
55 2 0.02
58 42 0.41
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (51 bp):
TCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACTACTTATCACTTG
Found at i:47684258 original size:58 final size:58
Alignment explanation
Indices: 47684163--47684276 Score: 183
Period size: 58 Copynumber: 2.0 Consensus size: 58
47684153 ATCACATTTA
* *
47684163 TCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCACTTG
1 TCACTTATCACTGATCACATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCACTTG
* * *
47684221 TCACTTATCACTGATCACATAAGTGTAGCTGAGGCTACTACTTATCACTTGTCACT
1 TCACTTATCACTGATCACATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCACT
47684277 GATCAGAAGT
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
58 51 1.00
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (58 bp):
TCACTTATCACTGATCACATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCACTTG
Found at i:47689823 original size:19 final size:20
Alignment explanation
Indices: 47689796--47689836 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
47689786 TTGCATTCTG
* *
47689796 TTCATTCATTTGCATTACAT
1 TTCATTCATATGCATTAAAT
47689816 TTCA-TCATATGCATTAAAT
1 TTCATTCATATGCATTAAAT
47689835 TT
1 TT
47689837 TGCAAAAAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.29, C:0.17, G:0.05, T:0.49
Consensus pattern (20 bp):
TTCATTCATATGCATTAAAT
Found at i:47697975 original size:44 final size:45
Alignment explanation
Indices: 47697927--47698199 Score: 124
Period size: 44 Copynumber: 6.2 Consensus size: 45
47697917 AATTCACAAC
47697927 CTTATCTCT-CTGAGGTAGCAAGAGAGCAGATTGAAGATTGAAGT
1 CTTATCTCTCCTGAGGTAGCAAGAGAGCAGATTGAAGATTGAAGT
* * * * *
47697971 CTTATCT-TCCTAAGGTAGCGAG-GAAGCATACTGAGGATTGAAGAT
1 CTTATCTCTCCTGAGGTAGCAAGAG-AGCAGATTGAAGATTGAAG-T
* * * * * * *
47698016 CTTA-CTC-CTTAAGCAGTAG--TG-GAGTAGATCGAAGATGGCGAA-A
1 CTTATCTCTCCTGAG--GTAGCAAGAGAGCAGATTGAAGAT--TGAAGT
* * * ** ***** *
47698059 CTTATCT-TCCTAAGGTAGCAGGAGAGTAGATTTTAGCCACCAGC
1 CTTATCTCTCCTGAGGTAGCAAGAGAGCAGATTGAAGATTGAAGT
* * *
47698103 CTTATCTCT-CTGAGGTAGCAAGAAAGCAGGTTGAAGATTGAATT
1 CTTATCTCTCCTGAGGTAGCAAGAGAGCAGATTGAAGATTGAAGT
*
47698147 CTTATCT-TCCTGAGGTAGCAAG-GAAGCAGACTG-AGAATTGAAGAT
1 CTTATCTCTCCTGAGGTAGCAAGAG-AGCAGATTGAAG-ATTGAAG-T
47698192 CTTATCTC
1 CTTATCTC
47698200 CCTAAGCAGT
Statistics
Matches: 166, Mismatches: 43, Indels: 38
0.67 0.17 0.15
Matches are distributed among these distances:
42 4 0.02
43 19 0.11
44 112 0.67
45 27 0.16
46 4 0.02
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (45 bp):
CTTATCTCTCCTGAGGTAGCAAGAGAGCAGATTGAAGATTGAAGT
Found at i:47698288 original size:88 final size:88
Alignment explanation
Indices: 47698014--47698306 Score: 258
Period size: 88 Copynumber: 3.3 Consensus size: 88
47698004 AGGATTGAAG
* * * *
47698014 ATCTTA-CTCCTTAAGCAGTAGTGGAGTAGATCGAAGATGGCGAAACTTATCTTCCTAAGGTAGC
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTCCTGAGGTAGC
* *
47698078 AGGAGAGTAGATTTTAGCCACCA
66 AGGGGAGCAGATTTTAGCCACCA
** * * * * * * *
47698101 GCCTTATCTCTCTGAG--GTAGCAAGAAAGCAGGTTGAAGAT--TGAATTCTTATCTTCCTGAGG
1 ATCTTATCTCCCTAAGCAGTAG--TG-GAGCAGATCGAAGATGGCGAA-TCTTATCTTCCTGAGG
* * * * * **
47698162 TAGCAAGGAAGCAGA-CTGAG-AATTGAA
62 TAGCAGGGGAGCAGATTTTAGCCA--CCA
47698189 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTCCTGAGGTAG
1 -ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTCCTGAGGTAG
*
47698254 CAGGGGAGCATATTTTAGCCACCA
65 CAGGGGAGCAGATTTTAGCCACCA
*
47698278 ATCTTGTCTCCCTAAGCAGTAGTGGAGCA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCA
47698307 AGCTAAAGAT
Statistics
Matches: 152, Mismatches: 40, Indels: 27
0.69 0.18 0.12
Matches are distributed among these distances:
86 5 0.03
87 10 0.07
88 73 0.48
89 53 0.35
90 6 0.04
91 5 0.03
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.26
Consensus pattern (88 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTCCTGAGGTAGC
AGGGGAGCAGATTTTAGCCACCA
Found at i:47698329 original size:177 final size:175
Alignment explanation
Indices: 47697923--47698353 Score: 480
Period size: 177 Copynumber: 2.4 Consensus size: 175
47697913 GGTGAATTCA
* * * * * *
47697923 CAACCTTATCTCTCTGAGGTAGCAAGAGAGC-AGATTGAAGATTGA-AGTCTTATCTTCCTAAGG
1 CAACCTTATCTCCCTAAGGTAG-AAGAAAGCAAG-CTAAAGATTGAGA-TCTTATCTTCCTGAGG
* * * * *
47697986 TAGCGAGGAAGCATACTGAGGATTGAAGATCTTACTCCTTAAGCAGTAGTGGAGTAGATCGAAGA
63 TAGCAAGGAAGCAGACTGAGAATTGAAGATCTTACTCCCTAAGCAGTAGTGGAGCAGATCGAAGA
*
47698051 TGGCGAAACTTATCTTCCTAAGGTAGCAGGAGAGTAGATTTTAGCCAC
128 TGGCGAAACTTATCTTCCTAAGGTAGCAGGAGAGCAGATTTTAGCCAC
* * * * * *
47698099 CAGCCTTATCTCTCTGAGGTAGCAAGAAAGCAGGTTGAAGATTGA-ATTCTTATCTTCCTGAGGT
1 CAACCTTATCTCCCTAAGGTAG-AAGAAAGCAAGCTAAAGATTGAGA-TCTTATCTTCCTGAGGT
47698163 AGCAAGGAAGCAGACTGAGAATTGAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA
64 AGCAAGGAAGCAGACTGAGAATTGAAGATCTTA-CTCCCTAAGCAGTAGTGGAGCAGATCGAAGA
* * * *
47698228 TGGCGAATCTTATCTTCCTGAGGTAGCAGGGGAGCATATTTTAGCCAC
128 TGGCGAAACTTATCTTCCTAAGGTAGCAGGAGAGCAGATTTTAGCCAC
* * * *
47698276 CAATCTTGTCTCCCTAAGCAGTAG-TG-GAGCAAGCTAAAGATTGTAGATCTTATC-TCCATGAG
1 CAACCTTATCTCCCTAAG--GTAGAAGAAAGCAAGCTAAAGATTG-AGATCTTATCTTCC-TGAG
47698338 GTAGCAATGG-AGCAGA
62 GTAGCAA-GGAAGCAGA
47698354 TCGAAGACGG
Statistics
Matches: 222, Mismatches: 25, Indels: 15
0.85 0.10 0.06
Matches are distributed among these distances:
176 103 0.46
177 112 0.50
178 3 0.01
179 4 0.02
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (175 bp):
CAACCTTATCTCCCTAAGGTAGAAGAAAGCAAGCTAAAGATTGAGATCTTATCTTCCTGAGGTAG
CAAGGAAGCAGACTGAGAATTGAAGATCTTACTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGG
CGAAACTTATCTTCCTAAGGTAGCAGGAGAGCAGATTTTAGCCAC
Found at i:47698350 original size:88 final size:88
Alignment explanation
Indices: 47698014--47698351 Score: 219
Period size: 88 Copynumber: 3.8 Consensus size: 88
47698004 AGGATTGAAG
* * * * * *
47698014 ATCTTA-CTCCTTAAGCAGTAGTGGAGTAGATCGAAGATGGCGAAACTTATCTTCCTAAGGTAGC
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGAGAATCTTATCTTCCTGAGGTAGC
* *
47698078 -AGGAGAGTAGATTTTAGCCACCA
66 AAGG-GAGCATATTTTAGCCACCA
** * * * * * ** * *
47698101 GCCTTATCTCTCTGAG--GTAGCAAGAAAGCAGGTTGAAGATTGA-ATTCTTATCTTCCTGAGGT
1 ATCTTATCTCCCTAAGCAGTAG--TG-GAGCAGATCAAAGATGGAGAATCTTATCTTCCTGAGGT
* * * * * **
47698163 AGCAAGGAAGCAGA-CTGAG-AATTGAA
63 AGCAAGGGAGCATATTTTAGCCA--CCA
* *
47698189 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTCCTGAGGTAG
1 -ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGAGAATCTTATCTTCCTGAGGTAG
*
47698254 CAGGGGAGCATATTTTAGCCACCA
65 CAAGGGAGCATATTTTAGCCACCA
* * *
47698278 ATCTTGTCTCCCTAAGCAGTAGTGGAGCA-AGCTAAAGATTGTAG-ATCTTATC-TCCATGAGGT
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-AAAGA-TGGAGAATCTTATCTTCC-TGAGGT
*
47698340 AGCAATGGAGCA
63 AGCAAGGGAGCA
47698352 GATCGAAGAC
Statistics
Matches: 187, Mismatches: 48, Indels: 31
0.70 0.18 0.12
Matches are distributed among these distances:
86 5 0.03
87 12 0.06
88 101 0.54
89 61 0.33
90 3 0.02
91 5 0.03
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (88 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGAGAATCTTATCTTCCTGAGGTAGC
AAGGGAGCATATTTTAGCCACCA
Found at i:47698371 original size:45 final size:43
Alignment explanation
Indices: 47698322--47698532 Score: 135
Period size: 45 Copynumber: 4.8 Consensus size: 43
47698312 AAGATTGTAG
47698322 ATCTTATCTCCATGAGGTAGCAATGGAGCAGATCGAAGACGGTGA
1 ATCTTATCTCCATGAGGTAGCAATGGAGCAGATCGAAGAC-GT-A
* * **
47698367 ATCTTATCTCCCTGATGTAGCAA-GGAAGCAGATTTAAGTCAC-TA
1 ATCTTATCTCCATGAGGTAGCAATGG-AGCAGATCGAAG--ACGTA
** * * * * * * *
47698411 GCCTTGTCTTCC-T-AAGCAGGAGTGGAGCAG-GCTGAAGATTGTA
1 ATCTTATC-TCCATGAGGTAGCAATGGAGCAGATC-GAAGA-CGTA
47698454 GATCTTATCTCCATGAGGTAGCAATGGAGCAGATCGAAGACGTCGA
1 -ATCTTATCTCCATGAGGTAGCAATGGAGCAGATCGAAGACGT--A
* * * *
47698500 ATCTTATCTCCCTGAGTTAACAAGGGAGCAGAT
1 ATCTTATCTCCATGAGGTAGCAATGGAGCAGAT
47698533 TTAAGCCATT
Statistics
Matches: 124, Mismatches: 28, Indels: 28
0.69 0.16 0.16
Matches are distributed among these distances:
41 1 0.01
43 18 0.15
44 19 0.15
45 82 0.66
46 2 0.02
47 2 0.02
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.25
Consensus pattern (43 bp):
ATCTTATCTCCATGAGGTAGCAATGGAGCAGATCGAAGACGTA
Found at i:47698683 original size:133 final size:134
Alignment explanation
Indices: 47698147--47698685 Score: 533
Period size: 133 Copynumber: 4.1 Consensus size: 134
47698137 AGATTGAATT
* * *
47698147 CTTATCTTCCTGAGGTAGCAAGGAAGCAGACTG-AGAATTGAAGATCTTATCTCCCT-AAGCAGT
1 CTTATCTTCCTGAGGTAACAAGGAAGCAGACTGAAG-ATTGAAGATCTTATCTCCATGAAGCAGC
* * * * * *
47698210 AGTGGAGCAGATCGAAGATGGCGAATCTTATCTTCCTGAGGTAGCAGGGGAGCATATTTTAGCCA
65 AATGGAGCAGATCGAAGACGGCGAATCTTATCTCCCTGAGGTAGCAAGGGAGCAGATTTAAGCCA
* **
47698275 CCAAT
130 CTAGC
* * * ** * * * *
47698280 CTTGTCTCCCTAAGCAGT-A-GTGG-AGCA-AGCTAAAGATTGTAGATCTTATCTCCATGAGGTA
1 CTTATCTTCCTGAG--GTAACAAGGAAGCAGA-CTGAAGATTGAAGATCTTATCTCCATGAAGCA
* * * *
47698341 GCAATGGAGCAGATCGAAGACGGTGAATCTTATCTCCCTGATGTAGCAAGGAAGCAGATTTAAGT
63 GCAATGGAGCAGATCGAAGACGGCGAATCTTATCTCCCTGAGGTAGCAAGGGAGCAGATTTAAGC
47698406 CACTAGC
128 CACTAGC
* * * ** * * * * *
47698413 CTTGTCTTCCT-AAG-CAGGAGTGGAGCAGGCTGAAGATTGTAGATCTTATCTCCATGAGGTAGC
1 CTTATCTTCCTGAGGTAACAAG-GAAGCAGACTGAAGATTGAAGATCTTATCTCCATGAAGCAGC
* * *
47698476 AATGGAGCAGATCGAAGACGTCGAATCTTATCTCCCTGAGTTAACAAGGGAGCAGATTTAAGCCA
65 AATGGAGCAGATCGAAGACGGCGAATCTTATCTCCCTGAGGTAGCAAGGGAGCAGATTTAAGCCA
* *
47698541 TTAGT
130 CTAGC
* *
47698546 CTTATCTTCCTGAGGTAACAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCT-AAGCAGTA
1 CTTATCTTCCTGAGGTAACAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCATGAAGCAGCA
* * *
47698610 GTGGAGCAGATCGAAGATGGCGAATCTTATCTTCCC-GAGGTAGCAGGGGAGCAGATTTTAA-CC
66 ATGGAGCAGATCGAAGACGGCGAATCTTATC-TCCCTGAGGTAGCAAGGGAGCAGA-TTTAAGCC
47698673 ACTAGC
129 ACTAGC
47698679 CTTATCT
1 CTTATCT
47698686 AGTTGCAATA
Statistics
Matches: 333, Mismatches: 59, Indels: 28
0.79 0.14 0.07
Matches are distributed among these distances:
130 2 0.01
131 3 0.01
132 26 0.08
133 256 0.77
134 41 0.12
135 5 0.02
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (134 bp):
CTTATCTTCCTGAGGTAACAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCATGAAGCAGCA
ATGGAGCAGATCGAAGACGGCGAATCTTATCTCCCTGAGGTAGCAAGGGAGCAGATTTAAGCCAC
TAGC
Found at i:47698793 original size:127 final size:131
Alignment explanation
Indices: 47698626--47698919 Score: 301
Period size: 133 Copynumber: 2.3 Consensus size: 131
47698616 CAGATCGAAG
* * * ** *
47698626 ATGGCGAATCTTATCTTCCC-GAGGTAGCAGGGGAGCAGATTTTAACCACTAGCC-T-TA-TCT-
1 ATGGCGAATCTTATC-TCCCTGAAGTTGCAGTGGAGCAGATTACAACCACTAACCTTATACTCTA
* *
47698686 AGTTGCAATATAGCAGGTTGAAATCACAAGTCTTATCTCCCTGAATTTGCAACGGAGCAAACTAA
65 AGTTGCAATAGAGCAGGTTGAAATCACAAGTCTTATCTCCCTGAAGTTGCAACGGAGCAAACTAA
47698751 AA
130 AA
* ** *
47698753 ATGGCGAATCTTATCTCCCTGAAGTTGTAGTGGATTAGATTACAGCCACTAACCTTATATCTCTG
1 ATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTACAACCACTAACCTTATA-CTCT-
* * * * * ** * *
47698818 AAGTTGTAGTAGAGTAGGTTGAAATTACAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTG
64 AAGTTGCAATAGAGCAGGTTGAAATCACAAGTCTTATCTCCCTGAAGTTGCAACGGAGCAAACTA
*
47698883 AAG
129 AAA
* * *
47698886 ATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGA
1 ATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGA
47698920 ACAAATTGAA
Statistics
Matches: 134, Mismatches: 26, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
126 4 0.03
127 39 0.29
128 1 0.01
129 2 0.01
131 3 0.02
133 85 0.63
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.30
Consensus pattern (131 bp):
ATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTACAACCACTAACCTTATACTCTAA
GTTGCAATAGAGCAGGTTGAAATCACAAGTCTTATCTCCCTGAAGTTGCAACGGAGCAAACTAAA
A
Found at i:47698907 original size:45 final size:44
Alignment explanation
Indices: 47698697--47699228 Score: 185
Period size: 45 Copynumber: 11.7 Consensus size: 44
47698687 GTTGCAATAT
* * * **
47698697 AGCAGGTTGAA-ATCACAAGTCTTATCTCCCTGAATTTGCAACGG
1 AGCAGATTGAAGAT-ACAAATCTTATCTCCCTGAAGTTGCAGTGG
* * * * * * *
47698741 AGCAAACTAAAAATGGCGAATCTTATCTCCCTGAAGTTGTAGTGG
1 AGCAGATTGAAGAT-ACAAATCTTATCTCCCTGAAGTTGCAGTGG
** ** * * * * * *
47698786 ATTAGATT-ACAGCCACTAACCTTATATCTCTGAAGTTGTAGTAG
1 AGCAGATTGA-AGATACAAATCTTATCTCCCTGAAGTTGCAGTGG
* * * *
47698830 AGTAGGTTGAA-ATTACAAGTCTTATCTCCCTGAAGTTGTAGTGG
1 AGCAGATTGAAGA-TACAAATCTTATCTCCCTGAAGTTGCAGTGG
* *
47698874 AGCAGACTGAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGG
1 AGCAGATTGAAGATA-CAAATCTTATCTCCCTGAAGTTGCAGTGG
* * * * * * *
47698919 AACAAATTGAAGCTATAAATTACAAATCTTATCTCTC-GAAATTACAATAG
1 AGCAGATTGAAG------A-TACAAATCTTATCTCCCTGAAGTTGCAGTGG
* * * * *
47698969 AGAAGAATTAAAGCTAAAAACCTTATCTCCCTGAAGTTGCAGTGG
1 AGCAG-ATTGAAGATACAAATCTTATCTCCCTGAAGTTGCAGTGG
* ** *
47699014 AGCAGACTGAAGATAGTGAATCTTATTTCCCTGAAGTTGCAGTGG
1 AGCAGATTGAAGATA-CAAATCTTATCTCCCTGAAGTTGCAGTGG
** * * * * **
47699059 AATAGATTGAAGCTATAAATTACAAATCTTATCTCTC-GAAATTGAAATAA
1 AGCAGATTGAAG------A-TACAAATCTTATCTCCCTGAAGTTGCAGTGG
* * * * * * * *
47699109 AGTAGAATTAAAGCTAAAAAACCATATCTCCTTGAAGTTGCAGTGA
1 AGCAG-ATTGAAGAT-ACAAATCTTATCTCCCTGAAGTTGCAGTGG
* * * ** *
47699155 AGCAGACTGAAGACAATAAATCCCATCTCCCTGAAGTAGCAGTGG
1 AGCAGATTGAAGA-TACAAATCTTATCTCCCTGAAGTTGCAGTGG
* *
47699200 AGCAGATTGAAGTTGA-AGATCTTATCTCC
1 AGCAGATTGAAGAT-ACAAATCTTATCTCC
47699229 TTAAAGTGCA
Statistics
Matches: 348, Mismatches: 112, Indels: 56
0.67 0.22 0.11
Matches are distributed among these distances:
44 105 0.30
45 165 0.47
46 13 0.04
50 23 0.07
51 38 0.11
52 4 0.01
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.28
Consensus pattern (44 bp):
AGCAGATTGAAGATACAAATCTTATCTCCCTGAAGTTGCAGTGG
Found at i:47699013 original size:140 final size:141
Alignment explanation
Indices: 47698850--47699211 Score: 548
Period size: 140 Copynumber: 2.6 Consensus size: 141
47698840 AATTACAAGT
* *
47698850 CTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCCCTGAAGTTGCA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGTAAATCTTATTTCCCTGAAGTTGCA
* *
47698915 GTGGAACAAATTGAAGCTATAAATTACAAATCTTATCTCTCGAAATT-ACAATAGAGAAGAATTA
66 GTGGAACAGATTGAAGCTATAAATTACAAATCTTATCTCTCGAAATTGA-AATAAAGAAGAATTA
47698979 AAGCT-AAAAAC
130 AAGCTAAAAAAC
*
47698990 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGTGAATCTTATTTCCCTGAAGTTGCA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGTAAATCTTATTTCCCTGAAGTTGCA
* *
47699055 GTGGAATAGATTGAAGCTATAAATTACAAATCTTATCTCTCGAAATTGAAATAAAGTAGAATTAA
66 GTGGAACAGATTGAAGCTATAAATTACAAATCTTATCTCTCGAAATTGAAATAAAGAAGAATTAA
47699120 AGCTAAAAAAC
131 AGCTAAAAAAC
* * * * * ** * *
47699131 CATATCTCCTTGAAGTTGCAGTGAAGCAGACTGAAGACAATAAATCCCATCTCCCTGAAGTAGCA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGTAAATCTTATTTCCCTGAAGTTGCA
*
47699196 GTGGAGCAGATTGAAG
66 GTGGAACAGATTGAAG
47699212 TTGAAGATCT
Statistics
Matches: 201, Mismatches: 19, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
140 125 0.62
141 76 0.38
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.27
Consensus pattern (141 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGTAAATCTTATTTCCCTGAAGTTGCA
GTGGAACAGATTGAAGCTATAAATTACAAATCTTATCTCTCGAAATTGAAATAAAGAAGAATTAA
AGCTAAAAAAC
Found at i:47700566 original size:9 final size:9
Alignment explanation
Indices: 47700553--47700614 Score: 72
Period size: 9 Copynumber: 6.9 Consensus size: 9
47700543 TTCAAATTAA
47700553 TTATT-TTT
1 TTATTATTT
*
47700561 ATTATTATAT
1 -TTATTATTT
*
47700571 TTATTATTA
1 TTATTATTT
*
47700580 TTATTATAT
1 TTATTATTT
*
47700589 TTACTATTT
1 TTATTATTT
47700598 TTATTATTT
1 TTATTATTT
47700607 TTATTATT
1 TTATTATT
47700615 ACTACTCTTA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
9 42 0.95
10 2 0.05
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (9 bp):
TTATTATTT
Found at i:47700567 original size:3 final size:3
Alignment explanation
Indices: 47700552--47700746 Score: 64
Period size: 3 Copynumber: 63.7 Consensus size: 3
47700542 TTTCAAATTA
* *
47700552 ATT ATT TTT ATT ATT A-T ATTT ATT ATT ATT ATT A-T ATTT ACT ATT
1 ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT A-TT ATT ATT
* * * * * * *
47700597 TTT ATT ATT TTT ATT ATT ACT ACT CTT ACTT -TT TTT AATGC ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT -AT-T ATT ATT
* * * * *
47700644 ACT ACT ACTT -TCT ATCT ATT ATT ATT A-T CTT ATT -TT AAAT ATT AAT
1 ATT ATT A-TT AT-T AT-T ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT
* * * *
47700690 ATT ATT ATT -TCC ATA ATT ATT A-T ATT ATT ATT ATT CTT ATT AGT
1 ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
47700734 ACGTT ATT ATT AT
1 A--TT ATT ATT AT
47700747 CTTTTCTACT
Statistics
Matches: 143, Mismatches: 30, Indels: 38
0.68 0.14 0.18
Matches are distributed among these distances:
2 13 0.09
3 111 0.78
4 17 0.12
5 2 0.01
ACGTcount: A:0.30, C:0.08, G:0.02, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:47700580 original size:18 final size:18
Alignment explanation
Indices: 47700553--47700615 Score: 90
Period size: 18 Copynumber: 3.5 Consensus size: 18
47700543 TTCAAATTAA
*
47700553 TTATTTTTATTATTATAT
1 TTATTATTATTATTATAT
47700571 TTATTATTATTATTATAT
1 TTATTATTATTATTATAT
* * *
47700589 TTACTATTTTTATTATTT
1 TTATTATTATTATTATAT
47700607 TTATTATTA
1 TTATTATTA
47700616 CTACTCTTAC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 39 1.00
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.70
Consensus pattern (18 bp):
TTATTATTATTATTATAT
Found at i:47700729 original size:20 final size:22
Alignment explanation
Indices: 47700706--47700746 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
47700696 ATTTCCATAA
47700706 TTATTA-TA-TTATTATTATTC
1 TTATTAGTACTTATTATTATTC
47700726 TTATTAGTACGTTATTATTAT
1 TTATTAGTAC-TTATTATTAT
47700747 CTTTTCTACT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.33
21 2 0.11
23 10 0.56
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.61
Consensus pattern (22 bp):
TTATTAGTACTTATTATTATTC
Found at i:47700760 original size:20 final size:23
Alignment explanation
Indices: 47700714--47700767 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 23
47700704 AATTATTATA
*
47700714 TTATTATTATTCTTATTAGTACG
1 TTATTATTATTCTTATTACTACG
*
47700737 TTATTATTA-TCTT-TT-CTACT
1 TTATTATTATTCTTATTACTACG
*
47700757 TTATTACTATT
1 TTATTATTATT
47700768 ATTGTATTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 11 0.41
21 3 0.11
22 4 0.15
23 9 0.33
ACGTcount: A:0.24, C:0.11, G:0.04, T:0.61
Consensus pattern (23 bp):
TTATTATTATTCTTATTACTACG
Found at i:47700889 original size:3 final size:3
Alignment explanation
Indices: 47700883--47701028 Score: 77
Period size: 3 Copynumber: 47.7 Consensus size: 3
47700873 CATCATCATC
* *
47700883 ATT ATT ATT ATT ATT ATT ATT ATT ACT ATT ATT ATT -TAT ATT CGTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT -ATT
* * * * *
47700929 AGT ATC ATT ATT AATT -TT ATCT -TT ATT -TT CTTT ACT ATT ATT TTT
1 ATT ATT ATT ATT -ATT ATT AT-T ATT ATT ATT -ATT ATT ATT ATT ATT
* * * * *
47700974 ATT ATC ATT ATTT ATTT ATTT ATT ACT ATT GTT ATT ATT ATT GTC A-T
1 ATT ATT ATT A-TT A-TT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT
47701021 ATT ATT AT
1 ATT ATT AT
47701029 ATATGTTTTA
Statistics
Matches: 109, Mismatches: 23, Indels: 22
0.71 0.15 0.14
Matches are distributed among these distances:
2 7 0.06
3 82 0.75
4 20 0.18
ACGTcount: A:0.28, C:0.06, G:0.03, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:47708375 original size:43 final size:41
Alignment explanation
Indices: 47708321--47708484 Score: 170
Period size: 43 Copynumber: 3.9 Consensus size: 41
47708311 TTTTGATATG
*
47708321 TGATTTCGTGTAAGACCACATCTGGGACATTGGCATCGATT
1 TGATTTCGTGTAAGACCACGTCTGGGACATTGGCATCGATT
* * * *
47708362 TGAGATTTTGTGTAAGACCATGTCTGGGACATCGGCATTGTATT
1 T--GATTTCGTGTAAGACCACGTCTGGGACATTGGCATCG-ATT
*
47708406 TGATTTCGTGTAAGACC-CTGTCTGGGACAATGGCATCGATATT
1 TGATTTCGTGTAAGACCAC-GTCTGGGACATTGGCATCG--ATT
* * *
47708449 TGATTACATGTAAGACCACGTCCT-GGACGTTGGCAT
1 TGATTTCGTGTAAGACCACGT-CTGGGACATTGGCAT
47708485 TGTTCGAGCT
Statistics
Matches: 102, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
41 1 0.01
42 31 0.30
43 63 0.62
44 7 0.07
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (41 bp):
TGATTTCGTGTAAGACCACGTCTGGGACATTGGCATCGATT
Found at i:47708484 original size:85 final size:85
Alignment explanation
Indices: 47708321--47708487 Score: 205
Period size: 85 Copynumber: 2.0 Consensus size: 85
47708311 TTTTGATATG
* *** *
47708321 TGATTTCGTGTAAGACCACATCTGGGACATTGGCATCGATTTGAGATTTTGTGTAAGACCATGTC
1 TGATTTCGTGTAAGACCACATCTGGGACAATGGCATCGATTTGAGATTACATGTAAGACCACGTC
47708386 TGGGACATCGGCATTGTATT
66 TGGGACATCGGCATTGTATT
* *
47708406 TGATTTCGTGTAAGACC-CTGTCTGGGACAATGGCATCGATATT-TGATTACATGTAAGACCACG
1 TGATTTCGTGTAAGACCAC-ATCTGGGACAATGGCATCGAT-TTGAGATTACATGTAAGACCACG
* *
47708469 TCCT-GGACGTTGGCATTGT
64 T-CTGGGACATCGGCATTGT
47708488 TCGAGCTTTC
Statistics
Matches: 70, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
84 1 0.01
85 65 0.93
86 4 0.06
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (85 bp):
TGATTTCGTGTAAGACCACATCTGGGACAATGGCATCGATTTGAGATTACATGTAAGACCACGTC
TGGGACATCGGCATTGTATT
Found at i:47710566 original size:23 final size:23
Alignment explanation
Indices: 47710536--47710588 Score: 106
Period size: 23 Copynumber: 2.3 Consensus size: 23
47710526 GTGGTTAGTT
47710536 ATGTGTTAGTGTATCACTGGGAC
1 ATGTGTTAGTGTATCACTGGGAC
47710559 ATGTGTTAGTGTATCACTGGGAC
1 ATGTGTTAGTGTATCACTGGGAC
47710582 ATGTGTT
1 ATGTGTT
47710589 TGAATTCTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.21, C:0.11, G:0.30, T:0.38
Consensus pattern (23 bp):
ATGTGTTAGTGTATCACTGGGAC
Found at i:47714440 original size:13 final size:13
Alignment explanation
Indices: 47714408--47714442 Score: 56
Period size: 11 Copynumber: 2.8 Consensus size: 13
47714398 ACCCCACGAT
47714408 CATATACAGAACA
1 CATATACAGAACA
47714421 -A-ATACAGAACA
1 CATATACAGAACA
47714432 CATATACAGAA
1 CATATACAGAA
47714443 TTAACATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 10 0.50
12 2 0.10
13 8 0.40
ACGTcount: A:0.57, C:0.20, G:0.09, T:0.14
Consensus pattern (13 bp):
CATATACAGAACA
Found at i:47715948 original size:56 final size:56
Alignment explanation
Indices: 47715862--47716087 Score: 443
Period size: 56 Copynumber: 4.0 Consensus size: 56
47715852 ATGGAACAAG
*
47715862 ATGCAAATATCATAATCGTACATCAATACTCTAACACGTGGCAAATGAAATCATTC
1 ATGCAAATACCATAATCGTACATCAATACTCTAACACGTGGCAAATGAAATCATTC
47715918 ATGCAAATACCATAATCGTACATCAATACTCTAACACGTGGCAAATGAAATCATTC
1 ATGCAAATACCATAATCGTACATCAATACTCTAACACGTGGCAAATGAAATCATTC
47715974 ATGCAAATACCATAATCGTACATCAATACTCTAACACGTGGCAAATGAAATCATTC
1 ATGCAAATACCATAATCGTACATCAATACTCTAACACGTGGCAAATGAAATCATTC
47716030 ATGCAAATACCATAATCGTACATCAATACTCTAACACGTGGCAAATGAAATCATTC
1 ATGCAAATACCATAATCGTACATCAATACTCTAACACGTGGCAAATGAAATCATTC
47716086 AT
1 AT
47716088 TGATATTGAA
Statistics
Matches: 169, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 169 1.00
ACGTcount: A:0.41, C:0.23, G:0.11, T:0.26
Consensus pattern (56 bp):
ATGCAAATACCATAATCGTACATCAATACTCTAACACGTGGCAAATGAAATCATTC
Found at i:47717259 original size:29 final size:27
Alignment explanation
Indices: 47717188--47717272 Score: 71
Period size: 29 Copynumber: 2.9 Consensus size: 27
47717178 CTAAAGTATT
47717188 AGGTACTTTGTACTGGTGATTACATGATATC
1 AGGTACTTTGTAC-GGTGATT--AT-ATATC
* * *
47717219 AAGTAGTATGTATCGGTGATTATATCATC
1 AGGTACTTTGTA-CGGTGATTATAT-ATC
*
47717248 AGGTACTTTGTACCGGTGTTTATAT
1 AGGTACTTTGTA-CGGTGATTATAT
47717273 TTTATCAGGT
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
28 2 0.05
29 25 0.57
31 16 0.36
32 1 0.02
ACGTcount: A:0.26, C:0.12, G:0.22, T:0.40
Consensus pattern (27 bp):
AGGTACTTTGTACGGTGATTATATATC
Found at i:47717283 original size:31 final size:30
Alignment explanation
Indices: 47717188--47717285 Score: 90
Period size: 31 Copynumber: 3.2 Consensus size: 30
47717178 CTAAAGTATT
* * *
47717188 AGGTACTTTGTACTGGTGATTACATGATATC
1 AGGTACTTTGTACCGGTGATTATAT-TTATC
* * * * *
47717219 AAGTAGTATGTATCGGTGATTATA-TCATC
1 AGGTACTTTGTACCGGTGATTATATTTATC
*
47717248 AGGTACTTTGTACCGGTGTTTATATTTTATC
1 AGGTACTTTGTACCGGTGATTATA-TTTATC
47717279 AGGTACT
1 AGGTACT
47717286 ACGTACCAGT
Statistics
Matches: 51, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
29 22 0.43
31 29 0.57
ACGTcount: A:0.26, C:0.12, G:0.21, T:0.41
Consensus pattern (30 bp):
AGGTACTTTGTACCGGTGATTATATTTATC
Found at i:47721920 original size:22 final size:21
Alignment explanation
Indices: 47721885--47721925 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
47721875 TCTAAATGTG
* *
47721885 TTTTTTTATTAATTTTTATAA
1 TTTTTTTATAAATTATTATAA
47721906 TTTTTTATATAAATTATTAT
1 TTTTTT-TATAAATTATTAT
47721926 TTTTTTGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (21 bp):
TTTTTTTATAAATTATTATAA
Found at i:47721931 original size:22 final size:20
Alignment explanation
Indices: 47721885--47721931 Score: 51
Period size: 22 Copynumber: 2.3 Consensus size: 20
47721875 TCTAAATGTG
*
47721885 TTTTTTTATTAATTTTTATAA
1 TTTTTTTATTAATTATTAT-A
*
47721906 TTTTTTATATAAATTATTAT-
1 TTTTTT-TATTAATTATTATA
47721926 TTTTTT
1 TTTTTT
47721932 GTTTTTACAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 6 0.26
21 6 0.26
22 11 0.48
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTTTTTATTAATTATTATA
Found at i:47725040 original size:67 final size:69
Alignment explanation
Indices: 47724968--47725101 Score: 184
Period size: 67 Copynumber: 2.0 Consensus size: 69
47724958 TTTAATAGAT
* * * * *
47724968 TTAATATTTAATTTAGTTTAATACTTATCTT-A-ACAGTATTTTATTAA-TTAATATTAAATTGA
1 TTAATATTAAATTTAATCTAATACTTATCTTGATA-AGTATTATATTAATTTAATATTAAAGTGA
47725030 TTATC
65 TTATC
*
47725035 TTAATATTAAATTTAATCTAATATTTATCTTGATAAGTATTATATTAATTTAATATTAAAGTGAT
1 TTAATATTAAATTTAATCTAATACTTATCTTGATAAGTATTATATTAATTTAATATTAAAGTGAT
47725100 TA
66 TA
47725102 AGTTTAATCA
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
67 27 0.47
68 13 0.22
69 18 0.31
ACGTcount: A:0.40, C:0.04, G:0.05, T:0.51
Consensus pattern (69 bp):
TTAATATTAAATTTAATCTAATACTTATCTTGATAAGTATTATATTAATTTAATATTAAAGTGAT
TATC
Found at i:47725058 original size:17 final size:17
Alignment explanation
Indices: 47725011--47725059 Score: 55
Period size: 20 Copynumber: 2.8 Consensus size: 17
47725001 CAGTATTTTA
47725011 TTAAT-TAATATTAAAT
1 TTAATCTAATATTAAAT
*
47725027 TGATTATCTTAATATTAAAT
1 T--TAATC-TAATATTAAAT
47725047 TTAATCTAATATT
1 TTAATCTAATATT
47725060 TATCTTGATA
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
16 1 0.04
17 7 0.26
18 7 0.26
20 12 0.44
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (17 bp):
TTAATCTAATATTAAAT
Found at i:47727894 original size:11 final size:11
Alignment explanation
Indices: 47727880--47727927 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
47727870 TAAAAAATAC
47727880 AAAAAATTTAA
1 AAAAAATTTAA
*
47727891 AAAAAATCTAA
1 AAAAAATTTAA
* * *
47727902 AGAATATATAA
1 AAAAAATTTAA
47727913 AAAAAAGTTTAA
1 AAAAAA-TTTAA
47727925 AAA
1 AAA
47727928 TTTTTGAAAT
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
11 22 0.76
12 7 0.24
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.23
Consensus pattern (11 bp):
AAAAAATTTAA
Found at i:47727914 original size:20 final size:20
Alignment explanation
Indices: 47727868--47727916 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
47727858 TTCAAATATT
*
47727868 TATAAAAAATACAAAAAATT
1 TATAAAAAATACAAAAAATA
* *
47727888 TAAAAAAAAT-CTAAAGAATA
1 TATAAAAAATAC-AAAAAATA
47727908 TATAAAAAA
1 TATAAAAAA
47727917 AAGTTTAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 1 0.04
20 23 0.96
ACGTcount: A:0.71, C:0.04, G:0.02, T:0.22
Consensus pattern (20 bp):
TATAAAAAATACAAAAAATA
Found at i:47729536 original size:30 final size:30
Alignment explanation
Indices: 47729502--47729561 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
47729492 ACTTAACAAG
*
47729502 CAAATACCTCTAAAATAATAATAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
* *
47729532 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
47729562 TAATAAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.58, C:0.13, G:0.02, T:0.27
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAACAAAATTAA
Found at i:47734923 original size:28 final size:28
Alignment explanation
Indices: 47734891--47734947 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
47734881 GAGACGTAAA
**
47734891 CTTCAAAATTGGGAAGCCAGGAAACTTT
1 CTTCAAAATTAAGAAGCCAGGAAACTTT
*
47734919 CTTCAGAATTAAGAAGCCAGGAAACTTT
1 CTTCAAAATTAAGAAGCCAGGAAACTTT
47734947 C
1 C
47734948 CTTTGTAGGG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (28 bp):
CTTCAAAATTAAGAAGCCAGGAAACTTT
Found at i:47736881 original size:3 final size:3
Alignment explanation
Indices: 47736873--47736904 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
47736863 TGAATGTACT
47736873 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
47736905 CAAAATAACT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:47738202 original size:29 final size:29
Alignment explanation
Indices: 47738160--47738216 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
47738150 TGTTATATCA
47738160 TATTTTAAAAATGGAAGGACTTAACGAGC
1 TATTTTAAAAATGGAAGGACTTAACGAGC
*
47738189 TATTTTGAAAATGGAAGGACTTAACGAG
1 TATTTTAAAAATGGAAGGACTTAACGAG
47738217 TTTAACATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (29 bp):
TATTTTAAAAATGGAAGGACTTAACGAGC
Found at i:47741670 original size:24 final size:24
Alignment explanation
Indices: 47741638--47741685 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
47741628 CTCTAAGAAT
*
47741638 GTGAAGCATATTATGAGAGAGAGA
1 GTGAAGCATATTATCAGAGAGAGA
47741662 GTGAAGCATATTATCAGAGAGAGA
1 GTGAAGCATATTATCAGAGAGAGA
47741686 CTTCTATCCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.42, C:0.06, G:0.31, T:0.21
Consensus pattern (24 bp):
GTGAAGCATATTATCAGAGAGAGA
Found at i:47748707 original size:15 final size:16
Alignment explanation
Indices: 47748681--47748710 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
47748671 GACTCGGTTG
47748681 TTTCTCAGGAAAACAT
1 TTTCTCAGGAAAACAT
47748697 TTTCT-AGGAAAACA
1 TTTCTCAGGAAAACA
47748711 CTCTTTCAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (16 bp):
TTTCTCAGGAAAACAT
Found at i:47750825 original size:31 final size:31
Alignment explanation
Indices: 47750757--47750825 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
47750747 TCGGTAACTG
* **
47750757 AACTATTCGAAAGTTTTCATTTAAATCATTA
1 AACTATTCAAAAGTTTTCATTTAAATCACCA
* *
47750788 AACTATTCAAAAGTTTTTATTTAAGTCACCA
1 AACTATTCAAAAGTTTTCATTTAAATCACCA
*
47750819 AGCTATT
1 AACTATT
47750826 AAGTTTTTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.41
Consensus pattern (31 bp):
AACTATTCAAAAGTTTTCATTTAAATCACCA
Found at i:47752150 original size:17 final size:17
Alignment explanation
Indices: 47752130--47752164 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
47752120 AACAAAAAAA
*
47752130 AAACCAAAAATAAAATT
1 AAACCAAAAACAAAATT
*
47752147 AAACCCAAAACAAAATT
1 AAACCAAAAACAAAATT
47752164 A
1 A
47752165 GACAGTCCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.69, C:0.17, G:0.00, T:0.14
Consensus pattern (17 bp):
AAACCAAAAACAAAATT
Found at i:47754736 original size:256 final size:256
Alignment explanation
Indices: 47754272--47754746 Score: 736
Period size: 256 Copynumber: 1.9 Consensus size: 256
47754262 CGTTTTATTC
* * **
47754272 AAAATAAGGCAACATTTCGTGTTTGGAAATTTCGAGAAAATCGTGCCCTACGTGCTGGGTTTCGA
1 AAAACAAGGCAAAATTTCGTGTTCAGAAATTTCGAGAAAATCGTGCCCTACGTGCTGGGTTTCGA
* * * *
47754337 TTTATTATTTAACCGAACAATCGAATATCCTTTTTAAAATTTCAATGCATAAGTTTTGGAAATCC
66 TTTATCATTTAACCGAACAACCGAATATCCTTTTTAAAATTTCAATACATAAGTTTTGGAAATCA
*
47754402 TGAGATGATTTTGGTATCGAAGGTTTGAAATATCATGTCCTACGTATTGGATGTGATATTTTATT
131 TGAGATAATTTTGGTATCGAAGGTTTGAAATATCATGTCCTACGTATTGGATGTGATATTTTATT
* *
47754467 TCTTCGAAACAAGAGAATCTTAATTGCTTCATACTATGGCATTTTTATTCAAGACTTTTTT
196 TCTCCGAAACAAGAAAATCTTAATTGCTTCATACTATGGCATTTTTATTCAAGACTTTTTT
* *
47754528 AAAACAAGGCAAAATTTCGTGTTCAGAAATTTCGAG-AAATTGTGCCCTACGTGTTGGGTTTCGA
1 AAAACAAGGCAAAATTTCGTGTTCAGAAATTTCGAGAAAATCGTGCCCTACGTGCTGGGTTTCGA
* * * *
47754592 TTTATCGTTTGACTGAACAACCGAATATCCTTTTTTAAAATTTCAATACATGAGTTTTGGAAATC
66 TTTATCATTTAACCGAACAACCGAATATCC-TTTTTAAAATTTCAATACATAAGTTTTGGAAATC
* * * *
47754657 ATGAGATAATTTTGGTATCGGAGGTTTGAAATGTCGTGTCCTACGTGTTGGATGTGATATTTTAT
130 ATGAGATAATTTTGGTATCGAAGGTTTGAAATATCATGTCCTACGTATTGGATGTGATATTTTAT
*
47754722 TTCTCCGGAACAAGAAAATCTTAAT
195 TTCTCCGAAACAAGAAAATCTTAAT
47754747 ATCCACTTCA
Statistics
Matches: 196, Mismatches: 22, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
255 51 0.26
256 145 0.74
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.37
Consensus pattern (256 bp):
AAAACAAGGCAAAATTTCGTGTTCAGAAATTTCGAGAAAATCGTGCCCTACGTGCTGGGTTTCGA
TTTATCATTTAACCGAACAACCGAATATCCTTTTTAAAATTTCAATACATAAGTTTTGGAAATCA
TGAGATAATTTTGGTATCGAAGGTTTGAAATATCATGTCCTACGTATTGGATGTGATATTTTATT
TCTCCGAAACAAGAAAATCTTAATTGCTTCATACTATGGCATTTTTATTCAAGACTTTTTT
Found at i:47766650 original size:227 final size:227
Alignment explanation
Indices: 47766235--47766662 Score: 588
Period size: 227 Copynumber: 1.9 Consensus size: 227
47766225 CTGAATTTGC
* * * *
47766235 AGTGGAGCAGACCGAAAATAGCAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATTAAAGCTA
1 AGTGGACCAGACCGAAAATAACAGATCTTATCTCTCTGAAGTTGCAGCAGAGCAGATTAAAGCTA
* * * *
47766300 TAAATCCTATACCTCTGAAGTTGCAGCAGGTCAGATCAAATCTACCATGGTGAATCCTATTTCCC
66 TAAATCCTATACCTCTGAAGTTACAACAGGTCAGATCAAATCTACCATGGCGAATCCTACTTCCC
*** * * * * *
47766365 TGAAGTTGCAGTGGAGCAGATCGAAGCCACTAACCTTATTTCCCTGAAATTACAGTGGAGCAGGT
131 TGAAGTTGCAGCAAAACAGATCGAAGCCACCAACCTTATCTCACTGAAATTACAGTGGAGCAGAT
47766430 TGAAGTTACGAGTCTTATCTTACTGAAGTTAT
196 TGAAGTTACGAGTCTTATCTTACTGAAGTTAT
* * *
47766462 AGTGGACCAGACTGAAAATAACGGATCTTATCTCTTTGAAGTTGCAGCAGAGCAGATTAAAGCTA
1 AGTGGACCAGACCGAAAATAACAGATCTTATCTCTCTGAAGTTGCAGCAGAGCAGATTAAAGCTA
* *
47766527 TAAATCCTATACCTCTGAAGTTACAACAGGTCGGATCAAATCTACCATGGCGAATCTTACCTT-C
66 TAAATCCTATACCTCTGAAGTTACAACAGGTCAGATCAAATCTACCATGGCGAATCCTA-CTTCC
* * * ** * *
47766591 TTGAAGTTGCAGCAAAACAGATTGGAGCCACCAGTCTTATCTCACTGAAGTTGCAGTGGAGCAGA
130 CTGAAGTTGCAGCAAAACAGATCGAAGCCACCAACCTTATCTCACTGAAATTACAGTGGAGCAGA
47766656 TTGAAGT
195 TTGAAGT
47766663 CACAAACTTT
Statistics
Matches: 172, Mismatches: 28, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
227 170 0.99
228 2 0.01
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (227 bp):
AGTGGACCAGACCGAAAATAACAGATCTTATCTCTCTGAAGTTGCAGCAGAGCAGATTAAAGCTA
TAAATCCTATACCTCTGAAGTTACAACAGGTCAGATCAAATCTACCATGGCGAATCCTACTTCCC
TGAAGTTGCAGCAAAACAGATCGAAGCCACCAACCTTATCTCACTGAAATTACAGTGGAGCAGAT
TGAAGTTACGAGTCTTATCTTACTGAAGTTAT
Found at i:47769482 original size:253 final size:253
Alignment explanation
Indices: 47769034--47769490 Score: 700
Period size: 253 Copynumber: 1.8 Consensus size: 253
47769024 AAGGCAACAT
* *
47769034 TTCGTGTTTGGAAATTTCGAGAAAATCGTGCCCTACGTGCTGGGTTTCGATTTATCATTTAACCG
1 TTCGTGTTCGAAAATTTCGAGAAAATCGTGCCCTACGTGCTGGGTTTCGATTTATCATTTAACCG
* * * * *
47769099 AACAACCGAATATCCTTTTTAAAATTTCAATGCGTAAGTTTTGGAAATCCTGAGATGATTTTGGA
66 AACAACCAAATATCCTTTTTAAAATTTCAATACATAAGTTTTGGAAATCATGAGATAATTTTGGA
** *
47769164 ATCGAAGGTTTGAAATATTGTGTCCTACGTGCTGGATGTGATATTTTATTTCTTCGAAACAAGAG
131 ATCGAAGGTTTGAAATACCGTGTCCTACGTGCTGGATGTGATATTTTATTTCTCCGAAACAAGAG
47769229 AATCTTAATCGCTTCATACTATGACATTTTTATTCAAGACATTTTTAAAACAAGGCAA
196 AATCTTAATCGCTTCATACTATGACATTTTTATTCAAGACATTTTTAAAACAAGGCAA
* * * * *
47769287 TTCGTGTTCGAAAATTTTGAG-AAATTGTGCCCTACGTGTTGGGTTTCGATTTATCATTTGACTG
1 TTCGTGTTCGAAAATTTCGAGAAAATCGTGCCCTACGTGCTGGGTTTCGATTTATCATTTAACCG
*
47769351 AACAACCAAATATCCTTTTTTAAAATTTCAATACATGAGTTTTGGAAATCATGAGATAATTTTGG
66 AACAACCAAATATCC-TTTTTAAAATTTCAATACATAAGTTTTGGAAATCATGAGATAATTTTGG
* * * * * *
47769416 TATTGGAGGTTTGAAATGCCGTGTCCTACGTGTTGGATGTGATATTTTATTTCTCCGGAACAAGA
130 AATCGAAGGTTTGAAATACCGTGTCCTACGTGCTGGATGTGATATTTTATTTCTCCGAAACAAGA
47769481 GAATCTTAAT
195 GAATCTTAAT
47769491 ATCCACTTCA
Statistics
Matches: 181, Mismatches: 22, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
252 53 0.29
253 128 0.71
ACGTcount: A:0.29, C:0.14, G:0.19, T:0.37
Consensus pattern (253 bp):
TTCGTGTTCGAAAATTTCGAGAAAATCGTGCCCTACGTGCTGGGTTTCGATTTATCATTTAACCG
AACAACCAAATATCCTTTTTAAAATTTCAATACATAAGTTTTGGAAATCATGAGATAATTTTGGA
ATCGAAGGTTTGAAATACCGTGTCCTACGTGCTGGATGTGATATTTTATTTCTCCGAAACAAGAG
AATCTTAATCGCTTCATACTATGACATTTTTATTCAAGACATTTTTAAAACAAGGCAA
Found at i:47770508 original size:2 final size:2
Alignment explanation
Indices: 47770501--47770529 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
47770491 TTGCACCAAG
47770501 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
47770530 GGATCTATCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:47774832 original size:21 final size:21
Alignment explanation
Indices: 47774806--47774847 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
47774796 AAATAAAAAA
47774806 TTATTT-TTAACTAAAAAATAC
1 TTATTTATTAA-TAAAAAATAC
47774827 TTATTTAATTAATAAAAAATA
1 TTATTT-ATTAATAAAAAATA
47774848 ATTTTATTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.32
22 9 0.47
23 4 0.21
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (21 bp):
TTATTTATTAATAAAAAATAC
Found at i:47780762 original size:30 final size:31
Alignment explanation
Indices: 47780711--47780783 Score: 130
Period size: 30 Copynumber: 2.4 Consensus size: 31
47780701 TCTCCCTTTC
*
47780711 TTCTTTCTCTTTTCTTTTTTTTTTCTTTCTT
1 TTCTTTCTGTTTTCTTTTTTTTTTCTTTCTT
47780742 TTCTTTCTGTTTTC-TTTTTTTTTCTTTCTT
1 TTCTTTCTGTTTTCTTTTTTTTTTCTTTCTT
47780772 TTCTTTCTGTTT
1 TTCTTTCTGTTT
47780784 CATATGGCTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
30 28 0.68
31 13 0.32
ACGTcount: A:0.00, C:0.18, G:0.03, T:0.79
Consensus pattern (31 bp):
TTCTTTCTGTTTTCTTTTTTTTTTCTTTCTT
Found at i:47780796 original size:30 final size:30
Alignment explanation
Indices: 47780732--47780803 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 30
47780722 TTCTTTTTTT
* ***
47780732 TTTCTTTCTTTTCTTTCTGTTTTCTTTTTT
1 TTTCTTTCTTTTCTTTCTGTTTTCTATGGC
47780762 TTTCTTTCTTTTCTTTCTG-TTTCATATGGC
1 TTTCTTTCTTTTCTTTCTGTTTTC-TATGGC
47780792 TTTCTTTCTTTT
1 TTTCTTTCTTTT
47780804 AATACTTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
29 4 0.11
30 33 0.89
ACGTcount: A:0.03, C:0.18, G:0.06, T:0.74
Consensus pattern (30 bp):
TTTCTTTCTTTTCTTTCTGTTTTCTATGGC
Found at i:47780798 original size:4 final size:4
Alignment explanation
Indices: 47780696--47780779 Score: 63
Period size: 4 Copynumber: 22.0 Consensus size: 4
47780686 GCGTTGAACC
** * *
47780696 TTCT TTCT CCCT TTC- TTCT TTCT CT-T TTCT TT-T TTTT TTCT TTCTT
1 TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTC-T
*
47780742 TTCT TTCT GT-T TTCT TT-T TT-T TTCT TTCTT TTCT TTCT
1 TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTC-T TTCT TTCT
47780780 GTTTCATATG
Statistics
Matches: 64, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
3 16 0.25
4 40 0.62
5 8 0.12
ACGTcount: A:0.00, C:0.23, G:0.01, T:0.76
Consensus pattern (4 bp):
TTCT
Found at i:47784281 original size:34 final size:34
Alignment explanation
Indices: 47784243--47784315 Score: 128
Period size: 34 Copynumber: 2.1 Consensus size: 34
47784233 GAATAATCCC
*
47784243 TTGAATATTAGCAATAAAACACCTAATTGCCCCA
1 TTGAATATTAGCAATAAAACACCCAATTGCCCCA
*
47784277 TTGAATATTAGCAATAAAACACCCAATTGCCCCC
1 TTGAATATTAGCAATAAAACACCCAATTGCCCCA
47784311 TTGAA
1 TTGAA
47784316 CTCTCTAAGA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.40, C:0.25, G:0.10, T:0.26
Consensus pattern (34 bp):
TTGAATATTAGCAATAAAACACCCAATTGCCCCA
Found at i:47785512 original size:24 final size:24
Alignment explanation
Indices: 47785485--47785533 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
47785475 TTAAGATAGA
47785485 GCTAAGGTTTTTGAGTTAACCAGT
1 GCTAAGGTTTTTGAGTTAACCAGT
47785509 GCTAAGGTTTTTGAGTTAACCAGT
1 GCTAAGGTTTTTGAGTTAACCAGT
47785533 G
1 G
47785534 GACGTTTCAC
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:0.24, C:0.12, G:0.27, T:0.37
Consensus pattern (24 bp):
GCTAAGGTTTTTGAGTTAACCAGT
Found at i:47787510 original size:21 final size:20
Alignment explanation
Indices: 47787476--47787522 Score: 67
Period size: 21 Copynumber: 2.3 Consensus size: 20
47787466 ATATATGTAC
47787476 AAATATACACAAAACAATAT
1 AAATATACACAAAACAATAT
*
47787496 AAATGATATACAAAACAATAT
1 AAAT-ATACACAAAACAATAT
*
47787517 ATATAT
1 AAATAT
47787523 GAACAGATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 6 0.25
21 18 0.75
ACGTcount: A:0.62, C:0.11, G:0.02, T:0.26
Consensus pattern (20 bp):
AAATATACACAAAACAATAT
Found at i:47787519 original size:23 final size:21
Alignment explanation
Indices: 47787476--47787517 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
47787466 ATATATGTAC
47787476 AAAT-ATACACAAAACAATAT
1 AAATGATACACAAAACAATAT
*
47787496 AAATGATATACAAAACAATAT
1 AAATGATACACAAAACAATAT
47787517 A
1 A
47787518 TATATGAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.64, C:0.12, G:0.02, T:0.21
Consensus pattern (21 bp):
AAATGATACACAAAACAATAT
Found at i:47788232 original size:21 final size:21
Alignment explanation
Indices: 47788208--47788247 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
47788198 TCTCATTTGG
*
47788208 CAAACCCTAGATCC-CCTCCTT
1 CAAACACT-GATCCGCCTCCTT
47788229 CAAACACTGATCCGCCTCC
1 CAAACACTGATCCGCCTCC
47788248 CTAAACAGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.25, C:0.47, G:0.07, T:0.20
Consensus pattern (21 bp):
CAAACACTGATCCGCCTCCTT
Found at i:47788253 original size:20 final size:20
Alignment explanation
Indices: 47788217--47788254 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
47788207 GCAAACCCTA
*
47788217 GATCCCCTCCTTCAAACACT
1 GATCCCCTCCCTCAAACACT
47788237 GATCCGCCTCCCT-AAACA
1 GATCC-CCTCCCTCAAACA
47788255 GCAACCAGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.26, C:0.45, G:0.08, T:0.21
Consensus pattern (20 bp):
GATCCCCTCCCTCAAACACT
Found at i:47790732 original size:15 final size:14
Alignment explanation
Indices: 47790712--47790745 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
47790702 TACATCTCCC
*
47790712 TTTTTATTATTTTTA
1 TTTTTATT-TATTTA
47790727 TTTTTATTTATTTA
1 TTTTTATTTATTTA
47790741 TTTTT
1 TTTTT
47790746 GCTTAAGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (14 bp):
TTTTTATTTATTTA
Found at i:47790901 original size:96 final size:97
Alignment explanation
Indices: 47790737--47790920 Score: 282
Period size: 96 Copynumber: 1.9 Consensus size: 97
47790727 TTTTTATTTA
* * * * *
47790737 TTTATTTTTGCTTAAGAATATATCGAACCTTTTGACGTGAAGAGAGATGACAGCCAATCATATCA
1 TTTATTTTTGCTTAAGAACATATCGAACCTTTTGACGCGAAAAGAGATGACAGCCAAGCACATCA
*
47790802 CCCTGGTTACTCAGCCT-ACACACTCCTAATT
66 CCCTAGTTACTCAGCCTAACACACTCCTAATT
*
47790833 TTTATTTTTGCTTAAGAACATATCGAA-CTTATTGACGCGAAAAGAGATGACAGCCAAGCACCTC
1 TTTATTTTTGCTTAAGAACATATCGAACCTT-TTGACGCGAAAAGAGATGACAGCCAAGCACATC
47790897 ACCCTAGTTACTCAGCCTAACACA
65 ACCCTAGTTACTCAGCCTAACACA
47790921 TTCTTAAAAA
Statistics
Matches: 79, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
95 3 0.04
96 71 0.90
97 5 0.06
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (97 bp):
TTTATTTTTGCTTAAGAACATATCGAACCTTTTGACGCGAAAAGAGATGACAGCCAAGCACATCA
CCCTAGTTACTCAGCCTAACACACTCCTAATT
Found at i:47797799 original size:22 final size:22
Alignment explanation
Indices: 47797774--47797816 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
47797764 GAATTTTCCC
47797774 AAAAGATTTTCTCCAATTTCTA
1 AAAAGATTTTCTCCAATTTCTA
47797796 AAAAGATTTTCTCCAATTTCT
1 AAAAGATTTTCTCCAATTTCT
47797817 CTCTGTGCAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.19, G:0.05, T:0.42
Consensus pattern (22 bp):
AAAAGATTTTCTCCAATTTCTA
Found at i:47799316 original size:4 final size:4
Alignment explanation
Indices: 47799303--47799345 Score: 54
Period size: 4 Copynumber: 10.8 Consensus size: 4
47799293 TATCAACATC
47799303 TAAA -AAA TAAA TAAA T-AA TATAA TATAA TAAA TAAA TAAA TAA
1 TAAA TAAA TAAA TAAA TAAA TA-AA TA-AA TAAA TAAA TAAA TAA
47799346 GAAAGAAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
3 6 0.17
4 21 0.58
5 9 0.25
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (4 bp):
TAAA
Found at i:47799357 original size:25 final size:25
Alignment explanation
Indices: 47799307--47799359 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
47799297 AACATCTAAA
* * *
47799307 AAATAAATAAATAATATAATATAAT
1 AAATAAATAAATAAGATAAAAAAAT
47799332 AAATAAATAAATAAGA-AAGAAAAAT
1 AAATAAATAAATAAGATAA-AAAAAT
47799357 AAA
1 AAA
47799360 AATAAAAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 2 0.08
25 22 0.92
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.23
Consensus pattern (25 bp):
AAATAAATAAATAAGATAAAAAAAT
Found at i:47803955 original size:92 final size:93
Alignment explanation
Indices: 47803844--47804013 Score: 288
Period size: 92 Copynumber: 1.8 Consensus size: 93
47803834 GCCCATAAGT
* *
47803844 GAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGCATCCATAAGTGAACTCGGACTCAACTC-A
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
47803908 CGAGCTCGAATGCCTAGTTACATCTCAC
66 CGAGCTCGAATGCCTAGTTACATCTCAC
*
47803936 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
* *
47804001 CGAGTTCGGATGC
66 CGAGCTCGAATGC
47804014 TAAACCATCC
Statistics
Matches: 72, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
92 60 0.83
93 12 0.17
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGAATGCCTAGTTACATCTCAC
Found at i:47804008 original size:46 final size:46
Alignment explanation
Indices: 47803836--47804004 Score: 204
Period size: 46 Copynumber: 3.7 Consensus size: 46
47803826 TGTAACCCGC
* *
47803836 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAACATTCGCAT
*
47803882 CCATAAGTGAACTCGGACTCAACTC-ACGAGCTCGAATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAA---C-A-TTCGCAT
* * *
47803931 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAACATTCGCAT
47803974 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAG
47804005 TTCGGATGCT
Statistics
Matches: 104, Mismatches: 9, Indels: 20
0.78 0.07 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 12 0.12
46 65 0.62
47 12 0.12
48 2 0.02
49 3 0.03
50 2 0.02
ACGTcount: A:0.31, C:0.30, G:0.19, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAACATTCGCAT
Found at i:47808115 original size:93 final size:93
Alignment explanation
Indices: 47807956--47808127 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
47807946 GCCCATAAGT
* * *
47807956 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTTGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
47808021 CGAGCTCAGATGCCTAGTTACATCTCTC
66 CGAGCTCAGATGCCTAGTTACATCTCTC
* * * *
47808049 GAACTCGGACTTAACTTAACGAGTTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
* *
47808114 CGAGTTCGGATGCC
66 CGAGCTCAGATGCC
47808128 CAAACATCCT
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCAGATGCCTAGTTACATCTCTC
Found at i:47810553 original size:14 final size:15
Alignment explanation
Indices: 47810517--47810556 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
47810507 ATAGAAAACC
47810517 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
*
47810532 GAATAAAGAGATCCA
1 GAATAAAGAAATCCA
47810547 G-ATAAAGAAA
1 GAATAAAGAAA
47810557 CCCAAGATAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 8 0.35
15 15 0.65
ACGTcount: A:0.60, C:0.10, G:0.17, T:0.12
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:47813558 original size:93 final size:93
Alignment explanation
Indices: 47813446--47813617 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
47813436 GCCCATAAGT
* * **
47813446 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTTGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
47813511 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
47813539 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
*
47813604 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
47813618 CAAACATCCT
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:47813613 original size:46 final size:46
Alignment explanation
Indices: 47813438--47813613 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
47813428 TGTAACCCGC
* *
47813438 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
47813484 CCATAAGTGAACTTGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
47813530 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
47813577 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
47813614 TGCCCAAACA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 68 0.63
47 31 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:47815426 original size:16 final size:17
Alignment explanation
Indices: 47815395--47815427 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
47815385 TTCATAAGTA
47815395 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
47815412 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
47815428 GCACCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:47815755 original size:46 final size:46
Alignment explanation
Indices: 47815690--47815963 Score: 361
Period size: 46 Copynumber: 6.0 Consensus size: 46
47815680 TTATCTTTGA
* * * *
47815690 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATGT
*
47815736 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * * **
47815782 CACGCTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * *
47815828 CATGTTGCCATGGTATCTTTCAACCATAGTCTTATTCATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * *
47815874 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * *
47815920 CAGGTTGCCATGGTATCTTTCAACTATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCAT
47815964 ATCAAAGAGC
Statistics
Matches: 207, Mismatches: 20, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 4 0.02
46 203 0.98
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
Found at i:47821719 original size:40 final size:40
Alignment explanation
Indices: 47821624--47821704 Score: 132
Period size: 40 Copynumber: 2.1 Consensus size: 40
47821614 GCGTACCTGG
*
47821624 GAAAAGAAT-AAA-AAAAACAGAATTAAAAGTTTTGATCT
1 GAAAAAAATAAAATAAAAACAGAATTAAAAGTTTTGATCT
47821662 GAAAAAAATAAAATAAAAACAGAATTAAAAGTTTTGAT-T
1 GAAAAAAATAAAATAAAAACAGAATTAAAAGTTTTGATCT
47821701 GAAA
1 GAAA
47821705 TTTCAAAAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
38 8 0.20
39 8 0.20
40 24 0.60
ACGTcount: A:0.60, C:0.04, G:0.12, T:0.23
Consensus pattern (40 bp):
GAAAAAAATAAAATAAAAACAGAATTAAAAGTTTTGATCT
Found at i:47822451 original size:10 final size:10
Alignment explanation
Indices: 47822435--47822483 Score: 64
Period size: 10 Copynumber: 4.9 Consensus size: 10
47822425 TAAATTCTAG
47822435 AAGATAAATA
1 AAGATAAATA
*
47822445 TAGATAAATA
1 AAGATAAATA
*
47822455 AAGATAATTA
1 AAGATAAATA
47822465 AAGATAAATGA
1 AAGATAAAT-A
47822476 AA-ATAAAT
1 AAGATAAAT
47822484 CCTAAAATTA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
10 31 0.91
11 3 0.09
ACGTcount: A:0.65, C:0.00, G:0.10, T:0.24
Consensus pattern (10 bp):
AAGATAAATA
Found at i:47823123 original size:107 final size:105
Alignment explanation
Indices: 47822929--47823162 Score: 263
Period size: 107 Copynumber: 2.2 Consensus size: 105
47822919 AAATGCAAGA
* * * * * * *
47822929 CCATATAGTTGAGATCCATGGCATTGTGTGATACGAAACTACTCACGGTGTTGCTTCTATAAGAT
1 CCATATGGCTGAGA-CCATGGCATTGTGTAATACAAAACCACTCACGGTATTGCTTCCATAAGAT
* * ** *
47822994 GAAGTTTGGATTGGCAGATCACGACATGATTAGGTGTAAGC
65 GAAGTCTAGATTGGCAGATCACGACATGAGAAGGTATAAGC
* * *
47823035 CCTTGTGGCTGAGACCAATGGCTTTGTGTAATACAAAACCACTCACGGTATTGGC-TCCAGTAAG
1 CCATATGGCTGAGACC-ATGGCATTGTGTAATACAAAACCACTCACGGTATT-GCTTCCA-TAAG
* *
47823099 ATGAAGTCTAGATTGGCATATCACGACATGAGAAGGTATAAGT
63 ATGAAGTCTAGATTGGCAGATCACGACATGAGAAGGTATAAGC
47823142 CCATATGGCTGAGACTCATGG
1 CCATATGGCTGAGAC-CATGG
47823163 TATAATATGA
Statistics
Matches: 105, Mismatches: 19, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
105 2 0.02
106 43 0.41
107 59 0.56
108 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (105 bp):
CCATATGGCTGAGACCATGGCATTGTGTAATACAAAACCACTCACGGTATTGCTTCCATAAGATG
AAGTCTAGATTGGCAGATCACGACATGAGAAGGTATAAGC
Found at i:47834068 original size:11 final size:11
Alignment explanation
Indices: 47834052--47834076 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
47834042 AGTTGAGGCG
47834052 ATGACAAATAT
1 ATGACAAATAT
47834063 ATGACAAATAT
1 ATGACAAATAT
47834074 ATG
1 ATG
47834077 TAGGGTATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.08, G:0.12, T:0.28
Consensus pattern (11 bp):
ATGACAAATAT
Found at i:47844432 original size:30 final size:30
Alignment explanation
Indices: 47844398--47844455 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
47844388 TCCGAGCCTT
*
47844398 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
47844428 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
47844456 NTAAAAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:47849772 original size:13 final size:13
Alignment explanation
Indices: 47849754--47849785 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
47849744 TTTCCAGCAA
47849754 TTATGAATTTATT
1 TTATGAATTTATT
47849767 TTATGAATTTATT
1 TTATGAATTTATT
*
47849780 TGATGA
1 TTATGA
47849786 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:47851611 original size:37 final size:37
Alignment explanation
Indices: 47851540--47851611 Score: 94
Period size: 37 Copynumber: 1.9 Consensus size: 37
47851530 AAAAATATAT
* *
47851540 ATATAAAATATTTACAATAATGATGTAAATAAACAAC
1 ATATAAAATATTTACAATAATCATATAAATAAACAAC
47851577 ATATAAAATATTTGA-AATAA-CATATAAATGAAACA
1 ATATAAAATATTT-ACAATAATCATATAAAT-AAACA
47851612 TTTAAAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 7 0.23
37 23 0.74
38 1 0.03
ACGTcount: A:0.58, C:0.07, G:0.06, T:0.29
Consensus pattern (37 bp):
ATATAAAATATTTACAATAATCATATAAATAAACAAC
Found at i:47851840 original size:118 final size:119
Alignment explanation
Indices: 47851688--47851925 Score: 406
Period size: 118 Copynumber: 2.0 Consensus size: 119
47851678 AGGATATAAA
**
47851688 ATTATAAATATTGGATAGTTAATTAGGGATCAAAATGAAAACCAAACAAGATCTGAGGGCCAAAT
1 ATTATAAATATTGGATAGTTAATTAGGGATCAAAACAAAAACCAAACAAGATCTGAGGGCCAAAT
47851753 TT-AAAAAAACAAAAGAAGATAGAAAATGAGGGTTAATTGAATGAGGTTGCGAG
66 TTAAAAAAAACAAAAGAAGATAGAAAATGAGGGTTAATTGAATGAGGTTGCGAG
47851806 ATTATAAATATTGGATAGTTAATTAGGGATCAAAACAAAAACCAAACAAGATCTGAGGGCCAAAT
1 ATTATAAATATTGGATAGTTAATTAGGGATCAAAACAAAAACCAAACAAGATCTGAGGGCCAAAT
*
47851871 TTAAAAAAAAAAAACAAAAGAAGATAGAAAATGGGGGTTAATTGAATGAGGTTGC
66 TT----AAAAAAAACAAAAGAAGATAGAAAATGAGGGTTAATTGAATGAGGTTGC
47851926 AAGAGAGGAC
Statistics
Matches: 112, Mismatches: 3, Indels: 5
0.93 0.03 0.04
Matches are distributed among these distances:
118 65 0.58
123 47 0.42
ACGTcount: A:0.49, C:0.08, G:0.21, T:0.22
Consensus pattern (119 bp):
ATTATAAATATTGGATAGTTAATTAGGGATCAAAACAAAAACCAAACAAGATCTGAGGGCCAAAT
TTAAAAAAAACAAAAGAAGATAGAAAATGAGGGTTAATTGAATGAGGTTGCGAG
Found at i:47852338 original size:127 final size:127
Alignment explanation
Indices: 47852112--47852365 Score: 445
Period size: 127 Copynumber: 2.0 Consensus size: 127
47852102 CCCCTTTTTC
* *
47852112 TTTCTGTCGATTGGGTTCCTTAGAGACCCGCCCTACCCCCAACGACGACGGCGGTGACCGCCGTG
1 TTTCTGTCGATTGGGTTCCTTAGAGACCCGCCCTACCCCCAACGACGACGGCAGTGACCACCGTG
*
47852177 TACAGCGAAGGAGTGCAACCTAGGTACGCCTACTTTAAAATTTTTTTATGTTTCTTGGTTAA
66 TACAGCGAAGGAGCGCAACCTAGGTACGCCTACTTTAAAATTTTTTTATGTTTCTTGGTTAA
* *
47852239 TTTCTGTCGATTGGGTTCCTTAGAGACTCGCCCTACCGCCAACGACGACGGCAGTGACCACCGTG
1 TTTCTGTCGATTGGGTTCCTTAGAGACCCGCCCTACCCCCAACGACGACGGCAGTGACCACCGTG
* *
47852304 TACAGCGACGGAGCGCAACCTAGGTACGCCTACTTTAAAATTTTTTTATGTTTCTTTGTTAA
66 TACAGCGAAGGAGCGCAACCTAGGTACGCCTACTTTAAAATTTTTTTATGTTTCTTGGTTAA
47852366 AAAAAGGTTT
Statistics
Matches: 120, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
127 120 1.00
ACGTcount: A:0.22, C:0.26, G:0.23, T:0.30
Consensus pattern (127 bp):
TTTCTGTCGATTGGGTTCCTTAGAGACCCGCCCTACCCCCAACGACGACGGCAGTGACCACCGTG
TACAGCGAAGGAGCGCAACCTAGGTACGCCTACTTTAAAATTTTTTTATGTTTCTTGGTTAA
Found at i:47852513 original size:87 final size:86
Alignment explanation
Indices: 47852375--47852547 Score: 328
Period size: 87 Copynumber: 2.0 Consensus size: 86
47852365 AAAAAAGGTT
47852375 TTCTTGAAAAAGAAAAGAAAAAAAACAATGAATAAATATGAAAAAAAACAAGGTAAGCAGAGAAC
1 TTCTTGAAAAAGAAAAGAAAAAAAACAATGAATAAATATGAAAAAAAACAAGGTAAGCAGAGAAC
47852440 AAAAAGAAGAAAAAAGGAAAA
66 AAAAAGAAGAAAAAAGGAAAA
47852461 TTCTTGAAAAAGAAAAGGAAAAAAAACAATGAATAAATATGAAAAAAAACAAGGTAAGCAGAGAA
1 TTCTTGAAAAAGAAAA-GAAAAAAAACAATGAATAAATATGAAAAAAAACAAGGTAAGCAGAGAA
*
47852526 CAAAAAGAAGAGAAAAGGAAAA
65 CAAAAAGAAGAAAAAAGGAAAA
47852548 AAAGAACAAA
Statistics
Matches: 85, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
86 16 0.19
87 69 0.81
ACGTcount: A:0.66, C:0.06, G:0.17, T:0.10
Consensus pattern (86 bp):
TTCTTGAAAAAGAAAAGAAAAAAAACAATGAATAAATATGAAAAAAAACAAGGTAAGCAGAGAAC
AAAAAGAAGAAAAAAGGAAAA
Found at i:47852880 original size:143 final size:144
Alignment explanation
Indices: 47852708--47852998 Score: 539
Period size: 143 Copynumber: 2.0 Consensus size: 144
47852698 TACAAGTTTT
* *
47852708 TTTATTACTTTTGCCATATTTTCCCGTCTTGCTTGTTTGCTCTATTTTTGCAGGGTATGGGGGCG
1 TTTATTACTTTTGCCATATTTTCCCGTCTTGCTTGTTTGCGCTATTTTTGCAGGGTATGGGAGCG
47852773 ACTGGTGGAGCAGGTGATGGTGGCTGGTGTCAGAGGAAAGTGGGGAGGTGGCTAGGGTTTTTTT-
66 ACTGGTGGAGCAGGTGATGGTGGCTGGTGTCAGAGGAAAGTGGGGAGGTGGCTAGGGTTTTTTTC
47852837 TTTGCTGGAAAATG
131 TTTGCTGGAAAATG
* *
47852851 TTTATTACTTTTGCCATATTTTCCCGTCTTGCTTGTTTGCGCTGTTTTTGCAGGGTATGGGAGTG
1 TTTATTACTTTTGCCATATTTTCCCGTCTTGCTTGTTTGCGCTATTTTTGCAGGGTATGGGAGCG
47852916 ACTGGTGGAGCAGGTGATGGTGGCTGGTGTCAGAGGAAAGTGGGGAGGTGGCTAGGGTTTTTTTC
66 ACTGGTGGAGCAGGTGATGGTGGCTGGTGTCAGAGGAAAGTGGGGAGGTGGCTAGGGTTTTTTTC
47852981 TTTGCTGGAAAATG
131 TTTGCTGGAAAATG
47852995 TTTA
1 TTTA
47852999 GTAGGTTAGT
Statistics
Matches: 143, Mismatches: 4, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
143 125 0.87
144 18 0.13
ACGTcount: A:0.15, C:0.12, G:0.34, T:0.38
Consensus pattern (144 bp):
TTTATTACTTTTGCCATATTTTCCCGTCTTGCTTGTTTGCGCTATTTTTGCAGGGTATGGGAGCG
ACTGGTGGAGCAGGTGATGGTGGCTGGTGTCAGAGGAAAGTGGGGAGGTGGCTAGGGTTTTTTTC
TTTGCTGGAAAATG
Found at i:47853208 original size:128 final size:128
Alignment explanation
Indices: 47852980--47853237 Score: 498
Period size: 128 Copynumber: 2.0 Consensus size: 128
47852970 GGGTTTTTTT
47852980 CTTTGCTGGAAAATGTTTAGTAGGTTAGTTTAGGTGGGCTGTTGGTTTAGATTGGGTTTGATAAT
1 CTTTGCTGGAAAATGTTTAGTAGGTTAGTTTAGGTGGGCTGTTGGTTTAGATTGGGTTTGATAAT
47853045 GTTGGGCTGATGAAATTGGGGTGGGTATTTGGTTGTATTTGGGCCAAAATTGGCCTACAACAG
66 GTTGGGCTGATGAAATTGGGGTGGGTATTTGGTTGTATTTGGGCCAAAATTGGCCTACAACAG
*
47853108 CTTTGCTGGAAAATGTTTAGTAGGTTAGTTTAGGTGGGCTGTTGGTTTAGATTGGGTTTGATGAT
1 CTTTGCTGGAAAATGTTTAGTAGGTTAGTTTAGGTGGGCTGTTGGTTTAGATTGGGTTTGATAAT
*
47853173 GTTGGGTTGATGAAATTGGGGTGGGTATTTGGTTGTATTTGGGCCAAAATTGGCCTACAACAG
66 GTTGGGCTGATGAAATTGGGGTGGGTATTTGGTTGTATTTGGGCCAAAATTGGCCTACAACAG
47853236 CT
1 CT
47853238 GCCCCTCTTT
Statistics
Matches: 128, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
128 128 1.00
ACGTcount: A:0.21, C:0.08, G:0.34, T:0.38
Consensus pattern (128 bp):
CTTTGCTGGAAAATGTTTAGTAGGTTAGTTTAGGTGGGCTGTTGGTTTAGATTGGGTTTGATAAT
GTTGGGCTGATGAAATTGGGGTGGGTATTTGGTTGTATTTGGGCCAAAATTGGCCTACAACAG
Found at i:47853884 original size:88 final size:87
Alignment explanation
Indices: 47853771--47854089 Score: 344
Period size: 88 Copynumber: 3.6 Consensus size: 87
47853761 ACGTGAACAA
* * * *
47853771 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA-AAACAGAATTTGCCAAACAGATTTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTG-AAAAAAGATTTT
* *
47853835 GGAAACACCTTGGTATGTGACCCG
65 GAAAACACCTTAG-ATGTGACCCG
* * *
47853859 AGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGA-AAAGCATAAATTGAAAAAACATTAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAA-CAGAAATTGAAAAAAGATT--
* * *
47853923 TTGAAAATACCTCAG-CGTG-CCTCG
63 TTGAAAACACCTTAGATGTGACC-CG
* * **
47853947 AGGCTCAACTCACCTCTCGCAATATGGGTTGA-TTTTGACGAACAGAAATTGAAAAATAGAAATT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAAAA-AGATTTT
* *
47854011 GAAAAGA-CTTCAGCATGTGAGCCG
65 GAAAACACCTT-AG-ATGTGACCCG
*
47854035 AGGCTCAACTCACCTCTCGCGATATGAGTTGATTTTTGACAAACAGAAATTGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAA
47854090 TTACCTCAGC
Statistics
Matches: 194, Mismatches: 26, Indels: 21
0.80 0.11 0.09
Matches are distributed among these distances:
85 2 0.01
86 10 0.05
87 21 0.11
88 121 0.62
89 29 0.15
90 11 0.06
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.27
Consensus pattern (87 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAAAAAGATTTTG
AAAACACCTTAGATGTGACCCG
Found at i:47853980 original size:176 final size:176
Alignment explanation
Indices: 47853771--47854485 Score: 587
Period size: 164 Copynumber: 4.3 Consensus size: 176
47853761 ACGTGAACAA
* * ** **
47853771 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA-AAACAGAATTTGCCAAACAGATTTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGACAAACAGAAATTGAAAAACAGAAATT
* * * *
47853835 GGAAACACCTT-GGTATGTGACCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGA-
65 GAAAACA-CTTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAC
*
47853898 AAAGCATAAATTGAAAAAACATTAATTGAAAATACCTCAGCGTGCCTCG
129 AAA-CAGAAATTGAAAAAACATTAATTGAAAATACCTCAGCGTGCCTCG
* * *
47853947 AGGCTCAACTCACCTCTCGCAATATGGGTTGATTTTGACGAACAGAAATTGAAAAATAGAAATTG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGACAAACAGAAATTGAAAAACAGAAATTG
* * *
47854012 AAAAGACTTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCGATATGAGTTGATTTTTGACAA
66 AAAACACTTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAA
*
47854077 ACAGAAATTG-------A--AA-T-----TACCTCAGCATGTCCT-G
131 ACAGAAATTGAAAAAACATTAATTGAAAATACCTCAGCGTG-CCTCG
*** * *
47854108 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAAGAGCAGAAATTGGAAAGCAGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGACAA-A-CAGAAATTGAAAAACAGAAA
* *
47854173 TCGAAAATACTTCAG--TGTG-CCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT-
63 TTGAAAACACTTCAGCATGTGACCC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
* * *
47854234 -----------TTG-ACAAACATAAATTGAAATTACCTCAGCGTGTCCT-G
127 ACAAACAGAAATTGAAAAAACATTAATTGAAAATACCTCAGCGTG-CCTCG
* *
47854272 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT-----------TTTGAAAAGCAGAAATTG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGACAAACAGAAATTGAAAAACAGAAATTG
* * * *
47854326 AAAATACCTCAGC--GTG-CCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTGAAA
66 AAAACACTTCAGCATGTGACCC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACA
** * *
47854388 AACAGAAATTGAAGAAAACAGAAATTGAAATTACCTCAGCATGTCCT-G
130 AACAGAAATTGAA-AAAACATTAATTGAAAATACCTCAGCGTG-CCTCG
* * *
47854436 AGGCTCAACTCACCTCTCGCAATACGAGTTGATTTTTAAAAAACAGAAAT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGACAAACAGAAAT
47854486 AAAATATCAT
Statistics
Matches: 449, Mismatches: 41, Indels: 98
0.76 0.07 0.17
Matches are distributed among these distances:
150 73 0.16
156 1 0.00
158 2 0.00
159 1 0.00
161 45 0.10
162 52 0.12
163 6 0.01
164 140 0.31
165 4 0.01
166 1 0.00
167 2 0.00
169 1 0.00
175 9 0.02
176 109 0.24
177 3 0.01
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.28
Consensus pattern (176 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGACAAACAGAAATTGAAAAACAGAAATTG
AAAACACTTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAA
ACAGAAATTGAAAAAACATTAATTGAAAATACCTCAGCGTGCCTCG
Found at i:47854157 original size:75 final size:74
Alignment explanation
Indices: 47854004--47854400 Score: 345
Period size: 75 Copynumber: 5.1 Consensus size: 74
47853994 ATTGAAAAAT
* * *
47854004 AGAAATTGAAAAGACTTCAGCATGTGAGCC-GAGGCTCAACTCACCTCTCGCGATATGAGTTGA-
1 AGAAATTGAAAATACCTCAGCATGT---CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
*
47854067 -TTTTTGACAAAC
63 TTTTTTGA-AAGC
*
47854079 AGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
*
47854144 TTTTAAGAGC
66 TTTGAA-AGC
* ** ** * * * * *
47854154 AGAAATTGGAAAGCAGAAATCGAAAATACTTCAGTGTGCCCTGAGGCTCAACTCACCTCTCGCAA
1 AGAAATT-GAAA--ATACCTC-AGCAT--GTC-CTGAG-GCT----C-AA-CTCACCTCTCGCAA
*
47854219 TATGAGTTGATTTTTTTGACAAAC
52 TATGAGTTGATTTTTTTGA-AAGC
* * *
47854243 ATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
47854308 TTTGAAAAGC
66 TTTG-AAAGC
* * *
47854318 AGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGA--TT
1 AGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
*
47854381 TTTGAAAAAC
66 TTTG-AAAGC
47854391 AGAAATTGAA
1 AGAAATTGAA
47854401 GAAAACAGAA
Statistics
Matches: 264, Mismatches: 38, Indels: 42
0.77 0.11 0.12
Matches are distributed among these distances:
72 2 0.01
73 53 0.20
74 1 0.00
75 129 0.49
76 6 0.02
77 1 0.00
78 3 0.01
79 3 0.01
81 4 0.02
82 6 0.02
83 4 0.02
85 2 0.01
86 3 0.01
87 1 0.00
88 5 0.02
89 40 0.15
90 1 0.00
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (74 bp):
AGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
TTTGAAAGC
Found at i:47854260 original size:164 final size:160
Alignment explanation
Indices: 47853921--47854472 Score: 614
Period size: 164 Copynumber: 3.4 Consensus size: 160
47853911 AAAAAACATT
* * *
47853921 AATTGAAAATACCTCAGCGTG-CCTCGAGGCTCAACTCACCTCTCGCAATATGGGTTGA--TTTT
1 AATTGAAATTACCTCAGCATGTCCT-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
* ** * *
47853983 GACGAACAGAAATTGAAAAATAGAAATTGAAAAGACTTCAGCATGTGAGCC-GAGGCTCAACTCA
65 TA-G-ACAGAAATTG-AAAGCAGAAATTGAAAATACTTCAG--TGTG-CCCTGAGGCTCAACTCA
*
47854047 CCTCTCGCGATATGAGTTGA--TTTTTGACAAACAGA
124 CCTCTCGCAATATGAGTTGATTTTTTTGACAAACAGA
47854082 AATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
1 AATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTT
*
47854147 TAAGAGCAGAAATTGGAAAGCAGAAATCGAAAATACTTCAGTGTGCCCTGAGGCTCAACTCACCT
65 T-AGA-CAGAAATT-GAAAGCAGAAATTGAAAATACTTCAGTGTGCCCTGAGGCTCAACTCACCT
*
47854212 CTCGCAATATGAGTTGATTTTTTTGACAAACATA
127 CTCGCAATATGAGTTGATTTTTTTGACAAACAGA
*
47854246 AATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
1 AATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
* *
47854311 -----G--A---AAAGCAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCG
66 AGACAGAAATTGAAAGCAGAAATTGAAAATACTTCAGTGTGCCCTGAGGCTCAACTCACCTCTCG
* *
47854366 CAATATGAGCTGATTTTTGAAAAACAGAAATTGAAGAAAACAGA
131 CAATATGAGTTGATTTTT------------TTG-A-CAAACAGA
*
47854410 AATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGATTTTT
1 AATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
47854473 AAAAAACAGA
Statistics
Matches: 347, Mismatches: 20, Indels: 45
0.84 0.05 0.11
Matches are distributed among these distances:
150 67 0.19
154 1 0.00
156 1 0.00
161 53 0.15
162 42 0.12
163 9 0.03
164 172 0.50
165 2 0.01
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (160 bp):
AATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
AGACAGAAATTGAAAGCAGAAATTGAAAATACTTCAGTGTGCCCTGAGGCTCAACTCACCTCTCG
CAATATGAGTTGATTTTTTTGACAAACAGA
Found at i:47854407 original size:16 final size:16
Alignment explanation
Indices: 47854386--47854416 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
47854376 TGATTTTTGA
47854386 AAAACAGAAATTGAAG
1 AAAACAGAAATTGAAG
47854402 AAAACAGAAATTGAA
1 AAAACAGAAATTGAA
47854417 ATTACCTCAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.65, C:0.06, G:0.16, T:0.13
Consensus pattern (16 bp):
AAAACAGAAATTGAAG
Found at i:47854469 original size:89 final size:90
Alignment explanation
Indices: 47854311--47854485 Score: 289
Period size: 89 Copynumber: 2.0 Consensus size: 90
47854301 TGATTTTTTT
* *
47854311 GAAAAGCAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGC
1 GAAAAGCAGAAATTGAAAATACCTCAGCATGCCCTGAGGCTCAACTCACCTCTCGCAATACGAGC
*
47854376 TGATTTTTGAAAAACAGAAATTGAA
66 TGATTTTTAAAAAACAGAAATTGAA
* * *
47854401 GAAAA-CAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATACGAGT
1 GAAAAGCAGAAATTGAAAATACCTCAGCATGCCCTGAGGCTCAACTCACCTCTCGCAATACGAGC
47854465 TGATTTTTAAAAAACAGAAAT
66 TGATTTTTAAAAAACAGAAAT
47854486 AAAATATCAT
Statistics
Matches: 79, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
89 74 0.94
90 5 0.06
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.23
Consensus pattern (90 bp):
GAAAAGCAGAAATTGAAAATACCTCAGCATGCCCTGAGGCTCAACTCACCTCTCGCAATACGAGC
TGATTTTTAAAAAACAGAAATTGAA
Found at i:47862702 original size:75 final size:75
Alignment explanation
Indices: 47862556--47863594 Score: 2024
Period size: 75 Copynumber: 13.9 Consensus size: 75
47862546 TGGAAAGCAG
* * * * *
47862556 AAATCGAAAATACTTCAGTGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
47862621 TGACAAACAT
66 TGACAAACAT
47862631 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
47862696 TGACAAACAT
66 TGACAAACAT
47862706 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
47862771 TGACAAACAT
66 TGACAAACAT
47862781 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
47862846 TGACAAACAT
66 TGACAAACAT
47862856 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
47862921 TGACAAACAT
66 TGACAAACAT
47862931 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
47862996 TGACAAACAT
66 TGACAAACAT
47863006 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
47863071 TGACAAACAT
66 TGACAAACAT
47863081 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
47863146 TGACAAACAT
66 TGACAAACAT
47863156 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
47863221 TGACAAACAT
66 TGACAAACAT
47863231 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
47863296 TGACAAACAT
66 TGACAAACAT
47863306 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
47863371 TGACAAACAT
66 TGACAAACAT
47863381 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
47863446 TGACAAACAT
66 TGACAAACAT
47863456 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
47863521 TGACAAACAT
66 TGACAAACAT
*
47863531 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGATTTTT
1 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
47863595 AAAAAACAGA
Statistics
Matches: 958, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 958 1.00
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (75 bp):
AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
TGACAAACAT
Found at i:47899142 original size:26 final size:25
Alignment explanation
Indices: 47899087--47899142 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 25
47899077 GGATATGTAT
*
47899087 ATTTTTATTTTAACATATTTTTCTA
1 ATTTTTATTTTAACATAGTTTTCTA
* *
47899112 TTTTTCTATTTTATATATAGTTTT-TA
1 ATTTT-TATTTTA-ACATAGTTTTCTA
47899138 ATTTT
1 ATTTT
47899143 AAAATAAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
25 4 0.16
26 13 0.52
27 8 0.32
ACGTcount: A:0.25, C:0.05, G:0.02, T:0.68
Consensus pattern (25 bp):
ATTTTTATTTTAACATAGTTTTCTA
Found at i:47900779 original size:45 final size:45
Alignment explanation
Indices: 47900729--47900850 Score: 199
Period size: 45 Copynumber: 2.7 Consensus size: 45
47900719 ATACGCTTAC
47900729 AATGAGTAAGACCATAGCTAAAAGATGCTATGACATTGTGACAAA
1 AATGAGTAAGACCATAGCTAAAAGATGCTATGACATTGTGACAAA
* * *
47900774 AATGAGTAAGACCATAGCTCAAAGATGCTATAACATTGTGACAAG
1 AATGAGTAAGACCATAGCTAAAAGATGCTATGACATTGTGACAAA
* *
47900819 AATGAGTAAGACCATAGCTGAAAGATGTTATG
1 AATGAGTAAGACCATAGCTAAAAGATGCTATG
47900851 GCGTGTTGGT
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 71 1.00
ACGTcount: A:0.43, C:0.13, G:0.21, T:0.23
Consensus pattern (45 bp):
AATGAGTAAGACCATAGCTAAAAGATGCTATGACATTGTGACAAA
Found at i:47900796 original size:23 final size:23
Alignment explanation
Indices: 47900729--47900796 Score: 54
Period size: 23 Copynumber: 3.0 Consensus size: 23
47900719 ATACGCTTAC
47900729 AATGAGTAAGACCATAGCT-AAA
1 AATGAGTAAGACCATAGCTCAAA
* * *
47900751 AGATG-CTATGA-CATTG-TGACAAA
1 A-ATGAGTAAGACCATAGCT--CAAA
47900774 AATGAGTAAGACCATAGCTCAAA
1 AATGAGTAAGACCATAGCTCAAA
47900797 GATGCTATAA
Statistics
Matches: 33, Mismatches: 6, Indels: 13
0.63 0.12 0.25
Matches are distributed among these distances:
20 1 0.03
21 4 0.12
22 8 0.24
23 15 0.45
24 4 0.12
25 1 0.03
ACGTcount: A:0.46, C:0.15, G:0.19, T:0.21
Consensus pattern (23 bp):
AATGAGTAAGACCATAGCTCAAA
Found at i:47905192 original size:23 final size:23
Alignment explanation
Indices: 47905162--47905207 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
47905152 TTAAAAGTAA
47905162 GATTTTCTCAAGATTTTTATGTT
1 GATTTTCTCAAGATTTTTATGTT
47905185 GATTTTCTCAAGATTTTTATGTT
1 GATTTTCTCAAGATTTTTATGTT
47905208 CTTTAGAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.22, C:0.09, G:0.13, T:0.57
Consensus pattern (23 bp):
GATTTTCTCAAGATTTTTATGTT
Found at i:47906907 original size:19 final size:19
Alignment explanation
Indices: 47906864--47906923 Score: 59
Period size: 21 Copynumber: 3.1 Consensus size: 19
47906854 ATTTTAAATA
47906864 AGTTTTTATTAATTTATAAT
1 AGTTTTTA-TAATTTATAAT
* *
47906884 A-TTTTTATAATTTCTCAT
1 AGTTTTTATAATTTATAAT
*
47906902 AGTTTTTTAATAATTTTTAAT
1 AG-TTTTT-ATAATTTATAAT
47906923 A
1 A
47906924 ATTATTTGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
18 10 0.30
19 6 0.18
20 6 0.18
21 11 0.33
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.60
Consensus pattern (19 bp):
AGTTTTTATAATTTATAAT
Found at i:47906920 original size:10 final size:10
Alignment explanation
Indices: 47906852--47906926 Score: 64
Period size: 10 Copynumber: 7.5 Consensus size: 10
47906842 ATATTTGTTG
*
47906852 TAATTTTAAA
1 TAATTTTTAA
*
47906862 TAAGTTTTTAT
1 TAA-TTTTTAA
*
47906873 TAATTTATAA
1 TAATTTTTAA
47906883 T-ATTTTT-A
1 TAATTTTTAA
* *
47906891 TAATTTCTCA
1 TAATTTTTAA
*
47906901 TAGTTTTTTAA
1 TA-ATTTTTAA
47906912 TAATTTTTAA
1 TAATTTTTAA
47906922 TAATT
1 TAATT
47906927 ATTTGAAAAA
Statistics
Matches: 51, Mismatches: 10, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
8 2 0.04
9 10 0.20
10 24 0.47
11 15 0.29
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.59
Consensus pattern (10 bp):
TAATTTTTAA
Found at i:47909662 original size:18 final size:18
Alignment explanation
Indices: 47909630--47909667 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
47909620 ACAATTTTGA
*
47909630 TTAAATTATAATTAT-TT
1 TTAAATTACAATTATCTT
47909647 TTAAATATACAATTATCTT
1 TTAAAT-TACAATTATCTT
47909666 TT
1 TT
47909668 TAACTTCTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 8 0.44
19 4 0.22
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.55
Consensus pattern (18 bp):
TTAAATTACAATTATCTT
Found at i:47921945 original size:31 final size:31
Alignment explanation
Indices: 47921910--47921971 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
47921900 AATAATAACC
47921910 CAATGACTTAAAT-AATAACTTTCAAATAGTT
1 CAATGACTTAAATGAA-AACTTTCAAATAGTT
* *
47921941 CAATGATTTAAATGAAAGCTTTCAAATAGTT
1 CAATGACTTAAATGAAAACTTTCAAATAGTT
47921972 TAGTGGCTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 26 0.93
32 2 0.07
ACGTcount: A:0.44, C:0.11, G:0.10, T:0.35
Consensus pattern (31 bp):
CAATGACTTAAATGAAAACTTTCAAATAGTT
Found at i:47923406 original size:20 final size:20
Alignment explanation
Indices: 47923370--47923409 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
47923360 CTTACAACTT
47923370 GAAAAATAAAATTTTTCATAA
1 GAAAAATAAAA-TTTTCATAA
47923391 GAAAATATAAAA-TTTCATA
1 GAAAA-ATAAAATTTTCATA
47923410 TTTCGATCAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 5 0.28
22 6 0.33
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.33
Consensus pattern (20 bp):
GAAAAATAAAATTTTCATAA
Found at i:47936768 original size:12 final size:11
Alignment explanation
Indices: 47936742--47936767 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
47936732 TCATCTGCCC
47936742 TTTTCTTTTTT
1 TTTTCTTTTTT
47936753 TTTTCTTTTTT
1 TTTTCTTTTTT
47936764 TTTT
1 TTTT
47936768 TTGCAATCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTCTTTTTT
Found at i:47942612 original size:12 final size:12
Alignment explanation
Indices: 47942591--47942631 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
47942581 TCAACAAAAA
* *
47942591 AAACATGCAAGC
1 AAACAAGCAAAC
47942603 AAACAAGCAAAC
1 AAACAAGCAAAC
*
47942615 AAACAAACAAAC
1 AAACAAGCAAAC
47942627 AAACA
1 AAACA
47942632 TCAAATCTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.66, C:0.24, G:0.07, T:0.02
Consensus pattern (12 bp):
AAACAAGCAAAC
Found at i:47942617 original size:4 final size:4
Alignment explanation
Indices: 47942602--47942631 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
47942592 AACATGCAAG
*
47942602 CAAA CAAG CAAA CAAA CAAA CAAA CAAA CA
1 CAAA CAAA CAAA CAAA CAAA CAAA CAAA CA
47942632 TCAAATCTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.70, C:0.27, G:0.03, T:0.00
Consensus pattern (4 bp):
CAAA
Found at i:47949394 original size:25 final size:26
Alignment explanation
Indices: 47949368--47949418 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
47949358 TAAAAAAATA
47949368 AAAATAAA-AA-TTCTAAAATTATAT
1 AAAATAAATAATTTCTAAAATTATAT
*
47949392 AAAATAAATAATTTTCTTAAATTATAT
1 AAAATAAATAA-TTTCTAAAATTATAT
47949419 TTTTACTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 8 0.35
25 2 0.09
27 13 0.57
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (26 bp):
AAAATAAATAATTTCTAAAATTATAT
Found at i:47949458 original size:21 final size:21
Alignment explanation
Indices: 47949433--47949473 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
47949423 ACTTTTGAAA
47949433 TTATAAAAAAATATAAAATTG
1 TTATAAAAAAATATAAAATTG
* *
47949454 TTATAAAAATATTTAAAATT
1 TTATAAAAAAATATAAAATT
47949474 AACATGAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (21 bp):
TTATAAAAAAATATAAAATTG
Found at i:47952527 original size:15 final size:16
Alignment explanation
Indices: 47952507--47952537 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
47952497 TAATGCAAAG
47952507 TGAATTG-AAATATAT
1 TGAATTGAAAATATAT
47952522 TGAATTGAAAATATAT
1 TGAATTGAAAATATAT
47952538 ATGATTAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.48, C:0.00, G:0.13, T:0.39
Consensus pattern (16 bp):
TGAATTGAAAATATAT
Done.