Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 237 of 356
Found at i:77919845 original size:23 final size:23
Alignment explanation
Indices: 77919796--77919846 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
77919786 CACGGACATG
**
77919796 TGGGCCCACACGGGTGAACCATG
1 TGGGCCCACACGGGTGAACCACA
77919819 TGGGCCCACACGGGTGAACCACA
1 TGGGCCCACACGGGTGAACCACA
77919842 TGGGC
1 TGGGC
77919847 GTGTAAGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.22, C:0.31, G:0.35, T:0.12
Consensus pattern (23 bp):
TGGGCCCACACGGGTGAACCACA
Found at i:77920112 original size:17 final size:18
Alignment explanation
Indices: 77920080--77920113 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
77920070 GAACTATGAT
*
77920080 ATCTGAATTGATTGTATG
1 ATCTGAATTAATTGTATG
77920098 ATCTG-ATTAATTGTAT
1 ATCTGAATTAATTGTAT
77920114 ATTAGGATGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.29, C:0.06, G:0.18, T:0.47
Consensus pattern (18 bp):
ATCTGAATTAATTGTATG
Found at i:77927969 original size:44 final size:45
Alignment explanation
Indices: 77927866--77928044 Score: 150
Period size: 44 Copynumber: 3.8 Consensus size: 45
77927856 GAATTTAAAA
* * * *
77927866 ATCTGAACTCGTTGAGTTGGTCCGGGTTCGTGA-TATGTAT-GAG-GC
1 ATCTGAGCTCGTTGAGTTGGTCCGAGTT--T-ATTATGGATACAGAGC
*
77927911 ATCTGAGCTGGTTGAGTTGGTCCGAGTTTATTATGGATAC-GAGC
1 ATCTGAGCTCGTTGAGTTGGTCCGAGTTTATTATGGATACAGAGC
* * * *
77927955 ATCCGAGCTTGTTGAGTTGGTCCGAGTTCATAATGGATGCGATACATGTGAC
1 ATCTGAGCTCGTTGAGTTGGTCCGAGTT--T-AT-TATG-GATACA-GAG-C
*
77928007 ATCTGAGCTCGTTGAGTTGGTCCGAGTTCATTATGGAT
1 ATCTGAGCTCGTTGAGTTGGTCCGAGTTTATTATGGAT
77928045 GTGATACATG
Statistics
Matches: 110, Mismatches: 13, Indels: 20
0.77 0.09 0.14
Matches are distributed among these distances:
42 1 0.01
43 8 0.07
44 28 0.25
45 25 0.23
46 1 0.01
47 5 0.05
48 6 0.05
49 7 0.06
51 2 0.02
52 27 0.25
ACGTcount: A:0.20, C:0.16, G:0.31, T:0.34
Consensus pattern (45 bp):
ATCTGAGCTCGTTGAGTTGGTCCGAGTTTATTATGGATACAGAGC
Found at i:77928021 original size:52 final size:52
Alignment explanation
Indices: 77927954--77928055 Score: 168
Period size: 52 Copynumber: 2.0 Consensus size: 52
77927944 TGGATACGAG
*
77927954 CATCCGAGCTTGTTGAGTTGGTCCGAGTTCATAATGGATGCGATACATGTGA
1 CATCCGAGCTCGTTGAGTTGGTCCGAGTTCATAATGGATGCGATACATGTGA
* * *
77928006 CATCTGAGCTCGTTGAGTTGGTCCGAGTTCATTATGGATGTGATACATGT
1 CATCCGAGCTCGTTGAGTTGGTCCGAGTTCATAATGGATGCGATACATGT
77928056 AATTGGGTTC
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.22, C:0.17, G:0.28, T:0.33
Consensus pattern (52 bp):
CATCCGAGCTCGTTGAGTTGGTCCGAGTTCATAATGGATGCGATACATGTGA
Found at i:77932064 original size:15 final size:16
Alignment explanation
Indices: 77932044--77932084 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
77932034 GTATCGTATA
77932044 TTGGATTTCTTC-ATC
1 TTGGATTTCTTCTATC
*
77932059 TTGGATTT-TTCTGTC
1 TTGGATTTCTTCTATC
77932074 TTGGATTTCTT
1 TTGGATTTCTT
77932085 TATTTTGGTC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 3 0.13
15 18 0.78
16 2 0.09
ACGTcount: A:0.10, C:0.15, G:0.17, T:0.59
Consensus pattern (16 bp):
TTGGATTTCTTCTATC
Found at i:77932092 original size:15 final size:15
Alignment explanation
Indices: 77932044--77932092 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
77932034 GTATCGTATA
*
77932044 TTGGATTTCTTCATC
1 TTGGATTTCTTTATC
*
77932059 TTGGATTT-TTCTGTC
1 TTGGATTTCTT-TATC
*
77932074 TTGGATTTCTTTATT
1 TTGGATTTCTTTATC
77932089 TTGG
1 TTGG
77932093 TCTTCTTGTC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
14 2 0.07
15 24 0.86
16 2 0.07
ACGTcount: A:0.10, C:0.12, G:0.18, T:0.59
Consensus pattern (15 bp):
TTGGATTTCTTTATC
Found at i:77934984 original size:45 final size:44
Alignment explanation
Indices: 77934918--77935178 Score: 186
Period size: 44 Copynumber: 5.7 Consensus size: 44
77934908 AAATCTGAAA
* * * *
77934918 TCGTTGAGTAGGTCCGGGTTCATGATATGTAAGAG-GCATCCGAGC
1 TCGTTGAGTTGGTCCGAGTTCAT--TATGGATGAGAGCATCCGAGC
* * * **
77934963 TCGTTGAGTTGGTCCGAGTTCATTATGGATGCGAGTATCTGAAA
1 TCGTTGAGTTGGTCCGAGTTCATTATGGATGAGAGCATCCGAGC
* * * * *
77935007 TTGTTGAGTAGGTTC-AGGTTCGTGATATGTATGAG-GCATCCGAGC
1 TCGTTGAGTTGGTCCGA-GTTCAT--TATGGATGAGAGCATCCGAGC
* * * *
77935052 TCGTTGAGTTGGTTCGAGTTCATTATGGATGCGACCATCCAAGC
1 TCGTTGAGTTGGTCCGAGTTCATTATGGATGAGAGCATCCGAGC
* *
77935096 TCGTTGAGTTGGTCCGAGTTCATAATGGATGCGATACATGTGACATCCGAGC
1 TCGTTGAGTTGGTCCGAGTTCAT--T--ATG-GAT-GA-GAG-CATCCGAGC
* *
77935148 TCGTTGAGTTGATCCAAGTTCATTATGGATG
1 TCGTTGAGTTGGTCCGAGTTCATTATGGATG
77935179 CGATACATGT
Statistics
Matches: 167, Mismatches: 35, Indels: 27
0.73 0.15 0.12
Matches are distributed among these distances:
43 16 0.10
44 53 0.32
45 45 0.27
46 10 0.06
47 3 0.02
48 6 0.04
49 3 0.02
50 1 0.01
51 1 0.01
52 29 0.17
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.32
Consensus pattern (44 bp):
TCGTTGAGTTGGTCCGAGTTCATTATGGATGAGAGCATCCGAGC
Found at i:77935061 original size:89 final size:89
Alignment explanation
Indices: 77934910--77935181 Score: 305
Period size: 89 Copynumber: 3.0 Consensus size: 89
77934900 GAATTTAGAA
*
77934910 ATCTGAAATCGTTGAGTAGGTCCGGGTTCATGATATGTAAGAGGCATCCGAGCTCGTTGAGTTGG
1 ATCTGAAATCGTTGAGTAGGTCCAGGTTCATGATATGTAAGAGGCATCCGAGCTCGTTGAGTTGG
77934975 TCCGAGTTCATTATGGATGCGAGT
66 TCCGAGTTCATTATGGATGCGAGT
* * * *
77934999 ATCTGAAATTGTTGAGTAGGTTCAGGTTCGTGATATGTATGAGGCATCCGAGCTCGTTGAGTTGG
1 ATCTGAAATCGTTGAGTAGGTCCAGGTTCATGATATGTAAGAGGCATCCGAGCTCGTTGAGTTGG
* **
77935064 TTCGAGTTCATTATGGATGCGACC
66 TCCGAGTTCATTATGGATGCGAGT
* * * * * *
77935088 ATC-CAAGCTCGTTGAGTTGGTCC-GAGTTCATAATGGATGCGATACATGTGACATCCGAGCTCG
1 ATCTGAA-ATCGTTGAGTAGGTCCAG-GTTCATGAT--AT--G-TA-A-GAGGCATCCGAGCTCG
* *
77935151 TTGAGTTGATCCAAGTTCATTATGGATGCGA
57 TTGAGTTGGTCCGAGTTCATTATGGATGCGA
77935182 TACATGTAAT
Statistics
Matches: 153, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
88 3 0.02
89 103 0.67
91 2 0.01
93 1 0.01
94 2 0.01
96 42 0.27
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (89 bp):
ATCTGAAATCGTTGAGTAGGTCCAGGTTCATGATATGTAAGAGGCATCCGAGCTCGTTGAGTTGG
TCCGAGTTCATTATGGATGCGAGT
Found at i:77935150 original size:52 final size:52
Alignment explanation
Indices: 77935087--77935188 Score: 168
Period size: 52 Copynumber: 2.0 Consensus size: 52
77935077 TGGATGCGAC
* *
77935087 CATCCAAGCTCGTTGAGTTGGTCCGAGTTCATAATGGATGCGATACATGTGA
1 CATCCAAGCTCGTTGAGTTGATCCAAGTTCATAATGGATGCGATACATGTGA
* *
77935139 CATCCGAGCTCGTTGAGTTGATCCAAGTTCATTATGGATGCGATACATGT
1 CATCCAAGCTCGTTGAGTTGATCCAAGTTCATAATGGATGCGATACATGT
77935189 AATTGGTTTC
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (52 bp):
CATCCAAGCTCGTTGAGTTGATCCAAGTTCATAATGGATGCGATACATGTGA
Found at i:77938846 original size:20 final size:20
Alignment explanation
Indices: 77938803--77938850 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
77938793 ATATCTTGAT
*
77938803 TTGATTTGATTCCAATCAAT
1 TTGATTTGATTCCAATCAAA
** *
77938823 TTGATTTGATTTTATTCAAA
1 TTGATTTGATTCCAATCAAA
77938843 TTGATTTG
1 TTGATTTG
77938851 TTAATGCATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.27, C:0.08, G:0.12, T:0.52
Consensus pattern (20 bp):
TTGATTTGATTCCAATCAAA
Found at i:77942826 original size:32 final size:30
Alignment explanation
Indices: 77942785--77942843 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
77942775 AGCATTTCTC
*
77942785 TTTAATTAATTTAGAAAATTCAATAAATTAAA
1 TTTAATTAA-TTA-AAAAATCAATAAATTAAA
* *
77942817 TTTAGTTAATTAAAAAATCAATTAATT
1 TTTAATTAATTAAAAAATCAATAAATT
77942844 TACTTGGCTG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 13 0.54
31 3 0.12
32 8 0.33
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.42
Consensus pattern (30 bp):
TTTAATTAATTAAAAAATCAATAAATTAAA
Found at i:77947566 original size:27 final size:27
Alignment explanation
Indices: 77947528--77947583 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
77947518 AGATATGTTC
77947528 ATCATAACAACAAAAAAAATTAAAGAG
1 ATCATAACAACAAAAAAAATTAAAGAG
*
77947555 ATCATAACAACAACAAAAATTAAAGAG
1 ATCATAACAACAAAAAAAATTAAAGAG
77947582 AT
1 AT
77947584 AGGGAACAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.64, C:0.12, G:0.07, T:0.16
Consensus pattern (27 bp):
ATCATAACAACAAAAAAAATTAAAGAG
Found at i:77947781 original size:13 final size:13
Alignment explanation
Indices: 77947763--77947787 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
77947753 ATTGAAATGG
77947763 AAAAATGAGAGAA
1 AAAAATGAGAGAA
77947776 AAAAATGAGAGA
1 AAAAATGAGAGA
77947788 TGAGAGAAGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.00, G:0.24, T:0.08
Consensus pattern (13 bp):
AAAAATGAGAGAA
Found at i:77951967 original size:17 final size:18
Alignment explanation
Indices: 77951940--77951973 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
77951930 AATTAAATAT
77951940 ATGCATATTAAATTATTA
1 ATGCATATTAAATTATTA
*
77951958 ATGC-TATTAATTTATT
1 ATGCATATTAAATTATT
77951974 TAAACAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (18 bp):
ATGCATATTAAATTATTA
Found at i:77965181 original size:31 final size:31
Alignment explanation
Indices: 77965146--77965212 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
77965136 AATAATTTCT
* *
77965146 ATTTTTATAACTTTTAAAAAATTAAATTAAA
1 ATTTTTATAACTTTTAAAAAACTAAAATAAA
* * **
77965177 ATTTTTATTATTTTTAAAGGACTAAAATAAA
1 ATTTTTATAACTTTTAAAAAACTAAAATAAA
77965208 ATTTT
1 ATTTT
77965213 ATCTTCACTA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (31 bp):
ATTTTTATAACTTTTAAAAAACTAAAATAAA
Found at i:77966385 original size:18 final size:18
Alignment explanation
Indices: 77966364--77966398 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
77966354 TAAAAAATAT
77966364 AATAAATTAAATACACCA
1 AATAAATTAAATACACCA
*
77966382 AATAAATTAAATGCACC
1 AATAAATTAAATACACC
77966399 CCTTGTGCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.57, C:0.17, G:0.03, T:0.23
Consensus pattern (18 bp):
AATAAATTAAATACACCA
Found at i:77968034 original size:17 final size:17
Alignment explanation
Indices: 77968012--77968045 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
77968002 ATGTGGTTCA
77968012 CCCGTGTGGCCCACATG
1 CCCGTGTGGCCCACATG
*
77968029 CCCGTGTGGCCTACATG
1 CCCGTGTGGCCCACATG
77968046 GCCCAATTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.12, C:0.38, G:0.29, T:0.21
Consensus pattern (17 bp):
CCCGTGTGGCCCACATG
Found at i:77973360 original size:24 final size:22
Alignment explanation
Indices: 77973332--77973395 Score: 74
Period size: 24 Copynumber: 2.8 Consensus size: 22
77973322 TAGAATACCG
77973332 CGAACTGTATTCATAGAAACGCCA
1 CGAACTGTATT-ATAGAAACG-CA
* *
77973356 CGAACTGCATTTATAGAAATGCA
1 CGAACTGTA-TTATAGAAACGCA
*
77973379 CGAACTATATTATAGAA
1 CGAACTGTATTATAGAA
77973396 TATTACAAAC
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
22 8 0.23
23 9 0.26
24 16 0.46
25 2 0.06
ACGTcount: A:0.41, C:0.19, G:0.16, T:0.25
Consensus pattern (22 bp):
CGAACTGTATTATAGAAACGCA
Found at i:77973722 original size:77 final size:78
Alignment explanation
Indices: 77973589--77973785 Score: 218
Period size: 77 Copynumber: 2.5 Consensus size: 78
77973579 CGTGTAAGTA
* * * * * * *
77973589 AAAGGTCGTGATCGTAAATCAACGGACCATAAGAAAGCCGAAGGCCATGGTTGTAAATTAGCGGA
1 AAAGGTCGTGATCGTAAATCAATGGACCATAAGAAAGCCAAAAGCCATGATCGTAAATCAGCGAA
*
77973654 -CGTAAGAAA-AT
66 CCGTAAGAAAGCT
* * * * *
77973665 CAAAGGTCATGATCGTAAATCAATGAACCATAAGAAAGTCAAAAGTCGTGATCGTAAATCAGCGA
1 -AAAGGTCGTGATCGTAAATCAATGGACCATAAGAAAGCCAAAAGCCATGATCGTAAATCAGCGA
77973730 ACCGTAAGAAAGCT
65 ACCGTAAGAAAGCT
* * * *
77973744 GAAGGTCGTGACCGTAAATCAGTGGACTATAAGAAAGCCAAA
1 AAAGGTCGTGATCGTAAATCAATGGACCATAAGAAAGCCAAA
77973786 GATCGCAATT
Statistics
Matches: 98, Mismatches: 20, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
77 53 0.54
78 44 0.45
79 1 0.01
ACGTcount: A:0.41, C:0.17, G:0.24, T:0.18
Consensus pattern (78 bp):
AAAGGTCGTGATCGTAAATCAATGGACCATAAGAAAGCCAAAAGCCATGATCGTAAATCAGCGAA
CCGTAAGAAAGCT
Found at i:77973765 original size:39 final size:40
Alignment explanation
Indices: 77973589--77973811 Score: 170
Period size: 39 Copynumber: 5.7 Consensus size: 40
77973579 CGTGTAAGTA
* *
77973589 AAAGGTCGTGATCGTAAATCAACGGACCATAAGAAAGC-C
1 AAAGGTCGTGATCGTAAATCAGCGAACCATAAGAAAGCTC
* * * * * * * * *
77973628 GAAGGCCATGGTTGTAAATTAGCGGA-CGTAAGAAA-ATC
1 AAAGGTCGTGATCGTAAATCAGCGAACCATAAGAAAGCTC
* **
77973666 AAAGGTCATGATCGTAAATCAATGAACCATAAGAAAG-TC
1 AAAGGTCGTGATCGTAAATCAGCGAACCATAAGAAAGCTC
* *
77973705 AAAAGTCGTGATCGTAAATCAGCGAACCGTAAGAAAGCT-
1 AAAGGTCGTGATCGTAAATCAGCGAACCATAAGAAAGCTC
* * * * *
77973744 GAAGGTCGTGACCGTAAATCAGTGGACTATAAGAAAGC-C
1 AAAGGTCGTGATCGTAAATCAGCGAACCATAAGAAAGCTC
* ** * *
77973783 AAAGATCGCAATTGTAAATCAGCAAACCA
1 AAAGGTCGTGATCGTAAATCAGCGAACCA
77973812 CGAGGTTCAT
Statistics
Matches: 139, Mismatches: 40, Indels: 10
0.74 0.21 0.05
Matches are distributed among these distances:
38 27 0.19
39 111 0.80
40 1 0.01
ACGTcount: A:0.41, C:0.17, G:0.23, T:0.18
Consensus pattern (40 bp):
AAAGGTCGTGATCGTAAATCAGCGAACCATAAGAAAGCTC
Found at i:77973800 original size:78 final size:78
Alignment explanation
Indices: 77973589--77973810 Score: 211
Period size: 78 Copynumber: 2.9 Consensus size: 78
77973579 CGTGTAAGTA
* * * * *
77973589 AAAGGTCGTGATCGTAAATCAACGGACCATAAGAAAGCCGAAG-GC-CATGGTTGTAAATTAGCG
1 AAAGGTCGTGATCGTAAATCAATGGACCATAAGAAAGCCAAAGATCGCA--ATTGTAAATCAGCG
*
77973652 GA-CGTAAGAAAATC
64 AACCGTAAGAAAATC
* * * ** *
77973666 AAAGGTCATGATCGTAAATCAATGAACCATAAGAAAGTCAAA-AGTCGTGATCGTAAATCAGCGA
1 AAAGGTCGTGATCGTAAATCAATGGACCATAAGAAAGCCAAAGA-TCGCAATTGTAAATCAGCGA
*
77973730 ACCGTAAG-AAAGC
65 ACCGTAAGAAAATC
* * * * *
77973743 TGAAGGTCGTGACCGTAAATCAGTGGACTATAAGAAAGCCAAAGATCGCAATTGTAAATCAGCAA
1 -AAAGGTCGTGATCGTAAATCAATGGACCATAAGAAAGCCAAAGATCGCAATTGTAAATCAGCGA
77973808 ACC
65 ACC
77973811 ACGAGGTTCA
Statistics
Matches: 115, Mismatches: 24, Indels: 11
0.77 0.16 0.07
Matches are distributed among these distances:
77 53 0.46
78 61 0.53
79 1 0.01
ACGTcount: A:0.41, C:0.18, G:0.23, T:0.18
Consensus pattern (78 bp):
AAAGGTCGTGATCGTAAATCAATGGACCATAAGAAAGCCAAAGATCGCAATTGTAAATCAGCGAA
CCGTAAGAAAATC
Found at i:77973879 original size:54 final size:54
Alignment explanation
Indices: 77973796--77974021 Score: 231
Period size: 54 Copynumber: 4.2 Consensus size: 54
77973786 GATCGCAATT
* * * * *
77973796 GTAAATCAGCAAACCACGAGGTTCATAAAATCTCATAAGTAAAAGGTCATAATC
1 GTAAATCAGCGAACCGCGAGATTCGTAAAATCTCATAAGTAAAAGGTCATGATC
* * *
77973850 GTAAATCAGTGAACCGCGAGATTCGTAAAATCCCATAAGTAAAAGGTCGTGATC
1 GTAAATCAGCGAACCGCGAGATTCGTAAAATCTCATAAGTAAAAGGTCATGATC
* * * * *
77973904 GTAAATCAGCGGACTGCAAGATTTGTAAAATC-CTGTAAGTAAAAGGTCATGATC
1 GTAAATCAGCGAACCGCGAGATTCGTAAAATCTC-ATAAGTAAAAGGTCATGATC
* ** ** **
77973958 ATAAATCAGCTG-ATTGCGAGATTCGTAAAATCTTGTAAGTAAAAGGTTGTGATC
1 GTAAATCAGC-GAACCGCGAGATTCGTAAAATCTCATAAGTAAAAGGTCATGATC
*
77974012 ATAAATCAGC
1 GTAAATCAGC
77974022 ATACCGTAAG
Statistics
Matches: 147, Mismatches: 22, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
53 1 0.01
54 145 0.99
55 1 0.01
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.25
Consensus pattern (54 bp):
GTAAATCAGCGAACCGCGAGATTCGTAAAATCTCATAAGTAAAAGGTCATGATC
Found at i:77974043 original size:39 final size:38
Alignment explanation
Indices: 77974007--77974140 Score: 144
Period size: 39 Copynumber: 3.4 Consensus size: 38
77973997 TAAAAGGTTG
* *
77974007 TGATCATAAATCAGCATACCGTAAGAACACTGAAGGTCA
1 TGATCGTAAATCAGCAGACCGTAAGAA-ACTGAAGGTCA
* * **
77974046 TGATCGTAAATCAAG-GGACCATAAGAAAACCAAAGGTCA
1 TGATCGTAAATC-AGCAGACCGTAAG-AAACTGAAGGTCA
* * *
77974085 TGATCGTAAATCAACAGATCGTAAGAAAGCTGAAGGTCG
1 TGATCGTAAATCAGCAGACCGTAAGAAA-CTGAAGGTCA
77974124 TGATCGTAAATCAGCAG
1 TGATCGTAAATCAGCAG
77974141 GCCGCGAGAT
Statistics
Matches: 77, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
38 4 0.05
39 69 0.90
40 4 0.05
ACGTcount: A:0.41, C:0.18, G:0.22, T:0.19
Consensus pattern (38 bp):
TGATCGTAAATCAGCAGACCGTAAGAAACTGAAGGTCA
Found at i:77984467 original size:20 final size:20
Alignment explanation
Indices: 77984439--77984485 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
77984429 AATTATAGAT
77984439 TAAAAAATAATTAAAGGGAC
1 TAAAAAATAATTAAAGGGAC
*
77984459 TAAAGAATAATTAAAGGGAC
1 TAAAAAATAATTAAAGGGAC
77984479 TAAAAAA
1 TAAAAAA
77984486 ACAATTATCC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.62, C:0.04, G:0.15, T:0.19
Consensus pattern (20 bp):
TAAAAAATAATTAAAGGGAC
Found at i:77984625 original size:35 final size:33
Alignment explanation
Indices: 77984540--77984634 Score: 77
Period size: 35 Copynumber: 2.8 Consensus size: 33
77984530 AAATTTATTT
* *
77984540 TATTATAAT-TATATAATATATATACTTAATAAT
1 TATTATAATATATATAATATATAT-TTTAATAAA
* *
77984573 TAAGTA-AACATATTATAATATATATTTTAACTTAAA
1 T-ATTATAATATA-TATAATATATATTTTAA--TAAA
* *
77984609 TATTATAATATATATAAAATAAATTT
1 TATTATAATATATATAATATATATTT
77984635 ACAGTTACTA
Statistics
Matches: 48, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
33 3 0.06
34 9 0.19
35 27 0.56
36 9 0.19
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (33 bp):
TATTATAATATATATAATATATATTTTAATAAA
Found at i:77989099 original size:30 final size:30
Alignment explanation
Indices: 77989045--77989102 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
77989035 ATGTCTGTGT
*
77989045 TGGATAATTAACAAACCCCTAATTAATTAA
1 TGGATAATTAACAAACCCCAAATTAATTAA
* * *
77989075 TGGATAATTAATAGACTCCAAATTAATT
1 TGGATAATTAACAAACCCCAAATTAATT
77989103 GATAACGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.45, C:0.14, G:0.09, T:0.33
Consensus pattern (30 bp):
TGGATAATTAACAAACCCCAAATTAATTAA
Found at i:77993433 original size:23 final size:23
Alignment explanation
Indices: 77993404--77993501 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
77993394 ATAAGTGCCA
77993404 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
77993427 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
77993450 CACTG-GATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
77993472 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
77993495 CACTGAT
1 CACTGAT
77993502 CAATAACACT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:77993469 original size:45 final size:45
Alignment explanation
Indices: 77993411--77993499 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
77993401 CCACACTGAT
* *
77993411 ATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTACCACTGG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
77993456 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
77993500 ATCAATAACA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.19
Consensus pattern (45 bp):
ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
Found at i:77993760 original size:18 final size:17
Alignment explanation
Indices: 77993727--77993765 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
77993717 ACTTTCCTTC
77993727 CACATTCAATATTAATT
1 CACATTCAATATTAATT
77993744 CACATATCAA-ATCTAATT
1 CACAT-TCAATAT-TAATT
77993762 CACA
1 CACA
77993766 ATTTATACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.44, C:0.23, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAATATTAATT
Found at i:77996911 original size:5 final size:5
Alignment explanation
Indices: 77996870--77996954 Score: 53
Period size: 5 Copynumber: 15.0 Consensus size: 5
77996860 AAGTACCAAA
* * *
77996870 AAAATT AAAAT AAAGT AGAAT AACAAT AAAAT GAAAT AAAAT AAAAAGT
1 AAAA-T AAAAT AAAAT AAAAT AA-AAT AAAAT AAAAT AAAAT -AAAA-T
77996919 AAAAATT AAAATT AAAAT AAATAGTT AAAAT AAAAT
1 -AAAA-T AAAA-T AAAAT AAA-A--T AAAAT AAAAT
77996955 TTCAACTTAA
Statistics
Matches: 66, Mismatches: 7, Indels: 13
0.77 0.08 0.15
Matches are distributed among these distances:
5 30 0.45
6 24 0.36
7 8 0.12
8 4 0.06
ACGTcount: A:0.69, C:0.01, G:0.06, T:0.24
Consensus pattern (5 bp):
AAAAT
Found at i:77996912 original size:21 final size:22
Alignment explanation
Indices: 77996869--77996952 Score: 64
Period size: 21 Copynumber: 3.7 Consensus size: 22
77996859 AAAGTACCAA
* *
77996869 AAAAATTAAAATAAAGTAGAAT
1 AAAAAGTAAAATAAAGTAAAAT
*
77996891 AACAA-TAAAATGAAA-TAAAAT
1 AAAAAGTAAAAT-AAAGTAAAAT
*
77996912 AAAAAGTAAAAATTAAAATTAAAAT
1 AAAAAGT-AAAA-T-AAAGTAAAAT
*
77996937 AAATAGTTAAAATAAA
1 AAAAAG-TAAAATAAA
77996953 ATTTCAACTT
Statistics
Matches: 51, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
21 15 0.29
22 8 0.16
23 7 0.14
24 5 0.10
25 15 0.29
26 1 0.02
ACGTcount: A:0.70, C:0.01, G:0.06, T:0.23
Consensus pattern (22 bp):
AAAAAGTAAAATAAAGTAAAAT
Found at i:77996929 original size:13 final size:13
Alignment explanation
Indices: 77996907--77996953 Score: 51
Period size: 13 Copynumber: 3.7 Consensus size: 13
77996897 AAAATGAAAT
77996907 AAAATAAAAAGTA
1 AAAATAAAAAGTA
* *
77996920 AAAATTAAAA-TT
1 AAAATAAAAAGTA
* *
77996932 AAAATAAATAGTT
1 AAAATAAAAAGTA
77996945 AAAATAAAA
1 AAAATAAAA
77996954 TTTCAACTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
12 9 0.32
13 19 0.68
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.23
Consensus pattern (13 bp):
AAAATAAAAAGTA
Found at i:77996930 original size:19 final size:19
Alignment explanation
Indices: 77996906--77996953 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
77996896 TAAAATGAAA
77996906 TAAAATAAAAAGTAAA-AAT
1 TAAAATAAAAA-TAAATAAT
* *
77996925 TAAAATTAAAATAAATAGT
1 TAAAATAAAAATAAATAAT
77996944 TAAAATAAAA
1 TAAAATAAAA
77996954 TTTCAACTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 4 0.16
19 21 0.84
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.25
Consensus pattern (19 bp):
TAAAATAAAAATAAATAAT
Found at i:77996935 original size:25 final size:24
Alignment explanation
Indices: 77996897--77996955 Score: 75
Period size: 25 Copynumber: 2.5 Consensus size: 24
77996887 GAATAACAAT
*
77996897 AAAATGAAA-TAAAATAAAAAGTA
1 AAAATAAAATTAAAATAAAAAGTA
* *
77996920 AAAATTAAAATTAAAATAAATAGTT
1 AAAA-TAAAATTAAAATAAAAAGTA
77996945 AAAATAAAATT
1 AAAATAAAATT
77996956 TCAACTTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
23 4 0.13
24 11 0.35
25 16 0.52
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.25
Consensus pattern (24 bp):
AAAATAAAATTAAAATAAAAAGTA
Found at i:78007420 original size:32 final size:32
Alignment explanation
Indices: 78007378--78007439 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 32
78007368 GGGGGCGAGA
*
78007378 TAATGAAAAATAATAAATTTTA-AAATAAAAAT
1 TAATGAAAAATAAT-AATTTAATAAATAAAAAT
*
78007410 TAATTAAAAATAATAATTTAATAAATAAAA
1 TAATGAAAAATAATAATTTAATAAATAAAA
78007440 TAAACTGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 6 0.22
32 21 0.78
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (32 bp):
TAATGAAAAATAATAATTTAATAAATAAAAAT
Found at i:78007430 original size:18 final size:18
Alignment explanation
Indices: 78007378--78007443 Score: 63
Period size: 17 Copynumber: 3.9 Consensus size: 18
78007368 GGGGGCGAGA
*
78007378 TAATGAAAAATAATAAAT
1 TAATTAAAAATAATAAAT
78007396 T--TT-AAAATAA-AAAT
1 TAATTAAAAATAATAAAT
*
78007410 TAATTAAAAATAATAATT
1 TAATTAAAAATAATAAAT
78007428 TAA-TAAATAA-AATAAA
1 TAATTAAA-AATAATAAA
78007444 CTGGAAAGAA
Statistics
Matches: 40, Mismatches: 3, Indels: 11
0.74 0.06 0.20
Matches are distributed among these distances:
14 5 0.12
15 7 0.17
16 3 0.08
17 16 0.40
18 9 0.22
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (18 bp):
TAATTAAAAATAATAAAT
Found at i:78009946 original size:18 final size:18
Alignment explanation
Indices: 78009923--78009963 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
78009913 ATCTTAAAAG
78009923 ATAAAA-AAAATAATAACT
1 ATAAAATAAAATAA-AACT
78009941 ATAAAATAAAATAAAACT
1 ATAAAATAAAATAAAACT
78009959 ATAAA
1 ATAAA
78009964 CTTTAAAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 15 0.68
19 7 0.32
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.22
Consensus pattern (18 bp):
ATAAAATAAAATAAAACT
Found at i:78009956 original size:25 final size:25
Alignment explanation
Indices: 78009928--78009982 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
78009918 AAAAGATAAA
*
78009928 AAAAATA-ATAACTATAAAATAAAAT
1 AAAAATATA-AACTATAAAACAAAAT
* * *
78009953 AAAACTATAAACTTTAAAACACAAT
1 AAAAATATAAACTATAAAACAAAAT
78009978 AAAAA
1 AAAAA
78009983 GAATTGTAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
25 23 0.96
26 1 0.04
ACGTcount: A:0.69, C:0.09, G:0.00, T:0.22
Consensus pattern (25 bp):
AAAAATATAAACTATAAAACAAAAT
Found at i:78013225 original size:22 final size:22
Alignment explanation
Indices: 78013165--78013256 Score: 62
Period size: 23 Copynumber: 4.1 Consensus size: 22
78013155 GCTTACTATT
* * * *
78013165 TTCAGCTCATTGGAACTTTCTG
1 TTCAGCTCAATAGAGCTTACTG
*
78013187 ATTCAACTC-ATATGAGCTTACTG
1 -TTCAGCTCAATA-GAGCTTACTG
**
78013210 TTCAGCTTGATAGAGCTTACCAT-
1 TTCAGCTCAATAGAGCTTA-C-TG
*
78013233 TTTAGCTCAATAGAGCTTACTG
1 TTCAGCTCAATAGAGCTTACTG
78013255 TT
1 TT
78013257 TATCGGCTTA
Statistics
Matches: 54, Mismatches: 10, Indels: 11
0.72 0.13 0.15
Matches are distributed among these distances:
21 1 0.02
22 17 0.31
23 35 0.65
24 1 0.02
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (22 bp):
TTCAGCTCAATAGAGCTTACTG
Found at i:78013447 original size:20 final size:20
Alignment explanation
Indices: 78013422--78013480 Score: 91
Period size: 20 Copynumber: 3.0 Consensus size: 20
78013412 GAATGAGATA
78013422 TGTTGAAATGGATGAATTAC
1 TGTTGAAATGGATGAATTAC
*
78013442 TGTTGAAATGAATGAATTAC
1 TGTTGAAATGGATGAATTAC
* *
78013462 TATTGATATGGATGAATTA
1 TGTTGAAATGGATGAATTA
78013481 TAGTTTATAC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.37, C:0.03, G:0.22, T:0.37
Consensus pattern (20 bp):
TGTTGAAATGGATGAATTAC
Found at i:78019516 original size:17 final size:18
Alignment explanation
Indices: 78019494--78019534 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
78019484 AAATATTAAT
78019494 AATTAATGAATT-AAAAA
1 AATTAATGAATTGAAAAA
* *
78019511 AATTAATTAATTGAATAA
1 AATTAATGAATTGAAAAA
78019529 AATTAA
1 AATTAA
78019535 AAATTAAGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (18 bp):
AATTAATGAATTGAAAAA
Found at i:78019521 original size:25 final size:27
Alignment explanation
Indices: 78019481--78019537 Score: 75
Period size: 25 Copynumber: 2.2 Consensus size: 27
78019471 GAAGATTTTA
*
78019481 AAAAAATATTAATAATT-AAT-GAATT
1 AAAAAATATTAATAATTGAATAAAATT
78019506 AAAAAA-ATTAATTAATTGAATAAAATT
1 AAAAAATATTAA-TAATTGAATAAAATT
78019533 AAAAA
1 AAAAA
78019538 TTAAGAGAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
24 5 0.18
25 11 0.39
26 3 0.11
27 9 0.32
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.32
Consensus pattern (27 bp):
AAAAAATATTAATAATTGAATAAAATT
Found at i:78044838 original size:18 final size:18
Alignment explanation
Indices: 78044815--78044850 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
78044805 CCGTGTGGAC
78044815 TGCCTGTGTAGGTCCACA
1 TGCCTGTGTAGGTCCACA
78044833 TGCCTGTGTAGGTCCACA
1 TGCCTGTGTAGGTCCACA
78044851 GGTCCACACG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.28, G:0.28, T:0.28
Consensus pattern (18 bp):
TGCCTGTGTAGGTCCACA
Found at i:78048633 original size:46 final size:46
Alignment explanation
Indices: 78048507--78048720 Score: 175
Period size: 46 Copynumber: 4.6 Consensus size: 46
78048497 ACTCGATACG
* * * **
78048507 ATGTCCCAGACATGGTCTTACACTAACTATCATCTCGTA-GCCAATGC
1 ATGTCCCAGACAT-GTCTTACACTAGCTCTCGTCTCG-AGGCTGATGC
* * * *
78048554 ATGTCCTAGACAAGTCTTACATTGGCT-TACGTCTCGAGGCTGATGC
1 ATGTCCCAGACATGTCTTACACTAGCTCT-CGTCTCGAGGCTGATGC
* * * *
78048600 ATGTCCTAAACATGTCTTACACTAGCTCTCGTCTCAATGCTGATGCC
1 ATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCGAGGCTGATG-C
* * * * *
78048647 ATGTCCCAGTCATGGTCTTACACT-GCTCTCATAAT-GTGGCCGATGC
1 ATGTCCCAGACAT-GTCTTACACTAGCTCTCGT-CTCGAGGCTGATGC
*
78048693 ATATCCCAGACATGTCTTACACTAGCTC
1 ATGTCCCAGACATGTCTTACACTAGCTC
78048721 ACAAAAAAAT
Statistics
Matches: 135, Mismatches: 25, Indels: 15
0.77 0.14 0.09
Matches are distributed among these distances:
45 12 0.09
46 76 0.56
47 36 0.27
48 11 0.08
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.30
Consensus pattern (46 bp):
ATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCGAGGCTGATGC
Found at i:78052030 original size:5 final size:5
Alignment explanation
Indices: 78052020--78052066 Score: 51
Period size: 5 Copynumber: 8.8 Consensus size: 5
78052010 ATAGAAAATC
78052020 TTATT TTATT TT-TAT TTATT TTATTT TTGATT TTATT TTGATT TTAT
1 TTATT TTATT TTAT-T TTATT TTA-TT TT-ATT TTATT TT-ATT TTAT
78052067 GTTAAATTAG
Statistics
Matches: 37, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
4 1 0.03
5 21 0.57
6 14 0.38
7 1 0.03
ACGTcount: A:0.19, C:0.00, G:0.04, T:0.77
Consensus pattern (5 bp):
TTATT
Found at i:78052036 original size:11 final size:11
Alignment explanation
Indices: 78052023--78052066 Score: 54
Period size: 11 Copynumber: 4.0 Consensus size: 11
78052013 GAAAATCTTA
78052023 TTTTATTTT-T
1 TTTTATTTTAT
*
78052033 ATTTATTTTAT
1 TTTTATTTTAT
78052044 TTTTGATTTTAT
1 TTTT-ATTTTAT
*
78052056 TTTGATTTTAT
1 TTTTATTTTAT
78052067 GTTAAATTAG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
10 8 0.28
11 11 0.38
12 10 0.34
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.77
Consensus pattern (11 bp):
TTTTATTTTAT
Found at i:78054546 original size:93 final size:93
Alignment explanation
Indices: 78054438--78054609 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
78054428 GCCCCTAAGT
* * *
78054438 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
78054503 CAAGCTCGGATGCCTAGTTACATCTCAC
66 CAAGCTCGGATGCCTAGTTACATCTCAC
* * *
78054531 GAACTCGGACTCAACTCAACGAGTTCGGATATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
* *
78054596 CGAGTTCGGATGCC
66 CAAGCTCGGATGCC
78054610 AACCATCCTA
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CAAGCTCGGATGCCTAGTTACATCTCAC
Found at i:78054605 original size:46 final size:46
Alignment explanation
Indices: 78054433--78054606 Score: 176
Period size: 46 Copynumber: 3.8 Consensus size: 46
78054423 AACCCGCCCC
***
78054433 TAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCAGACTCAACTCAACGAGCTCGGATATTCGCATCCA
* * *
78054479 TAAGTGAACTCGGACTCAACTCAACAAGCTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCAGACTCAACTCAACGAGCTCGGA----TA-TTCGCATCCA
* * * *
78054527 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGATATTCGCATCCA
1 TAAGTGAACTCAGACTCAACTCAACGAGCTCGGATATTCGCATCCA
*
78054572 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGAT
1 TAAGTGAACTCAGACTCAACTCAACGAGCTCGGAT
78054607 GCCAACCATC
Statistics
Matches: 105, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
44 1 0.01
45 2 0.02
46 60 0.57
47 27 0.26
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCAGACTCAACTCAACGAGCTCGGATATTCGCATCCA
Found at i:78055061 original size:30 final size:30
Alignment explanation
Indices: 78055027--78055086 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
78055017 ATTTAATACG
78055027 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
78055057 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
78055087 GGCTCGGGAA
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:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:78058676 original size:50 final size:47
Alignment explanation
Indices: 78058562--78058687 Score: 128
Period size: 48 Copynumber: 2.6 Consensus size: 47
78058552 TTAATTATAT
* * * *
78058562 GCTACTGTAAGACATGTCTGGGACATGGCATAGGCACGTATAGAGGT
1 GCTAGTGTAAGACATGTCTGGGACATGGCATAGACACGGATAGAGGA
* * *
78058609 G-TCAGTGTAAGATCATGTCCGGGACATGGCATCGACACGGATATGTGAGA
1 GCT-AGTGTAAGA-CATGTCTGGGACATGGCATAGACACGGATA-GAG-GA
*
78058659 GCTAGTGTAAGACCATGTTTGGGACATGG
1 GCTAGTGTAAGA-CATGTCTGGGACATGG
78058688 TGTCGGCCCC
Statistics
Matches: 64, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
46 1 0.02
47 9 0.14
48 26 0.41
49 2 0.03
50 25 0.39
51 1 0.02
ACGTcount: A:0.27, C:0.17, G:0.33, T:0.24
Consensus pattern (47 bp):
GCTAGTGTAAGACATGTCTGGGACATGGCATAGACACGGATAGAGGA
Found at i:78059988 original size:20 final size:21
Alignment explanation
Indices: 78059949--78059988 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
78059939 GTTATAATGA
*
78059949 TCACACGGGCGTATTGCCCTT
1 TCACACGGGCGTAGTGCCCTT
*
78059970 TCACACGGGTGT-GTGCCCT
1 TCACACGGGCGTAGTGCCCT
78059989 ATTTCAAGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.12, C:0.33, G:0.28, T:0.28
Consensus pattern (21 bp):
TCACACGGGCGTAGTGCCCTT
Found at i:78063898 original size:48 final size:48
Alignment explanation
Indices: 78063796--78063983 Score: 196
Period size: 48 Copynumber: 3.9 Consensus size: 48
78063786 AGGGTAAATT
* * * * * ** *
78063796 GCCGATGCCATGTCCTAGACAGGGTCTTACATTGGCTCACATATTGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAAC
* * * *** * *
78063844 GCCGATGCCATGTTCTAGACATGGTCTTACACTAGCTCTTGTCTCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAAC
* *
78063892 GTCGATGCCATGTCCCAAACATGGTCTTACACTAGCACACATATCAAC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAAC
* *
78063940 GCCGATGCCATGTCCCAGACATGTTCTTACACTAGCGCACATAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATAT
78063984 AACCCAAATG
Statistics
Matches: 115, Mismatches: 25, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
48 115 1.00
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAAC
Found at i:78063962 original size:96 final size:96
Alignment explanation
Indices: 78063798--78063975 Score: 248
Period size: 96 Copynumber: 1.9 Consensus size: 96
78063788 GGTAAATTGC
* * * * * ** * * *
78063798 CGATGCCATGTCCTAGACAGGGTCTTACATTGGCTCACATATTGAGGCCGATGCCATGTTCTAGA
1 CGATGCCATGTCCCAAACAGGGTCTTACACTAGCACACATATCAACGCCGATGCCATGTCCCAGA
78063863 CATGGTCTTACACTAGCTCTTGTCTCAATGT
66 CATGGTCTTACACTAGCTCTTGTCTCAATGT
*
78063894 CGATGCCATGTCCCAAACATGGTCTTACACTAGCACACATATCAACGCCGATGCCATGTCCCAGA
1 CGATGCCATGTCCCAAACAGGGTCTTACACTAGCACACATATCAACGCCGATGCCATGTCCCAGA
*
78063959 CATGTTCTTACACTAGC
66 CATGGTCTTACACTAGC
78063976 GCACATATAA
Statistics
Matches: 70, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
96 70 1.00
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.28
Consensus pattern (96 bp):
CGATGCCATGTCCCAAACAGGGTCTTACACTAGCACACATATCAACGCCGATGCCATGTCCCAGA
CATGGTCTTACACTAGCTCTTGTCTCAATGT
Found at i:78069967 original size:32 final size:32
Alignment explanation
Indices: 78069921--78069985 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
78069911 ACCTTAATGT
*
78069921 CCCTCCTACAGGCCTACAACGCCCCGAATACA
1 CCCTACTACAGGCCTACAACGCCCCGAATACA
* *
78069953 CCCTACTACGGGCCTACGACGCCCCGAATACA
1 CCCTACTACAGGCCTACAACGCCCCGAATACA
78069985 C
1 C
78069986 TTTGGAATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.26, C:0.46, G:0.15, T:0.12
Consensus pattern (32 bp):
CCCTACTACAGGCCTACAACGCCCCGAATACA
Found at i:78071313 original size:48 final size:48
Alignment explanation
Indices: 78071251--78071567 Score: 296
Period size: 48 Copynumber: 6.6 Consensus size: 48
78071241 TCATGTCTTG
* *
78071251 GACATGGTCTTACACTAGCTCACATATCGAGGCTGATGCCATGTCCCA
1 GACATGGTCTTACACTAGCTCACATATCAAGGCCGATGCCATGTCCCA
* * ** * * * *
78071299 GGCATGATCTTACACTAGCTCTTATCTCAATGCCGATGGCGTGTCCCA
1 GACATGGTCTTACACTAGCTCACATATCAAGGCCGATGCCATGTCCCA
* * * * **
78071347 AACATGGTCTTAGATTGGCTCTCACA-AT-GTGGCCGATGCCATGTCCCA
1 GACATGGTCTTACACTAG--CTCACATATCAAGGCCGATGCCATGTCCCA
* * * *
78071395 AACATGGTCTTACACTAGCGCACATACCAATGCCGATGCCATGTCCCA
1 GACATGGTCTTACACTAGCTCACATATCAAGGCCGATGCCATGTCCCA
* * *
78071443 GACATGGTCTTACACTAGCGCACCTATCAATGCCGATGCCATGTCCCA
1 GACATGGTCTTACACTAGCTCACATATCAAGGCCGATGCCATGTCCCA
* * * ** * **
78071491 GACATGGTCTTACACTGGCTCTCATAACGTGGTCGATGTTATGTCCCA
1 GACATGGTCTTACACTAGCTCACATATCAAGGCCGATGCCATGTCCCA
* * *
78071539 GACTTGATCTTACACTAGCGCACATATCA
1 GACATGGTCTTACACTAGCTCACATATCA
78071568 CTCAAATGTC
Statistics
Matches: 212, Mismatches: 53, Indels: 8
0.78 0.19 0.03
Matches are distributed among these distances:
46 5 0.02
47 1 0.00
48 201 0.95
49 1 0.00
50 4 0.02
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (48 bp):
GACATGGTCTTACACTAGCTCACATATCAAGGCCGATGCCATGTCCCA
Found at i:78071502 original size:144 final size:144
Alignment explanation
Indices: 78071252--78071564 Score: 401
Period size: 144 Copynumber: 2.2 Consensus size: 144
78071242 CATGTCTTGG
* * * * *
78071252 ACATGGTCTTACACTAGCTCACATATCGAGGCTGATGCCATGTCCCAGGCATGATCTTACACTAG
1 ACATGGTCTTACACTAGCGCACATACCAAGGCCGATGCCATGTCCCAGACATGATCTTACACTAG
* ** * * * * * *
78071317 CTCTTATCTCAATGCCGATGGCGTGTCCCAAACATGGTCTTAGATTGGCTCTCACAATGTGGCCG
66 CGCACATATCAATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCACAACGTGGCCG
78071382 ATGCCATGTCCCAA
131 ATGCCATGTCCCAA
* *
78071396 ACATGGTCTTACACTAGCGCACATACCAATGCCGATGCCATGTCCCAGACATGGTCTTACACTAG
1 ACATGGTCTTACACTAGCGCACATACCAAGGCCGATGCCATGTCCCAGACATGATCTTACACTAG
* * * *
78071461 CGCACCTATCAATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAACGTGGTCG
66 CGCACATATCAATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCACAACGTGGCCG
** *
78071526 ATGTTATGTCCCAG
131 ATGCCATGTCCCAA
* *
78071540 ACTTGATCTTACACTAGCGCACATA
1 ACATGGTCTTACACTAGCGCACATA
78071565 TCACTCAAAT
Statistics
Matches: 144, Mismatches: 25, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
144 144 1.00
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (144 bp):
ACATGGTCTTACACTAGCGCACATACCAAGGCCGATGCCATGTCCCAGACATGATCTTACACTAG
CGCACATATCAATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCACAACGTGGCCG
ATGCCATGTCCCAA
Found at i:78083696 original size:15 final size:16
Alignment explanation
Indices: 78083676--78083708 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
78083666 ATAGAAAACC
*
78083676 TTATTTT-ATTTTTAT
1 TTATTTTAATTTTGAT
78083691 TTATTTTAATTTTGAT
1 TTATTTTAATTTTGAT
78083707 TT
1 TT
78083709 TGTATTGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (16 bp):
TTATTTTAATTTTGAT
Found at i:78083719 original size:23 final size:21
Alignment explanation
Indices: 78083678--78083721 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 21
78083668 AGAAAACCTT
*
78083678 ATTTTATTTTTATTTATTTTA
1 ATTTTATTTTTATTGATTTTA
78083699 ATTTTGATTTTGTATTGATTTTA
1 ATTTT-ATTTT-TATTGATTTTA
78083722 TGTTAAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 5 0.25
22 5 0.25
23 10 0.50
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (21 bp):
ATTTTATTTTTATTGATTTTA
Found at i:78089453 original size:47 final size:48
Alignment explanation
Indices: 78089400--78089635 Score: 220
Period size: 46 Copynumber: 5.0 Consensus size: 48
78089390 GGTAAGGTGT
*
78089400 ATGGTCTTACACTGGCTCAT-ATCTC-AAGTCGATGCCATGTCCCAGAC
1 ATGGTCTTACACTGGCTCATCATCTCGAAGCCGATG-CATGTCCCAGAC
* *
78089447 ATGGTCTTACACTGACT-ATCATCTCGTAGCCGATGCATGTCCCAGAC
1 ATGGTCTTACACTGGCTCATCATCTCGAAGCCGATGCATGTCCCAGAC
* * * * * *
78089494 AT-GTCTTACAATGGCTTA-CGTCTCGAGGCCGATGTATGTCCCAAAC
1 ATGGTCTTACACTGGCTCATCATCTCGAAGCCGATGCATGTCCCAGAC
* * * *
78089540 AT-GTCTTACACTAGCAC-TCGTCTCGATGCCGATGCCATGTCCCAGAC
1 ATGGTCTTACACTGGCTCATCATCTCGAAGCCGATG-CATGTCCCAGAC
* * ** *
78089587 ATGGTCTTACACTAGCTC-TCATAAT-GTGGCCGATGAATGTCCCAGAC
1 ATGGTCTTACACTGGCTCATCAT-CTCGAAGCCGATGCATGTCCCAGAC
78089634 AT
1 AT
78089636 TTCCGACACT
Statistics
Matches: 159, Mismatches: 23, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
46 65 0.41
47 61 0.38
48 32 0.20
49 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.28
Consensus pattern (48 bp):
ATGGTCTTACACTGGCTCATCATCTCGAAGCCGATGCATGTCCCAGAC
Found at i:78091407 original size:12 final size:12
Alignment explanation
Indices: 78091387--78091419 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
78091377 CGTGTCATTA
78091387 CACACGGCCTAC
1 CACACGGCCTAC
*
78091399 CACATGGCCTAC
1 CACACGGCCTAC
78091411 CACACGGCC
1 CACACGGCC
78091420 GTGTGGCGTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.24, C:0.48, G:0.18, T:0.09
Consensus pattern (12 bp):
CACACGGCCTAC
Found at i:78094596 original size:135 final size:135
Alignment explanation
Indices: 78094425--78094673 Score: 383
Period size: 135 Copynumber: 1.8 Consensus size: 135
78094415 ACAAACAAAC
* * *
78094425 AATTAATAAATCAATAAGAATAATCCAACATAAATTACACTAATACAAGATTTAAAACTCAGTTA
1 AATTAATAAATCAATAAGAACAATCCAACATAAATTACACTAATACAAGATCTAAAACTAAGTTA
* *
78094490 ATATAGCAAACAAATTCAATGGAAATTAATAAAAACAA-AATATATGAACAAATTCAACATGAAT
66 ATATAGCAAACAAACTCAATGAAAATTAATAAAAA-AATAATATATGAACAAATTCAACATGAAT
78094554 AAAAAT
130 AAAAAT
* * * *
78094560 AATTAATAAATCAGTAAGAACAATCCAACATTAATTACACTAATACAAGATCTATAATTAAGTTA
1 AATTAATAAATCAATAAGAACAATCCAACATAAATTACACTAATACAAGATCTAAAACTAAGTTA
* *
78094625 ATATAGGAAACAAACTCAATGAAAATTAATAAAAAAATAGTATATGAAC
66 ATATAGCAAACAAACTCAATGAAAATTAATAAAAAAATAATATATGAAC
78094674 CATGCAAGCA
Statistics
Matches: 102, Mismatches: 11, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
134 2 0.02
135 100 0.98
ACGTcount: A:0.56, C:0.12, G:0.07, T:0.26
Consensus pattern (135 bp):
AATTAATAAATCAATAAGAACAATCCAACATAAATTACACTAATACAAGATCTAAAACTAAGTTA
ATATAGCAAACAAACTCAATGAAAATTAATAAAAAAATAATATATGAACAAATTCAACATGAATA
AAAAT
Found at i:78094764 original size:15 final size:15
Alignment explanation
Indices: 78094744--78094772 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
78094734 CATGAATAAA
78094744 AATAATTAATAAATC
1 AATAATTAATAAATC
78094759 AATAATTAATAAAT
1 AATAATTAATAAAT
78094773 AAGTAAGAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (15 bp):
AATAATTAATAAATC
Found at i:78095618 original size:168 final size:171
Alignment explanation
Indices: 78095130--78095630 Score: 485
Period size: 175 Copynumber: 2.9 Consensus size: 171
78095120 CAATCTAACT
* * * * * * * * * * *
78095130 TGAATGAAACTAATACAAGATTTATAACTCAGTTAATACAACAA-ACAAATTCAATGAAAATTGA
1 TGAATGACACTAATAAAAGATTTAGAATTCAATTAATATAGCAACA-AAAATCAATGGAAACTAA
* * * *
78095194 TAAGAACAAGATTGAGATTTAACTAAACTGGAACTTATAAACAAACAAATAAC-A-CTGTAAGAT
65 TAA-AAAAAGATTGAGATTTAACTAAACTAGAACTAACAAACAAACAAATAACAATCTGTAAGAT
* *
78095257 CCAACAAACCTTTTCAATGAGGTCCAAAACATCCAGACCAACA
129 CCAACAAACCTTTTCAATAACGTCCAAAACATCCAGACCAACA
** * * *** *
78095300 TGAATGACACTAATAAAAGATTTAGAATTCTGTTAATATAGCAACCAAATTTGTTGGAAATTAAT
1 TGAATGACACTAATAAAAGATTTAGAATTCAATTAATATAGCAACAAAAATCAATGGAAACTAAT
* * * * *
78095365 AAAAAAAGATTCAGATTTAACTAAACTAGACCTAACAAACAAACAAACAAATAATAGTTTGTAAG
66 AAAAAAAGATTGAGATTTAACTAAACTAG----AACTAACAAACAAACAAATAACAATCTGTAAG
* * * * **
78095430 ATCCAACAAACATTTTCAATAACGTCTAGAGCATCCTTACCAACA
127 ATCCAACAAACCTTTTCAATAACGTCCAAAACATCCAGACCAACA
* * * *
78095475 CT-AATGACACTTATACAAGATTTAGAATTCAATTATTATAGTAA-AAAAATCAATGGAAACTAA
1 -TGAATGACACTAATAAAAGATTTAGAATTCAATTAATATAGCAACAAAAATCAATGGAAACTAA
* *
78095538 T-AAAAAA-ATTGGGATTTAACTAAACTAGAACTAACAAACAAACAAATAACAATCTATAAGATC
65 TAAAAAAAGATTGAGATTTAACTAAACTAGAACTAACAAACAAACAAATAACAATCTGTAAGATC
* * *
78095601 CAACAGACCTTTTCAATAAGGTCCAGAACA
130 CAACAAACCTTTTCAATAACGTCCAAAACA
78095631 ACCTGATTAT
Statistics
Matches: 269, Mismatches: 54, Indels: 18
0.79 0.16 0.05
Matches are distributed among these distances:
168 55 0.20
169 24 0.09
170 53 0.20
172 19 0.07
173 24 0.09
174 14 0.05
175 79 0.29
176 1 0.00
ACGTcount: A:0.49, C:0.16, G:0.10, T:0.25
Consensus pattern (171 bp):
TGAATGACACTAATAAAAGATTTAGAATTCAATTAATATAGCAACAAAAATCAATGGAAACTAAT
AAAAAAAGATTGAGATTTAACTAAACTAGAACTAACAAACAAACAAATAACAATCTGTAAGATCC
AACAAACCTTTTCAATAACGTCCAAAACATCCAGACCAACA
Found at i:78098922 original size:15 final size:15
Alignment explanation
Indices: 78098902--78098930 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
78098892 CATGAATGAA
78098902 AATAATTAATAAATC
1 AATAATTAATAAATC
78098917 AATAATTAATAAAT
1 AATAATTAATAAAT
78098931 TAGTAAGATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (15 bp):
AATAATTAATAAATC
Found at i:78099051 original size:16 final size:16
Alignment explanation
Indices: 78099030--78099061 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
78099020 CCAAGATTAA
78099030 GATTTAACTAAATTGG
1 GATTTAACTAAATTGG
78099046 GATTTAACTAAATTGG
1 GATTTAACTAAATTGG
78099062 AACAAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.19, T:0.38
Consensus pattern (16 bp):
GATTTAACTAAATTGG
Found at i:78100605 original size:16 final size:16
Alignment explanation
Indices: 78100584--78100616 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
78100574 TAACATCTTG
78100584 ATTATCAACAAATTTA
1 ATTATCAACAAATTTA
78100600 ATTATCAACAAATTTA
1 ATTATCAACAAATTTA
78100616 A
1 A
78100617 GATGAATGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (16 bp):
ATTATCAACAAATTTA
Found at i:78109796 original size:48 final size:46
Alignment explanation
Indices: 78109597--78109809 Score: 207
Period size: 46 Copynumber: 4.6 Consensus size: 46
78109587 TGTGAGGCAA
* ** *
78109597 TGTAAGACATGTCTGGGACATGCATCGGCCA-C-A-TCATGAGTGCCAG
1 TGTAAGACATGTCTGGGACATGCATCGG-CATCGAGACA--AAAGCTAG
* * * * *
78109643 TGTAAGACATGTCTGGGATATGCATCAGCATTGAGACGAGAGCTAG
1 TGTAAGACATGTCTGGGACATGCATCGGCATCGAGACAAAAGCTAG
* *
78109689 TGTAAGACATGTCTGGGACATGCATCGGCATTGAGACAAGAGCTAG
1 TGTAAGACATGTCTGGGACATGCATCGGCATCGAGACAAAAGCTAG
* * * *
78109735 TATAAGACATGTCTAGGACATGCATCGGCCTCGAGATATACAAGCTAG
1 TGTAAGACATGTCTGGGACATGCATCGGCATCGAGACA-A-AAGCTAG
*
78109783 TGTAAGACCTGTCTGGGACATGGCATC
1 TGTAAGACATGTCTGGGACAT-GCATC
78109810 AGCTTATTGT
Statistics
Matches: 142, Mismatches: 19, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
45 2 0.01
46 108 0.76
47 2 0.01
48 25 0.18
49 5 0.04
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (46 bp):
TGTAAGACATGTCTGGGACATGCATCGGCATCGAGACAAAAGCTAG
Found at i:78109893 original size:49 final size:49
Alignment explanation
Indices: 78109687--78109903 Score: 179
Period size: 49 Copynumber: 4.6 Consensus size: 49
78109677 GACGAGAGCT
* * * * * *
78109687 AGTGTAAGACATGTCTGGGACAT-GCATCGGCATTGAGACA--AGAG-C
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATATATGAAAGTC
* * * *
78109732 TAGTATAAGACATGTCTAGGACAT-GCATCGGCCTCGAGATAT-ACAAG-C
1 -AGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATATATGA-AAGTC
* ***
78109780 TAGTGTAAGACCTGTCTGGGACATGGCATCAG-CT---TAT-TGTGTGTC
1 -AGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATATATGAAAGTC
*
78109825 AGTGTAAGACCTGTTTGGGACATGGCATCGGCCTCGATATATGAAAGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATATATGAAAGTC
*
78109874 AATGTAAGACCTGTCTGGGACATGGCATCG
1 AGTGTAAGACCTGTCTGGGACATGGCATCG
78109904 ACTTCAATGT
Statistics
Matches: 140, Mismatches: 21, Indels: 17
0.79 0.12 0.10
Matches are distributed among these distances:
44 31 0.22
45 5 0.04
46 35 0.25
47 1 0.01
48 29 0.21
49 39 0.28
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATATATGAAAGTC
Found at i:78112587 original size:24 final size:24
Alignment explanation
Indices: 78112555--78112605 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
78112545 AACTTTTGCA
78112555 AGTTTGTATCATAAGGTAATTAGT
1 AGTTTGTATCATAAGGTAATTAGT
78112579 AGTTTGTATCATAAGGTAATTAGT
1 AGTTTGTATCATAAGGTAATTAGT
78112603 AGT
1 AGT
78112606 CAAGTGGTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.33, C:0.04, G:0.22, T:0.41
Consensus pattern (24 bp):
AGTTTGTATCATAAGGTAATTAGT
Found at i:78117003 original size:91 final size:91
Alignment explanation
Indices: 78116810--78117048 Score: 277
Period size: 91 Copynumber: 2.6 Consensus size: 91
78116800 ATTTGCATGC
* * * * **
78116810 TGTGTATTCACAACC-ATCTGGTAGCGTATTAACCTACAAC-CTTAGTGGTTCGCCCACCCATTA
1 TGTGTATTCACAACCGA-CTAGTAGCGTATTAACCTGCAACATTTGGTGGTTCATCCACCCATTA
*
78116873 TCTAGCAGTTTTTATCTACAATTATGT
65 TCTAGCAGTTTTTATCTACAATTATAT
* * *
78116900 TGTGTATTCACAACCGACTAGTAGCATATTAACCTGCAACATTTGGTGGCTCATCCACTCATTAT
1 TGTGTATTCACAACCGACTAGTAGCGTATTAACCTGCAACATTTGGTGGTTCATCCACCCATTAT
* * *
78116965 CTGGTAGCTTTTT-TCTGCAATTATAT
66 CTAGCAG-TTTTTATCTACAATTATAT
* * * * *
78116991 TGTGTATTCACAATCGTCTAGCAACGTATTAACCTGCAACATTTGATGGTTCATCCAC
1 TGTGTATTCACAACCGACTAGTAGCGTATTAACCTGCAACATTTGGTGGTTCATCCAC
78117049 AACCCGATGT
Statistics
Matches: 126, Mismatches: 20, Indels: 5
0.83 0.13 0.03
Matches are distributed among these distances:
90 35 0.28
91 86 0.68
92 5 0.04
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (91 bp):
TGTGTATTCACAACCGACTAGTAGCGTATTAACCTGCAACATTTGGTGGTTCATCCACCCATTAT
CTAGCAGTTTTTATCTACAATTATAT
Found at i:78123147 original size:13 final size:13
Alignment explanation
Indices: 78123129--78123153 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
78123119 AAGTTTGAGA
78123129 TTTTGTTTTATTT
1 TTTTGTTTTATTT
78123142 TTTTGTTTTATT
1 TTTTGTTTTATT
78123154 ATATTAAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.00, G:0.08, T:0.84
Consensus pattern (13 bp):
TTTTGTTTTATTT
Found at i:78123682 original size:17 final size:18
Alignment explanation
Indices: 78123662--78123706 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
78123652 TTTATGTTTT
*
78123662 TTTTAGTTTT-CTATAAA
1 TTTTAGTTTTAATATAAA
78123679 TTTTAGTTTTTAATATAAA
1 TTTTAG-TTTTAATATAAA
78123698 TTTT-GTTTT
1 TTTTAGTTTT
78123707 TTTGTCGGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 10 0.40
18 5 0.20
19 10 0.40
ACGTcount: A:0.27, C:0.02, G:0.07, T:0.64
Consensus pattern (18 bp):
TTTTAGTTTTAATATAAA
Found at i:78123815 original size:10 final size:9
Alignment explanation
Indices: 78123738--78123819 Score: 53
Period size: 9 Copynumber: 9.1 Consensus size: 9
78123728 CATTTTTATA
78123738 TATATTTTT
1 TATATTTTT
*
78123747 TATATTTTC
1 TATATTTTT
*
78123756 TAGA-TTTT
1 TATATTTTT
78123764 TATATTTTTT
1 TATA-TTTTT
* **
78123774 TGTACGTTT
1 TATATTTTT
78123783 TATCA-TTTT
1 TAT-ATTTTT
*
78123792 TATCATTATT
1 TAT-ATTTTT
*
78123802 TAT-TATTT
1 TATATTTTT
78123810 TATATTTTT
1 TATATTTTT
78123819 T
1 T
78123820 TGTAATTTAA
Statistics
Matches: 55, Mismatches: 13, Indels: 10
0.71 0.17 0.13
Matches are distributed among these distances:
8 12 0.22
9 29 0.53
10 14 0.25
ACGTcount: A:0.22, C:0.05, G:0.04, T:0.70
Consensus pattern (9 bp):
TATATTTTT
Found at i:78123872 original size:20 final size:20
Alignment explanation
Indices: 78123830--78123872 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
78123820 TGTAATTTAA
**
78123830 TTTTACAATTTTCTATATTT
1 TTTTACAATTTTCTATAACT
*
78123850 TTTTACAATTTTTTATAACT
1 TTTTACAATTTTCTATAACT
78123870 TTT
1 TTT
78123873 ATGATTTATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTTACAATTTTCTATAACT
Found at i:78133968 original size:25 final size:25
Alignment explanation
Indices: 78133923--78133971 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
78133913 ATCATAACGA
*
78133923 ATCGTAACATATCACAACATATCAT
1 ATCGTAACATAGCACAACATATCAT
* *
78133948 ATCGTAACATAGCATAGCATATCA
1 ATCGTAACATAGCACAACATATCA
78133972 AATCATATCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.43, C:0.22, G:0.08, T:0.27
Consensus pattern (25 bp):
ATCGTAACATAGCACAACATATCAT
Found at i:78137770 original size:46 final size:46
Alignment explanation
Indices: 78137628--78137838 Score: 189
Period size: 46 Copynumber: 4.5 Consensus size: 46
78137618 TGTGCTAGTA
* * * *
78137628 TAAGACATGTTTGTGACATGCATTGGCCGC-ATTATGAGAGCCAGTG
1 TAAGACATGTTTGGGACATGCATCGGCCTCGA-GATGAGAGCCAGTG
* * * * *
78137674 TAAGACCATGTTTGGGACATGGTATCGGCATTGAGACGAGAGCTAGTG
1 TAAGA-CATGTTTGGGACAT-GCATCGGCCTCGAGATGAGAGCCAGTG
78137722 TAAGACATGTTTGGGACATGCATCGGCCTCGAGATGTA-AGCCAGTG
1 TAAGACATGTTTGGGACATGCATCGGCCTCGAGATG-AGAGCCAGTG
* * * * * *
78137768 TAAGACATGTCTGGGACATGCATCAG-CTATGAGAT--GTGTCAATG
1 TAAGACATGTTTGGGACATGCATCGGCCT-CGAGATGAGAGCCAGTG
78137812 TAAGACCATGTTTGGGACATGTCATCG
1 TAAGA-CATGTTTGGGACATG-CATCG
78137839 ACACGTATAG
Statistics
Matches: 135, Mismatches: 22, Indels: 16
0.78 0.13 0.09
Matches are distributed among these distances:
44 10 0.07
45 16 0.12
46 58 0.43
47 28 0.21
48 22 0.16
49 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.27
Consensus pattern (46 bp):
TAAGACATGTTTGGGACATGCATCGGCCTCGAGATGAGAGCCAGTG
Found at i:78137864 original size:48 final size:47
Alignment explanation
Indices: 78137766--78137930 Score: 171
Period size: 48 Copynumber: 3.5 Consensus size: 47
78137756 TGTAAGCCAG
* *
78137766 TGTAAGA-CATGTCTGGGACATGCATC-A-GCTATGAGATGTGTCAA
1 TGTAAGACCATGTCTGGGACATGCATCGACACTATGAGAGGTGTCAA
*
78137810 TGTAAGACCATGTTTGGGACATGTCATCGACACGTAT-AGAGGTGTCAA
1 TGTAAGACCATGTCTGGGACATG-CATCGACAC-TATGAGAGGTGTCAA
* * *
78137858 TGTAAGACCATGTCTGGGACATGACATCGACACAGATATGTGA-GAG-CTAG
1 TGTAAGACCATGTCTGGGACATG-CATCGACAC---TATGAGAGGTGTC-AA
78137908 TGTAAGACCATGTCTGGGACATG
1 TGTAAGACCATGTCTGGGACATG
78137931 GCGTCGACCA
Statistics
Matches: 103, Mismatches: 9, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
44 7 0.07
45 14 0.14
46 4 0.04
47 1 0.01
48 42 0.41
49 4 0.04
50 29 0.28
51 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (47 bp):
TGTAAGACCATGTCTGGGACATGCATCGACACTATGAGAGGTGTCAA
Found at i:78137938 original size:50 final size:49
Alignment explanation
Indices: 78137805--78137983 Score: 163
Period size: 48 Copynumber: 3.7 Consensus size: 49
78137795 TATGAGATGT
* * * * *
78137805 GTCAATGTAAGACCATGTTTGGGACATGTCATCGA-CACG-TAT-AGAGGT
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGACCACGATTTCA-A-GA
* * *
78137853 GTCAATGTAAGACCATGTCTGGGACATGACATCGA-CACAGATATGT-GAGA
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGACCAC-GAT-T-TCAAGA
* *
78137903 G-CTAGTGTAAGACCATGTCTGGGACATGGCGTCGACCACGATTTCAATA
1 GTC-AGTGTAAGACCATGTCTGGGACATGGCATCGACCACGATTTCAAGA
*
78137952 GTCAGTGTCAGACCATGTCTGGGACATGGCAT
1 GTCAGTGTAAGACCATGTCTGGGACATGGCAT
78137984 TGATTTGATA
Statistics
Matches: 111, Mismatches: 12, Indels: 15
0.80 0.09 0.11
Matches are distributed among these distances:
48 37 0.33
49 33 0.30
50 36 0.32
51 4 0.04
52 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (49 bp):
GTCAGTGTAAGACCATGTCTGGGACATGGCATCGACCACGATTTCAAGA
Found at i:78141911 original size:19 final size:19
Alignment explanation
Indices: 78141887--78141925 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
78141877 TGAGTAGAAA
**
78141887 GTCATTGTTTGCCTTGAGG
1 GTCATTGTTCACCTTGAGG
78141906 GTCATTGTTCACCTTGAGG
1 GTCATTGTTCACCTTGAGG
78141925 G
1 G
78141926 CTATAAATGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.13, C:0.18, G:0.31, T:0.38
Consensus pattern (19 bp):
GTCATTGTTCACCTTGAGG
Found at i:78147991 original size:46 final size:48
Alignment explanation
Indices: 78147941--78148057 Score: 139
Period size: 46 Copynumber: 2.5 Consensus size: 48
78147931 TATGAGAGCC
* * * *
78147941 AGTGTAAGATATGTCTAGGACATATATCGGCATTGAGACA-A-AAGCT
1 AGTGTAAGACATGTCTAGGACATACATCAGCATCGAGACATACAAGCT
* * * *
78147987 AGTGTAAGACATGTCTGGGACATACATCAGCCTCGGGATATACAAGCT
1 AGTGTAAGACATGTCTAGGACATACATCAGCATCGAGACATACAAGCT
*
78148035 AGTGTAAGACCTGTCTAGGACAT
1 AGTGTAAGACATGTCTAGGACAT
78148058 GGTATCAGCT
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
46 32 0.54
47 1 0.02
48 26 0.44
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (48 bp):
AGTGTAAGACATGTCTAGGACATACATCAGCATCGAGACATACAAGCT
Found at i:78148138 original size:49 final size:49
Alignment explanation
Indices: 78148078--78148208 Score: 156
Period size: 49 Copynumber: 2.7 Consensus size: 49
78148068 TGTTGTGTGT
*
78148078 CAGTGTAAGACCTGTCTGGGACATGGCATCGACAC-CGATAGATGAGAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTCGATAGATGAAAGC
* * * *
78148127 CAGTGTAAGACCTGTCTGTGACATGGCATCGTCCTCGATATATGAAAGT
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGC
* * * * *
78148176 TAGTGTAAGACCTATCTAGGAAATAGCATCGAC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGAC
78148209 TTTAATTTGC
Statistics
Matches: 69, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
48 1 0.01
49 68 0.99
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.24
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGC
Found at i:78158390 original size:21 final size:21
Alignment explanation
Indices: 78158361--78158409 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
78158351 ATTACAACCC
*
78158361 AAATCATTTTAAATCATTAATG
1 AAAT-ATTTAAAATCATTAATG
* * *
78158383 AAATATTTAAAATGATTTATT
1 AAATATTTAAAATCATTAATG
78158404 AAATAT
1 AAATAT
78158410 AATTTTATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (21 bp):
AAATATTTAAAATCATTAATG
Found at i:78167401 original size:21 final size:20
Alignment explanation
Indices: 78167363--78167401 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
78167353 GGGAGGGAGA
*
78167363 GGGATGGTGAGGGAGAGAAG
1 GGGACGGTGAGGGAGAGAAG
*
78167383 GGGACGGTGGAGGGGGAGA
1 GGGACGGT-GAGGGAGAGA
78167402 GGGACAGGGA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.26, C:0.03, G:0.64, T:0.08
Consensus pattern (20 bp):
GGGACGGTGAGGGAGAGAAG
Found at i:78167404 original size:20 final size:19
Alignment explanation
Indices: 78167357--78167404 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
78167347 TAATGTGGGA
*
78167357 GGGAGA-GGGATGGTGAGG
1 GGGAGAGGGGACGGTGAGG
*
78167375 GAGAGAAGGGGACGGTGGAGG
1 GGGAG-AGGGGACGGT-GAGG
78167396 GGGAGAGGG
1 GGGAGAGGG
78167405 ACAGGGACAG
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 4 0.17
19 1 0.04
20 11 0.46
21 8 0.33
ACGTcount: A:0.25, C:0.02, G:0.67, T:0.06
Consensus pattern (19 bp):
GGGAGAGGGGACGGTGAGG
Found at i:78168820 original size:28 final size:28
Alignment explanation
Indices: 78168757--78168821 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 28
78168747 TAATTTGTAA
* *
78168757 TAATATTTTTGTAATTTTTATATTTTTG
1 TAATATTTTTGCAATTTCTATATTTTTG
*
78168785 T-ATGATTTTTGCACCTTTCTATATTTTT-
1 TAAT-ATTTTTGCA-ATTTCTATATTTTTG
78168813 TAATATTTT
1 TAATATTTT
78168822 GAATTAATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
27 2 0.06
28 15 0.48
29 14 0.45
ACGTcount: A:0.23, C:0.06, G:0.06, T:0.65
Consensus pattern (28 bp):
TAATATTTTTGCAATTTCTATATTTTTG
Found at i:78168915 original size:10 final size:10
Alignment explanation
Indices: 78168900--78168963 Score: 58
Period size: 10 Copynumber: 6.0 Consensus size: 10
78168890 TTTTATTATG
78168900 TTAATAATTT
1 TTAATAATTT
78168910 TTAATAATTT
1 TTAATAATTT
*
78168920 CTGAA-AATTT
1 -TTAATAATTT
*
78168930 TTAAAAATTTAT
1 TTAATAA-TT-T
78168942 ATTAATAATTT
1 -TTAATAATTT
78168953 TTAATGAATTT
1 TTAAT-AATTT
78168964 ATATGTAAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
9 3 0.07
10 22 0.49
11 11 0.24
12 3 0.07
13 6 0.13
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (10 bp):
TTAATAATTT
Found at i:78170182 original size:5 final size:6
Alignment explanation
Indices: 78170162--78170191 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
78170152 AAATGCAAAC
78170162 TTTAGTT TTTATT TTTATT TTTATT TTTAT
1 TTTA-TT TTTATT TTTATT TTTATT TTTAT
78170192 GAATAGTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 19 0.83
7 4 0.17
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.80
Consensus pattern (6 bp):
TTTATT
Found at i:78170867 original size:20 final size:21
Alignment explanation
Indices: 78170842--78170881 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
78170832 CTCTTGAAAC
78170842 AGGGC-ACACGCCCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
78170862 AGGGCAACACGCCCGTGTGG
1 AGGGCAACACGCCCGTGTGG
78170882 TCATTATAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.20, C:0.30, G:0.40, T:0.10
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:78172265 original size:46 final size:47
Alignment explanation
Indices: 78172136--78172352 Score: 223
Period size: 46 Copynumber: 4.6 Consensus size: 47
78172126 AGGCCGCCTC
* * *
78172136 CATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGTA-CCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCT-T-ACATCT-CATAGCCGATG
* *
78172185 CCCTGTCCCAGACATGGTCTTACACTGAC--ACATCTCATAGCCGATG
1 -CATGTCCCAGACATGGTCTTACACTGGCTTACATCTCATAGCCGATG
*
78172231 CATGTCCCAGACAT-GTCTTACACTGGCTTACATCTCGA-GGCCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTTACATCTC-ATAGCCGATG
* *** *
78172277 CATGTCCCAGACAT-GTCTTACACTAGCTTTTGTCTCA-ATGCCGATAC
1 CATGTCCCAGACATGGTCTTACACTGGCTTACATCTCATA-GCCGAT-G
78172324 CATGTCCCAGACATGGTCTTACACTGGCT
1 CATGTCCCAGACATGGTCTTACACTGGCT
78172353 CTCATAATGT
Statistics
Matches: 145, Mismatches: 15, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
44 12 0.08
45 17 0.12
46 63 0.43
47 15 0.10
48 13 0.09
50 25 0.17
ACGTcount: A:0.23, C:0.32, G:0.18, T:0.27
Consensus pattern (47 bp):
CATGTCCCAGACATGGTCTTACACTGGCTTACATCTCATAGCCGATG
Found at i:78172346 original size:94 final size:91
Alignment explanation
Indices: 78172134--78172400 Score: 269
Period size: 94 Copynumber: 2.9 Consensus size: 91
78172124 AAAGGCCGCC
* *
78172134 TCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGTA-CCGATGCCCTGTCCCAGAC
1 TCCATGTCCCAGACATGGTCTTACACTGGCTCT-ACATAT-CG-AGCCGATG-CATGTCCCAGAC
78172198 ATGGTCTTACACTGACACATCTCATAGCCGA
62 AT-GTCTTACACTGACACATCTCATAGCCGA
* *
78172229 TGCATGTCCCAGACAT-GTCTTACACTGGCT-TACATCTCGAGGCCGATGCATGTCCCAGACATG
1 TCCATGTCCCAGACATGGTCTTACACTGGCTCTACATATCGA-GCCGATGCATGTCCCAGACATG
***
78172292 TCTTACACT-AGCTTTTGTCTCA-ATGCCGA
65 TCTTACACTGA-C--ACATCTCATA-GCCGA
* * *
78172321 TACCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAAT-GTGACCAATGCATGTCCCAAACA
1 T-CCATGTCCCAGACATGGTCTTACACTGGCTCTACAT-ATCGAG-CCGATGCATGTCCCAGACA
*
78172384 TGTCTTACACTGGCACA
63 TGTCTTACACTGACACA
78172401 CAAATAACCC
Statistics
Matches: 144, Mismatches: 16, Indels: 27
0.77 0.09 0.14
Matches are distributed among these distances:
89 1 0.01
90 12 0.08
91 16 0.11
92 22 0.15
93 16 0.11
94 60 0.42
95 17 0.12
ACGTcount: A:0.24, C:0.31, G:0.17, T:0.27
Consensus pattern (91 bp):
TCCATGTCCCAGACATGGTCTTACACTGGCTCTACATATCGAGCCGATGCATGTCCCAGACATGT
CTTACACTGACACATCTCATAGCCGA
Found at i:78178676 original size:21 final size:21
Alignment explanation
Indices: 78178652--78178707 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
78178642 GAAACAGGGC
* *
78178652 ACACACCCTTGTGGAAGGACA
1 ACACGCCCATGTGGAAGGACA
* *
78178673 ACACGCCCATGTAGAAGGGCA
1 ACACGCCCATGTGGAAGGACA
*
78178694 ACACGCCCGTGTGG
1 ACACGCCCATGTGG
78178708 TCATTATAAC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.29, C:0.30, G:0.29, T:0.12
Consensus pattern (21 bp):
ACACGCCCATGTGGAAGGACA
Found at i:78180053 original size:47 final size:45
Alignment explanation
Indices: 78179990--78180114 Score: 155
Period size: 47 Copynumber: 2.7 Consensus size: 45
78179980 ACATCTCGTA
*
78179990 GCCGATGCATATCCCAGACATGTCTTACACTAGCTCTCGTCTCAA-T-
1 GCCGATGCATATCCCAGACATGTCTTACACTAGCTCTC--AT-AAGTG
*
78180036 GCCGATGTCATATCCCAGACATGGTCTTACACTGGCTCTCATAATGTG
1 GCCGATG-CATATCCCAGACAT-GTCTTACACTAGCTCTCATAA-GTG
*
78180084 GCCGATGCATGTCCCAGACATGTCTTACACT
1 GCCGATGCATATCCCAGACATGTCTTACACT
78180115 GGCACACAAA
Statistics
Matches: 71, Mismatches: 3, Indels: 10
0.85 0.04 0.12
Matches are distributed among these distances:
45 2 0.03
46 18 0.25
47 28 0.39
48 23 0.32
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.28
Consensus pattern (45 bp):
GCCGATGCATATCCCAGACATGTCTTACACTAGCTCTCATAAGTG
Found at i:78180093 original size:94 final size:95
Alignment explanation
Indices: 78179842--78180114 Score: 284
Period size: 94 Copynumber: 2.9 Consensus size: 95
78179832 TTTGGGGTAT
* * ** ** *
78179842 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTATCAAAATCAAGGCTAACGCCATAT
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATAAT-GTGGCCGATG-CATAT
*
78179907 CCCAGACATGGTCTTACAATAGCTCTCACATATC
64 CCCAGACAT-GTCTTACACTAGCTCT-ACATATC
** * * * * *
78179941 CGTGTCGATGCCATGTCCCAAACATGGTCTTACACTGACACATC-T--CGTAGCCGATGCATATC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTC-TCATAATGTGGCCGATGCATATC
* *
78180003 CCAGACATGTCTTACACTAGCTCT-CGTCTC
65 CCAGACATGTCTTACACTAGCTCTACATATC
* * * *
78180033 AATGCCGATGTCATATCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATAATGTGGCCGATGCATATCC
78180098 CAGACATGTCTTACACT
66 CAGACATGTCTTACACT
78180115 GGCACACAAA
Statistics
Matches: 142, Mismatches: 28, Indels: 13
0.78 0.15 0.07
Matches are distributed among these distances:
91 2 0.01
92 38 0.27
94 47 0.33
95 14 0.10
96 4 0.03
99 35 0.25
100 2 0.01
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.26
Consensus pattern (95 bp):
AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATAATGTGGCCGATGCATATCC
CAGACATGTCTTACACTAGCTCTACATATC
Found at i:78181172 original size:26 final size:26
Alignment explanation
Indices: 78181142--78181195 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
78181132 AAGCATGAAA
78181142 TCGCTAAAATCAATTCACCAAAATTT
1 TCGCTAAAATCAATTCACCAAAATTT
78181168 TCGCTAAAATCAATTCACCAAAATTT
1 TCGCTAAAATCAATTCACCAAAATTT
78181194 TC
1 TC
78181196 ATACTCTCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.41, C:0.24, G:0.04, T:0.31
Consensus pattern (26 bp):
TCGCTAAAATCAATTCACCAAAATTT
Found at i:78186734 original size:49 final size:47
Alignment explanation
Indices: 78186513--78186967 Score: 685
Period size: 47 Copynumber: 9.6 Consensus size: 47
78186503 CCCTTCGGGA
* * * * * *
78186513 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
78186560 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
78186607 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78186654 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
78186701 CTTATCACATATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
** *
78186750 CTTATCACATATATATACACTTTCACATTCATCACATTAGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78186799 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
78186846 CTTATCACATATATATACACTTTCACATTCATCACATTGGTCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
78186895 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
78186942 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
78186968 CACAATTATC
Statistics
Matches: 376, Mismatches: 28, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
47 239 0.64
49 137 0.36
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:78186747 original size:96 final size:94
Alignment explanation
Indices: 78186513--78186967 Score: 685
Period size: 96 Copynumber: 4.8 Consensus size: 94
78186503 CCCTTCGGGA
* * * * * * * *
78186513 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
78186578 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
* *
78186607 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
78186672 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
*
78186701 CTTATCACATATATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACATATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
** *
78186766 ACACTTTCACATTCATCACATTAGCCATTCGGC
62 ACACTTTCACATTCATCACATCGGCCATTAGGC
78186799 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
* * *
78186864 ACTTTCACATTCATCACATTGGTCATTCGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
*
78186895 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
78186960 ATTCACAT
66 TTTCACAT
78186968 CACAATTATC
Statistics
Matches: 336, Mismatches: 21, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
94 107 0.32
96 185 0.55
98 44 0.13
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:78201106 original size:23 final size:23
Alignment explanation
Indices: 78201080--78201125 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
78201070 GAGAGGATGG
*
78201080 AGTAAGCTTAAAGCTTAGTAAGT
1 AGTAAGCTTAAAGCTTACTAAGT
78201103 AGTAAGCTTAAAGCTTACTAAGT
1 AGTAAGCTTAAAGCTTACTAAGT
78201126 CCATAAGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.30
Consensus pattern (23 bp):
AGTAAGCTTAAAGCTTACTAAGT
Found at i:78202082 original size:50 final size:50
Alignment explanation
Indices: 78201990--78202374 Score: 355
Period size: 50 Copynumber: 7.7 Consensus size: 50
78201980 CTGGTATGCA
* * * * *
78201990 TAGTAGCCTGCACTTAGTACTACAAATGCGACCTATCAATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACTTAACAATCTGATACACG
* *
78202040 TAGTAGCCTGCACTTAGTACTACACACATGACTTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACTTAACAATCTGATACACG
* * * * ****
78202090 TAGTAGCCTGCACTTAGTACTACACACGTGA-TCGAAGTTAA-CGGGTATGTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACT-TAA--CAATCTGATACACG
* * * *
78202141 TAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACTTAACAATCTGATACACG
* *
78202191 TAGTAGCCTGCACTTAGTACTACACACATGACTTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACTTAACAATCTGATACACG
* * * * ** **
78202241 TAGTAGCCTACATTTAGTACTACACACGTGA-TCGAAGTTAATAAG-TACATA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACT-TAA--CAATCTGATACACG
* * * * ** * *
78202292 TAGTAGCTTGCACTTAGTACTACACATGCGACCTATTAATCTGGTACACA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACTTAACAATCTGATACACG
78202342 TAGTAGCCTGCACTTAGTACTACACACGTGACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACT
78202375 CACAACGAAT
Statistics
Matches: 267, Mismatches: 58, Indels: 20
0.77 0.17 0.06
Matches are distributed among these distances:
49 9 0.03
50 188 0.70
51 66 0.25
52 4 0.01
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACTTAACAATCTGATACACG
Found at i:78202258 original size:151 final size:151
Alignment explanation
Indices: 78201982--78202374 Score: 651
Period size: 151 Copynumber: 2.6 Consensus size: 151
78201972 GAAGCTCTCT
* * *
78201982 GGTATGCATAGTAGCCTGCACTTAGTACTACAAATGCGACCTATCAATCTGATACACGTAGTAGC
1 GGTATGTATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
*
78202047 CTGCACTTAGTACTACACACATGACTTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTA
66 CTGCACTTAGTACTACACACATGACTTAACCATCTGATACACGTAGTAGCCTACACTTAGTACTA
*
78202112 CACACGTGATCGAAGTTAACG
131 CACACGTGATCGAAGTTAACA
*
78202133 GGTATGTATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACACGTAGTAGC
1 GGTATGTATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
*
78202198 CTGCACTTAGTACTACACACATGACTTAACCATCTGATACACGTAGTAGCCTACATTTAGTACTA
66 CTGCACTTAGTACTACACACATGACTTAACCATCTGATACACGTAGTAGCCTACACTTAGTACTA
*
78202263 CACACGTGATCGAAGTTAATA
131 CACACGTGATCGAAGTTAACA
* ** * * *
78202284 AGTACATATAGTAGCTTGCACTTAGTACTACACATGCGACCTATTAATCTGGTACACATAGTAGC
1 GGTATGTATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
*
78202349 CTGCACTTAGTACTACACACGTGACT
66 CTGCACTTAGTACTACACACATGACT
78202375 CACAACGAAT
Statistics
Matches: 226, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
151 226 1.00
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.27
Consensus pattern (151 bp):
GGTATGTATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
CTGCACTTAGTACTACACACATGACTTAACCATCTGATACACGTAGTAGCCTACACTTAGTACTA
CACACGTGATCGAAGTTAACA
Found at i:78202289 original size:101 final size:101
Alignment explanation
Indices: 78201988--78202372 Score: 287
Period size: 101 Copynumber: 3.8 Consensus size: 101
78201978 CTCTGGTATG
* ** * * *
78201988 CATAGTAGCCTGCACTTAGTACTACAAATGCGACCTATCAATCTGATACACGTAGTAGCCTGCAC
1 CATAGTAGCCTGCACTTAGTACTACACACACGACCTAACAATCTGATACACATAGTAGCCTACAC
* * ** **
78202053 TTAGTACTACACACATGA-CTTAA--CCATCTGATACA
66 TTAGTACTACACACGTGATC-GAAGTTAATAAG-TACA
* ** * * * * * *** *
78202088 CGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTAA-CGGGTATGTATAGTAGCCTGC
1 CATAGTAGCCTGCACTTAGTACTACACACACGACCTAA--CAATCTGATACACATAGTAGCCTAC
* ** * **
78202152 ACTTAGTACTACACATGTGA-CCTA-TCAATCTGGTACA
64 ACTTAGTACTACACACGTGATCGAAGTTAAT-AAGTACA
* * * * * *
78202189 CGTAGTAGCCTGCACTTAGTACTACACACATGACTTAACCATCTGATACACGTAGTAGCCTACAT
1 CATAGTAGCCTGCACTTAGTACTACACACACGACCTAACAATCTGATACACATAGTAGCCTACAC
78202254 TTAGTACTACACACGTGATCGAAGTTAATAAGTACA
66 TTAGTACTACACACGTGATCGAAGTTAATAAGTACA
* * ** ** * *
78202290 TATAGTAGCTTGCACTTAGTACTACACATGCGACCTATTAATCTGGTACACATAGTAGCCTGCAC
1 CATAGTAGCCTGCACTTAGTACTACACACACGACCTAACAATCTGATACACATAGTAGCCTACAC
78202355 TTAGTACTACACACGTGA
66 TTAGTACTACACACGTGA
78202373 CTCACAACGA
Statistics
Matches: 223, Mismatches: 55, Indels: 13
0.77 0.19 0.04
Matches are distributed among these distances:
99 1 0.00
100 64 0.29
101 151 0.68
102 7 0.03
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.27
Consensus pattern (101 bp):
CATAGTAGCCTGCACTTAGTACTACACACACGACCTAACAATCTGATACACATAGTAGCCTACAC
TTAGTACTACACACGTGATCGAAGTTAATAAGTACA
Found at i:78202573 original size:30 final size:30
Alignment explanation
Indices: 78202537--78202599 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
78202527 AAAGATAATA
78202537 ACATAAAAAGAATCGAAATATTATTTACAT
1 ACATAAAAAGAATCGAAATATTATTTACAT
*
78202567 ACATAAAAAGAATTGAAATATTATTTACAT
1 ACATAAAAAGAATCGAAATATTATTTACAT
78202597 ACA
1 ACA
78202600 AACTTAATCG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.54, C:0.10, G:0.06, T:0.30
Consensus pattern (30 bp):
ACATAAAAAGAATCGAAATATTATTTACAT
Found at i:78206970 original size:25 final size:25
Alignment explanation
Indices: 78206914--78206963 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
78206904 TACTCCCTTG
78206914 AGAGATTAGCTAACTTGTACGTTTA
1 AGAGATTAGCTAACTTGTACGTTTA
78206939 AGAGATTAGCTAACTTGTACGTTTA
1 AGAGATTAGCTAACTTGTACGTTTA
78206964 TAAGATTGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.36
Consensus pattern (25 bp):
AGAGATTAGCTAACTTGTACGTTTA
Found at i:78209277 original size:46 final size:45
Alignment explanation
Indices: 78209103--78209277 Score: 131
Period size: 46 Copynumber: 3.8 Consensus size: 45
78209093 AGCTATTGTG
* **
78209103 AGCTAGTGTAACACATGTCTGGGACATGCATCGGCCAT-A-TTATAA
1 AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCC-TGAGACAT-A
* * * *
78209148 GAGCTGGTGTAAGACTATGTCTGGGACATGGTATCGGCATTGAGACGA-G
1 -AGCTAGTGTAAGAC-ATGTCTGGGACAT-GCATCGGC-CTGAGAC-ATA
* * * * * *
78209197 CGCTAATGTATGACATGTCTAGAACATGCTTCGGCCTCGAGACATA
1 AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCT-GAGACATA
*
78209243 AGCTAGTGTAAGACATGTCTGGGATATGCATCGGC
1 AGCTAGTGTAAGACATGTCTGGGACATGCATCGGC
78209278 TACGAGATGT
Statistics
Matches: 97, Mismatches: 24, Indels: 16
0.71 0.18 0.12
Matches are distributed among these distances:
45 2 0.02
46 51 0.53
47 24 0.25
48 18 0.19
49 1 0.01
51 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (45 bp):
AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTGAGACATA
Found at i:78223095 original size:16 final size:16
Alignment explanation
Indices: 78223074--78223111 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
78223064 TTTGGTTCAC
* *
78223074 TGTAATGGAATATAGT
1 TGTAATAGAATAGAGT
78223090 TGTAATAGAATAGAGT
1 TGTAATAGAATAGAGT
78223106 TGTAAT
1 TGTAAT
78223112 CAGTAATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.24, T:0.37
Consensus pattern (16 bp):
TGTAATAGAATAGAGT
Found at i:78227306 original size:26 final size:25
Alignment explanation
Indices: 78227256--78227307 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
78227246 GATGATTATT
*
78227256 ATTATTGTTATTAAATTTTAATAAA
1 ATTATTGTTAATAAATTTTAATAAA
* *
78227281 ATTATTGTTAAATATATTTTATTAAA
1 ATTATTGTT-AATAAATTTTAATAAA
78227307 A
1 A
78227308 AATAATAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 9 0.39
26 14 0.61
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (25 bp):
ATTATTGTTAATAAATTTTAATAAA
Found at i:78227343 original size:59 final size:57
Alignment explanation
Indices: 78227270--78227411 Score: 167
Period size: 59 Copynumber: 2.4 Consensus size: 57
78227260 TTGTTATTAA
* * * * * * *
78227270 ATTTTAATAAAATTATTGTTAAATATATTTTATTAAAAAATAATAAATAATTTAATCAT
1 ATTTTAATATAATTATTATTAAATATAATTGAATAAAAAATAAT--ATAATTTAATAAC
* *
78227329 ATTTTAACATAATTATTATTAAATATAATTGAATAAAATATAATATAATTTAATAAC
1 ATTTTAATATAATTATTATTAAATATAATTGAATAAAAAATAATATAATTTAATAAC
78227386 ATTCTTAATATAATTATTATATAAAT
1 ATT-TTAATATAATTATTAT-TAAAT
78227412 TAAAAAATCA
Statistics
Matches: 71, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
57 14 0.20
58 15 0.21
59 42 0.59
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (57 bp):
ATTTTAATATAATTATTATTAAATATAATTGAATAAAAAATAATATAATTTAATAAC
Found at i:78235668 original size:20 final size:20
Alignment explanation
Indices: 78235643--78235682 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
78235633 TCTGACATGC
*
78235643 TATTTTAGTTTTAAGATATA
1 TATTTTAGTTTTAAAATATA
*
78235663 TATTTTATTTTTAAAATATA
1 TATTTTAGTTTTAAAATATA
78235683 ATTATATGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (20 bp):
TATTTTAGTTTTAAAATATA
Found at i:78238486 original size:17 final size:17
Alignment explanation
Indices: 78238461--78238502 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
78238451 GTTATTTACC
*
78238461 ATTTTAAACCCTTAGCT
1 ATTTAAAACCCTTAGCT
78238478 ATTTAAAACCCTTAGCT
1 ATTTAAAACCCTTAGCT
78238495 ATTTAAAA
1 ATTTAAAA
78238503 ATATATAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.38
Consensus pattern (17 bp):
ATTTAAAACCCTTAGCT
Found at i:78239184 original size:170 final size:169
Alignment explanation
Indices: 78238868--78239203 Score: 487
Period size: 170 Copynumber: 2.0 Consensus size: 169
78238858 TCATTCTACC
*
78238868 AATAATAATAATATCATCAATTTTCTACTACTAGCATTGAATTTCTCAAGCATATGTTGTAACAC
1 AATAATAAGAATATCATCAATTTTCTACTACTAGCATTGAATTTCTCAAGCATATGTTGTAACAC
* * * * * * *
78238933 CCCGTACCTAGCTTGGACGTCAAGCAGAACATTGAGATGCCAAACCATCGTCTCACATTGATTTT
66 CCCATACCTAGCCTGGACGTCAACCAGAACATAGAGATGCCAAACCACCGTCTCACATTAATTTC
* *
78238998 ATTATCATTTTCACGTTTGACATACATGCGTTTTTTACT
131 ATTATCATTGTCACGTTTGACATACATGCATTTTTTACT
* *
78239037 AATAATGAGAATATCATCAAGTTTTCTACTACTAGCATTGAATTTCTCAAGCATATGTTGTAACG
1 AATAATAAGAATATCATCAA-TTTTCTACTACTAGCATTGAATTTCTCAAGCATATGTTGTAACA
* * *
78239102 TCCCATA-CTGAGCCTGGATGTCAAACCA-AATATAGAGATGCCAAACCACCGTCTCACATTAAT
65 CCCCATACCT-AGCCTGGACGTC-AACCAGAACATAGAGATGCCAAACCACCGTCTCACATTAAT
*
78239165 TTCATTATTATTGTCACGTTTGACATACATGCATTTTTT
128 TTCATTATCATTGTCACGTTTGACATACATGCATTTTTT
78239204 TCATTATTAC
Statistics
Matches: 148, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
169 20 0.14
170 124 0.84
171 4 0.03
ACGTcount: A:0.32, C:0.21, G:0.13, T:0.35
Consensus pattern (169 bp):
AATAATAAGAATATCATCAATTTTCTACTACTAGCATTGAATTTCTCAAGCATATGTTGTAACAC
CCCATACCTAGCCTGGACGTCAACCAGAACATAGAGATGCCAAACCACCGTCTCACATTAATTTC
ATTATCATTGTCACGTTTGACATACATGCATTTTTTACT
Found at i:78243752 original size:17 final size:19
Alignment explanation
Indices: 78243730--78243766 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
78243720 ATTTTTTGTG
78243730 TAATATATTA-AT-TTATA
1 TAATATATTACATATTATA
*
78243747 TAATATTTTACATATTATA
1 TAATATATTACATATTATA
78243766 T
1 T
78243767 CATACTTCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 9 0.53
18 2 0.12
19 6 0.35
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (19 bp):
TAATATATTACATATTATA
Found at i:78245446 original size:174 final size:173
Alignment explanation
Indices: 78245134--78245446 Score: 409
Period size: 174 Copynumber: 1.8 Consensus size: 173
78245124 AATTGCTATT
*
78245134 GTTTGGGCTAAGGTTGTAATTTCAAAACTTGAAAAGTACAAGGACTAAATTTAATCAATTTAAAA
1 GTTTGGGCTAAGGTTGTAATTTCAAAACTTGAAAAGTACAAGGACTAAAATTAATCAATTTAAAA
* * * *
78245199 AGTATAAGGACTAAATTTGAATAAAATAAAGTATAGGGATTAAATCCATAGTTTACACATATTAC
66 AGTATAAGGACTAAATTTGAATAAAATAAAGTATAGAGATTAAATCCACAATTTACACATAGTAC
78245264 AAGATTAATAGCATTATTTAGCCAACTAGATTTCACTTCTACA
131 AAGATTAATAGCATTATTTAGCCAACTAGATTTCACTTCTACA
* * * *
78245307 GTTTGGGTTTAGGATTGTAATTTCAAAATTTGAAAAGTA-GAGAGACTAAAATTAATC-ATTTCA
1 GTTTGGGCTAAGG-TTGTAATTTCAAAACTTGAAAAGTACAAG-GACTAAAATTAATCAATTT-A
* * * * * **
78245370 AAAAGTATATGGGCTAAATTTG-ATCTAATTAAAGTATA-AGATTAAATTCACAATTTATGCATA
63 AAAAGTATAAGGACTAAATTTGAAT-AAAATAAAGTATAGAGATTAAATCCACAATTTACACATA
78245433 GTACAATGATTAAT
127 GTACAA-GATTAAT
78245447 GGACAAATTT
Statistics
Matches: 119, Mismatches: 16, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
173 43 0.36
174 76 0.64
ACGTcount: A:0.42, C:0.10, G:0.15, T:0.34
Consensus pattern (173 bp):
GTTTGGGCTAAGGTTGTAATTTCAAAACTTGAAAAGTACAAGGACTAAAATTAATCAATTTAAAA
AGTATAAGGACTAAATTTGAATAAAATAAAGTATAGAGATTAAATCCACAATTTACACATAGTAC
AAGATTAATAGCATTATTTAGCCAACTAGATTTCACTTCTACA
Found at i:78249195 original size:15 final size:15
Alignment explanation
Indices: 78249175--78249203 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
78249165 AAGATGTGTG
78249175 AAATCCTTCAAGAAA
1 AAATCCTTCAAGAAA
78249190 AAATCCTTCAAGAA
1 AAATCCTTCAAGAA
78249204 TTAATTCTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.52, C:0.21, G:0.07, T:0.21
Consensus pattern (15 bp):
AAATCCTTCAAGAAA
Found at i:78260295 original size:21 final size:21
Alignment explanation
Indices: 78260269--78260312 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
78260259 TCAAGCATGC
78260269 TAGACCTTCTTTAAAAATTCT
1 TAGACCTTCTTTAAAAATTCT
78260290 TAGACCTTCTTTAAAAATTCT
1 TAGACCTTCTTTAAAAATTCT
78260311 TA
1 TA
78260313 CTCATAGGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.34, C:0.18, G:0.05, T:0.43
Consensus pattern (21 bp):
TAGACCTTCTTTAAAAATTCT
Found at i:78261178 original size:72 final size:72
Alignment explanation
Indices: 78261061--78261203 Score: 250
Period size: 72 Copynumber: 2.0 Consensus size: 72
78261051 GTACACATAA
* *
78261061 TAGAGATGTTCTTAACAACGATGTTGAACCTAGAAGGAGTAAAAGACAAAGAATTGCCATTGGTT
1 TAGAGATGTTCTTAACAACGATGTTGAACCTAGAAGGAGTAAAAGACAAAGAACTGCCACTGGTT
78261126 TTAGACT
66 TTAGACT
* *
78261133 TAGAGATGTTCTTAACAATGATGTTGAACCTAGGAGGAGTAAAAGACAAAGAACTGCCACTGGTT
1 TAGAGATGTTCTTAACAACGATGTTGAACCTAGAAGGAGTAAAAGACAAAGAACTGCCACTGGTT
78261198 TTAGAC
66 TTAGAC
78261204 CTGATTTTCT
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
72 67 1.00
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.27
Consensus pattern (72 bp):
TAGAGATGTTCTTAACAACGATGTTGAACCTAGAAGGAGTAAAAGACAAAGAACTGCCACTGGTT
TTAGACT
Found at i:78262313 original size:40 final size:40
Alignment explanation
Indices: 78262269--78262348 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
78262259 TTAAGCACAC
*
78262269 ATCATTAAAAGGTACACTTATTACATATATTAGTTAATAT
1 ATCATTAAAAGGCACACTTATTACATATATTAGTTAATAT
*
78262309 ATCATTAACAGGCACACTTATTACATATATTAGTTAATAT
1 ATCATTAAAAGGCACACTTATTACATATATTAGTTAATAT
78262349 GTCTAAATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.41, C:0.12, G:0.07, T:0.39
Consensus pattern (40 bp):
ATCATTAAAAGGCACACTTATTACATATATTAGTTAATAT
Found at i:78270672 original size:21 final size:21
Alignment explanation
Indices: 78270646--78270700 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
78270636 GTTTGGTGGG
*
78270646 CACACGGGCGTGTAAGACCCT
1 CACACGGTCGTGTAAGACCCT
78270667 CACACGGTCGTGTAAGACCCT
1 CACACGGTCGTGTAAGACCCT
78270688 CACACGGTCGTGT
1 CACACGGTCGTGT
78270701 CTACCCTGTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.22, C:0.33, G:0.27, T:0.18
Consensus pattern (21 bp):
CACACGGTCGTGTAAGACCCT
Found at i:78270860 original size:19 final size:19
Alignment explanation
Indices: 78270836--78270872 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
78270826 GTATTGACCC
* *
78270836 TCCACACGGCCTAGGCATT
1 TCCACAAGGCCAAGGCATT
78270855 TCCACAAGGCCAAGGCAT
1 TCCACAAGGCCAAGGCAT
78270873 ACAGTCGTGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.27, C:0.35, G:0.22, T:0.16
Consensus pattern (19 bp):
TCCACAAGGCCAAGGCATT
Found at i:78270999 original size:17 final size:17
Alignment explanation
Indices: 78270977--78271011 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
78270967 TGAGGGTAGT
78270977 TAAGACTCTAATTTGGG
1 TAAGACTCTAATTTGGG
78270994 TAAGACTCTAATTTGGG
1 TAAGACTCTAATTTGGG
78271011 T
1 T
78271012 TGCAGCTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.11, G:0.23, T:0.37
Consensus pattern (17 bp):
TAAGACTCTAATTTGGG
Found at i:78273264 original size:18 final size:19
Alignment explanation
Indices: 78273237--78273282 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
78273227 AAAAAGTTGT
*
78273237 TTTTACATATATTAATAAA
1 TTTTATATATATTAATAAA
*
78273256 TTTATATATATATTAGTAAA
1 TTT-TATATATATTAATAAA
78273276 -TTTATAT
1 TTTTATAT
78273283 TTTAAATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 5 0.21
19 5 0.21
20 14 0.58
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (19 bp):
TTTTATATATATTAATAAA
Found at i:78273268 original size:20 final size:20
Alignment explanation
Indices: 78273243--78273282 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
78273233 TTGTTTTTAC
78273243 ATATATTAATAAATTTATAT
1 ATATATTAATAAATTTATAT
*
78273263 ATATATTAGTAAATTTATAT
1 ATATATTAATAAATTTATAT
78273283 TTTAAATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (20 bp):
ATATATTAATAAATTTATAT
Done.