Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 142 of 187
Found at i:42947048 original size:102 final size:102
Alignment explanation
Indices: 42946867--42947097 Score: 372
Period size: 102 Copynumber: 2.3 Consensus size: 102
42946857 ATTGAATATA
* * ***
42946867 AAGGTGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCTGTGATTCATTGGT
1 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTACTGATTCCCCGATTCATTGGT
* *
42946932 GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTG
66 GGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTG
*
42946969 AAGGGGGTTGCTAAGTGCTGATTCCCTCAAGGGGTTGCTAAGTACTGATTCCCCGATTCATTGGT
1 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTACTGATTCCCCGATTCATTGGT
42947034 GGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTG
66 GGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTG
* *
42947071 AAAGGGGTTGCTAAGTGTTGATTCCCC
1 AAGGGGGTTGCTAAGTGCTGATTCCCC
42947098 GATTCATTGG
Statistics
Matches: 118, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
102 118 1.00
ACGTcount: A:0.20, C:0.19, G:0.28, T:0.33
Consensus pattern (102 bp):
AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTACTGATTCCCCGATTCATTGGT
GGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTG
Found at i:42947189 original size:76 final size:75
Alignment explanation
Indices: 42946997--42947208 Score: 334
Period size: 76 Copynumber: 2.8 Consensus size: 75
42946987 TGATTCCCTC
* *
42946997 AAGGGGTTGCTAAGTACTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
42947062 TTAAATGTGA
66 TTAAATGTGA
* *
42947072 AAGGGGTTGCTAAGTGTTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACGGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
*
42947137 ATTGAATGTGA
66 -TTAAATGTGA
* * * *
42947148 AAGGAGTTGCTAAGTGCTGATTCCCCGAATCACTGGTGGTTGCTAAGTGCTGAATCCACCG
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCG
42947209 ATAACGGATA
Statistics
Matches: 125, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
75 61 0.49
76 64 0.51
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.31
Consensus pattern (75 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
TTAAATGTGA
Found at i:42947357 original size:102 final size:103
Alignment explanation
Indices: 42947072--42947413 Score: 370
Period size: 102 Copynumber: 3.2 Consensus size: 103
42947062 TTAAATGTGA
* *
42947072 AAGGGGTTGCTAAGTGTTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACGGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
* *
42947137 ATTGAATGTGAAAGGAGTTGCTAAGTGCTGATTCCCCGAATC
66 -TTAAATGTGAAAGGGGTTGCTAAGTGCTGATT-CCC--ATC
* * ** ** *
42947179 ACTGGTGGTTGCTAAGTGCTGAATCCACCGA-T-AACGGATAACTTTCT--GTGCTGATTCCACC
1 A-AGG-GGTTGCTAAGTGCTGATTCC-CCGATTCATTGG-T-GGTTGCTAAGTGCTGATTCCACC
* *
42947240 GTATTTTAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCC-TC
61 GTATCTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCATC
* *
42947282 AAGGGGTTGCTAAGTACTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
*
42947347 TTAAATGTGAAAGGGGTTGCTAAGTGTTGATTCCCCGATTC
66 TTAAATGTGAAAGGGGTTGCTAAGTGCTGATT-CCC-A-TC
*
42947388 ATTGGTGGTTGCTAAGTGCTGATTCC
1 A-AGG-GGTTGCTAAGTGCTGATTCC
42947414 ACGGTATCAT
Statistics
Matches: 193, Mismatches: 27, Indels: 29
0.78 0.11 0.12
Matches are distributed among these distances:
100 8 0.04
101 20 0.10
102 52 0.27
103 6 0.03
106 6 0.03
107 32 0.17
108 41 0.21
109 20 0.10
110 8 0.04
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.32
Consensus pattern (103 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
TTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCATC
Found at i:42947451 original size:285 final size:285
Alignment explanation
Indices: 42946941--42947511 Score: 1142
Period size: 285 Copynumber: 2.0 Consensus size: 285
42946931 TGGTTGCTAA
42946941 GTGCTGATTCCACCGTATTTTAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCTCAAGGGGTTG
1 GTGCTGATTCCACCGTATTTTAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCTCAAGGGGTTG
42947006 CTAAGTACTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTG
66 CTAAGTACTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTG
42947071 AAAGGGGTTGCTAAGTGTTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACGGTAT
131 AAAGGGGTTGCTAAGTGTTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACGGTAT
42947136 CATTGAATGTGAAAGGAGTTGCTAAGTGCTGATTCCCCGAATCACTGGTGGTTGCTAAGTGCTGA
196 CATTGAATGTGAAAGGAGTTGCTAAGTGCTGATTCCCCGAATCACTGGTGGTTGCTAAGTGCTGA
42947201 ATCCACCGATAACGGATAACTTTCT
261 ATCCACCGATAACGGATAACTTTCT
42947226 GTGCTGATTCCACCGTATTTTAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCTCAAGGGGTTG
1 GTGCTGATTCCACCGTATTTTAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCTCAAGGGGTTG
42947291 CTAAGTACTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTG
66 CTAAGTACTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTG
42947356 AAAGGGGTTGCTAAGTGTTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACGGTAT
131 AAAGGGGTTGCTAAGTGTTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACGGTAT
42947421 CATTGAATGTGAAAGGAGTTGCTAAGTGCTGATTCCCCGAATCACTGGTGGTTGCTAAGTGCTGA
196 CATTGAATGTGAAAGGAGTTGCTAAGTGCTGATTCCCCGAATCACTGGTGGTTGCTAAGTGCTGA
42947486 ATCCACCGATAACGGATAACTTTCT
261 ATCCACCGATAACGGATAACTTTCT
42947511 G
1 G
42947512 AGTGTTCAAC
Statistics
Matches: 286, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
285 286 1.00
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.32
Consensus pattern (285 bp):
GTGCTGATTCCACCGTATTTTAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCTCAAGGGGTTG
CTAAGTACTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTG
AAAGGGGTTGCTAAGTGTTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACGGTAT
CATTGAATGTGAAAGGAGTTGCTAAGTGCTGATTCCCCGAATCACTGGTGGTTGCTAAGTGCTGA
ATCCACCGATAACGGATAACTTTCT
Found at i:42947474 original size:76 final size:75
Alignment explanation
Indices: 42947282--42947493 Score: 334
Period size: 76 Copynumber: 2.8 Consensus size: 75
42947272 TGATTCCCTC
* *
42947282 AAGGGGTTGCTAAGTACTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
42947347 TTAAATGTGA
66 TTAAATGTGA
* *
42947357 AAGGGGTTGCTAAGTGTTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACGGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
*
42947422 ATTGAATGTGA
66 -TTAAATGTGA
* * * *
42947433 AAGGAGTTGCTAAGTGCTGATTCCCCGAATCACTGGTGGTTGCTAAGTGCTGAATCCACCG
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCG
42947494 ATAACGGATA
Statistics
Matches: 125, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
75 61 0.49
76 64 0.51
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.31
Consensus pattern (75 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
TTAAATGTGA
Found at i:42948991 original size:33 final size:33
Alignment explanation
Indices: 42948927--42949163 Score: 153
Period size: 33 Copynumber: 6.8 Consensus size: 33
42948917 ATGTGAAGGG
*
42948927 GGTTGCTAAGTGCTGATT-CCC---TCA-AGG-
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
*
42948954 GGTTGCTAAGTACTGATTCCCCGATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
* * *
42948987 GGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCC-CCG-A--TT-CAT-TG---GT
*
42949029 GGTTGCTAAGTGTTGATTCCCCGATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
* *
42949062 GGTTGCTAAGTGCTGATTCCACGGTATCATTGAATGT
1 GGTTGCTAAGTGCTGATTCCCCGAT-TCATTG---GT
* *
42949099 GAAAGGAGTTGCTAAGTGCTGATTCCCCGAATCACTGGT
1 -----G-GTTGCTAAGTGCTGATTCCCCGATTCATTGGT
*
42949138 GGTTGCTAAGTGCTGAATCCACCGAT
1 GGTTGCTAAGTGCTGATTCC-CCGAT
42949164 AACGGATAAC
Statistics
Matches: 165, Mismatches: 19, Indels: 45
0.72 0.08 0.20
Matches are distributed among these distances:
27 17 0.10
28 3 0.02
31 3 0.02
32 2 0.01
33 59 0.36
34 14 0.08
35 1 0.01
36 2 0.01
37 6 0.04
38 4 0.02
39 4 0.02
40 1 0.01
41 3 0.02
42 25 0.15
43 21 0.13
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.32
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
Found at i:42949001 original size:102 final size:102
Alignment explanation
Indices: 42948820--42949050 Score: 372
Period size: 102 Copynumber: 2.3 Consensus size: 102
42948810 ATTGAATATA
* * ***
42948820 AAGGTGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCTGTGATTCATTGGT
1 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTACTGATTCCCCGATTCATTGGT
* *
42948885 GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTG
66 GGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTG
*
42948922 AAGGGGGTTGCTAAGTGCTGATTCCCTCAAGGGGTTGCTAAGTACTGATTCCCCGATTCATTGGT
1 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTACTGATTCCCCGATTCATTGGT
42948987 GGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTG
66 GGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTG
* *
42949024 AAAGGGGTTGCTAAGTGTTGATTCCCC
1 AAGGGGGTTGCTAAGTGCTGATTCCCC
42949051 GATTCATTGG
Statistics
Matches: 118, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
102 118 1.00
ACGTcount: A:0.20, C:0.19, G:0.28, T:0.33
Consensus pattern (102 bp):
AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTACTGATTCCCCGATTCATTGGT
GGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTG
Found at i:42949142 original size:76 final size:75
Alignment explanation
Indices: 42948950--42949161 Score: 334
Period size: 76 Copynumber: 2.8 Consensus size: 75
42948940 TGATTCCCTC
* *
42948950 AAGGGGTTGCTAAGTACTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
42949015 TTAAATGTGA
66 TTAAATGTGA
* *
42949025 AAGGGGTTGCTAAGTGTTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACGGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
*
42949090 ATTGAATGTGA
66 -TTAAATGTGA
* * * *
42949101 AAGGAGTTGCTAAGTGCTGATTCCCCGAATCACTGGTGGTTGCTAAGTGCTGAATCCACCG
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCG
42949162 ATAACGGATA
Statistics
Matches: 125, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
75 61 0.49
76 64 0.51
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.31
Consensus pattern (75 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
TTAAATGTGA
Found at i:42955185 original size:19 final size:19
Alignment explanation
Indices: 42955163--42955200 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
42955153 TCAATTATCC
42955163 CTCATCCCATCA-TCTCTCA
1 CTCAT-CCATCATTCTCTCA
*
42955182 CTCATTCATCATTCTCTCA
1 CTCATCCATCATTCTCTCA
42955201 ACTCTTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.21, C:0.42, G:0.00, T:0.37
Consensus pattern (19 bp):
CTCATCCATCATTCTCTCA
Found at i:42960117 original size:17 final size:17
Alignment explanation
Indices: 42960095--42960133 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
42960085 TTTGTTAGTT
42960095 TTGATTAAAGGATTA-AA
1 TTGATTAAAGG-TTAGAA
*
42960112 TTGATTAAATGTTAGAA
1 TTGATTAAAGGTTAGAA
42960129 TTGAT
1 TTGAT
42960134 AGGGAAAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 3 0.15
17 17 0.85
ACGTcount: A:0.41, C:0.00, G:0.18, T:0.41
Consensus pattern (17 bp):
TTGATTAAAGGTTAGAA
Found at i:42960752 original size:20 final size:20
Alignment explanation
Indices: 42960727--42960782 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
42960717 TGTATGGGAC
42960727 TTGCACTTCGGTGCCTCTAT
1 TTGCACTTCGGTGCCTCTAT
** * *
42960747 TTGCACTTTAGTGCCCCTTT
1 TTGCACTTCGGTGCCTCTAT
*
42960767 TTGCACTTCGATGCCT
1 TTGCACTTCGGTGCCT
42960783 TTGATCGCAC
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.11, C:0.30, G:0.18, T:0.41
Consensus pattern (20 bp):
TTGCACTTCGGTGCCTCTAT
Found at i:42962359 original size:14 final size:14
Alignment explanation
Indices: 42962318--42962365 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 14
42962308 GTTTTAACTT
**
42962318 TAATTAATCAAAAT
1 TAATTAATCAAACC
*
42962332 TAATTTAATTAAACC
1 TAA-TTAATCAAACC
42962347 TAATTAATCAAACC
1 TAATTAATCAAACC
42962361 ATAAT
1 -TAAT
42962366 CACAATTAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
14 13 0.46
15 15 0.54
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.35
Consensus pattern (14 bp):
TAATTAATCAAACC
Found at i:42967565 original size:50 final size:49
Alignment explanation
Indices: 42967500--42967675 Score: 147
Period size: 50 Copynumber: 3.5 Consensus size: 49
42967490 TTCGGAAAGT
* *
42967500 AAGATTCGCCATTGTGGCTTTAATCTTTTTAACTGTAATGTCTGGGAAGC
1 AAGATTCGCCGTTGTGGCTTTAATCTTTTCAACTG-AATGTCTGGGAAGC
* * ** * * * *
42967550 ATGATTCGCTGTTGTGGCTTTAAT-TTGTTCCGCTGCATCGCCTGGGAGGT
1 AAGATTCGCCGTTGTGGCTTTAATCTT-TTCAACTGAAT-GTCTGGGAAGC
* * * * *
42967600 AAGATTCGCTGTTGTAGCTTTGATCTTTTGAACTGCAATGTCAGGGAAGC
1 AAGATTCGCCGTTGTGGCTTTAATCTTTTCAACTG-AATGTCTGGGAAGC
* * *
42967650 AAGATTCACCGATGTGGTTTTAATCT
1 AAGATTCGCCGTTGTGGCTTTAATCT
42967676 ATTCCACGGC
Statistics
Matches: 95, Mismatches: 27, Indels: 8
0.73 0.21 0.06
Matches are distributed among these distances:
49 4 0.04
50 87 0.92
51 4 0.04
ACGTcount: A:0.21, C:0.17, G:0.25, T:0.37
Consensus pattern (49 bp):
AAGATTCGCCGTTGTGGCTTTAATCTTTTCAACTGAATGTCTGGGAAGC
Found at i:42967720 original size:100 final size:100
Alignment explanation
Indices: 42967496--42967767 Score: 265
Period size: 100 Copynumber: 2.8 Consensus size: 100
42967486 AACTTTCGGA
* * * * * * *
42967496 AAGTAAGATTCGCCATTGTGGCTTTAATCTTTTTAACTGTAATGTCTGGGAAGCATGATTCGCTG
1 AAGTAAGATTCGCCGTTGTGGCTTTAATCTTTTGAACTGCAATGTCAGGGAAGCAAGATTCACCG
* * * * * **
42967561 TTGTGGCTTTAATTTGTTCCGCTGCATCGCCTGGG
66 ATGTGGCTTTAATCTATTCCACGGCATCGCCAAGG
* * * *
42967596 AGGTAAGATTCGCTGTTGTAGCTTTGATCTTTTGAACTGCAATGTCAGGGAAGCAAGATTCACCG
1 AAGTAAGATTCGCCGTTGTGGCTTTAATCTTTTGAACTGCAATGTCAGGGAAGCAAGATTCACCG
*
42967661 ATGTGGTTTTAATCTATTCCACGGCATCGCCAAGG
66 ATGTGGCTTTAATCTATTCCACGGCATCGCCAAGG
* * * *
42967696 AAGTAGGATTCGCCGCTGTGGCTTT-A---GTT----TGCAATGTC-GAGGAAGCAAGATTCACT
1 AAGTAAGATTCGCCGTTGTGGCTTTAATCTTTTGAACTGCAATGTCAG-GGAAGCAAGATTCACC
42967752 GATGTGGCTTTAATCT
65 GATGTGGCTTTAATCT
42967768 GTTCTACTAC
Statistics
Matches: 144, Mismatches: 27, Indels: 10
0.80 0.15 0.06
Matches are distributed among these distances:
91 1 0.01
92 39 0.27
96 2 0.01
99 1 0.01
100 101 0.70
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (100 bp):
AAGTAAGATTCGCCGTTGTGGCTTTAATCTTTTGAACTGCAATGTCAGGGAAGCAAGATTCACCG
ATGTGGCTTTAATCTATTCCACGGCATCGCCAAGG
Found at i:42967922 original size:44 final size:44
Alignment explanation
Indices: 42967856--42968206 Score: 124
Period size: 44 Copynumber: 7.5 Consensus size: 44
42967846 ATGTGATATA
**
42967856 CTCTACTGTAA-CTTCAAAGAGATAAGATCCTTTATTTTAATCTG
1 CTCTACTGTAATC-TCAGGGAGATAAGATCCTTTATTTTAATCTG
* * * * *
42967900 CTCCACTGTAATCTCAGGGAGATAGGAT--TACTAGCTTCAATCTG
1 CTCTACTGTAATCTCAGGGAGATAAGATCCT-TTA-TTTTAATCTG
* * * ** *
42967944 CTCTGCTGTAACCTCAGGGAGAT-AGATTTCTGGCTTCAATCTGATGCGATCTA
1 CTCTACTGTAATCTCAGGGAGATAAGA--TC---CTT-TAT-T--T-TAATCTG
* * *
42967997 CTCTATTGTAA-CTTCAGAGAGATAAGATCCTTTATTTTAATCCG
1 CTCTACTGTAATC-TCAGGGAGATAAGATCCTTTATTTTAATCTG
* * * * * *
42968041 CTCCATTGTAATCTCAGGGAGATAGGAT--TACTAGCTTCAATCTG
1 CTCTACTGTAATCTCAGGGAGATAAGATCCT-TTA-TTTTAATCTG
* * * * *
42968085 CTCTGCTGAAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGATACGATCTA
1 CTCTACTGTAATCTCAGGGAGATAAGA--TC---CTT-TAT-T-TTA--ATCTG
* * *
42968139 CTCTACTGTAA-CTTCAGAGAGATAAGATCTTTTATTTTAATCCG
1 CTCTACTGTAATC-TCAGGGAGATAAGATCCTTTATTTTAATCTG
*
42968183 CTCCACTGTAATCTCAGGGAGATA
1 CTCTACTGTAATCTCAGGGAGATA
42968207 GGATTACTAG
Statistics
Matches: 221, Mismatches: 52, Indels: 68
0.65 0.15 0.20
Matches are distributed among these distances:
42 2 0.01
43 6 0.03
44 128 0.58
45 5 0.02
46 3 0.01
47 2 0.01
48 4 0.02
49 5 0.02
50 3 0.01
51 3 0.01
52 7 0.03
53 24 0.11
54 29 0.13
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.34
Consensus pattern (44 bp):
CTCTACTGTAATCTCAGGGAGATAAGATCCTTTATTTTAATCTG
Found at i:42968179 original size:142 final size:142
Alignment explanation
Indices: 42967854--42968270 Score: 705
Period size: 142 Copynumber: 2.9 Consensus size: 142
42967844 GGATGTGATA
* *
42967854 TACTCTACTGTAACTTCAAAGAGATAAGATCCTTTATTTTAATCTGCTCCACTGTAATCTCAGGG
1 TACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGG
* *
42967919 AGATAGGATTACTAGCTTCAATCTGCTCTGCTGTAACCTCAGGGAGAT-AGATTTCTGGCTTCAA
66 AGATAGGATTACTAGCTTCAATCTGCTCTGCTGAAATCTCAGGGAGATAAGATTTCTGGCTTCAA
*
42967983 TCTGATGCGATC
131 TCTGATACGATC
* *
42967995 TACTCTATTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCATTGTAATCTCAGGG
1 TACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGG
42968060 AGATAGGATTACTAGCTTCAATCTGCTCTGCTGAAATCTCAGGGAGATAAGATTTCTGGCTTCAA
66 AGATAGGATTACTAGCTTCAATCTGCTCTGCTGAAATCTCAGGGAGATAAGATTTCTGGCTTCAA
42968125 TCTGATACGATC
131 TCTGATACGATC
*
42968137 TACTCTACTGTAACTTCAGAGAGATAAGATCTTTTATTTTAATCCGCTCCACTGTAATCTCAGGG
1 TACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGG
* *
42968202 AGATAGGATTACTAGCTTCAATTTGCTCTACT-ATAATCTCTA-GGAGATAAGATTTCTGGCTTC
66 AGATAGGATTACTAGCTTCAATCTGCTCTGCTGA-AATCTC-AGGGAGATAAGATTTCTGGCTTC
42968265 AATCTG
129 AATCTG
42968271 CTCCACTGTA
Statistics
Matches: 261, Mismatches: 12, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
141 108 0.41
142 152 0.58
143 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (142 bp):
TACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGG
AGATAGGATTACTAGCTTCAATCTGCTCTGCTGAAATCTCAGGGAGATAAGATTTCTGGCTTCAA
TCTGATACGATC
Found at i:42968240 original size:44 final size:44
Alignment explanation
Indices: 42968177--42968299 Score: 142
Period size: 44 Copynumber: 2.8 Consensus size: 44
42968167 CTTTTATTTT
* *
42968177 AATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTC
* * * * *
42968221 AATTTGCTCTACTATAATCTCTA-GGAGATAAGATTTCTGGCTTC
1 AATCTGCTCCACTGTAATCTC-AGGGAGATAAGATTACTAGCTTC
*
42968265 AATCTGCTCCACTGTAA-CACCAGGGAGATAAGATT
1 AATCTGCTCCACTGTAATC-TCAGGGAGATAAGATT
42968300 CATCATTTCC
Statistics
Matches: 65, Mismatches: 11, Indels: 6
0.79 0.13 0.07
Matches are distributed among these distances:
43 2 0.03
44 62 0.95
45 1 0.02
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (44 bp):
AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTC
Found at i:42968575 original size:130 final size:130
Alignment explanation
Indices: 42968388--42968621 Score: 360
Period size: 130 Copynumber: 1.8 Consensus size: 130
42968378 CCTTACACTT
* * *
42968388 GAAGATAAGATTTACCCTCGTCGATCTGTTCCACTACTACTTAGGAAGATAAGATCTGCAATTTC
1 GAAGATAAGATTCACCCTCGTCGATCTGCTCCACTACTACTTAGGAAGACAAGATCTGCAATTTC
42968453 CAACCCATTCCACTGCTGGTCAGGGACATAGGACGTGTGGCTTAATTTGTTTCCCTACTCTAGGG
66 CAACCCATTCCACTGCTGGTCAGGGACATAGGACGTGTGGCTTAATTTGTTTCCCTACTCTAGGG
* * * * * * *
42968518 GAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTTAGGGAGACAAGATCTGCAATTTC
1 GAAGATAAGATTCACCCTCGTCGATCTGCTCCACTACTACTTAGGAAGACAAGATCTGCAATTTC
* *
42968583 CAACCTATTCCACTGCTGGTCAGGGACATAGGACTTGTG
66 CAACCCATTCCACTGCTGGTCAGGGACATAGGACGTGTG
42968622 ATTTCACCGA
Statistics
Matches: 92, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
130 92 1.00
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (130 bp):
GAAGATAAGATTCACCCTCGTCGATCTGCTCCACTACTACTTAGGAAGACAAGATCTGCAATTTC
CAACCCATTCCACTGCTGGTCAGGGACATAGGACGTGTGGCTTAATTTGTTTCCCTACTCTAGGG
Found at i:42970667 original size:6 final size:6
Alignment explanation
Indices: 42970656--42970700 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
42970646 CTTCTTATCA
* * *
42970656 ATTTTT ATTTTT ATTTTG ATTTTG ATTTTG AGTTTG ATTTTG ATT
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATT
42970701 GATTTTTCTT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.18, C:0.00, G:0.13, T:0.69
Consensus pattern (6 bp):
ATTTTG
Found at i:42978542 original size:27 final size:27
Alignment explanation
Indices: 42978505--42978848 Score: 360
Period size: 27 Copynumber: 12.8 Consensus size: 27
42978495 TGCGATACGT
* *
42978505 GGGTAAAATTATCGAAATACCCTCGAT
1 GGGTAAAATTATCGAAATACCCTCAAA
* *
42978532 GGGTAAAATTATCAAAATACCCTCAAT
1 GGGTAAAATTATCGAAATACCCTCAAA
*
42978559 GGGTAAAATTACCGAAATACCCTCGAAA
1 GGGTAAAATTATCGAAATACCCTC-AAA
42978587 -GGTAAAATTATCGAAATACCCT-AAA
1 GGGTAAAATTATCGAAATACCCTCAAA
* * *
42978612 GGGTAAAATTATCAAAATACTCTCGAA
1 GGGTAAAATTATCGAAATACCCTCAAA
* * *
42978639 GAGTAAAATTATTGAAATACCCTCAAT
1 GGGTAAAATTATCGAAATACCCTCAAA
42978666 GGGTAAAATTATCGAAATACCCTCGAAA
1 GGGTAAAATTATCGAAATACCCTC-AAA
* * * *
42978694 -GATTAAATTA-CTAAAGTACTCTCAAA
1 GGGTAAAATTATCGAAA-TACCCTCAAA
* *
42978720 GGGTAAAATTATTGAAATACTCTCAATA
1 GGGTAAAATTATCGAAATACCCTCAA-A
*
42978748 -GGTATAATTATCGAAATACCCTCAAA
1 GGGTAAAATTATCGAAATACCCTCAAA
** **
42978774 GGAAAAAATTATCGAAATACCCTTGAA
1 GGGTAAAATTATCGAAATACCCTCAAA
* *
42978801 GGGTAAAATTA-CTGTAAT-CCCCCAAA
1 GGGTAAAATTATC-GAAATACCCTCAAA
* *
42978827 GGGTAAAATTTTTGAAATACCC
1 GGGTAAAATTATCGAAATACCC
42978849 CTGAGGGGTA
Statistics
Matches: 262, Mismatches: 43, Indels: 24
0.80 0.13 0.07
Matches are distributed among these distances:
25 3 0.01
26 48 0.18
27 203 0.77
28 8 0.03
ACGTcount: A:0.43, C:0.17, G:0.14, T:0.26
Consensus pattern (27 bp):
GGGTAAAATTATCGAAATACCCTCAAA
Found at i:42979104 original size:26 final size:26
Alignment explanation
Indices: 42979073--42979140 Score: 91
Period size: 26 Copynumber: 2.6 Consensus size: 26
42979063 TTATTGGCAA
*
42979073 CTTTGCTGCGATATTGATACTGATAG
1 CTTTGCTGCGATATTGATACTGACAG
* * * *
42979099 CTTTGCTGTGTTACTGATACTGGCAG
1 CTTTGCTGCGATATTGATACTGACAG
42979125 CTTTGCTGCGATATTG
1 CTTTGCTGCGATATTG
42979141 GTGTGTTGGC
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.18, C:0.18, G:0.25, T:0.40
Consensus pattern (26 bp):
CTTTGCTGCGATATTGATACTGACAG
Found at i:42979286 original size:28 final size:29
Alignment explanation
Indices: 42979254--42979329 Score: 100
Period size: 30 Copynumber: 2.6 Consensus size: 29
42979244 GATAACTATT
*
42979254 TTGGGCTAAGACCCACAC-TGTTACTGTA
1 TTGGGCTAAGACCCACACTTATTACTGTA
*
42979282 TTGGGCTAAGGCCCACACTTTATTACTGTA
1 TTGGGCTAAGACCCACAC-TTATTACTGTA
* *
42979312 TTGGGCTATGCCCCACAC
1 TTGGGCTAAGACCCACAC
42979330 ACTGCTATTG
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
28 17 0.40
30 25 0.60
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (29 bp):
TTGGGCTAAGACCCACACTTATTACTGTA
Found at i:42979342 original size:30 final size:30
Alignment explanation
Indices: 42979254--42979342 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
42979244 GATAACTATT
*
42979254 TTGGGCTAAG-ACC-CACACTGTTACTGTA
1 TTGGGCTAAGCCCCACACACTGTTACTGTA
* ** *
42979282 TTGGGCTAAGGCCCACACTTTATTACTGTA
1 TTGGGCTAAGCCCCACACACTGTTACTGTA
* * *
42979312 TTGGGCTATGCCCCACACACTGCTATTGTA
1 TTGGGCTAAGCCCCACACACTGTTACTGTA
42979342 T
1 T
42979343 AAGGCTCAGG
Statistics
Matches: 48, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
28 10 0.21
29 2 0.04
30 36 0.75
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.31
Consensus pattern (30 bp):
TTGGGCTAAGCCCCACACACTGTTACTGTA
Found at i:42985002 original size:27 final size:27
Alignment explanation
Indices: 42984965--42985309 Score: 301
Period size: 27 Copynumber: 12.8 Consensus size: 27
42984955 TGTGGTTCGT
* *
42984965 GGGTAAAATTATCGAAATACCCTCGAT
1 GGGTAAAATTATCGAAATACCCTCAAA
*
42984992 GGGTAAAATTA-CTGAAATACCCTCAAT
1 GGGTAAAATTATC-GAAATACCCTCAAA
* *
42985019 GGGTAAAATTACCAAAATACCC-CTAAA
1 GGGTAAAATTATCGAAATACCCTC-AAA
**
42985046 GGGTAAAATTATCGAAATACCCTTGAA
1 GGGTAAAATTATCGAAATACCCTCAAA
* *
42985073 GGGTAAAATTA-CTGAAATACTCTCGAA
1 GGGTAAAATTATC-GAAATACCCTCAAA
* * *
42985100 GGGTAAACTTACCGAAATACCCTCAAT
1 GGGTAAAATTATCGAAATACCCTCAAA
* *
42985127 GGGTAAAATTATCGAAACACCCTTAAA
1 GGGTAAAATTATCGAAATACCCTCAAA
**
42985154 GGGTAAAATTA-CTGAAATACCCTCACC
1 GGGTAAAATTATC-GAAATACCCTCAAA
* * * *
42985181 GAGTAAAATTA-CTAAAATACCCACGAA
1 GGGTAAAATTATC-GAAATACCCTCAAA
* * * * *
42985208 TGATGAAATTACCAAAATACCCTCAAA
1 GGGTAAAATTATCGAAATACCCTCAAA
*
42985235 GGG-AAAATT-TACTGAAATACCCTCGAA
1 GGGTAAAATTAT-C-GAAATACCCTCAAA
* * *
42985262 GGGTAAAATTACCGTAATGCTCCT-AAA
1 GGGTAAAATTATCGAAATAC-CCTCAAA
42985289 GGGTAAAATTATCGAAATACC
1 GGGTAAAATTATCGAAATACC
42985310 TCCGAGAGGT
Statistics
Matches: 258, Mismatches: 47, Indels: 27
0.78 0.14 0.08
Matches are distributed among these distances:
26 11 0.04
27 234 0.91
28 13 0.05
ACGTcount: A:0.42, C:0.19, G:0.15, T:0.23
Consensus pattern (27 bp):
GGGTAAAATTATCGAAATACCCTCAAA
Found at i:42985104 original size:81 final size:80
Alignment explanation
Indices: 42984965--42985309 Score: 399
Period size: 81 Copynumber: 4.3 Consensus size: 80
42984955 TGTGGTTCGT
* *
42984965 GGGTAAAATTATCGAAATACCCTCGATGGGTAAAATTACTGAAATACCCTCAATGGGTAAAATTA
1 GGGTAAAATTATCGAAATACCCTCAAAGGGTAAAATTACTGAAATACCCTCAA-GGGTAAAATTA
42985030 CCAAAATACCCCTAAA
65 CCAAAATACCCCTAAA
** * *
42985046 GGGTAAAATTATCGAAATACCCTTGAAGGGTAAAATTACTGAAATACTCTCGAAGGGTAAACTTA
1 GGGTAAAATTATCGAAATACCCTCAAAGGGTAAAATTACTGAAATACCCTC-AAGGGTAAAATTA
* *
42985111 CCGAAATA-CCCTCAAT
65 CCAAAATACCCCT-AAA
* * * *
42985127 GGGTAAAATTATCGAAACACCCTTAAAGGGTAAAATTACTGAAATACCCTCACCGAGTAAAATTA
1 GGGTAAAATTATCGAAATACCCTCAAAGGGTAAAATTACTGAAATACCCTCA-AGGGTAAAATTA
* *
42985192 CTAAAATACCCAC-GAA
65 CCAAAATACCC-CTAAA
* * * * *
42985208 TGATGAAATTACCAAAATACCCTCAAAGGG-AAAATTTACTGAAATACCCTCGAAGGGTAAAATT
1 GGGTAAAATTATCGAAATACCCTCAAAGGGTAAAA-TTACTGAAATACCCTC-AAGGGTAAAATT
** * *
42985272 ACCGTAATGCTCCTAAA
64 ACCAAAATACCCCTAAA
42985289 GGGTAAAATTATCGAAATACC
1 GGGTAAAATTATCGAAATACC
42985310 TCCGAGAGGT
Statistics
Matches: 220, Mismatches: 36, Indels: 16
0.81 0.13 0.06
Matches are distributed among these distances:
80 10 0.05
81 204 0.93
82 5 0.02
83 1 0.00
ACGTcount: A:0.42, C:0.19, G:0.15, T:0.23
Consensus pattern (80 bp):
GGGTAAAATTATCGAAATACCCTCAAAGGGTAAAATTACTGAAATACCCTCAAGGGTAAAATTAC
CAAAATACCCCTAAA
Found at i:42985324 original size:54 final size:54
Alignment explanation
Indices: 42984965--42985309 Score: 351
Period size: 54 Copynumber: 6.4 Consensus size: 54
42984955 TGTGGTTCGT
* * *
42984965 GGGTAAAATTATCGAAATACCCTCGATGGGTAAAATTACTGAAATACCCTCAAT
1 GGGTAAAATTATCGAAATACCCTCGAAGGGTAAAATTACCGAAATACCCTCAAA
* * * * **
42985019 GGGTAAAATTACCAAAATACCC-CTAAAGGGTAAAATTATCGAAATACCCTTGAA
1 GGGTAAAATTATCGAAATACCCTC-GAAGGGTAAAATTACCGAAATACCCTCAAA
* * *
42985073 GGGTAAAATTA-CTGAAATACTCTCGAAGGGTAAACTTACCGAAATACCCTCAAT
1 GGGTAAAATTATC-GAAATACCCTCGAAGGGTAAAATTACCGAAATACCCTCAAA
* ** * **
42985127 GGGTAAAATTATCGAAACACCCTTAAAGGGTAAAATTACTGAAATACCCTCACC
1 GGGTAAAATTATCGAAATACCCTCGAAGGGTAAAATTACCGAAATACCCTCAAA
* * * * * * *
42985181 GAGTAAAATTA-CTAAAATACCCACGAATGATGAAATTACCAAAATACCCTCAAA
1 GGGTAAAATTATC-GAAATACCCTCGAAGGGTAAAATTACCGAAATACCCTCAAA
* *
42985235 GGG-AAAATT-TACTGAAATACCCTCGAAGGGTAAAATTACCGTAATGCTCCT-AAA
1 GGGTAAAATTAT-C-GAAATACCCTCGAAGGGTAAAATTACCGAAATAC-CCTCAAA
42985289 GGGTAAAATTATCGAAATACC
1 GGGTAAAATTATCGAAATACC
42985310 TCCGAGAGGT
Statistics
Matches: 234, Mismatches: 47, Indels: 20
0.78 0.16 0.07
Matches are distributed among these distances:
53 9 0.04
54 212 0.91
55 12 0.05
56 1 0.00
ACGTcount: A:0.42, C:0.19, G:0.15, T:0.23
Consensus pattern (54 bp):
GGGTAAAATTATCGAAATACCCTCGAAGGGTAAAATTACCGAAATACCCTCAAA
Found at i:42985572 original size:26 final size:26
Alignment explanation
Indices: 42985519--42985573 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
42985509 TTTGCCACAA
* * *
42985519 ATACTGTTACTGGCAGCTTTGCTCTG
1 ATACTGATACTGGCAGCTCTACTCTG
*
42985545 ATACTGATACTGGCAGCTCTACTGTG
1 ATACTGATACTGGCAGCTCTACTCTG
42985571 ATA
1 ATA
42985574 TTATTATTGG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.35
Consensus pattern (26 bp):
ATACTGATACTGGCAGCTCTACTCTG
Found at i:42985710 original size:28 final size:29
Alignment explanation
Indices: 42985668--42985751 Score: 98
Period size: 30 Copynumber: 2.9 Consensus size: 29
42985658 TTTGTACTAA
* * * *
42985668 TTACTATTTTAGGCTAAGGCCTATAC-TG
1 TTACTATATTGGGCTAAGGCCCACACTTG
42985696 TTACTATATTGGGCTAAGGCCCACACTTTG
1 TTACTATATTGGGCTAAGGCCCACAC-TTG
* *
42985726 TTACTGTATTGGGCTATGGCCCACAC
1 TTACTATATTGGGCTAAGGCCCACAC
42985752 ACTACTACTG
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
28 22 0.46
30 26 0.54
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.35
Consensus pattern (29 bp):
TTACTATATTGGGCTAAGGCCCACACTTG
Found at i:42985761 original size:30 final size:30
Alignment explanation
Indices: 42985697--42985775 Score: 86
Period size: 30 Copynumber: 2.6 Consensus size: 30
42985687 CCTATACTGT
* ** **
42985697 TACTATATTGGGCTAAGGCCCACACTTTGT
1 TACTGTATTGGGCTAAGGCCCACACACTAC
*
42985727 TACTGTATTGGGCTATGGCCCACACACTAC
1 TACTGTATTGGGCTAAGGCCCACACACTAC
* *
42985757 TACTGTATAGGGCTTAGGC
1 TACTGTATTGGGCTAAGGC
42985776 TCAGACTGAT
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.23, C:0.24, G:0.23, T:0.30
Consensus pattern (30 bp):
TACTGTATTGGGCTAAGGCCCACACACTAC
Found at i:42989836 original size:19 final size:21
Alignment explanation
Indices: 42989814--42989853 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
42989804 ATAATTATAA
42989814 AAATAATTAA-A-TTTTAATT
1 AAATAATTAACATTTTTAATT
*
42989833 AAATTATTAACATTTTTAATT
1 AAATAATTAACATTTTTAATT
42989854 TTTTTATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 9 0.50
20 1 0.06
21 8 0.44
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (21 bp):
AAATAATTAACATTTTTAATT
Found at i:42989865 original size:12 final size:12
Alignment explanation
Indices: 42989848--42989889 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
42989838 ATTAACATTT
42989848 TTAATTTTTTTA
1 TTAATTTTTTTA
* *
42989860 TTAATTTTATAA
1 TTAATTTTTTTA
42989872 TTAA--TTTTTA
1 TTAATTTTTTTA
42989882 TTAATTTT
1 TTAATTTT
42989890 AATTTATTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
10 8 0.33
12 16 0.67
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (12 bp):
TTAATTTTTTTA
Found at i:42989867 original size:10 final size:10
Alignment explanation
Indices: 42989854--42989899 Score: 56
Period size: 10 Copynumber: 4.4 Consensus size: 10
42989844 ATTTTTAATT
42989854 TTTTTATTAA
1 TTTTTATTAA
42989864 TTTTATAATTAA
1 TTTT-T-ATTAA
42989876 TTTTTATTAA
1 TTTTTATTAA
* *
42989886 TTTTAATTTA
1 TTTTTATTAA
42989896 TTTT
1 TTTT
42989900 CGACAGTTTC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
10 21 0.66
11 2 0.06
12 9 0.28
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (10 bp):
TTTTTATTAA
Found at i:42996111 original size:46 final size:46
Alignment explanation
Indices: 42996052--42996166 Score: 194
Period size: 46 Copynumber: 2.5 Consensus size: 46
42996042 GACACCGTAG
* **
42996052 ACAGAACGACTAAAAGCCATAAGTATCACAGCAACGCTGCCTGTTA
1 ACAGAACGGCTAAAAGCCATAAGTATCACAGCAACGCTGCCAATTA
*
42996098 ACAGAATGGCTAAAAGCCATAAGTATCACAGCAACGCTGCCAATTA
1 ACAGAACGGCTAAAAGCCATAAGTATCACAGCAACGCTGCCAATTA
42996144 ACAGAACGGCTAAAAGCCATAAG
1 ACAGAACGGCTAAAAGCCATAAG
42996167 CAAAAAGGCA
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 64 1.00
ACGTcount: A:0.42, C:0.24, G:0.18, T:0.16
Consensus pattern (46 bp):
ACAGAACGGCTAAAAGCCATAAGTATCACAGCAACGCTGCCAATTA
Found at i:42996447 original size:27 final size:27
Alignment explanation
Indices: 42996370--42996612 Score: 226
Period size: 27 Copynumber: 9.0 Consensus size: 27
42996360 TTAGATCATC
42996370 TTACCCTTCG-GGAGTATTTT-GATAATT
1 TTACCCTTCGAGG-GTATTTTAG-TAATT
* **
42996397 TTACCCTTCGA-AGTATTTCGGTAATT
1 TTACCCTTCGAGGGTATTTTAGTAATT
* *
42996423 TTACCCTTCAAAGGTATTTTAGTAATT
1 TTACCCTTCGAGGGTATTTTAGTAATT
* *
42996450 TTACCCTTTGAGGGTATTTCAGTAATT
1 TTACCCTTCGAGGGTATTTTAGTAATT
* *
42996477 TTACCCTTTGAGGGTA-TTTCGTTAATT
1 TTACCCTTCGAGGGTATTTTAG-TAATT
* * *
42996504 TTACACTTCGGGGGTATTTTGGTAATT
1 TTACCCTTCGAGGGTATTTTAGTAATT
* ** *
42996531 TTACCCTTCGAAGGTATTTCGGTATTT
1 TTACCCTTCGAGGGTATTTTAGTAATT
*
42996558 TTACCAC-TCGAGGGTATTTTAATAATT
1 TTACC-CTTCGAGGGTATTTTAGTAATT
** * *
42996585 TTACCCTTTAAGGGTATTTAAGTCATT
1 TTACCCTTCGAGGGTATTTTAGTAATT
42996612 T
1 T
42996613 AAAAACCTTT
Statistics
Matches: 178, Mismatches: 31, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
26 25 0.14
27 148 0.83
28 5 0.03
ACGTcount: A:0.23, C:0.15, G:0.17, T:0.44
Consensus pattern (27 bp):
TTACCCTTCGAGGGTATTTTAGTAATT
Found at i:43002201 original size:16 final size:15
Alignment explanation
Indices: 43002176--43002206 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
43002166 CTTTTAATAC
43002176 ACTAGCACAAAGCCT
1 ACTAGCACAAAGCCT
43002191 ACTAGGCACAAAGCCT
1 ACTA-GCACAAAGCCT
43002207 GAATAACACC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.39, C:0.32, G:0.16, T:0.13
Consensus pattern (15 bp):
ACTAGCACAAAGCCT
Found at i:43002235 original size:38 final size:38
Alignment explanation
Indices: 43002174--43002266 Score: 125
Period size: 38 Copynumber: 2.4 Consensus size: 38
43002164 AACTTTTAAT
*
43002174 ACACTAGCACAAAGCCTACTAGGCACAAAGCCTGAATA
1 ACACCAGCACAAAGCCTACTAGGCACAAAGCCTGAATA
* * * *
43002212 ACACCAGCATAAAGCTTGCTAGGCACAGAGCCTGAATA
1 ACACCAGCACAAAGCCTACTAGGCACAAAGCCTGAATA
43002250 ACACC-GACACAAAGCCT
1 ACACCAG-CACAAAGCCT
43002267 GAATAACACC
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
37 1 0.02
38 46 0.98
ACGTcount: A:0.40, C:0.30, G:0.17, T:0.13
Consensus pattern (38 bp):
ACACCAGCACAAAGCCTACTAGGCACAAAGCCTGAATA
Found at i:43002265 original size:22 final size:22
Alignment explanation
Indices: 43002235--43002276 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
43002225 GCTTGCTAGG
*
43002235 CACAGAGCCTGAATAACACCGA
1 CACAAAGCCTGAATAACACCGA
43002257 CACAAAGCCTGAATAACACC
1 CACAAAGCCTGAATAACACC
43002277 AAGATAAAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.43, C:0.33, G:0.14, T:0.10
Consensus pattern (22 bp):
CACAAAGCCTGAATAACACCGA
Found at i:43002285 original size:22 final size:22
Alignment explanation
Indices: 43002235--43002288 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
43002225 GCTTGCTAGG
* *
43002235 CACAGAGCCTGAATAACACCGA
1 CACAAAGCCTGAATAACACCAA
43002257 CACAAAGCCTGAATAACACCAA
1 CACAAAGCCTGAATAACACCAA
* *
43002279 GATAAAGCCT
1 CACAAAGCCT
43002289 ACTAGGCAGA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.44, C:0.30, G:0.15, T:0.11
Consensus pattern (22 bp):
CACAAAGCCTGAATAACACCAA
Found at i:43002304 original size:60 final size:60
Alignment explanation
Indices: 43002197--43002309 Score: 165
Period size: 60 Copynumber: 1.9 Consensus size: 60
43002187 GCCTACTAGG
* * * *
43002197 CACAAAGCCTGAATAACACCAGCATAAAGCTTGCTAGGCACAGAGCCTGAATAACACCGA
1 CACAAAGCCTGAATAACACCAGCATAAAGCCTACTAGGCACAAAGCCTAAATAACACCGA
*
43002257 CACAAAGCCTGAATAACACCAAG-ATAAAGCCTACTAGGCAGAAAGCCTAAATA
1 CACAAAGCCTGAATAACACC-AGCATAAAGCCTACTAGGCACAAAGCCTAAATA
43002310 GCATTATACT
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
60 45 0.96
61 2 0.04
ACGTcount: A:0.43, C:0.27, G:0.17, T:0.13
Consensus pattern (60 bp):
CACAAAGCCTGAATAACACCAGCATAAAGCCTACTAGGCACAAAGCCTAAATAACACCGA
Found at i:43005580 original size:23 final size:23
Alignment explanation
Indices: 43005536--43005580 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
43005526 ATAATAAGTT
**
43005536 TAAAAATAATATTAAGCCAATAA
1 TAAAAATAATATTAAAACAATAA
* *
43005559 TAAAAATAATGTTAAAATAATA
1 TAAAAATAATATTAAAACAATA
43005581 TATGAACATA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.29
Consensus pattern (23 bp):
TAAAAATAATATTAAAACAATAA
Found at i:43006645 original size:27 final size:28
Alignment explanation
Indices: 43006604--43006659 Score: 96
Period size: 27 Copynumber: 2.0 Consensus size: 28
43006594 GCGTAAGTTC
43006604 TTTTTTTACAGGGGTTTTTCAGTTCTTA
1 TTTTTTTACAGGGGTTTTTCAGTTCTTA
*
43006632 TTTTTTTACA-GGGTTTTTCGGTTCTTA
1 TTTTTTTACAGGGGTTTTTCAGTTCTTA
43006659 T
1 T
43006660 ATCTTTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
27 17 0.63
28 10 0.37
ACGTcount: A:0.12, C:0.11, G:0.18, T:0.59
Consensus pattern (28 bp):
TTTTTTTACAGGGGTTTTTCAGTTCTTA
Found at i:43006666 original size:28 final size:28
Alignment explanation
Indices: 43006607--43006666 Score: 86
Period size: 27 Copynumber: 2.1 Consensus size: 28
43006597 TAAGTTCTTT
*
43006607 TTTTACAGGGGTTTTTCAGTTCTTATTT
1 TTTTACAGGGGTTTTTCAGTTCTTATTC
*
43006635 TTTTACA-GGGTTTTTCGGTTCTTATATC
1 TTTTACAGGGGTTTTTCAGTTCTTAT-TC
43006663 TTTT
1 TTTT
43006667 TTTTGTGACC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 17 0.59
28 12 0.41
ACGTcount: A:0.13, C:0.12, G:0.17, T:0.58
Consensus pattern (28 bp):
TTTTACAGGGGTTTTTCAGTTCTTATTC
Found at i:43007600 original size:44 final size:44
Alignment explanation
Indices: 43007552--43007789 Score: 165
Period size: 44 Copynumber: 5.2 Consensus size: 44
43007542 CCTTTATTTT
* *
43007552 AATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTGGTTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTGGCTTC
* * *
43007596 AATCTGCTCCGCTATAATCTCAGGGAGATAAGATTTCTGGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTGGCTTC
* * * * *** *
43007640 AATCTAATGCGATCTACTCTACTGTAA-CTTCAGAGAGATGACA-TCCTTTATTTT
1 AATC---T--G--CT-C-C-ACTGTAATC-TCAGGGAGATAAGATTAC-TGGCTTC
* * * *
43007694 AATCCGCTCCACTGTAATCTTAGGGAGATAGGATTACTAGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTGGCTTC
* * *
43007738 AATTTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTGGCTTC
*
43007782 AATTTGCT
1 AATCTGCT
43007790 TCCTTACACT
Statistics
Matches: 147, Mismatches: 33, Indels: 28
0.71 0.16 0.13
Matches are distributed among these distances:
44 107 0.73
45 4 0.03
46 1 0.01
47 3 0.02
49 2 0.01
51 2 0.01
52 1 0.01
53 4 0.03
54 23 0.16
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (44 bp):
AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTGGCTTC
Found at i:43007760 original size:142 final size:142
Alignment explanation
Indices: 43007515--43007784 Score: 459
Period size: 142 Copynumber: 1.9 Consensus size: 142
43007505 TGCGATCCTT
* ** *
43007515 TCTATTGTAACTTCAGAGAGATGTGATCCTTTATTTTAATCTGCTCCACTGTAATCTCAGGGAGA
1 TCTACTGTAACTTCAGAGAGATGACATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGA
* *
43007580 TAGGATTACTGGTTTCAATCTGCTCCGCTATAATCTCAGGGAGATAAGATTTCTGGCTTCAATCT
66 TAGGATTACTAGCTTCAATCTGCTCCGCTATAATCTCAGGGAGATAAGATTTCTGGCTTCAATCT
43007645 AATGCGATCTAC
131 AATGCGATCTAC
*
43007657 TCTACTGTAACTTCAGAGAGATGACATCCTTTATTTTAATCCGCTCCACTGTAATCTTAGGGAGA
1 TCTACTGTAACTTCAGAGAGATGACATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGA
* *
43007722 TAGGATTACTAGCTTCAATTTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAAT
66 TAGGATTACTAGCTTCAATCTGCTCCGCTATAATCTCAGGGAGATAAGATTTCTGGCTTCAAT
43007785 TTGCTTCCTT
Statistics
Matches: 119, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
142 119 1.00
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (142 bp):
TCTACTGTAACTTCAGAGAGATGACATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGA
TAGGATTACTAGCTTCAATCTGCTCCGCTATAATCTCAGGGAGATAAGATTTCTGGCTTCAATCT
AATGCGATCTAC
Found at i:43016437 original size:19 final size:19
Alignment explanation
Indices: 43016413--43016458 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
43016403 AATAATTTTA
* *
43016413 AATGCATATG-ATGACATG
1 AATGCAGATGCATGAAATG
43016431 TAATGCAGATGCATGAAATG
1 -AATGCAGATGCATGAAATG
43016451 AATGCAGA
1 AATGCAGA
43016459 AAGGTGTGTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.41, C:0.11, G:0.24, T:0.24
Consensus pattern (19 bp):
AATGCAGATGCATGAAATG
Found at i:43020028 original size:27 final size:26
Alignment explanation
Indices: 43019998--43020048 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
43019988 ATGAAATTCT
*
43019998 TACAAA-CAACATGATTGATTAACAATA
1 TACAAAGCAA-ATGA-TGAATAACAATA
43020025 TACAAAGCAAATGATGAATAACAA
1 TACAAAGCAAATGATGAATAACAA
43020049 ATTAATTCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 9 0.41
27 10 0.45
28 3 0.14
ACGTcount: A:0.55, C:0.14, G:0.10, T:0.22
Consensus pattern (26 bp):
TACAAAGCAAATGATGAATAACAATA
Found at i:43020361 original size:23 final size:23
Alignment explanation
Indices: 43020317--43020361 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
43020307 ATAATAAGTT
**
43020317 TAAAAATAATATTAAGCCAATAA
1 TAAAAATAATATTAAAACAATAA
* *
43020340 TAAAAATAATGTTAAAATAATA
1 TAAAAATAATATTAAAACAATA
43020362 TATGAACATA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.29
Consensus pattern (23 bp):
TAAAAATAATATTAAAACAATAA
Found at i:43021072 original size:36 final size:36
Alignment explanation
Indices: 43021022--43021093 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
43021012 GACGACACCG
43021022 TTTTAAATCCGGTGATTAAAACTAAAATAAAACTAA
1 TTTTAAATCCGGTGATTAAAACTAAAATAAAACTAA
**
43021058 TTTTAAATTTGGTGATTAAAACTAAAATAAAACTAA
1 TTTTAAATCCGGTGATTAAAACTAAAATAAAACTAA
43021094 AAAACCCTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.50, C:0.08, G:0.08, T:0.33
Consensus pattern (36 bp):
TTTTAAATCCGGTGATTAAAACTAAAATAAAACTAA
Found at i:43029147 original size:75 final size:76
Alignment explanation
Indices: 43029015--43029154 Score: 210
Period size: 75 Copynumber: 1.9 Consensus size: 76
43029005 AACTTTTAAT
* *
43029015 ACACTGGCACAAAGCCTACTAGGCACAAAGTCTGAATAACACTAGCATAAAGCCTGCTAGGCACA
1 ACACTGGCACAAAGCCTACTAGGCACAAAGCCTGAATAACACTAGCACAAAGCCTGCTAGGCACA
43029080 GAGCTTGAATA
66 GAGCTTGAATA
* * * * *
43029091 ACACT-GCACAAAGTCTGCTAGGCACAGAGCCTGAATAACACTGGCACAAAGTCTGCTAGGCACA
1 ACACTGGCACAAAGCCTACTAGGCACAAAGCCTGAATAACACTAGCACAAAGCCTGCTAGGCACA
43029155 AAGCCTGCTA
Statistics
Matches: 57, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
75 52 0.91
76 5 0.09
ACGTcount: A:0.36, C:0.26, G:0.21, T:0.16
Consensus pattern (76 bp):
ACACTGGCACAAAGCCTACTAGGCACAAAGCCTGAATAACACTAGCACAAAGCCTGCTAGGCACA
GAGCTTGAATA
Found at i:43029154 original size:16 final size:16
Alignment explanation
Indices: 43029133--43029174 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
43029123 GAATAACACT
*
43029133 GGCACAAAGTCTGCTA
1 GGCACAAAGCCTGCTA
43029149 GGCACAAAGCCTGCTA
1 GGCACAAAGCCTGCTA
43029165 GGCACAAAGC
1 GGCACAAAGC
43029175 TTGAATAACA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.33, C:0.29, G:0.26, T:0.12
Consensus pattern (16 bp):
GGCACAAAGCCTGCTA
Found at i:43029160 original size:38 final size:38
Alignment explanation
Indices: 43029015--43029161 Score: 206
Period size: 38 Copynumber: 3.9 Consensus size: 38
43029005 AACTTTTAAT
* *
43029015 ACACTGGCACAAAGCCTACTAGGCACAAAGTCTGAATA
1 ACACTGGCACAAAGCCTGCTAGGCACAAAGCCTGAATA
* * * *
43029053 ACACTAGCATAAAGCCTGCTAGGCACAGAGCTTGAATA
1 ACACTGGCACAAAGCCTGCTAGGCACAAAGCCTGAATA
* *
43029091 ACACT-GCACAAAGTCTGCTAGGCACAGAGCCTGAATA
1 ACACTGGCACAAAGCCTGCTAGGCACAAAGCCTGAATA
*
43029128 ACACTGGCACAAAGTCTGCTAGGCACAAAGCCTG
1 ACACTGGCACAAAGCCTGCTAGGCACAAAGCCTG
43029162 CTAGGCACAA
Statistics
Matches: 98, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
37 34 0.35
38 64 0.65
ACGTcount: A:0.36, C:0.27, G:0.21, T:0.16
Consensus pattern (38 bp):
ACACTGGCACAAAGCCTGCTAGGCACAAAGCCTGAATA
Found at i:43031926 original size:25 final size:25
Alignment explanation
Indices: 43031898--43031965 Score: 82
Period size: 25 Copynumber: 2.7 Consensus size: 25
43031888 CTCGTGTGAA
* * *
43031898 CATATCGATTTATAGCTCATGAGAG
1 CATACCGATTTACAGCTCAAGAGAG
* *
43031923 CATACCGATCTACAGCTCAAGTGAG
1 CATACCGATTTACAGCTCAAGAGAG
*
43031948 CATACCGATTCACAGCTC
1 CATACCGATTTACAGCTC
43031966 GTATGAGTAT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (25 bp):
CATACCGATTTACAGCTCAAGAGAG
Found at i:43031972 original size:25 final size:25
Alignment explanation
Indices: 43031883--43031977 Score: 70
Period size: 25 Copynumber: 3.8 Consensus size: 25
43031873 TGTTCTAACC
* * *
43031883 CACAGCTCGTGTGAACATATCGATT
1 CACAGCTCGTATGAGCATACCGATT
* * *
43031908 TATAGCTCATGA-GAGCATACCGA-T
1 CACAGCTCGT-ATGAGCATACCGATT
*
43031932 CTACAGCTC-AAGTGAGCATACCGATT
1 C-ACAGCTCGTA-TGAGCATACCGATT
*
43031958 CACAGCTCGTATGAGTATAC
1 CACAGCTCGTATGAGCATAC
43031978 ATGTATATGA
Statistics
Matches: 53, Mismatches: 11, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
23 1 0.02
24 1 0.02
25 48 0.91
26 3 0.06
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (25 bp):
CACAGCTCGTATGAGCATACCGATT
Found at i:43034284 original size:22 final size:22
Alignment explanation
Indices: 43034259--43034302 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
43034249 TCTGCATAAT
43034259 TAATAAATGTTTTATCAACAGC
1 TAATAAATGTTTTATCAACAGC
43034281 TAATAAATGTTTTATCAACAGC
1 TAATAAATGTTTTATCAACAGC
43034303 GAAGAGATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.14, G:0.09, T:0.36
Consensus pattern (22 bp):
TAATAAATGTTTTATCAACAGC
Found at i:43038922 original size:23 final size:23
Alignment explanation
Indices: 43038896--43038976 Score: 60
Period size: 23 Copynumber: 3.5 Consensus size: 23
43038886 TAATAATTTT
*
43038896 TGGATTGAAGTATAAGTTTAAAA
1 TGGAATGAAGTATAAGTTTAAAA
* **
43038919 TGGAATGAAAATCATAA---TAATTTT
1 TGGAATG-AAGT-ATAAGTTTAA--AA
*
43038943 TGGATTGAAGTATAAGTTTAAAA
1 TGGAATGAAGTATAAGTTTAAAA
43038966 TGGAATGAAGT
1 TGGAATGAAGT
43038977 TAACATTCTT
Statistics
Matches: 42, Mismatches: 9, Indels: 14
0.65 0.14 0.22
Matches are distributed among these distances:
22 7 0.17
23 19 0.45
24 9 0.21
25 7 0.17
ACGTcount: A:0.43, C:0.01, G:0.21, T:0.35
Consensus pattern (23 bp):
TGGAATGAAGTATAAGTTTAAAA
Found at i:43038949 original size:47 final size:47
Alignment explanation
Indices: 43038880--43038974 Score: 190
Period size: 47 Copynumber: 2.0 Consensus size: 47
43038870 AGTAATATAT
43038880 AAATCATAATAATTTTTGGATTGAAGTATAAGTTTAAAATGGAATGA
1 AAATCATAATAATTTTTGGATTGAAGTATAAGTTTAAAATGGAATGA
43038927 AAATCATAATAATTTTTGGATTGAAGTATAAGTTTAAAATGGAATGA
1 AAATCATAATAATTTTTGGATTGAAGTATAAGTTTAAAATGGAATGA
43038974 A
1 A
43038975 GTTAACATTC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.45, C:0.02, G:0.17, T:0.36
Consensus pattern (47 bp):
AAATCATAATAATTTTTGGATTGAAGTATAAGTTTAAAATGGAATGA
Found at i:43039009 original size:24 final size:24
Alignment explanation
Indices: 43038977--43039024 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
43038967 GGAATGAAGT
43038977 TAACATTCTTATTTTCACATTATA
1 TAACATTCTTATTTTCACATTATA
43039001 TAACATTCTTATTTTCACATTATA
1 TAACATTCTTATTTTCACATTATA
43039025 AAACTGTTGC
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:0.33, C:0.17, G:0.00, T:0.50
Consensus pattern (24 bp):
TAACATTCTTATTTTCACATTATA
Found at i:43041271 original size:20 final size:21
Alignment explanation
Indices: 43041246--43041304 Score: 68
Period size: 20 Copynumber: 2.9 Consensus size: 21
43041236 AAGAATATAA
43041246 ATTTTGAAATTTTTATAAA-T
1 ATTTTGAAATTTTTATAAATT
* *
43041266 ATTTTG-AATTTCTAAAAATT
1 ATTTTGAAATTTTTATAAATT
*
43041286 ATTTTGAATTATTTTATAA
1 ATTTTGAAAT-TTTTATAA
43041305 TTTTTGTTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
19 10 0.32
20 13 0.42
21 2 0.06
22 6 0.19
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.54
Consensus pattern (21 bp):
ATTTTGAAATTTTTATAAATT
Found at i:43041988 original size:25 final size:26
Alignment explanation
Indices: 43041948--43041996 Score: 75
Period size: 25 Copynumber: 1.9 Consensus size: 26
43041938 ATCAAGCAGA
43041948 CCAATAAAAATATATATA-ATTTAGG
1 CCAATAAAAATATATATATATTTAGG
43041973 CCAA-AAAAATACTATATATATTTA
1 CCAATAAAAATA-TATATATATTTA
43041997 TCTTTTTACT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 7 0.32
25 10 0.45
26 5 0.23
ACGTcount: A:0.53, C:0.10, G:0.04, T:0.33
Consensus pattern (26 bp):
CCAATAAAAATATATATATATTTAGG
Found at i:43046567 original size:21 final size:22
Alignment explanation
Indices: 43046534--43046574 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
43046524 CATCCCTAAT
43046534 TAAATATTCAAATAATTTTTTA
1 TAAATATTCAAATAATTTTTTA
* *
43046556 TAAA-ATTGAAATTATTTTT
1 TAAATATTCAAATAATTTTT
43046575 AATTTAAAGC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (22 bp):
TAAATATTCAAATAATTTTTTA
Found at i:43049175 original size:37 final size:35
Alignment explanation
Indices: 43049134--43049269 Score: 121
Period size: 37 Copynumber: 3.7 Consensus size: 35
43049124 CGAAAATACA
* * *
43049134 CCAAATGCTCGTAAAAGCTCATCCACCCAATAAAATG
1 CCAAATGCTC-TAAGAGCT-ATCCACCCAATAACACG
*
43049171 CCAAATGCTCTGAAGAGCTAGTCCAACCAA-AATCACG
1 CCAAATGCTCT-AAGAGCTA-TCCACCCAATAA-CACG
*
43049208 CCAAAGGCTCATAAGAGCTAATCCACCCAATAACACG
1 CCAAATGCTC-TAAGAGCT-ATCCACCCAATAACACG
* *
43049245 CCAATTGCTCCAAAGAGCTAGTCCA
1 CCAAATGCT-CTAAGAGCTA-TCCA
43049270 ACCTAAAACA
Statistics
Matches: 82, Mismatches: 9, Indels: 16
0.77 0.08 0.15
Matches are distributed among these distances:
36 5 0.06
37 72 0.88
38 5 0.06
ACGTcount: A:0.38, C:0.31, G:0.14, T:0.17
Consensus pattern (35 bp):
CCAAATGCTCTAAGAGCTATCCACCCAATAACACG
Found at i:43049261 original size:74 final size:74
Alignment explanation
Indices: 43049126--43049277 Score: 198
Period size: 74 Copynumber: 2.1 Consensus size: 74
43049116 ATTCCATCCG
* * * * **
43049126 AAAATACACCAAATGCTCGTAAAAGCTCATCCACCCAATAAAATGCCAAATGCTCTGAAGAGCTA
1 AAAATACACCAAAGGCTCATAAAAGCTAATCCACCCAATAAAACGCCAAATGCTCCAAAGAGCTA
43049191 GTCCAACC-
66 GTCCAACCT
* * * *
43049199 AAAATCACGCCAAAGGCTCATAAGAGCTAATCCACCCAATAACACGCCAATTGCTCCAAAGAGCT
1 AAAAT-ACACCAAAGGCTCATAAAAGCTAATCCACCCAATAAAACGCCAAATGCTCCAAAGAGCT
43049264 AGTCCAACCT
65 AGTCCAACCT
43049274 AAAA
1 AAAA
43049278 CACATTAAAA
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
73 5 0.07
74 58 0.87
75 4 0.06
ACGTcount: A:0.41, C:0.30, G:0.12, T:0.16
Consensus pattern (74 bp):
AAAATACACCAAAGGCTCATAAAAGCTAATCCACCCAATAAAACGCCAAATGCTCCAAAGAGCTA
GTCCAACCT
Found at i:43051095 original size:145 final size:144
Alignment explanation
Indices: 43050828--43051146 Score: 431
Period size: 145 Copynumber: 2.2 Consensus size: 144
43050818 GATATTGAAT
* * * * * * *
43050828 GTGAGCCCAACTCTAGTTGGGTAAACCAACAATGTTTGCCCCCAGCGCTAGTCGGTTATATCGAT
1 GTGAGCCCAACTCTAGTTGGATAAACCAACAATATTTACCCCCAACGCTAGTCAGTTATACCGAC
* * *
43050893 GATTGTGTGCCCAGCACTAGTTAGACAAACTGACAAAAGTTGCGCCTAGCGCTAGTCGAATATAT
66 GATTGTGTGCCCAGCACTAGTTAGACAAACTAACAAAAGTTGCGCCCAGCGCCAGTCGAATATAT
43050958 CAAAAAAAATCCATA
131 -AAAAAAAATCCATA
** * * *
43050973 GTGAGCCCAACTCTAGTTGGATAAACCAATGATATTTACGCCCAACGCTAGTTAGTTATACCGGC
1 GTGAGCCCAACTCTAGTTGGATAAACCAACAATATTTACCCCCAACGCTAGTCAGTTATACCGAC
* * *
43051038 GATTGTGTGCCTAGCACTAGTTAGACAATCTAACAAAAGTTGCGCCCAGTGCCAGTCGAATATAT
66 GATTGTGTGCCCAGCACTAGTTAGACAAACTAACAAAAGTTGCGCCCAGCGCCAGTCGAATATAT
** *
43051103 TGACAAAATCCATA
131 AAAAAAAATCCATA
*
43051117 GTGAGCCCAGCTCTAGTTGGATAAACCAAC
1 GTGAGCCCAACTCTAGTTGGATAAACCAAC
43051147 GATGTTTGTT
Statistics
Matches: 151, Mismatches: 23, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
144 39 0.26
145 112 0.74
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (144 bp):
GTGAGCCCAACTCTAGTTGGATAAACCAACAATATTTACCCCCAACGCTAGTCAGTTATACCGAC
GATTGTGTGCCCAGCACTAGTTAGACAAACTAACAAAAGTTGCGCCCAGCGCCAGTCGAATATAT
AAAAAAAATCCATA
Found at i:43052200 original size:14 final size:15
Alignment explanation
Indices: 43052181--43052219 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
43052171 ATTTCCTTTA
43052181 CATATTATAATTA-T
1 CATATTATAATTATT
43052195 CATATTATAATTATT
1 CATATTATAATTATT
*
43052210 AATATTATAA
1 CATATTATAA
43052220 CATATATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 13 0.57
15 10 0.43
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (15 bp):
CATATTATAATTATT
Found at i:43052634 original size:13 final size:14
Alignment explanation
Indices: 43052616--43052645 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
43052606 TGACACATTC
43052616 GTTAGTTAA-TTTA
1 GTTAGTTAATTTTA
43052629 GTTAGTTAATTTTA
1 GTTAGTTAATTTTA
43052643 GTT
1 GTT
43052646 TTAATCAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.27, C:0.00, G:0.17, T:0.57
Consensus pattern (14 bp):
GTTAGTTAATTTTA
Found at i:43063606 original size:56 final size:56
Alignment explanation
Indices: 43063540--43063657 Score: 148
Period size: 56 Copynumber: 2.1 Consensus size: 56
43063530 TCCATGCCCT
* * * ** *
43063540 TGTGAATATACTGACTTGGGACACAC-GACCAAGCCACATGCTCGTGTGCTAGGCCA
1 TGTGAGTATACTGACCTAGGACACACAG-CCAAAACACATGCCCGTGTGCTAGGCCA
* *
43063596 TGTGAGTATACTGACCTAGGTCACACAGCCAAAACACATGCCCGTGTGCTAGGTCA
1 TGTGAGTATACTGACCTAGGACACACAGCCAAAACACATGCCCGTGTGCTAGGCCA
43063652 TGTGAG
1 TGTGAG
43063658 AAATTTGAGC
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
56 52 0.98
57 1 0.02
ACGTcount: A:0.27, C:0.25, G:0.25, T:0.22
Consensus pattern (56 bp):
TGTGAGTATACTGACCTAGGACACACAGCCAAAACACATGCCCGTGTGCTAGGCCA
Found at i:43064544 original size:25 final size:25
Alignment explanation
Indices: 43064494--43064569 Score: 66
Period size: 25 Copynumber: 3.1 Consensus size: 25
43064484 ATTCATGTAT
*
43064494 GCTCATACGAGCT-ACA-AACGAGAA
1 GCTCATCCGAGCTGA-ATAACGAGAA
* *
43064518 GCTCCTCCGAGCTGAATAACGGGAA
1 GCTCATCCGAGCTGAATAACGAGAA
** * *
43064543 GCTCATGTGAGCTGAATATCGAAAA
1 GCTCATCCGAGCTGAATAACGAGAA
43064568 GC
1 GC
43064570 ACATTAGAAC
Statistics
Matches: 41, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
24 12 0.29
25 29 0.71
ACGTcount: A:0.34, C:0.24, G:0.25, T:0.17
Consensus pattern (25 bp):
GCTCATCCGAGCTGAATAACGAGAA
Found at i:43064607 original size:25 final size:25
Alignment explanation
Indices: 43064526--43064630 Score: 95
Period size: 25 Copynumber: 4.2 Consensus size: 25
43064516 AAGCTCCTCC
* **
43064526 GAGCTGAATAACGGGAAGCTCATGT
1 GAGCTGAATAACGGAAAGCTCATAA
* * * *
43064551 GAGCTGAATATCGAAAAGCACATTA
1 GAGCTGAATAACGGAAAGCTCATAA
* * *
43064576 GAACTGTATAACGGCAAGCTCATAA
1 GAGCTGAATAACGGAAAGCTCATAA
*
43064601 GAGCTGTAA-ATCGGAAAGCTCATAA
1 GAGCTG-AATAACGGAAAGCTCATAA
43064626 GAGCT
1 GAGCT
43064631 ATGTTCTGCC
Statistics
Matches: 62, Mismatches: 17, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
25 61 0.98
26 1 0.02
ACGTcount: A:0.38, C:0.17, G:0.25, T:0.20
Consensus pattern (25 bp):
GAGCTGAATAACGGAAAGCTCATAA
Found at i:43064823 original size:22 final size:22
Alignment explanation
Indices: 43064772--43064824 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 22
43064762 TCATGGAAAT
43064772 TGTAC-ATTTAACAAATAATAA
1 TGTACAATTTAACAAATAATAA
*
43064793 T-T-CAATTTAACACAT-ATGAA
1 TGTACAATTTAACAAATAAT-AA
43064813 TGTACAATTTAA
1 TGTACAATTTAA
43064825 TTACACGAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
19 3 0.11
20 14 0.52
21 2 0.07
22 8 0.30
ACGTcount: A:0.47, C:0.11, G:0.06, T:0.36
Consensus pattern (22 bp):
TGTACAATTTAACAAATAATAA
Found at i:43067682 original size:21 final size:21
Alignment explanation
Indices: 43067656--43067704 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
43067646 CAACTCTAAG
43067656 TCATGTGTTAGATAGTTCTTT
1 TCATGTGTTAGATAGTTCTTT
*
43067677 TCATGTGTTGGATAGTTCTTT
1 TCATGTGTTAGATAGTTCTTT
43067698 TCATGTG
1 TCATGTG
43067705 GCTGTAACTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.16, C:0.10, G:0.22, T:0.51
Consensus pattern (21 bp):
TCATGTGTTAGATAGTTCTTT
Found at i:43073177 original size:28 final size:28
Alignment explanation
Indices: 43073114--43073323 Score: 350
Period size: 28 Copynumber: 7.5 Consensus size: 28
43073104 ATATTAAGTC
*
43073114 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
43073141 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
43073169 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
43073197 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
43073225 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
43073253 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
43073281 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
43073310 CGCACACTTAGTGC
1 CGCACACTTAGTGC
43073324 CAATCTCATG
Statistics
Matches: 174, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
27 22 0.13
28 133 0.76
29 19 0.11
ACGTcount: A:0.34, C:0.27, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:43073787 original size:12 final size:12
Alignment explanation
Indices: 43073770--43073796 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
43073760 TGGGCATACT
43073770 TATGTATATATA
1 TATGTATATATA
43073782 TATGTATATATA
1 TATGTATATATA
43073794 TAT
1 TAT
43073797 ACTTCGGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (12 bp):
TATGTATATATA
Found at i:43077557 original size:21 final size:22
Alignment explanation
Indices: 43077530--43077598 Score: 68
Period size: 23 Copynumber: 3.1 Consensus size: 22
43077520 ACATAAGTAA
*
43077530 CTAAAAT-GACACACGAAGTGC
1 CTAAAATAGACACACAAAGTGC
* *
43077551 CTGAAATACGACACATAAAGTGC
1 CTAAAATA-GACACACAAAGTGC
* *
43077574 CTAAAATACGGCACATAAAGTGC
1 CTAAAATA-GACACACAAAGTGC
43077597 CT
1 CT
43077599 GATCGACAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
21 6 0.15
23 35 0.85
ACGTcount: A:0.42, C:0.23, G:0.17, T:0.17
Consensus pattern (22 bp):
CTAAAATAGACACACAAAGTGC
Found at i:43077571 original size:23 final size:23
Alignment explanation
Indices: 43077545--43077600 Score: 94
Period size: 23 Copynumber: 2.4 Consensus size: 23
43077535 ATGACACACG
43077545 AAGTGCCTGAAATACGACACATA
1 AAGTGCCTGAAATACGACACATA
* *
43077568 AAGTGCCTAAAATACGGCACATA
1 AAGTGCCTGAAATACGACACATA
43077591 AAGTGCCTGA
1 AAGTGCCTGA
43077601 TCGACAAAGC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.41, C:0.21, G:0.20, T:0.18
Consensus pattern (23 bp):
AAGTGCCTGAAATACGACACATA
Found at i:43083435 original size:26 final size:26
Alignment explanation
Indices: 43083362--43083439 Score: 76
Period size: 26 Copynumber: 3.2 Consensus size: 26
43083352 TCATCCAATA
* *
43083362 ACATACCAT-TTGTGGACAAGCCACC
1 ACATAACATATTGTGGACAAACCACC
* * *
43083387 ACAT-A-A-ATT-TCGATAAACGACC
1 ACATAACATATTGTGGACAAACCACC
43083409 ACATAACATATTGTGGACAAACCACC
1 ACATAACATATTGTGGACAAACCACC
43083435 ACATA
1 ACATA
43083440 TTTGCTGATA
Statistics
Matches: 40, Mismatches: 8, Indels: 9
0.70 0.14 0.16
Matches are distributed among these distances:
22 13 0.32
23 4 0.10
24 1 0.03
25 7 0.17
26 15 0.38
ACGTcount: A:0.41, C:0.27, G:0.12, T:0.21
Consensus pattern (26 bp):
ACATAACATATTGTGGACAAACCACC
Found at i:43083456 original size:47 final size:46
Alignment explanation
Indices: 43083362--43083461 Score: 132
Period size: 47 Copynumber: 2.1 Consensus size: 46
43083352 TCATCCAATA
* *
43083362 ACATACCATTTGTGGACAAGCCACCACATAAATTTCGATAAACGACC
1 ACATAACATTTGTGGACAAACCACCACAT-AATTTCGATAAACGACC
43083409 ACATAACATATTGTGGACAAACCACCACAT-ATTTGCTGAT-AACGACC
1 ACATAACAT-TTGTGGACAAACCACCACATAATTT-C-GATAAACGACC
43083456 ACATAA
1 ACATAA
43083462 TCGCAGATAA
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
46 4 0.08
47 22 0.46
48 22 0.46
ACGTcount: A:0.40, C:0.26, G:0.12, T:0.22
Consensus pattern (46 bp):
ACATAACATTTGTGGACAAACCACCACATAATTTCGATAAACGACC
Found at i:43083470 original size:21 final size:21
Alignment explanation
Indices: 43083432--43083471 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
43083422 TGGACAAACC
* * *
43083432 ACCACATATTTGCTGATAACG
1 ACCACATAATCGCAGATAACG
43083453 ACCACATAATCGCAGATAA
1 ACCACATAATCGCAGATAA
43083472 GTTGCCACAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.40, C:0.25, G:0.12, T:0.23
Consensus pattern (21 bp):
ACCACATAATCGCAGATAACG
Found at i:43110189 original size:62 final size:59
Alignment explanation
Indices: 43110100--43110216 Score: 135
Period size: 62 Copynumber: 1.9 Consensus size: 59
43110090 ATTAATTATG
** * * *
43110100 TTAATATTAAATATAATTTAATTTTTATCCTGTAGATAAAAATTCTATTATTTTAATAAGAT
1 TTAATATTAAATATAATCGAATATTTAT-CT-T-GATAAAAATTATATTAATTTAATAAGAT
* * *
43110162 TTAATATTAGATTTAATCGAATATTTATCTTGATAAATATTATATTAATTTAATA
1 TTAATATTAAATATAATCGAATATTTATCTTGATAAAAATTATATTAATTTAATA
43110217 GTAAAGTGAT
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
59 21 0.45
60 1 0.02
61 2 0.04
62 23 0.49
ACGTcount: A:0.42, C:0.04, G:0.05, T:0.49
Consensus pattern (59 bp):
TTAATATTAAATATAATCGAATATTTATCTTGATAAAAATTATATTAATTTAATAAGAT
Found at i:43112952 original size:20 final size:20
Alignment explanation
Indices: 43112924--43112962 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
43112914 TACTTTCTTC
*
43112924 TTTACTTACTCTCTTACTTT
1 TTTAATTACTCTCTTACTTT
*
43112944 TTTAATTACTTTCTTACTT
1 TTTAATTACTCTCTTACTT
43112963 AAATAACTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.21, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTAATTACTCTCTTACTTT
Found at i:43113246 original size:49 final size:49
Alignment explanation
Indices: 43113188--43113351 Score: 231
Period size: 49 Copynumber: 3.3 Consensus size: 49
43113178 TGTGTCAGAC
43113188 ATGGTCTTACATGGGATGTTTCCTGTACTGCCAATGTCATATCCCAAAT
1 ATGGTCTTACATGGGATGTTTCCTGTACTGCCAATGTCATATCCCAAAT
* * * * * * * *
43113237 ATGGTCTTACATGGGA-GTTCTCATATTAGTGCCCATGCCATGTCCCAGAC
1 ATGGTCTTACATGGGATGTT-TCCT-GTACTGCCAATGTCATATCCCAAAT
43113287 ATGGTCTTACATGGGATGTTTCCTGTACTGCCAATGTCATATCCCAAAT
1 ATGGTCTTACATGGGATGTTTCCTGTACTGCCAATGTCATATCCCAAAT
43113336 ATGGTCTTACATGGGA
1 ATGGTCTTACATGGGA
43113352 GTTCTCATAT
Statistics
Matches: 96, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
48 3 0.03
49 53 0.55
50 37 0.39
51 3 0.03
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.33
Consensus pattern (49 bp):
ATGGTCTTACATGGGATGTTTCCTGTACTGCCAATGTCATATCCCAAAT
Found at i:43113297 original size:50 final size:50
Alignment explanation
Indices: 43113183--43113513 Score: 287
Period size: 50 Copynumber: 6.6 Consensus size: 50
43113173 AGTCATGTGT
* * * * *
43113183 CAGACATGGTCTTACATGGGATGTT-TCCT-GTACTGCCAATGTCATATCC
1 CAGACATGGTCTTACATGGGA-GTTCTCATATTAGTGCCAATGCCATGTCC
* * *
43113232 CAAATATGGTCTTACATGGGAGTTCTCATATTAGTGCCCATGCCATGTCC
1 CAGACATGGTCTTACATGGGAGTTCTCATATTAGTGCCAATGCCATGTCC
* * * * *
43113282 CAGACATGGTCTTACATGGGATGTT-TCCT-GTACTGCCAATGTCATATCC
1 CAGACATGGTCTTACATGGGA-GTTCTCATATTAGTGCCAATGCCATGTCC
* * *
43113331 CAAATATGGTCTTACATGGGAGTTCTCATATTAGTGCCCATGCCATGTCC
1 CAGACATGGTCTTACATGGGAGTTCTCATATTAGTGCCAATGCCATGTCC
* ** * ** * *
43113381 CAGACATGGTCTTACAGGGGACCTCTCATCTCGGTACCAACGCCATGTCC
1 CAGACATGGTCTTACATGGGAGTTCTCATATTAGTGCCAATGCCATGTCC
* * ** *
43113431 CAGACATGGTCTTACGTGAGACCTCTCATAACCTCAATAATGCCAATGCCATGTCC
1 CAGACATGGTCTTACATGGGAGTTCTCAT-A--T---TAGTGCCAATGCCATGTCC
43113487 CAGACATGGTCTTACATGGG-G-TCTCAT
1 CAGACATGGTCTTACATGGGAGTTCTCAT
43113514 CCCCCTAATG
Statistics
Matches: 224, Mismatches: 47, Indels: 17
0.78 0.16 0.06
Matches are distributed among these distances:
48 6 0.03
49 59 0.26
50 117 0.52
51 3 0.01
53 1 0.00
54 6 0.03
56 32 0.14
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (50 bp):
CAGACATGGTCTTACATGGGAGTTCTCATATTAGTGCCAATGCCATGTCC
Found at i:43113347 original size:99 final size:99
Alignment explanation
Indices: 43113183--43113401 Score: 429
Period size: 99 Copynumber: 2.2 Consensus size: 99
43113173 AGTCATGTGT
43113183 CAGACATGGTCTTACATGGGATGTTTCCTGTACTGCCAATGTCATATCCCAAATATGGTCTTACA
1 CAGACATGGTCTTACATGGGATGTTTCCTGTACTGCCAATGTCATATCCCAAATATGGTCTTACA
43113248 TGGGAGTTCTCATATTAGTGCCCATGCCATGTCC
66 TGGGAGTTCTCATATTAGTGCCCATGCCATGTCC
43113282 CAGACATGGTCTTACATGGGATGTTTCCTGTACTGCCAATGTCATATCCCAAATATGGTCTTACA
1 CAGACATGGTCTTACATGGGATGTTTCCTGTACTGCCAATGTCATATCCCAAATATGGTCTTACA
43113347 TGGGAGTTCTCATATTAGTGCCCATGCCATGTCC
66 TGGGAGTTCTCATATTAGTGCCCATGCCATGTCC
*
43113381 CAGACATGGTCTTACAGGGGA
1 CAGACATGGTCTTACATGGGA
43113402 CCTCTCATCT
Statistics
Matches: 119, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
99 119 1.00
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.31
Consensus pattern (99 bp):
CAGACATGGTCTTACATGGGATGTTTCCTGTACTGCCAATGTCATATCCCAAATATGGTCTTACA
TGGGAGTTCTCATATTAGTGCCCATGCCATGTCC
Found at i:43116726 original size:38 final size:38
Alignment explanation
Indices: 43116568--43116806 Score: 168
Period size: 38 Copynumber: 6.3 Consensus size: 38
43116558 AATACCAAAT
43116568 ATACTGAATGTTGCTCAATCGAGCAAAATCTA-TTGAAC
1 ATACTGAATGTTGCTCAATCGAGCAAAATCTACTT-AAC
* * * * *
43116606 ACACTG--TGTAATGCTCACTGGAGCAAAACCTACTTAAT
1 ATACTGAATGT--TGCTCAATCGAGCAAAATCTACTTAAC
** * * *
43116644 ATACCAAATGTTTCTC-ATCAAG-AAAATCTACTTAAT
1 ATACTGAATGTTGCTCAATCGAGCAAAATCTACTTAAC
43116680 ATACTGAATGTTGCTCAATCGAGCAAAATCTA-TTAAAC
1 ATACTGAATGTTGCTCAATCGAGCAAAATCTACTT-AAC
* * * * ** *
43116718 AAATTGAATGTTGCTCAATTGAG-AATAACCTACCAAAT
1 ATACTGAATGTTGCTCAATCGAGCAA-AATCTACTTAAC
* * * * * *
43116756 ATACCGAATATTGCTCAATCAAGTAAAATCTACTAAAAT
1 ATACTGAATGTTGCTCAATCGAGCAAAATCTACT-TAAC
43116795 ATACTGAATGTT
1 ATACTGAATGTT
43116807 CTTCAACCGG
Statistics
Matches: 154, Mismatches: 35, Indels: 23
0.73 0.17 0.11
Matches are distributed among these distances:
36 29 0.19
37 12 0.08
38 92 0.60
39 18 0.12
40 3 0.02
ACGTcount: A:0.40, C:0.18, G:0.12, T:0.30
Consensus pattern (38 bp):
ATACTGAATGTTGCTCAATCGAGCAAAATCTACTTAAC
Found at i:43120578 original size:29 final size:29
Alignment explanation
Indices: 43120544--43120602 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
43120534 CCAAATATAT
* * *
43120544 TGAATGTTGCTCAATGGAGTAAAATCTAC
1 TGAATGTCGCTCAATCGAGCAAAATCTAC
43120573 TGAATGTCGCTCAATCGAGCAAAATCTAC
1 TGAATGTCGCTCAATCGAGCAAAATCTAC
43120602 T
1 T
43120603 AAACACACTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.29
Consensus pattern (29 bp):
TGAATGTCGCTCAATCGAGCAAAATCTAC
Found at i:43120768 original size:38 final size:38
Alignment explanation
Indices: 43120570--43120825 Score: 230
Period size: 38 Copynumber: 6.7 Consensus size: 38
43120560 GAGTAAAATC
* * * *
43120570 TACTGAATGTCGCTCAATCGAGCAAAATCTACTAAACA
1 TACTGAATGTTGCTCAATCGAGCAAAACCTACTGAATA
* *
43120608 CACTAAATGTTGCTCAATCGAGCAAAACCTA-TAGAATA
1 TACTGAATGTTGCTCAATCGAGCAAAACCTACT-GAATA
* *
43120646 TATTGAATGTTGCTCAATCGAGCAAAATCTACTGAATA
1 TACTGAATGTTGCTCAATCGAGCAAAACCTACTGAATA
**** * *
43120684 TACTGAATGCCATTGAATCGAGCAAAATCTACTG-ATCA
1 TACTGAATGTTGCTCAATCGAGCAAAACCTACTGAAT-A
* *
43120722 CACTGAATGTTGCTCAATCGAGCGAAACCTA-TCGAATA
1 TACTGAATGTTGCTCAATCGAGCAAAACCTACT-GAATA
* * * * *
43120760 TACCGAATGTTTCTCAATCAAGTAAAACCTACTAAAATA
1 TACTGAATGTTGCTCAATCGAGCAAAACCTACT-GAATA
* * * *
43120799 TATTAAATGTTGTTCAATCAAGCAAAA
1 TACTGAATGTTGCTCAATCGAGCAAAA
43120826 ATATATTGAC
Statistics
Matches: 174, Mismatches: 38, Indels: 11
0.78 0.17 0.05
Matches are distributed among these distances:
37 4 0.02
38 141 0.81
39 29 0.17
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (38 bp):
TACTGAATGTTGCTCAATCGAGCAAAACCTACTGAATA
Found at i:43120770 original size:114 final size:114
Alignment explanation
Indices: 43120585--43120792 Score: 317
Period size: 114 Copynumber: 1.8 Consensus size: 114
43120575 AATGTCGCTC
**
43120585 AATCGAGCAAAATCTACTAAACACACTAAATGTTGCTCAATCGAGCAAAACCTATAGAATATATT
1 AATCGAGCAAAATCTACTAAACACACTAAATGTTGCTCAATCGAGCAAAACCTATAGAATATACC
* *
43120650 GAATGTTGCTCAATCGAGCAAAATCTACTGAATATACTGAATGCCATTG
66 GAATGTTGCTCAATCAAGCAAAACCTACTGAATATACTGAATGCCATTG
* * * * *
43120699 AATCGAGCAAAATCTACTGATCACACTGAATGTTGCTCAATCGAGCGAAACCTATCGAATATACC
1 AATCGAGCAAAATCTACTAAACACACTAAATGTTGCTCAATCGAGCAAAACCTATAGAATATACC
* *
43120764 GAATGTTTCTCAATCAAGTAAAACCTACT
66 GAATGTTGCTCAATCAAGCAAAACCTACT
43120793 AAAATATATT
Statistics
Matches: 83, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
114 83 1.00
ACGTcount: A:0.39, C:0.21, G:0.14, T:0.26
Consensus pattern (114 bp):
AATCGAGCAAAATCTACTAAACACACTAAATGTTGCTCAATCGAGCAAAACCTATAGAATATACC
GAATGTTGCTCAATCAAGCAAAACCTACTGAATATACTGAATGCCATTG
Found at i:43121515 original size:44 final size:44
Alignment explanation
Indices: 43121440--43121540 Score: 157
Period size: 44 Copynumber: 2.3 Consensus size: 44
43121430 CTTTGACATG
* * **
43121440 TTTGAGTGTATTTGAAGATGGTTTTTGTCTTATAAAATTGTGTA
1 TTTGGGTGTTTTTGAAGATGGTTTTAATCTTATAAAATTGTGTA
*
43121484 TTTGGGTGTTTTTGAATATGGTTTTAATCTTATAAAATTGTGTA
1 TTTGGGTGTTTTTGAAGATGGTTTTAATCTTATAAAATTGTGTA
43121528 TTTGGGTGTTTTT
1 TTTGGGTGTTTTT
43121541 AGGTACCTAA
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 52 1.00
ACGTcount: A:0.22, C:0.02, G:0.23, T:0.53
Consensus pattern (44 bp):
TTTGGGTGTTTTTGAAGATGGTTTTAATCTTATAAAATTGTGTA
Found at i:43131988 original size:3 final size:3
Alignment explanation
Indices: 43131952--43132003 Score: 50
Period size: 3 Copynumber: 16.7 Consensus size: 3
43131942 TAAATTGATG
* * * *
43131952 AAT AAT AAA AAT AATT AAT AGT GAC AAGT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AA-T AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT
43131999 AAT AA
1 AAT AA
43132004 ACCCGTTTAT
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
3 34 0.87
4 5 0.13
ACGTcount: A:0.63, C:0.02, G:0.06, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:43132805 original size:16 final size:17
Alignment explanation
Indices: 43132766--43132805 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
43132756 GTTTTTACAG
43132766 AGGAAAAATAAAATAAA
1 AGGAAAAATAAAATAAA
**
43132783 AATAAAAAT-AAATAAA
1 AGGAAAAATAAAATAAA
43132799 AGGAAAA
1 AGGAAAA
43132806 TTGCCCCGTC
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
16 12 0.63
17 7 0.37
ACGTcount: A:0.78, C:0.00, G:0.10, T:0.12
Consensus pattern (17 bp):
AGGAAAAATAAAATAAA
Found at i:43136877 original size:15 final size:15
Alignment explanation
Indices: 43136857--43136887 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
43136847 ATATATTTTG
43136857 TATTTTTTTTCTTTA
1 TATTTTTTTTCTTTA
*
43136872 TATTTTTTTTGTTTA
1 TATTTTTTTTCTTTA
43136887 T
1 T
43136888 TTCCTTCATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.03, G:0.03, T:0.81
Consensus pattern (15 bp):
TATTTTTTTTCTTTA
Found at i:43138825 original size:19 final size:19
Alignment explanation
Indices: 43138785--43138827 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
43138775 GTCTCTTTAT
*
43138785 GCATTCATCTCATGCATTC
1 GCATTCATCTCATGCATAC
*
43138804 GCATTACATGTCAT-CATAC
1 GCATT-CATCTCATGCATAC
43138823 GCATT
1 GCATT
43138828 TAAATCCACT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.26, C:0.28, G:0.12, T:0.35
Consensus pattern (19 bp):
GCATTCATCTCATGCATAC
Found at i:43147089 original size:15 final size:15
Alignment explanation
Indices: 43147069--43147099 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
43147059 TGAAAAATAA
43147069 TCAAAAGCAACTAAG
1 TCAAAAGCAACTAAG
43147084 TCAAAAGCAACTAAG
1 TCAAAAGCAACTAAG
43147099 T
1 T
43147100 AAGCTCAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.52, C:0.19, G:0.13, T:0.16
Consensus pattern (15 bp):
TCAAAAGCAACTAAG
Found at i:43150819 original size:21 final size:20
Alignment explanation
Indices: 43150791--43150831 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
43150781 CAATTTTCAC
**
43150791 GAAAATTTATTAAAACTTTA
1 GAAAATTTAGCAAAACTTTA
43150811 GAAATATTTAGCAAAACTTTA
1 GAAA-ATTTAGCAAAACTTTA
43150832 AAGTAAGTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.49, C:0.07, G:0.07, T:0.37
Consensus pattern (20 bp):
GAAAATTTAGCAAAACTTTA
Found at i:43152210 original size:11 final size:11
Alignment explanation
Indices: 43152194--43152219 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
43152184 ACTTCTTTCC
43152194 CCTTATAAAGA
1 CCTTATAAAGA
43152205 CCTTATAAAGA
1 CCTTATAAAGA
43152216 CCTT
1 CCTT
43152220 GTTGATCACC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.31
Consensus pattern (11 bp):
CCTTATAAAGA
Found at i:43157034 original size:6 final size:6
Alignment explanation
Indices: 43157025--43157049 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
43157015 TTAAAATAAA
43157025 AAAATT AAAATT AAAATT AAAATT A
1 AAAATT AAAATT AAAATT AAAATT A
43157050 TTTTAAAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
AAAATT
Found at i:43160796 original size:28 final size:28
Alignment explanation
Indices: 43160754--43160868 Score: 164
Period size: 27 Copynumber: 4.2 Consensus size: 28
43160744 CTATTCAGTA
* *
43160754 ACAGT-ACAGTGTGGGCCTTAGCTCAAT
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
* *
43160781 ACAGTAACAATGTGGG-CGTAGCCTAAT
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
43160808 ACAGTAACAATGT-GGCCTTAGCCCAAT
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
*
43160835 ATAGTAACAATGTGGGCCTTAGCCCAAT
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
43160863 ACAGTA
1 ACAGTA
43160869 TCGGTACAGT
Statistics
Matches: 77, Mismatches: 8, Indels: 5
0.86 0.09 0.06
Matches are distributed among these distances:
26 2 0.03
27 47 0.61
28 28 0.36
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.23
Consensus pattern (28 bp):
ACAGTAACAATGTGGGCCTTAGCCCAAT
Found at i:43161254 original size:27 final size:27
Alignment explanation
Indices: 43161224--43161378 Score: 193
Period size: 27 Copynumber: 5.7 Consensus size: 27
43161214 ATCTCGTAGA
*
43161224 GGTATTTCGGTCATTTTACCCTATTGG
1 GGTATTTCGGTCATTTTACCCTATGGG
*
43161251 GGTATTTCGATCATTTTACCCTATGGG
1 GGTATTTCGGTCATTTTACCCTATGGG
*
43161278 GGTATTTCGGTCATTCTACCCTATGGG
1 GGTATTTCGGTCATTTTACCCTATGGG
* * * *
43161305 GGTATTTCGATCATTCTATCTTATGGG
1 GGTATTTCGGTCATTTTACCCTATGGG
* * * **
43161332 GGTATTTAGGCCATTTTATCCTATAAG
1 GGTATTTCGGTCATTTTACCCTATGGG
*
43161359 GGTATTTTGGTCATTTTACC
1 GGTATTTCGGTCATTTTACC
43161379 TATTTTAGGG
Statistics
Matches: 111, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 111 1.00
ACGTcount: A:0.18, C:0.17, G:0.22, T:0.43
Consensus pattern (27 bp):
GGTATTTCGGTCATTTTACCCTATGGG
Found at i:43161794 original size:27 final size:28
Alignment explanation
Indices: 43161756--43161819 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
43161746 GATTTACCCT
43161756 AATACAGTAACAATGT-GGCCTTAGCCC
1 AATACAGTAACAATGTGGGCCTTAGCCC
*
43161783 AATATAGTAACAATGTGGGCCTTAGCCC
1 AATACAGTAACAATGTGGGCCTTAGCCC
43161811 AATACAGTA
1 AATACAGTA
43161820 TCGGTACAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
27 15 0.44
28 19 0.56
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.23
Consensus pattern (28 bp):
AATACAGTAACAATGTGGGCCTTAGCCC
Found at i:43162203 original size:27 final size:27
Alignment explanation
Indices: 43162173--43162356 Score: 244
Period size: 27 Copynumber: 6.8 Consensus size: 27
43162163 TCATCTCGTA
*
43162173 GGGGTATTTCGGTCATTTTACCCTATT
1 GGGGTATTTCGGTCATTTTACCCTATG
* *
43162200 GGGGTATTT-GGATCATGTTACCCTAGG
1 GGGGTATTTCGG-TCATTTTACCCTATG
*
43162227 GGGGTATTTCGGTCATTCTACCCTATG
1 GGGGTATTTCGGTCATTTTACCCTATG
*
43162254 GGGGTATTTCGGTCATTCTACCCTATG
1 GGGGTATTTCGGTCATTTTACCCTATG
* * *
43162281 GGGGTATTTCGATCATTCTACCTTATG
1 GGGGTATTTCGGTCATTTTACCCTATG
* *
43162308 GGGGTATTTCGGTCATTTTATCCTATA
1 GGGGTATTTCGGTCATTTTACCCTATG
* *
43162335 AGGGTATTTTGGTCATTTTACC
1 GGGGTATTTCGGTCATTTTACC
43162357 TATTTTAGGG
Statistics
Matches: 139, Mismatches: 16, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
26 2 0.01
27 135 0.97
28 2 0.01
ACGTcount: A:0.17, C:0.18, G:0.25, T:0.40
Consensus pattern (27 bp):
GGGGTATTTCGGTCATTTTACCCTATG
Found at i:43163668 original size:40 final size:40
Alignment explanation
Indices: 43163624--43163747 Score: 167
Period size: 40 Copynumber: 3.1 Consensus size: 40
43163614 GTGATTGGGA
* * *
43163624 GCACCAAAGTGCAAACAGTGGTACATATGTGCATTCAGGG
1 GCACCAAAGTGCAAACAGGGGCACAGATGTGCATTCAGGG
*
43163664 GCACCAAAGTACAAACAGGGGCACAGATGTGCATTCAGGG
1 GCACCAAAGTGCAAACAGGGGCACAGATGTGCATTCAGGG
** * * *
43163704 GCACCAAAGTGCAAACAAAGGCACAGATATGCATTTAGAG
1 GCACCAAAGTGCAAACAGGGGCACAGATGTGCATTCAGGG
43163744 GCAC
1 GCAC
43163748 TTTTTCATTT
Statistics
Matches: 74, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 74 1.00
ACGTcount: A:0.36, C:0.22, G:0.27, T:0.15
Consensus pattern (40 bp):
GCACCAAAGTGCAAACAGGGGCACAGATGTGCATTCAGGG
Found at i:43163684 original size:20 final size:20
Alignment explanation
Indices: 43163624--43163720 Score: 81
Period size: 20 Copynumber: 4.8 Consensus size: 20
43163614 GTGATTGGGA
*
43163624 GCACCAAAGTGCAAACAGTG
1 GCACCAAAGTGCAAACAGGG
* * **
43163644 GTA-CATATGTGCATTCAGGG
1 GCACCA-AAGTGCAAACAGGG
*
43163664 GCACCAAAGTACAAACAGGG
1 GCACCAAAGTGCAAACAGGG
* **
43163684 GCA-CAGATGTGCATTCAGGG
1 GCACCA-AAGTGCAAACAGGG
43163704 GCACCAAAGTGCAAACA
1 GCACCAAAGTGCAAACA
43163721 AAGGCACAGA
Statistics
Matches: 56, Mismatches: 17, Indels: 8
0.69 0.21 0.10
Matches are distributed among these distances:
19 4 0.07
20 48 0.86
21 4 0.07
ACGTcount: A:0.36, C:0.23, G:0.27, T:0.14
Consensus pattern (20 bp):
GCACCAAAGTGCAAACAGGG
Found at i:43165173 original size:18 final size:19
Alignment explanation
Indices: 43165150--43165185 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
43165140 TCATATAGGG
43165150 TCATTGATTTC-ACTTAAA
1 TCATTGATTTCAACTTAAA
43165168 TCATTGATTTCAACTTAA
1 TCATTGATTTCAACTTAA
43165186 GCAAATAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.33, C:0.17, G:0.06, T:0.44
Consensus pattern (19 bp):
TCATTGATTTCAACTTAAA
Found at i:43165632 original size:40 final size:40
Alignment explanation
Indices: 43165587--43165692 Score: 194
Period size: 40 Copynumber: 2.6 Consensus size: 40
43165577 AAGCATTCTT
*
43165587 TTCAGTAGATTCAATAGGTATGGCTCAAAAGCGCATATGG
1 TTCAGTAGATTCAGTAGGTATGGCTCAAAAGCGCATATGG
43165627 TTCAGTAGATTCAGTAGGTATGGCTCAAAAGCGCATATGG
1 TTCAGTAGATTCAGTAGGTATGGCTCAAAAGCGCATATGG
*
43165667 TTTAGTAGATTCAGTAGGTATGGCTC
1 TTCAGTAGATTCAGTAGGTATGGCTC
43165693 TTCTGAGCAG
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 64 1.00
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.30
Consensus pattern (40 bp):
TTCAGTAGATTCAGTAGGTATGGCTCAAAAGCGCATATGG
Found at i:43173813 original size:79 final size:78
Alignment explanation
Indices: 43173711--43173934 Score: 281
Period size: 79 Copynumber: 2.8 Consensus size: 78
43173701 GCTCCTCGTT
* *
43173711 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
43173776 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
* *
43173791 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGG-CTTAGCCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
*
43173855 ATTAGTATCTCGCA
65 ATTAGTAACTCGCA
* * * * *
43173869 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
43173933 GA
63 GA
43173935 CATCATTCAA
Statistics
Matches: 126, Mismatches: 13, Indels: 10
0.85 0.09 0.07
Matches are distributed among these distances:
78 36 0.29
79 56 0.44
80 34 0.27
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:43173828 original size:39 final size:40
Alignment explanation
Indices: 43173711--43173934 Score: 289
Period size: 40 Copynumber: 5.7 Consensus size: 40
43173701 GCTCCTCGTT
* *
43173711 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
43173751 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
43173791 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
43173830 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * *
43173869 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAAC-TCGCA
43173910 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
43173935 CATCATTCAA
Statistics
Matches: 168, Mismatches: 10, Indels: 12
0.88 0.05 0.06
Matches are distributed among these distances:
38 2 0.01
39 72 0.43
40 78 0.46
41 16 0.10
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:43184841 original size:9 final size:9
Alignment explanation
Indices: 43184818--43185352 Score: 217
Period size: 9 Copynumber: 58.1 Consensus size: 9
43184808 ATCAAAAATC
43184818 ACATAACTT
1 ACATAACTT
* *
43184827 ATATAATTT
1 ACATAACTT
*
43184836 ACATAACTC
1 ACATAACTT
*
43184845 ACGTAACTT
1 ACATAACTT
*
43184854 ACATAATTT
1 ACATAACTT
*
43184863 A-ATAACCAT
1 ACATAA-CTT
43184872 ATCATAACTT
1 A-CATAACTT
*
43184882 ACATAATTT
1 ACATAACTT
*
43184891 ACATACCTTT
1 ACATAAC-TT
* *
43184901 AAAGAA-TT
1 ACATAACTT
* *
43184909 AAAAAAAACTTT
1 --ACATAAC-TT
*
43184921 GGATCTTAACTT
1 --A-CATAACTT
43184933 A-ATAACTT
1 ACATAACTT
* **
43184941 ATATATATCAG
1 ACATA-A-CTT
43184952 ACCATAACTT
1 AC-ATAACTT
*
43184962 ACATAACTG
1 ACATAACTT
*
43184971 ACAT-ACAT
1 ACATAACTT
43184979 ACATAACTT
1 ACATAACTT
43184988 A-ATAACTT
1 ACATAACTT
* *
43184996 AAATATATCAT
1 ACATA-A-CTT
*
43185007 ATCATAACTC
1 A-CATAACTT
43185017 ACATAACTT
1 ACATAACTT
43185026 ACATAACTT
1 ACATAACTT
43185035 A-ATAACTT
1 ACATAACTT
* *
43185043 ATATATATCAT
1 ACATA-A-CTT
43185054 ACCATAACTT
1 A-CATAACTT
* *
43185064 ACAAAACAAAT
1 ACATAAC--TT
43185075 ACATAACTT
1 ACATAACTT
43185084 ACATAA--T
1 ACATAACTT
*
43185091 ACATAA-AT
1 ACATAACTT
* * *
43185099 ATATATCAT
1 ACATAACTT
43185108 ATCATAACTT
1 A-CATAACTT
*
43185118 ACATAACTC
1 ACATAACTT
*
43185127 ACAT-ACAT
1 ACATAACTT
43185135 ACATAACTT
1 ACATAACTT
*
43185144 A-ATGACTT
1 ACATAACTT
* * *
43185152 ATATGTATCAT
1 ACA--TAACTT
*
43185163 ATCATAACTC
1 A-CATAACTT
43185173 ACATAACTT
1 ACATAACTT
43185182 ACATAACTT
1 ACATAACTT
43185191 A-ATAACTT
1 ACATAACTT
* *
43185199 ATATATATCAT
1 ACATA-A-CTT
43185210 ACCATAACTT
1 A-CATAACTT
* *
43185220 ACGTAACTC
1 ACATAACTT
43185229 ACATAACTT
1 ACATAACTT
43185238 ACATAACTT
1 ACATAACTT
43185247 ACATAA--T
1 ACATAACTT
*
43185254 ACATAA-AT
1 ACATAACTT
* * *
43185262 ATATATCAT
1 ACATAACTT
43185271 ACCATAACTT
1 A-CATAACTT
43185281 ACATAACTT
1 ACATAACTT
43185290 A-ATTATACTT
1 ACA-TA-ACTT
43185300 --ATAACTT
1 ACATAACTT
*
43185307 ACATAAATAT
1 ACATAACT-T
* * *
43185317 ATATCACAT
1 ACATAACTT
43185326 -CATAACTT
1 ACATAACTT
*
43185334 ACATAATTT
1 ACATAACTT
43185343 ACATAACTT
1 ACATAACTT
43185352 A
1 A
43185353 ATTATACTTA
Statistics
Matches: 395, Mismatches: 86, Indels: 90
0.69 0.15 0.16
Matches are distributed among these distances:
7 18 0.05
8 74 0.19
9 198 0.50
10 54 0.14
11 30 0.08
12 18 0.05
13 3 0.01
ACGTcount: A:0.46, C:0.19, G:0.02, T:0.34
Consensus pattern (9 bp):
ACATAACTT
Found at i:43184883 original size:28 final size:27
Alignment explanation
Indices: 43184775--43184895 Score: 104
Period size: 27 Copynumber: 4.4 Consensus size: 27
43184765 AAATGAATAT
* * *
43184775 ATAATTTACATAACTTACATAAATATAT
1 ATAATTTACATAACTCACATAACT-TAC
* * * * *
43184803 ATCATAT-CAAAAATCACATAACTTAT
1 ATAATTTACATAACTCACATAACTTAC
*
43184829 ATAATTTACATAACTCACGTAACTTAC
1 ATAATTTACATAACTCACATAACTTAC
43184856 ATAATTTA-ATAAC-CATATCATAACTTAC
1 ATAATTTACATAACTC--A-CATAACTTAC
43184884 ATAATTTACATA
1 ATAATTTACATA
43184896 CCTTTAAAGA
Statistics
Matches: 75, Mismatches: 13, Indels: 9
0.77 0.13 0.09
Matches are distributed among these distances:
25 1 0.01
26 13 0.17
27 36 0.48
28 22 0.29
29 3 0.04
ACGTcount: A:0.47, C:0.17, G:0.01, T:0.36
Consensus pattern (27 bp):
ATAATTTACATAACTCACATAACTTAC
Found at i:43185029 original size:47 final size:47
Alignment explanation
Indices: 43184963--43185302 Score: 299
Period size: 47 Copynumber: 6.8 Consensus size: 47
43184953 CCATAACTTA
* * *
43184963 CATAACTGACAT-ACATACATAACTTAATAACTTAAATATATCATAT
1 CATAACTTACATAACTTACATAACTTAATAACTTATATATATCATAT
* *
43185009 CATAACTCACATAACTTACATAACTTAATAACTTATATATATCATAC
1 CATAACTTACATAACTTACATAACTTAATAACTTATATATATCATAT
* * *
43185056 CATAACTTACAAAACAAATACATAACTTACATAATACATAAATATATATCATAT
1 CATAACTTACATAAC--TTACATAACTTA-AT-A-AC-T-TATATATATCATAT
* *
43185110 CATAACTTACATAACTCACATACATACATAACTTAATGACTTATATGTATCATAT
1 CATAACTTACAT-A---AC-T---TACATAACTTAATAACTTATATATATCATAT
* *
43185165 CATAACTCACATAACTTACATAACTTAATAACTTATATATATCATAC
1 CATAACTTACATAACTTACATAACTTAATAACTTATATATATCATAT
* * *
43185212 CATAACTTACGTAACTCACATAACTTACATAACTTACATA-ATACATAAAT
1 CATAACTTACATAACTTACATAACTTA-ATAACTTATATATAT-CAT--AT
*
43185262 -ATATATCATACCATAACTTACATAACTTAATTATACTTATA
1 CATA-A-CTTA-CATAACTTACATAACTTAA-TA-ACTTATA
43185303 ACTTACATAA
Statistics
Matches: 243, Mismatches: 27, Indels: 41
0.78 0.09 0.13
Matches are distributed among these distances:
46 11 0.05
47 98 0.40
48 14 0.06
49 14 0.06
50 5 0.02
51 7 0.03
52 20 0.08
53 7 0.03
54 24 0.10
55 24 0.10
56 1 0.00
57 3 0.01
58 2 0.01
59 2 0.01
60 11 0.05
ACGTcount: A:0.46, C:0.19, G:0.01, T:0.33
Consensus pattern (47 bp):
CATAACTTACATAACTTACATAACTTAATAACTTATATATATCATAT
Found at i:43185118 original size:156 final size:160
Alignment explanation
Indices: 43184941--43185363 Score: 603
Period size: 156 Copynumber: 2.6 Consensus size: 160
43184931 TTAATAACTT
* * *
43184941 ATATATATCAGACCATAACTTACATAACTGACATACATACATAACTTAATAACTTAAATATATCA
1 ATATATATCATACCATAACTTACATAACTCACATACATACATAACTTAATAACTTATATATATCA
43185006 TATCATAACTCACATAACTTACATAACTTAATAACTTATATATATCATACCATAACTTAC-AA-A
66 TATCATAACTCACATAACTTACATAACTTAATAACTTATATATATCATACCATAACTTACGAACA
43185069 ACA-AA-TACATAACTTACATAATACATAA
131 ACATAACTACATAACTTACATAATACATAA
* * *
43185097 ATATATATCATATCATAACTTACATAACTCACATACATACATAACTTAATGACTTATATGTATCA
1 ATATATATCATACCATAACTTACATAACTCACATACATACATAACTTAATAACTTATATATATCA
43185162 TATCATAACTCACATAACTTACATAACTTAATAACTTATATATATCATACCATAACTTACGTAAC
66 TATCATAACTCACATAACTTACATAACTTAATAACTTATATATATCATACCATAACTTACG-AAC
*
43185227 TCACATAACTTACATAACTTACATAATACATAA
130 -AACATAAC-TACATAACTTACATAATACATAA
* *
43185260 ATATATATCATACCATAACTTACATAACTTA-AT-TATACTTATAACTTACATAA---ATATATA
1 ATATATATCATACCATAACTTACATAACTCACATACATAC--ATAACTTA-ATAACTTATATATA
* * *
43185320 TCACATCATAACTTACATAATTTACATAACTTAATTATACTTAT
63 TCATATCATAACTCACATAACTTACATAACTTAA-TA-ACTTAT
43185364 CCTTAAACCC
Statistics
Matches: 240, Mismatches: 15, Indels: 17
0.88 0.06 0.06
Matches are distributed among these distances:
156 119 0.50
158 2 0.01
160 3 0.01
161 43 0.18
162 4 0.02
163 66 0.28
164 3 0.01
ACGTcount: A:0.46, C:0.19, G:0.01, T:0.34
Consensus pattern (160 bp):
ATATATATCATACCATAACTTACATAACTCACATACATACATAACTTAATAACTTATATATATCA
TATCATAACTCACATAACTTACATAACTTAATAACTTATATATATCATACCATAACTTACGAACA
ACATAACTACATAACTTACATAATACATAA
Found at i:43185197 original size:8 final size:9
Alignment explanation
Indices: 43184954--43185352 Score: 218
Period size: 9 Copynumber: 44.0 Consensus size: 9
43184944 TATATCAGAC
43184954 CATAACTTA
1 CATAACTTA
*
43184963 CATAACTGA
1 CATAACTTA
*
43184972 CAT-ACATA
1 CATAACTTA
43184980 CATAACTTA
1 CATAACTTA
43184989 -ATAACTTA
1 CATAACTTA
* *
43184997 AATATATCATA
1 CATA-A-CTTA
*
43185008 TCATAACTCA
1 -CATAACTTA
43185018 CATAACTTA
1 CATAACTTA
43185027 CATAACTTA
1 CATAACTTA
43185036 -ATAACTTA
1 CATAACTTA
* *
43185044 TATATATCATA
1 CATA-A-CTTA
43185055 CCATAACTTA
1 -CATAACTTA
* *
43185065 CAAAACAAATA
1 CATAAC--TTA
43185076 CATAACTTA
1 CATAACTTA
43185085 CATAA--TA
1 CATAACTTA
*
43185092 CATAA-ATA
1 CATAACTTA
* * *
43185100 TATATCATA
1 CATAACTTA
43185109 TCATAACTTA
1 -CATAACTTA
*
43185119 CATAACTCA
1 CATAACTTA
*
43185128 CAT-ACATA
1 CATAACTTA
43185136 CATAACTTA
1 CATAACTTA
*
43185145 -ATGACTTA
1 CATAACTTA
* * *
43185153 TATGTATCATA
1 CA--TAACTTA
*
43185164 TCATAACTCA
1 -CATAACTTA
43185174 CATAACTTA
1 CATAACTTA
43185183 CATAACTTA
1 CATAACTTA
43185192 -ATAACTTA
1 CATAACTTA
* *
43185200 TATATATCATA
1 CATA-A-CTTA
43185211 CCATAACTTA
1 -CATAACTTA
* *
43185221 CGTAACTCA
1 CATAACTTA
43185230 CATAACTTA
1 CATAACTTA
43185239 CATAACTTA
1 CATAACTTA
43185248 CATAA--TA
1 CATAACTTA
*
43185255 CATAA-ATA
1 CATAACTTA
* * *
43185263 TATATCATA
1 CATAACTTA
43185272 CCATAACTTA
1 -CATAACTTA
43185282 CATAACTTA
1 CATAACTTA
43185291 -ATTATACTT-
1 CA-TA-ACTTA
43185300 -ATAACTTA
1 CATAACTTA
*
43185308 CATAAATATA
1 CATAACT-TA
* * *
43185318 TATCACAT-
1 CATAACTTA
43185326 CATAACTTA
1 CATAACTTA
*
43185335 CATAATTTA
1 CATAACTTA
43185344 CATAACTTA
1 CATAACTTA
43185353 ATTATACTTA
Statistics
Matches: 302, Mismatches: 56, Indels: 64
0.72 0.13 0.15
Matches are distributed among these distances:
7 18 0.06
8 61 0.20
9 154 0.51
10 36 0.12
11 23 0.08
12 10 0.03
ACGTcount: A:0.46, C:0.19, G:0.01, T:0.34
Consensus pattern (9 bp):
CATAACTTA
Found at i:43188022 original size:21 final size:21
Alignment explanation
Indices: 43187995--43188107 Score: 145
Period size: 21 Copynumber: 5.4 Consensus size: 21
43187985 CTACAATTTA
* *
43187995 AAGCAGAAGCAGCAACGAGGG
1 AAGCAGAGGCAGCAGCGAGGG
*
43188016 AAACAGAGGCAGCAGCGAGGG
1 AAGCAGAGGCAGCAGCGAGGG
* *
43188037 AAGCAAAGGCAGCAGCGAAGG
1 AAGCAGAGGCAGCAGCGAGGG
* * *
43188058 AAGTAGAGGCAGTAGCGAGAG
1 AAGCAGAGGCAGCAGCGAGGG
43188079 AAGCAGAGGCAGCAGCGAGGG
1 AAGCAGAGGCAGCAGCGAGGG
*
43188100 AAGTAGAG
1 AAGCAGAG
43188108 CAGAGCAGAA
Statistics
Matches: 77, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 77 1.00
ACGTcount: A:0.40, C:0.16, G:0.42, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCAGCAGCGAGGG
Found at i:43188492 original size:43 final size:42
Alignment explanation
Indices: 43188381--43188690 Score: 286
Period size: 42 Copynumber: 7.3 Consensus size: 42
43188371 GATGCCAAAG
* * *
43188381 TTAGTGGCGTTTT-TAGTAAAA-TGCTGCTAAAGGTCATGTTT
1 TTAGCGGCGTTTTCTA-TAAAAGCGCCGCTAAAGGTCATGTTT
* * * *
43188422 TTAGCGGCATTTGCTATAAAAGTGCCGCTAAAGGTTATGTTTT
1 TTAGCGGCGTTTTCTATAAAAGCGCCGCTAAAGGTCATG-TTT
* *
43188465 TTAGCGGCGTTTTCTACAAAGGCGCCGCTAAAGGTCATGTTCT
1 TTAGCGGCGTTTTCTATAAAAGCGCCGCTAAAGGTCATGTT-T
** * *
43188508 TTAGTAGCG-TTTCTATAAAAGCGTCGCTAAAGGTCATGTTC
1 TTAGCGGCGTTTTCTATAAAAGCGCCGCTAAAGGTCATGTTT
* *
43188549 TTAGTGGCGTTTTCTATAAAAGCGCCGCTAAAGGTCATGATCT
1 TTAGCGGCGTTTTCTATAAAAGCGCCGCTAAAGGTCATG-TTT
* * * * * *
43188592 TTAGCGGC-ATTGCTATAAAAACGTCGCTAAATGTCATGATCT
1 TTAGCGGCGTTTTCTATAAAAGCGCCGCTAAAGGTCATG-TTT
* * * **
43188634 ATAGCGGCGTTTATGTGAAAAAAGCGCCGCTAAAGGTCATGACCT
1 TTAGCGGCGTTT-TCT-ATAAAAGCGCCGCTAAAGGTCATG-TTT
43188679 TTAGCGGCGTTT
1 TTAGCGGCGTTT
43188691 ATGTAAAAAA
Statistics
Matches: 223, Mismatches: 37, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
41 23 0.10
42 111 0.50
43 54 0.24
44 1 0.00
45 34 0.15
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (42 bp):
TTAGCGGCGTTTTCTATAAAAGCGCCGCTAAAGGTCATGTTT
Found at i:43188593 original size:84 final size:84
Alignment explanation
Indices: 43188381--43188686 Score: 339
Period size: 84 Copynumber: 3.6 Consensus size: 84
43188371 GATGCCAAAG
* * * *
43188381 TTAGTGGCGTTTT-TAGTAAAA-TGCTGCTAAAGGTCATG-TTTTTAGCGGCATTTGCTATAAAA
1 TTAGCGGCGTTTTCTA-TAAAAGCGCCGCTAAAGGTCATGATCTTTAGCGGCATTT-CTATAAAA
* * * *
43188443 GTGCCGCTAAAGGTTATGTTTT
64 GCGTCGCTAAAGGTCATG-TTC
* * * ** *
43188465 TTAGCGGCGTTTTCTACAAAGGCGCCGCTAAAGGTCATGTTCTTTAGTAGCGTTTCTATAAAAGC
1 TTAGCGGCGTTTTCTATAAAAGCGCCGCTAAAGGTCATGATCTTTAGCGGCATTTCTATAAAAGC
43188530 GTCGCTAAAGGTCATGTTC
66 GTCGCTAAAGGTCATGTTC
* * *
43188549 TTAGTGGCGTTTTCTATAAAAGCGCCGCTAAAGGTCATGATCTTTAGCGGCATTGCTATAAAAAC
1 TTAGCGGCGTTTTCTATAAAAGCGCCGCTAAAGGTCATGATCTTTAGCGGCATTTCTATAAAAGC
* *
43188614 GTCGCTAAATGTCATGATC
66 GTCGCTAAAGGTCATGTTC
* * *
43188633 TATAGCGGCGTTTATGTGAAAAAAGCGCCGCTAAAGGTCATGACCTTTAGCGGC
1 T-TAGCGGCGTTT-TCT-ATAAAAGCGCCGCTAAAGGTCATGATCTTTAGCGGC
43188687 GTTTATGTAA
Statistics
Matches: 188, Mismatches: 28, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
84 91 0.48
85 50 0.27
86 13 0.07
87 34 0.18
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (84 bp):
TTAGCGGCGTTTTCTATAAAAGCGCCGCTAAAGGTCATGATCTTTAGCGGCATTTCTATAAAAGC
GTCGCTAAAGGTCATGTTC
Found at i:43189151 original size:9 final size:9
Alignment explanation
Indices: 43189137--43189228 Score: 105
Period size: 9 Copynumber: 10.2 Consensus size: 9
43189127 GTAGTGATTC
43189137 AATTCGGTT
1 AATTCGGTT
*
43189146 AATTCGGGT
1 AATTCGGTT
43189155 AATTCGGTT
1 AATTCGGTT
*
43189164 AATTCGGGT
1 AATTCGGTT
*
43189173 AATTCGATT
1 AATTCGGTT
*
43189182 AATTCGATT
1 AATTCGGTT
*
43189191 AATTCAAG-T
1 AATTC-GGTT
43189200 AATTCGGTT
1 AATTCGGTT
*
43189209 AATTCAGTT
1 AATTCGGTT
*
43189218 AATTTGGTT
1 AATTCGGTT
43189227 AA
1 AA
43189229 CCGACCGAAT
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
8 1 0.01
9 69 0.99
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.41
Consensus pattern (9 bp):
AATTCGGTT
Found at i:43196601 original size:30 final size:28
Alignment explanation
Indices: 43196559--43196646 Score: 70
Period size: 28 Copynumber: 3.1 Consensus size: 28
43196549 TAAATTTCAA
* *
43196559 ATTTTGTT-ATATATATATATACATGCAT
1 ATTTT-TTAATATATATATATACATACAC
* * *
43196587 ATATTTTATAATATATACATAAACGTACAC
1 AT-TTTT-TAATATATATATATACATACAC
* * *
43196617 ATTTTTTAATTTATATATATATACACAC
1 ATTTTTTAATATATATATATACATACAC
43196645 AT
1 AT
43196647 ACTTTTATAT
Statistics
Matches: 46, Mismatches: 11, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
28 21 0.46
29 8 0.17
30 17 0.37
ACGTcount: A:0.41, C:0.10, G:0.03, T:0.45
Consensus pattern (28 bp):
ATTTTTTAATATATATATATACATACAC
Found at i:43196887 original size:3 final size:3
Alignment explanation
Indices: 43196879--43196946 Score: 127
Period size: 3 Copynumber: 22.7 Consensus size: 3
43196869 TTACATGTTC
*
43196879 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATG ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
43196927 ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT AT
43196947 GCTTTAGTTT
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:43197085 original size:20 final size:21
Alignment explanation
Indices: 43197051--43197100 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 21
43197041 TGCTCATATT
*
43197051 ATTTTTACTTGCATTATCAT-A
1 ATTTTTACTTCCATTA-CATCA
43197072 ATTTTTA-TTCCATTACATCA
1 ATTTTTACTTCCATTACATCA
43197092 ATTTTTACT
1 ATTTTTACT
43197101 CAGATTCGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 3 0.12
20 15 0.58
21 8 0.31
ACGTcount: A:0.28, C:0.16, G:0.02, T:0.54
Consensus pattern (21 bp):
ATTTTTACTTCCATTACATCA
Found at i:43198070 original size:397 final size:397
Alignment explanation
Indices: 43197337--43198134 Score: 1596
Period size: 397 Copynumber: 2.0 Consensus size: 397
43197327 TTTTCTAGAA
43197337 AAATAATAAAGGCAATATTTTGCATTTGGAAATTCGAGAAAGCGTGCCCTAATGTGCTGTGTTTT
1 AAATAATAAAGGCAATATTTTGCATTTGGAAATTCGAGAAAGCGTGCCCTAATGTGCTGTGTTTT
43197402 GCTTTCTCGTTTAGCCAAATAGCCAAATACCCTCTTAAAGTTTCAAAGTATGGGTTTTGGAAACC
66 GCTTTCTCGTTTAGCCAAATAGCCAAATACCCTCTTAAAGTTTCAAAGTATGGGTTTTGGAAACC
43197467 ATAAAGTGATCTTGATTTCGAGAGTTTAAAGTATCGTATCCTAATGTGCTGGACGTGATATTCTT
131 ATAAAGTGATCTTGATTTCGAGAGTTTAAAGTATCGTATCCTAATGTGCTGGACGTGATATTCTT
43197532 TCGGAACGAGAGAATCCTAAATTCCAACCATATTGTTCGAAAATTTTTAGGATCGTATTTTTAAA
196 TCGGAACGAGAGAATCCTAAATTCCAACCATATTGTTCGAAAATTTTTAGGATCGTATTTTTAAA
43197597 ATTCTTCAAAGTTTTCAATCTTCGACACTAAAGACACTAATTAATCAACAAGGTACCAATTTTGG
261 ATTCTTCAAAGTTTTCAATCTTCGACACTAAAGACACTAATTAATCAACAAGGTACCAATTTTGG
43197662 GCGTGTCGATGGTGCTAATCCTTCCACATACGTAACCGACTCCCGAACCTGTTTTTCTGAATTTC
326 GCGTGTCGATGGTGCTAATCCTTCCACATACGTAACCGACTCCCGAACCTGTTTTTCTGAATTTC
43197727 ATGGACC
391 ATGGACC
43197734 AAATAATAAAGGCAATATTTTGCATTTGGAAATTCGAGAAAGCGTGCCCTAATGTGCTGTGTTTT
1 AAATAATAAAGGCAATATTTTGCATTTGGAAATTCGAGAAAGCGTGCCCTAATGTGCTGTGTTTT
43197799 GCTTTCTCGTTTAGCCAAATAGCCAAATACCCTCTTAAAGTTTCAAAGTATGGGTTTTGGAAACC
66 GCTTTCTCGTTTAGCCAAATAGCCAAATACCCTCTTAAAGTTTCAAAGTATGGGTTTTGGAAACC
43197864 ATAAAGTGATCTTGATTTCGAGAGTTTAAAGTATCGTATCCTAATGTGCTGGACGTGATATTCTT
131 ATAAAGTGATCTTGATTTCGAGAGTTTAAAGTATCGTATCCTAATGTGCTGGACGTGATATTCTT
43197929 TCGGAACGAGAGAATCCTAAATTCCAACCATATTGTTCGAAAATTTTTAGGATCGTATTTTTAAA
196 TCGGAACGAGAGAATCCTAAATTCCAACCATATTGTTCGAAAATTTTTAGGATCGTATTTTTAAA
43197994 ATTCTTCAAAGTTTTCAATCTTCGACACTAAAGACACTAATTAATCAACAAGGTACCAATTTTGG
261 ATTCTTCAAAGTTTTCAATCTTCGACACTAAAGACACTAATTAATCAACAAGGTACCAATTTTGG
43198059 GCGTGTCGATGGTGCTAATCCTTCCACATACGTAACCGACTCCCGAACCTGTTTTTCTGAATTTC
326 GCGTGTCGATGGTGCTAATCCTTCCACATACGTAACCGACTCCCGAACCTGTTTTTCTGAATTTC
43198124 ATGGACC
391 ATGGACC
43198131 AAAT
1 AAAT
43198135 TCGTTGTTTT
Statistics
Matches: 401, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
397 401 1.00
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (397 bp):
AAATAATAAAGGCAATATTTTGCATTTGGAAATTCGAGAAAGCGTGCCCTAATGTGCTGTGTTTT
GCTTTCTCGTTTAGCCAAATAGCCAAATACCCTCTTAAAGTTTCAAAGTATGGGTTTTGGAAACC
ATAAAGTGATCTTGATTTCGAGAGTTTAAAGTATCGTATCCTAATGTGCTGGACGTGATATTCTT
TCGGAACGAGAGAATCCTAAATTCCAACCATATTGTTCGAAAATTTTTAGGATCGTATTTTTAAA
ATTCTTCAAAGTTTTCAATCTTCGACACTAAAGACACTAATTAATCAACAAGGTACCAATTTTGG
GCGTGTCGATGGTGCTAATCCTTCCACATACGTAACCGACTCCCGAACCTGTTTTTCTGAATTTC
ATGGACC
Found at i:43198545 original size:26 final size:27
Alignment explanation
Indices: 43198515--43198568 Score: 92
Period size: 26 Copynumber: 2.0 Consensus size: 27
43198505 TTAAGAAGGA
43198515 TAAGCACGAAGTTTGAAA-ATTAATTT
1 TAAGCACGAAGTTTGAAATATTAATTT
*
43198541 TAAGCACGAAGTTTGAAATTTTAATTT
1 TAAGCACGAAGTTTGAAATATTAATTT
43198568 T
1 T
43198569 CATAAATAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 18 0.69
27 8 0.31
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (27 bp):
TAAGCACGAAGTTTGAAATATTAATTT
Found at i:43200226 original size:3 final size:3
Alignment explanation
Indices: 43200194--43200241 Score: 53
Period size: 3 Copynumber: 16.0 Consensus size: 3
43200184 GTGAGGTAAG
* * *
43200194 TAT TAA TAT TAG TAT T-T GTAT TAG TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT
43200239 TAT
1 TAT
43200242 GAGTGGGAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
2 1 0.03
3 35 0.95
4 1 0.03
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.60
Consensus pattern (3 bp):
TAT
Done.