Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001547.1 Hibiscus syriacus cultivar Beakdansim tig00003041_pilon, whole genome shotgun sequence
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: 10425128
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 42 of 51
Found at i:8114519 original size:23 final size:23
Alignment explanation
Indices: 8114464--8114519 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
8114454 ATCATTTTAA
*
8114464 TAAAATATTAATTATTAACATATT
1 TAAAATA-TATTTATTAACATATT
* *
8114488 TAAATTATATTTATTAATA-ATT
1 TAAAATATATTTATTAACATATT
8114510 TAATAATATA
1 TAA-AATATA
8114520 AAATAATACT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 6 0.22
23 15 0.56
24 6 0.22
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
TAAAATATATTTATTAACATATT
Found at i:8114945 original size:20 final size:20
Alignment explanation
Indices: 8114924--8114960 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
8114914 ATTCTAATAT
8114924 TTTTTAAAAT-AATATTAAA
1 TTTTTAAAATAAATATTAAA
*
8114943 TTTTTATAATAAATATTA
1 TTTTTAAAATAAATATTA
8114961 TTATTTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 9 0.56
20 7 0.44
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TTTTTAAAATAAATATTAAA
Found at i:8120736 original size:26 final size:25
Alignment explanation
Indices: 8120701--8120749 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
8120691 AATTAAGGGA
8120701 AAAATAAAA-TAAAATAAAAAGAATG
1 AAAATAAAATTAAAA-AAAAAGAATG
*
8120726 AAAATAGAAATTGAAAAAAAAGAA
1 AAAATA-AAATTAAAAAAAAAGAA
8120750 AAATTGGGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 6 0.29
26 11 0.52
27 4 0.19
ACGTcount: A:0.76, C:0.00, G:0.10, T:0.14
Consensus pattern (25 bp):
AAAATAAAATTAAAAAAAAAGAATG
Found at i:8124815 original size:24 final size:20
Alignment explanation
Indices: 8124738--8124795 Score: 116
Period size: 20 Copynumber: 2.9 Consensus size: 20
8124728 TTCCCCTTGA
8124738 AGTGCATCGATGCATTCTAT
1 AGTGCATCGATGCATTCTAT
8124758 AGTGCATCGATGCATTCTAT
1 AGTGCATCGATGCATTCTAT
8124778 AGTGCATCGATGCATTCT
1 AGTGCATCGATGCATTCT
8124796 TTAACATGTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (20 bp):
AGTGCATCGATGCATTCTAT
Found at i:8124916 original size:64 final size:63
Alignment explanation
Indices: 8124803--8124943 Score: 142
Period size: 64 Copynumber: 2.2 Consensus size: 63
8124793 TCTTTAACAT
* * * *
8124803 GTGCATCGATGCACTACCCATGCATCGATACATAAATTACCTTCGATGTTT-TTATTTTAAAGG
1 GTGCATCGATGCACTACCCATGCATCGATACACAAATTACATTCGATGTTTCTT-CTTTAAAGA
* * * * * *
8124866 GATGCATCGATGCACT-CCTTATGCATCGATGCACCATTTGCATTCTATGTTTCTTCTTTAAAGA
1 G-TGCATCGATGCACTACC-CATGCATCGATACACAAATTACATTCGATGTTTCTTCTTTAAAGA
*
8124930 GTGTATCGATGCAC
1 GTGCATCGATGCAC
8124944 ATTCAATGTG
Statistics
Matches: 64, Mismatches: 11, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
63 15 0.23
64 47 0.73
65 2 0.03
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (63 bp):
GTGCATCGATGCACTACCCATGCATCGATACACAAATTACATTCGATGTTTCTTCTTTAAAGA
Found at i:8125378 original size:31 final size:31
Alignment explanation
Indices: 8125326--8125384 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
8125316 TAAGCTCTTC
*
8125326 TTATGCTTAATTATCACCTAATAATCAAAAT
1 TTATCCTTAATTATCACCTAATAATCAAAAT
*
8125357 TTATCCTTAAATT-TCAGCTAATAATCAA
1 TTATCCTT-AATTATCACCTAATAATCAA
8125385 CAACAAGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
31 21 0.84
32 4 0.16
ACGTcount: A:0.41, C:0.17, G:0.03, T:0.39
Consensus pattern (31 bp):
TTATCCTTAATTATCACCTAATAATCAAAAT
Found at i:8127053 original size:12 final size:12
Alignment explanation
Indices: 8127026--8127071 Score: 60
Period size: 12 Copynumber: 4.0 Consensus size: 12
8127016 GAACAAAAAT
*
8127026 AAAAACTTAAAG
1 AAAAACTTAATG
8127038 -AAAACTTAATG
1 AAAAACTTAATG
*
8127049 AAAAACTTGATG
1 AAAAACTTAATG
8127061 AAAAAC-TAATG
1 AAAAACTTAATG
8127072 CCCTAGCTCC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
11 14 0.47
12 16 0.53
ACGTcount: A:0.59, C:0.09, G:0.11, T:0.22
Consensus pattern (12 bp):
AAAAACTTAATG
Found at i:8132993 original size:51 final size:52
Alignment explanation
Indices: 8132889--8132993 Score: 124
Period size: 51 Copynumber: 2.0 Consensus size: 52
8132879 CCCGCGCTAA
* * * *
8132889 ACCCCTACGTGGCTCCAGATCAACGTAAAGCGCACTGTAGAGGGCGCGTCTT
1 ACCCCTACGTGGCGCCAGATCAACGTAAAGCGCACTGCAGAGGACGCGCCTT
** *
8132941 ACCCC-ACGTGGCGCCAGATCAGTGTAAAGCGCGCTGCAG-GAGACGCGCCTT
1 ACCCCTACGTGGCGCCAGATCAACGTAAAGCGCACTGCAGAG-GACGCGCCTT
8132992 AC
1 AC
8132994 TGCAGAGAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
50 1 0.02
51 39 0.87
52 5 0.11
ACGTcount: A:0.23, C:0.32, G:0.29, T:0.16
Consensus pattern (52 bp):
ACCCCTACGTGGCGCCAGATCAACGTAAAGCGCACTGCAGAGGACGCGCCTT
Found at i:8133691 original size:24 final size:24
Alignment explanation
Indices: 8133664--8133746 Score: 105
Period size: 24 Copynumber: 3.5 Consensus size: 24
8133654 AGTAAACATA
8133664 CTTATAAATGAGTCGATAAACGAG
1 CTTATAAATGAGTCGATAAACGAG
* *
8133688 CTTATAAATGAAAT-AATAAACGAG
1 CTTATAAATG-AGTCGATAAACGAG
* * *
8133712 CTTATAAACGAGTCGATAAACAAA
1 CTTATAAATGAGTCGATAAACGAG
8133736 CTTATAAATGA
1 CTTATAAATGA
8133747 ATTTATTTGT
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
23 2 0.04
24 45 0.92
25 2 0.04
ACGTcount: A:0.48, C:0.12, G:0.14, T:0.25
Consensus pattern (24 bp):
CTTATAAATGAGTCGATAAACGAG
Found at i:8133694 original size:12 final size:12
Alignment explanation
Indices: 8133679--8133723 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
8133669 AAATGAGTCG
8133679 ATAAACGAGCTT
1 ATAAACGAGCTT
* ** *
8133691 ATAAATGAAATA
1 ATAAACGAGCTT
8133703 ATAAACGAGCTT
1 ATAAACGAGCTT
8133715 ATAAACGAG
1 ATAAACGAG
8133724 TCGATAAACA
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.51, C:0.11, G:0.16, T:0.22
Consensus pattern (12 bp):
ATAAACGAGCTT
Found at i:8136493 original size:3 final size:3
Alignment explanation
Indices: 8136478--8136529 Score: 79
Period size: 3 Copynumber: 17.7 Consensus size: 3
8136468 TAAATACACT
* *
8136478 TAA TAA TAC TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-T TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
8136525 TAA TA
1 TAA TA
8136530 TTTTTTAACT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
2 1 0.02
3 43 0.98
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:8136835 original size:105 final size:105
Alignment explanation
Indices: 8136659--8136946 Score: 337
Period size: 105 Copynumber: 2.7 Consensus size: 105
8136649 TCGTTAGATT
** * *
8136659 GAACAAGTTCTTCTCATTATGAAC-TTCTTTTTTCTCGTGGATGAGTTCTTCTCATTATGAACTC
1 GAACAAGTTCTTCTCATTATGAACTTTC-TCCTT-T--AGGACGAGTTCTTCTCATTATGAACTC
* * * *
8136723 TTTTGGAAATGTTGATCCAAATCCTTTTGCGGTGGACTTAGAAA-
62 TTCTGGAAATGTTGATCCAAATCCATCTGCGGT-GAATTAGAAAG
* *
8136767 GAACATGTTTTTCTCATTATGAACTTTCTCCTTTAGGACGAGTTCTTCTCATTATGAACTCTTCT
1 GAACAAGTTCTTCTCATTATGAACTTTCTCCTTTAGGACGAGTTCTTCTCATTATGAACTCTTCT
* * ** * *
8136832 GGAAATGTTGGTTCACCTCCATCTGTGGTGAATTTGAAAG
66 GGAAATGTTGATCCAAATCCATCTGCGGTGAATTAGAAAG
* *
8136872 GAACAAGTTCTTCTCATTATGAACTTTCTCCTTTATGATGAGTTCTTCTCATTATGAACTCTTCA
1 GAACAAGTTCTTCTCATTATGAACTTTCTCCTTTAGGACGAGTTCTTCTCATTATGAACTCTTC-
8136937 TTGGAAATGT
65 -TGGAAATGT
8136947 CAATCCCTCA
Statistics
Matches: 156, Mismatches: 20, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
104 8 0.05
105 110 0.71
107 10 0.06
108 25 0.16
109 3 0.02
ACGTcount: A:0.24, C:0.18, G:0.17, T:0.41
Consensus pattern (105 bp):
GAACAAGTTCTTCTCATTATGAACTTTCTCCTTTAGGACGAGTTCTTCTCATTATGAACTCTTCT
GGAAATGTTGATCCAAATCCATCTGCGGTGAATTAGAAAG
Found at i:8136934 original size:16 final size:16
Alignment explanation
Indices: 8136880--8136935 Score: 51
Period size: 16 Copynumber: 3.3 Consensus size: 16
8136870 AGGAACAAGT
8136880 TCTTCTCATTATGAAC
1 TCTTCTCATTATGAAC
* *
8136896 T-TTCTCCTTTATGATGAGT
1 TCTTCT-CATTATGA--A-C
8136915 TCTTCTCATTATGAAC
1 TCTTCTCATTATGAAC
8136931 TCTTC
1 TCTTC
8136936 ATTGGAAATG
Statistics
Matches: 31, Mismatches: 4, Indels: 10
0.69 0.09 0.22
Matches are distributed among these distances:
15 4 0.13
16 13 0.42
17 1 0.03
18 1 0.03
19 8 0.26
20 4 0.13
ACGTcount: A:0.20, C:0.23, G:0.09, T:0.48
Consensus pattern (16 bp):
TCTTCTCATTATGAAC
Found at i:8137261 original size:225 final size:219
Alignment explanation
Indices: 8136872--8137305 Score: 622
Period size: 225 Copynumber: 2.0 Consensus size: 219
8136862 AATTTGAAAG
*
8136872 GAACAAGTTCTTCTCATTATGAACTTTCTCCTTTATGATGAGTTCTTCTCATTATGAACTCTTCA
1 GAACAAGTTCTTCTCATTATGAACTTTCTCCTTTAGGATGAGTTCTTCTCATTATGAACTCTTCA
* * * * * * *
8136937 TTGGAAATGTCAATCCCTCAAGCGAGGCGTCACTGATTCGAAATGTCGTGAATCAAGTGATAGGT
66 CTGAAAATATCAATCCCTCAAGCGAGGCGTCACTGATTCAAAATGTCATAAATCAAGTGATAAGT
* *
8137002 CAAAAAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGACGAGTTCTTTTCATTATGAAC
131 CAAAAAAGCTCTTCTCATTATGAACTTCTTCT-CC-C--TCGAACGAGTTCTTCTCATTATGAAC
8137067 TCTCCATTGAAAATGTTGATGCGAATTT
192 TCTCCATTGAAAATGTTGATGCGAATTT
8137095 GAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCGTT-GGATGAGTTCTTCTCATTATGAACT
1 GAACAAGTTCTTCTCATTATGAAC-T-TTC-TCCT--TTAGGATGAGTTCTTCTCATTATGAACT
* *
8137159 C-TC-CTGAAAATATCAATCCCTCAAGCGAGGTGTCACTGATTCAAAATGTCATAAATCGAGTGA
61 CTTCACTGAAAATATCAATCCCTCAAGCGAGGCGTCACTGATTCAAAATGTCATAAATCAAGTGA
* * *
8137222 TAAGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCGAATGAGTTCTTCTCATTATGAA
126 TAAGTCAAAAAAGCTCTTCTCATTATGAACTTCTTCTCCCTCGAACGAGTTCTTCTCATTATGAA
*
8137287 CTCTCCATTGGAAATGTTG
191 CTCTCCATTGAAAATGTTG
8137306 GTTCACCTCC
Statistics
Matches: 190, Mismatches: 16, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
221 40 0.21
223 25 0.13
224 3 0.02
225 89 0.47
226 6 0.03
227 25 0.13
228 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (219 bp):
GAACAAGTTCTTCTCATTATGAACTTTCTCCTTTAGGATGAGTTCTTCTCATTATGAACTCTTCA
CTGAAAATATCAATCCCTCAAGCGAGGCGTCACTGATTCAAAATGTCATAAATCAAGTGATAAGT
CAAAAAAGCTCTTCTCATTATGAACTTCTTCTCCCTCGAACGAGTTCTTCTCATTATGAACTCTC
CATTGAAAATGTTGATGCGAATTT
Found at i:8138174 original size:7 final size:7
Alignment explanation
Indices: 8138164--8138235 Score: 57
Period size: 7 Copynumber: 10.6 Consensus size: 7
8138154 CCTTTTTCTC
8138164 TTTTCATT
1 TTTTCA-T
8138172 TTTTCA-
1 TTTTCAT
*
8138178 -TTTCTT
1 TTTTCAT
8138184 TTTTCAT
1 TTTTCAT
8138191 TTTTCA-
1 TTTTCAT
8138197 TTTT--T
1 TTTTCAT
8138202 TTTTCATTT
1 TTTTCA--T
8138211 TTTTC-T
1 TTTTCAT
8138217 TTTTCAT
1 TTTTCAT
8138224 TTTTCAT
1 TTTTCAT
8138231 ATTTT
1 -TTTT
8138236 TTTGTTCCTT
Statistics
Matches: 53, Mismatches: 2, Indels: 18
0.73 0.03 0.25
Matches are distributed among these distances:
5 8 0.15
6 10 0.19
7 19 0.36
8 10 0.19
9 6 0.11
ACGTcount: A:0.11, C:0.12, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTCAT
Found at i:8138186 original size:27 final size:26
Alignment explanation
Indices: 8138156--8138227 Score: 87
Period size: 27 Copynumber: 2.7 Consensus size: 26
8138146 CAAACCCTCC
8138156 TTTTTCTCTTTTCATTTTTTCATTTC-T
1 TTTTTCTCTTTTCATTTTTT--TTTCAT
8138183 TTTTTCAT-TTTTCATTTTTTTTTCAT
1 TTTTTC-TCTTTTCATTTTTTTTTCAT
8138209 TTTTT-TCTTTTTCATTTTT
1 TTTTTCTC-TTTTCATTTTT
8138228 CATATTTTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
24 1 0.02
25 4 0.10
26 17 0.41
27 18 0.44
28 1 0.02
ACGTcount: A:0.08, C:0.14, G:0.00, T:0.78
Consensus pattern (26 bp):
TTTTTCTCTTTTCATTTTTTTTTCAT
Found at i:8138187 original size:20 final size:20
Alignment explanation
Indices: 8138158--8138236 Score: 90
Period size: 20 Copynumber: 3.9 Consensus size: 20
8138148 AACCCTCCTT
*
8138158 TTTCTCTTTTCATTTTTTCA
1 TTTCTTTTTTCATTTTTTCA
8138178 TTTCTTTTTTCA-TTTTTCA
1 TTTCTTTTTTCATTTTTTCA
*
8138197 TTT-TTTTTTCATTTTTTTCTT
1 TTTCTTTTTTCA-TTTTTTC-A
*
8138218 TTTCATTTTTCATATTTTT
1 TTTCTTTTTTCAT-TTTTT
8138237 TTGTTCCTTT
Statistics
Matches: 51, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
18 8 0.16
19 10 0.20
20 17 0.33
21 4 0.08
22 12 0.24
ACGTcount: A:0.10, C:0.14, G:0.00, T:0.76
Consensus pattern (20 bp):
TTTCTTTTTTCATTTTTTCA
Found at i:8138204 original size:11 final size:11
Alignment explanation
Indices: 8138170--8138214 Score: 53
Period size: 11 Copynumber: 4.4 Consensus size: 11
8138160 TCTCTTTTCA
8138170 TTTTTTCATTT
1 TTTTTTCATTT
8138181 CTTTTTTCA---
1 -TTTTTTCATTT
8138190 -TTTTTCATTT
1 TTTTTTCATTT
8138200 TTTTTTCATTT
1 TTTTTTCATTT
8138211 TTTT
1 TTTT
8138215 CTTTTTCATT
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
7 7 0.24
11 14 0.48
12 8 0.28
ACGTcount: A:0.09, C:0.11, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTTTTCATTT
Found at i:8138225 original size:33 final size:35
Alignment explanation
Indices: 8138178--8138253 Score: 111
Period size: 33 Copynumber: 2.2 Consensus size: 35
8138168 CATTTTTTCA
8138178 TTTCTTTTTTCATTTTTC-ATTTTTTT-TTCATTTT
1 TTTC-TTTTTCATTTTTCAATTTTTTTGTTCATTTT
*
8138212 TTTCTTTTTCATTTTTCATATTTTTTTGTTCCTTTT
1 TTTCTTTTTCATTTTTCA-ATTTTTTTGTTCATTTT
8138248 TTTCTT
1 TTTCTT
8138254 CAAGCATAGT
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
33 13 0.34
34 4 0.11
35 8 0.21
36 13 0.34
ACGTcount: A:0.08, C:0.13, G:0.01, T:0.78
Consensus pattern (35 bp):
TTTCTTTTTCATTTTTCAATTTTTTTGTTCATTTT
Found at i:8138235 original size:15 final size:13
Alignment explanation
Indices: 8138156--8138228 Score: 62
Period size: 13 Copynumber: 5.5 Consensus size: 13
8138146 CAAACCCTCC
8138156 TTTTTCTCTTTTCA
1 TTTTTCT-TTTTCA
* *
8138170 TTTTT-TCATTTCT
1 TTTTTCT-TTTTCA
8138183 TTTTTCATTTTTCA
1 TTTTTC-TTTTTCA
8138197 -TTTT-TTTTTCA
1 TTTTTCTTTTTCA
8138208 TTTTTTTCTTTTTCA
1 --TTTTTCTTTTTCA
8138223 TTTTTC
1 TTTTTC
8138229 ATATTTTTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
11 7 0.14
13 21 0.43
14 13 0.27
15 8 0.16
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTTCTTTTTCA
Found at i:8138248 original size:22 final size:22
Alignment explanation
Indices: 8138200--8138249 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
8138190 TTTTTCATTT
* *
8138200 TTTTTTCATTTTTTTCTTTTTC
1 TTTTTTCATTTTTTTCTGTTCC
*
8138222 ATTTTTCATATTTTTT-TGTTCC
1 TTTTTTCAT-TTTTTTCTGTTCC
8138244 TTTTTT
1 TTTTTT
8138250 TCTTCAAGCA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 17 0.74
23 6 0.26
ACGTcount: A:0.08, C:0.12, G:0.02, T:0.78
Consensus pattern (22 bp):
TTTTTTCATTTTTTTCTGTTCC
Found at i:8151363 original size:3 final size:3
Alignment explanation
Indices: 8151348--8151399 Score: 79
Period size: 3 Copynumber: 17.7 Consensus size: 3
8151338 TAAATACACT
* *
8151348 TAA TAA TAC TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-T TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
8151395 TAA TA
1 TAA TA
8151400 TTTTTTAACT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
2 1 0.02
3 43 0.98
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:8160754 original size:2 final size:2
Alignment explanation
Indices: 8160749--8160809 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
8160739 TATATAACCG
8160749 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8160791 AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT A
8160810 AATAACTTTG
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8161315 original size:11 final size:11
Alignment explanation
Indices: 8161277--8161438 Score: 53
Period size: 11 Copynumber: 15.5 Consensus size: 11
8161267 TATTAGATTG
*
8161277 TAAAATAAAAA
1 TAAAATAATAA
8161288 T-AAAT-ATGAA
1 TAAAATAAT-AA
* *
8161298 AAAAATATTAA
1 TAAAATAATAA
*
8161309 TATAATAATAA
1 TAAAATAATAA
8161320 TAAAAT-A-AA
1 TAAAATAATAA
*
8161329 TAAAATAGACGAA
1 TAAAATA-A-TAA
8161342 TAAAGATAA-AA
1 TAAA-ATAATAA
* * *
8161353 GAAATTGAGTAA
1 TAAAAT-AATAA
*
8161365 -AAAATGATAA
1 TAAAATAATAA
*
8161375 AAAAATAA-AA
1 TAAAATAATAA
*
8161385 T-GAA-AATAA
1 TAAAATAATAA
*
8161394 -AAAATAAAAA
1 TAAAATAATAA
** *
8161404 CGAAATAA-AG
1 TAAAATAATAA
8161414 TAAAATAA-AA
1 TAAAATAATAA
8161424 TAAAA-AATAA
1 TAAAATAATAA
8161434 TAAAA
1 TAAAA
8161439 ATTTAGGAAA
Statistics
Matches: 112, Mismatches: 23, Indels: 33
0.67 0.14 0.20
Matches are distributed among these distances:
8 2 0.02
9 17 0.15
10 37 0.33
11 43 0.38
12 3 0.03
13 7 0.06
14 3 0.03
ACGTcount: A:0.72, C:0.01, G:0.07, T:0.20
Consensus pattern (11 bp):
TAAAATAATAA
Found at i:8161390 original size:6 final size:5
Alignment explanation
Indices: 8161376--8161438 Score: 51
Period size: 5 Copynumber: 12.8 Consensus size: 5
8161366 AAATGATAAA
* * * *
8161376 AAAAT AAAAT GAAAAT AAAA- AATA- AAAAC GAAAT AAAGT AAAAT AAAAT
1 AAAAT AAAAT -AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
8161425 AAAA- AATAAT AAAA
1 AAAAT AA-AAT AAAA
8161439 ATTTAGGAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
4 8 0.17
5 32 0.68
6 7 0.15
ACGTcount: A:0.78, C:0.02, G:0.05, T:0.16
Consensus pattern (5 bp):
AAAAT
Found at i:8161395 original size:18 final size:18
Alignment explanation
Indices: 8161374--8161433 Score: 65
Period size: 18 Copynumber: 3.5 Consensus size: 18
8161364 AAAAATGATA
8161374 AAAAAATAAAATGAAAAT
1 AAAAAATAAAATGAAAAT
*
8161392 AAAAAATAAAAACG-AAAT
1 AAAAAAT-AAAATGAAAAT
*
8161410 --AAAGTAAAAT-AAAAT
1 AAAAAATAAAATGAAAAT
8161425 AAAAAATAA
1 AAAAAATAA
8161434 TAAAAATTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 9
0.72 0.09 0.19
Matches are distributed among these distances:
15 8 0.24
16 4 0.12
17 6 0.18
18 11 0.32
19 5 0.15
ACGTcount: A:0.78, C:0.02, G:0.05, T:0.15
Consensus pattern (18 bp):
AAAAAATAAAATGAAAAT
Found at i:8161427 original size:52 final size:52
Alignment explanation
Indices: 8161312--8161430 Score: 129
Period size: 52 Copynumber: 2.3 Consensus size: 52
8161302 ATATTAATAT
* * **
8161312 AATAATAATAAAATAAATAAAATAGACGAATAAAGATAAAAGAAATTGAGTAA
1 AATAATAATAAAA-AAATAAAATAGACAAATAAAAATAAAAGAAATAAAGTAA
*
8161365 AA-AATGATAAAAAAATAAAAT-GA-AAATAAAAAATAAAAACGAAATAAAGTAA
1 AATAATAATAAAAAAATAAAATAGACAAAT-AAAAAT-AAAA-GAAATAAAGTAA
8161417 AATAA-AATAAAAAA
1 AATAATAATAAAAAA
8161431 TAATAAAAAT
Statistics
Matches: 56, Mismatches: 6, Indels: 9
0.79 0.08 0.13
Matches are distributed among these distances:
49 3 0.05
50 7 0.12
51 13 0.23
52 29 0.52
53 4 0.07
ACGTcount: A:0.72, C:0.02, G:0.08, T:0.18
Consensus pattern (52 bp):
AATAATAATAAAAAAATAAAATAGACAAATAAAAATAAAAGAAATAAAGTAA
Found at i:8162631 original size:5 final size:5
Alignment explanation
Indices: 8162621--8162654 Score: 59
Period size: 5 Copynumber: 6.6 Consensus size: 5
8162611 ACCCTGGACC
8162621 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT AAA
8162655 TAATGATAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 23 0.82
6 5 0.18
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:8162713 original size:2 final size:2
Alignment explanation
Indices: 8162701--8162740 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
8162691 ATTTTAAGAC
8162701 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8162741 TTTAAAATGT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:8162766 original size:38 final size:37
Alignment explanation
Indices: 8162722--8163234 Score: 591
Period size: 38 Copynumber: 13.7 Consensus size: 37
8162712 TATATATATA
*
8162722 TATATATATATATATATATTTT-AAAATGTTTTCAAAAC
1 TATATAT-TATATATAT-TTTTCAAAATGTTTTAAAAAC
8162760 TATATATTATATA-A-TTTTCAAAATGTTTTTAAAAA-
1 TATATATTATATATATTTTTCAAAATG-TTTTAAAAAC
* *
8162795 TCATATATTATATATA-TTTTCAAATTTTTTTTTAAAAAC
1 T-ATATATTATATATATTTTTCAAA--ATGTTTTAAAAAC
* * *
8162834 CATATATTATATA-AGTTTTCGAAATGTTTTTAAAAAC
1 TATATATTATATATATTTTTCAAAATG-TTTTAAAAAC
* ** *
8162871 CATATATTATATATA-TTTTCAATTTTTTTTAAAAAC
1 TATATATTATATATATTTTTCAAAATGTTTTAAAAAC
* *
8162907 CATATATTATATA-AGTTTTCAAAATGTTTTCAAAAAC
1 TATATATTATATATATTTTTCAAAATGTTTT-AAAAAC
* *
8162944 CATATATTATATAT-GTTTTCAAAATGATTTTAAAAAC
1 TATATATTATATATATTTTTCAAAATG-TTTTAAAAAC
* *
8162981 CATATATTATATATATATGCTTTCAAAATGTTTTAAAAAT
1 TATATATTATATATAT-T--TTTCAAAATGTTTTAAAAAC
*
8163021 TATATAATATATATATGTTTTCAAAATGTTTT-AAAAC
1 TATATATTATATATAT-TTTTCAAAATGTTTTAAAAAC
*
8163058 --TATATTATATATATGTTTTCAAAATATTTTAAAAAC
1 TATATATTATATATAT-TTTTCAAAATGTTTTAAAAAC
*
8163094 TATATAATATATATATTCTTTCAAAATGTTTTAAAAAAC
1 TATATATTATATATATT-TTTCAAAATGTTTT-AAAAAC
*
8163133 TATATAATATATATATGTTTTCAAAATGTTTTAAAAAC
1 TATATATTATATATAT-TTTTCAAAATGTTTTAAAAAC
8163171 TATATATTATATATATGTTTTCAAAATGTTTTAAAAAC
1 TATATATTATATATAT-TTTTCAAAATGTTTTAAAAAC
8163209 TATATATTATATATATGTTTTCAAAA
1 TATATATTATATATAT-TTTTCAAAA
8163235 ACTATATATT
Statistics
Matches: 426, Mismatches: 25, Indels: 48
0.85 0.05 0.10
Matches are distributed among these distances:
34 4 0.01
35 36 0.08
36 62 0.15
37 102 0.24
38 149 0.35
39 38 0.09
40 25 0.06
41 10 0.02
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.47
Consensus pattern (37 bp):
TATATATTATATATATTTTTCAAAATGTTTTAAAAAC
Found at i:8162924 original size:73 final size:73
Alignment explanation
Indices: 8162725--8163234 Score: 550
Period size: 73 Copynumber: 6.8 Consensus size: 73
8162715 ATATATATAT
* * *
8162725 ATATATATATATATATTTT-AAAATGTTTTCAAAACTATATATTATATAA-TTTTCAAAATGTTT
1 ATATAT-TATATATATTTTCAAATTGTTTTAAAAACCATATATTATATAAGTTTTCAAAATGTTT
*
8162788 TTAAAAATC
65 TTAAAAACC
* *
8162797 ATATATTATATATATTTTCAAATTTTTTTTTAAAAACCATATATTATATAAGTTTTCGAAATGTT
1 ATATATTATATATATTTTCAAA--TTGTTTTAAAAACCATATATTATATAAGTTTTCAAAATGTT
8162862 TTTAAAAACC
64 TTTAAAAACC
* *
8162872 ATATATTATATATATTTTCAATTTTTTTTAAAAACCATATATTATATAAGTTTTCAAAATGTTTT
1 ATATATTATATATATTTTCAAATTGTTTTAAAAACCATATATTATATAAGTTTTCAAAATGTTTT
*
8162937 CAAAAACC
66 TAAAAACC
* * *
8162945 ATATATTATATATGTTTTCAAAATGATTTTAAAAACCATATATTATATATATATGCTTTCAAAAT
1 ATATATTATATATATTTTCAAATTG-TTTTAAAAACCATATA-T-TATATA-A-GTTTTCAAAAT
**
8163010 G-TTTTAAAAATT
61 GTTTTTAAAAACC
* *
8163022 ATATAATATATATATGTTTTCAAAATGTTTT-AAAA-C-TATATTATATATATGTTTTCAAAAT-
1 ATAT-AT-TATATATATTTTCAAATTGTTTTAAAAACCATATATTATATA-A-GTTTTCAAAATG
* *
8163083 ATTTTAAAAACT
62 TTTTTAAAAACC
* * * *
8163095 ATATAATATATATATTCTTTCAAAATGTTTTAAAAAACTATATAATATATATATGTTTTCAAAAT
1 ATATATTATATATA-T-TTTCAAATTGTTTT-AAAAACCATAT-AT-TATATAAGTTTTCAAAAT
*
8163160 G-TTTTAAAAACT
61 GTTTTTAAAAACC
* *
8163172 ATATATTATATATATGTTTTCAAAATGTTTTAAAAACTATATATTATATATATGTTTTCAAAA
1 ATATATTATATATA--TTTTCAAATTGTTTTAAAAACCATATATTATATA-A-GTTTTCAAAA
8163235 ACTATATATT
Statistics
Matches: 388, Mismatches: 26, Indels: 44
0.85 0.06 0.10
Matches are distributed among these distances:
71 19 0.05
72 11 0.03
73 117 0.30
74 46 0.12
75 53 0.14
76 28 0.07
77 69 0.18
78 20 0.05
79 25 0.06
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (73 bp):
ATATATTATATATATTTTCAAATTGTTTTAAAAACCATATATTATATAAGTTTTCAAAATGTTTT
TAAAAACC
Found at i:8163235 original size:66 final size:66
Alignment explanation
Indices: 8163158--8163291 Score: 200
Period size: 66 Copynumber: 2.0 Consensus size: 66
8163148 TGTTTTCAAA
** *
8163158 ATGTTTTAAAAACTATATATTATATATATGTTTTCAAAATGTTTTAAAAACTAT-ATAT-TATAT
1 ATGTTTTAAAAACTATATATTATATATACATATTCAAAATGTTTT-AAAACTATAATATATATAT
8163221 AT
65 AT
*
8163223 ATGTTTTCAAAAACTATATATTATATATACATATTCAAAGTGTTTTAAAACTATAATATATATAT
1 ATGTTTT-AAAAACTATATATTATATATACATATTCAAAATGTTTTAAAACTATAATATATATAT
8163288 AT
65 AT
8163290 AT
1 AT
8163292 ATATATATAT
Statistics
Matches: 62, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
65 15 0.24
66 38 0.61
67 9 0.15
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (66 bp):
ATGTTTTAAAAACTATATATTATATATACATATTCAAAATGTTTTAAAACTATAATATATATATA
T
Found at i:8163247 original size:26 final size:27
Alignment explanation
Indices: 8163196--8163251 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 27
8163186 TGTTTTCAAA
8163196 ATGTTTTAAAAACTATATATTATATAT
1 ATGTTTTAAAAACTATATATTATATAT
8163223 ATGTTTTCAAAAACTATATATTATATAT
1 ATGTTTT-AAAAACTATATATTATATAT
8163251 A
1 A
8163252 CATATTCAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 7 0.25
28 21 0.75
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.46
Consensus pattern (27 bp):
ATGTTTTAAAAACTATATATTATATAT
Found at i:8163259 original size:28 final size:28
Alignment explanation
Indices: 8163203--8163261 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 28
8163193 AAAATGTTTT
** *
8163203 AAAAACTATATATTATATATATGTTTTC
1 AAAAACTATATATTATATATACATATTC
8163231 AAAAACTATATATTATATATACATATTC
1 AAAAACTATATATTATATATACATATTC
8163259 AAA
1 AAA
8163262 GTGTTTTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.49, C:0.08, G:0.02, T:0.41
Consensus pattern (28 bp):
AAAAACTATATATTATATATACATATTC
Found at i:8163285 original size:2 final size:2
Alignment explanation
Indices: 8163274--8163313 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
8163264 GTTTTAAAAC
8163274 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8163314 TCAAAAAAAG
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8163894 original size:50 final size:45
Alignment explanation
Indices: 8163816--8163946 Score: 127
Period size: 46 Copynumber: 2.8 Consensus size: 45
8163806 CCATCAAGTC
* **
8163816 TCAATATTCCCAATGCTTTCCAGGCTTCTAAACAACATATTGACTCAAGA
1 TCAATATTCCC-ATGCTCTCCAACCTTCTAAACAACATATT-A---AAGA
** *
8163866 TCAATATTCTCCATGCTCTCCAACCTTCTAAACAGTATATTAAGGA
1 TCAATATTC-CCATGCTCTCCAACCTTCTAAACAACATATTAAAGA
* *
8163912 TCAACATTCCCCATACTCTCCAACCTTCTAAACAA
1 TCAATATT-CCCATGCTCTCCAACCTTCTAAACAA
8163947 TTGAGTGACT
Statistics
Matches: 70, Mismatches: 9, Indels: 8
0.80 0.10 0.09
Matches are distributed among these distances:
46 33 0.47
47 1 0.01
49 1 0.01
50 33 0.47
51 2 0.03
ACGTcount: A:0.34, C:0.30, G:0.07, T:0.30
Consensus pattern (45 bp):
TCAATATTCCCATGCTCTCCAACCTTCTAAACAACATATTAAAGA
Found at i:8168516 original size:20 final size:19
Alignment explanation
Indices: 8168482--8168520 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
8168472 AAGAAACGAT
8168482 TTAACAGCGGAAGAAACAAC
1 TTAACAGCGGAAG-AACAAC
* *
8168502 TTAACAGTGGTAGAACAAC
1 TTAACAGCGGAAGAACAAC
8168521 AACCAGGATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.15
Consensus pattern (19 bp):
TTAACAGCGGAAGAACAAC
Found at i:8174179 original size:29 final size:29
Alignment explanation
Indices: 8174136--8174218 Score: 130
Period size: 29 Copynumber: 2.8 Consensus size: 29
8174126 CTCACCTAAC
*
8174136 TAAATTGATGTAAGCAATGACATCATTACT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
8174166 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
8174195 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
8174219 ATTTAGTTTG
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
29 45 0.92
30 4 0.08
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:8177606 original size:15 final size:15
Alignment explanation
Indices: 8177586--8177615 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
8177576 CTTTCTCATA
8177586 GTTGTTGTTGGAATT
1 GTTGTTGTTGGAATT
*
8177601 GTTGTTGTTGTAATT
1 GTTGTTGTTGGAATT
8177616 CCAGCCTTGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.00, G:0.30, T:0.57
Consensus pattern (15 bp):
GTTGTTGTTGGAATT
Found at i:8178946 original size:29 final size:29
Alignment explanation
Indices: 8178903--8178985 Score: 121
Period size: 29 Copynumber: 2.8 Consensus size: 29
8178893 CTCACCTAAC
*
8178903 TAAATTGATGTAAGCAATGACATCATTACT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
8178933 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
* *
8178962 TAAATGGTGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
8178986 ATTTAGTTTG
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
29 44 0.92
30 4 0.08
ACGTcount: A:0.41, C:0.11, G:0.16, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:8181894 original size:26 final size:26
Alignment explanation
Indices: 8181865--8181922 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 26
8181855 ACATAAAAGA
*
8181865 AAGAAAGGGAGAAGAGATTGCAGCCG
1 AAGAAAGGGAGAAGAGAGTGCAGCCG
* *
8181891 AAGAAAGGGAGAAGATAGTGTAGCCG
1 AAGAAAGGGAGAAGAGAGTGCAGCCG
8181917 -AGAAAG
1 AAGAAAG
8181923 AAAGAAAGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 6 0.21
26 23 0.79
ACGTcount: A:0.45, C:0.09, G:0.38, T:0.09
Consensus pattern (26 bp):
AAGAAAGGGAGAAGAGAGTGCAGCCG
Found at i:8182098 original size:39 final size:38
Alignment explanation
Indices: 8182040--8182115 Score: 100
Period size: 39 Copynumber: 2.0 Consensus size: 38
8182030 TTAGTTTAGG
*
8182040 GTTTAGGTTAAAACAAAAATCAGTTAATTAGTTTGTTA
1 GTTTAGGTTAAAACAAAAATCAGTTAATTAGTATGTTA
* *
8182078 GTTTAGGGTTAATAA-AAAAATTATTTAATTAGTATGTT
1 GTTTA-GGTTAA-AACAAAAATCAGTTAATTAGTATGTT
8182116 TGATAGTTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
38 5 0.15
39 26 0.79
40 2 0.06
ACGTcount: A:0.39, C:0.03, G:0.16, T:0.42
Consensus pattern (38 bp):
GTTTAGGTTAAAACAAAAATCAGTTAATTAGTATGTTA
Found at i:8182192 original size:43 final size:45
Alignment explanation
Indices: 8182132--8182218 Score: 126
Period size: 43 Copynumber: 2.0 Consensus size: 45
8182122 TTATATAGTT
*
8182132 AAAAATAATTAATTAGTTTGTTTT-GTT-ATTCGTT-AGTTATAA
1 AAAAATAATTAATTAGTTTGTTTTAGTTAATTAGTTAAGTTATAA
*
8182174 AAAAATTATTTAATTAGTTTGTTTTAGTTAATTAGTTAAGTTATA
1 AAAAA-TAATTAATTAGTTTGTTTTAGTTAATTAGTTAAGTTATA
8182219 TTAGTTTGTT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
42 5 0.13
43 18 0.46
44 3 0.08
45 6 0.15
46 7 0.18
ACGTcount: A:0.37, C:0.01, G:0.11, T:0.51
Consensus pattern (45 bp):
AAAAATAATTAATTAGTTTGTTTTAGTTAATTAGTTAAGTTATAA
Found at i:8182195 original size:38 final size:37
Alignment explanation
Indices: 8182054--8182196 Score: 101
Period size: 39 Copynumber: 3.6 Consensus size: 37
8182044 AGGTTAAAAC
* * *
8182054 AAAAATCAGTTAATTAGTTTGTTAGT-TTAGGGTTAATAA
1 AAAAATTATTTAATTAGTTTGTTATTGTTA--GTT-ATAA
* *
8182093 AAAAATTATTTAATTAGTATGTTTGATAGTTA-TATAGTTAA
1 AAAAATTATTTAATTAGTTTG-TT-ATTGTTAGT-TA--TAA
* * *
8182134 AAATAATTAATTAGTTTGTTTTGTTATTCGTTAGTTATAA
1 AAA-AATTATTTAATTAG-TTTGTTATT-GTTAGTTATAA
8182174 AAAAATTATTTAATTAGTTTGTT
1 AAAAATTATTTAATTAGTTTGTT
8182197 TTAGTTAATT
Statistics
Matches: 81, Mismatches: 13, Indels: 21
0.70 0.11 0.18
Matches are distributed among these distances:
38 6 0.07
39 31 0.38
40 9 0.11
41 9 0.11
42 22 0.27
43 4 0.05
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.48
Consensus pattern (37 bp):
AAAAATTATTTAATTAGTTTGTTATTGTTAGTTATAA
Found at i:8182410 original size:15 final size:16
Alignment explanation
Indices: 8182382--8182415 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
8182372 AAAGTTTACT
8182382 TTATAAGTTTATTATA
1 TTATAAGTTTATTATA
8182398 TTATAAG-TTATTATA
1 TTATAAGTTTATTATA
8182413 TTA
1 TTA
8182416 AATTTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (16 bp):
TTATAAGTTTATTATA
Found at i:8184671 original size:17 final size:17
Alignment explanation
Indices: 8184651--8184692 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
8184641 ATTAGTATCA
8184651 AATAATTAAATATTAAT
1 AATAATTAAATATTAAT
* *
8184668 AATAAATCAATATTAAT
1 AATAATTAAATATTAAT
8184685 AATAATTA
1 AATAATTA
8184693 GTAAATCATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (17 bp):
AATAATTAAATATTAAT
Found at i:8184841 original size:14 final size:14
Alignment explanation
Indices: 8184820--8185223 Score: 235
Period size: 14 Copynumber: 30.3 Consensus size: 14
8184810 ATAAGTAATA
8184820 ATTATTAAATCATT
1 ATTATTAAATCATT
* *
8184834 AGTATTAAATGATT
1 ATTATTAAATCATT
*
8184848 ATTA-TAAA--ATC
1 ATTATTAAATCATT
*
8184859 ATTACTAAATCATT
1 ATTATTAAATCATT
*
8184873 ATTA-TAAA--ATC
1 ATTATTAAATCATT
*
8184884 ATTACTAAATC---
1 ATTATTAAATCATT
8184895 ATTATTAAATCATT
1 ATTATTAAATCATT
*
8184909 ACTATTAAATCATT
1 ATTATTAAATCATT
*
8184923 ATTA-T-AATGATT
1 ATTATTAAATCATT
8184935 ATTATTAAATCATT
1 ATTATTAAATCATT
8184949 ATTATTAAAT-ATT
1 ATTATTAAATCATT
* *
8184962 ATTA--GAATGATT
1 ATTATTAAATCATT
*
8184974 ATTATCAAATC---
1 ATTATTAAATCATT
8184985 ATTATT--ATCATT
1 ATTATTAAATCATT
*
8184997 ATTA-T-AATGATT
1 ATTATTAAATCATT
*
8185009 ATTACTAAATCATT
1 ATTATTAAATCATT
*
8185023 ATTA-T-AATGATT
1 ATTATTAAATCATT
8185035 ATTATTAAATCATT
1 ATTATTAAATCATT
*
8185049 ATTA-T-AATGATT
1 ATTATTAAATCATT
8185061 ATTATTAAATCATT
1 ATTATTAAATCATT
* *
8185075 ACTAAATCATCAAAACATT
1 A-T---T-ATTAAATCATT
*
8185094 AAATATTAAAATCATT
1 -ATTATT-AAATCATT
*
8185110 ATTA-T-AATGATT
1 ATTATTAAATCATT
*
8185122 ATTATCAAATCATT
1 ATTATTAAATCATT
* *
8185136 ACTA-T-AATGATT
1 ATTATTAAATCATT
*
8185148 ATTATCAAATCATT
1 ATTATTAAATCATT
8185162 ATTAAATCATCAAATCATT
1 ATT--AT--T-AAATCATT
* *
8185181 AAATATTAAAT--TC
1 -ATTATTAAATCATT
8185194 ATTATTAAAT--TT
1 ATTATTAAATCATT
8185206 ATTATTAAATCATT
1 ATTATTAAATCATT
8185220 ATTA
1 ATTA
8185224 AATTATTATT
Statistics
Matches: 306, Mismatches: 41, Indels: 86
0.71 0.09 0.20
Matches are distributed among these distances:
9 3 0.01
11 31 0.10
12 97 0.32
13 23 0.08
14 108 0.35
15 10 0.03
16 11 0.04
18 3 0.01
19 17 0.06
20 3 0.01
ACGTcount: A:0.45, C:0.08, G:0.02, T:0.45
Consensus pattern (14 bp):
ATTATTAAATCATT
Found at i:8184938 original size:3 final size:3
Alignment explanation
Indices: 8184920--8185067 Score: 52
Period size: 3 Copynumber: 50.3 Consensus size: 3
8184910 CTATTAAATC
* * * * *
8184920 ATT ATT ATA ATG ATT ATT ATT A-A ATC ATT ATT ATT AAAT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT
** * * * * * * *
8184965 AGA ATG ATT ATT ATC A-A ATC ATT ATT ATC ATT ATT ATA ATG ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * * * * *
8185012 ACT A-A ATC ATT ATT ATA ATG ATT ATT ATT A-A ATC ATT ATT ATA ATG
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
8185058 ATT ATT ATT A
1 ATT ATT ATT A
8185068 AATCATTACT
Statistics
Matches: 105, Mismatches: 35, Indels: 10
0.70 0.23 0.07
Matches are distributed among these distances:
2 4 0.04
3 99 0.94
4 2 0.02
ACGTcount: A:0.42, C:0.05, G:0.04, T:0.49
Consensus pattern (3 bp):
ATT
Found at i:8184942 original size:26 final size:26
Alignment explanation
Indices: 8184820--8185075 Score: 282
Period size: 26 Copynumber: 10.2 Consensus size: 26
8184810 ATAAGTAATA
* * *
8184820 ATTATTA-AATCATTAGTATTAAATG
1 ATTATTATAATGATTATTATTAAATC
* * *
8184845 ATTATTATAA-AATCATTACTAAATC
1 ATTATTATAATGATTATTATTAAATC
* * *
8184870 ATTATTATAA-AATCATTACTAAATC
1 ATTATTATAATGATTATTATTAAATC
* *
8184895 ATTATTA-AATCATTACTATTAAATC
1 ATTATTATAATGATTATTATTAAATC
8184920 ATTATTATAATGATTATTATTAAATC
1 ATTATTATAATGATTATTATTAAATC
*
8184946 ATTATTATTAA--A-TATTATTAGAATG
1 ATTATTA-TAATGATTATTATTA-AATC
*
8184971 ATTATTATCAA--ATCATTATT--ATC
1 ATTATTAT-AATGATTATTATTAAATC
*
8184994 ATTATTATAATGATTATTACTAAATC
1 ATTATTATAATGATTATTATTAAATC
8185020 ATTATTATAATGATTATTATTAAATC
1 ATTATTATAATGATTATTATTAAATC
8185046 ATTATTATAATGATTATTATTAAATC
1 ATTATTATAATGATTATTATTAAATC
8185072 ATTA
1 ATTA
8185076 CTAAATCATC
Statistics
Matches: 203, Mismatches: 17, Indels: 21
0.84 0.07 0.09
Matches are distributed among these distances:
22 2 0.01
23 10 0.05
24 18 0.09
25 81 0.40
26 89 0.44
27 3 0.01
ACGTcount: A:0.44, C:0.07, G:0.03, T:0.46
Consensus pattern (26 bp):
ATTATTATAATGATTATTATTAAATC
Found at i:8185106 original size:87 final size:80
Alignment explanation
Indices: 8185015--8185241 Score: 265
Period size: 87 Copynumber: 2.7 Consensus size: 80
8185005 GATTATTACT
* *
8185015 AAATCATTATTATAATGATTATTATTAAATCATTATTATAATGATTATTATTAAATCATTACTAA
1 AAATCATTATTA-AAT--TTATTATCAAATCATTA-T-TAA--ATTATTATCAAATCATTACTAA
8185080 ATCATCAAAACATTAAATATTA
59 ATCATCAAAACATTAAATATTA
*
8185102 AAATCATTATTATAATGATTATTATCAAATCATTACTATAATGATTATTATCAAATCATTATTAA
1 AAATCATTATTA-AAT--TTATTATCAAATCATTA-T-TAA--ATTATTATCAAATCATTACTAA
*
8185167 ATCATCAAATCATTAAATATTA
59 ATCATCAAAACATTAAATATTA
* * *
8185189 AATTCATTATTAAATTTATTATTAAATCATTATTAAATTATTATTAAATCATT
1 AAATCATTATTAAATTTATTATCAAATCATTATTAAATTATTATCAAATCATT
8185242 TTTATGGTTA
Statistics
Matches: 132, Mismatches: 8, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
80 16 0.12
82 3 0.02
83 1 0.01
84 16 0.12
86 3 0.02
87 93 0.70
ACGTcount: A:0.46, C:0.08, G:0.02, T:0.44
Consensus pattern (80 bp):
AAATCATTATTAAATTTATTATCAAATCATTATTAAATTATTATCAAATCATTACTAAATCATCA
AAACATTAAATATTA
Found at i:8185201 original size:12 final size:12
Alignment explanation
Indices: 8185184--8185241 Score: 86
Period size: 11 Copynumber: 5.1 Consensus size: 12
8185174 AATCATTAAA
8185184 TATTAAATTCAT
1 TATTAAATTCAT
*
8185196 TATTAAATTTAT
1 TATTAAATTCAT
8185208 TATTAAA-TCAT
1 TATTAAATTCAT
8185219 TATTAAATT-AT
1 TATTAAATTCAT
8185230 TATTAAA-TCAT
1 TATTAAATTCAT
8185241 T
1 T
8185242 TTTATGGTTA
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
10 1 0.02
11 22 0.52
12 19 0.45
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (12 bp):
TATTAAATTCAT
Found at i:8185533 original size:49 final size:48
Alignment explanation
Indices: 8185428--8185618 Score: 268
Period size: 49 Copynumber: 4.0 Consensus size: 48
8185418 ATTAGTATTC
* * *
8185428 TAATTTCATTATTATTAATTATTAC--T--AATCATT-AAA-TATTAA
1 TAATTTCATTATTACTAATCATTACTATCAAATCATTAAAATTAATAA
*
8185470 TAATTTCATTATTACTAAGCATTACTATCAAATCATTAAGAATTAATAA
1 TAATTTCATTATTACTAATCATTACTATCAAATCATTAA-AATTAATAA
*
8185519 TAATTTCATTATTACTAATCATTATTATCAAATCATTAAAAATTAATAA
1 TAATTTCATTATTACTAATCATTACTATCAAATCATT-AAAATTAATAA
8185568 TAATTTCATTATTACTAATCATTACTATCAAATCATTAAATATTAATAA
1 TAATTTCATTATTACTAATCATTACTATCAAATCATTAAA-ATTAATAA
8185617 TA
1 TA
8185619 GATGGGTGCC
Statistics
Matches: 133, Mismatches: 7, Indels: 11
0.88 0.05 0.07
Matches are distributed among these distances:
42 22 0.17
44 1 0.01
46 7 0.05
47 1 0.01
48 5 0.04
49 95 0.71
50 2 0.02
ACGTcount: A:0.45, C:0.10, G:0.01, T:0.43
Consensus pattern (48 bp):
TAATTTCATTATTACTAATCATTACTATCAAATCATTAAAATTAATAA
Found at i:8185542 original size:13 final size:14
Alignment explanation
Indices: 8185524--8185556 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
8185514 AATAATAATT
*
8185524 TCATTATTA-CTAA
1 TCATTATTATCAAA
8185537 TCATTATTATCAAA
1 TCATTATTATCAAA
8185551 TCATTA
1 TCATTA
8185557 AAAATTAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.39, C:0.15, G:0.00, T:0.45
Consensus pattern (14 bp):
TCATTATTATCAAA
Found at i:8188965 original size:17 final size:17
Alignment explanation
Indices: 8188907--8188967 Score: 52
Period size: 17 Copynumber: 3.4 Consensus size: 17
8188897 ACAATATAAA
*
8188907 TTAAACAAAATATTTTT
1 TTAAACACAATATTTTT
*
8188924 TTAAA-ACAATACTAAATACTT
1 TTAAACACAATA-T---T-TTT
8188945 TTAAACACAATATTTTT
1 TTAAACACAATATTTTT
8188962 TTAAAC
1 TTAAAC
8188968 GGAAATTATC
Statistics
Matches: 35, Mismatches: 3, Indels: 12
0.70 0.06 0.24
Matches are distributed among these distances:
16 5 0.14
17 14 0.40
18 1 0.03
20 1 0.03
21 8 0.23
22 6 0.17
ACGTcount: A:0.48, C:0.11, G:0.00, T:0.41
Consensus pattern (17 bp):
TTAAACACAATATTTTT
Found at i:8189425 original size:42 final size:47
Alignment explanation
Indices: 8189369--8189481 Score: 137
Period size: 50 Copynumber: 2.4 Consensus size: 47
8189359 GTTTAAAGAC
*
8189369 ACTAACAAATTAATTAATATTTTTT-TAT-AT-T-TA-ATAACTTAA
1 ACTAACAAACTAATTAATATTTTTTATATAATATATATATAACTTAA
*
8189411 ACTAAGAAACTAATTAACTAATTTTTTATATAATATAATATATAACTTAA
1 ACTAACAAACTAATTAA-T-ATTTTTTATATAATAT-ATATATAACTTAA
8189461 ACTAACAAACTAATATAATAT
1 ACTAACAAACTAAT-TAATAT
8189482 AACTTAAAAT
Statistics
Matches: 59, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
42 15 0.25
43 1 0.02
44 7 0.12
45 3 0.05
46 2 0.03
47 1 0.02
49 4 0.07
50 23 0.39
51 3 0.05
ACGTcount: A:0.50, C:0.09, G:0.01, T:0.41
Consensus pattern (47 bp):
ACTAACAAACTAATTAATATTTTTTATATAATATATATATAACTTAA
Found at i:8189481 original size:28 final size:30
Alignment explanation
Indices: 8189441--8189503 Score: 103
Period size: 28 Copynumber: 2.2 Consensus size: 30
8189431 ATTTTTTATA
*
8189441 TAATATAATATATAACTTAAACTAACAAAC
1 TAATATAATATATAACTTAAAATAACAAAC
8189471 TAATAT-A-ATATAACTTAAAATAACAAAC
1 TAATATAATATATAACTTAAAATAACAAAC
8189499 TAATA
1 TAATA
8189504 ATTTATACTA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 25 0.78
29 1 0.03
30 6 0.19
ACGTcount: A:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (30 bp):
TAATATAATATATAACTTAAAATAACAAAC
Found at i:8189510 original size:28 final size:28
Alignment explanation
Indices: 8189445--8189510 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
8189435 TTTATATAAT
*
8189445 ATAATATATAACTTAAACTAACAAACTA
1 ATAATATATAACTTAAAATAACAAACTA
8189473 AT-ATAATATAACTTAAAATAACAAACTA
1 ATAAT-ATATAACTTAAAATAACAAACTA
*
8189501 ATAATTTATA
1 ATAATATATA
8189511 CTAACAAACT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 2 0.06
28 30 0.88
29 2 0.06
ACGTcount: A:0.58, C:0.11, G:0.00, T:0.32
Consensus pattern (28 bp):
ATAATATATAACTTAAAATAACAAACTA
Found at i:8189904 original size:21 final size:21
Alignment explanation
Indices: 8189879--8189925 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
8189869 CGCTGCAATA
8189879 ATGCAGCTATGGATGCAACGC
1 ATGCAGCTATGGATGCAACGC
8189900 ATGCAGCTATGGATGCAACGC
1 ATGCAGCTATGGATGCAACGC
8189921 ATGCA
1 ATGCA
8189926 TGAGGGATGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.30, C:0.23, G:0.28, T:0.19
Consensus pattern (21 bp):
ATGCAGCTATGGATGCAACGC
Found at i:8191239 original size:29 final size:29
Alignment explanation
Indices: 8191196--8191278 Score: 130
Period size: 29 Copynumber: 2.8 Consensus size: 29
8191186 CTCACCTAAC
8191196 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
* *
8191226 TAAATGATGTAAGCAATGACTTCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
8191255 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
8191279 ATTTAGTTTG
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
29 44 0.92
30 4 0.08
ACGTcount: A:0.42, C:0.10, G:0.14, T:0.34
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:8195998 original size:29 final size:29
Alignment explanation
Indices: 8195955--8196037 Score: 130
Period size: 29 Copynumber: 2.8 Consensus size: 29
8195945 CTCACCTAAC
8195955 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
* *
8195985 TAAATGATGTAAGCAATGACTTCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
8196014 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
8196038 ATTTAGTTTG
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
29 44 0.92
30 4 0.08
ACGTcount: A:0.42, C:0.10, G:0.14, T:0.34
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:8197199 original size:58 final size:58
Alignment explanation
Indices: 8197135--8197250 Score: 232
Period size: 58 Copynumber: 2.0 Consensus size: 58
8197125 TCAACTTTTG
8197135 AGTTTGGGCATTTTATGATAAGCAAATTGAAGTCTTATGTAGGATCCAAGAGTCCAAT
1 AGTTTGGGCATTTTATGATAAGCAAATTGAAGTCTTATGTAGGATCCAAGAGTCCAAT
8197193 AGTTTGGGCATTTTATGATAAGCAAATTGAAGTCTTATGTAGGATCCAAGAGTCCAAT
1 AGTTTGGGCATTTTATGATAAGCAAATTGAAGTCTTATGTAGGATCCAAGAGTCCAAT
8197251 GGTTAGAGGG
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.33
Consensus pattern (58 bp):
AGTTTGGGCATTTTATGATAAGCAAATTGAAGTCTTATGTAGGATCCAAGAGTCCAAT
Found at i:8199621 original size:23 final size:23
Alignment explanation
Indices: 8199591--8199644 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
8199581 ACTAAATGCC
* *
8199591 TAAACGAACATGATCGCGAATAT
1 TAAACGAACATGATCGAGAACAT
*
8199614 TAAACGAACATGTTCGAGAACAT
1 TAAACGAACATGATCGAGAACAT
8199637 TAAACGAA
1 TAAACGAA
8199645 TGAACACGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.46, C:0.17, G:0.17, T:0.20
Consensus pattern (23 bp):
TAAACGAACATGATCGAGAACAT
Found at i:8204771 original size:111 final size:111
Alignment explanation
Indices: 8204496--8205085 Score: 788
Period size: 111 Copynumber: 5.3 Consensus size: 111
8204486 AACTTTCAAC
* ** * * *
8204496 AAAGTATCGATACATGTACAAAAAGTATAGATACTTTCAACATATCAGGTAGCTCTTTACCGGTT
1 AAAGTATCGATACATTTTTATAAAGTATCGATACTTTCAACATATCCGGTAGCTCTTTACCGGTT
* *
8204561 TTGTCATAATGAAATTGGTTTTGTCATATTTTTACCTGTTATATTGT
66 TTGTCATAATGAAACTGATTTTGTCATATTTTTACCT-TTATATTGT
* * *
8204608 AAAGTATCGATACATTTTTATAAAATATCGATACTTTCAACATATCCAGTAGCTCTTTACTGGTT
1 AAAGTATCGATACATTTTTATAAAGTATCGATACTTTCAACATATCCGGTAGCTCTTTACCGGTT
* *
8204673 TTGTCATAATGAAACTGATTTTATCATATTTTTACCTATATATTGT
66 TTGTCATAATGAAACTGATTTTGTCATATTTTTACCTTTATATTGT
**
8204719 AAAGTATCGATACATTTTTATAAAGTATCGATACTTTCAACATATCTTGTAGCTCTTTACCGGTT
1 AAAGTATCGATACATTTTTATAAAGTATCGATACTTTCAACATATCCGGTAGCTCTTTACCGGTT
* * *
8204784 TTGTCATAATAAAACTGGTTTTGTCATATTTTTAACTTTAATATTGT
66 TTGTCATAATGAAACTGATTTTGTCATATTTTTACCTTT-ATATTGT
* * * * *
8204831 TATGTATCGATACATTTTTATAAAGTATCGATACTTTCAACATATCCGGTAGTTTTTTACCGATT
1 AAAGTATCGATACATTTTTATAAAGTATCGATACTTTCAACATATCCGGTAGCTCTTTACCGGTT
*
8204896 TTGTCATAATGAAACT-AATTTGTCATATTTTTACCTTTTATATTGT
66 TTGTCATAATGAAACTGATTTTGTCATATTTTTACC-TTTATATTGT
* * * ** * * * *
8204942 AAAATATTGATACATGTACAAAAAATATCGATACTTTTAACATAT-CTGTAGCTCTTTACCGGTT
1 AAAGTATCGATACATTTTTATAAAGTATCGATACTTTCAACATATCCGGTAGCTCTTTACCGGTT
* * *
8205006 TTGTCATAATAAAACTGATTTTTTCATATTTTTACCTGCTATATTGT
66 TTGTCATAATGAAACTGATTTTGTCATATTTTTACCT-TTATATTGT
* *
8205053 TATGTATCGATACATTTTTATAAAGTATCGATA
1 AAAGTATCGATACATTTTTATAAAGTATCGATA
8205086 TTTTATAGGC
Statistics
Matches: 414, Mismatches: 60, Indels: 9
0.86 0.12 0.02
Matches are distributed among these distances:
110 31 0.07
111 210 0.51
112 173 0.42
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.43
Consensus pattern (111 bp):
AAAGTATCGATACATTTTTATAAAGTATCGATACTTTCAACATATCCGGTAGCTCTTTACCGGTT
TTGTCATAATGAAACTGATTTTGTCATATTTTTACCTTTATATTGT
Found at i:8204900 original size:223 final size:222
Alignment explanation
Indices: 8204496--8205085 Score: 887
Period size: 223 Copynumber: 2.6 Consensus size: 222
8204486 AACTTTCAAC
* *
8204496 AAAGTATCGATACATGTACAAAAAGTATAGATACTTTCAACATATCAGGTAGCTCTTTACCGGTT
1 AAAGTATCGATACATGTACAAAAAGTATCGATACTTTCAACATATC-TGTAGCTCTTTACCGGTT
* * * *
8204561 TTGTCATAATGAAATTGGTTTTGTCATATTTTTACCTGTTATATTGTAAAGTATCGATACATTTT
65 TTGTCATAATAAAACTGGTTTTGTCATATTTTTACCTGTTATATTGTTATGTATCGATACATTTT
* * *
8204626 TATAAAATATCGATACTTTCAACATATCCAGTAGCTCTTTACTGGTTTTGTCATAATGAAACTGA
130 TATAAAGTATCGATACTTTCAACATATCCAGTAGCTCTTTACCGATTTTGTCATAATGAAACT-A
*
8204691 TTTTATCATATTTTTACC-TATATATTGT
194 ATTTATCATATTTTTACCTTATATATTGT
* ** *
8204719 AAAGTATCGATACATTTTTATAAAGTATCGATACTTTCAACATATCTTGTAGCTCTTTACCGGTT
1 AAAGTATCGATACATGTACAAAAAGTATCGATACTTTCAACATATC-TGTAGCTCTTTACCGGTT
*
8204784 TTGTCATAATAAAACTGGTTTTGTCATATTTTTAACT-TTAATATTGTTATGTATCGATACATTT
65 TTGTCATAATAAAACTGGTTTTGTCATATTTTTACCTGTT-ATATTGTTATGTATCGATACATTT
* * *
8204848 TTATAAAGTATCGATACTTTCAACATATCCGGTAGTTTTTTACCGATTTTGTCATAATGAAACTA
129 TTATAAAGTATCGATACTTTCAACATATCCAGTAGCTCTTTACCGATTTTGTCATAATGAAACTA
* *
8204913 ATTTGTCATATTTTTACCTTTTATATTGT
194 ATTTATCATATTTTTACCTTATATATTGT
* * * *
8204942 AAAATATTGATACATGTACAAAAAATATCGATACTTTTAACATATCTGTAGCTCTTTACCGGTTT
1 AAAGTATCGATACATGTACAAAAAGTATCGATACTTTCAACATATCTGTAGCTCTTTACCGGTTT
* * *
8205007 TGTCATAATAAAACTGATTTTTTCATATTTTTACCTGCTATATTGTTATGTATCGATACATTTTT
66 TGTCATAATAAAACTGGTTTTGTCATATTTTTACCTGTTATATTGTTATGTATCGATACATTTTT
8205072 ATAAAGTATCGATA
131 ATAAAGTATCGATA
8205086 TTTTATAGGC
Statistics
Matches: 331, Mismatches: 33, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
222 111 0.34
223 220 0.66
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.43
Consensus pattern (222 bp):
AAAGTATCGATACATGTACAAAAAGTATCGATACTTTCAACATATCTGTAGCTCTTTACCGGTTT
TGTCATAATAAAACTGGTTTTGTCATATTTTTACCTGTTATATTGTTATGTATCGATACATTTTT
ATAAAGTATCGATACTTTCAACATATCCAGTAGCTCTTTACCGATTTTGTCATAATGAAACTAAT
TTATCATATTTTTACCTTATATATTGT
Found at i:8205314 original size:73 final size:73
Alignment explanation
Indices: 8205171--8205416 Score: 345
Period size: 73 Copynumber: 3.3 Consensus size: 73
8205161 CAACATATCT
* * *
8205171 GGTAGGTAGTTTAATGTAATAAGTAGCGCCTATTTTTTTTTACCGTTTACATTATTAGCAACCTT
1 GGTAGGTATTTTAATGTAATAGGTAGCG-CTATTTTTTTTTACCGTTTACATTATTAACAACCTT
8205236 CAAAAAAACC
65 -AAAAAAACC
* *
8205246 GGTAGGTATTTTAATATAATAGGTAGCGCTA-TTTTTTTTACCTTTTACATTATTAACAACCTT-
1 GGTAGGTATTTTAATGTAATAGGTAGCGCTATTTTTTTTTACCGTTTACATTATTAACAACCTTA
8205309 AAAAAACC
66 AAAAAACC
*
8205317 GGTAGCTATTTTAATGTAATAGGTAGAAC-CTATTTTTTTTTACCGTTTACATTATTAACAACCT
1 GGTAGGTATTTTAATGTAATAGGTAG--CGCTATTTTTTTTTACCGTTTACATTATTAACAACCT
*
8205381 TAAAAAAAATC
64 T-AAAAAAACC
* *
8205392 AGTATGTATTTTAATGTAATAGGTA
1 GGTAGGTATTTTAATGTAATAGGTA
8205417 ATTTAAATTT
Statistics
Matches: 154, Mismatches: 12, Indels: 10
0.88 0.07 0.06
Matches are distributed among these distances:
71 32 0.21
72 3 0.02
73 62 0.40
74 3 0.02
75 54 0.35
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.40
Consensus pattern (73 bp):
GGTAGGTATTTTAATGTAATAGGTAGCGCTATTTTTTTTTACCGTTTACATTATTAACAACCTTA
AAAAAACC
Found at i:8205783 original size:135 final size:135
Alignment explanation
Indices: 8205540--8205828 Score: 470
Period size: 135 Copynumber: 2.1 Consensus size: 135
8205530 AATAATGTGC
* * * * * *
8205540 AACCTATTATGTTACATAAGCGCTATCTAATATGTTATTATGCTTGATAATGTTTCCAGTAATTA
1 AACCTATTTTATTATATAAGCGCTACCTAATATGTTATTATGCTTAATAATATTTCCAGTAATTA
*
8205605 ACCGGTTATGTTATCCTTGATAACATTTTAGGCGTTTAACTAATATGTTGTAATAACAAATTAAG
66 ACCGGTTATGTTATCCTTGATAACATTTTAGACGTTTAACTAATATGTTGTAATAACAAATTAAG
8205670 TAATT
131 TAATT
* *
8205675 AACCTATTTTATTATATAAGCGTTACCTAATATGTTATTGTGCTTAATAATATTTCCAGTAATTA
1 AACCTATTTTATTATATAAGCGCTACCTAATATGTTATTATGCTTAATAATATTTCCAGTAATTA
* *
8205740 ACCGGTTATGTTATCCTTGGTAACATTTTAGACGTTTACCTAATATGTTGTAATAACAAATTAAG
66 ACCGGTTATGTTATCCTTGATAACATTTTAGACGTTTAACTAATATGTTGTAATAACAAATTAAG
8205805 TAATT
131 TAATT
*
8205810 AATCTATTTTATTATATAA
1 AACCTATTTTATTATATAA
8205829 ACGATATCTA
Statistics
Matches: 142, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
135 142 1.00
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.42
Consensus pattern (135 bp):
AACCTATTTTATTATATAAGCGCTACCTAATATGTTATTATGCTTAATAATATTTCCAGTAATTA
ACCGGTTATGTTATCCTTGATAACATTTTAGACGTTTAACTAATATGTTGTAATAACAAATTAAG
TAATT
Found at i:8207315 original size:39 final size:39
Alignment explanation
Indices: 8207250--8207328 Score: 122
Period size: 39 Copynumber: 2.0 Consensus size: 39
8207240 ACCGTTTTGG
8207250 CATCCGGTGTACCACTATCATCGTTAGACTTGGCTGCGA
1 CATCCGGTGTACCACTATCATCGTTAGACTTGGCTGCGA
** * *
8207289 CATCCGGTGTACCGTTATCCTTGTTAGACTTGGCTGCGA
1 CATCCGGTGTACCACTATCATCGTTAGACTTGGCTGCGA
8207328 C
1 C
8207329 GCATAAGCAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.18, C:0.28, G:0.24, T:0.30
Consensus pattern (39 bp):
CATCCGGTGTACCACTATCATCGTTAGACTTGGCTGCGA
Found at i:8225192 original size:2 final size:2
Alignment explanation
Indices: 8225185--8225253 Score: 65
Period size: 2 Copynumber: 35.5 Consensus size: 2
8225175 GCATTATCCA
* * *
8225185 AT AT AT AT AT AT AT AT AT AT TT GA- AT AT GA- AT CT -T AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT -AT AT AT -AT AT AT AT AT AT AT
8225226 -T AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8225254 ATCTCCAATT
Statistics
Matches: 56, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
1 4 0.07
2 51 0.91
3 1 0.02
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8226395 original size:13 final size:13
Alignment explanation
Indices: 8226368--8226404 Score: 51
Period size: 12 Copynumber: 2.9 Consensus size: 13
8226358 TAAATTTTAG
8226368 TATTTATTTAA-TT
1 TATTT-TTTAATTT
8226381 TATTTTTTAATTT
1 TATTTTTTAATTT
8226394 TA-TTTTTAATT
1 TATTTTTTAATT
8226405 AGGATTAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 14 0.61
13 9 0.39
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (13 bp):
TATTTTTTAATTT
Found at i:8227140 original size:20 final size:20
Alignment explanation
Indices: 8227117--8227163 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
8227107 GTTTCCAAAT
8227117 TCGCAACGCGAATCTGTAAA
1 TCGCAACGCGAATCTGTAAA
*
8227137 TCGCAACGCGAATTTGTAAA
1 TCGCAACGCGAATCTGTAAA
8227157 TCGCAAC
1 TCGCAAC
8227164 ACAGAAGTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.21
Consensus pattern (20 bp):
TCGCAACGCGAATCTGTAAA
Found at i:8227176 original size:60 final size:61
Alignment explanation
Indices: 8227112--8227256 Score: 208
Period size: 60 Copynumber: 2.4 Consensus size: 61
8227102 ACCCAGTTTC
**
8227112 CAAATTCGCAACGCGAATCTGT-AAA-TCGCAACGCGAATTTGTAAATCGCAACACAGAAGT
1 CAAATTCGCAACGCGAA-AAGTCAAATTCGCAACGCGAATTTGTAAATCGCAACACAGAAGT
* * *
8227172 CAAATTCGCAACAC-AAAAGTCAAATTCGCAACGTGAATTTGTAAATCGCAACACATAAGT
1 CAAATTCGCAACGCGAAAAGTCAAATTCGCAACGCGAATTTGTAAATCGCAACACAGAAGT
8227232 CAAATTCGCAACGCG-AAAGTCAAAT
1 CAAATTCGCAACGCGAAAAGTCAAAT
8227257 GTTTTTAAGC
Statistics
Matches: 76, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
58 2 0.03
59 5 0.07
60 69 0.91
ACGTcount: A:0.41, C:0.23, G:0.16, T:0.20
Consensus pattern (61 bp):
CAAATTCGCAACGCGAAAAGTCAAATTCGCAACGCGAATTTGTAAATCGCAACACAGAAGT
Found at i:8227180 original size:20 final size:20
Alignment explanation
Indices: 8227157--8227256 Score: 91
Period size: 20 Copynumber: 5.0 Consensus size: 20
8227147 AATTTGTAAA
8227157 TCGCAACACAGAAGTCAAAT
1 TCGCAACACAGAAGTCAAAT
*
8227177 TCGCAACACAAAAGTCAAAT
1 TCGCAACACAGAAGTCAAAT
**
8227197 TCGCAAC-GTGAATTTGT-AAA-
1 TCGCAACACAGAA---GTCAAAT
*
8227217 TCGCAACACATAAGTCAAAT
1 TCGCAACACAGAAGTCAAAT
*
8227237 TCGCAACGC-GAAAGTCAAAT
1 TCGCAACACAG-AAGTCAAAT
8227257 GTTTTTAAGC
Statistics
Matches: 64, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
18 2 0.03
19 5 0.08
20 50 0.78
21 5 0.08
22 2 0.03
ACGTcount: A:0.43, C:0.23, G:0.15, T:0.19
Consensus pattern (20 bp):
TCGCAACACAGAAGTCAAAT
Found at i:8229343 original size:33 final size:33
Alignment explanation
Indices: 8229301--8229375 Score: 150
Period size: 33 Copynumber: 2.3 Consensus size: 33
8229291 ACACCCGGAG
8229301 CCATCACCTGATCGAGCCTCTTCTCCACCTCCA
1 CCATCACCTGATCGAGCCTCTTCTCCACCTCCA
8229334 CCATCACCTGATCGAGCCTCTTCTCCACCTCCA
1 CCATCACCTGATCGAGCCTCTTCTCCACCTCCA
8229367 CCATCACCT
1 CCATCACCT
8229376 ATTCCATCAC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.19, C:0.49, G:0.08, T:0.24
Consensus pattern (33 bp):
CCATCACCTGATCGAGCCTCTTCTCCACCTCCA
Found at i:8229514 original size:21 final size:21
Alignment explanation
Indices: 8229490--8229539 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
8229480 GTTAGGGGAA
*
8229490 TTACGTGATGAGGTCGGTGCT
1 TTACGTGATGAGGTCGGTACT
*
8229511 TTACGTCATGAGGTCGGTACT
1 TTACGTGATGAGGTCGGTACT
8229532 TTACGTGA
1 TTACGTGA
8229540 AGATAATGGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.18, C:0.16, G:0.32, T:0.34
Consensus pattern (21 bp):
TTACGTGATGAGGTCGGTACT
Found at i:8229996 original size:21 final size:21
Alignment explanation
Indices: 8229942--8230040 Score: 110
Period size: 21 Copynumber: 4.7 Consensus size: 21
8229932 GATGCACCTA
*
8229942 TCATCATTCAAGAGGCGCCTC
1 TCATCATTCAAGAGGCCCCTC
* *
8229963 TTATCGTTCAAGAGGCCCCTC
1 TCATCATTCAAGAGGCCCCTC
*
8229984 TCATCA-TCGAAGAAGCCCCTC
1 TCATCATTC-AAGAGGCCCCTC
* * *
8230005 CCACCATTCAAGAGGCCCCTA
1 TCATCATTCAAGAGGCCCCTC
*
8230026 TCATCGTTCAAGAGG
1 TCATCATTCAAGAGG
8230041 TCCTGCTCGT
Statistics
Matches: 63, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
20 2 0.03
21 59 0.94
22 2 0.03
ACGTcount: A:0.25, C:0.34, G:0.18, T:0.22
Consensus pattern (21 bp):
TCATCATTCAAGAGGCCCCTC
Found at i:8231471 original size:61 final size:63
Alignment explanation
Indices: 8231369--8231508 Score: 178
Period size: 66 Copynumber: 2.2 Consensus size: 63
8231359 TTTTACATTG
* *
8231369 AAAGTTGATTTGTTTAATTGATGAGGAAATAATATTTA-TTTTT-TT-ATTAATTGATTTGTA
1 AAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTTCTTGATTAATTGATTTGTA
* * *
8231429 AAAGTTGATTTGTTTAATTTGATGTGTAAATAAGAATTATTTTTTTGCTTGTTTAATTGATTTGT
1 AAAGTTGATTTGTTTAA-TTGATGAGGAAATAAGAATTA-TTTTTT-CTTGATTAATTGATTTGT
8231494 A
63 A
*
8231495 AAATTTGATTTGTT
1 AAAGTTGATTTGTT
8231509 GTTTCTAAAA
Statistics
Matches: 68, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
60 17 0.25
61 17 0.25
63 5 0.07
65 2 0.03
66 27 0.40
ACGTcount: A:0.31, C:0.01, G:0.16, T:0.53
Consensus pattern (63 bp):
AAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTTCTTGATTAATTGATTTGTA
Found at i:8231630 original size:34 final size:34
Alignment explanation
Indices: 8231592--8231663 Score: 94
Period size: 34 Copynumber: 2.1 Consensus size: 34
8231582 AAAGCCAAAT
8231592 TCGCAACG-TGATTTTCG-GTTTGCGAATTTGACTA
1 TCGCAACGCTGA-TTTCGCG-TTGCGAATTTGACTA
* *
8231626 TCGCAACGCTTATTTCGCGTTGCGAATTTGACTT
1 TCGCAACGCTGATTTCGCGTTGCGAATTTGACTA
8231660 TCGC
1 TCGC
8231664 GTTGATCGCA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
34 31 0.91
35 3 0.09
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.38
Consensus pattern (34 bp):
TCGCAACGCTGATTTCGCGTTGCGAATTTGACTA
Found at i:8231897 original size:39 final size:39
Alignment explanation
Indices: 8231843--8231929 Score: 147
Period size: 39 Copynumber: 2.2 Consensus size: 39
8231833 TCAAGTTGTA
*
8231843 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
1 GATTTTGATTTCCTTTTGCTTGACACCATATGAGATTTG
* *
8231882 GATTTTTATTTCCTTTTGCTTGACACCATATGAGCTTTG
1 GATTTTGATTTCCTTTTGCTTGACACCATATGAGATTTG
8231921 GATTTTGAT
1 GATTTTGAT
8231930 GAGCATCGGA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.18, C:0.15, G:0.18, T:0.48
Consensus pattern (39 bp):
GATTTTGATTTCCTTTTGCTTGACACCATATGAGATTTG
Found at i:8232264 original size:18 final size:18
Alignment explanation
Indices: 8232241--8232277 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
8232231 CGAAATTTAT
8232241 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
8232259 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
8232277 A
1 A
8232278 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:8233100 original size:18 final size:18
Alignment explanation
Indices: 8233077--8233112 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
8233067 AAGCCGGTTG
*
8233077 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
8233095 TGATTGCGATTTTGATTT
1 TGATTGCGATTTTGATTT
8233113 CCTTTTGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.03, G:0.25, T:0.56
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:8235556 original size:12 final size:12
Alignment explanation
Indices: 8235535--8235568 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
8235525 TGTTGTGGGT
*
8235535 TTTGAGATTGTG
1 TTTGATATTGTG
8235547 TTTGATATTGTG
1 TTTGATATTGTG
*
8235559 TTTGGTATTG
1 TTTGATATTG
8235569 GAAATGTGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.29, T:0.56
Consensus pattern (12 bp):
TTTGATATTGTG
Found at i:8236157 original size:14 final size:15
Alignment explanation
Indices: 8236121--8236158 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
8236111 GAAATCATTG
8236121 AAAAATTATATAGAA
1 AAAAATTATATAGAA
*
8236136 ATAAAATTATGTA-AA
1 A-AAAATTATATAGAA
8236151 AAAAATTA
1 AAAAATTA
8236159 GAGATGGGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 7 0.33
15 4 0.19
16 10 0.48
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (15 bp):
AAAAATTATATAGAA
Found at i:8236339 original size:19 final size:19
Alignment explanation
Indices: 8236315--8236405 Score: 119
Period size: 19 Copynumber: 4.7 Consensus size: 19
8236305 ACTAAAACCT
8236315 GTTGCGAATTTGAAATTCA
1 GTTGCGAATTTGAAATTCA
8236334 GTTGCGAATTTGAAATTCA
1 GTTGCGAATTTGAAATTCA
*
8236353 GTTGCGAATTTGAAATTCTGC
1 GTTGCGAATTTGAAATTC--A
** **
8236374 GTTGCGAATTTGACTTTGT
1 GTTGCGAATTTGAAATTCA
8236393 GTTGCGAATTTGA
1 GTTGCGAATTTGA
8236406 CTATCGCGTT
Statistics
Matches: 65, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
19 50 0.77
21 15 0.23
ACGTcount: A:0.25, C:0.11, G:0.24, T:0.40
Consensus pattern (19 bp):
GTTGCGAATTTGAAATTCA
Found at i:8236397 original size:40 final size:39
Alignment explanation
Indices: 8236313--8236434 Score: 151
Period size: 40 Copynumber: 3.2 Consensus size: 39
8236303 AAACTAAAAC
* **
8236313 CTGTTGCGAATTTGAAATTC-AGTTGCGAATTTGAAATT
1 CTGTTGCGAATTTGAAATTCGCGTTGCGAATTTGACTTT
*
8236351 CAGTTGCGAATTTGAAATTCTGCGTTGCGAATTTGACTTT
1 CTGTTGCGAATTTGAAATTC-GCGTTGCGAATTTGACTTT
* *
8236391 GTGTTGCGAATTTG-ACTATCGCGTTGCGAATTTGAC-TT
1 CTGTTGCGAATTTGAAAT-TCGCGTTGCGAATTTGACTTT
8236429 CTGTTG
1 CTGTTG
8236435 GAAATTGGGT
Statistics
Matches: 73, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
38 26 0.36
39 18 0.25
40 29 0.40
ACGTcount: A:0.22, C:0.14, G:0.24, T:0.40
Consensus pattern (39 bp):
CTGTTGCGAATTTGAAATTCGCGTTGCGAATTTGACTTT
Found at i:8236406 original size:19 final size:19
Alignment explanation
Indices: 8236315--8236425 Score: 105
Period size: 19 Copynumber: 5.7 Consensus size: 19
8236305 ACTAAAACCT
* *
8236315 GTTGCGAATTTGAAATTCA
1 GTTGCGAATTTGAATTTGA
* *
8236334 GTTGCGAATTTGAAATTCA
1 GTTGCGAATTTGAATTTGA
*
8236353 GTTGCGAATTTGAAATTCTGC
1 GTTGCGAATTTG-AATT-TGA
* *
8236374 GTTGCGAATTTGACTTTGT
1 GTTGCGAATTTGAATTTGA
* * *
8236393 GTTGCGAATTTGACTATCGC
1 GTTGCGAATTTGAAT-TTGA
8236413 GTTGCGAATTTGA
1 GTTGCGAATTTGA
8236426 CTTCTGTTGG
Statistics
Matches: 82, Mismatches: 7, Indels: 5
0.87 0.07 0.05
Matches are distributed among these distances:
19 48 0.59
20 21 0.26
21 13 0.16
ACGTcount: A:0.24, C:0.13, G:0.24, T:0.39
Consensus pattern (19 bp):
GTTGCGAATTTGAATTTGA
Found at i:8236418 original size:20 final size:20
Alignment explanation
Indices: 8236353--8236427 Score: 91
Period size: 20 Copynumber: 3.8 Consensus size: 20
8236343 TTGAAATTCA
*
8236353 GTTGCGAATTTGA-AATTCTGC
1 GTTGCGAATTTGACTA-TC-GC
* *
8236374 GTTGCGAATTTGACT-TTGT
1 GTTGCGAATTTGACTATCGC
8236393 GTTGCGAATTTGACTATCGC
1 GTTGCGAATTTGACTATCGC
8236413 GTTGCGAATTTGACT
1 GTTGCGAATTTGACT
8236428 TCTGTTGGAA
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
19 16 0.34
20 18 0.38
21 13 0.28
ACGTcount: A:0.20, C:0.15, G:0.25, T:0.40
Consensus pattern (20 bp):
GTTGCGAATTTGACTATCGC
Found at i:8246040 original size:2 final size:2
Alignment explanation
Indices: 8246033--8246065 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
8246023 CCATAACAAA
8246033 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8246066 AATGAATAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8246464 original size:10 final size:10
Alignment explanation
Indices: 8246443--8246489 Score: 55
Period size: 10 Copynumber: 5.0 Consensus size: 10
8246433 TTTTGGAACA
8246443 ATTTAA-AAT
1 ATTTAATAAT
8246452 ATTTAATAAT
1 ATTTAATAAT
* *
8246462 ATTTTATAAC
1 ATTTAATAAT
8246472 ATTTAAT-A-
1 ATTTAATAAT
8246480 ATTTAATAAT
1 ATTTAATAAT
8246490 TAAACTAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
8 7 0.22
9 8 0.25
10 17 0.53
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (10 bp):
ATTTAATAAT
Found at i:8251790 original size:2 final size:2
Alignment explanation
Indices: 8251783--8251834 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
8251773 TTAACATTTC
8251783 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8251825 AT AT AT AT AT
1 AT AT AT AT AT
8251835 TAAAGTATTA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8252539 original size:20 final size:20
Alignment explanation
Indices: 8252481--8252552 Score: 72
Period size: 20 Copynumber: 3.6 Consensus size: 20
8252471 AAATAACCAA
* **
8252481 CAAATTCGCAACGCAAACTC
1 CAAATTCGCAACACAATTTC
*
8252501 CAATTTCGCAACACAATTTC
1 CAAATTCGCAACACAATTTC
* *
8252521 CAAATTCGCAACTCGATTTC
1 CAAATTCGCAACACAATTTC
**
8252541 TGAATTCGCAAC
1 CAAATTCGCAAC
8252553 GCGAATTCCT
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.35, C:0.31, G:0.10, T:0.25
Consensus pattern (20 bp):
CAAATTCGCAACACAATTTC
Found at i:8253449 original size:12 final size:12
Alignment explanation
Indices: 8253428--8253461 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
8253418 ACCACATTTC
*
8253428 CAATACCAAACA
1 CAATATCAAACA
8253440 CAATATCAAACA
1 CAATATCAAACA
*
8253452 CAATCTCAAA
1 CAATATCAAA
8253462 ACCCACAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (12 bp):
CAATATCAAACA
Found at i:8253613 original size:24 final size:24
Alignment explanation
Indices: 8253586--8253639 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
8253576 GTATTCAAAA
8253586 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* * *
8253610 TTTGATCTTGGTTAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
8253634 TTTGAT
1 TTTGAT
8253640 GATATTTTAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:8255930 original size:17 final size:17
Alignment explanation
Indices: 8255908--8255942 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
8255898 AAGCAAAAGG
*
8255908 AAATCAAAATCGCAATC
1 AAATCAAAATCCCAATC
8255925 AAATCAAAATCCCAATC
1 AAATCAAAATCCCAATC
8255942 A
1 A
8255943 CAACCGGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.54, C:0.26, G:0.03, T:0.17
Consensus pattern (17 bp):
AAATCAAAATCCCAATC
Found at i:8256216 original size:20 final size:20
Alignment explanation
Indices: 8256152--8256217 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 20
8256142 GAATTGAATT
* * *
8256152 GAAAGTCAAATTTGTAACGC
1 GAAAATCAAATTCGCAACGC
*
8256172 GAAAATCAAATTCGCAACAC
1 GAAAATCAAATTCGCAACGC
* *
8256192 AAAAATCGAATTCG-ACACGC
1 GAAAATCAAATTCGCA-ACGC
8256212 GAAAAT
1 GAAAAT
8256218 AAAAATTACA
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
19 1 0.03
20 36 0.97
ACGTcount: A:0.47, C:0.20, G:0.15, T:0.18
Consensus pattern (20 bp):
GAAAATCAAATTCGCAACGC
Found at i:8257675 original size:21 final size:21
Alignment explanation
Indices: 8257651--8257720 Score: 122
Period size: 21 Copynumber: 3.3 Consensus size: 21
8257641 GTGGATCCTC
*
8257651 AACGATGGAAGGGGCCTCTTG
1 AACGATGGGAGGGGCCTCTTG
8257672 AACGATGGGAGGGGCCTCTTG
1 AACGATGGGAGGGGCCTCTTG
*
8257693 AACGATGGGAGAGGCCTCTTG
1 AACGATGGGAGGGGCCTCTTG
8257714 AACGATG
1 AACGATG
8257721 ACAGGTGAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 47 1.00
ACGTcount: A:0.24, C:0.19, G:0.39, T:0.19
Consensus pattern (21 bp):
AACGATGGGAGGGGCCTCTTG
Found at i:8257753 original size:21 final size:21
Alignment explanation
Indices: 8257723--8257773 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
8257713 GAACGATGAC
*
8257723 AGGTGAATCCCAAACAATGGG
1 AGGTGGATCCCAAACAATGGG
** *
8257744 AGGTGGATCCTGAACAATGGT
1 AGGTGGATCCCAAACAATGGG
8257765 AGGTGGATC
1 AGGTGGATC
8257774 AGGCTTCTTC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.31, C:0.16, G:0.33, T:0.20
Consensus pattern (21 bp):
AGGTGGATCCCAAACAATGGG
Found at i:8258082 original size:21 final size:21
Alignment explanation
Indices: 8258056--8258106 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
8258046 TGAAACAATC
* * *
8258056 TCACGTAGAGTGGCTACCTCA
1 TCACGTAAAGTAGATACCTCA
8258077 TCACGTAAAGTAGATACCTCA
1 TCACGTAAAGTAGATACCTCA
*
8258098 CCACGTAAA
1 TCACGTAAA
8258107 ACACCATTGT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.22
Consensus pattern (21 bp):
TCACGTAAAGTAGATACCTCA
Found at i:8258162 original size:42 final size:44
Alignment explanation
Indices: 8258070--8258165 Score: 110
Period size: 42 Copynumber: 2.3 Consensus size: 44
8258060 GTAGAGTGGC
*
8258070 TACCTCATCACGTAAAGTAGATACCTCACCACGTAAAACACCAT
1 TACCTCATCACGTAAAATAGATACCTCACCACGTAAAACACCAT
* * * * *
8258114 T--GTCATCGCGTAAAATAGCTACCTCTCCACGT-AAAGACC-T
1 TACCTCATCACGTAAAATAGATACCTCACCACGTAAAACACCAT
8258154 TACCTCATCACG
1 TACCTCATCACG
8258166 CCATGAACCA
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
40 2 0.05
41 6 0.14
42 33 0.79
44 1 0.02
ACGTcount: A:0.33, C:0.32, G:0.11, T:0.23
Consensus pattern (44 bp):
TACCTCATCACGTAAAATAGATACCTCACCACGTAAAACACCAT
Found at i:8258206 original size:21 final size:21
Alignment explanation
Indices: 8258182--8258231 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
8258172 ACCATTGTCG
*
8258182 TCACGTAAAGTACAGACCTCA
1 TCACGTAAAGCACAGACCTCA
* *
8258203 TCACGCAAAGCACTGACCTCA
1 TCACGTAAAGCACAGACCTCA
*
8258224 GCACGTAA
1 TCACGTAA
8258232 CTCCCCTAAC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.36, C:0.32, G:0.16, T:0.16
Consensus pattern (21 bp):
TCACGTAAAGCACAGACCTCA
Found at i:8258370 original size:21 final size:21
Alignment explanation
Indices: 8258346--8258413 Score: 54
Period size: 21 Copynumber: 3.2 Consensus size: 21
8258336 GTGATGGAAT
8258346 AGGTGATGGCTCTCGGTGTCG
1 AGGTGATGGCTCTCGGTGTCG
**
8258367 AGGTGTAT---AATCGGCTTGATC-
1 AGGTG-ATGGCTCTCGG--TG-TCG
8258388 AGGTGATGGCTCTCGGTGTCG
1 AGGTGATGGCTCTCGGTGTCG
8258409 AGGTG
1 AGGTG
8258414 TATAATCGGC
Statistics
Matches: 35, Mismatches: 4, Indels: 16
0.64 0.07 0.29
Matches are distributed among these distances:
19 4 0.11
20 4 0.11
21 19 0.54
22 4 0.11
23 4 0.11
ACGTcount: A:0.15, C:0.16, G:0.40, T:0.29
Consensus pattern (21 bp):
AGGTGATGGCTCTCGGTGTCG
Found at i:8258405 original size:42 final size:42
Alignment explanation
Indices: 8258346--8258486 Score: 228
Period size: 42 Copynumber: 3.4 Consensus size: 42
8258336 GTGATGGAAT
*
8258346 AGGTGATGGCTCTCGGTGTCGAGGTGTATAATCGGCTTGATC
1 AGGTGATGGCTCTCGGTGTCGAGGTGTATAATCGGCTCGATC
8258388 AGGTGATGGCTCTCGGTGTCGAGGTGTATAATCGGCTCGATC
1 AGGTGATGGCTCTCGGTGTCGAGGTGTATAATCGGCTCGATC
* * * *
8258430 AGGTGATGGCTCTCTGTGTCGAGCTGTAGAATTGGCTCGATC
1 AGGTGATGGCTCTCGGTGTCGAGGTGTATAATCGGCTCGATC
*
8258472 AGGTGATGGATCTCG
1 AGGTGATGGCTCTCG
8258487 AAGTAGGGGG
Statistics
Matches: 92, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 92 1.00
ACGTcount: A:0.17, C:0.18, G:0.35, T:0.30
Consensus pattern (42 bp):
AGGTGATGGCTCTCGGTGTCGAGGTGTATAATCGGCTCGATC
Found at i:8260051 original size:20 final size:20
Alignment explanation
Indices: 8259984--8260041 Score: 107
Period size: 20 Copynumber: 2.9 Consensus size: 20
8259974 CTTAAAACTT
*
8259984 AAATTCGCAACACGAAAATG
1 AAATTCGCAACGCGAAAATG
8260004 AAATTCGCAACGCGAAAATG
1 AAATTCGCAACGCGAAAATG
8260024 AAATTCGCAACGCGAAAA
1 AAATTCGCAACGCGAAAA
8260042 CTAAAATCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.48, C:0.21, G:0.17, T:0.14
Consensus pattern (20 bp):
AAATTCGCAACGCGAAAATG
Found at i:8260445 original size:22 final size:22
Alignment explanation
Indices: 8260420--8260488 Score: 111
Period size: 22 Copynumber: 3.1 Consensus size: 22
8260410 GATAGAGGGG
*
8260420 GTCGTCGGATATGGGGACAAAT
1 GTCGTCGGATATGGGGACAGAT
*
8260442 GTCGTCGGATATGGGGACGGAT
1 GTCGTCGGATATGGGGACAGAT
*
8260464 GTCGTCGGAGATGGGGACAGAT
1 GTCGTCGGATATGGGGACAGAT
8260486 GTC
1 GTC
8260489 ACCGTAGAGA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.22, C:0.14, G:0.42, T:0.22
Consensus pattern (22 bp):
GTCGTCGGATATGGGGACAGAT
Found at i:8260674 original size:20 final size:20
Alignment explanation
Indices: 8260649--8260699 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
8260639 TAAATGCGCT
8260649 TTGCGAATTTGACTTCTGTG
1 TTGCGAATTTGACTTCTGTG
*
8260669 TTGCGAATTTGACTTTTGTG
1 TTGCGAATTTGACTTCTGTG
8260689 TTGCGAATTTG
1 TTGCGAATTTG
8260700 GAAAATTACG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.16, C:0.12, G:0.25, T:0.47
Consensus pattern (20 bp):
TTGCGAATTTGACTTCTGTG
Found at i:8265659 original size:23 final size:23
Alignment explanation
Indices: 8265633--8265680 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
8265623 CCTGGAAATG
8265633 GATATCCAGAGTTGAGAATGCCT
1 GATATCCAGAGTTGAGAATGCCT
8265656 GATATCCAGAGTTGAGAATGCCT
1 GATATCCAGAGTTGAGAATGCCT
8265679 GA
1 GA
8265681 AAATGGGGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (23 bp):
GATATCCAGAGTTGAGAATGCCT
Found at i:8266641 original size:20 final size:20
Alignment explanation
Indices: 8266616--8266692 Score: 127
Period size: 20 Copynumber: 3.9 Consensus size: 20
8266606 ATCTTATTCT
8266616 CTGGTAATCTTACATTCCCA
1 CTGGTAATCTTACATTCCCA
8266636 CTGGTAATCTTACATTCCCA
1 CTGGTAATCTTACATTCCCA
* *
8266656 CTGGTAATCTTACATTTCTA
1 CTGGTAATCTTACATTCCCA
*
8266676 CTAGTAATCTTACATTC
1 CTGGTAATCTTACATTC
8266693 TATAAATCAA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 53 1.00
ACGTcount: A:0.26, C:0.26, G:0.09, T:0.39
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:8270285 original size:21 final size:21
Alignment explanation
Indices: 8270246--8270286 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
8270236 TCACCATAAA
8270246 ACTAATATATAAAACAAAAAT
1 ACTAATATATAAAACAAAAAT
*
8270267 ACTAA-ATATACAAAGAAAAA
1 ACTAATATATA-AAACAAAAA
8270287 CGAAACCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.68, C:0.10, G:0.02, T:0.20
Consensus pattern (21 bp):
ACTAATATATAAAACAAAAAT
Found at i:8273006 original size:2 final size:2
Alignment explanation
Indices: 8272999--8273026 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
8272989 ATTTTCTAAT
8272999 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8273027 AGAATAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8273963 original size:25 final size:27
Alignment explanation
Indices: 8273933--8273990 Score: 75
Period size: 25 Copynumber: 2.2 Consensus size: 27
8273923 TCATCTTATA
*
8273933 TATAATATATTTTAATGAGCA-TAT-T
1 TATAATATATTTTAAGGAGCATTATGT
* *
8273958 TATAATATTTTTTAAGGAGTATTATGT
1 TATAATATATTTTAAGGAGCATTATGT
8273985 TATAAT
1 TATAAT
8273991 GTTTCATAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 18 0.64
26 3 0.11
27 7 0.25
ACGTcount: A:0.38, C:0.02, G:0.10, T:0.50
Consensus pattern (27 bp):
TATAATATATTTTAAGGAGCATTATGT
Found at i:8274218 original size:4 final size:4
Alignment explanation
Indices: 8274209--8274242 Score: 68
Period size: 4 Copynumber: 8.5 Consensus size: 4
8274199 AATAATGTAA
8274209 AATT AATT AATT AATT AATT AATT AATT AATT AA
1 AATT AATT AATT AATT AATT AATT AATT AATT AA
8274243 AAAATCACAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (4 bp):
AATT
Found at i:8274975 original size:25 final size:25
Alignment explanation
Indices: 8274947--8274994 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
8274937 GTTGAAATGA
* * *
8274947 GATATTTTAATTTTTATAGTTTTTT
1 GATAATTTAATTTTAAAAGTTTTTT
*
8274972 GATAATTTCATTTTAAAAGTTTT
1 GATAATTTAATTTTAAAAGTTTT
8274995 GGTTTTTTTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.29, C:0.02, G:0.08, T:0.60
Consensus pattern (25 bp):
GATAATTTAATTTTAAAAGTTTTTT
Found at i:8275214 original size:20 final size:20
Alignment explanation
Indices: 8275189--8275229 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
8275179 ATTAAATATA
8275189 TTAATAATTAAGATTCTAAC
1 TTAATAATTAAGATTCTAAC
8275209 TTAATAATTAAGATTCTAAC
1 TTAATAATTAAGATTCTAAC
8275229 T
1 T
8275230 AAGTTTGGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.44, C:0.10, G:0.05, T:0.41
Consensus pattern (20 bp):
TTAATAATTAAGATTCTAAC
Found at i:8280168 original size:34 final size:35
Alignment explanation
Indices: 8280105--8280202 Score: 153
Period size: 34 Copynumber: 2.7 Consensus size: 35
8280095 TTTATAATCG
8280105 AAAATATTATAAAAATAATATTTTTATTACAATAA
1 AAAATATTATAAAAATAATATTTTTATTACAATAA
*
8280140 AAAATATTATAAAAAT-ATCTTTTTATTACAATAA
1 AAAATATTATAAAAATAATATTTTTATTACAATAA
8280174 AAAATATTATAAAAAATGTAATATTTTTA
1 AAAATATTAT-AAAAA--TAATATTTTTA
8280203 GTTGCAACTT
Statistics
Matches: 57, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
34 27 0.47
35 21 0.37
37 1 0.02
38 8 0.14
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (35 bp):
AAAATATTATAAAAATAATATTTTTATTACAATAA
Found at i:8294625 original size:2 final size:2
Alignment explanation
Indices: 8294620--8294645 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
8294610 CAAAATTTAC
8294620 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
8294646 ATAGGATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8297600 original size:6 final size:6
Alignment explanation
Indices: 8297589--8297617 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
8297579 TTTATAACAA
8297589 TTAATT TTAATT TTAATT TTAATT TTAAT
1 TTAATT TTAATT TTAATT TTAATT TTAAT
8297618 ATTTTTGTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (6 bp):
TTAATT
Found at i:8298245 original size:15 final size:17
Alignment explanation
Indices: 8298227--8298268 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
8298217 GATGATGTAA
8298227 TATTATA-AAAT-TATT
1 TATTATATAAATATATT
8298242 TATTATATTAAATATATT
1 TATTATA-TAAATATATT
*
8298260 TATAATATA
1 TATTATATA
8298269 TTTAATTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 7 0.30
17 6 0.26
18 10 0.43
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TATTATATAAATATATT
Found at i:8298268 original size:20 final size:19
Alignment explanation
Indices: 8298224--8298276 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 19
8298214 TTTGATGATG
*
8298224 TAATATTATAAAATTATTTA
1 TAATA-TATTAAATTATTTA
8298244 T--TATATTAAATATATTTA
1 TAATATATTAAAT-TATTTA
*
8298262 TAATATATTTAATTA
1 TAATATATTAAATTA
8298277 ATATATTAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
17 7 0.25
18 9 0.32
19 2 0.07
20 10 0.36
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
TAATATATTAAATTATTTA
Found at i:8298278 original size:13 final size:11
Alignment explanation
Indices: 8298252--8298290 Score: 51
Period size: 11 Copynumber: 3.4 Consensus size: 11
8298242 TATTATATTA
8298252 AATATATTTAT
1 AATATATTTAT
8298263 AATATATTTAATT
1 AATATATTT-A-T
*
8298276 AATATATTAAT
1 AATATATTTAT
8298287 AATA
1 AATA
8298291 AAGTTTAAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
11 14 0.56
12 2 0.08
13 9 0.36
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (11 bp):
AATATATTTAT
Found at i:8299496 original size:21 final size:23
Alignment explanation
Indices: 8299460--8299502 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 23
8299450 TATATATATA
8299460 TATATAATTTTATTTTTAAATTT
1 TATATAATTTTATTTTTAAATTT
8299483 TATATAA-TTT-TTTTTAAATT
1 TATATAATTTTATTTTTAAATT
8299503 ATCAGATTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 10 0.50
22 3 0.15
23 7 0.35
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (23 bp):
TATATAATTTTATTTTTAAATTT
Found at i:8307755 original size:110 final size:110
Alignment explanation
Indices: 8307564--8307776 Score: 408
Period size: 110 Copynumber: 1.9 Consensus size: 110
8307554 TTTTAATTAA
8307564 AAATAATATATAAATGAGTATTATTATAATTATGTCTAAATATATAATATGTAATTATAAAATTG
1 AAATAATATATAAATGAGTATTATTATAATTATGTCTAAATATATAATATGTAATTATAAAATTG
8307629 TGTTGAGTAAGATCATATTGGATATTTTTACTCTAAATAAATTTT
66 TGTTGAGTAAGATCATATTGGATATTTTTACTCTAAATAAATTTT
* *
8307674 AAATAATATATAAATGATTATTATTGTAATTATGTCTAAATATATAATATGTAATTATAAAATTG
1 AAATAATATATAAATGAGTATTATTATAATTATGTCTAAATATATAATATGTAATTATAAAATTG
8307739 TGTTGAGTAAGATCATATTGGATATTTTTACTCTAAAT
66 TGTTGAGTAAGATCATATTGGATATTTTTACTCTAAAT
8307777 TTGAATTCAA
Statistics
Matches: 101, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
110 101 1.00
ACGTcount: A:0.42, C:0.04, G:0.10, T:0.44
Consensus pattern (110 bp):
AAATAATATATAAATGAGTATTATTATAATTATGTCTAAATATATAATATGTAATTATAAAATTG
TGTTGAGTAAGATCATATTGGATATTTTTACTCTAAATAAATTTT
Done.