Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 ID=Chr13-JGI_221_v2.0
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: 58321163
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 747533 characters in sequence are not A, C, G, or T
File 117 of 199
Found at i:35691058 original size:175 final size:176
Alignment explanation
Indices: 35690757--35691150 Score: 594
Period size: 175 Copynumber: 2.2 Consensus size: 176
35690747 ATCAGTGAAG
* * * * *
35690757 ATAGTAGATCTTGCCTTCCTGCGCCGACAACGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTG
1 ATAGCAGATATTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAACCTTGCCTCCCTG
*
35690822 GGTTGCAGCGGAGCAGGTTAAAAATTACAGATCTTGCCTTTCTGCACCGACAGCAAAGCAGATCG
66 GGTTGCAGCGGAGCAGGTTAAAAATTACAGATCTTGCCTTCCTGCACCGACAGCAAAGCAGATCG
** * *
35690887 AAGACACCAGCCTTACCTCCCT-GGTTGTAGCGGAGCAGGTTAAAA
131 AAGACACCAGCCTTACCTCCCTGGGTTACAGCGAAGCAGATTAAAA
* *
35690932 ATAGCATATATTGCCTTCCTGCACCGACAGCGAAGTAGATCGAAGACACCAACCTTGCCTCCCTG
1 ATAGCAGATATTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAACCTTGCCTCCCTG
* * *
35690997 GGTTGTAGCGGAGCAGGTTAAAAA-TAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGCAGATC
66 GGTTGCAGCGGAGCAGGTTAAAAATTA-CAGATCTTGCCTTCCTGCACCGACAGCAAAGCAGATC
* *
35691061 GAAGACACTAGCCTTGCCTCCCTGGGTTACAGCGAAGCAGATTAAAA
130 GAAGACACCAGCCTTACCTCCCTGGGTTACAGCGAAGCAGATTAAAA
* *
35691108 ATAGCAGATCTTGCCTTCCTGCACCAACAGCGAAGCAGATCGA
1 ATAGCAGATATTGCCTTCCTGCACCGACAGCGAAGCAGATCGA
35691151 TGACCCCAGC
Statistics
Matches: 196, Mismatches: 21, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
174 2 0.01
175 136 0.69
176 58 0.30
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.21
Consensus pattern (176 bp):
ATAGCAGATATTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAACCTTGCCTCCCTG
GGTTGCAGCGGAGCAGGTTAAAAATTACAGATCTTGCCTTCCTGCACCGACAGCAAAGCAGATCG
AAGACACCAGCCTTACCTCCCTGGGTTACAGCGAAGCAGATTAAAA
Found at i:35691077 original size:44 final size:44
Alignment explanation
Indices: 35691017--35691150 Score: 110
Period size: 44 Copynumber: 3.0 Consensus size: 44
35691007 GAGCAGGTTA
* * *
35691017 AAAATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGCAGATCG
1 AAAACAGCAGACCTTGCCTTCCTG-ACCAACAGCGAAGCAGATCG
* * **** **
35691062 AAGACA-CTAG-CCTTGCCTCCCTGGGTTACAGCGAAGCAGATTA
1 AAAACAGC-AGACCTTGCCTTCCTGACCAACAGCGAAGCAGATCG
* *
35691105 AAAATAGCAGATCTTGCCTTCCTGCACCAACAGCGAAGCAGATCG
1 AAAACAGCAGACCTTGCCTTCCTG-ACCAACAGCGAAGCAGATCG
35691150 A
1 A
35691151 TGACCCCAGC
Statistics
Matches: 65, Mismatches: 20, Indels: 8
0.70 0.22 0.09
Matches are distributed among these distances:
43 20 0.31
44 24 0.37
45 21 0.32
ACGTcount: A:0.31, C:0.28, G:0.22, T:0.19
Consensus pattern (44 bp):
AAAACAGCAGACCTTGCCTTCCTGACCAACAGCGAAGCAGATCG
Found at i:35691145 original size:45 final size:44
Alignment explanation
Indices: 35691003--35691147 Score: 132
Period size: 45 Copynumber: 3.3 Consensus size: 44
35690993 CCTGGGTTGT
* * *
35691003 AGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGTACCGAC
1 AGCGAAGCAGATTAAAAATAGCAGATCTTGCCTTCCTG-ACCAAC
** * * * * ****
35691048 AGCGAAGCAGATCGAAGACA-CTAG-CCTTGCCTCCCTGGGTTAC
1 AGCGAAGCAGATTAAAAATAGC-AGATCTTGCCTTCCTGACCAAC
35691091 AGCGAAGCAGATTAAAAATAGCAGATCTTGCCTTCCTGCACCAAC
1 AGCGAAGCAGATTAAAAATAGCAGATCTTGCCTTCCTG-ACCAAC
35691136 AGCGAAGCAGAT
1 AGCGAAGCAGAT
35691148 CGATGACCCC
Statistics
Matches: 74, Mismatches: 22, Indels: 8
0.71 0.21 0.08
Matches are distributed among these distances:
43 20 0.27
44 24 0.32
45 30 0.41
ACGTcount: A:0.31, C:0.26, G:0.23, T:0.19
Consensus pattern (44 bp):
AGCGAAGCAGATTAAAAATAGCAGATCTTGCCTTCCTGACCAAC
Found at i:35691173 original size:88 final size:88
Alignment explanation
Indices: 35690757--35691161 Score: 607
Period size: 88 Copynumber: 4.6 Consensus size: 88
35690747 ATCAGTGAAG
* * *
35690757 ATAGTAGATCTTGCCTTCCTGCGCCGACAACGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTG
1 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTG
35690822 GGTTGCAGCGGAGCAGGTTAAAA
66 GGTTGCAGCGGAGCAGGTTAAAA
* * *
35690845 ATTA-CAGATCTTGCCTTTCTGCACCGACAGCAAAGCAGATCGAAGACACCAGCCTTACCTCCCT
1 A-TAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCT
*
35690909 -GGTTGTAGCGGAGCAGGTTAAAA
65 GGGTTGCAGCGGAGCAGGTTAAAA
* * * *
35690932 ATAGCATATATTGCCTTCCTGCACCGACAGCGAAGTAGATCGAAGACACCAACCTTGCCTCCCTG
1 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTG
*
35690997 GGTTGTAGCGGAGCAGGTTAAAA
66 GGTTGCAGCGGAGCAGGTTAAAA
* *
35691020 ATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTG
1 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTG
* * *
35691085 GGTTACAGCGAAGCAGATTAAAA
66 GGTTGCAGCGGAGCAGGTTAAAA
* * *
35691108 ATAGCAGATCTTGCCTTCCTGCACCAACAGCGAAGCAGATCGATGACCCCAGCC
1 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCC
35691162 CTATCTCCCT
Statistics
Matches: 285, Mismatches: 29, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
86 2 0.01
87 76 0.27
88 205 0.72
89 2 0.01
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.20
Consensus pattern (88 bp):
ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTG
GGTTGCAGCGGAGCAGGTTAAAA
Found at i:35691213 original size:44 final size:44
Alignment explanation
Indices: 35691161--35691279 Score: 152
Period size: 44 Copynumber: 2.7 Consensus size: 44
35691151 TGACCCCAGC
*
35691161 CCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGT-AAGT
1 CCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAAATTGTGAA-T
* * *
35691205 CTTATCTCCCTGGTCAGCAGTGGAATAAGTTGAAAATTGTGAAT
1 CCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAAATTGTGAAT
* *
35691249 CCTATCTCCCT-GAGCAACAGTGGAGTAGGTT
1 CCTATCTCCCTGGA-CAGCAGTGGAATAGGTT
35691280 ATAAATAGCA
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
43 1 0.02
44 61 0.95
45 2 0.03
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (44 bp):
CCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAAATTGTGAAT
Found at i:35691825 original size:44 final size:43
Alignment explanation
Indices: 35691774--35692153 Score: 204
Period size: 45 Copynumber: 8.7 Consensus size: 43
35691764 GATCGCATCT
35691774 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCA
* * * *
35691818 AGTCTTATC-CTCCTGAAGTTGTAGT-AAGGCAGAGTGAAGATGGCGA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGA-AGC-A
*
35691864 A-TCTTATCTCCCT-ACAGTTGCAGTGGAGCAGA-TTA-AAGCCAA
1 AGTCTTATCTCCCTGA-AGTTGCAGTGGAGCAGACTAAGAAG-C-A
* * ** * *
35691906 TAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAA-AATCA
1 -AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCA
* * * * * * * *
35691949 CAGATCTTATTTCTCTGAAGTTGCAG-AGAACAGA-T-CGCATCG
1 -AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCA
* * * * * * *
35691991 GGTCTTATCTCCCTAAAGATACAGTGGAGTAGACCCAAGAAAGCG
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CTAAG-AAGCA
*
35692036 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAATCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAG-AAGCA
* * * * *
35692081 AGTCTTATCCCCCTGAAATTGCAGTGGGGCAGACTAAATAAACA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGAAGCA
* ** * *
35692125 AATCCCATCTCCCTAAAGTTGTAGTGGAG
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAG
35692154 TGGATTAGAA
Statistics
Matches: 254, Mismatches: 61, Indels: 42
0.71 0.17 0.12
Matches are distributed among these distances:
40 17 0.07
41 7 0.03
42 7 0.03
43 10 0.04
44 104 0.41
45 105 0.41
46 4 0.02
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.26
Consensus pattern (43 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCA
Found at i:35691895 original size:45 final size:44
Alignment explanation
Indices: 35691774--35692153 Score: 201
Period size: 44 Copynumber: 8.7 Consensus size: 44
35691764 GATCGCATCT
35691774 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
* * * *
35691818 AGTCTTATC-CTCCTGAAGTTGTAGT-AAGGCAGAGTGAAG-ATGGCGA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGTA-AGC-A
* * *
35691864 A-TCTTATCTCCCT-ACAGTTGCAGTGGAGCAGATTAAAGCCAA-TA
1 AGTCTTATCTCCCTGA-AGTTGCAGTGGAGCAGACT-AAG-TAAGCA
* ** * *
35691908 A-TCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAA--AATCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
* * * * * * * *
35691949 CAGATCTTATTTCTCTGAAGTTGCAG-AGAACAGA-T-CG-CATCG
1 -AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
* * * * * * * *
35691991 GGTCTTATCTCCCTAAAGATACAGTGGAGTAGACCCAAGAAAGCG
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CTAAGTAAGCA
* *
35692036 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAATCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGTAAGCA
* * * * *
35692081 AGTCTTATCCCCCTGAAATTGCAGTGGGGCAGACTAAATAAACA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
* ** * *
35692125 AATCCCATCTCCCTAAAGTTGTAGTGGAG
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAG
35692154 TGGATTAGAA
Statistics
Matches: 255, Mismatches: 59, Indels: 44
0.71 0.16 0.12
Matches are distributed among these distances:
40 19 0.07
41 7 0.03
42 5 0.02
43 8 0.03
44 108 0.42
45 103 0.40
46 4 0.02
47 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.26
Consensus pattern (44 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
Found at i:35692018 original size:217 final size:218
Alignment explanation
Indices: 35691635--35692056 Score: 625
Period size: 217 Copynumber: 1.9 Consensus size: 218
35691625 TTTAAAAGAC
* **
35691635 TGAAGATGGCGAATCTTATCTCCCTGAAGTTGTAGTGAATTAGATTAAAGCCAATAATCCTATCT
1 TGAAGATGGCGAATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAGCCAATAATCCTATCT
**
35691700 CCCTAAAGTCGCAATGGAGTGGATTAAAATCACAGATCTTATCTCTCTGAAGTTACAGAGAGTAG
66 CCCTAAAGTCGCAATGGAGTGGATTAAAATCACAGATCTTATCTCTCTGAAGTTACAGAGAACAG
* * * * * *
35691765 ATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CTAAGTAAGCAAGTCTTATC-C
131 ATCGCATCGAGTCTTATCTCCCTAAAGATACAGTGGAGCAGACCCAAGAAAGCAAGTCTTATCTC
35691828 TCCTGAAGTTGTAGTAAGGCAGAG
196 -CCTGAAGTTGTAGTAAGGCAGAG
*
35691852 TGAAGATGGCGAATCTTATCTCCCT-ACAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATC
1 TGAAGATGGCGAATCTTATCTCCCTGA-AGTTGCAGTGAAGCAGATTAAAGCCAATAATCCTATC
* * * * *
35691916 TCCCTGAAGTTGCAGTGGAGTGGATTAAAATCACAGATCTTATTTCTCTGAAGTTGCAGAGAACA
65 TCCCTAAAGTCGCAATGGAGTGGATTAAAATCACAGATCTTATCTCTCTGAAGTTACAGAGAACA
* * *
35691981 GATCGCATCGGGTCTTATCTCCCTAAAGATACAGTGGAGTAGACCCAAGAAAGCGAGTCTTATCT
130 GATCGCATCGAGTCTTATCTCCCTAAAGATACAGTGGAGCAGACCCAAGAAAGCAAGTCTTATCT
35692046 CCCTGAAGTTG
195 CCCTGAAGTTG
35692057 CAGTGGAGCA
Statistics
Matches: 182, Mismatches: 20, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
216 1 0.01
217 153 0.84
218 27 0.15
219 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (218 bp):
TGAAGATGGCGAATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAGCCAATAATCCTATCT
CCCTAAAGTCGCAATGGAGTGGATTAAAATCACAGATCTTATCTCTCTGAAGTTACAGAGAACAG
ATCGCATCGAGTCTTATCTCCCTAAAGATACAGTGGAGCAGACCCAAGAAAGCAAGTCTTATCTC
CCTGAAGTTGTAGTAAGGCAGAG
Found at i:35692706 original size:22 final size:23
Alignment explanation
Indices: 35692678--35692722 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
35692668 ATGCAATCTT
35692678 AGATATGA-TATGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
*
35692700 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
35692723 GATTTAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.38, C:0.04, G:0.18, T:0.40
Consensus pattern (23 bp):
AGATATGATTATGTAATCTTAGA
Found at i:35692732 original size:22 final size:23
Alignment explanation
Indices: 35692688--35692732 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
35692678 AGATATGATA
*
35692688 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
35692711 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
35692733 GTAGATACCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:35697810 original size:22 final size:22
Alignment explanation
Indices: 35697780--35697822 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
35697770 ACACCAAAAC
*
35697780 AGGCTTTTAAAGGCGCTTTTTT
1 AGGCCTTTAAAGGCGCTTTTTT
**
35697802 AGGCCTTTAGCGGCGCTTTTT
1 AGGCCTTTAAAGGCGCTTTTT
35697823 AGCACCGCAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.14, C:0.19, G:0.26, T:0.42
Consensus pattern (22 bp):
AGGCCTTTAAAGGCGCTTTTTT
Found at i:35697994 original size:43 final size:42
Alignment explanation
Indices: 35697947--35698091 Score: 166
Period size: 43 Copynumber: 3.4 Consensus size: 42
35697937 AGACTAAGAG
* *
35697947 CTTTAGCGGCGTTTTTAATAGAACCGCCGCTATAGAT-TGGTGT
1 CTTTAGCGGCGTTTTT-ATAGAAGCGCCGCTATAGATCAGG-GT
* *
35697990 CTTTAGCGGCGTTTTTGTTGAAAGCGCCGCTATAGATCAGGGT
1 CTTTAGCGGCGTTTTTATAG-AAGCGCCGCTATAGATCAGGGT
* * * *
35698033 CTGTAGCGGTGTTTTTTATATAAGCGCCGCTATAGATCAGGGC
1 CTTTAGCGGCG-TTTTTATAGAAGCGCCGCTATAGATCAGGGT
*
35698076 CTTTAGCGGCGCTTTT
1 CTTTAGCGGCGTTTTT
35698092 CCCAAAAACG
Statistics
Matches: 86, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
42 6 0.07
43 72 0.84
44 8 0.09
ACGTcount: A:0.19, C:0.19, G:0.28, T:0.34
Consensus pattern (42 bp):
CTTTAGCGGCGTTTTTATAGAAGCGCCGCTATAGATCAGGGT
Found at i:35698104 original size:43 final size:43
Alignment explanation
Indices: 35698014--35698111 Score: 106
Period size: 43 Copynumber: 2.3 Consensus size: 43
35698004 TTGTTGAAAG
* * * * * * *
35698014 CGCCGCTATAGATCAGGGTCTGTAGCGGTGTTTTTTATATAAG
1 CGCCGCTATAGATCAGGGCCTGTAGCGGCGCTTTTCACAAAAA
* *
35698057 CGCCGCTATAGATCAGGGCCTTTAGCGGCGCTTTTCCCAAAAA
1 CGCCGCTATAGATCAGGGCCTGTAGCGGCGCTTTTCACAAAAA
*
35698100 CGCCGCAATAGA
1 CGCCGCTATAGA
35698112 CCCTAATCTA
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.23, C:0.24, G:0.26, T:0.27
Consensus pattern (43 bp):
CGCCGCTATAGATCAGGGCCTGTAGCGGCGCTTTTCACAAAAA
Found at i:35698104 original size:86 final size:86
Alignment explanation
Indices: 35697950--35698111 Score: 191
Period size: 86 Copynumber: 1.9 Consensus size: 86
35697940 CTAAGAGCTT
* * * **** *
35697950 TAGCGGCGTTTTTAATAGAACCGCCGCTATAGATTGGTGTCTTTAGCGGCGTTTTTGTTGAAAGC
1 TAGCGGCGTTTTTAATAGAACCGCCGCTATAGATAGGTGCCTTTAGCGGCGCTTTTCCCAAAAAC
*
35698015 GCCGCTATAGATCAGGGTCTG
66 GCCGCAATAGATCAGGGTCTG
* * * *
35698036 TAGCGGTGTTTTTTATATAAGCGCCGCTATAGATCAGG-GCCTTTAGCGGCGCTTTTCCCAAAAA
1 TAGCGGCGTTTTTAATAGAACCGCCGCTATAGAT-AGGTGCCTTTAGCGGCGCTTTTCCCAAAAA
35698100 CGCCGCAATAGA
65 CGCCGCAATAGA
35698112 CCCTAATCTA
Statistics
Matches: 62, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
86 60 0.97
87 2 0.03
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (86 bp):
TAGCGGCGTTTTTAATAGAACCGCCGCTATAGATAGGTGCCTTTAGCGGCGCTTTTCCCAAAAAC
GCCGCAATAGATCAGGGTCTG
Found at i:35698126 original size:43 final size:42
Alignment explanation
Indices: 35698079--35698322 Score: 184
Period size: 43 Copynumber: 5.6 Consensus size: 42
35698069 TCAGGGCCTT
35698079 TAGCGGCGCTTTTCCCAAAAACGCCGCAATAGACCCTAATCTA
1 TAGCGGCGCTTTTCCCAAAAACGCCGCAA-AGACCCTAATCTA
** * * * *
35698122 TAGCGGCATTTTTCCCACAAACGCTGCAATAGACCCTGATCTC
1 TAGCGGCGCTTTTCCCAAAAACGCCGCAA-AGACCCTAATCTA
* * ** * * * **
35698165 TAGCGGCGCTTCTGCCGCAAGCTCCACTAAAGACCCGGATCTA
1 TAGCGGCGCTTTTCCCAAAAACGCCGC-AAAGACCCTAATCTA
* * **
35698208 TAGCGGCGCTTAT-CCAGAAAACGCCGCTAAATACCCTTGTCTATA
1 TAGCGGCGCTTTTCCCA-AAAACGCCGC-AAAGACCCTAATC--TA
* ** * *
35698253 TAGTGGCGCTTCGCGCAAAAACGCCGTTAAAGACCCTAATCTA
1 TAGCGGCGCTTTTCCCAAAAACGCCG-CAAAGACCCTAATCTA
*
35698296 TAGCGGCGCTTTTACCAAAAACGCCGC
1 TAGCGGCGCTTTTCCCAAAAACGCCGC
35698323 TAAATTTGGT
Statistics
Matches: 154, Mismatches: 41, Indels: 13
0.74 0.20 0.06
Matches are distributed among these distances:
42 2 0.01
43 117 0.76
44 2 0.01
45 31 0.20
46 2 0.01
ACGTcount: A:0.27, C:0.32, G:0.19, T:0.22
Consensus pattern (42 bp):
TAGCGGCGCTTTTCCCAAAAACGCCGCAAAGACCCTAATCTA
Found at i:35698753 original size:21 final size:21
Alignment explanation
Indices: 35698633--35698749 Score: 180
Period size: 21 Copynumber: 5.6 Consensus size: 21
35698623 TTTGACGCTG
**
35698633 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTTTAGC
*
35698654 CTCTACTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTCGCTTTAGC
*
35698675 CTCTACTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTCGCTTTAGC
35698696 CTCTGCTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTCGCTTTAGC
* *
35698717 CTTTGCTTCCCTTGCTTTAGC
1 CTCTGCTTCCCTCGCTTTAGC
35698738 CTCTGCTTCCCT
1 CTCTGCTTCCCT
35698750 TGCTGCAGCT
Statistics
Matches: 89, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 89 1.00
ACGTcount: A:0.06, C:0.43, G:0.13, T:0.38
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTTTAGC
Found at i:35698773 original size:63 final size:63
Alignment explanation
Indices: 35698633--35698795 Score: 191
Period size: 63 Copynumber: 2.6 Consensus size: 63
35698623 TTTGACGCTG
* * * **
35698633 CTCTGCTTCCCTCGCTGCAGCCTCTACTTCCCTCGCTTTAGCCTCTACTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTCGCTGTAGCCTCTGCTTCCCTTGCTTTAGCCTCTACTTCCCTCGCTGCAGC
* * * *
35698696 CTCTGCTTCCCTCGCTTTAGCCTTTGCTTCCCTTGCTTTAGCCTCTGCTTCCCTTGCTGCAGC
1 CTCTGCTTCCCTCGCTGTAGCCTCTGCTTCCCTTGCTTTAGCCTCTACTTCCCTCGCTGCAGC
* * * * * *
35698759 TTGTTCTTCTCTCGCTGTCGCCTCTGCTTCTCTTGCT
1 CTCTGCTTCCCTCGCTGTAGCCTCTGCTTCCCTTGCT
35698796 GCCGCATCTG
Statistics
Matches: 83, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
63 83 1.00
ACGTcount: A:0.05, C:0.40, G:0.15, T:0.40
Consensus pattern (63 bp):
CTCTGCTTCCCTCGCTGTAGCCTCTGCTTCCCTTGCTTTAGCCTCTACTTCCCTCGCTGCAGC
Found at i:35698791 original size:21 final size:21
Alignment explanation
Indices: 35698633--35698788 Score: 168
Period size: 21 Copynumber: 7.4 Consensus size: 21
35698623 TTTGACGCTG
*
35698633 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGTAGC
* *
35698654 CTCTACTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTCGCTGTAGC
* *
35698675 CTCTACTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTCGCTGTAGC
*
35698696 CTCTGCTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTCGCTGTAGC
* * *
35698717 CTTTGCTTCCCTTGCTTTAGC
1 CTCTGCTTCCCTCGCTGTAGC
* *
35698738 CTCTGCTTCCCTTGCTGCAGC
1 CTCTGCTTCCCTCGCTGTAGC
* * * * *
35698759 TTGTTCTTCTCTCGCTGTCGC
1 CTCTGCTTCCCTCGCTGTAGC
35698780 CTCTGCTTC
1 CTCTGCTTC
35698789 TCTTGCTGCC
Statistics
Matches: 116, Mismatches: 19, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 116 1.00
ACGTcount: A:0.05, C:0.41, G:0.15, T:0.39
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGTAGC
Found at i:35698796 original size:21 final size:21
Alignment explanation
Indices: 35698633--35698807 Score: 111
Period size: 21 Copynumber: 8.3 Consensus size: 21
35698623 TTTGACGCTG
*
35698633 CTCTGCTTCCCTCGCTG-CAGC
1 CTCTGCTTCCCTTGCTGTC-GC
* * * *
35698654 CTCTACTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTTGCTGTCGC
* * * *
35698675 CTCTACTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTTGCTGTCGC
* * *
35698696 CTCTGCTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTTGCTGTCGC
* * *
35698717 CTTTGCTTCCCTTGCTTTAGC
1 CTCTGCTTCCCTTGCTGTCGC
35698738 CTCTGCTTCCCTTGCTG-CAGC
1 CTCTGCTTCCCTTGCTGTC-GC
* * * * *
35698759 TTGTTCTTCTCTCGCTGTCGC
1 CTCTGCTTCCCTTGCTGTCGC
* *
35698780 CTCTGCTTCTCTTGCTGCCGC
1 CTCTGCTTCCCTTGCTGTCGC
*
35698801 ATCTGCT
1 CTCTGCT
35698808 CTAAGCTGCT
Statistics
Matches: 131, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
21 130 0.99
22 1 0.01
ACGTcount: A:0.05, C:0.41, G:0.15, T:0.39
Consensus pattern (21 bp):
CTCTGCTTCCCTTGCTGTCGC
Found at i:35698863 original size:66 final size:66
Alignment explanation
Indices: 35698779--35698924 Score: 197
Period size: 66 Copynumber: 2.2 Consensus size: 66
35698769 CTCGCTGTCG
* *
35698779 CCTCTGCTTCTCTTGCTGCCGCATCTGCTCTAAGCTGCT-GCTGGAGTTCTTCATA-CTTTCGTT
1 CCTCAGCTTCTCTCGCTGCCGCATCTGCTCTAAGCTG-TAGCTGGAGTTCTTCATATCTTT-GTT
35698842 GAA
64 GAA
* * * *
35698845 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATCTTTTTTGA
1 CCTCAGCTTCTCTCGCTGCCGCATCTGCTCTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGA
35698910 A
66 A
*
35698911 CATCAGCTTCTCTC
1 CCTCAGCTTCTCTC
35698925 AATGTTGCCT
Statistics
Matches: 71, Mismatches: 7, Indels: 4
0.87 0.09 0.05
Matches are distributed among these distances:
65 1 0.01
66 66 0.93
67 4 0.06
ACGTcount: A:0.14, C:0.29, G:0.18, T:0.40
Consensus pattern (66 bp):
CCTCAGCTTCTCTCGCTGCCGCATCTGCTCTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGA
A
Found at i:35698941 original size:66 final size:66
Alignment explanation
Indices: 35698818--35698948 Score: 183
Period size: 66 Copynumber: 2.0 Consensus size: 66
35698808 CTAAGCTGCT
* ** *
35698818 GCTGGAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGTTGT
1 GCTGGAGTTCTTCATACTTTCGTTGAACATCAGCTTCTCTCAATGCTGCATCCGCTTTAAGTTGT
35698883 A
66 A
* * *
35698884 GCTGGAGTTCTTCATATCTTT-TTTGAACATCAGCTTCTCTCAATGTTGCCTCCGCTTTAAGTTG
1 GCTGGAGTTCTTCATA-CTTTCGTTGAACATCAGCTTCTCTCAATGCTGCATCCGCTTTAAGTTG
35698948 T
65 T
35698949 GTAATTTTCT
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
66 53 0.93
67 4 0.07
ACGTcount: A:0.16, C:0.24, G:0.18, T:0.41
Consensus pattern (66 bp):
GCTGGAGTTCTTCATACTTTCGTTGAACATCAGCTTCTCTCAATGCTGCATCCGCTTTAAGTTGT
A
Found at i:35702006 original size:24 final size:24
Alignment explanation
Indices: 35701974--35702026 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
35701964 AGTATTTTAT
35701974 AATATAATATTAATTTTAGATACA
1 AATATAATATTAATTTTAGATACA
* *
35701998 AATATAATATTAATTTTAGTTAGA
1 AATATAATATTAATTTTAGATACA
35702022 AATAT
1 AATAT
35702027 TATACAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.49, C:0.02, G:0.06, T:0.43
Consensus pattern (24 bp):
AATATAATATTAATTTTAGATACA
Found at i:35702672 original size:33 final size:33
Alignment explanation
Indices: 35702630--35702697 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
35702620 ATATACATAT
35702630 ATTCATACCCAACACTAATCTCATTTAACTCGA
1 ATTCATACCCAACACTAATCTCATTTAACTCGA
*
35702663 ATTCATACCCAACACTCATCTCATTTAACTCGA
1 ATTCATACCCAACACTAATCTCATTTAACTCGA
35702696 AT
1 AT
35702698 AACATAGATG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.35, C:0.31, G:0.03, T:0.31
Consensus pattern (33 bp):
ATTCATACCCAACACTAATCTCATTTAACTCGA
Found at i:35702852 original size:43 final size:42
Alignment explanation
Indices: 35702804--35702891 Score: 167
Period size: 43 Copynumber: 2.1 Consensus size: 42
35702794 TTACAAAAAT
35702804 GAATTGCCATTGATCCAAACCCAAAATGCACAAAAAAATACGG
1 GAATTGCCATTGATCCAAACCCAAAATGCAC-AAAAAATACGG
35702847 GAATTGCCATTGATCCAAACCCAAAATGCACAAAAAATACGG
1 GAATTGCCATTGATCCAAACCCAAAATGCACAAAAAATACGG
35702889 GAA
1 GAA
35702892 AGGCCTCTAG
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
42 14 0.31
43 31 0.69
ACGTcount: A:0.47, C:0.23, G:0.15, T:0.16
Consensus pattern (42 bp):
GAATTGCCATTGATCCAAACCCAAAATGCACAAAAAATACGG
Found at i:35703032 original size:17 final size:17
Alignment explanation
Indices: 35703012--35703049 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
35703002 TTAAAGTTCA
35703012 CAAGGAAGAAAAGGCTG
1 CAAGGAAGAAAAGGCTG
* *
35703029 CAAGGAAGTAGAGGCTG
1 CAAGGAAGAAAAGGCTG
35703046 CAAG
1 CAAG
35703050 TTCCTGGGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.42, C:0.13, G:0.37, T:0.08
Consensus pattern (17 bp):
CAAGGAAGAAAAGGCTG
Found at i:35703673 original size:15 final size:14
Alignment explanation
Indices: 35703641--35703680 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
35703631 AATTGGGAAA
*
35703641 TTGGGGAAAATAAT
1 TTGGGGAAAATAAC
35703655 TTGGGGAAGAATAAC
1 TTGGGGAA-AATAAC
*
35703670 TTGGGGGAAAT
1 TTGGGGAAAAT
35703681 TGGGGGAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.38, C:0.03, G:0.35, T:0.25
Consensus pattern (14 bp):
TTGGGGAAAATAAC
Found at i:35703684 original size:25 final size:22
Alignment explanation
Indices: 35703655--35703711 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 22
35703645 GGAAAATAAT
*
35703655 TTGGGGAAGAATAACTTGGGGGAAA
1 TTGGGGAA-AAGAACTT--GGGAAA
*
35703680 TTGGGGGAAAAGAAGTTGGGAAA
1 TT-GGGGAAAAGAACTTGGGAAA
35703703 TTGGGGAAA
1 TTGGGGAAA
35703712 TGAAATCGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
22 7 0.24
23 8 0.28
25 8 0.28
26 6 0.21
ACGTcount: A:0.37, C:0.02, G:0.42, T:0.19
Consensus pattern (22 bp):
TTGGGGAAAAGAACTTGGGAAA
Found at i:35703724 original size:23 final size:23
Alignment explanation
Indices: 35703674--35703727 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
35703664 AATAACTTGG
* *
35703674 GGGAAATTGGGGGAAAAGAAGTT
1 GGGAAATTGGGGGAAAAGAAATC
*
35703697 GGGAAATT-GGGGAAATGAAATC
1 GGGAAATTGGGGGAAAAGAAATC
35703719 GTGGAAATT
1 G-GGAAATT
35703728 TGACTTGGGG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 12 0.44
23 15 0.56
ACGTcount: A:0.39, C:0.02, G:0.39, T:0.20
Consensus pattern (23 bp):
GGGAAATTGGGGGAAAAGAAATC
Found at i:35704166 original size:38 final size:38
Alignment explanation
Indices: 35704118--35704194 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
35704108 AATGATAAGT
35704118 AAAAACACGCGGAACAGAAACGGCGTCGTTTTGCCAAA
1 AAAAACACGCGGAACAGAAACGGCGTCGTTTTGCCAAA
35704156 AAAAACACGCGGAACAGAAACGGCGTCGTTTTGCCAAA
1 AAAAACACGCGGAACAGAAACGGCGTCGTTTTGCCAAA
35704194 A
1 A
35704195 TTTTAAGACA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.40, C:0.23, G:0.23, T:0.13
Consensus pattern (38 bp):
AAAAACACGCGGAACAGAAACGGCGTCGTTTTGCCAAA
Found at i:35706142 original size:41 final size:41
Alignment explanation
Indices: 35706033--35706231 Score: 308
Period size: 41 Copynumber: 4.8 Consensus size: 41
35706023 NNNNNNNNNG
** * * * *
35706033 GAGCATTAGCGGCGCTTAGAGGAAAGCGCTGCTAAAGACTC
1 GAGCATTAGCGGCGCTTAGACAAAAACGCCGCTATAGACCC
*
35706074 GAAGCATTAGCGGCGCTTAGACGAAAACGCCGCTATAGACCC
1 G-AGCATTAGCGGCGCTTAGACAAAAACGCCGCTATAGACCC
* *
35706116 GAGCGTTAGCGGCGCTTAGACAAAAACGCCGTTATAGACCC
1 GAGCATTAGCGGCGCTTAGACAAAAACGCCGCTATAGACCC
35706157 GAGCATTAGCGGCGCTTAGACAAAAACGCCGCTATAGACCC
1 GAGCATTAGCGGCGCTTAGACAAAAACGCCGCTATAGACCC
35706198 GAGCATTAGCGGCGCTTAGACAAAAACGCCGCTA
1 GAGCATTAGCGGCGCTTAGACAAAAACGCCGCTA
35706232 AATGTTTAAA
Statistics
Matches: 147, Mismatches: 10, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
41 111 0.76
42 36 0.24
ACGTcount: A:0.31, C:0.27, G:0.27, T:0.16
Consensus pattern (41 bp):
GAGCATTAGCGGCGCTTAGACAAAAACGCCGCTATAGACCC
Found at i:35706217 original size:23 final size:23
Alignment explanation
Indices: 35706150--35706218 Score: 60
Period size: 23 Copynumber: 3.2 Consensus size: 23
35706140 AACGCCGTTA
35706150 TAGACCCGAGCATTAGCGGCGCT
1 TAGACCCGAGCATTAGCGGCGCT
* * *
35706173 TAGA--C-A--A-AAACGCCGCT
1 TAGACCCGAGCATTAGCGGCGCT
35706190 ATAGACCCGAGCATTAGCGGCGCT
1 -TAGACCCGAGCATTAGCGGCGCT
35706214 TAGAC
1 TAGAC
35706219 AAAAACGCCG
Statistics
Matches: 33, Mismatches: 6, Indels: 14
0.62 0.11 0.26
Matches are distributed among these distances:
17 7 0.21
18 5 0.15
20 2 0.06
21 2 0.06
23 10 0.30
24 7 0.21
ACGTcount: A:0.29, C:0.29, G:0.26, T:0.16
Consensus pattern (23 bp):
TAGACCCGAGCATTAGCGGCGCT
Found at i:35706326 original size:39 final size:40
Alignment explanation
Indices: 35706283--35706408 Score: 130
Period size: 40 Copynumber: 3.2 Consensus size: 40
35706273 GTTTTTTGTT
* *
35706283 GCGCTTTATATAAAACGCCGCTAATTC-CTATTTTTAGCG
1 GCGCTTTGTATAAAACGCCGCTAATGCTCTATTTTTAGCG
* * **
35706322 GCGCTTCCGTAT-AAACGCCGCTGATGCTCTACCTTTAGCG
1 GCGCTT-TGTATAAAACGCCGCTAATGCTCTATTTTTAGCG
** * * *
35706362 GCGCTTTGGCTAAATCGCCGCTAATGCTCTATTTTTTGTG
1 GCGCTTTGTATAAAACGCCGCTAATGCTCTATTTTTAGCG
35706402 GCGCTTT
1 GCGCTTT
35706409 TGTTCCAAAC
Statistics
Matches: 69, Mismatches: 15, Indels: 5
0.78 0.17 0.06
Matches are distributed among these distances:
39 21 0.30
40 48 0.70
ACGTcount: A:0.18, C:0.26, G:0.21, T:0.35
Consensus pattern (40 bp):
GCGCTTTGTATAAAACGCCGCTAATGCTCTATTTTTAGCG
Found at i:35708230 original size:26 final size:28
Alignment explanation
Indices: 35708201--35708252 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
35708191 TTGTTCAAAC
*
35708201 TCTTCTAAA-AAAAACTCA-AGAGAAAT
1 TCTTCAAAAGAAAAACTCAGAGAGAAAT
*
35708227 TCTTGAAAAGAAAAACTCAGAGAGAA
1 TCTTCAAAAGAAAAACTCAGAGAGAA
35708253 TTTATTAACT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 7 0.32
27 9 0.41
28 6 0.27
ACGTcount: A:0.54, C:0.13, G:0.13, T:0.19
Consensus pattern (28 bp):
TCTTCAAAAGAAAAACTCAGAGAGAAAT
Found at i:35716202 original size:26 final size:26
Alignment explanation
Indices: 35716172--35716231 Score: 93
Period size: 26 Copynumber: 2.3 Consensus size: 26
35716162 GTAGCTCCGG
35716172 AGAGCCATTAATCGGGAAGCTCACAA
1 AGAGCCATTAATCGGGAAGCTCACAA
* * *
35716198 AGAGCCTTTAATCGGGAAGCTTACGA
1 AGAGCCATTAATCGGGAAGCTCACAA
35716224 AGAGCCAT
1 AGAGCCAT
35716232 ATAACAGGAC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.18
Consensus pattern (26 bp):
AGAGCCATTAATCGGGAAGCTCACAA
Found at i:35717722 original size:23 final size:22
Alignment explanation
Indices: 35717683--35717745 Score: 56
Period size: 22 Copynumber: 2.8 Consensus size: 22
35717673 TTATGTATTT
*
35717683 ATTTATT-TTATATAATAACGAAA
1 ATTTATTATT-TAAAATAA-GAAA
*
35717706 ATTTATTATTTAAAATAATAAA
1 ATTTATTATTTAAAATAAGAAA
* **
35717728 ATTTGTTAAATAAAATAA
1 ATTTATTATTTAAAATAA
35717746 ATCAAAAGGA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
22 18 0.53
23 14 0.41
24 2 0.06
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (22 bp):
ATTTATTATTTAAAATAAGAAA
Found at i:35717731 original size:22 final size:22
Alignment explanation
Indices: 35717703--35717745 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
35717693 TATAATAACG
**
35717703 AAAATTTATTATTTAAAATAAT
1 AAAATTTATTAAATAAAATAAT
*
35717725 AAAATTTGTTAAATAAAATAA
1 AAAATTTATTAAATAAAATAA
35717746 ATCAAAAGGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (22 bp):
AAAATTTATTAAATAAAATAAT
Found at i:35723231 original size:27 final size:26
Alignment explanation
Indices: 35723182--35723237 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 26
35723172 CTATTTTTTT
* *
35723182 AATAAACACAAAAAAATTATTTAAAA
1 AATAAAAACAAAAAAAGTATTTAAAA
* *
35723208 AATAAAAATAAAAAAAGTATTTTAAA
1 AATAAAAACAAAAAAAGTATTTAAAA
35723234 AATA
1 AATA
35723238 TTTTAAAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.70, C:0.04, G:0.02, T:0.25
Consensus pattern (26 bp):
AATAAAAACAAAAAAAGTATTTAAAA
Found at i:35723934 original size:20 final size:20
Alignment explanation
Indices: 35723890--35723940 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 20
35723880 TATATAATTT
*
35723890 TTAAAAAAATTATATAATACA
1 TTAAAAAAA-TATATAAAACA
35723911 -TAAAAAAATACTA-AAAACA
1 TTAAAAAAATA-TATAAAACA
35723930 TTAAAATAAAT
1 TTAAAA-AAAT
35723941 GTTTCCCAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
19 7 0.27
20 15 0.58
21 4 0.15
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (20 bp):
TTAAAAAAATATATAAAACA
Found at i:35726112 original size:31 final size:31
Alignment explanation
Indices: 35726074--35726137 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
35726064 CATACTTACA
*
35726074 AAATTTAATAACTCCACTACCACAGAATGAG
1 AAATTTAATAACTCCACTACCACAAAATGAG
35726105 AAATTTAATAACTCCACTACCACAAAATGAG
1 AAATTTAATAACTCCACTACCACAAAATGAG
35726136 AA
1 AA
35726138 TATAGATCAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.48, C:0.22, G:0.08, T:0.22
Consensus pattern (31 bp):
AAATTTAATAACTCCACTACCACAAAATGAG
Found at i:35730829 original size:13 final size:13
Alignment explanation
Indices: 35730813--35730839 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
35730803 TTTCCATAGC
35730813 ACTTTTCAAAAAT
1 ACTTTTCAAAAAT
35730826 ACTTTTCAAAAAT
1 ACTTTTCAAAAAT
35730839 A
1 A
35730840 ATGAAGAACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.37
Consensus pattern (13 bp):
ACTTTTCAAAAAT
Found at i:35738703 original size:24 final size:24
Alignment explanation
Indices: 35738653--35738704 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
35738643 AATCAAAGTC
** **
35738653 AAATATATTATGTTAATAAATGTT
1 AAATATATTATACTAATAAATACT
*
35738677 AAATATATTATACTCATAAATACT
1 AAATATATTATACTAATAAATACT
35738701 AAAT
1 AAAT
35738705 TTTCTAGAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.40
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:35741825 original size:25 final size:25
Alignment explanation
Indices: 35741754--35741825 Score: 90
Period size: 26 Copynumber: 2.8 Consensus size: 25
35741744 AATTTTCTTG
** *
35741754 AAATTTTACCGGGAGTAAAATCGTCA
1 AAATTTTACTAGG-GTAAAATCATCA
*
35741780 AATTTTTACTAAGGGTAAAATCATCA
1 AAATTTTACT-AGGGTAAAATCATCA
35741806 AAATTTTACTAGGGTAAAAT
1 AAATTTTACTAGGGTAAAAT
35741826 TAGGATGAGA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
25 10 0.25
26 28 0.70
27 2 0.05
ACGTcount: A:0.42, C:0.11, G:0.15, T:0.32
Consensus pattern (25 bp):
AAATTTTACTAGGGTAAAATCATCA
Found at i:35756565 original size:93 final size:93
Alignment explanation
Indices: 35756443--35756617 Score: 350
Period size: 93 Copynumber: 1.9 Consensus size: 93
35756433 ATAGATCTTG
35756443 AACTGTTTATGGATTTATTCACTTATGACGTTCAAAGTGTGGCATACCTAAATTCTGAGTGGATG
1 AACTGTTTATGGATTTATTCACTTATGACGTTCAAAGTGTGGCATACCTAAATTCTGAGTGGATG
35756508 ACAGACTATGTATGCATACCTAAATTCA
66 ACAGACTATGTATGCATACCTAAATTCA
35756536 AACTGTTTATGGATTTATTCACTTATGACGTTCAAAGTGTGGCATACCTAAATTCTGAGTGGATG
1 AACTGTTTATGGATTTATTCACTTATGACGTTCAAAGTGTGGCATACCTAAATTCTGAGTGGATG
35756601 ACAGACTATGTATGCAT
66 ACAGACTATGTATGCAT
35756618 GACCCATATA
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
93 82 1.00
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.35
Consensus pattern (93 bp):
AACTGTTTATGGATTTATTCACTTATGACGTTCAAAGTGTGGCATACCTAAATTCTGAGTGGATG
ACAGACTATGTATGCATACCTAAATTCA
Found at i:35768676 original size:20 final size:20
Alignment explanation
Indices: 35768643--35768696 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
35768633 GGGTTTAGGA
* *
35768643 TTTAAGGTTGAAGGTTCAAG
1 TTTAGGGTTCAAGGTTCAAG
*
35768663 TTTGGGGTTCAAGGTTCAAG
1 TTTAGGGTTCAAGGTTCAAG
*
35768683 TTTAGTGTTCAAGG
1 TTTAGGGTTCAAGG
35768697 GTTTGGGGTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.24, C:0.07, G:0.31, T:0.37
Consensus pattern (20 bp):
TTTAGGGTTCAAGGTTCAAG
Found at i:35771893 original size:28 final size:29
Alignment explanation
Indices: 35771835--35771894 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
35771825 TGCATATATT
* *
35771835 TATTATATATAATAAAACCCACACATATA
1 TATTATATATAACAAAACCCACACAAATA
* *
35771864 TATTATATATAGCAAAA-CCACGCAAATA
1 TATTATATATAACAAAACCCACACAAATA
35771892 TAT
1 TAT
35771895 GCAGTATGTA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
28 12 0.44
29 15 0.56
ACGTcount: A:0.50, C:0.17, G:0.03, T:0.30
Consensus pattern (29 bp):
TATTATATATAACAAAACCCACACAAATA
Found at i:35773616 original size:14 final size:13
Alignment explanation
Indices: 35773568--35773616 Score: 64
Period size: 13 Copynumber: 3.8 Consensus size: 13
35773558 TCTCTTGAGC
*
35773568 CCACAATATAATA
1 CCACAATCTAATA
35773581 CC-CAATCTAATA
1 CCACAATCTAATA
35773593 CCACAATCTAATA
1 CCACAATCTAATA
*
35773606 CACATAATCTA
1 C-CACAATCTA
35773617 TCTCTTCTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
12 11 0.34
13 13 0.41
14 8 0.25
ACGTcount: A:0.47, C:0.29, G:0.00, T:0.24
Consensus pattern (13 bp):
CCACAATCTAATA
Found at i:35777921 original size:5 final size:5
Alignment explanation
Indices: 35777911--35777935 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
35777901 TTCTATACTG
35777911 ATTTA ATTTA ATTTA ATTTA ATTTA
1 ATTTA ATTTA ATTTA ATTTA ATTTA
35777936 GGTCCGTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATTTA
Found at i:35779959 original size:19 final size:19
Alignment explanation
Indices: 35779935--35779976 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
35779925 GAGTTGTCTT
35779935 AAAAGAGTAAAAAAATCCA
1 AAAAGAGTAAAAAAATCCA
35779954 AAAAGAGTAAAAAAATCCA
1 AAAAGAGTAAAAAAATCCA
35779973 AAAA
1 AAAA
35779977 TCTTGGATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.71, C:0.10, G:0.10, T:0.10
Consensus pattern (19 bp):
AAAAGAGTAAAAAAATCCA
Found at i:35794638 original size:5 final size:5
Alignment explanation
Indices: 35794628--35794652 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
35794618 TTCTATATTC
35794628 ATTTA ATTTA ATTTA ATTTA ATTTA
1 ATTTA ATTTA ATTTA ATTTA ATTTA
35794653 TGTCTGTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATTTA
Found at i:35795760 original size:33 final size:33
Alignment explanation
Indices: 35795716--35795881 Score: 197
Period size: 33 Copynumber: 5.0 Consensus size: 33
35795706 TCAACACAAG
*
35795716 TGATTGGAACATCTATCAGGGCAGCTTCATCAA
1 TGATTGGAACATCTATCAGGGCAGCTTCATCAT
* *
35795749 TGATTGAAACATCTATCAGGGTAGCTTCATCAT
1 TGATTGGAACATCTATCAGGGCAGCTTCATCAT
* * *
35795782 TGATTGGGACATTTATCAAGGCAGCTTCATCAT
1 TGATTGGAACATCTATCAGGGCAGCTTCATCAT
* ** * *
35795815 TGAGTGGAACATCTATTGGGGTAGTTTCATCAT
1 TGATTGGAACATCTATCAGGGCAGCTTCATCAT
* * * *
35795848 TGATTGCAGCATCTATCGGGGCAACTTCATCAT
1 TGATTGGAACATCTATCAGGGCAGCTTCATCAT
35795881 T
1 T
35795882 CTATTCGACT
Statistics
Matches: 110, Mismatches: 23, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 110 1.00
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.33
Consensus pattern (33 bp):
TGATTGGAACATCTATCAGGGCAGCTTCATCAT
Found at i:35800977 original size:23 final size:22
Alignment explanation
Indices: 35800934--35800991 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
35800924 GAAAGGTATC
* *
35800934 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
35800955 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
35800978 TGCATATCATATCT
1 TACAAATCATATCT
35800992 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:35800994 original size:19 final size:19
Alignment explanation
Indices: 35800970--35801006 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
35800960 AATCATATCT
35800970 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
35800989 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
35801007 TGAAGATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:35801014 original size:17 final size:19
Alignment explanation
Indices: 35800973--35801014 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
35800963 CATATCTTCT
*
35800973 AAGATTGCATATCATATCT
1 AAGATTGCATATCATATCG
35800992 AAGATTGCATATCAT-T-G
1 AAGATTGCATATCATATCG
35801009 AAGATT
1 AAGATT
35801015 ATGTTTCCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.27
18 1 0.05
19 15 0.68
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (19 bp):
AAGATTGCATATCATATCG
Found at i:35801684 original size:131 final size:132
Alignment explanation
Indices: 35801446--35801833 Score: 602
Period size: 131 Copynumber: 3.0 Consensus size: 132
35801436 CAGTGCAACT
* ** * *
35801446 TCAGGGAGATAAGG-CTAGTGGCTTAAA-CTGCTTCCCTACTACCTCGAAAAGGTAAGACTCGCC
1 TCAGGGAGAT-AGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGACTCACC
* *
35801509 ATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATATACAATCTTCAACCTACTCCACCAC
65 GTCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACCAC
*
35801574 TGG
130 TGC
* *
35801577 TCAGGGAGATAGGACTGGTGGCTTAAATCTG-TTTCCTACTATCTCGGGAAGATAAGACTCACCG
1 TCAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGACTCACCG
*
35801641 TCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTACT
66 TCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACCACT
35801706 GC
131 GC
* * * * *
35801708 TCAGAGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTTGGGAGGATAAGATTCACTG
1 TCAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGACTCACCG
35801773 TCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCAC
66 TCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCAC
35801834 TGTAAACTCA
Statistics
Matches: 236, Mismatches: 18, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
130 3 0.01
131 142 0.60
132 91 0.39
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.27
Consensus pattern (132 bp):
TCAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGACTCACCG
TCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACCACT
GC
Found at i:35801702 original size:44 final size:44
Alignment explanation
Indices: 35801652--35801834 Score: 122
Period size: 44 Copynumber: 4.2 Consensus size: 44
35801642 CTTTGATCTG
35801652 CTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTA
1 CTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTA
* * * ***** * * *
35801696 CTCCACTACTGCTCAGAGAGATAGGA-CTGGTGGCTTAAATCTG
1 CTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTA
* * * ** ** * *
35801739 CTTCC-CTACTACCTT-GGGAGGATAAGAT-TCACTGTCTTTGATCTG
1 C-TCCACTACT-GCTTAGGGA-GACAGGATCT-ACAATCTTCAACCTA
35801784 CTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTA
1 CTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTA
35801828 CTCCACT
1 CTCCACT
35801835 GTAAACTCAG
Statistics
Matches: 102, Mismatches: 29, Indels: 16
0.69 0.20 0.11
Matches are distributed among these distances:
43 18 0.18
44 63 0.62
45 21 0.21
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.28
Consensus pattern (44 bp):
CTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTA
Found at i:35801959 original size:89 final size:89
Alignment explanation
Indices: 35801837--35802209 Score: 422
Period size: 89 Copynumber: 4.2 Consensus size: 89
35801827 ACTCCACTGT
* * * * * *
35801837 AAACTCAGAGAGGCAAGGCTGGTGTTTTTGATCTGCTTCACTGCCAGTAAAGGAAGACAAGATCC
1 AAACTCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTGCCAATACAGGAAGACAAGATCT
* *
35801902 GCTATTTTCACTCTGCTCCGCTAC
66 GCTATATTCAGTCTGCTCCGCTAC
* * * *
35801926 AAAGTCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGCCAATACAGAAAGACAAGATCT
1 AAACTCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTGCCAATACAGGAAGACAAGATCT
*
35801991 GCTATCTTCAGTCTGCTCCGCTAC
66 GCTATATTCAGTCTGCTCCGCTAC
* * * * * * * *
35802015 AAACTTAGGAAGACAAGGCTGTTATCTTCGATCTGTTTCACTGCCAATATAGGATGACAAGATCT
1 AAACTCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTGCCAATACAGGAAGACAAGATCT
* * **
35802080 GCTATATTCAGTCTACTCTGCTGT
66 GCTATATTCAGTCTGCTCCGCTAC
* * * *
35802104 AAACTCAGGGACGCAAGGTTGGTGTCTTTGATCTGCTTCGCTGCCAATACAGGAAGACAAGATCT
1 AAACTCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTGCCAATACAGGAAGACAAGATCT
* * * * * * *
35802169 GTTATCTTTAGTCTACCCCGTTGC
66 GCTATATTCAGTCTGCTCCGCTAC
35802193 AAACTCAGGGAGGCAAG
1 AAACTCAGGGAGGCAAG
35802210 ACTTGTAACT
Statistics
Matches: 235, Mismatches: 49, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
89 235 1.00
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (89 bp):
AAACTCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTGCCAATACAGGAAGACAAGATCT
GCTATATTCAGTCTGCTCCGCTAC
Found at i:35802028 original size:45 final size:45
Alignment explanation
Indices: 35801887--35802093 Score: 115
Period size: 44 Copynumber: 4.6 Consensus size: 45
35801877 CTGCCAGTAA
* * * * *
35801887 AGGAAGACAAGATCCGCTATTTTCACTCTGCTCCGCTACAAAGTC
1 AGGAAGACAAGATCTGCTATCTTCAGTCTGCTCCGCTACAAACTT
* * * * * *
35801932 AGGGAGGCAAG-GCTAG-TGTCTTC-GATCTGCTTCGCTGCCAATAC--
1 AGGAAGACAAGATCT-GCTATCTTCAG-TCTGCTCCGCT-ACAA-ACTT
*
35801976 AGAAAGACAAGATCTGCTATCTTCAGTCTGCTCCGCTACAAACTT
1 AGGAAGACAAGATCTGCTATCTTCAGTCTGCTCCGCTACAAACTT
* * * * * * *
35802021 AGGAAGACAAG-GCTGTTATCTTC-GATCTGTTTCACTGCCAA-TAT
1 AGGAAGACAAGATCTGCTATCTTCAG-TCTGCTCCGCTACAAACT-T
* *
35802065 AGGATGACAAGATCTGCTATATTCAGTCT
1 AGGAAGACAAGATCTGCTATCTTCAGTCT
35802094 ACTCTGCTGT
Statistics
Matches: 120, Mismatches: 29, Indels: 26
0.69 0.17 0.15
Matches are distributed among these distances:
43 4 0.03
44 60 0.50
45 53 0.44
46 3 0.03
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.28
Consensus pattern (45 bp):
AGGAAGACAAGATCTGCTATCTTCAGTCTGCTCCGCTACAAACTT
Found at i:35802068 original size:44 final size:45
Alignment explanation
Indices: 35801950--35802084 Score: 132
Period size: 45 Copynumber: 3.0 Consensus size: 45
35801940 AAGGCTAGTG
* * *
35801950 TCTTCGATCTGCTTCGCTGCCAATACAGAAAGACAAGATCTGCTA
1 TCTTCGATCTGCTTCGCTGCCAATATAGGAAGACAAGAGCTGCTA
* * * *
35801995 TCTTC-AGTCTGCTCCGCTACAAACT-TAGGAAGACAAG-GCTGTTA
1 TCTTCGA-TCTGCTTCGCTGCCAA-TATAGGAAGACAAGAGCTGCTA
* * * *
35802039 TCTTCGATCTGTTTCACTGCCAATATAGGATGACAAGATCTGCTA
1 TCTTCGATCTGCTTCGCTGCCAATATAGGAAGACAAGAGCTGCTA
35802084 T
1 T
35802085 ATTCAGTCTA
Statistics
Matches: 70, Mismatches: 15, Indels: 10
0.74 0.16 0.11
Matches are distributed among these distances:
43 1 0.01
44 33 0.47
45 35 0.50
46 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (45 bp):
TCTTCGATCTGCTTCGCTGCCAATATAGGAAGACAAGAGCTGCTA
Found at i:35802429 original size:177 final size:178
Alignment explanation
Indices: 35802207--35802606 Score: 520
Period size: 177 Copynumber: 2.3 Consensus size: 178
35802197 TCAGGGAGGC
** * *
35802207 AAGACTTGTAACTTTAATTTGCTCCACTGCAACTTCAGAGAGATAGGATTATTGGCTTTAATCTG
1 AAGACTTGTAACTTTAATCCGCTCCACTGCAACTTCAGAGAGATAGAATTATTGGCTTTAATCTA
* * * * * * * * *
35802272 CTCCATTGCAACTTCAGGGAGATAAGATTTGCCATCTTCTGTCCGCCTCACTGCAGCTTTA-GGG
66 CTACACTGCAACCTCAGGGAGATAAGATTCGCCATCTTCAGTCCGCCCCACTACAACTTCAGGGG
*
35802336 GATAAGACTTGCTTTCTTCAGTCTACTCCACTGCAACCTT-AGGGAGAT
131 GATAAGACTTGCTTTCTTCAGTCTACTCCACTGCAA-CTTCAAGGAGAT
* *
35802384 AAGACTTGTAACTTTAATCCGCTCCATTGTAACTTCA-AGGAGATAGAATTATTGGCTTTAATCT
1 AAGACTTGTAACTTTAATCCGCTCCACTGCAACTTCAGA-GAGATAGAATTATTGGCTTTAATCT
* *
35802448 ACTACACTGCAACCTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCCCCATTACAACTTCAGGG
65 ACTACACTGCAACCTCAGGGAGATAAGATTCGCCATCTTCAGTCCGCCCCACTACAACTTCAGGG
*
35802513 GGATAAGACTTGTTTTCTTCAGTCTACTCCACTGCAACTTCAAGGAGAT
130 GGATAAGACTTGCTTTCTTCAGTCTACTCCACTGCAACTTCAAGGAGAT
* ** ** *
35802562 AAGA-TTATTGGCTTTAATCTACTCCACTGCAACTTCAGGGAGATA
1 AAGACTT-GTAACTTTAATCCGCTCCACTGCAACTTCAGAGAGATA
35802607 AGATTCACCA
Statistics
Matches: 191, Mismatches: 27, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
176 1 0.01
177 112 0.59
178 78 0.41
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.31
Consensus pattern (178 bp):
AAGACTTGTAACTTTAATCCGCTCCACTGCAACTTCAGAGAGATAGAATTATTGGCTTTAATCTA
CTACACTGCAACCTCAGGGAGATAAGATTCGCCATCTTCAGTCCGCCCCACTACAACTTCAGGGG
GATAAGACTTGCTTTCTTCAGTCTACTCCACTGCAACTTCAAGGAGAT
Found at i:35802610 original size:44 final size:43
Alignment explanation
Indices: 35802218--35802611 Score: 226
Period size: 44 Copynumber: 8.9 Consensus size: 43
35802208 AGACTTGTAA
* * * *
35802218 CTTTAATTTGCTCCACTGCAACTTCAGAGAGATAGGATTATTGG
1 CTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATT-TTGG
* * *
35802262 CTTTAATCTGCTCCATTGCAACTTCAGGGAGATAAGA-TTTGC
1 CTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTTGG
* * * * * * *
35802304 CATCTT-CTGTCCGCCTCACTGCAGCTTTAGGG-GATAAGACTTGCTT-T
1 C-T-TTAATCTAC-TC-CACTGCAACTTCAGGGAGATAAGA-TT--TTGG
* * * **
35802351 CTTCAGTCTACTCCACTGCAACCTT-AGGGAGATAAGACTTGTAA
1 CTTTAATCTACTCCACTGCAA-CTTCAGGGAGATAAGA-TTTTGG
** * * *
35802395 CTTTAATCCGCTCCATTGTAACTTCAAGGAGAT-AGAATTATTGG
1 CTTTAATCTACTCCACTGCAACTTCAGGGAGATAAG-ATT-TTGG
* * * *
35802439 CTTTAATCTACTACACTGCAACCTCAGGGAGATAAGA-TTCGC
1 CTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTTGG
* * * * * * **
35802481 CATCTTCAGTCTGCCCCATTACAACTTCAGGGGGATAAGACTTGTTTT
1 C-T-TT-AATCTACTCCACTGCAACTTCAGGGAGATAAGA-TT-TTGG
* * *
35802529 CTTCAGTCTACTCCACTGCAACTTCAAGGAGATAAGATTATTGG
1 CTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATT-TTGG
35802573 CTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATT
1 CTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATT
35802612 CACCATCTTC
Statistics
Matches: 264, Mismatches: 64, Indels: 44
0.71 0.17 0.12
Matches are distributed among these distances:
42 7 0.03
43 15 0.06
44 147 0.56
45 82 0.31
46 6 0.02
47 3 0.01
48 4 0.02
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (43 bp):
CTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTTGG
Found at i:35815396 original size:23 final size:22
Alignment explanation
Indices: 35815366--35815411 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
35815356 TGAATTAAAT
35815366 TTCTAAGATTACAAAATCATATC
1 TTCTAAGATTAC-AAATCATATC
* *
35815389 TTCTAAGATTGCATATCATATC
1 TTCTAAGATTACAAATCATATC
35815411 T
1 T
35815412 AAGATTGCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.37, C:0.17, G:0.07, T:0.39
Consensus pattern (22 bp):
TTCTAAGATTACAAATCATATC
Found at i:35815414 original size:19 final size:19
Alignment explanation
Indices: 35815390--35815426 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
35815380 AATCATATCT
35815390 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
35815409 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
35815427 TGAAGATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:35815434 original size:17 final size:19
Alignment explanation
Indices: 35815393--35815434 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
35815383 CATATCTTCT
*
35815393 AAGATTGCATATCATATCT
1 AAGATTGCATATCATATCG
35815412 AAGATTGCATATCAT-T-G
1 AAGATTGCATATCATATCG
35815429 AAGATT
1 AAGATT
35815435 ATGTTTCGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.27
18 1 0.05
19 15 0.68
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (19 bp):
AAGATTGCATATCATATCG
Found at i:35823667 original size:11 final size:11
Alignment explanation
Indices: 35823651--35823675 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
35823641 ATTGAATTGA
35823651 ATTTTTAGTTT
1 ATTTTTAGTTT
35823662 ATTTTTAGTTT
1 ATTTTTAGTTT
35823673 ATT
1 ATT
35823676 ATCATGTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.20, C:0.00, G:0.08, T:0.72
Consensus pattern (11 bp):
ATTTTTAGTTT
Found at i:35827745 original size:87 final size:88
Alignment explanation
Indices: 35827631--35828027 Score: 371
Period size: 87 Copynumber: 4.5 Consensus size: 88
35827621 CTTTGCTTCC
* * * ** * *
35827631 AAATTAAAAGTAAATAAAATCAGTTTCGGGATTTCTTGTCGCTGTTCAACGGATTTTATTCCATT
1 AAATTAAAATTAAATAAAATTAGTTTCGGGATTTATTCCCGCCGTTCAACGGATTTTATTCCAAT
**
35827696 TTTTATTTTATTTCC-AAATGGA
66 TTTTATTTTATTTCCAAAAACGA
* * * *
35827718 AAATTAAAGTTAAATAAAATTCA-TTTCGGGATTTATTCCTGCCGTTCAACGAATTTTATTCGAA
1 AAATTAAAATTAAATAAAATT-AGTTTCGGGATTTATTCCCGCCGTTCAACGGATTTTATTCCAA
** *
35827782 TTTCGATTTTATTT-CTAAAACGA
65 TTTTTATTTTATTTCCAAAAACGA
** * * * *
35827805 TTATTAAAATTAAAATAAAA-TATGTTTCAGGATTTATTCCCGCTGTTCAATGGAGTTTATTCCA
1 AAATTAAAATT-AAATAAAATTA-GTTTCGGGATTTATTCCCGCCGTTCAACGGATTTTATTCC-
*
35827869 AATTTGT-TTTTATTTCCAAAAACGA
63 AATTTTTATTTTATTTCCAAAAACGA
** * * *
35827894 GTATTAAAATTAAA-ATAAATTATGTTTCGGGATTTATTCTCGCCGTTTAACGGA-TTTATTAC-
1 AAATTAAAATTAAATA-AAATTA-GTTTCGGGATTTATTCCCGCCGTTCAACGGATTTTATTCCA
*
35827956 ATTTTTATTTTGTTTCCAAAAACGA
64 ATTTTTATTTTATTTCCAAAAACGA
** *
35827981 GAAATTAAAATTAAATAAAATCT-GTTTCAAGATTTATTCTCGCCGTT
1 -AAATTAAAATTAAATAAAAT-TAGTTTCGGGATTTATTCCCGCCGTT
35828028 TGACAAGATT
Statistics
Matches: 256, Mismatches: 41, Indels: 26
0.79 0.13 0.08
Matches are distributed among these distances:
86 7 0.03
87 117 0.46
88 78 0.30
89 54 0.21
ACGTcount: A:0.34, C:0.13, G:0.12, T:0.42
Consensus pattern (88 bp):
AAATTAAAATTAAATAAAATTAGTTTCGGGATTTATTCCCGCCGTTCAACGGATTTTATTCCAAT
TTTTATTTTATTTCCAAAAACGA
Found at i:35827774 original size:157 final size:158
Alignment explanation
Indices: 35827483--35827774 Score: 344
Period size: 157 Copynumber: 1.9 Consensus size: 158
35827473 AATTTTAAAT
35827483 TAAATAAAATCTATTTCGGGATGTTTTCCCGCTGTTAAACAGATTTTATTCTCTATTTTGATTTT
1 TAAATAAAATCTATTTCGGGATGTTTTCCCGCTGTTAAACAGATTTTATTCTCTATTTTGATTTT
* * ** * *
35827548 TATTTCCAAACAAACTGTAAAACTCAATAAAATTTGTTTAGGGATTTATTCCCGCTGTTTAACAA
66 TATTTCCAAACAAAATGTAAAACTAAATAAAATTCATTTAGGGATTTATTCCCGCCGTTCAACAA
35827613 ATTTTTGACTTTGCTTCCAAATTAAAAG
131 ATTTTTGACTTTGCTTCCAAATTAAAAG
** * * *
35827641 TAAATAAAATC-AGTTTCGGGAT-TTCTTGTCGCTGTTCAACGGATTTTATTC-C-ATTTT-TTA
1 TAAATAAAATCTA-TTTCGGGATGTT-TTCCCGCTGTTAAACAGATTTTATTCTCTATTTTGAT-
* ** * *
35827701 TTTTATTTCCAAATGGAAAAT-TAAAGTTAAATAAAATTCATTTCGGGATTTATTCCTGCCGTTC
63 TTTTATTTCCAAA--CAAAATGTAAAACTAAATAAAATTCATTTAGGGATTTATTCCCGCCGTTC
*
35827765 AACGAATTTT
126 AACAAATTTT
35827775 ATTCGAATTT
Statistics
Matches: 112, Mismatches: 17, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
155 1 0.01
156 18 0.16
157 47 0.42
158 46 0.41
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.42
Consensus pattern (158 bp):
TAAATAAAATCTATTTCGGGATGTTTTCCCGCTGTTAAACAGATTTTATTCTCTATTTTGATTTT
TATTTCCAAACAAAATGTAAAACTAAATAAAATTCATTTAGGGATTTATTCCCGCCGTTCAACAA
ATTTTTGACTTTGCTTCCAAATTAAAAG
Found at i:35828143 original size:84 final size:84
Alignment explanation
Indices: 35828034--35828221 Score: 234
Period size: 84 Copynumber: 2.2 Consensus size: 84
35828024 CGTTTGACAA
* * * * * * *
35828034 GATTTTAGTTTGCTTCCAAAGTAGAATTAAATTAAATAATAT-TTGTTTTGGGATTTATTCTCGC
1 GATTTTATTTTGTTTCCAAAGTAGAATTAAATTAAATAAAATCTT-TTTCGGGATTCATTCCCAC
* *
35828098 AGTTTAACAATATTTTATTT
65 AGTTTAACAAGATTTTATTC
* *
35828118 GATTTTATTTTGTTTCCAAATTAGAATTAAATTAAATAAAATCTTTTTCGGGATTCATTCCCACC
1 GATTTTATTTTGTTTCCAAAGTAGAATTAAATTAAATAAAATCTTTTTCGGGATTCATTCCCACA
35828183 GTTTAACAAGATTTTATTC
66 GTTTAACAAGATTTTATTC
* * *
35828202 GATATTGTTTTATTTCCAAA
1 GATTTTATTTTGTTTCCAAA
35828222 CAAAGATATA
Statistics
Matches: 89, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
84 87 0.98
85 2 0.02
ACGTcount: A:0.31, C:0.11, G:0.11, T:0.46
Consensus pattern (84 bp):
GATTTTATTTTGTTTCCAAAGTAGAATTAAATTAAATAAAATCTTTTTCGGGATTCATTCCCACA
GTTTAACAAGATTTTATTC
Found at i:35828192 original size:158 final size:161
Alignment explanation
Indices: 35827900--35828198 Score: 385
Period size: 158 Copynumber: 1.9 Consensus size: 161
35827890 ACGAGTATTA
* *
35827900 AAATTAAAATAAATTATGTTTCGGGATTTATTCTCGCCGTTTAACGGATTTATTACATTTTTATT
1 AAATTAAAATAAATTATGTTTCGGGATTTATTCTCGCAGTTTAACAGATTTATTACATTTTTATT
* * * *
35827965 TTGTTTCCAAAAACGAGAAATTAAAATTAAATAAAATCTGTTTCAAGATTTATTCTCGCCGTTTG
66 TTGTTTCC-AAAACGAGAAATTAAAATTAAATAAAATCTGTTTCAAGATTCATTCCCACCGTTTA
35828030 ACAAGATTTTAGTTTGCTTCCAAAGTAGAATT
130 ACAAGATTTTAGTTTGCTTCCAAAGTAGAATT
* * **
35828062 AAATT-AAATAATATT-TGTTTTGGGATTTATTCTCGCAGTTTAACAATATTTTATTTGA-TTTT
1 AAATTAAAATAA-ATTATGTTTCGGGATTTATTCTCGCAGTTTAAC-AGA-TTTATTACATTTTT
** * **
35828124 ATTTTGTTTCC-AAATTAG-AATT-AAATTAAATAAAATCTTTTTCGGGATTCATTCCCACCGTT
63 ATTTTGTTTCCAAAACGAGAAATTAAAATTAAATAAAATCTGTTTCAAGATTCATTCCCACCGTT
35828186 TAACAAGATTTTA
128 TAACAAGATTTTA
35828199 TTCGATATTG
Statistics
Matches: 119, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
158 46 0.39
159 4 0.03
160 5 0.04
161 33 0.28
162 24 0.20
163 7 0.06
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (161 bp):
AAATTAAAATAAATTATGTTTCGGGATTTATTCTCGCAGTTTAACAGATTTATTACATTTTTATT
TTGTTTCCAAAACGAGAAATTAAAATTAAATAAAATCTGTTTCAAGATTCATTCCCACCGTTTAA
CAAGATTTTAGTTTGCTTCCAAAGTAGAATT
Found at i:35828239 original size:84 final size:83
Alignment explanation
Indices: 35828099--35828282 Score: 185
Period size: 84 Copynumber: 2.2 Consensus size: 83
35828089 TATTCTCGCA
* * * * ** * *
35828099 GTTTAACAATATTTTATTTGATTTTATTTTGTTTCCAAATTAGAATTAAATTAAATAAAATCTTT
1 GTTTAACAAGATTTTATTCGATATTATTTTATTTCCAAAAAAGAATTAAATCAAAT-AAATCTAT
* *
35828164 TTCGGGATTCATTCCCACC
65 TTCAGAATTCATTCCCACC
* *
35828183 GTTTAACAAGATTTTATTCGATATTGTTTTATTTCCAAACAAAG-A-TATAATCAAATAATTCTA
1 GTTTAACAAGATTTTATTCGATATTATTTTATTTCCAAA-AAAGAATTA-AATCAAATAAATCTA
* *
35828246 TTTCAGAATTTATTCCCGCC
64 TTTCAGAATTCATTCCCACC
*
35828266 ATTTAAC-AGATTTTATT
1 GTTTAACAAGATTTTATT
35828283 TTGATTTAAT
Statistics
Matches: 83, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
82 10 0.12
83 29 0.35
84 42 0.51
85 2 0.02
ACGTcount: A:0.34, C:0.14, G:0.08, T:0.45
Consensus pattern (83 bp):
GTTTAACAAGATTTTATTCGATATTATTTTATTTCCAAAAAAGAATTAAATCAAATAAATCTATT
TCAGAATTCATTCCCACC
Found at i:35833566 original size:18 final size:18
Alignment explanation
Indices: 35833517--35833569 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
35833507 CATGCAGCAC
*
35833517 ATTGCGTGGAATGCATGG
1 ATTGCATGGAATGCATGG
* * *
35833535 TTTACATGAAATGCATGG
1 ATTGCATGGAATGCATGG
*
35833553 ATTGCATGGGATGCATG
1 ATTGCATGGAATGCATG
35833570 AAAAGCATTT
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.26, C:0.11, G:0.32, T:0.30
Consensus pattern (18 bp):
ATTGCATGGAATGCATGG
Found at i:35845127 original size:28 final size:28
Alignment explanation
Indices: 35845095--35845191 Score: 167
Period size: 28 Copynumber: 3.5 Consensus size: 28
35845085 CTACAACATG
35845095 CAGTAACAGTGTGGGCCTTAGCCCGATA
1 CAGTAACAGTGTGGGCCTTAGCCCGATA
35845123 CAGTAACAGTGTGGGCCTTAGCCCGATA
1 CAGTAACAGTGTGGGCCTTAGCCCGATA
* *
35845151 CAGAAACAGTGTGGGCCTTAGCCCAATA
1 CAGTAACAGTGTGGGCCTTAGCCCGATA
*
35845179 CAGTAACAATGTG
1 CAGTAACAGTGTG
35845192 ATAATGCAAC
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 65 1.00
ACGTcount: A:0.29, C:0.24, G:0.27, T:0.21
Consensus pattern (28 bp):
CAGTAACAGTGTGGGCCTTAGCCCGATA
Found at i:35845266 original size:21 final size:21
Alignment explanation
Indices: 35845218--35845267 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
35845208 CAATCCAGCT
* *
35845218 AACACAACGCTTTGTACCGCC
1 AACACACCGCTTTGTACCACC
35845239 AACACACCGCTTTGTACCACC
1 AACACACCGCTTTGTACCACC
35845260 AACACACC
1 AACACACC
35845268 ATGTGGGGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.32, C:0.42, G:0.10, T:0.16
Consensus pattern (21 bp):
AACACACCGCTTTGTACCACC
Found at i:35845531 original size:27 final size:27
Alignment explanation
Indices: 35845510--35845734 Score: 217
Period size: 27 Copynumber: 8.3 Consensus size: 27
35845500 AGGTATAGTA
35845510 GTCATTTTACCCTATGGGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTTG
*
35845537 GTCATTTTACCCTATGGGAGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTTG
* * *
35845564 GTCATTTTACCCTTTGGGAGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTTG
* *
35845591 GTCATTTTACCCT-TCAGGGGTATTTTA
1 GTCATTTTACCCTAT-GGGGGTATTTTG
*
35845618 GTCATTTTACCCT-TCAGGGGTATTTTG
1 GTCATTTTACCCTAT-GGGGGTATTTTG
* * * **
35845645 ATTATTTTA-CCTTTCGGGGGTATTTCA
1 GTCATTTTACCCTAT-GGGGGTATTTTG
* * *
35845672 GTCATTTTACCCT-TCAGAGGTATTTTA
1 GTCATTTTACCCTAT-GGGGGTATTTTG
* *
35845699 GTCATTTTACCCT-TCAGGGGTATTTTA
1 GTCATTTTACCCTAT-GGGGGTATTTTG
35845726 GTCATTTTA
1 GTCATTTTA
35845735 TTGACCCTAC
Statistics
Matches: 176, Mismatches: 19, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
26 4 0.02
27 169 0.96
28 3 0.02
ACGTcount: A:0.18, C:0.17, G:0.20, T:0.45
Consensus pattern (27 bp):
GTCATTTTACCCTATGGGGGTATTTTG
Found at i:35845574 original size:54 final size:53
Alignment explanation
Indices: 35845508--35845734 Score: 280
Period size: 54 Copynumber: 4.2 Consensus size: 53
35845498 ACAGGTATAG
*
35845508 TAGTCATTTTACCCTAT-GGGGGTATTTTGGTCATTTTACCCTAT-GGGAGTATTT
1 TAGTCATTTTACCCT-TCAGGGGTATTTTGGTCATTTTACCCT-TCGGG-GTATTT
* * *
35845562 TGGTCATTTTACCCTT-TGGGAGTATTTCGGTCATTTTACCCTTCAGGGGTATTT
1 TAGTCATTTTACCCTTCAGGG-GTATTTTGGTCATTTTACCCTTC-GGGGTATTT
* * *
35845616 TAGTCATTTTACCCTTCAGGGGTATTTTGATTATTTTACCTTTCGGGGGTATTT
1 TAGTCATTTTACCCTTCAGGGGTATTTTGGTCATTTTACCCTTC-GGGGTATTT
* * *
35845670 CAGTCATTTTACCCTTCAGAGGTATTTTAGTCATTTTACCCTTCAGGGGTATTT
1 TAGTCATTTTACCCTTCAGGGGTATTTTGGTCATTTTACCCTTC-GGGGTATTT
35845724 TAGTCATTTTA
1 TAGTCATTTTA
35845735 TTGACCCTAC
Statistics
Matches: 151, Mismatches: 18, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
53 5 0.03
54 140 0.93
55 6 0.04
ACGTcount: A:0.18, C:0.17, G:0.20, T:0.45
Consensus pattern (53 bp):
TAGTCATTTTACCCTTCAGGGGTATTTTGGTCATTTTACCCTTCGGGGTATTT
Found at i:35845622 original size:81 final size:80
Alignment explanation
Indices: 35845509--35845734 Score: 305
Period size: 81 Copynumber: 2.8 Consensus size: 80
35845499 CAGGTATAGT
* *
35845509 AGTCATTTTACCCTAT-GGGGGTATTTTGGTCATTTTACCC-TATGGGAGTATTTTGGTCATTTT
1 AGTCATTTTACCCT-TCAGGGGTATTTTAGTCATTTTACCCTTA-GGG-GTATTTTGGTCATTTT
35845572 ACCCTTT-GGGAGTATTTC
63 A-CCTTTCGGGAGTATTTC
* * *
35845590 GGTCATTTTACCCTTCAGGGGTATTTTAGTCATTTTACCCTTCAGGGGTATTTTGATTATTTTAC
1 AGTCATTTTACCCTTCAGGGGTATTTTAGTCATTTTACCCTT-AGGGGTATTTTGGTCATTTTAC
*
35845655 CTTTCGGGGGTATTTC
65 CTTTCGGGAGTATTTC
* *
35845671 AGTCATTTTACCCTTCAGAGGTATTTTAGTCATTTTACCCTTCAGGGGTATTTTAGTCATTTTA
1 AGTCATTTTACCCTTCAGGGGTATTTTAGTCATTTTACCCTT-AGGGGTATTTTGGTCATTTTA
35845735 TTGACCCTAC
Statistics
Matches: 130, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
80 6 0.05
81 119 0.92
82 4 0.03
83 1 0.01
ACGTcount: A:0.18, C:0.17, G:0.20, T:0.45
Consensus pattern (80 bp):
AGTCATTTTACCCTTCAGGGGTATTTTAGTCATTTTACCCTTAGGGGTATTTTGGTCATTTTACC
TTTCGGGAGTATTTC
Found at i:35846899 original size:13 final size:13
Alignment explanation
Indices: 35846881--35846926 Score: 83
Period size: 13 Copynumber: 3.5 Consensus size: 13
35846871 CTACATAGCT
35846881 AGTATAACCGAAA
1 AGTATAACCGAAA
*
35846894 AGTATAATCGAAA
1 AGTATAACCGAAA
35846907 AGTATAACCGAAA
1 AGTATAACCGAAA
35846920 AGTATAA
1 AGTATAA
35846927 TCAGCACCAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 31 1.00
ACGTcount: A:0.54, C:0.11, G:0.15, T:0.20
Consensus pattern (13 bp):
AGTATAACCGAAA
Found at i:35863674 original size:46 final size:46
Alignment explanation
Indices: 35863624--35863716 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
35863614 CAAATAAAAA
35863624 AGGAAAAGAAAAAGAAAAGCTTTAAAAATGATATTTTTTATCAGTC
1 AGGAAAAGAAAAAGAAAAGCTTTAAAAATGATATTTTTTATCAGTC
35863670 AGGAAAAGAAAAAGAAAAGCTTTAAAAATGATATTTTTTATCAGTC
1 AGGAAAAGAAAAAGAAAAGCTTTAAAAATGATATTTTTTATCAGTC
35863716 A
1 A
35863717 CTATATATGG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.51, C:0.06, G:0.15, T:0.28
Consensus pattern (46 bp):
AGGAAAAGAAAAAGAAAAGCTTTAAAAATGATATTTTTTATCAGTC
Found at i:35871328 original size:27 final size:28
Alignment explanation
Indices: 35871298--35871351 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
35871288 ATCATGTTAA
*
35871298 TTAATC-ATTCGAAAGCTGTCAAAACAT
1 TTAATCTATACGAAAGCTGTCAAAACAT
* *
35871325 TTAATCTATACGAAAGCTTTTAAAACA
1 TTAATCTATACGAAAGCTGTCAAAACA
35871352 AATTGTGTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 6 0.26
28 17 0.74
ACGTcount: A:0.43, C:0.17, G:0.09, T:0.31
Consensus pattern (28 bp):
TTAATCTATACGAAAGCTGTCAAAACAT
Found at i:35876074 original size:20 final size:20
Alignment explanation
Indices: 35876049--35876112 Score: 71
Period size: 20 Copynumber: 3.4 Consensus size: 20
35876039 TTTCTTAATA
35876049 TTCAAATTTATATTTTTTGT
1 TTCAAATTTATATTTTTTGT
* *
35876069 TTCAAATTTATACTTTTT-A
1 TTCAAATTTATATTTTTTGT
* *
35876088 CTCCAATTT-T-TTTTTTGT
1 TTCAAATTTATATTTTTTGT
35876106 TTCAAAT
1 TTCAAAT
35876113 CCTCATTCTG
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
17 5 0.14
18 6 0.17
19 7 0.20
20 17 0.49
ACGTcount: A:0.25, C:0.11, G:0.03, T:0.61
Consensus pattern (20 bp):
TTCAAATTTATATTTTTTGT
Found at i:35876245 original size:20 final size:20
Alignment explanation
Indices: 35876220--35876258 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
35876210 GAATTATCCC
35876220 GAATACGAAAAAACATGAGG
1 GAATACGAAAAAACATGAGG
* *
35876240 GAATACTAAAAACCATGAG
1 GAATACGAAAAAACATGAG
35876259 AAAGTACCAA
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:0.54, C:0.13, G:0.21, T:0.13
Consensus pattern (20 bp):
GAATACGAAAAAACATGAGG
Found at i:35878032 original size:3 final size:3
Alignment explanation
Indices: 35878026--35878060 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
35878016 TTAATTTAGT
35878026 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
35878061 TATTATTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:35878065 original size:3 final size:3
Alignment explanation
Indices: 35878059--35878147 Score: 106
Period size: 3 Copynumber: 29.7 Consensus size: 3
35878049 CATCATCATC
* * * *
35878059 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT TTT ATT TTT AGT ACT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
** * *
35878107 ATT ATT ATT ATT ATT GGT ATT ATT ATT TTT ATT ATT TTT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
35878148 CAACTTATTT
Statistics
Matches: 71, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 71 1.00
ACGTcount: A:0.28, C:0.01, G:0.03, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:35878544 original size:29 final size:27
Alignment explanation
Indices: 35878506--35878583 Score: 102
Period size: 29 Copynumber: 2.8 Consensus size: 27
35878496 CTCTTTCAAA
35878506 TATTTTAATATCTTTAATTTATTTCAACT
1 TATTTTAATAT-TTTAATTTATTT-AACT
* *
35878535 TATTTCAATATTGTTAATTTATTTAAGT
1 TATTTTAATATT-TTAATTTATTTAACT
*
35878563 TATTTTAACATTTTAATTTAT
1 TATTTTAATATTTTAATTTAT
35878584 ATATATTATA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
27 9 0.20
28 14 0.32
29 21 0.48
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.59
Consensus pattern (27 bp):
TATTTTAATATTTTAATTTATTTAACT
Found at i:35884976 original size:44 final size:43
Alignment explanation
Indices: 35884915--35885812 Score: 358
Period size: 44 Copynumber: 20.9 Consensus size: 43
35884905 TCGAAGAAAC
* * * *
35884915 CAATCCTATCTCCCTGAAGTTGTAGTGGAGTGGATTAAAACCA
1 CAATCTTATCTCTCTGAAGTTGCAGTGGAGCGGATTAAAACCA
* * *** *
35884958 CAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-TCGCATC-
1 CA-ATCTTATCTCTCTGAAGTTGCAGTGGAGCGGATTAAAACCA
* * **
35885000 CAATCTTATCTCCCTGAAGTTGCAGTGGAGCTGACGAAGAA--A
1 CAATCTTATCTCTCTGAAGTTGCAGTGGAGCGGATTAA-AACCA
* * * * *
35885042 TCAATCCTCTCTCTCTAAAGTTGTAGTGGAGTGGATTAAAACCA
1 -CAATCTTATCTCTCTGAAGTTGCAGTGGAGCGGATTAAAACCA
* * * * *** *
35885086 CAGATCTTATCTTTCTGAAGTTACAATAGAGC--ATATCGCATC-
1 CA-ATCTTATCTCTCTGAAGTTGCAGTGGAGCGGAT-TAAAACCA
* * * * ** *
35885128 CAGTCTTATCTCTCTGAAGATGCAGTGGATCAGACAGAAGAAAC-
1 CAATCTTATCTCTCTGAAGTTGCAGTGGAGCGGA-TTAA-AACCA
* * *
35885172 CAATCCTATCTCCCTGAAGTTACAGTGGAGC-GACTTAAAACCA
1 CAATCTTATCTCTCTGAAGTTGCAGTGGAGCGGA-TTAAAACCA
* ** * *
35885215 CAGATCTTATCCCTCTGAAGTTTTAGTAGAGC--A-T--ATCGCA
1 CA-ATCTTATCTCTCTGAAGTTGCAGTGGAGCGGATTAAAAC-CA
* * * * * * ** *
35885255 TCTAGTCTTATCTCCCTAAAGTTGCAGAGAAGCAGACGGAAGAAAC-
1 -C-AATCTTATCTCTCTGAAGTTGCAGTGGAGCGGA-TTAA-AACCA
* * *
35885301 CAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAACCA
1 CAATCTTATCTCTCTGAAGTTGCAGTGGAGCGGATTAAAACCA
* * * ** *
35885344 CAAATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATT-GCATC-
1 C-AATCTTATCTCTCTGAAGTTGCAGTGGAGCGGATTAAAACCA
* * * ** *
35885386 CAATCTTATCTCCCTGAATTTGCAGTGGAGC-AAACAGAAGA-AA
1 CAATCTTATCTCTCTGAAGTTGCAGTGGAGCGGATTA-AA-ACCA
* * *
35885429 CTAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCA
1 C-AATCTTATCTCTCTGAAGTTGCAGTGGAGCGGATTAAAACCA
* * ** *
35885473 CAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATT-GCATC-
1 CA-ATCTTATCTCTCTGAAGTTGCAGTGGAGCGGATTAAAACCA
* * * * * **
35885515 CAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGA-CAAAAGAAA
1 CAATCTTATCTCTCTGAAGTTGCAGTGGAGCGGATTAAAA-CCA
* *
35885558 CCAATCCTATCTCTTTGAAGTTGCAGTGGAGCGGATTAAAACCA
1 -CAATCTTATCTCTCTGAAGTTGCAGTGGAGCGGATTAAAACCA
* * * *** *
35885602 CATATCTTATCTCTCTGAAGTTGTAGTAGAGCAGA-TCGCATC-
1 CA-ATCTTATCTCTCTGAAGTTGCAGTGGAGCGGATTAAAACCA
* * * * * * *
35885644 CAGTCTTATCTTTCTGAAGTTTCAATGGAGCAGA-CAGAAGA-AA
1 CAATCTTATCTCTCTGAAGTTGCAGTGGAGCGGATTA-AA-ACCA
* * * *
35885687 TCAATCCTATCTCCCTAAAGTTGCAATGGAGCGGATTAAAACCA
1 -CAATCTTATCTCTCTGAAGTTGCAGTGGAGCGGATTAAAACCA
* * * *** *
35885731 CAGATCTTATCTCCCTGAAGTTGCAGTAGAGCAGA-TCGCATC-
1 CA-ATCTTATCTCTCTGAAGTTGCAGTGGAGCGGATTAAAACCA
* * * *
35885773 GAGTCTTATCTCCCTGAAGTTGCAGTGGAGCGGATCAAAA
1 CAATCTTATCTCTCTGAAGTTGCAGTGGAGCGGATTAAAA
35885813 TGATGGATCT
Statistics
Matches: 620, Mismatches: 186, Indels: 99
0.69 0.21 0.11
Matches are distributed among these distances:
39 2 0.00
40 3 0.00
41 183 0.30
42 22 0.04
43 73 0.12
44 327 0.53
45 8 0.01
47 1 0.00
48 1 0.00
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (43 bp):
CAATCTTATCTCTCTGAAGTTGCAGTGGAGCGGATTAAAACCA
Found at i:35885232 original size:129 final size:128
Alignment explanation
Indices: 35884907--35885803 Score: 1256
Period size: 129 Copynumber: 7.0 Consensus size: 128
35884897 AGAACAGATC
* *
35884907 GAAGAAACCAATCCTATCTCCCTGAAGTTGTAGTGGAGTGGATTAAAACCACAGATCTTATCTCT
1 GAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAG-CGATTAAAACCACAGATCTTATCTCT
* *
35884972 CTGAAGTTGCAGTAGAGCAGATCGCATCCAATCTTATCTCCCTGAAGTTGCAGTGGAGCTGAC-
65 CTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACA
* * * * * * *
35885035 GAAGAAATCAATCCTCTCTCTCTAAAGTTGTAGTGGAGTGGATTAAAACCACAGATCTTATCTTT
1 GAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAG-CGATTAAAACCACAGATCTTATCTCT
* * * * * *
35885100 CTGAAGTTACAATAGAGCATATCGCATCCAGTCTTATCTCTCTGAAGATGCAGTGGATCAGACA
65 CTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACA
* *
35885164 GAAGAAACCAATCCTATCTCCCTGAAGTTACAGTGGAGCGACTTAAAACCACAGATCTTATCCCT
1 GAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGA-TTAAAACCACAGATCTTATCTCT
** * * * * * *
35885229 CTGAAGTTTTAGTAGAGCATATCGCATCTAGTCTTATCTCCCTAAAGTTGCAGAGAAGCAGACG
65 CTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACA
* *
35885293 GAAGAAACCAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAACCACAAATCTTATCTCT
1 GAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGC-GATTAAAACCACAGATCTTATCTCT
* * * * *
35885358 CTGAAGTTGTAGTAGAGCAGATTGCATCCAATCTTATCTCCCTGAATTTGCAGTGGAGCAAACA
65 CTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACA
* *
35885422 GAAGAAACTAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCACAGATCTTATCTCT
1 GAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAG-CGATTAAAACCACAGATCTTATCTCT
* *
35885487 CTGAAGTTGCAGTAGAGCAGATTGCATCCAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACA
65 CTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACA
* ** *
35885551 AAAGAAACCAATCCTATCTCTTTGAAGTTGCAGTGGAGCGGATTAAAACCACATATCTTATCTCT
1 GAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGC-GATTAAAACCACAGATCTTATCTCT
* ** * *
35885616 CTGAAGTTGTAGTAGAGCAGATCGCATCCAGTCTTATCTTTCTGAAGTTTCAATGGAGCAGACA
65 CTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACA
* * * *
35885680 GAAGAAATCAATCCTATCTCCCTAAAGTTGCAATGGAGCGGATTAAAACCACAGATCTTATCTCC
1 GAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGC-GATTAAAACCACAGATCTTATCTCT
*
35885745 CTGAAGTTGCAGTAGAGCAGATCGCATCGAGTCTTATCTCCCTGAAGTTGCAGTGGAGC
65 CTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGC
35885804 GGATCAAAAT
Statistics
Matches: 680, Mismatches: 84, Indels: 9
0.88 0.11 0.01
Matches are distributed among these distances:
128 117 0.17
129 561 0.82
130 2 0.00
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (128 bp):
GAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGATTAAAACCACAGATCTTATCTCTC
TGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACA
Found at i:35885398 original size:85 final size:85
Alignment explanation
Indices: 35884916--35885674 Score: 305
Period size: 85 Copynumber: 8.8 Consensus size: 85
35884906 CGAAGAAACC
* * ** * *
35884916 AATCCTATCTCCCTGAAGTTGTAGTGGAGTGGATTAAAACCACAGATCTTATCTCTCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGTAGTAGAGCAGATT-GAATC-CA-ATCTTATCTCTCTGAAGTTG
* * *** *
35884981 CAGTAGAGCAGA-TCGCATC-C-
63 CAGTGGAGCGGATTAAAACCACA
* * * * * *
35885001 AATCTTATCTCCCTGAAGTTGCAGTGGAGCTGACGA-AGAAAT-CAATCCTCTCTCTCTAAAGTT
1 AATCTTATCTCCCTGAAGTTGTAGTAGAGC--A-GATTG-AATCCAATCTTATCTCTCTGAAGTT
* *
35885064 GTAGTGGAGTGGATTAAAACCACA
62 GCAGTGGAGCGGATTAAAACCACA
* ** ** * * * * * *
35885088 GATCTTATCTTTCTGAAGTTACAATAGAGCATATCGCATCCAGTCTTATCTCTCTGAAGATGCAG
1 AATCTTATCTCCCTGAAGTTGTAGTAGAGCAGATTGAATCCAATCTTATCTCTCTGAAGTTGCAG
* * * * *
35885153 TGGATCAGA-CAGAAGA-AACC
66 TGGAGCGGATTA-AA-ACCACA
* ** * * * *
35885173 AATCCTATCTCCCTGAAGTTACAGTGGAGC-GACTTAAAACCACAGATCTTATCCCTCTGAAGTT
1 AATCTTATCTCCCTGAAGTTGTAGTAGAGCAGA-TT-GAATC-CA-ATCTTATCTCTCTGAAGTT
** * * *
35885237 TTAGTAGAGC--A-T--ATCGCATCT
62 GCAGTGGAGCGGATTAAAAC-CA-CA
* * * ** * * *
35885258 AGTCTTATCTCCCTAAAGTTGCAG-AGAAGCAGACGGAAGAAACCAATCCTATCTCCCTGAAGTT
1 AATCTTATCTCCCTGAAGTTGTAGTAG-AGCAGA---TTGAATCCAATCTTATCTCTCTGAAGTT
*
35885322 GTAGTGGAGCGGATTAAAACCACA
62 GCAGTGGAGCGGATTAAAACCACA
* * * *
35885346 AATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATTGCATCCAATCTTATCTCCCTGAATTTGCAG
1 AATCTTATCTCCCTGAAGTTGTAGTAGAGCAGATTGAATCCAATCTTATCTCTCTGAAGTTGCAG
* ** * *
35885411 TGGAGC-AAACAGAAGA-AACT
66 TGGAGCGGATTA-AA-ACCACA
* * * ** * *
35885431 AATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCACAGATCTTATCTCTCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGTAGTAGAGCAGATT-GAATC-CA-ATCTTATCTCTCTGAAGTTG
* * ** *
35885496 CAGTAGAGCAGATT-GCATC-C-
63 CAGTGGAGCGGATTAAAACCACA
* * ** * * *
35885516 AGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACAAAAGAAACCAATCCTATCTCTTTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGTAGTAGAGCAG---ATTGAATCCAATCTTATCTCTCTGAAGTTG
35885581 CAGTGGAGCGGATTAAAACCACA
63 CAGTGGAGCGGATTAAAACCACA
* * * * * * * *
35885604 TATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATCGCATCCAGTCTTATCTTTCTGAAGTTTCAA
1 AATCTTATCTCCCTGAAGTTGTAGTAGAGCAGATTGAATCCAATCTTATCTCTCTGAAGTTGCAG
35885669 TGGAGC
66 TGGAGC
35885675 AGACAGAAGA
Statistics
Matches: 491, Mismatches: 142, Indels: 82
0.69 0.20 0.11
Matches are distributed among these distances:
83 1 0.00
84 34 0.07
85 286 0.58
86 18 0.04
87 38 0.08
88 107 0.22
89 5 0.01
90 2 0.00
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (85 bp):
AATCTTATCTCCCTGAAGTTGTAGTAGAGCAGATTGAATCCAATCTTATCTCTCTGAAGTTGCAG
TGGAGCGGATTAAAACCACA
Found at i:35886719 original size:6 final size:7
Alignment explanation
Indices: 35886703--35886727 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
35886693 GCTGCTGTTC
35886703 TTTTTAT
1 TTTTTAT
35886710 TTTTTAT
1 TTTTTAT
35886717 TTTTTAT
1 TTTTTAT
35886724 TTTT
1 TTTT
35886728 GATTGATTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTAT
Found at i:35887369 original size:3 final size:3
Alignment explanation
Indices: 35887361--35887457 Score: 88
Period size: 3 Copynumber: 32.7 Consensus size: 3
35887351 TTAGTTTAAG
* * * * *
35887361 ATT ATT ATT AAT -TT AGT ATC ATT ATT ATT ATT ATT AGT ACT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
** * * * *
35887408 ATT ATT GGT ATT ATT ATT CTT ATT ATT CTT ATT ATT TTT ATT ATT TTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
35887456 AT
1 AT
35887458 CAACTTATTT
Statistics
Matches: 72, Mismatches: 21, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
2 1 0.01
3 71 0.99
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:35887901 original size:28 final size:28
Alignment explanation
Indices: 35887818--35887909 Score: 96
Period size: 29 Copynumber: 3.2 Consensus size: 28
35887808 CTCTTTTAAA
*
35887818 TATTTTAATATCTTTAATTTATTTCA-ACT
1 TATTTTAATAT-TTTAATTTATTT-ATATT
* *
35887847 TATTTCAATATTGTTAATTAATTTATATT
1 TATTTTAATATT-TTAATTTATTTATATT
* *
35887876 TATTTTAACATTTTAATTTATATATATT
1 TATTTTAATATTTTAATTTATTTATATT
35887904 ATATTT
1 -TATTT
35887910 ATTTCTTAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
28 16 0.30
29 37 0.70
ACGTcount: A:0.34, C:0.05, G:0.01, T:0.60
Consensus pattern (28 bp):
TATTTTAATATTTTAATTTATTTATATT
Found at i:35890104 original size:28 final size:28
Alignment explanation
Indices: 35890039--35890116 Score: 95
Period size: 28 Copynumber: 2.8 Consensus size: 28
35890029 ATGAAAGCTA
**
35890039 AGAAGAGAAAGAAAAGCAAGAGAAGTTG
1 AGAAGAGAAAGAAAAGCAAGAGAAGCAG
* *
35890067 AGGAGAGAAAGAAAAGCGAGAGAAGCAG
1 AGAAGAGAAAGAAAAGCAAGAGAAGCAG
*
35890095 AGAAGTGAAAGAAGAA-CAAGAG
1 AGAAGAGAAAGAA-AAGCAAGAG
35890117 GTTGATGAAG
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
28 40 0.95
29 2 0.05
ACGTcount: A:0.56, C:0.05, G:0.35, T:0.04
Consensus pattern (28 bp):
AGAAGAGAAAGAAAAGCAAGAGAAGCAG
Found at i:35890673 original size:28 final size:28
Alignment explanation
Indices: 35890642--35890695 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
35890632 AAGAATCTCA
*
35890642 AACCATGAACCCAAAAC-CTATAACCTTG
1 AACCATAAACCCAAAACTC-ATAACCTTG
* *
35890670 AACCCTAAATCCAAAACTCATAACCT
1 AACCATAAACCCAAAACTCATAACCT
35890696 ATAACCCCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
28 21 0.95
29 1 0.05
ACGTcount: A:0.44, C:0.33, G:0.04, T:0.19
Consensus pattern (28 bp):
AACCATAAACCCAAAACTCATAACCTTG
Found at i:35891291 original size:28 final size:28
Alignment explanation
Indices: 35891260--35891356 Score: 124
Period size: 28 Copynumber: 3.5 Consensus size: 28
35891250 AAAGCAGAGA
*
35891260 AGAGAAAGAAAAACAAGAGAAGAAGATG
1 AGAGAAAGAAAAACAAAAGAAGAAGATG
*
35891288 AGAGAAAGAAAAGCAAAAGAAGAAGA-G
1 AGAGAAAGAAAAACAAAAGAAGAAGATG
* * * *
35891315 AAGAGAAATAAAACCAAAAGAAGAAAATA
1 -AGAGAAAGAAAAACAAAAGAAGAAGATG
35891344 AGAGAAAGAAAAA
1 AGAGAAAGAAAAA
35891357 TAAGAGGTTG
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
27 1 0.02
28 58 0.98
ACGTcount: A:0.69, C:0.04, G:0.24, T:0.03
Consensus pattern (28 bp):
AGAGAAAGAAAAACAAAAGAAGAAGATG
Found at i:35892537 original size:27 final size:27
Alignment explanation
Indices: 35892460--35892543 Score: 96
Period size: 27 Copynumber: 3.1 Consensus size: 27
35892450 ATGGAAAGGT
**
35892460 GAAAGCAGAGAAGAGAAAGAAATGCAA
1 GAAAGCAGAGAAGAGAAAGAAAAACAA
** * *
35892487 GAGAAGTTGAGTAGAAAAAGAAAAACAA
1 GA-AAGCAGAGAAGAGAAAGAAAAACAA
*
35892515 GAAAGCGGAGAAGAGAAAGAAAAACAA
1 GAAAGCAGAGAAGAGAAAGAAAAACAA
35892542 GA
1 GA
35892544 GGTTGATGAA
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
27 25 0.54
28 21 0.46
ACGTcount: A:0.61, C:0.06, G:0.29, T:0.05
Consensus pattern (27 bp):
GAAAGCAGAGAAGAGAAAGAAAAACAA
Found at i:35892554 original size:27 final size:26
Alignment explanation
Indices: 35892467--35892555 Score: 79
Period size: 27 Copynumber: 3.3 Consensus size: 26
35892457 GGTGAAAGCA
**
35892467 GAGAAGAGAAAGAAATGCAAGAGAAGTT
1 GAGAAGAGAAAGAAAAACAAGAG--GTT
* * * **
35892495 GAGTAGAAAAAGAAAAACAAGAAAGCG
1 GAGAAGAGAAAGAAAAACAAG-AGGTT
35892522 GAGAAGAGAAAGAAAAACAAGAGGTT
1 GAGAAGAGAAAGAAAAACAAGAGGTT
35892548 GATGAAGA
1 GA-GAAGA
35892556 TGAAGATGAA
Statistics
Matches: 47, Mismatches: 12, Indels: 5
0.73 0.19 0.08
Matches are distributed among these distances:
26 4 0.09
27 25 0.53
28 17 0.36
29 1 0.02
ACGTcount: A:0.57, C:0.04, G:0.30, T:0.08
Consensus pattern (26 bp):
GAGAAGAGAAAGAAAAACAAGAGGTT
Found at i:35893158 original size:28 final size:28
Alignment explanation
Indices: 35893114--35893167 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
35893104 CAAAACCTAG
* *
35893114 AACCCTAAACTCTAAACATGTAACCCCA
1 AACCCTAAACTCCAAACATATAACCCCA
*
35893142 AACCCTAAA-TCACAAACTTATAACCC
1 AACCCTAAACTC-CAAACATATAACCC
35893168 ATAACCTCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 2 0.09
28 20 0.91
ACGTcount: A:0.44, C:0.35, G:0.02, T:0.19
Consensus pattern (28 bp):
AACCCTAAACTCCAAACATATAACCCCA
Found at i:35893769 original size:28 final size:28
Alignment explanation
Indices: 35893727--35893812 Score: 109
Period size: 28 Copynumber: 3.0 Consensus size: 28
35893717 ATGGAAACGT
*
35893727 GAAAGCAGAGAAGAGAAAGAAAAGCAAGC
1 GAAA-CAGAGAAGAGAAAGAAAAGCAAGA
** *
35893756 GAAGTAGAGTAGAGAAAGAAAAGCAAGA
1 GAAACAGAGAAGAGAAAGAAAAGCAAGA
* *
35893784 GAAACAGAGAAGAGAAATAAAAACAAGA
1 GAAACAGAGAAGAGAAAGAAAAGCAAGA
35893812 G
1 G
35893813 GTTGACAAAG
Statistics
Matches: 48, Mismatches: 9, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
28 45 0.94
29 3 0.06
ACGTcount: A:0.60, C:0.07, G:0.29, T:0.03
Consensus pattern (28 bp):
GAAACAGAGAAGAGAAAGAAAAGCAAGA
Found at i:35894382 original size:7 final size:7
Alignment explanation
Indices: 35894370--35894398 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
35894360 ATTTTTTTGG
35894370 AGAAGAT
1 AGAAGAT
35894377 AGAAGAT
1 AGAAGAT
35894384 AGAAGAT
1 AGAAGAT
35894391 AGAAGAT
1 AGAAGAT
35894398 A
1 A
35894399 TTTAAAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.28, T:0.14
Consensus pattern (7 bp):
AGAAGAT
Found at i:35894743 original size:28 final size:27
Alignment explanation
Indices: 35894707--35894790 Score: 114
Period size: 28 Copynumber: 3.0 Consensus size: 27
35894697 ACATGAAAGG
35894707 AGAGAAGAGAAAGAAAAGCAAGAGAAGT
1 AGAGAAGAGAAAGAAAA-CAAGAGAAGT
* * *
35894735 AGAGGAGAGAAAGAAACACAAAAGAAGC
1 AGAGAAGAGAAAGAAA-ACAAGAGAAGT
35894763 AGAGAAGAGAAAGAAAAACAAGAGAAGT
1 AGAGAAGAGAAAG-AAAACAAGAGAAGT
35894791 GTAACATCCC
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
28 44 0.92
29 4 0.08
ACGTcount: A:0.62, C:0.06, G:0.30, T:0.02
Consensus pattern (27 bp):
AGAGAAGAGAAAGAAAACAAGAGAAGT
Found at i:35898512 original size:28 final size:28
Alignment explanation
Indices: 35898481--35898606 Score: 135
Period size: 28 Copynumber: 4.5 Consensus size: 28
35898471 AGGAGAGAAA
* * *
35898481 AGAAAGAAAGACTAGAGAAGTAGAGGAG
1 AGAAAGAAAAACAAGAGAAGCAGAGGAG
* *
35898509 AGAAAGAAACACAAGAGAAGCAGAGAAG
1 AGAAAGAAAAACAAGAGAAGCAGAGGAG
* * *
35898537 TGAAAGAAAAACAAAAGAAGCAAAGGAG
1 AGAAAGAAAAACAAGAGAAGCAGAGGAG
** * * *
35898565 AGAAAGAAACGCAAGAGAAACAAAGCAG
1 AGAAAGAAAAACAAGAGAAGCAGAGGAG
35898593 AGAAAGAAAAACAA
1 AGAAAGAAAAACAA
35898607 AAGGTTGATG
Statistics
Matches: 81, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 81 1.00
ACGTcount: A:0.62, C:0.09, G:0.27, T:0.02
Consensus pattern (28 bp):
AGAAAGAAAAACAAGAGAAGCAGAGGAG
Found at i:35898534 original size:56 final size:56
Alignment explanation
Indices: 35898474--35898609 Score: 173
Period size: 56 Copynumber: 2.4 Consensus size: 56
35898464 ACATGAAAGG
* * * * * * *
35898474 AGAGAAAAGAAAGAAAGACTAGAGAAGTAGAGGAGAGAAAGAAACACAAGAGAAGC
1 AGAGAAGAGAAAGAAAAACAAAAGAAGCAAAGGAGAGAAAGAAACACAAGAGAAAC
* *
35898530 AGAGAAGTGAAAGAAAAACAAAAGAAGCAAAGGAGAGAAAGAAACGCAAGAGAAAC
1 AGAGAAGAGAAAGAAAAACAAAAGAAGCAAAGGAGAGAAAGAAACACAAGAGAAAC
* *
35898586 AAAGCAGAGAAAGAAAAACAAAAG
1 AGAGAAGAGAAAGAAAAACAAAAG
35898610 GTTGATGAAG
Statistics
Matches: 68, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
56 68 1.00
ACGTcount: A:0.62, C:0.08, G:0.27, T:0.02
Consensus pattern (56 bp):
AGAGAAGAGAAAGAAAAACAAAAGAAGCAAAGGAGAGAAAGAAACACAAGAGAAAC
Found at i:35898583 original size:15 final size:13
Alignment explanation
Indices: 35898558--35898601 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
35898548 CAAAAGAAGC
*
35898558 AAAGGAGAGAAAG
1 AAAGCAGAGAAAG
*
35898571 AAACGCAAGAGAAAC
1 AAA-GC-AGAGAAAG
35898586 AAAGCAGAGAAAG
1 AAAGCAGAGAAAG
35898599 AAA
1 AAA
35898602 AACAAAAGGT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
13 13 0.50
14 3 0.12
15 10 0.38
ACGTcount: A:0.64, C:0.09, G:0.27, T:0.00
Consensus pattern (13 bp):
AAAGCAGAGAAAG
Found at i:35899245 original size:7 final size:7
Alignment explanation
Indices: 35899233--35899266 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
35899223 AACCTTAAAT
*
35899233 TTTAGGA
1 TTTAGGG
35899240 TTTAGGG
1 TTTAGGG
35899247 TTTAGGG
1 TTTAGGG
35899254 TTTAGGG
1 TTTAGGG
35899261 TTTAGG
1 TTTAGG
35899267 ATTCATGGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.18, C:0.00, G:0.38, T:0.44
Consensus pattern (7 bp):
TTTAGGG
Found at i:35899276 original size:21 final size:21
Alignment explanation
Indices: 35899233--35899277 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
35899223 AACCTTAAAT
* *
35899233 TTTAGGATTTAGGGTTTAGGG
1 TTTAGGATTTAGGATTCAGGG
* *
35899254 TTTAGGGTTTAGGATTCATGG
1 TTTAGGATTTAGGATTCAGGG
35899275 TTT
1 TTT
35899278 GAGTTCAAGG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.18, C:0.02, G:0.33, T:0.47
Consensus pattern (21 bp):
TTTAGGATTTAGGATTCAGGG
Found at i:35899277 original size:14 final size:14
Alignment explanation
Indices: 35899233--35899269 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
35899223 AACCTTAAAT
35899233 TTTAGGATTTAGGG
1 TTTAGGATTTAGGG
*
35899247 TTTAGGGTTTAGGG
1 TTTAGGATTTAGGG
35899261 TTTAGGATT
1 TTTAGGATT
35899270 CATGGTTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.35, T:0.46
Consensus pattern (14 bp):
TTTAGGATTTAGGG
Found at i:35900717 original size:26 final size:26
Alignment explanation
Indices: 35900688--35900742 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
35900678 TTTGCCACAT
* *
35900688 ATACTGTTATTGGTAGCTTCGCTGCG
1 ATACTGTTACTGGCAGCTTCGCTGCG
* *
35900714 ATACTTTTACTGGCAGCTTTGCTGCG
1 ATACTGTTACTGGCAGCTTCGCTGCG
35900740 ATA
1 ATA
35900743 TTGGTGTGTT
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:0.18, C:0.20, G:0.24, T:0.38
Consensus pattern (26 bp):
ATACTGTTACTGGCAGCTTCGCTGCG
Found at i:35906866 original size:45 final size:45
Alignment explanation
Indices: 35906802--35906892 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
35906792 TTAAAATTTG
35906802 CAAAATCCTTTGTTTTTTATGTGTATCATCCATACCCTCTTAGAA
1 CAAAATCCTTTGTTTTTTATGTGTATCATCCATACCCTCTTAGAA
35906847 CAAAATCCTTTGTTTTTTATGTGTATCATCCATACCCTCTTAGAA
1 CAAAATCCTTTGTTTTTTATGTGTATCATCCATACCCTCTTAGAA
35906892 C
1 C
35906893 TAGTTATAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.26, C:0.23, G:0.09, T:0.42
Consensus pattern (45 bp):
CAAAATCCTTTGTTTTTTATGTGTATCATCCATACCCTCTTAGAA
Found at i:35908336 original size:40 final size:39
Alignment explanation
Indices: 35908276--35908496 Score: 289
Period size: 40 Copynumber: 5.5 Consensus size: 39
35908266 AAGTATAAAC
* * * *
35908276 AGGGCCACGTATGTGCAACCAGATGTACCGAAATACAAGT
1 AGGGGCACGTATGTGCAATCAG-GGTACCGAAGTACAAGT
* * *
35908316 AGGGGCACGTATGTGCAACCAGATGTACCGAAATACAAGT
1 AGGGGCACGTATGTGCAATCAG-GGTACCGAAGTACAAGT
35908356 AGGGGCACGTATGTGCAATCATGGGTACCGAAGTACAAGT
1 AGGGGCACGTATGTGCAATCA-GGGTACCGAAGTACAAGT
*
35908396 AGGGGCACGTATGTGCAATCAGGGGTACCGAAGTACAAGC
1 AGGGGCACGTATGTGCAATCA-GGGTACCGAAGTACAAGT
* **
35908436 AGGGGCACGTATATGCAATCAGGGATACCGAAGTACAAAC
1 AGGGGCACGTATGTGCAATCAGGG-TACCGAAGTACAAGT
*
35908476 AGAGGCACGTATGTGCAATCA
1 AGGGGCACGTATGTGCAATCA
35908497 TGTATAATTA
Statistics
Matches: 169, Mismatches: 10, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
39 3 0.02
40 165 0.98
41 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.29, T:0.17
Consensus pattern (39 bp):
AGGGGCACGTATGTGCAATCAGGGTACCGAAGTACAAGT
Found at i:35908438 original size:20 final size:20
Alignment explanation
Indices: 35908378--35908440 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
35908368 GTGCAATCAT
*
35908378 GGGTACCGAAGTACAAGTAG
1 GGGTACCGAAGTACAAGCAG
* * * *
35908398 GGGCA-CGTATGTGCAATCAG
1 GGGTACCG-AAGTACAAGCAG
35908418 GGGTACCGAAGTACAAGCAG
1 GGGTACCGAAGTACAAGCAG
35908438 GGG
1 GGG
35908441 CACGTATATG
Statistics
Matches: 32, Mismatches: 9, Indels: 4
0.71 0.20 0.09
Matches are distributed among these distances:
19 2 0.06
20 28 0.88
21 2 0.06
ACGTcount: A:0.30, C:0.17, G:0.38, T:0.14
Consensus pattern (20 bp):
GGGTACCGAAGTACAAGCAG
Found at i:35908458 original size:20 final size:20
Alignment explanation
Indices: 35908396--35908459 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
35908386 AAGTACAAGT
*
35908396 AGGGGCACGTATGTGCAATC
1 AGGGGCACGTATATGCAATC
* * *
35908416 AGGGGTACCG-A-AGTACAAGC
1 AGGGGCA-CGTATA-TGCAATC
35908436 AGGGGCACGTATATGCAATC
1 AGGGGCACGTATATGCAATC
35908456 AGGG
1 AGGG
35908460 ATACCGAAGT
Statistics
Matches: 33, Mismatches: 7, Indels: 8
0.69 0.15 0.17
Matches are distributed among these distances:
19 2 0.06
20 28 0.85
21 3 0.09
ACGTcount: A:0.30, C:0.19, G:0.36, T:0.16
Consensus pattern (20 bp):
AGGGGCACGTATATGCAATC
Found at i:35910851 original size:18 final size:18
Alignment explanation
Indices: 35910818--35910853 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
35910808 CATCAGCAGA
**
35910818 CAACGTCAATTGCGTATT
1 CAACGTCAATCACGTATT
35910836 CAACGTCAATCACGTATT
1 CAACGTCAATCACGTATT
35910854 TCAAAAGAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.31
Consensus pattern (18 bp):
CAACGTCAATCACGTATT
Found at i:35918103 original size:20 final size:20
Alignment explanation
Indices: 35918078--35918223 Score: 91
Period size: 20 Copynumber: 7.3 Consensus size: 20
35918068 GAAGTATAAA
*
35918078 CAGGGGCACATATGTGCAAT
1 CAGGGGCACGTATGTGCAAT
* * * *
35918098 CAGGGGTACCG-AAGTACAAG
1 CAGGGGCA-CGTATGTGCAAT
35918118 CAGGGGCACGTATGTGCAAT
1 CAGGGGCACGTATGTGCAAT
* * * * *
35918138 CATGGGTATCG-AAGTACAAG
1 CAGGGGCA-CGTATGTGCAAT
* *
35918158 CAGGGGCACGTATGAGGAAT
1 CAGGGGCACGTATGTGCAAT
* * * *
35918178 CAGGGGTACCG-AAGTACAAA
1 CAGGGGCA-CGTATGTGCAAT
*
35918198 CAAGGGCACGTATGTGCAAT
1 CAGGGGCACGTATGTGCAAT
35918218 CAGGGG
1 CAGGGG
35918224 TACCAAGTAC
Statistics
Matches: 87, Mismatches: 33, Indels: 12
0.66 0.25 0.09
Matches are distributed among these distances:
19 6 0.07
20 76 0.87
21 5 0.06
ACGTcount: A:0.32, C:0.18, G:0.34, T:0.16
Consensus pattern (20 bp):
CAGGGGCACGTATGTGCAAT
Found at i:35918123 original size:40 final size:40
Alignment explanation
Indices: 35918068--35918258 Score: 260
Period size: 40 Copynumber: 4.8 Consensus size: 40
35918058 TGAAATTACT
* *
35918068 GAAGTATAAACAGGGGCACATATGTGCAATCAGGGGTACC
1 GAAGTACAAACAGGGGCACGTATGTGCAATCAGGGGTACC
* * *
35918108 GAAGTACAAGCAGGGGCACGTATGTGCAATCATGGGTATC
1 GAAGTACAAACAGGGGCACGTATGTGCAATCAGGGGTACC
* * *
35918148 GAAGTACAAGCAGGGGCACGTATGAGGAATCAGGGGTACC
1 GAAGTACAAACAGGGGCACGTATGTGCAATCAGGGGTACC
*
35918188 GAAGTACAAACAAGGGCACGTATGTGCAATCAGGGGTACC
1 GAAGTACAAACAGGGGCACGTATGTGCAATCAGGGGTACC
* *
35918228 -AAGTACAAA-TGGGGCCATGTATGTGCAATCA
1 GAAGTACAAACAGGGG-CACGTATGTGCAATCA
35918259 TGTATAATTA
Statistics
Matches: 134, Mismatches: 16, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
38 3 0.02
39 24 0.18
40 107 0.80
ACGTcount: A:0.34, C:0.18, G:0.31, T:0.17
Consensus pattern (40 bp):
GAAGTACAAACAGGGGCACGTATGTGCAATCAGGGGTACC
Found at i:35925243 original size:42 final size:42
Alignment explanation
Indices: 35925196--35925349 Score: 229
Period size: 42 Copynumber: 3.7 Consensus size: 42
35925186 TACACCTGCT
* * *
35925196 TTAAGCCTGCTAAACTTATAGTCCGAATTTATTTCACTGGCA
1 TTAAGCCTGCTAAACGTAAAGTCTGAATTTATTTCACTGGCA
* *
35925238 TTAAGCCTGCTAGACGTAAAGTCTGAATTTATTTCACCGGCA
1 TTAAGCCTGCTAAACGTAAAGTCTGAATTTATTTCACTGGCA
*
35925280 TTAAGCCTGCTAAACGTAAAGTCTGAATTTATTTCACTAGCA
1 TTAAGCCTGCTAAACGTAAAGTCTGAATTTATTTCACTGGCA
*
35925322 TTAAGCATGC-AAGACGTAAAGTCTGAAT
1 TTAAGCCTGCTAA-ACGTAAAGTCTGAAT
35925350 GGTTTCACTG
Statistics
Matches: 102, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
41 2 0.02
42 100 0.98
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (42 bp):
TTAAGCCTGCTAAACGTAAAGTCTGAATTTATTTCACTGGCA
Found at i:35925309 original size:84 final size:84
Alignment explanation
Indices: 35925196--35925349 Score: 254
Period size: 84 Copynumber: 1.8 Consensus size: 84
35925186 TACACCTGCT
* * * * *
35925196 TTAAGCCTGCTAAACTTATAGTCCGAATTTATTTCACTGGCATTAAGCCTGCTAGACGTAAAGTC
1 TTAAGCCTGCTAAACGTAAAGTCCGAATTTATTTCACTAGCATTAAGCATGCAAGACGTAAAGTC
35925261 TGAATTTATTTCACCGGCA
66 TGAATTTATTTCACCGGCA
*
35925280 TTAAGCCTGCTAAACGTAAAGTCTGAATTTATTTCACTAGCATTAAGCATGCAAGACGTAAAGTC
1 TTAAGCCTGCTAAACGTAAAGTCCGAATTTATTTCACTAGCATTAAGCATGCAAGACGTAAAGTC
35925345 TGAAT
66 TGAAT
35925350 GGTTTCACTG
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
84 64 1.00
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (84 bp):
TTAAGCCTGCTAAACGTAAAGTCCGAATTTATTTCACTAGCATTAAGCATGCAAGACGTAAAGTC
TGAATTTATTTCACCGGCA
Found at i:35925882 original size:47 final size:46
Alignment explanation
Indices: 35925808--35925898 Score: 121
Period size: 47 Copynumber: 2.0 Consensus size: 46
35925798 ATATTCGAAT
35925808 TTATAATATACATAAATAAATTCATACTTAATTTCAAAACAAGATC
1 TTATAATATACATAAATAAATTCATACTTAATTTCAAAACAAGATC
* * * *
35925854 TTAT-ATATATATATATATAATTCTATACTTATTTTCGAAACAAGA
1 TTATAATATACATAAATA-AATTC-ATACTTAATTTCAAAACAAGA
35925899 ACTTGTACCT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
45 11 0.28
46 9 0.23
47 19 0.49
ACGTcount: A:0.46, C:0.11, G:0.03, T:0.40
Consensus pattern (46 bp):
TTATAATATACATAAATAAATTCATACTTAATTTCAAAACAAGATC
Found at i:35926048 original size:2 final size:2
Alignment explanation
Indices: 35926041--35926084 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
35926031 TATTTGATAC
* *
35926041 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT CT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
35926083 AT
1 AT
35926085 CTATTCGCAT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:35929427 original size:19 final size:17
Alignment explanation
Indices: 35929385--35929427 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 17
35929375 CGAATTGGGC
*
35929385 CGTGTGGGCCACATGGG
1 CGTGTGGGCCACATGGA
*
35929402 CGCGTGGGCCCCACATGGA
1 CGTGTGGG--CCACATGGA
35929421 CGTGTGG
1 CGTGTGG
35929428 AAATATTAGG
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 7 0.33
19 14 0.67
ACGTcount: A:0.12, C:0.28, G:0.44, T:0.16
Consensus pattern (17 bp):
CGTGTGGGCCACATGGA
Found at i:35950855 original size:12 final size:12
Alignment explanation
Indices: 35950838--35950866 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
35950828 GTCACATATT
35950838 TACATGTCATGA
1 TACATGTCATGA
35950850 TACATGTCATGA
1 TACATGTCATGA
35950862 TACAT
1 TACAT
35950867 ATCTTTGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.34
Consensus pattern (12 bp):
TACATGTCATGA
Found at i:35950921 original size:17 final size:18
Alignment explanation
Indices: 35950901--35950941 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
35950891 ATAAACATAA
35950901 ATCATTCATTTCAT-TAT-
1 ATCATT-ATTTCATGTATC
*
35950918 ATCAATATTTCATGTATC
1 ATCATTATTTCATGTATC
35950936 ATCATT
1 ATCATT
35950942 TTCATGAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 7 0.35
17 8 0.40
18 5 0.25
ACGTcount: A:0.32, C:0.17, G:0.02, T:0.49
Consensus pattern (18 bp):
ATCATTATTTCATGTATC
Found at i:35958830 original size:20 final size:20
Alignment explanation
Indices: 35958805--35958842 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
35958795 ACATTTCACA
35958805 ATAAAAA-TTAAAATAAAAGC
1 ATAAAAATTTAAAA-AAAAGC
35958825 ATAAAAATTTAAAAAAAA
1 ATAAAAATTTAAAAAAAA
35958843 TTCCTATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.21
Consensus pattern (20 bp):
ATAAAAATTTAAAAAAAAGC
Done.