Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007725.1 Hibiscus syriacus cultivar Beakdansim tig00109972_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 3026330
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 12 of 14
Found at i:2568092 original size:31 final size:29
Alignment explanation
Indices: 2568025--2568111 Score: 102
Period size: 31 Copynumber: 2.9 Consensus size: 29
2568015 CAGTACCGGG
*
2568025 GGTAGGTCGCCATGCACGCCCGGCGACCT
1 GGTAGGTCGCCATGCACGCCCAGCGACCT
***
2568054 ACCAGGTCGCCATGCACGCCAGCAGCGACCT
1 GGTAGGTCGCCATGCACGCC--CAGCGACCT
* *
2568085 GGTAGGTCGCCATGCATGCCCTGCGAC
1 GGTAGGTCGCCATGCACGCCCAGCGAC
2568112 TACCAGCCAA
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
29 23 0.49
31 24 0.51
ACGTcount: A:0.17, C:0.38, G:0.31, T:0.14
Consensus pattern (29 bp):
GGTAGGTCGCCATGCACGCCCAGCGACCT
Found at i:2568253 original size:29 final size:29
Alignment explanation
Indices: 2568211--2568297 Score: 120
Period size: 29 Copynumber: 3.0 Consensus size: 29
2568201 ACCGGGGGTA
*
2568211 GTCGCCATGCACGCCCGGCGACCTACCAG
1 GTCGCCATGCACGCCCAGCGACCTACCAG
***
2568240 GTCGCCATGCACGCCCAGCGACCTGGTAG
1 GTCGCCATGCACGCCCAGCGACCTACCAG
* *
2568269 GTCGCCATGCATGCCCTGCGACCTACCAG
1 GTCGCCATGCACGCCCAGCGACCTACCAG
2568298 CCAACGACCT
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 49 1.00
ACGTcount: A:0.17, C:0.41, G:0.28, T:0.14
Consensus pattern (29 bp):
GTCGCCATGCACGCCCAGCGACCTACCAG
Found at i:2568352 original size:181 final size:181
Alignment explanation
Indices: 2568017--2568380 Score: 671
Period size: 181 Copynumber: 2.0 Consensus size: 181
2568007 GTCCTCTACA
2568017 GTACCGGGGGTAGGTCGCCATGCACGCCCGGCGACCTACCAGGTCGCCATGCACGCCAGCAGCGA
1 GTACCGGGGGTAGGTCGCCATGCACGCCCGGCGACCTACCAGGTCGCCATGCACGCCA-CAGCGA
2568082 CCTGGTAGGTCGCCATGCATGCCCTGCGACTACCAGCCAACGACCCTCCATGCCCATGCACGCCA
65 CCTGGTAGGTCGCCATGCATGCCCTGCGACTACCAGCCAACGACCCTCCATGCCCATGCACGCCA
2568147 TCTCGCCAAAGGAGCACGCCATCCATGCTCGCGACCTTGCCGGGACTCCATG
130 TCTCGCCAAAGGAGCACGCCATCCATGCTCGCGACCTTGCCGGGACTCCATG
2568199 GTACCGGGGGTA-GTCGCCATGCACGCCCGGCGACCTACCAGGTCGCCATGCACGCC-CAGCGAC
1 GTACCGGGGGTAGGTCGCCATGCACGCCCGGCGACCTACCAGGTCGCCATGCACGCCACAGCGAC
2568262 CTGGTAGGTCGCCATGCATGCCCTGCGACCTACCAGCCAACGA-CCTCCATGCCCATGCACGCCC
66 CTGGTAGGTCGCCATGCATGCCCTGCGA-CTACCAGCCAACGACCCTCCATGCCCATGCACG-CC
2568326 ATCTCGCCAAAGGAGCACGCCCATCCATGCTCGCGACCTTGCCGGGACTCCATG
129 ATCTCGCCAAAGGAGCACG-CCATCCATGCTCGCGACCTTGCCGGGACTCCATG
2568380 G
1 G
2568381 CCCCGAGTGT
Statistics
Matches: 179, Mismatches: 0, Indels: 7
0.96 0.00 0.04
Matches are distributed among these distances:
179 53 0.30
180 35 0.20
181 79 0.44
182 12 0.07
ACGTcount: A:0.19, C:0.40, G:0.27, T:0.14
Consensus pattern (181 bp):
GTACCGGGGGTAGGTCGCCATGCACGCCCGGCGACCTACCAGGTCGCCATGCACGCCACAGCGAC
CTGGTAGGTCGCCATGCATGCCCTGCGACTACCAGCCAACGACCCTCCATGCCCATGCACGCCAT
CTCGCCAAAGGAGCACGCCATCCATGCTCGCGACCTTGCCGGGACTCCATG
Found at i:2568439 original size:29 final size:29
Alignment explanation
Indices: 2568407--2568465 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
2568397 CATGAACCGT
*
2568407 TCCTTGGTCGCCCCGAGTGCATGGCGACC
1 TCCTTGGTCGCCACGAGTGCATGGCGACC
* * *
2568436 TCCTTGGTCGTCAGGCGTGCATGGCGACC
1 TCCTTGGTCGCCACGAGTGCATGGCGACC
2568465 T
1 T
2568466 AGGAGGTCGC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.10, C:0.34, G:0.32, T:0.24
Consensus pattern (29 bp):
TCCTTGGTCGCCACGAGTGCATGGCGACC
Found at i:2568473 original size:29 final size:29
Alignment explanation
Indices: 2568421--2568495 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 29
2568411 TGGTCGCCCC
* **
2568421 GAGTGCATGGCGACCTCCTTGGTCG-TCAG
1 GAGTGCATGGCGACCTACGAGGTCGCT-AG
* * *
2568450 GCGTGCATGGCGACCTAGGAGGTCGCTGG
1 GAGTGCATGGCGACCTACGAGGTCGCTAG
2568479 GAGTGCATGGCGACCTA
1 GAGTGCATGGCGACCTA
2568496 TGGTTGGGTT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
29 37 0.97
30 1 0.03
ACGTcount: A:0.16, C:0.25, G:0.39, T:0.20
Consensus pattern (29 bp):
GAGTGCATGGCGACCTACGAGGTCGCTAG
Found at i:2571829 original size:21 final size:21
Alignment explanation
Indices: 2571800--2571847 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
2571790 CCTAATATTG
*
2571800 CAATATCAAAATTAGATGCAA
1 CAATGTCAAAATTAGATGCAA
*
2571821 CAATGTCAAAATTAGGTGCAA
1 CAATGTCAAAATTAGATGCAA
*
2571842 TAATGT
1 CAATGT
2571848 TTGAAAATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.46, C:0.12, G:0.15, T:0.27
Consensus pattern (21 bp):
CAATGTCAAAATTAGATGCAA
Found at i:2576365 original size:21 final size:21
Alignment explanation
Indices: 2576340--2576381 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
2576330 CCTAATATTG
2576340 CAATGTCAAAATTAGGTGCAA
1 CAATGTCAAAATTAGGTGCAA
2576361 CAATGTCAAAATTAGGTGCAA
1 CAATGTCAAAATTAGGTGCAA
2576382 TAATATTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.19, T:0.24
Consensus pattern (21 bp):
CAATGTCAAAATTAGGTGCAA
Found at i:2577514 original size:19 final size:16
Alignment explanation
Indices: 2577484--2577532 Score: 53
Period size: 19 Copynumber: 2.8 Consensus size: 16
2577474 AATTGATGAC
2577484 TAAATAAAATAATTAAT
1 TAAAT-AAATAATTAAT
*
2577501 ATAAAAGTAAATAATTGAT
1 -T-AAA-TAAATAATTAAT
2577520 TAAATAAATAATT
1 TAAATAAATAATT
2577533 TATCTTTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
16 9 0.32
17 3 0.11
18 2 0.07
19 13 0.46
20 1 0.04
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (16 bp):
TAAATAAATAATTAAT
Found at i:2590608 original size:17 final size:17
Alignment explanation
Indices: 2590586--2590618 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
2590576 GTTGGTCGTA
2590586 GGTCGCCATGCCTTCCG
1 GGTCGCCATGCCTTCCG
*
2590603 GGTCGCCATGTCTTCC
1 GGTCGCCATGCCTTCC
2590619 CGACGAGCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.06, C:0.39, G:0.27, T:0.27
Consensus pattern (17 bp):
GGTCGCCATGCCTTCCG
Found at i:2590679 original size:10 final size:10
Alignment explanation
Indices: 2590666--2590739 Score: 53
Period size: 10 Copynumber: 7.0 Consensus size: 10
2590656 CCAACACGCT
2590666 GGCCATCCGA
1 GGCCATCCGA
2590676 GGCCATCCGACCGA
1 GGCCAT----CCGA
* *
2590690 GGCTATCTGA
1 GGCCATCCGA
2590700 GAG-CATCCGA
1 G-GCCATCCGA
2590710 GGCCATCCGA
1 GGCCATCCGA
*
2590720 GAG-CATCTGA
1 G-GCCATCCGA
2590730 GGCCATCCGA
1 GGCCATCCGA
2590740 ACGAGCTATG
Statistics
Matches: 50, Mismatches: 6, Indels: 16
0.69 0.08 0.22
Matches are distributed among these distances:
9 2 0.04
10 37 0.74
11 2 0.04
14 9 0.18
ACGTcount: A:0.23, C:0.34, G:0.30, T:0.14
Consensus pattern (10 bp):
GGCCATCCGA
Found at i:2590711 original size:20 final size:20
Alignment explanation
Indices: 2590686--2590739 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
2590676 GGCCATCCGA
* *
2590686 CCGAGGCTATCTGAGAGCAT
1 CCGAGGCCATCCGAGAGCAT
2590706 CCGAGGCCATCCGAGAGCAT
1 CCGAGGCCATCCGAGAGCAT
*
2590726 CTGAGGCCATCCGA
1 CCGAGGCCATCCGA
2590740 ACGAGCTATG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.24, C:0.31, G:0.30, T:0.15
Consensus pattern (20 bp):
CCGAGGCCATCCGAGAGCAT
Found at i:2590779 original size:33 final size:33
Alignment explanation
Indices: 2590736--2590843 Score: 207
Period size: 33 Copynumber: 3.3 Consensus size: 33
2590726 CTGAGGCCAT
*
2590736 CCGAACGAGCTATGCGAGGGAATCCGAGGGCAG
1 CCGAGCGAGCTATGCGAGGGAATCCGAGGGCAG
2590769 CCGAGCGAGCTATGCGAGGGAATCCGAGGGCAG
1 CCGAGCGAGCTATGCGAGGGAATCCGAGGGCAG
2590802 CCGAGCGAGCTATGCGAGGGAATCCGAGGGCAG
1 CCGAGCGAGCTATGCGAGGGAATCCGAGGGCAG
2590835 CCGAGCGAG
1 CCGAGCGAG
2590844 GGTAGGTCGC
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
33 74 1.00
ACGTcount: A:0.25, C:0.25, G:0.42, T:0.08
Consensus pattern (33 bp):
CCGAGCGAGCTATGCGAGGGAATCCGAGGGCAG
Found at i:2590880 original size:29 final size:29
Alignment explanation
Indices: 2590847--2590902 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
2590837 GAGCGAGGGT
*
2590847 AGGTCGCCCGGAGTGCATGGCGACCTACA
1 AGGTCGCCCGGAGGGCATGGCGACCTACA
2590876 AGGTCGCCCGGAGGGCATGGCGACCTA
1 AGGTCGCCCGGAGGGCATGGCGACCTA
2590903 TGTGTTGGGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.20, C:0.30, G:0.38, T:0.12
Consensus pattern (29 bp):
AGGTCGCCCGGAGGGCATGGCGACCTACA
Found at i:2591007 original size:29 final size:29
Alignment explanation
Indices: 2590961--2591017 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
2590951 GAACAAGGGT
2590961 AGGTCGCCCGGAGTGCATGGCGACCTACA
1 AGGTCGCCCGGAGTGCATGGCGACCTACA
2590990 AGGTCGCCCGGAAG-GCATGGCGACCTAC
1 AGGTCGCCCGG-AGTGCATGGCGACCTAC
2591018 GACCAACACT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 25 0.93
30 2 0.07
ACGTcount: A:0.21, C:0.32, G:0.35, T:0.12
Consensus pattern (29 bp):
AGGTCGCCCGGAGTGCATGGCGACCTACA
Found at i:2592416 original size:2 final size:2
Alignment explanation
Indices: 2592409--2592591 Score: 133
Period size: 2 Copynumber: 94.0 Consensus size: 2
2592399 AATTATTGAA
* * * * *
2592409 TC TC TC TC TC TC CC CC TC TC TC CC CC TC TC TC TC TC CC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
* * * *
2592451 CC TC TC CC TC TC TC CC TC TC -C T- TC TC TC TC CC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
* * * * * * *
2592491 CC TC CC TC TC AC TC TC TC -C CC TC CC TC TC TC CC TC TC AC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
* * * * * *
2592532 CC CC CC TC -C CC CC TC TC -C CC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
2592572 TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC
2592592 ATTTGTGTTT
Statistics
Matches: 145, Mismatches: 31, Indels: 10
0.78 0.17 0.05
Matches are distributed among these distances:
1 5 0.03
2 140 0.97
ACGTcount: A:0.01, C:0.62, G:0.00, T:0.37
Consensus pattern (2 bp):
TC
Found at i:2615256 original size:121 final size:122
Alignment explanation
Indices: 2615116--2615364 Score: 466
Period size: 122 Copynumber: 2.0 Consensus size: 122
2615106 TGAAGCTTTG
*
2615116 GGTTTAAAGTTTAATTTAACTTAACCTTAATATTTAAGATTTAAATTTTAGAA-TTAAGATTTGG
1 GGTTTTAAGTTTAATTTAACTTAACCTTAATATTTAAGATTTAAATTTTAGAATTTAAGATTTGG
2615180 AGACTGTTTCATCTCTTAAAACT-AGGATAAAACTACGCATTTAGTACTTAAATTATC
66 AGACTGTTTCATCTCTTAAAACTAAGGAT-AAACTACGCATTTAGTACTTAAATTATC
2615237 GGTTTTAAGTTTAATTTAACTTAACCTTAATATTTAAGATTTAAATTTTAGAATTTAAGATTTGG
1 GGTTTTAAGTTTAATTTAACTTAACCTTAATATTTAAGATTTAAATTTTAGAATTTAAGATTTGG
2615302 AGACTGTTTCATCTCTTAAAACTAAGGATAAACTACGCATTTAGTACTTAAATTATC
66 AGACTGTTTCATCTCTTAAAACTAAGGATAAACTACGCATTTAGTACTTAAATTATC
2615359 GGTTTT
1 GGTTTT
2615365 GATCTGTTTT
Statistics
Matches: 125, Mismatches: 1, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
121 52 0.42
122 68 0.54
123 5 0.04
ACGTcount: A:0.36, C:0.10, G:0.12, T:0.42
Consensus pattern (122 bp):
GGTTTTAAGTTTAATTTAACTTAACCTTAATATTTAAGATTTAAATTTTAGAATTTAAGATTTGG
AGACTGTTTCATCTCTTAAAACTAAGGATAAACTACGCATTTAGTACTTAAATTATC
Found at i:2615743 original size:173 final size:172
Alignment explanation
Indices: 2615455--2615811 Score: 651
Period size: 173 Copynumber: 2.1 Consensus size: 172
2615445 AAACTTAATG
*
2615455 AGTTTAGTACTTAAACTATTAGTTTTGGTCCATTTTAGTACCTAAAATTTTAATTTTTTTCAAAA
1 AGTTTAGTACCTAAACTATTAGTTTTGGTCCATTTTAGTACCTAAAATTTTAATTTTTTTCAAAA
2615520 CTTAACAATAAATTTTGAACGGGATACTAAAATGAAACAAAAACTAAACTTTAGGTATGGTTTTG
66 CTTAACAATAAATTTTGAACGGGATACTAAAATGAAACAAAAACTAAACTTTAGGTATGGTTTTG
* *
2615585 GAAAATGTGAAAGTTTAAATACTATAACAAATCAAAATTGAT
131 AAAAATGTGAAAGTTTAAATACTATAACAAATAAAAATTGAT
*
2615627 AGTTTAGTACCTAAACTATTAGTTTTGGTCCATTTTAGTACCTAAACTTTTAAATTTTTTTCAAA
1 AGTTTAGTACCTAAACTATTAGTTTTGGTCCATTTTAGTACCTAAAATTTT-AATTTTTTTCAAA
*
2615692 ACTTAACATTAAATTTTGAACGGGATACTAAAATGAAACAAAAACTAAACTTTAGGTATGGTTTT
65 ACTTAACAATAAATTTTGAACGGGATACTAAAATGAAACAAAAACTAAACTTTAGGTATGGTTTT
2615757 GAAAAATGTGAAAGTTTAAATACTATAACAAATAAAAATTGAT
130 GAAAAATGTGAAAGTTTAAATACTATAACAAATAAAAATTGAT
2615800 AGTTTAGGTACC
1 AGTTTA-GTACC
2615812 CAACGTGTAA
Statistics
Matches: 178, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
172 49 0.28
173 124 0.70
174 5 0.03
ACGTcount: A:0.41, C:0.10, G:0.12, T:0.36
Consensus pattern (172 bp):
AGTTTAGTACCTAAACTATTAGTTTTGGTCCATTTTAGTACCTAAAATTTTAATTTTTTTCAAAA
CTTAACAATAAATTTTGAACGGGATACTAAAATGAAACAAAAACTAAACTTTAGGTATGGTTTTG
AAAAATGTGAAAGTTTAAATACTATAACAAATAAAAATTGAT
Found at i:2616394 original size:68 final size:68
Alignment explanation
Indices: 2616285--2616420 Score: 272
Period size: 68 Copynumber: 2.0 Consensus size: 68
2616275 GGGATGATTG
2616285 AGCGTTCATTGTCAAAGGTTGAGTGTATTTAGAAGTCATATTACTTTATAATCACCTCAATACAT
1 AGCGTTCATTGTCAAAGGTTGAGTGTATTTAGAAGTCATATTACTTTATAATCACCTCAATACAT
2616350 ATA
66 ATA
2616353 AGCGTTCATTGTCAAAGGTTGAGTGTATTTAGAAGTCATATTACTTTATAATCACCTCAATACAT
1 AGCGTTCATTGTCAAAGGTTGAGTGTATTTAGAAGTCATATTACTTTATAATCACCTCAATACAT
2616418 ATA
66 ATA
2616421 TTTTTATCAA
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 68 1.00
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.37
Consensus pattern (68 bp):
AGCGTTCATTGTCAAAGGTTGAGTGTATTTAGAAGTCATATTACTTTATAATCACCTCAATACAT
ATA
Found at i:2628226 original size:8 final size:8
Alignment explanation
Indices: 2628213--2628268 Score: 57
Period size: 8 Copynumber: 7.2 Consensus size: 8
2628203 ACGTTAAATT
2628213 TTATAATA
1 TTATAATA
2628221 TTATAATA
1 TTATAATA
2628229 TTATAATA
1 TTATAATA
*
2628237 TTTTTTAA-A
1 --TTATAATA
2628246 TT-T--TA
1 TTATAATA
2628251 TTATAATA
1 TTATAATA
2628259 TTATAATA
1 TTATAATA
2628267 TT
1 TT
2628269 TTTTTAAATC
Statistics
Matches: 41, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
5 3 0.07
6 2 0.05
7 2 0.05
8 28 0.68
9 1 0.02
10 5 0.12
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (8 bp):
TTATAATA
Found at i:2628255 original size:30 final size:31
Alignment explanation
Indices: 2628219--2628277 Score: 111
Period size: 30 Copynumber: 1.9 Consensus size: 31
2628209 AATTTTATAA
2628219 TATTATAATATTATAATA-TTTTTTAAATTT
1 TATTATAATATTATAATATTTTTTTAAATTT
2628249 TATTATAATATTATAATATTTTTTTAAAT
1 TATTATAATATTATAATATTTTTTTAAAT
2628278 CATACCTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 18 0.64
31 10 0.36
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (31 bp):
TATTATAATATTATAATATTTTTTTAAATTT
Found at i:2629046 original size:2 final size:2
Alignment explanation
Indices: 2629041--2629071 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2629031 TAAACAAAAT
2629041 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2629072 GATCTTTCTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2637028 original size:22 final size:22
Alignment explanation
Indices: 2636985--2637028 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
2636975 AAATTTACAT
*
2636985 TCACATAAAATAAAATAAATTG
1 TCACATAAAATAAAACAAATTG
* * *
2637007 TCACTTAAAATAACACACATTG
1 TCACATAAAATAAAACAAATTG
2637029 CATCGTTTGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.52, C:0.16, G:0.05, T:0.27
Consensus pattern (22 bp):
TCACATAAAATAAAACAAATTG
Found at i:2638941 original size:3 final size:3
Alignment explanation
Indices: 2638933--2638994 Score: 65
Period size: 3 Copynumber: 21.0 Consensus size: 3
2638923 CAAAAATTTG
* * **
2638933 TAA TAA TAAA TAA TAA TAA -AA TAA TAA -GA TGA CGA TAA TAA TAA
1 TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2638977 TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA
2638995 AAAAACGAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
2 3 0.06
3 46 0.88
4 3 0.06
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:2640941 original size:30 final size:29
Alignment explanation
Indices: 2640884--2640948 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 29
2640874 CAATAATTTT
*
2640884 GACCACCAACATTTAAAAACGATCAAACA
1 GACCACCAACATTTAAAAACAATCAAACA
*
2640913 GACCACCAAACTATTT-AAAGCAATCAAACA
1 GACCACC-AAC-ATTTAAAAACAATCAAACA
*
2640943 TACCAC
1 GACCAC
2640949 TAGTCGTTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 7 0.23
30 20 0.65
31 4 0.13
ACGTcount: A:0.49, C:0.29, G:0.06, T:0.15
Consensus pattern (29 bp):
GACCACCAACATTTAAAAACAATCAAACA
Found at i:2641593 original size:120 final size:120
Alignment explanation
Indices: 2641375--2641600 Score: 384
Period size: 120 Copynumber: 1.9 Consensus size: 120
2641365 TATTTTTAAG
2641375 TTAAATTATTTTTATTTTGTGATTTGGATTCCCTAAATAATTTTAATATAATTTTTATTTTTAAT
1 TTAAATTATTTTTATTTTGTGATTTGGATTCCCTAAATAATTTTAATATAATTTTTATTTTTAAT
2641440 ATAATTTATATATTATTATTTAAAAATAATTGTAAAAAATAATTTAAATAAAATA
66 ATAATTTATATATTATTATTTAAAAATAATTGTAAAAAATAATTTAAATAAAATA
* *
2641495 TTAAATTTATTTTTATTTTGTGATTTGGATTCTCTGAATAATTTTAATGA-AA-TTTTATTTTTA
1 TTAAA-TTATTTTTATTTTGTGATTTGGATTCCCTAAATAATTTTAAT-ATAATTTTTATTTTTA
* *
2641558 ATGTAATTTATATATTATTATTTAAAAATAGTTGTAAAAAATA
64 ATATAATTTATATATTATTATTTAAAAATAATTGTAAAAAATA
2641601 TTAAACTTAT
Statistics
Matches: 100, Mismatches: 4, Indels: 4
0.93 0.04 0.04
Matches are distributed among these distances:
120 57 0.57
121 42 0.42
122 1 0.01
ACGTcount: A:0.40, C:0.02, G:0.06, T:0.52
Consensus pattern (120 bp):
TTAAATTATTTTTATTTTGTGATTTGGATTCCCTAAATAATTTTAATATAATTTTTATTTTTAAT
ATAATTTATATATTATTATTTAAAAATAATTGTAAAAAATAATTTAAATAAAATA
Found at i:2641736 original size:2 final size:2
Alignment explanation
Indices: 2641683--2641728 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
2641673 TAAAATTTTA
2641683 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2641725 AT AT
1 AT AT
2641729 GTTATATAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2642028 original size:17 final size:17
Alignment explanation
Indices: 2641986--2642021 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
2641976 TAAATTTAAT
*
2641986 TAATTGAATTAAAATAA
1 TAATTAAATTAAAATAA
*
2642003 TAATTAAATTAATATAA
1 TAATTAAATTAAAATAA
2642020 TA
1 TA
2642022 TATAAATATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (17 bp):
TAATTAAATTAAAATAA
Found at i:2645139 original size:12 final size:12
Alignment explanation
Indices: 2645122--2645146 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2645112 ATTGATGTGA
2645122 TTCATTGTGATT
1 TTCATTGTGATT
2645134 TTCATTGTGATT
1 TTCATTGTGATT
2645146 T
1 T
2645147 CCTGTGTAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.16, T:0.60
Consensus pattern (12 bp):
TTCATTGTGATT
Found at i:2648306 original size:20 final size:19
Alignment explanation
Indices: 2648273--2648311 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
2648263 ATTCGGGTTA
2648273 GGTCAGGTGAATTTTATTTT
1 GGTCAGGTGAATTTT-TTTT
2648293 GGTCAGGTCG-ATTTTTTTT
1 GGTCAGGT-GAATTTTTTTT
2648312 AAGTGTGATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.22
20 13 0.72
21 1 0.06
ACGTcount: A:0.15, C:0.08, G:0.26, T:0.51
Consensus pattern (19 bp):
GGTCAGGTGAATTTTTTTT
Found at i:2648416 original size:257 final size:256
Alignment explanation
Indices: 2647978--2648491 Score: 707
Period size: 257 Copynumber: 2.0 Consensus size: 256
2647968 TTTTTATTTT
* * * * *
2647978 GGGTCGGATTTCTAATTCATATATTCGGATCGGGTCGGGTGAAATTTTATTTTGATCGGGTCGAG
1 GGGTCAGATTTATAATTCATATATTCGGATCAGGTCAGGTGAAATTTTATTTTGATCAGGTCGAG
*
2648043 TCGGTTTTTTAAGTGTGATATTCGGGTCGGGTCGAGTTCGAGTTTAAGGTGAAAAAATACCCGAC
66 TC-GTTTTTTAAGTGTGATATT---GTCGGGTCGAGTTCGAGTTTAAGGTGAAAAAAGACCCGAC
* * **
2648108 CCGAAAATATATATAATTTTACCTTATATATTTAGGAATAATTATAATAATATTCCTCTATATAT
127 CCGAAAAAATATATAATTTTACCTTATATATTTAGGAATAATTACAATAATACCCCTCTATATAT
*
2648173 AATTTTTTTCAATTAAGTCACTGTTTTTATTGAATAAAAATAATTTTTTTATTATTTCGGATCGG
192 -ATTTTTTCCAATTAAGTCACTGTTTTTATTGAATAAAAAT-A-TTTTTTATTATTTCGGATCGG
2648238 GTC
254 GTC
* * *
2648241 GGGTCAGATTTATAATTCATATATTCGGGTTAGGTCAGGTG-AATTTTATTTTGGTCAGGTCGA-
1 GGGTCAGATTTATAATTCATATATTCGGATCAGGTCAGGTGAAATTTTATTTTGATCAGGTCGAG
* * * *
2648304 T-TTTTTTTAAGTGTGATATT-T-GGGTCGGGTTCGGGTTTAGGGTGAAAAATACCAGACCCGAC
66 TCGTTTTTTAAGTGTGATATTGTCGGGTCGAGTTCGAGTTTAAGGTG-AAAA-A--AGACCCGAC
*
2648366 CC-AAAAAATATATAATTTTATCTTATATATTTAGGAATAATTACAATAATACCCCTCTATATAT
127 CCGAAAAAATATATAATTTTACCTTATATATTTAGGAATAATTACAATAATACCCCTCTATATAT
*
2648430 ATTTTTTCCAATTAAGTCACTGTTTTTATTGAATAAAAATATTTTTTATTATTTCGGGTCGG
192 ATTTTTTCCAATTAAGTCACTGTTTTTATTGAATAAAAATATTTTTTATTATTTCGGATCGG
2648492 TTTTCTAATT
Statistics
Matches: 227, Mismatches: 20, Indels: 17
0.86 0.08 0.06
Matches are distributed among these distances:
254 40 0.18
255 6 0.03
256 40 0.18
257 57 0.25
258 10 0.04
259 18 0.08
261 1 0.00
262 20 0.09
263 35 0.15
ACGTcount: A:0.29, C:0.11, G:0.18, T:0.41
Consensus pattern (256 bp):
GGGTCAGATTTATAATTCATATATTCGGATCAGGTCAGGTGAAATTTTATTTTGATCAGGTCGAG
TCGTTTTTTAAGTGTGATATTGTCGGGTCGAGTTCGAGTTTAAGGTGAAAAAAGACCCGACCCGA
AAAAATATATAATTTTACCTTATATATTTAGGAATAATTACAATAATACCCCTCTATATATATTT
TTTCCAATTAAGTCACTGTTTTTATTGAATAAAAATATTTTTTATTATTTCGGATCGGGTC
Found at i:2651142 original size:68 final size:68
Alignment explanation
Indices: 2651066--2651201 Score: 236
Period size: 68 Copynumber: 2.0 Consensus size: 68
2651056 TGTATTTATC
* * **
2651066 TTAAGATTTTCTTCGAGTCTATTTGTATAATTTTTTTGTATTATTAATATACATATAATCATTGT
1 TTAAGATTTTATTCGAGTCTATTTATATAAAATTTTTGTATTATTAATATACATATAATCATTGT
2651131 AAA
66 AAA
2651134 TTAAGATTTTATTCGAGTCTATTTATATAAAATTTTTGTATTATTAATATACATATAATCATTGT
1 TTAAGATTTTATTCGAGTCTATTTATATAAAATTTTTGTATTATTAATATACATATAATCATTGT
2651199 AAA
66 AAA
2651202 AATATTTCTG
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
68 64 1.00
ACGTcount: A:0.35, C:0.07, G:0.08, T:0.50
Consensus pattern (68 bp):
TTAAGATTTTATTCGAGTCTATTTATATAAAATTTTTGTATTATTAATATACATATAATCATTGT
AAA
Found at i:2654924 original size:30 final size:29
Alignment explanation
Indices: 2654878--2654936 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 29
2654868 AGGTTGCAGC
2654878 CCGAAATAGCATAATCACAGCACAATCGA
1 CCGAAATAGCATAATCACAGCACAATCGA
*
2654907 CCGAAATCGCGATAATCACAGCACAATCGA
1 CCGAAATAGC-ATAATCACAGCACAATCGA
2654937 AAACGCATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 9 0.32
30 19 0.68
ACGTcount: A:0.42, C:0.29, G:0.15, T:0.14
Consensus pattern (29 bp):
CCGAAATAGCATAATCACAGCACAATCGA
Found at i:2655669 original size:24 final size:26
Alignment explanation
Indices: 2655619--2655670 Score: 72
Period size: 24 Copynumber: 2.1 Consensus size: 26
2655609 GAAGTTATAT
* *
2655619 TAAAATTTTTAGGAGGTACGGAGTTA
1 TAAAATTTTTAGGAGGTACGAAATTA
2655645 TAAAA-TTTTAGG-GGTACGAAATTA
1 TAAAATTTTTAGGAGGTACGAAATTA
2655669 TA
1 TA
2655671 TAATCAACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 12 0.50
25 7 0.29
26 5 0.21
ACGTcount: A:0.38, C:0.04, G:0.23, T:0.35
Consensus pattern (26 bp):
TAAAATTTTTAGGAGGTACGAAATTA
Found at i:2655672 original size:26 final size:27
Alignment explanation
Indices: 2655613--2655673 Score: 65
Period size: 26 Copynumber: 2.3 Consensus size: 27
2655603 GTTTAAGAAG
*
2655613 TTATATTAAAATTTTTAGGAGGTACGGA
1 TTATA-TAAAATTTTTAGGAGGTACGAA
*
2655641 GT-TATAAAA-TTTTAGG-GGTACGAAA
1 TTATATAAAATTTTTAGGAGGTACG-AA
2655666 TTATATAA
1 TTATATAA
2655674 TCAACAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
24 6 0.21
25 9 0.32
26 10 0.36
27 2 0.07
28 1 0.04
ACGTcount: A:0.39, C:0.03, G:0.20, T:0.38
Consensus pattern (27 bp):
TTATATAAAATTTTTAGGAGGTACGAA
Found at i:2657542 original size:16 final size:16
Alignment explanation
Indices: 2657508--2657541 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
2657498 GAATTAAGGA
*
2657508 TTTAGATATTTGGGAT
1 TTTAGATATTAGGGAT
2657524 TTTAGAT-TTAGGGAT
1 TTTAGATATTAGGGAT
2657539 TTT
1 TTT
2657542 TGGTAACGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.53
Consensus pattern (16 bp):
TTTAGATATTAGGGAT
Found at i:2659159 original size:23 final size:25
Alignment explanation
Indices: 2659128--2659173 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
2659118 AAATAATATT
* *
2659128 AAATAAATTGTTTTAA-TATTTTAA
1 AAATAAATTATATTAATTATTTTAA
2659152 AAAT-AATTATATTAATTATTTT
1 AAATAAATTATATTAATTATTTT
2659174 CTAATAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
AAATAAATTATATTAATTATTTTAA
Found at i:2659374 original size:2 final size:2
Alignment explanation
Indices: 2659369--2659409 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
2659359 TATATCAGAA
2659369 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
2659410 TAATGTGCAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:2663366 original size:31 final size:30
Alignment explanation
Indices: 2663293--2663386 Score: 109
Period size: 31 Copynumber: 3.1 Consensus size: 30
2663283 CCGCTGTTAA
* *
2663293 AAATTTAGGTACTAGAATGAAACAAGAAGTT
1 AAATTTAGGTACTAAAATGAAACAAAAAG-T
* *
2663324 AACA-ATGGGTACTAAAATGAAACAAAAAGT
1 AA-ATTTAGGTACTAAAATGAAACAAAAAGT
*
2663354 AAATTTCAGGTACTAAAATGAAATAAAAAGT
1 AAATTT-AGGTACTAAAATGAAACAAAAAGT
2663385 AA
1 AA
2663387 CAGTATGTAT
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
29 1 0.02
30 4 0.08
31 47 0.89
32 1 0.02
ACGTcount: A:0.54, C:0.07, G:0.16, T:0.22
Consensus pattern (30 bp):
AAATTTAGGTACTAAAATGAAACAAAAAGT
Found at i:2668393 original size:20 final size:20
Alignment explanation
Indices: 2668349--2668646 Score: 161
Period size: 20 Copynumber: 14.6 Consensus size: 20
2668339 AATGACCAAT
*
2668349 AAAATCGCAACGCGATATA-
1 AAAATCGCAACGCGATTTAG
2668368 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTTAG
** ***
2668388 AAAATCGCAACGTTAAAAAG
1 AAAATCGCAACGCGATTTAG
**
2668408 AAAATCGCAACG-G-TCAAAAG
1 AAAATCGCAACGCGAT--TTAG
* **
2668428 AAAATCGCAACGCGAGCTTCC
1 AAAATCGCAACGCGA-TTTAG
** *
2668449 AAGTTCGCAACGTGATTTAGAAG
1 AAAATCGCAACGCGATTT---AG
* * *
2668472 AAAATCGCAATGCGATTGAT
1 AAAATCGCAACGCGATTTAG
* * *
2668492 AGAATCGCAATGCGATTTAT
1 AAAATCGCAACGCGATTTAG
* * *
2668512 AGAATCGCAATGCGATTGAG
1 AAAATCGCAACGCGATTTAG
* * *
2668532 AGAGTCGCAACGCGATCTAGAAG
1 AAAATCGCAACGCGAT-T--TAG
* * *
2668555 AAAATCGCAATGCGACTGAG
1 AAAATCGCAACGCGATTTAG
* * * *
2668575 AGAATCGCAATGCGACTGAG
1 AAAATCGCAACGCGATTTAG
* *
2668595 AGAATCGCAACGCGATTGAG
1 AAAATCGCAACGCGATTTAG
*
2668615 AGAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTTAG
*
2668635 AGAATCGCAACG
1 AAAATCGCAACG
2668647 GTCAAAAGAA
Statistics
Matches: 226, Mismatches: 41, Indels: 23
0.78 0.14 0.08
Matches are distributed among these distances:
19 18 0.08
20 166 0.73
21 14 0.06
22 1 0.00
23 27 0.12
ACGTcount: A:0.39, C:0.19, G:0.23, T:0.18
Consensus pattern (20 bp):
AAAATCGCAACGCGATTTAG
Found at i:2668565 original size:83 final size:83
Alignment explanation
Indices: 2668453--2668635 Score: 285
Period size: 83 Copynumber: 2.2 Consensus size: 83
2668443 GCTTCCAAGT
* * * * * *
2668453 TCGCAACGTGATTTAGAAGAAAATCGCAATGCGATTGATAGAATCGCAATGCGATTTATAGAATC
1 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGACTGAGAGAATCGCAATGCGACTGAGAGAATC
* *
2668518 GCAATGCGATTGAGAGAG
66 GCAACGCGATTGAGAGAA
*
2668536 TCGCAACGCGATCTAGAAGAAAATCGCAATGCGACTGAGAGAATCGCAATGCGACTGAGAGAATC
1 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGACTGAGAGAATCGCAATGCGACTGAGAGAATC
2668601 GCAACGCGATTGAGAGAA
66 GCAACGCGATTGAGAGAA
2668619 TCGCAACGCGATTTAGA
1 TCGCAACGCGATTTAGA
2668636 GAATCGCAAC
Statistics
Matches: 90, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
83 90 1.00
ACGTcount: A:0.36, C:0.18, G:0.26, T:0.20
Consensus pattern (83 bp):
TCGCAACGCGATTTAGAAGAAAATCGCAATGCGACTGAGAGAATCGCAATGCGACTGAGAGAATC
GCAACGCGATTGAGAGAA
Found at i:2668646 original size:40 final size:40
Alignment explanation
Indices: 2668453--2668644 Score: 231
Period size: 40 Copynumber: 4.7 Consensus size: 40
2668443 GCTTCCAAGT
* *
2668453 TCGCAACGTGATTTAGAAGAAAATCGCAATGCGATTGATAGAA
1 TCGCAACGCGATTTAG-AG--AATCGCAATGCGATTGAGAGAA
* * *
2668496 TCGCAATGCGATTTATAGAATCGCAATGCGATTGAGAGAG
1 TCGCAACGCGATTTAGAGAATCGCAATGCGATTGAGAGAA
* *
2668536 TCGCAACGCGATCTAGAAGAAAATCGCAATGCGACTGAGAGAA
1 TCGCAACGCGATTTAG-AG--AATCGCAATGCGATTGAGAGAA
* * * *
2668579 TCGCAATGCGACTGAGAGAATCGCAACGCGATTGAGAGAA
1 TCGCAACGCGATTTAGAGAATCGCAATGCGATTGAGAGAA
2668619 TCGCAACGCGATTTAGAGAATCGCAA
1 TCGCAACGCGATTTAGAGAATCGCAA
2668645 CGGTCAAAAG
Statistics
Matches: 127, Mismatches: 19, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
40 76 0.60
41 2 0.02
42 4 0.03
43 45 0.35
ACGTcount: A:0.36, C:0.18, G:0.26, T:0.19
Consensus pattern (40 bp):
TCGCAACGCGATTTAGAGAATCGCAATGCGATTGAGAGAA
Found at i:2668745 original size:6 final size:6
Alignment explanation
Indices: 2668734--2668778 Score: 90
Period size: 6 Copynumber: 7.5 Consensus size: 6
2668724 GACACGTATT
2668734 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
2668779 TTGTTGAGTG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.33, C:0.51, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:2668862 original size:6 final size:6
Alignment explanation
Indices: 2668841--2668901 Score: 99
Period size: 6 Copynumber: 10.5 Consensus size: 6
2668831 TCTCGTCTCG
2668841 GGTCG- GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
*
2668887 GGACGT GGTCGT GGT
1 GGTCGT GGTCGT GGT
2668902 AATACGTGTC
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
5 10 0.19
6 43 0.81
ACGTcount: A:0.02, C:0.16, G:0.52, T:0.30
Consensus pattern (6 bp):
GGTCGT
Found at i:2669034 original size:20 final size:20
Alignment explanation
Indices: 2669011--2669221 Score: 287
Period size: 20 Copynumber: 10.4 Consensus size: 20
2669001 CTGTTTAACG
2669011 TTGCGATTCTCTCAATCGCA
1 TTGCGATTCTCTCAATCGCA
* *
2669031 TTGCGATTCTATAAATCGCA
1 TTGCGATTCTCTCAATCGCA
*
2669051 TTGCGATTCTCTCAGTCGCA
1 TTGCGATTCTCTCAATCGCA
*
2669071 TTGCGATTCTCTCAGTCGCA
1 TTGCGATTCTCTCAATCGCA
*
2669091 TTGCGATTCTCTCAGTCGCA
1 TTGCGATTCTCTCAATCGCA
* *
2669111 TTGCGATTTTCTTCTAGATCGCG
1 TTGCGATTCTC-TC-A-ATCGCA
*
2669134 TTGCGACTCTCTCAATCGCA
1 TTGCGATTCTCTCAATCGCA
* *
2669154 TTGCGATTCTATAAATCGCA
1 TTGCGATTCTCTCAATCGCA
*
2669174 TTGCGATTCTATCAATCGCA
1 TTGCGATTCTCTCAATCGCA
*
2669194 TTGCGATTCTATCAATCGCA
1 TTGCGATTCTCTCAATCGCA
2669214 TTGCGATT
1 TTGCGATT
2669222 TTCTTCTAAA
Statistics
Matches: 173, Mismatches: 15, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
20 154 0.89
21 3 0.02
22 3 0.02
23 13 0.08
ACGTcount: A:0.20, C:0.26, G:0.18, T:0.36
Consensus pattern (20 bp):
TTGCGATTCTCTCAATCGCA
Found at i:2669173 original size:103 final size:103
Alignment explanation
Indices: 2669024--2669242 Score: 330
Period size: 103 Copynumber: 2.1 Consensus size: 103
2669014 CGATTCTCTC
* * * * * * *
2669024 AATCGCATTGCGATTCTATAAATCGCATTGCGATTCTCTCAGTCGCATTGCGATTCTCTCAGTCG
1 AATCGCGTTGCGACTCTATAAATCGCATTGCGATTCTATAAATCGCATTGCGATTCTATCAATCG
* *
2669089 CATTGCGATTCTCTCAGTCGCATTGCGATTTTCTTCTA
66 CATTGCGATTCTATCAATCGCATTGCGATTTTCTTCTA
* * *
2669127 GATCGCGTTGCGACTCTCTCAATCGCATTGCGATTCTATAAATCGCATTGCGATTCTATCAATCG
1 AATCGCGTTGCGACTCTATAAATCGCATTGCGATTCTATAAATCGCATTGCGATTCTATCAATCG
2669192 CATTGCGATTCTATCAATCGCATTGCGATTTTCTTCTA
66 CATTGCGATTCTATCAATCGCATTGCGATTTTCTTCTA
2669230 AATCGCGTTGCGA
1 AATCGCGTTGCGA
2669243 ACTTGGAAGC
Statistics
Matches: 103, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
103 103 1.00
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.36
Consensus pattern (103 bp):
AATCGCGTTGCGACTCTATAAATCGCATTGCGATTCTATAAATCGCATTGCGATTCTATCAATCG
CATTGCGATTCTATCAATCGCATTGCGATTTTCTTCTA
Found at i:2669281 original size:20 final size:20
Alignment explanation
Indices: 2669256--2669309 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
2669246 TGGAAGCTCG
*
2669256 CGTTGCGATTTTCTTTTGAC
1 CGTTGCGATTTTCTTTTGAA
*
2669276 CGTTGCGATTTTCTTTTTAA
1 CGTTGCGATTTTCTTTTGAA
2669296 CGTTGCGATTTTCT
1 CGTTGCGATTTTCT
2669310 AAATCGCGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.11, C:0.19, G:0.19, T:0.52
Consensus pattern (20 bp):
CGTTGCGATTTTCTTTTGAA
Found at i:2669336 original size:19 final size:20
Alignment explanation
Indices: 2669296--2669346 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
2669286 TTCTTTTTAA
*
2669296 CGTTGCGATTTTCTAAATCG
1 CGTTGCGATTTTCGAAATCG
*
2669316 CGTTGCGATTTT-GATATCG
1 CGTTGCGATTTTCGAAATCG
2669335 CGTTGCGATTTT
1 CGTTGCGATTTT
2669347 ATTGGTCATT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.16, C:0.18, G:0.24, T:0.43
Consensus pattern (20 bp):
CGTTGCGATTTTCGAAATCG
Found at i:2672627 original size:29 final size:29
Alignment explanation
Indices: 2672582--2672639 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
2672572 GTGTTGGCCG
*
2672582 TAGGTCGCCATGCCTTCCGGGCGACCTAC
1 TAGGTCGCCATGCCTTCCCGGCGACCTAC
* * *
2672611 TAGGTCGTCATGTCTTCCCGGCGAGCTAC
1 TAGGTCGCCATGCCTTCCCGGCGACCTAC
2672640 AAGAGATTGC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.14, C:0.34, G:0.28, T:0.24
Consensus pattern (29 bp):
TAGGTCGCCATGCCTTCCCGGCGACCTAC
Found at i:2672703 original size:20 final size:20
Alignment explanation
Indices: 2672678--2672715 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
2672668 AACACGCTGG
*
2672678 GCATCCGAGGCCATCCGAGA
1 GCATCCGAGACCATCCGAGA
2672698 GCATCCGAGACCATCCGA
1 GCATCCGAGACCATCCGA
2672716 CCGAGGCCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.37, G:0.26, T:0.11
Consensus pattern (20 bp):
GCATCCGAGACCATCCGAGA
Found at i:2672768 original size:33 final size:33
Alignment explanation
Indices: 2672716--2672800 Score: 118
Period size: 33 Copynumber: 2.6 Consensus size: 33
2672706 GACCATCCGA
* * * *
2672716 CCGAGGCCATCCGAACGAGCTATGCGAGGGCAT
1 CCGAGGGCAACCGAGCGAGCTATGCGAGGGAAT
2672749 CCGAGGGCAACCGAGCGAGCTATGCGAGGGAAT
1 CCGAGGGCAACCGAGCGAGCTATGCGAGGGAAT
2672782 CCGAGGG-AAGCCGAGCGAG
1 CCGAGGGCAA-CCGAGCGAG
2672801 GGTAGGTCGC
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
32 2 0.04
33 45 0.96
ACGTcount: A:0.26, C:0.27, G:0.39, T:0.08
Consensus pattern (33 bp):
CCGAGGGCAACCGAGCGAGCTATGCGAGGGAAT
Found at i:2672931 original size:29 final size:29
Alignment explanation
Indices: 2672889--2672950 Score: 115
Period size: 29 Copynumber: 2.1 Consensus size: 29
2672879 GAACAAGGGT
*
2672889 AGGTCGCCCGGAGTGTATGGCGACCTACA
1 AGGTCGCCCGGAGTGCATGGCGACCTACA
2672918 AGGTCGCCCGGAGTGCATGGCGACCTACA
1 AGGTCGCCCGGAGTGCATGGCGACCTACA
2672947 AGGT
1 AGGT
2672951 GCATGGCGAC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.21, C:0.27, G:0.35, T:0.16
Consensus pattern (29 bp):
AGGTCGCCCGGAGTGCATGGCGACCTACA
Found at i:2673854 original size:163 final size:164
Alignment explanation
Indices: 2673577--2673875 Score: 469
Period size: 163 Copynumber: 1.8 Consensus size: 164
2673567 GTTACATTCT
* * *
2673577 TCATAATATTTTAGAATATTCAATCGAAGATGTTAAAAAGATTGTACTACTTCTATCCTATTAAA
1 TCATAACATTTTAGAATATTCAATCGAAAATGTTAAAAAGATTGCACTACTTCTATCCTATTAAA
* * *
2673642 AATGTCTCGTATTGACTTTTAAAAGTTAAAATTTTTAAACTTTGATCATATTT-TAAAAAATTAA
66 AATGTCTCGTATTGACTTTTAAAAGTTAAAAATTTTAAACTTTGATCATATTTAAAAAAAAATAA
2673706 ATTTTAAAAAATCCAAATGAAATTGCGATAAGAA
131 ATTTTAAAAAATCCAAATGAAATTGCGATAAGAA
* * * *
2673740 TCATAACATTTTAGAATATTCAATCGAAAATGTTAAGAAGATTGCATTAGTT-TGTCCTATTAAA
1 TCATAACATTTTAGAATATTCAATCGAAAATGTTAAAAAGATTGCACTACTTCTATCCTATTAAA
2673804 AATGTCTCGTATTGACTTTTTAAAA-TTCAAAAATTTTAAACTTTGATCATATTTAAAAAAAAAT
66 AATGTCTCGTATTGAC-TTTTAAAAGTT-AAAAATTTTAAACTTTGATCATATTTAAAAAAAAAT
2673868 AAATTTTA
129 AAATTTTA
2673876 TTAAATATAT
Statistics
Matches: 123, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
162 29 0.24
163 79 0.64
164 15 0.12
ACGTcount: A:0.42, C:0.10, G:0.09, T:0.39
Consensus pattern (164 bp):
TCATAACATTTTAGAATATTCAATCGAAAATGTTAAAAAGATTGCACTACTTCTATCCTATTAAA
AATGTCTCGTATTGACTTTTAAAAGTTAAAAATTTTAAACTTTGATCATATTTAAAAAAAAATAA
ATTTTAAAAAATCCAAATGAAATTGCGATAAGAA
Found at i:2675878 original size:18 final size:19
Alignment explanation
Indices: 2675855--2675897 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
2675845 CAGTAGCACA
*
2675855 TAACTGCTC-TTAACAAGC
1 TAACTGCTCGTTAACAAAC
2675873 TAACTGCTCGTTTAACAAAC
1 TAACTGCTCG-TTAACAAAC
2675893 TAACT
1 TAACT
2675898 ACCATTTAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 9 0.41
20 13 0.59
ACGTcount: A:0.35, C:0.26, G:0.09, T:0.30
Consensus pattern (19 bp):
TAACTGCTCGTTAACAAAC
Found at i:2684917 original size:21 final size:21
Alignment explanation
Indices: 2684891--2684942 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
2684881 GCGCCAATCA
*
2684891 GAAAAACAAAAAATAAATAAT
1 GAAAAACAAAAAACAAATAAT
2684912 GAAAAACAAAAAACAAATAAT
1 GAAAAACAAAAAACAAATAAT
*
2684933 GAGAAACAAA
1 GAAAAACAAA
2684943 GATTTTCTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.75, C:0.08, G:0.08, T:0.10
Consensus pattern (21 bp):
GAAAAACAAAAAACAAATAAT
Found at i:2685106 original size:15 final size:15
Alignment explanation
Indices: 2685072--2685106 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
2685062 TAATAATACA
*
2685072 TTATTAATATATTAT
1 TTATTAATATAATAT
*
2685087 ATATTAATATAATAT
1 TTATTAATATAATAT
2685102 TTATT
1 TTATT
2685107 TTATATAAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TTATTAATATAATAT
Found at i:2686439 original size:3 final size:3
Alignment explanation
Indices: 2686433--2686537 Score: 210
Period size: 3 Copynumber: 35.0 Consensus size: 3
2686423 CCTCCTAAAC
2686433 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
2686481 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
2686529 ATA ATA ATA
1 ATA ATA ATA
2686538 CCTTCCAACA
Statistics
Matches: 102, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 102 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:2688463 original size:11 final size:11
Alignment explanation
Indices: 2688447--2688480 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
2688437 AAAACAATTA
2688447 ATAAAAAATAT
1 ATAAAAAATAT
2688458 ATAAAAAATAT
1 ATAAAAAATAT
* *
2688469 TTAAAATATAT
1 ATAAAAAATAT
2688480 A
1 A
2688481 ATAATTTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
ATAAAAAATAT
Found at i:2693901 original size:61 final size:61
Alignment explanation
Indices: 2693802--2693922 Score: 233
Period size: 61 Copynumber: 2.0 Consensus size: 61
2693792 ACCCTAGACT
*
2693802 AAGATTATCTATTATTTTGATAGAGAGAAAGAATGATTTAGAACAATAATAACTACTCTTC
1 AAGATTATCTATTATTTTGATAGAGAGAAAGAACGATTTAGAACAATAATAACTACTCTTC
2693863 AAGATTATCTATTATTTTGATAGAGAGAAAGAACGATTTAGAACAATAATAACTACTCTT
1 AAGATTATCTATTATTTTGATAGAGAGAAAGAACGATTTAGAACAATAATAACTACTCTT
2693923 TCTACACACA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 59 1.00
ACGTcount: A:0.43, C:0.10, G:0.13, T:0.34
Consensus pattern (61 bp):
AAGATTATCTATTATTTTGATAGAGAGAAAGAACGATTTAGAACAATAATAACTACTCTTC
Found at i:2705102 original size:22 final size:22
Alignment explanation
Indices: 2705074--2705115 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
2705064 TTAAATCGAA
2705074 ACAAAAATCAAAGGTTTTAATG
1 ACAAAAATCAAAGGTTTTAATG
*
2705096 ACAAAAATCAAAGTTTTTAA
1 ACAAAAATCAAAGGTTTTAA
2705116 CTGTAAGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.10, G:0.10, T:0.29
Consensus pattern (22 bp):
ACAAAAATCAAAGGTTTTAATG
Found at i:2705825 original size:60 final size:59
Alignment explanation
Indices: 2705679--2705825 Score: 181
Period size: 59 Copynumber: 2.5 Consensus size: 59
2705669 ATTAGTCTTT
** * * *
2705679 AAACTTTTGAATGTT-TCAATTTCAACCCTAAACTATGACTCTCATTCTAAATTAGTCCT
1 AAACTTTTGAACATTCT-AATTTCATCTCTAAACTATGACTCTCATTCTAAATTAGTCCC
* *
2705738 GAACTTTTGAACATTCTAATTTCATCTCTAAACTATGAC-CATCTTTCTAAATTAGTTCCC
1 AAACTTTTGAACATTCTAATTTCATCTCTAAACTATGACTC-TCATTCTAAATTAG-TCCC
*
2705798 AAACTTTTGAACATTCTAATTTTATCTC
1 AAACTTTTGAACATTCTAATTTCATCTC
2705826 AAGTTCACCC
Statistics
Matches: 76, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
58 1 0.01
59 45 0.59
60 30 0.39
ACGTcount: A:0.31, C:0.22, G:0.06, T:0.41
Consensus pattern (59 bp):
AAACTTTTGAACATTCTAATTTCATCTCTAAACTATGACTCTCATTCTAAATTAGTCCC
Found at i:2711864 original size:52 final size:53
Alignment explanation
Indices: 2711762--2711864 Score: 163
Period size: 52 Copynumber: 2.0 Consensus size: 53
2711752 GTTCGCTATC
*
2711762 GTGATGGGATTGAATGATAAACAAAAATGCGCGAAATAGATAGCCTGGCTCGG
1 GTGATGGGATTGAATGATAAACAAAAATGCGCGAAATAGATAGCCCGGCTCGG
* * *
2711815 GTGATGGGTTTGAATGCTAAAC-AAAATGCTCGAAATAGATAGCCCGGCTC
1 GTGATGGGATTGAATGATAAACAAAAATGCGCGAAATAGATAGCCCGGCTC
2711865 AGGTCATTGC
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
52 26 0.57
53 20 0.43
ACGTcount: A:0.34, C:0.16, G:0.28, T:0.22
Consensus pattern (53 bp):
GTGATGGGATTGAATGATAAACAAAAATGCGCGAAATAGATAGCCCGGCTCGG
Found at i:2720582 original size:30 final size:30
Alignment explanation
Indices: 2720548--2720604 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
2720538 AACCCATTGG
2720548 ATTTCTAAACCCAAAGATTAAATCCATTAA
1 ATTTCTAAACCCAAAGATTAAATCCATTAA
* *
2720578 ATTTCTAAACCCAGAGATTGAATCCAT
1 ATTTCTAAACCCAAAGATTAAATCCAT
2720605 AGCAAAAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.42, C:0.21, G:0.07, T:0.30
Consensus pattern (30 bp):
ATTTCTAAACCCAAAGATTAAATCCATTAA
Found at i:2720880 original size:31 final size:31
Alignment explanation
Indices: 2720842--2720907 Score: 123
Period size: 31 Copynumber: 2.1 Consensus size: 31
2720832 TTAGAGTATT
*
2720842 TGACCACATCTTAATTAAACCGAAACGAAAG
1 TGACCACATCTTAATTAAAACGAAACGAAAG
2720873 TGACCACATCTTAATTAAAACGAAACGAAAG
1 TGACCACATCTTAATTAAAACGAAACGAAAG
2720904 TGAC
1 TGAC
2720908 TACGAATTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.45, C:0.21, G:0.14, T:0.20
Consensus pattern (31 bp):
TGACCACATCTTAATTAAAACGAAACGAAAG
Found at i:2728822 original size:21 final size:21
Alignment explanation
Indices: 2728796--2728849 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
2728786 GTTTCCAGAT
*
2728796 TCGCAACGCGAACTTCGACTA
1 TCGCAATGCGAACTTCGACTA
*
2728817 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTCGACTA
2728838 TCGCAATGCGAA
1 TCGCAATGCGAA
2728850 TATGTAAATC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.30, C:0.28, G:0.22, T:0.20
Consensus pattern (21 bp):
TCGCAATGCGAACTTCGACTA
Found at i:2728888 original size:21 final size:21
Alignment explanation
Indices: 2728858--2728952 Score: 90
Period size: 21 Copynumber: 4.6 Consensus size: 21
2728848 AATATGTAAA
*
2728858 TCGCAATGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCGAAGT
*
2728879 TCGCATTGCGATAGTCG-ACT
1 TCGCATTGCGATAGTCGAAGT
*
2728899 ATCGCATTGCGAT-TTAC-ATA-T
1 -TCGCATTGCGATAGT-CGA-AGT
*
2728920 TCGCATTGCGATAGTCCAAGT
1 TCGCATTGCGATAGTCGAAGT
*
2728941 TCGCGTTGCGAT
1 TCGCATTGCGAT
2728953 TTATTCCAAA
Statistics
Matches: 62, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
20 17 0.27
21 44 0.71
22 1 0.02
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.31
Consensus pattern (21 bp):
TCGCATTGCGATAGTCGAAGT
Found at i:2728889 original size:62 final size:62
Alignment explanation
Indices: 2728833--2728952 Score: 156
Period size: 62 Copynumber: 1.9 Consensus size: 62
2728823 TGCGAACTTG
*
2728833 GACTATCGCAATGCGAATATGTA-A-A-TCGCAATGCGATAGTCGAAGTTCGCATTGCGATAGTC
1 GACTATCGCAATGCG-AT-T-TACATATTCGCAATGCGATAGTCCAAGTTCGCATTGCGATAGTC
* * *
2728895 GACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCGCGTTGCGAT
1 GACTATCGCAATGCGATTTACATATTCGCAATGCGATAGTCCAAGTTCGCATTGCGAT
2728953 TTATTCCAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
59 2 0.04
60 2 0.04
61 3 0.06
62 44 0.86
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (62 bp):
GACTATCGCAATGCGATTTACATATTCGCAATGCGATAGTCCAAGTTCGCATTGCGATAGTC
Found at i:2728950 original size:41 final size:41
Alignment explanation
Indices: 2728878--2728955 Score: 113
Period size: 41 Copynumber: 1.9 Consensus size: 41
2728868 ATAGTCGAAG
*
2728878 TTCGCATTGCGATAGTCGACTATCGCATTGCGATTTACATA
1 TTCGCATTGCGATAGTCAACTATCGCATTGCGATTTACATA
* *
2728919 TTCGCATTGCGATAGTCCAAGT-TCGCGTTGCGATTTA
1 TTCGCATTGCGATAGT-CAACTATCGCATTGCGATTTA
2728956 TTCCAAATTC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
41 30 0.91
42 3 0.09
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.35
Consensus pattern (41 bp):
TTCGCATTGCGATAGTCAACTATCGCATTGCGATTTACATA
Found at i:2728966 original size:23 final size:21
Alignment explanation
Indices: 2728858--2728968 Score: 82
Period size: 21 Copynumber: 5.2 Consensus size: 21
2728848 AATATGTAAA
* * *
2728858 TCGCAATGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCCAAAT
* *
2728879 TCGCATTGCGATAGT-CGACT
1 TCGCATTGCGATAGTCCAAAT
* * *
2728899 ATCGCATTGCGAT-TTACATAT
1 -TCGCATTGCGATAGTCCAAAT
*
2728920 TCGCATTGCGATAGTCCAAGT
1 TCGCATTGCGATAGTCCAAAT
* *
2728941 TCGCGTTGCGATTTATTCCAAAT
1 TCGCATTGCGA--TAGTCCAAAT
2728964 TCGCA
1 TCGCA
2728969 ACGACTGGTG
Statistics
Matches: 69, Mismatches: 16, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
20 15 0.22
21 42 0.61
23 12 0.17
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.32
Consensus pattern (21 bp):
TCGCATTGCGATAGTCCAAAT
Found at i:2729061 original size:6 final size:6
Alignment explanation
Indices: 2729050--2729094 Score: 74
Period size: 6 Copynumber: 7.7 Consensus size: 6
2729040 AGACACGTAT
*
2729050 GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC TACC-C GACC
1 GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC GACC
2729095 CGAGACGGAC
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
5 4 0.11
6 33 0.89
ACGTcount: A:0.31, C:0.51, G:0.16, T:0.02
Consensus pattern (6 bp):
GACCAC
Found at i:2729753 original size:21 final size:20
Alignment explanation
Indices: 2729695--2729753 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 20
2729685 ACCAGTCGTT
*
2729695 GCGATTTTGGACTATCGCAA
1 GCGAATTTGGACTATCGCAA
*
2729715 -CGAATTTGGAATAAATCGCAA
1 GCGAATTTGGACT--ATCGCAA
*
2729736 CGCGAATTTCGACTATCG
1 -GCGAATTTGGACTATCG
2729754 AATTGCGATT
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
19 10 0.32
21 11 0.35
23 10 0.32
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (20 bp):
GCGAATTTGGACTATCGCAA
Found at i:2729778 original size:20 final size:20
Alignment explanation
Indices: 2729755--2729823 Score: 88
Period size: 20 Copynumber: 3.4 Consensus size: 20
2729745 CGACTATCGA
2729755 ATTGCGATTTACATATTCGC
1 ATTGCGATTTACATATTCGC
*
2729775 ATTGCGATAGT-CGACTA-TCGC
1 ATTGCGAT-TTAC-A-TATTCGC
2729796 ATTGCGATTTACATATTCGC
1 ATTGCGATTTACATATTCGC
2729816 ATTGCGAT
1 ATTGCGAT
2729824 AGTCCAAGTT
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
19 2 0.05
20 23 0.55
21 15 0.36
22 2 0.05
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (20 bp):
ATTGCGATTTACATATTCGC
Found at i:2729789 original size:41 final size:41
Alignment explanation
Indices: 2729744--2729827 Score: 159
Period size: 41 Copynumber: 2.0 Consensus size: 41
2729734 AACGCGAATT
2729744 TCGACTATCGAATTGCGATTTACATATTCGCATTGCGATAG
1 TCGACTATCGAATTGCGATTTACATATTCGCATTGCGATAG
*
2729785 TCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAG
1 TCGACTATCGAATTGCGATTTACATATTCGCATTGCGATAG
2729826 TC
1 TC
2729828 CAAGTTCGCA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (41 bp):
TCGACTATCGAATTGCGATTTACATATTCGCATTGCGATAG
Found at i:2729803 original size:21 final size:23
Alignment explanation
Indices: 2729765--2730004 Score: 125
Period size: 21 Copynumber: 11.0 Consensus size: 23
2729755 ATTGCGATTT
2729765 ACATATTCGCATTGCGATAGTCG
1 ACATATTCGCATTGCGATAGTCG
*
2729788 AC-TA-TCGCATTGCGAT--T-T
1 ACATATTCGCATTGCGATAGTCG
2729806 ACATATTCGCATTGCGATAGTC-
1 ACATATTCGCATTGCGATAGTCG
*
2729828 -CA-AGTTCGCAAGTT-CGCATTG-CG
1 ACATA-TTCGC-A-TTGCG-ATAGTCG
* *
2729851 ATAGTCGAAGTTCGCGTTGCGATAGTC-
1 ACA-T---A-TTCGCATTGCGATAGTCG
*
2729878 -CA-AGTTCGCATTGCGACAGTCG
1 ACATA-TTCGCATTGCGATAGTCG
*
2729900 AC-TA-TCGCATTGCGAT--T-T
1 ACATATTCGCATTGCGATAGTCG
2729918 ACATATTCGCATTGCGATAGTC-
1 ACATATTCGCATTGCGATAGTCG
2729940 -CA-AGTTCGCATTGCGATAGTCG
1 ACATA-TTCGCATTGCGATAGTCG
* *
2729962 A-A-GTTCGTATTGCGATAGTCG
1 ACATATTCGCATTGCGATAGTCG
*
2729983 A-A-GTTCGCATTGCGATAGTCG
1 ACATATTCGCATTGCGATAGTCG
2730004 A
1 A
2730005 AGTTCGCGTT
Statistics
Matches: 175, Mismatches: 13, Indels: 60
0.71 0.05 0.24
Matches are distributed among these distances:
18 4 0.02
19 6 0.03
20 26 0.15
21 104 0.59
22 9 0.05
23 9 0.05
24 1 0.01
26 1 0.01
27 5 0.03
28 3 0.02
29 7 0.04
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.30
Consensus pattern (23 bp):
ACATATTCGCATTGCGATAGTCG
Found at i:2729939 original size:62 final size:63
Alignment explanation
Indices: 2729840--2730018 Score: 240
Period size: 62 Copynumber: 2.9 Consensus size: 63
2729830 AGTTCGCAAG
*
2729840 TTCGCATTGCGATAGTCGAAGTTCGCGTTGCGATAGTCCAAGTTCGCATTGCGACAGTCG-AC
1 TTCGCATTGCGATAGTCGAAGTTCGCATTGCGATAGTCCAAGTTCGCATTGCGACAGTCGAAC
* *
2729902 TATCGCATTGCGAT-TTAC-ATA-TTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCGAA
1 T-TCGCATTGCGATAGT-CGA-AGTTCGCATTGCGATAGTCCAAGTTCGCATTGCGACAGTCGAA
*
2729964 G
63 C
* * *
2729965 TTCGTATTGCGATAGTCGAAGTTCGCATTGCGATAGTCGAAGTTCGCGTTGCGA
1 TTCGCATTGCGATAGTCGAAGTTCGCATTGCGATAGTCCAAGTTCGCATTGCGA
2730019 ATCTGGAAAC
Statistics
Matches: 102, Mismatches: 8, Indels: 13
0.83 0.07 0.11
Matches are distributed among these distances:
62 53 0.52
63 49 0.48
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.30
Consensus pattern (63 bp):
TTCGCATTGCGATAGTCGAAGTTCGCATTGCGATAGTCCAAGTTCGCATTGCGACAGTCGAAC
Found at i:2729982 original size:83 final size:83
Alignment explanation
Indices: 2729840--2729998 Score: 248
Period size: 83 Copynumber: 1.9 Consensus size: 83
2729830 AGTTCGCAAG
* *
2729840 TTCGCATTGCGATAGTCGAAGTTCGCGTTGCGATAGTCCAAGTTCGCATTGCGACAGTCG-ACTA
1 TTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCCAAGTTCGCATTGCGACAGTCGAACT-
2729904 TCGCATTGCGATTTACATA
65 TCGCATTGCGATTTACATA
* * * *
2729923 TTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCGAAGTTCGTATTGCGATAGTCGAAGTT
1 TTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCCAAGTTCGCATTGCGACAGTCGAACTT
2729988 CGCATTGCGAT
66 CGCATTGCGAT
2729999 AGTCGAAGTT
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
83 67 0.97
84 2 0.03
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (83 bp):
TTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCCAAGTTCGCATTGCGACAGTCGAACTT
CGCATTGCGATTTACATA
Found at i:2730005 original size:21 final size:21
Alignment explanation
Indices: 2729837--2730018 Score: 237
Period size: 21 Copynumber: 8.7 Consensus size: 21
2729827 CCAAGTTCGC
2729837 AAGTTCGCATTGCGATAGTCG
1 AAGTTCGCATTGCGATAGTCG
* *
2729858 AAGTTCGCGTTGCGATAGTCC
1 AAGTTCGCATTGCGATAGTCG
*
2729879 AAGTTCGCATTGCGACAGTCG
1 AAGTTCGCATTGCGATAGTCG
* *
2729900 -ACTATCGCATTGCGAT-TTAC-
1 AAGT-TCGCATTGCGATAGT-CG
*
2729920 ATA-TTCGCATTGCGATAGTCC
1 A-AGTTCGCATTGCGATAGTCG
2729941 AAGTTCGCATTGCGATAGTCG
1 AAGTTCGCATTGCGATAGTCG
*
2729962 AAGTTCGTATTGCGATAGTCG
1 AAGTTCGCATTGCGATAGTCG
2729983 AAGTTCGCATTGCGATAGTCG
1 AAGTTCGCATTGCGATAGTCG
*
2730004 AAGTTCGCGTTGCGA
1 AAGTTCGCATTGCGA
2730019 ATCTGGAAAC
Statistics
Matches: 141, Mismatches: 13, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
20 17 0.12
21 123 0.87
22 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (21 bp):
AAGTTCGCATTGCGATAGTCG
Found at i:2745849 original size:18 final size:18
Alignment explanation
Indices: 2745823--2745857 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
2745813 GTACAAAAAT
2745823 GGACAAAAACTAATAGTC
1 GGACAAAAACTAATAGTC
*
2745841 GGACCAAAACTAATAGT
1 GGACAAAAACTAATAGT
2745858 TTTGTGTACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.49, C:0.17, G:0.17, T:0.17
Consensus pattern (18 bp):
GGACAAAAACTAATAGTC
Found at i:2746063 original size:16 final size:16
Alignment explanation
Indices: 2746043--2746099 Score: 62
Period size: 16 Copynumber: 3.6 Consensus size: 16
2746033 GTTGTTTGAT
*
2746043 TCGTTGCTCGTTAAGT
1 TCGTTGCTCGTTAAGC
2746059 TCGTTGCT-GATTAAGC
1 TCGTTGCTCG-TTAAGC
* *
2746075 TCATTACTCGTTAAGC
1 TCGTTGCTCGTTAAGC
*
2746091 TCGATGCTC
1 TCGTTGCTC
2746100 ATTGCTCGCC
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
15 1 0.03
16 31 0.94
17 1 0.03
ACGTcount: A:0.18, C:0.23, G:0.21, T:0.39
Consensus pattern (16 bp):
TCGTTGCTCGTTAAGC
Found at i:2753602 original size:59 final size:60
Alignment explanation
Indices: 2753530--2753655 Score: 184
Period size: 60 Copynumber: 2.1 Consensus size: 60
2753520 ACTTAAATTT
* *
2753530 TATAAATCATTACTAACATGA-ACACATAAC-TTTAAATAAAATATAAAATTATATATAGA
1 TATAAAACATTACTAACACGAGACACAT-ACTTTTAAATAAAATATAAAATTATATATAGA
* * *
2753589 TATAAAACATTACTAACACGAGACCCATACTTTTAAATAAAATGTAATATTATATATAGA
1 TATAAAACATTACTAACACGAGACACATACTTTTAAATAAAATATAAAATTATATATAGA
2753649 TATAAAA
1 TATAAAA
2753656 ACAATTTGAA
Statistics
Matches: 60, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
59 21 0.35
60 39 0.65
ACGTcount: A:0.52, C:0.11, G:0.05, T:0.32
Consensus pattern (60 bp):
TATAAAACATTACTAACACGAGACACATACTTTTAAATAAAATATAAAATTATATATAGA
Found at i:2753909 original size:18 final size:19
Alignment explanation
Indices: 2753886--2753925 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
2753876 TCATTTTCTC
* *
2753886 ATAATTTTATTTTA-AAAT
1 ATAATTATATTATACAAAT
2753904 ATAATTATATTATACAAAT
1 ATAATTATATTATACAAAT
2753923 ATA
1 ATA
2753926 TAACAGGTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (19 bp):
ATAATTATATTATACAAAT
Found at i:2755659 original size:46 final size:46
Alignment explanation
Indices: 2755609--2755696 Score: 131
Period size: 46 Copynumber: 1.9 Consensus size: 46
2755599 GGTGCTCAAT
* * * *
2755609 TAATGCACCGTTTCAGCTACTTTTCAGATGTCATTTATTGCAACAA
1 TAATGAACCGTTTCAGCTACTTTTCAGAGGCCATTTAATGCAACAA
*
2755655 TAATGAACCGTTTCAGTTACTTTTCAGAGGCCATTTAATGCA
1 TAATGAACCGTTTCAGCTACTTTTCAGAGGCCATTTAATGCA
2755697 GGATTCAAGC
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.36
Consensus pattern (46 bp):
TAATGAACCGTTTCAGCTACTTTTCAGAGGCCATTTAATGCAACAA
Found at i:2756887 original size:3 final size:3
Alignment explanation
Indices: 2756879--2756908 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
2756869 CCGAAACACT
2756879 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
2756909 CCGGAAGCAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:2762144 original size:23 final size:23
Alignment explanation
Indices: 2762111--2762162 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
2762101 CAATTAATGA
* *
2762111 AATTAAATTTTAGTTGAGACAGCT
1 AATT-AATTTTAGTTCAGACAGAT
* *
2762135 AATTAATTTTTGTTCAGTCAGAT
1 AATTAATTTTAGTTCAGACAGAT
2762158 AATTA
1 AATTA
2762163 GAGAGCAATG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 20 0.83
24 4 0.17
ACGTcount: A:0.37, C:0.08, G:0.13, T:0.42
Consensus pattern (23 bp):
AATTAATTTTAGTTCAGACAGAT
Found at i:2764465 original size:2 final size:2
Alignment explanation
Indices: 2764458--2764488 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
2764448 GTGAGGCATA
*
2764458 AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2764489 ACAATGCATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:2764742 original size:18 final size:18
Alignment explanation
Indices: 2764719--2764791 Score: 101
Period size: 18 Copynumber: 3.9 Consensus size: 18
2764709 ACTGAATATT
*
2764719 TGTCCCGAATGACCACTA
1 TGTCCCGAAGGACCACTA
2764737 TGTCCCGAAGGACCACTGA
1 TGTCCCGAAGGACCACT-A
* *
2764756 TTGTTCCGAAGAACCACTA
1 -TGTCCCGAAGGACCACTA
2764775 TGTCCCGAAGGACCACT
1 TGTCCCGAAGGACCACT
2764792 GATAATTCCT
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
18 31 0.65
19 2 0.04
20 15 0.31
ACGTcount: A:0.27, C:0.32, G:0.21, T:0.21
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:2765471 original size:65 final size:65
Alignment explanation
Indices: 2765362--2765524 Score: 181
Period size: 65 Copynumber: 2.5 Consensus size: 65
2765352 CCCCTTGACT
* * * *
2765362 GGTGCATCGATGCAC-AATCTATGCATCGGTACA-TAAATCCCATTCGATGTTTTGTATTTTAAG
1 GGTGCATCGATGCACTACT-TATGCATCGATACACTAAATCACATTCGATGTTTT-TATTTTAAA
2765425 GG
64 GG
* *
2765427 GGTGTATCGATGCACTACTTATGCATCGATACACT-AATGACATTCGATGTTTTTATTTTAAAGG
1 GGTGCATCGATGCACTACTTATGCATCGATACACTAAATCACATTCGATGTTTTTATTTTAAAGG
* * * *
2765491 AGTGCATCGATACACCT-CATGTGCATCGATACAC
1 GGTGCATCGATGCA-CTACTTATGCATCGATACAC
2765525 CTTGAACAAT
Statistics
Matches: 84, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
64 36 0.43
65 45 0.54
66 3 0.04
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.33
Consensus pattern (65 bp):
GGTGCATCGATGCACTACTTATGCATCGATACACTAAATCACATTCGATGTTTTTATTTTAAAGG
Found at i:2771708 original size:18 final size:18
Alignment explanation
Indices: 2771685--2771753 Score: 84
Period size: 18 Copynumber: 3.7 Consensus size: 18
2771675 AATATTTGTT
*
2771685 CCGAAGGACCACTATATC
1 CCGAAGGACCACTATGTC
*
2771703 CCGAAGGACCACTGATTGTT
1 CCGAAGGACCACT-A-TGTC
*
2771723 CCGAAGAACCACTATGTC
1 CCGAAGGACCACTATGTC
*
2771741 CCGAATGACCACT
1 CCGAAGGACCACT
2771754 GATAATCCCT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
18 27 0.63
19 2 0.05
20 14 0.33
ACGTcount: A:0.30, C:0.32, G:0.19, T:0.19
Consensus pattern (18 bp):
CCGAAGGACCACTATGTC
Found at i:2771725 original size:38 final size:38
Alignment explanation
Indices: 2771680--2771756 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
2771670 CACTGAATAT
*
2771680 TTGTTCCGAAGGACCACTATATCCCGAAGGACCACTGA
1 TTGTTCCGAAGAACCACTATATCCCGAAGGACCACTGA
* *
2771718 TTGTTCCGAAGAACCACTATGTCCCGAATGACCACTGA
1 TTGTTCCGAAGAACCACTATATCCCGAAGGACCACTGA
2771756 T
1 T
2771757 AATCCCTCGA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (38 bp):
TTGTTCCGAAGAACCACTATATCCCGAAGGACCACTGA
Found at i:2775410 original size:23 final size:23
Alignment explanation
Indices: 2775379--2775445 Score: 75
Period size: 23 Copynumber: 2.9 Consensus size: 23
2775369 AACATTTCTA
*
2775379 TTTAATGTTTCTATTAATTT-GT
1 TTTAATGTTTTTATTAATTTAGT
*
2775401 TTTAATTGTTTTTACT-ATTTAGT
1 TTTAA-TGTTTTTATTAATTTAGT
2775424 TTGTAATGTTTTTATGTAATTT
1 TT-TAATGTTTTTAT-TAATTT
2775446 TCACTTGAGC
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
22 9 0.24
23 20 0.54
24 4 0.11
25 4 0.11
ACGTcount: A:0.22, C:0.03, G:0.10, T:0.64
Consensus pattern (23 bp):
TTTAATGTTTTTATTAATTTAGT
Found at i:2777126 original size:35 final size:35
Alignment explanation
Indices: 2777080--2777152 Score: 137
Period size: 35 Copynumber: 2.1 Consensus size: 35
2777070 TTTCTCTGTG
*
2777080 ATGTCGATATTTAGGTCGAACAAGTTGGTAGTTGA
1 ATGTCGATATTTAGGTCGAACAAGTTGGTAGTTAA
2777115 ATGTCGATATTTAGGTCGAACAAGTTGGTAGTTAA
1 ATGTCGATATTTAGGTCGAACAAGTTGGTAGTTAA
2777150 ATG
1 ATG
2777153 CCTCCCCATG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.30, C:0.08, G:0.27, T:0.34
Consensus pattern (35 bp):
ATGTCGATATTTAGGTCGAACAAGTTGGTAGTTAA
Found at i:2783603 original size:3 final size:3
Alignment explanation
Indices: 2783595--2783664 Score: 95
Period size: 3 Copynumber: 23.3 Consensus size: 3
2783585 GTTTTACACG
* * * *
2783595 TAA TAA TAA TAA TAA TAA TAA TAA CAA TAA TAA TAA CAA CAA TTA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
2783643 TAA CAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA T
2783665 CCATTCAATG
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:2784504 original size:39 final size:39
Alignment explanation
Indices: 2784450--2784528 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
2784440 TTAGAAAGAT
2784450 AACGGTAGAGTGAGCAAAATGATTCAATATGTAAAGTTC
1 AACGGTAGAGTGAGCAAAATGATTCAATATGTAAAGTTC
2784489 AACGGTAGAGTGAGCAAAATGATTCAATATGTAAAGTTC
1 AACGGTAGAGTGAGCAAAATGATTCAATATGTAAAGTTC
2784528 A
1 A
2784529 GTGAGCAAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.42, C:0.10, G:0.23, T:0.25
Consensus pattern (39 bp):
AACGGTAGAGTGAGCAAAATGATTCAATATGTAAAGTTC
Found at i:2789034 original size:31 final size:31
Alignment explanation
Indices: 2788999--2789057 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
2788989 ATTAACACCA
* * *
2788999 AGGCACCTAAAGTGATAACGTTTGTAACGTT
1 AGGCACCTAAAATGATAACATTTATAACGTT
2789030 AGGCACCTAAAATGATAACATTTATAAC
1 AGGCACCTAAAATGATAACATTTATAAC
2789058 TTTATACACC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.27
Consensus pattern (31 bp):
AGGCACCTAAAATGATAACATTTATAACGTT
Found at i:2789068 original size:31 final size:31
Alignment explanation
Indices: 2789002--2789068 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
2788992 AACACCAAGG
* * * *
2789002 CACCTAAAGTGATAACGTTTGTAACGTTAGG
1 CACCTAAAATGATAACATTTATAACGTTAGA
* *
2789033 CACCTAAAATGATAACATTTATAACTTTATA
1 CACCTAAAATGATAACATTTATAACGTTAGA
2789064 CACCT
1 CACCT
2789069 GGATGAGCCG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.37, C:0.19, G:0.12, T:0.31
Consensus pattern (31 bp):
CACCTAAAATGATAACATTTATAACGTTAGA
Found at i:2790161 original size:3 final size:3
Alignment explanation
Indices: 2790153--2790185 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
2790143 ATTTGATATA
2790153 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
2790186 TTAAAGGGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
CAT
Found at i:2790564 original size:18 final size:18
Alignment explanation
Indices: 2790541--2790580 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
2790531 GCAAAGTTGG
2790541 ATTCTGCTTCCTAT-TCGC
1 ATTCTGCTT-CTATCTCGC
*
2790559 ATTCTGGTTCTATCTCGC
1 ATTCTGCTTCTATCTCGC
2790577 ATTC
1 ATTC
2790581 GAGTTCTGCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.12, C:0.30, G:0.12, T:0.45
Consensus pattern (18 bp):
ATTCTGCTTCTATCTCGC
Found at i:2790741 original size:18 final size:17
Alignment explanation
Indices: 2790716--2790749 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
2790706 CTAATTCGGC
2790716 TTCACATTCTGCTTCTT
1 TTCACATTCTGCTTCTT
*
2790733 TTCATCATTCTGGTTCT
1 TTCA-CATTCTGCTTCT
2790750 ATTGAAGGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.12, C:0.26, G:0.09, T:0.53
Consensus pattern (17 bp):
TTCACATTCTGCTTCTT
Found at i:2791220 original size:195 final size:194
Alignment explanation
Indices: 2790867--2791230 Score: 482
Period size: 195 Copynumber: 1.9 Consensus size: 194
2790857 ACCTGCCTCT
* * * * * *
2790867 GCAAATCAAGGTGGTGCTATGGGTCATAGTTCTGCATCTTTTTCACTTTCAGGTTCAGCTTCTAG
1 GCAAATCAAGGTGGTACTACGGGTCATAGCTCTGCATCTTTCTCACATTCAAGTTCAGCTTCTAG
* * * * *
2790932 CGCATCCTCACATTCTAGTTCAGCTTCACATTCCGCTTCTTTTCATCATTCTGGTTCTGTTGAAG
66 CGCATCCTCACATTCCAGTTCAGCTTCACATTCCGCTTCTTTTAATCACTCTGGTTCTATTAAAG
* *
2790997 GTTCTAGCACTATTGCAAATTCTAATGATTCTAAAGGTTCCGGTGAATCTTCACAATCTAGTTCA
131 GTTCTAGCACTA-TACAAATTCTAATGATTCCAAAGGTTCCGGTGAATCTTCACAATCTAGTTCA
* *
2791062 GCAAATCAAGGTGGTACTACGGGTCATGGCTCTTCATCTTTCTCACATTCAAGTTCAGCTTCTAG
1 GCAAATCAAGGTGGTACTACGGGTCATAGCTCTGCATCTTTCTCACATTCAAGTTCAGCTTCTAG
** * *
2791127 CTTATCCTCGCATTCCGGTTCAGCTTCACATTCCGCTTCTTTTAATCACTCTGGTTCTATTAAAG
66 CGCATCCTCACATTCCAGTTCAGCTTCACATTCCGCTTCTTTTAATCACTCTGGTTCTATTAAAG
*
2791192 GTTCTGGAGCAAC-A-ACAGATGT-TAATGATTCCAAAGGTT
131 GTTCT--AGC-ACTATACAAAT-TCTAATGATTCCAAAGGTT
2791231 TAGGTTCTGT
Statistics
Matches: 145, Mismatches: 20, Indels: 8
0.84 0.12 0.05
Matches are distributed among these distances:
195 138 0.95
196 1 0.01
197 4 0.03
198 2 0.01
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.36
Consensus pattern (194 bp):
GCAAATCAAGGTGGTACTACGGGTCATAGCTCTGCATCTTTCTCACATTCAAGTTCAGCTTCTAG
CGCATCCTCACATTCCAGTTCAGCTTCACATTCCGCTTCTTTTAATCACTCTGGTTCTATTAAAG
GTTCTAGCACTATACAAATTCTAATGATTCCAAAGGTTCCGGTGAATCTTCACAATCTAGTTCA
Found at i:2792194 original size:495 final size:489
Alignment explanation
Indices: 2790824--2792394 Score: 2424
Period size: 495 Copynumber: 3.2 Consensus size: 489
2790814 CCACAAGTTA
* * * * * **
2790824 TGGGATTTCAAAGGGTTCTGACGAATCCTCACAACCTGCCTCTGCAAATCAAGGTGGTGCTATGG
1 TGGGGTTTCTAAGGGTTCCGACAAATCCTCACAATCTGGTTCTGCAAATCAAGGTGGTGCTATGG
* ** * * * * *
2790889 GTCATAGTTCTGCATCTTTTTCACTTTCAGGTTCAGCTTCTAGCGCATCCTCACATTCTAGTTCA
66 GTCACAACTCTGTATCTTTCTCACATGCAGGTTCAGCTTCTAGCGCATCCTCACATTCCAGTTCA
* * * * * *
2790954 GCTTCACATTCCGCTTCTTTTCATCATTCTGGTTCTGTTGAAGGTTCTAGCACTATTGCAAATTC
131 GCTTCACATTCTGCTTCTTTTCATCATTCCGGTTCTATTGAAGGTTCTGGCACTACTGCAAAGTC
* * * * * * * *
2791019 TAATGATTCTAAAGGTTCCGGTGAATCTTCACAATCTAGTTCAGCAAATCAAGGTGGTACTACGG
196 TAATGATTCTAAGGGTTCTGGCGAAACTTTACAATCCAGATCAGCAAATCAAGGTGGTATTACGG
*
2791084 GTCATGGCTCTTCATCTTTCTCACATTCAAGTTCAGCTTCTAGCTTATCCTCGCATTCCGGTTCA
261 GTCATGGCTCTTCATCTTTCTCACATTCAAGTTCAGCTTCTAGCTCATCCTCGCATTCCGGTTCA
* *
2791149 GCTTCACATTCCGCTTCTTTTAATCACTCTGGTTCTATTAAAGGTTCTGGAGC-AACAACAGATG
326 GCTTCACATTCCGCATCTTTTAATCACTCTGGTTCTATTAAAGGTTCTGGAACTAA-AACAGATG
* * * * *
2791213 TTAATGATTCCAAAGGTTTAGGTTCTGTTGTGACTTATAACTCTTCATCAGGTTCCGGGGCTTCT
390 TTGATGATTCTAAAGGTTTAGGTTCTGTTGTGACTTCTAACTCTTCATCAGGTTTCGGGGCTTCC
*
2791278 GGTTCCATAACAAGTTCTGGTTCTTCATCAGGTTC
455 GGTTCCACAACAAGTTCTGGTTCTTCATCAGGTTC
**
2791313 TGGGGTTTCTAAGGGTTCTAACAAATCCTCACAATCTGGTTCTGCAAATCAAGGTGGTGCTATGG
1 TGGGGTTTCTAAGGGTTCCGACAAATCCTCACAATCTGGTTCTGCAAATCAAGGTGGTGCTATGG
*
2791378 GTCACAACTCTGTATCTTTCTCACATGCAGGTTCAGCTTCTAGTGCATCCTCACATTCCAGTTCA
66 GTCACAACTCTGTATCTTTCTCACATGCAGGTTCAGCTTCTAGCGCATCCTCACATTCCAGTTCA
* *
2791443 GCTTCACATTCTGCTGCTTTTCATCATTCCGGATCTATTGAAGGTTCTGGCACTACT-----G-C
131 GCTTCACATTCTGCTTCTTTTCATCATTCCGGTTCTATTGAAGGTTCTGGCACTACTGCAAAGTC
2791502 -AA--ATTCTAAGGGTTCTGGCGAAACTTTACAATCCAGATCAGCAAATCAAGGTGGTATTACGG
196 TAATGATTCTAAGGGTTCTGGCGAAACTTTACAATCCAGATCAGCAAATCAAGGTGGTATTACGG
*
2791564 GTCATGGCTCTTCATCTTTCTCACATTCAAGTTCAACTTCTAGCTCATCCTCGCATTCCGGTTCA
261 GTCATGGCTCTTCATCTTTCTCACATTCAAGTTCAGCTTCTAGCTCATCCTCGCATTCCGGTTCA
* * *
2791629 GCTTCACATTCCGCATCTTTTAATCACTCTGGTTCTATTAAAGGTTCTGGAACTACAACGGATAT
326 GCTTCACATTCCGCATCTTTTAATCACTCTGGTTCTATTAAAGGTTCTGGAACTAAAACAGATGT
*
2791694 TGATGATTCTAAAGGTTTAGGTTCTGTTGTGACTTCTAACTCTCCATCAGGTTTCGGGGCTTCCG
391 TGATGATTCTAAAGGTTTAGGTTCTGTTGTGACTTCTAACTCTTCATCAGGTTTCGGGGCTTCCG
*
2791759 GTTTCACAACAAGTTCTGGTTCTTCATCAGGTTCTGGCCC
456 GTTCCACAACAAGTTCTGGTTCTTCATCAGG-T-T----C
* * *
2791799 TGGGGTTTCTAAGGGTTCCGACAAATCCTCACAATATGGTTATACAAATCAAGGTGGTGCTATGG
1 TGGGGTTTCTAAGGGTTCCGACAAATCCTCACAATCTGGTTCTGCAAATCAAGGTGGTGCTATGG
*
2791864 GTCACAACTCTGTATCTTTCTCACATGCAGGCTCAGCTTCTAGCGCATCCTCACATTCCAGTTCA
66 GTCACAACTCTGTATCTTTCTCACATGCAGGTTCAGCTTCTAGCGCATCCTCACATTCCAGTTCA
2791929 GCTTCACATTCTGCTTCTTTTCATCATTCCGGTTCTATTGAAGGTTCTGGCACTACTGCAAAGTC
131 GCTTCACATTCTGCTTCTTTTCATCATTCCGGTTCTATTGAAGGTTCTGGCACTACTGCAAAGTC
* *
2791994 TAATGATTCTAAGGGTTCTGGCGAAACTTTACAATCCAGATCAGCAAATCAAGTTGGTATTACGA
196 TAATGATTCTAAGGGTTCTGGCGAAACTTTACAATCCAGATCAGCAAATCAAGGTGGTATTACGG
* * *
2792059 GTCATGGTTCTTCATCTTTCTCACATTCAAGTTCAGCTTCTAGATCATCCTCGCATTCCAGTTCA
261 GTCATGGCTCTTCATCTTTCTCACATTCAAGTTCAGCTTCTAGCTCATCCTCGCATTCCGGTTCA
* *
2792124 GCTTCACATTCCGAATCTTTTAATCACTCTGGTTCTATTAAAGGTTCTGGAACTAAAACAGACGT
326 GCTTCACATTCCGCATCTTTTAATCACTCTGGTTCTATTAAAGGTTCTGGAACTAAAACAGATGT
2792189 TGATGATTCTAAAGGTTTAGGTTCTGTTGTGACTTCTAACTCTTCATCAGGTTTCGGGGCTTCCG
391 TGATGATTCTAAAGGTTTAGGTTCTGTTGTGACTTCTAACTCTTCATCAGGTTTCGGGGCTTCCG
2792254 GTTCCACAACAAGTTCTGGTTCTTCATCAGGTTC
456 GTTCCACAACAAGTTCTGGTTCTTCATCAGGTTC
* * * *
2792288 TGGGGTTTCTAAGGGCTCCGACAAATCTTCACAATCTAGTTCTGCAAGTCAAGGTGGTGCTATGG
1 TGGGGTTTCTAAGGGTTCCGACAAATCCTCACAATCTGGTTCTGCAAATCAAGGTGGTGCTATGG
*
2792353 GTCACAACTCTGTATCTTTCTCACATGCAAGTTCAGCTTCTA
66 GTCACAACTCTGTATCTTTCTCACATGCAGGTTCAGCTTCTA
2792395 TTGAAGGTTC
Statistics
Matches: 988, Mismatches: 78, Indels: 32
0.90 0.07 0.03
Matches are distributed among these distances:
480 261 0.26
481 2 0.00
482 3 0.00
483 1 0.00
486 179 0.18
489 263 0.27
491 1 0.00
492 1 0.00
493 3 0.00
494 1 0.00
495 273 0.28
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.35
Consensus pattern (489 bp):
TGGGGTTTCTAAGGGTTCCGACAAATCCTCACAATCTGGTTCTGCAAATCAAGGTGGTGCTATGG
GTCACAACTCTGTATCTTTCTCACATGCAGGTTCAGCTTCTAGCGCATCCTCACATTCCAGTTCA
GCTTCACATTCTGCTTCTTTTCATCATTCCGGTTCTATTGAAGGTTCTGGCACTACTGCAAAGTC
TAATGATTCTAAGGGTTCTGGCGAAACTTTACAATCCAGATCAGCAAATCAAGGTGGTATTACGG
GTCATGGCTCTTCATCTTTCTCACATTCAAGTTCAGCTTCTAGCTCATCCTCGCATTCCGGTTCA
GCTTCACATTCCGCATCTTTTAATCACTCTGGTTCTATTAAAGGTTCTGGAACTAAAACAGATGT
TGATGATTCTAAAGGTTTAGGTTCTGTTGTGACTTCTAACTCTTCATCAGGTTTCGGGGCTTCCG
GTTCCACAACAAGTTCTGGTTCTTCATCAGGTTC
Found at i:2792761 original size:429 final size:429
Alignment explanation
Indices: 2791961--2792823 Score: 1458
Period size: 429 Copynumber: 2.0 Consensus size: 429
2791951 ATCATTCCGG
* *
2791961 TTCTATTGAAGGTTCTGGCACTACTGCAAAGTCTAATGATTCTAAGGGTTCTGGCGAAACTTTAC
1 TTCTATTGAAGGTTCTGGCACTACTGCAAAGTATAATGATTCTAAGGGTTCTGGCGAAACTTCAC
* * * *
2792026 AATCCAGATCAGCAAATCAAGTTGGTATTACGAGTCATGGTTCTTCATCTTTCTCACATTCAAGT
66 AATCCAGATCAACAAATCAAGGTGGTATTACGAGTCATGGCTCTTCATCTTTCTCACATGCAAGT
2792091 TCAGCTTCTAGATCATCCTCGCATTCCAGTTCAGCTTCACATTCCGAATCTTTTAATCACTCTGG
131 TCAGCTTCTAGATCATCCTCGCATTCCAGTTCAGCTTCACATTCCGAATCTTTTAATCACTCTGG
* *
2792156 TTCTATTAAAGGTTCTGGAACTAAAACAGACGTTGATGATTCTAAAGGTTTAGGTTCTGTTGTGA
196 TTCTATTAAAGGTTCTGGAACGAAAACAGACGTTGATGATTCTAAAGGTTCAGGTTCTGTTGTGA
*
2792221 CTTCTAACTCTTCATCAGGTTTCGGGGCTTCCGGTTCCACAACAAGTTCTGGTTCTTCATCAGGT
261 CTTCTAACTCTTCATCAGGTTCCGGGGCTTCCGGTTCCACAACAAGTTCTGGTTCTTCATCAGGT
* * *
2792286 TCTGGGGTTTCTAAGGGCTCCGACAAATCTTCACAATCTAGTTCTGCAAGTCAAGGTGGTGCTAT
326 TCTAGGGTTTCTAAGGGCTCCGACAAATCCTCACAATCTAGTTCTGCAAATCAAGGTGGTGCTAT
* *
2792351 GGGTCACAACTCTGTATCTTTCTCACATGCAAG-TTCAGC
391 GGGTCAAAACTCTGTATCTTTCTCACATAC-AGTTTCAGC
*
2792390 TTCTATTGAAGGTTCTGGCACTACTGCAAATTATAATGATTCTAAGGGTTCTGGCGAAACTTCAC
1 TTCTATTGAAGGTTCTGGCACTACTGCAAAGTATAATGATTCTAAGGGTTCTGGCGAAACTTCAC
* *
2792455 AATCCAGTTCAACAAATCAAGGTGGTATTACGGGTCATGGCTCTTCATCTTTCTCACATGCAAGT
66 AATCCAGATCAACAAATCAAGGTGGTATTACGAGTCATGGCTCTTCATCTTTCTCACATGCAAGT
* * *
2792520 TCAGCTTCTAGCTCATCCTCGCATTCCGGTTCAGCTTCACATTCCGCATCTTTTAATCACTCTGG
131 TCAGCTTCTAGATCATCCTCGCATTCCAGTTCAGCTTCACATTCCGAATCTTTTAATCACTCTGG
* * * * *
2792585 TTCTATTAATGGTTCTGGAACGACAACGGATGTTGATGATTCTAAAGGTTCAGGTTCTGTTTTGA
196 TTCTATTAAAGGTTCTGGAACGAAAACAGACGTTGATGATTCTAAAGGTTCAGGTTCTGTTGTGA
*
2792650 CTTCTAACTCTTCATCAGGTTCCGGGGCTTCCGGTTCCACAACAAGTTTTGGTTCTTCATCAGGT
261 CTTCTAACTCTTCATCAGGTTCCGGGGCTTCCGGTTCCACAACAAGTTCTGGTTCTTCATCAGGT
* *
2792715 TCTAGGGTTTCTAAGGGTTCCGACAAATCCTCACAATCTGGTTCTGCAAATCAAGGTGGTGCTAT
326 TCTAGGGTTTCTAAGGGCTCCGACAAATCCTCACAATCTAGTTCTGCAAATCAAGGTGGTGCTAT
2792780 GGGTCAAAACTCTGTATCTTTCTCACATACAGTTTCAGC
391 GGGTCAAAACTCTGTATCTTTCTCACATACAGTTTCAGC
2792819 TTCTA
1 TTCTA
2792824 GCGCATCCTC
Statistics
Matches: 405, Mismatches: 28, Indels: 2
0.93 0.06 0.00
Matches are distributed among these distances:
428 2 0.00
429 403 1.00
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.34
Consensus pattern (429 bp):
TTCTATTGAAGGTTCTGGCACTACTGCAAAGTATAATGATTCTAAGGGTTCTGGCGAAACTTCAC
AATCCAGATCAACAAATCAAGGTGGTATTACGAGTCATGGCTCTTCATCTTTCTCACATGCAAGT
TCAGCTTCTAGATCATCCTCGCATTCCAGTTCAGCTTCACATTCCGAATCTTTTAATCACTCTGG
TTCTATTAAAGGTTCTGGAACGAAAACAGACGTTGATGATTCTAAAGGTTCAGGTTCTGTTGTGA
CTTCTAACTCTTCATCAGGTTCCGGGGCTTCCGGTTCCACAACAAGTTCTGGTTCTTCATCAGGT
TCTAGGGTTTCTAAGGGCTCCGACAAATCCTCACAATCTAGTTCTGCAAATCAAGGTGGTGCTAT
GGGTCAAAACTCTGTATCTTTCTCACATACAGTTTCAGC
Found at i:2793118 original size:195 final size:195
Alignment explanation
Indices: 2792760--2793124 Score: 414
Period size: 195 Copynumber: 1.9 Consensus size: 195
2792750 ATCTGGTTCT
* * *
2792760 GCAAATCAAGGTGGTGCTATGGGTCAAAACTCTGTATCTTTCTCACATACAGTTTCAGCTTCTAG
1 GCAAATCAAGGTGGTACTACGGGTCAAAACTCTGTATCTTTCTCAAATACAGTTTCAGCTTCTAG
* * * * *
2792825 CGCATCCTCACATTCCAGTTCAGCTTCACGTTCTGCTTCTTTTCATCATTCCGGTTCTATTGAAG
66 CGCATCCTCACATTCCAGTTCAGCTTCACATTCCGCTTCTTTTAATCACTCCGGTTCTATTAAAG
* * * *
2792890 GTTCTGGCACTACTGTAAATTCTAATGATTCTAAGGGTTCTGGTGAAACTTTACAATCCAGATCA
131 GTTCTGGAACTACTGGAAATTCTAATAATTCTAAAGGTTCTGGTGAAACTTTACAATCCAGATCA
* *** *
2792955 GCAAATCAAGGTGGTATTACGGGTCATGGCTCT-TCATCTTTCTCAAATTCAAG-TTCAGCTTCT
1 GCAAATCAAGGTGGTACTACGGGTCAAAACTCTGT-ATCTTTCTCAAATAC-AGTTTCAGCTTCT
* * * * * * * * *
2793018 AGCTCATCTTCGCATTCCGGTTCAGTTTCCCATTCCGTTTCTTTTAATCACTCTGGTTCTTTTAA
64 AGCGCATCCTCACATTCCAGTTCAGCTTCACATTCCGCTTCTTTTAATCACTCCGGTTCTATTAA
* *
2793083 AGGTTCTGGAACTACAATGGATA-T-TGATAATTCTAAAGGTTC
129 AGGTTCTGGAACTAC--TGGAAATTCTAATAATTCTAAAGGTTC
2793125 AGGTTCTGTT
Statistics
Matches: 138, Mismatches: 28, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
194 1 0.01
195 130 0.94
196 3 0.02
197 4 0.03
ACGTcount: A:0.24, C:0.23, G:0.17, T:0.36
Consensus pattern (195 bp):
GCAAATCAAGGTGGTACTACGGGTCAAAACTCTGTATCTTTCTCAAATACAGTTTCAGCTTCTAG
CGCATCCTCACATTCCAGTTCAGCTTCACATTCCGCTTCTTTTAATCACTCCGGTTCTATTAAAG
GTTCTGGAACTACTGGAAATTCTAATAATTCTAAAGGTTCTGGTGAAACTTTACAATCCAGATCA
Found at i:2793285 original size:918 final size:921
Alignment explanation
Indices: 2791504--2793312 Score: 3086
Period size: 918 Copynumber: 2.0 Consensus size: 921
2791494 ACTACTGCAA
* *
2791504 ATTCTAAGGGTTCTGGCGAAACTTTACAATCCAGATCAGCAAATCAAGGTGGTATTACGGGTCAT
1 ATTCTAAGGGTTCTGGCGAAACTTCACAATCCAGATCAACAAATCAAGGTGGTATTACGGGTCAT
*
2791569 GGCTCTTCATCTTTCTCACATTCAAGTTCAACTTCTAGCTCATCCTCGCATTCCGGTTCAGCTTC
66 GGCTCTTCATCTTTCTCACATGCAAGTTCAACTTCTAGCTCATCCTCGCATTCCGGTTCAGCTTC
*
2791634 ACATTCCGCATCTTTTAATCACTCTGGTTCTATTAAAGGTTCTGGAACTACAACGGATATTGATG
131 ACATTCCGCATCTTTTAATCACTCTGGTTCTATTAAAGGTTCTGGAACGACAACGGATATTGATG
* * *
2791699 ATTCTAAAGGTTTAGGTTCTGTTGTGACTTCTAACTCTCCATCAGGTTTCGGGGCTTCCGGTTTC
196 ATTCTAAAGGTTCAGGTTCTGTTGTGACTTCTAACTCTCCATCAGGTTCCGGGGCTTCCGGTTCC
*
2791764 ACAACAAGTTCTGGTTCTTCATCAGGTTCTGGCCCTGGGGTTTCTAAGGGTTCCGACAAATCCTC
261 ACAACAAGTTCTGGTTCTTCATCAGGTTCT---CCTAGGGTTTCTAAGGGTTCCGACAAATCCTC
* *
2791829 ACAATATGGTTATACAAATCAAGGTGGTGCTATGGGTCACAACTCTGTATCTTTCTCACATGCAG
323 ACAATATGGTTATACAAATCAAGGTGGTGCTATGGGTCAAAACTCTGTATCTTTCTCACATACAG
2791894 GCTCAGCTTCTAGCGCATCCTCACATTCCAGTTCAGCTTCACATTCTGCTTCTTTTCATCATTCC
388 GCTCAGCTTCTAGCGCATCCTCACATTCCAGTTCAGCTTCACATTCTGCTTCTTTTCATCATTCC
2791959 GGTTCTATTGAAGGTTCTGGCACTACTGCAAAGTCTAATGATTCTAAGGGTTCTGGCGAAACTTT
453 GGTTCTATTGAAGGTTCTGGCACTACTGCAAAGTCTAATGATTCTAAGGGTTCTGGCGAAACTTT
* * *
2792024 ACAATCCAGATCAGCAAATCAAGTTGGTATTACGAGTCATGGTTCTTCATCTTTCTCACATTCAA
518 ACAATCCAGATCAGCAAATCAAGGTGGTATTACGAGTCATGGCTCTTCATCTTTCTCAAATTCAA
2792089 GTTCAGCTTCTAGATCATCCTCGCATTCCAGTTCAGCTTCACATTCCGAATCTTTTAATCACTCT
583 GTTCAGCTTCTAGATCATCCTCGCATTCCAGTTCAGCTTCACATTCCGAATCTTTTAATCACTCT
* * *
2792154 GGTTCTATTAAAGGTTCTGGAACTAAAACAGACGTTGATGATTCTAAAGGTTTAGGTTCTGTTGT
648 GGTTCTATTAAAGGTTCTGGAACTAAAACAGACATTGATAATTCTAAAGGTTCAGGTTCTGTTGT
*
2792219 GACTTCTAACTCTTCATCAGGTTTCGGGGCTTCCGGTTCCACAACAAGTTCTGGTTCTTCATCAG
713 GACTTCTAACTCTTCATCAGGTTCCGGGGCTTCCGGTTCCACAACAAGTTCTGGTTCTTCATCAG
* * *
2792284 GTTCTGGGGTTTCTAAGGGCTCCGACAAATCTTCACAATCTAGTTCTGCAAGTCAAGGTGGTGCT
778 GTTCTGGGGTTTCTAAGGGCTCCAACAAATCCTCACAATCTAGTTCTGCAAATCAAGGTGGTGCT
2792349 ATGGGTCACAACTCTGTATCTTTCTCACATGCAAGTTCAGCTTCTATTGAAGGTTCTGGCACTAC
843 ATGGGTCACAACTCTGTATCTTTCTCACATGCAAGTTCAGCTTCTATTGAAGGTTCTGGCACTAC
2792414 TGCAAATTATAATG
908 TGCAAATTATAATG
*
2792428 ATTCTAAGGGTTCTGGCGAAACTTCACAATCCAGTTCAACAAATCAAGGTGGTATTACGGGTCAT
1 ATTCTAAGGGTTCTGGCGAAACTTCACAATCCAGATCAACAAATCAAGGTGGTATTACGGGTCAT
*
2792493 GGCTCTTCATCTTTCTCACATGCAAGTTCAGCTTCTAGCTCATCCTCGCATTCCGGTTCAGCTTC
66 GGCTCTTCATCTTTCTCACATGCAAGTTCAACTTCTAGCTCATCCTCGCATTCCGGTTCAGCTTC
* *
2792558 ACATTCCGCATCTTTTAATCACTCTGGTTCTATTAATGGTTCTGGAACGACAACGGATGTTGATG
131 ACATTCCGCATCTTTTAATCACTCTGGTTCTATTAAAGGTTCTGGAACGACAACGGATATTGATG
* *
2792623 ATTCTAAAGGTTCAGGTTCTGTTTTGACTTCTAACTCTTCATCAGGTTCCGGGGCTTCCGGTTCC
196 ATTCTAAAGGTTCAGGTTCTGTTGTGACTTCTAACTCTCCATCAGGTTCCGGGGCTTCCGGTTCC
*
2792688 ACAACAAGTTTTGGTTCTTCATCAGG-T-T-CTAGGGTTTCTAAGGGTTCCGACAAATCCTCACA
261 ACAACAAGTTCTGGTTCTTCATCAGGTTCTCCTAGGGTTTCTAAGGGTTCCGACAAATCCTCACA
* * * **
2792750 ATCTGGTTCTGCAAATCAAGGTGGTGCTATGGGTCAAAACTCTGTATCTTTCTCACATACAGTTT
326 ATATGGTTATACAAATCAAGGTGGTGCTATGGGTCAAAACTCTGTATCTTTCTCACATACAGGCT
*
2792815 CAGCTTCTAGCGCATCCTCACATTCCAGTTCAGCTTCACGTTCTGCTTCTTTTCATCATTCCGGT
391 CAGCTTCTAGCGCATCCTCACATTCCAGTTCAGCTTCACATTCTGCTTCTTTTCATCATTCCGGT
* * *
2792880 TCTATTGAAGGTTCTGGCACTACTGTAAATTCTAATGATTCTAAGGGTTCTGGTGAAACTTTACA
456 TCTATTGAAGGTTCTGGCACTACTGCAAAGTCTAATGATTCTAAGGGTTCTGGCGAAACTTTACA
*
2792945 ATCCAGATCAGCAAATCAAGGTGGTATTACGGGTCATGGCTCTTCATCTTTCTCAAATTCAAGTT
521 ATCCAGATCAGCAAATCAAGGTGGTATTACGAGTCATGGCTCTTCATCTTTCTCAAATTCAAGTT
* * * * * **
2793010 CAGCTTCTAGCTCATCTTCGCATTCCGGTTCAGTTTCCCATTCCGTTTCTTTTAATCACTCTGGT
586 CAGCTTCTAGATCATCCTCGCATTCCAGTTCAGCTTCACATTCCGAATCTTTTAATCACTCTGGT
* * ** *
2793075 TCTTTTAAAGGTTCTGGAACTACAATGGATATTGATAATTCTAAAGGTTCAGGTTCTGTTGTGAC
651 TCTATTAAAGGTTCTGGAACTAAAACAGACATTGATAATTCTAAAGGTTCAGGTTCTGTTGTGAC
*
2793140 TTCTAACTCTTCAAT-AGGTTCCGGGGCTTCTGGTTCCACAACAAGTTCTGGTTCTTCATCAGGT
716 TTCTAACTCTTC-ATCAGGTTCCGGGGCTTCCGGTTCCACAACAAGTTCTGGTTCTTCATCAGGT
*
2793204 TCTGGGGTTTCTAAGGGCTCCAACAAATCCTCACAATCTGGTTCTGCAAATCAAGGTGGTGCTAT
780 TCTGGGGTTTCTAAGGGCTCCAACAAATCCTCACAATCTAGTTCTGCAAATCAAGGTGGTGCTAT
*
2793269 GGGTCACAACTCTGTATCTTTCTCACATGCAGGTTCAGCTTCTA
845 GGGTCACAACTCTGTATCTTTCTCACATGCAAGTTCAGCTTCTA
2793313 GCGCATCCTC
Statistics
Matches: 832, Mismatches: 52, Indels: 8
0.93 0.06 0.01
Matches are distributed among these distances:
918 556 0.67
919 2 0.00
922 1 0.00
923 1 0.00
924 272 0.33
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (921 bp):
ATTCTAAGGGTTCTGGCGAAACTTCACAATCCAGATCAACAAATCAAGGTGGTATTACGGGTCAT
GGCTCTTCATCTTTCTCACATGCAAGTTCAACTTCTAGCTCATCCTCGCATTCCGGTTCAGCTTC
ACATTCCGCATCTTTTAATCACTCTGGTTCTATTAAAGGTTCTGGAACGACAACGGATATTGATG
ATTCTAAAGGTTCAGGTTCTGTTGTGACTTCTAACTCTCCATCAGGTTCCGGGGCTTCCGGTTCC
ACAACAAGTTCTGGTTCTTCATCAGGTTCTCCTAGGGTTTCTAAGGGTTCCGACAAATCCTCACA
ATATGGTTATACAAATCAAGGTGGTGCTATGGGTCAAAACTCTGTATCTTTCTCACATACAGGCT
CAGCTTCTAGCGCATCCTCACATTCCAGTTCAGCTTCACATTCTGCTTCTTTTCATCATTCCGGT
TCTATTGAAGGTTCTGGCACTACTGCAAAGTCTAATGATTCTAAGGGTTCTGGCGAAACTTTACA
ATCCAGATCAGCAAATCAAGGTGGTATTACGAGTCATGGCTCTTCATCTTTCTCAAATTCAAGTT
CAGCTTCTAGATCATCCTCGCATTCCAGTTCAGCTTCACATTCCGAATCTTTTAATCACTCTGGT
TCTATTAAAGGTTCTGGAACTAAAACAGACATTGATAATTCTAAAGGTTCAGGTTCTGTTGTGAC
TTCTAACTCTTCATCAGGTTCCGGGGCTTCCGGTTCCACAACAAGTTCTGGTTCTTCATCAGGTT
CTGGGGTTTCTAAGGGCTCCAACAAATCCTCACAATCTAGTTCTGCAAATCAAGGTGGTGCTATG
GGTCACAACTCTGTATCTTTCTCACATGCAAGTTCAGCTTCTATTGAAGGTTCTGGCACTACTGC
AAATTATAATG
Found at i:2793308 original size:489 final size:489
Alignment explanation
Indices: 2792390--2793619 Score: 2113
Period size: 489 Copynumber: 2.5 Consensus size: 489
2792380 CAAGTTCAGC
2792390 TTCTATTGAAGGTTCTGGCACTACTGCAAATTATAATGATTCTAAGGGTTCTGGCGAAACTTCAC
1 TTCTATTGAAGGTTCTGGCACTACTGCAAATTATAATGATTCTAAGGGTTCTGGCGAAACTTCAC
*
2792455 AATCCAGTTCAACAAATCAAGGTGGTATTACGGGTCATGGCTCTTCATCTTTCTCACATGCAAGT
66 AATCCAGTTCAGCAAATCAAGGTGGTATTACGGGTCATGGCTCTTCATCTTTCTCACATGCAAGT
*
2792520 TCAGCTTCTAGCTCATCCTCGCATTCCGGTTCAGCTTCACATTCCGCATCTTTTAATCACTCTGG
131 TCAGCTTCTAGCTCATCTTCGCATTCCGGTTCAGCTTCACATTCCGCATCTTTTAATCACTCTGG
* * *
2792585 TTCTATTAATGGTTCTGGAACGACAACGGATGTTGATGATTCTAAAGGTTCAGGTTCTGTTTTGA
196 TTCTATTAAAGGTTCTGGAACTACAACGGATGTTGATGATTCTAAAGGTTCAGGTTCTGTTGTGA
*
2792650 CTTCTAACTCTTCATCAGGTTCCGGGGCTTCCGGTTCCACAACAAGTTTTGGTTCTTCATCAGGT
261 CTTCTAACTCTTCATCAGGTTCCGGGGCTTCCGGTTCCACAACAAGTTCTGGTTCTTCATCAGGT
* *
2792715 TCTAGGGTTTCTAAGGGTTCCGACAAATCCTCACAATCTGGTTCTGCAAATCAAGGTGGTGCTAT
326 TCTAGGGTTTCTAAGGGCTCCAACAAATCCTCACAATCTGGTTCTGCAAATCAAGGTGGTGCTAT
*
2792780 GGGTCAAAACTCTGTATCTTTCTCACATACAGTTTCAGCTTCTAGCGCATCCTCACATTCCAGTT
391 GGGTCAAAACTCTGTATCTTTCTCACATACAGGTTCAGCTTCTAGCGCATCCTCACATTCCAGTT
*
2792845 CAGCTTCACGTTCTGCTTCTTTTCATCATTCCGG
456 CAGCTTCACATTCTGCTTCTTTTCATCATTCCGG
* * * *
2792879 TTCTATTGAAGGTTCTGGCACTACTGTAAATTCTAATGATTCTAAGGGTTCTGGTGAAACTTTAC
1 TTCTATTGAAGGTTCTGGCACTACTGCAAATTATAATGATTCTAAGGGTTCTGGCGAAACTTCAC
* * *
2792944 AATCCAGATCAGCAAATCAAGGTGGTATTACGGGTCATGGCTCTTCATCTTTCTCAAATTCAAGT
66 AATCCAGTTCAGCAAATCAAGGTGGTATTACGGGTCATGGCTCTTCATCTTTCTCACATGCAAGT
* * **
2793009 TCAGCTTCTAGCTCATCTTCGCATTCCGGTTCAGTTTCCCATTCCGTTTCTTTTAATCACTCTGG
131 TCAGCTTCTAGCTCATCTTCGCATTCCGGTTCAGCTTCACATTCCGCATCTTTTAATCACTCTGG
* * * *
2793074 TTCTTTTAAAGGTTCTGGAACTACAATGGATATTGATAATTCTAAAGGTTCAGGTTCTGTTGTGA
196 TTCTATTAAAGGTTCTGGAACTACAACGGATGTTGATGATTCTAAAGGTTCAGGTTCTGTTGTGA
*
2793139 CTTCTAACTCTTCAAT-AGGTTCCGGGGCTTCTGGTTCCACAACAAGTTCTGGTTCTTCATCAGG
261 CTTCTAACTCTTC-ATCAGGTTCCGGGGCTTCCGGTTCCACAACAAGTTCTGGTTCTTCATCAGG
*
2793203 TTCTGGGGTTTCTAAGGGCTCCAACAAATCCTCACAATCTGGTTCTGCAAATCAAGGTGGTGCTA
325 TTCTAGGGTTTCTAAGGGCTCCAACAAATCCTCACAATCTGGTTCTGCAAATCAAGGTGGTGCTA
* *
2793268 TGGGTCACAACTCTGTATCTTTCTCACATGCAGGTTCAGCTTCTAGCGCATCCTCACATTCCAGT
390 TGGGTCAAAACTCTGTATCTTTCTCACATACAGGTTCAGCTTCTAGCGCATCCTCACATTCCAGT
* * *
2793333 TCAGCTTCACATTCTTCTTCTTTTCATCGTTCTGG
455 TCAGCTTCACATTCTGCTTCTTTTCATCATTCCGG
2793368 TTCTATTGAAGGTTCTGGCACTACTGCAAATTATAATGATTCTAAGGGTTCTGGCGAAACTTCAC
1 TTCTATTGAAGGTTCTGGCACTACTGCAAATTATAATGATTCTAAGGGTTCTGGCGAAACTTCAC
* *
2793433 AATTCAGTTCAGCAAATCAAGGTAGTATTACGGGTCATGGCTCTTCATCTTTCTCACATGCAAGT
66 AATCCAGTTCAGCAAATCAAGGTGGTATTACGGGTCATGGCTCTTCATCTTTCTCACATGCAAGT
*
2793498 TCAGTTTCTAGCTCAT-TCTCGCATTCCGGTTCAGCTTCACATTCCGCATCTTTTAATCACTCTG
131 TCAGCTTCTAGCTCATCT-TCGCATTCCGGTTCAGCTTCACATTCCGCATCTTTTAATCACTCTG
2793562 GTTCTATTAAAGGTTCTGGAACTACAACGGATGTTGATGATTCTAAAGGTTCAGGTTC
195 GTTCTATTAAAGGTTCTGGAACTACAACGGATGTTGATGATTCTAAAGGTTCAGGTTC
2793620 CGGGGCTTCC
Statistics
Matches: 689, Mismatches: 50, Indels: 4
0.93 0.07 0.01
Matches are distributed among these distances:
488 1 0.00
489 686 1.00
490 2 0.00
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (489 bp):
TTCTATTGAAGGTTCTGGCACTACTGCAAATTATAATGATTCTAAGGGTTCTGGCGAAACTTCAC
AATCCAGTTCAGCAAATCAAGGTGGTATTACGGGTCATGGCTCTTCATCTTTCTCACATGCAAGT
TCAGCTTCTAGCTCATCTTCGCATTCCGGTTCAGCTTCACATTCCGCATCTTTTAATCACTCTGG
TTCTATTAAAGGTTCTGGAACTACAACGGATGTTGATGATTCTAAAGGTTCAGGTTCTGTTGTGA
CTTCTAACTCTTCATCAGGTTCCGGGGCTTCCGGTTCCACAACAAGTTCTGGTTCTTCATCAGGT
TCTAGGGTTTCTAAGGGCTCCAACAAATCCTCACAATCTGGTTCTGCAAATCAAGGTGGTGCTAT
GGGTCAAAACTCTGTATCTTTCTCACATACAGGTTCAGCTTCTAGCGCATCCTCACATTCCAGTT
CAGCTTCACATTCTGCTTCTTTTCATCATTCCGG
Found at i:2793804 original size:18 final size:17
Alignment explanation
Indices: 2793779--2793812 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
2793769 CCAATTTAAC
2793779 TTCACATTCTGCTTCTT
1 TTCACATTCTGCTTCTT
*
2793796 TTCATCATTCTGGTTCT
1 TTCA-CATTCTGCTTCT
2793813 ATTGAAGGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.12, C:0.26, G:0.09, T:0.53
Consensus pattern (17 bp):
TTCACATTCTGCTTCTT
Found at i:2794619 original size:339 final size:336
Alignment explanation
Indices: 2793948--2795024 Score: 1222
Period size: 339 Copynumber: 3.2 Consensus size: 336
2793938 CTCTAATGCT
* * * *
2793948 GATTCTAGA-AAGTTTAATGATTCAGATTCTGCTACGACTTCTAAAGGTTCTAACTCTTTCGTAA
1 GATTCTA-ACAAGTCTAATGATTCTGATTCTGCTACGACTTCTAAAGGTTCTAACTCTTCCGTAG
* * * **
2794012 ATTCAAACAAATCAATGGATTCCAGTTATACAGGGACTTCCCAGTCTTCATTAGGTTTTGGGGCT
65 ATTCAAACAATTCAAAGGATTCCAGTTCTACAGGGACTT-CCAGTCTTCATTAGG-TTCCGGGCT
* * * *
2794077 TCAAAATCCTCTGAAAGTTCTAGTTCATCATTAGCTTCTAGCGA-TCATAAGGGTTATGGCTCAT
128 TCAAATTCCTCTGAAAGTTCTGGTTCATCATCAACTTCTAGCGATTC-TAAGGGTT-TGGCTCAT
* * * * * * * *
2794141 CCTCACACACCAATTCTGCAACTCATGATGGTGCTATGAGCCATGGCTCTTCATCTTTATCACAT
191 CCTCACATATCAGTTCTGCAACTCATGCTGGAGCTACGAGTCATGGCTCTTCATCTTTCTCACAT
* * *
2794206 TCAAGTTCAACTTCAGGATCATCCTCACATTCCAGTTTATTTTCACATTCTGCTTCTTCTAAAGG
256 TCAAGTTCAGCTTCAGGATCATCCTTACATTCCAGTTTATTTTCACATTCTGCTTCTTCTGAAGG
* *
2794271 -TCATGACTCTTTTGCG
321 TTC-TGACTCTTTAGCA
* * * * * *
2794287 GATTTTAACAATTCTAAAGATTCTGATACTGCTACTACTTCTAAAGGTTCTAACTC-TCCGGTGG
1 GATTCTAACAAGTCTAATGATTCTGATTCTGCTACGACTTCTAAAGGTTCTAACTCTTCC-GTAG
*
2794351 ATTCAAACAATTCAAAGGATTCCAATTCTACAGGGACTTCTCAGTCTTCATTAGGTTCCGAGGCT
65 ATTCAAACAATTCAAAGGATTCCAGTTCTACAGGGACTTC-CAGTCTTCATTAGGTTCCG-GGCT
* * * * *
2794416 ACAAATTCCTCTGAAAATTCTGGTTCATTATCAACTTCTAACGATTCTAAGGGTTCTGGCCCATC
128 TCAAATTCCTCTGAAAGTTCTGGTTCATCATCAACTTCTAGCGATTCTAAGGGTT-TGGCTCATC
*
2794481 CTCACATATCAGTTCTGCAACTCACGCTGGAGCTACGAGTCATGGCTCTTCATCTTTCTCACATT
192 CTCACATATCAGTTCTGCAACTCATGCTGGAGCTACGAGTCATGGCTCTTCATCTTTCTCACATT
* * *
2794546 CAAGTTCAGCTTCAGGATCATCCTTACTTTCCAGTTTATTTTCACATAAC-ACTTCTT-TGGAAG
257 CAAGTTCAGCTTCAGGATCATCCTTACATTCCAGTTTATTTTCACAT-TCTGCTTCTTCT-GAAG
*
2794609 GTTCTGACTCTTCAGCA
320 GTTCTGACTCTTTAGCA
* * * * * *
2794626 AATTCTAACAAGTCTAATTATTCTAATTCCGCTAAGACATCTAAAGGTTCTGAA-TCTTCC-TCA
1 GATTCTAACAAGTCTAATGATTCTGATTCTGCTACGACTTCTAAAGGTTCT-AACTCTTCCGT-A
** * * * * **
2794689 GATTCAAACAATTCAAAGGATTCTGGTTCTACTGAGACATCCGAGTCATCATTACCTTCCGGAGC
64 GATTCAAACAATTCAAAGGATTCCAGTTCTACAGGGACTTCC-AGTCTTCATTAGGTTCCGG-GC
** ** * *
2794754 TTTGAATTCCTCTTCAAGTTCTGGTTCATCATCAACTTCTAGTGATTTTAAGGGTTTAGGCTCAT
127 TTCAAATTCCTCTGAAAGTTCTGGTTCATCATCAACTTCTAGCGATTCTAAGGGTTT-GGCTCAT
* *
2794819 CCTCACAT-TCTAGTTCCGCACCTCATGCT-GATGCTACGAGTCATGGCTCTTCATCTTTCTCAC
191 CCTCACATATC-AGTTCTGCAACTCATGCTGGA-GCTACGAGTCATGGCTCTTCATCTTTCTCAC
** * * *
2794882 ATTCAAGTTCAGCTTCAGGATCATCCTTACATTCTGGTTCATTTTCGCATTCTGTTTCTTCTGAA
254 ATTCAAGTTCAGCTTCAGGATCATCCTTACATTCCAGTTTATTTTCACATTCTGCTTCTTCTGAA
2794947 GGTTCTGACTCTTTCA-CA
319 GGTTCTGACTCTTT-AGCA
* * * * *
2794965 GATTCTAACAAGTCTAATGATTTTGATTCTGCTACAACTTCTAAAGTTTCTGACTTTTCC
1 GATTCTAACAAGTCTAATGATTCTGATTCTGCTACGACTTCTAAAGGTTCTAACTCTTCC
2795025 ACAGGTTCAA
Statistics
Matches: 619, Mismatches: 99, Indels: 40
0.82 0.13 0.05
Matches are distributed among these distances:
338 18 0.03
339 589 0.95
340 12 0.02
ACGTcount: A:0.25, C:0.24, G:0.15, T:0.36
Consensus pattern (336 bp):
GATTCTAACAAGTCTAATGATTCTGATTCTGCTACGACTTCTAAAGGTTCTAACTCTTCCGTAGA
TTCAAACAATTCAAAGGATTCCAGTTCTACAGGGACTTCCAGTCTTCATTAGGTTCCGGGCTTCA
AATTCCTCTGAAAGTTCTGGTTCATCATCAACTTCTAGCGATTCTAAGGGTTTGGCTCATCCTCA
CATATCAGTTCTGCAACTCATGCTGGAGCTACGAGTCATGGCTCTTCATCTTTCTCACATTCAAG
TTCAGCTTCAGGATCATCCTTACATTCCAGTTTATTTTCACATTCTGCTTCTTCTGAAGGTTCTG
ACTCTTTAGCA
Found at i:2795304 original size:294 final size:294
Alignment explanation
Indices: 2794772--2795318 Score: 760
Period size: 294 Copynumber: 1.9 Consensus size: 294
2794762 CCTCTTCAAG
** * *
2794772 TTCTGGTTCATCATCAACTTCTAGTGATTTTAAGGGTTTAGGCTCATCCTCACATTCTAGTTCCG
1 TTCTGGTTCATCATCAACTTCTAGCAATTCTAAGGGTTTAGGCTCATCCTCACATTCTAGCTCCG
* * *
2794837 CACCTCATGCTGATGCTACGAGTCATGGCTCTTCATCTTTCTCACATTCAAGTTCAGCTTCAGGA
66 CAACTCACGCTGATGCTACAAGTCATGGCTCTTCATCTTTCTCACATTCAAGTTCAGCTTCAGGA
* ** * * *
2794902 TCATCCTTACATTCTGGTTCATTTTCGCATTCTGTTTCTTCTGAAGGTTCTGACTCTTTCACAGA
131 TCATCCTCACATTCAAGTTCATTTTCACATTCCGCTTCTTCTGAAGGTTCTGACTCTTTCACAGA
* * * * * * *
2794967 TTCTAACAAGTCTAATGATTTTGATTCTGCTACAACTTCTAAAGTTTCTGACTTTTCCACAGGTT
196 TTCTAACAAGTCCAAAGATTCTGATTCTGATACAACATCTAAAGGTTCTGACTCTTCCACAGGTT
2795032 CAAGCAAGTCAATGGCTCCGAATACCACTGTGAT
261 CAAGCAAGTCAATGGCTCCGAATACCACTGTGAT
*
2795066 TTCTGGTTCATCATCAGCTTCTAGCAATTCTAAGGGTTCT-GGCTCATCCTCACAATTC-AGCTC
1 TTCTGGTTCATCATCAACTTCTAGCAATTCTAAGGGTT-TAGGCTCATCCTCAC-ATTCTAGCTC
* * * *
2795129 CGCAACTCACGGTGGTGCTACAAGTCATGGCTCTTCATCTTTCTCACATTCAATTTCAGGTTCAG
64 CGCAACTCACGCTGATGCTACAAGTCATGGCTCTTCATCTTTCTCACATTCAAGTTCAGCTTCAG
* ** *
2795194 GATCATCCTCACATTCAAGTTTATTTTCACATTCCGCTTCTTCT-AGAGGTTCTGGGTC-TTCTG
129 GATCATCCTCACATTCAAGTTCATTTTCACATTCCGCTTCTTCTGA-AGGTTCTGACTCTTTC-A
*
2795257 CAGATTCTATCAAGTCCAAAGATTCTGATTCTGATACAACATCTAAAGGTTCTGACTCTTCC
192 CAGATTCTAACAAGTCCAAAGATTCTGATTCTGATACAACATCTAAAGGTTCTGACTCTTCC
2795319 GTGGATTCAA
Statistics
Matches: 219, Mismatches: 30, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
293 4 0.02
294 210 0.96
295 5 0.02
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.36
Consensus pattern (294 bp):
TTCTGGTTCATCATCAACTTCTAGCAATTCTAAGGGTTTAGGCTCATCCTCACATTCTAGCTCCG
CAACTCACGCTGATGCTACAAGTCATGGCTCTTCATCTTTCTCACATTCAAGTTCAGCTTCAGGA
TCATCCTCACATTCAAGTTCATTTTCACATTCCGCTTCTTCTGAAGGTTCTGACTCTTTCACAGA
TTCTAACAAGTCCAAAGATTCTGATTCTGATACAACATCTAAAGGTTCTGACTCTTCCACAGGTT
CAAGCAAGTCAATGGCTCCGAATACCACTGTGAT
Found at i:2795816 original size:320 final size:320
Alignment explanation
Indices: 2795220--2795868 Score: 845
Period size: 320 Copynumber: 2.0 Consensus size: 320
2795210 AAGTTTATTT
* * * * *
2795220 TCACATTCCGCTTCTTCTAGAGGTTCTGGGTCTTCTGCAGATTCTATCAAGTCCAAAGATTCTGA
1 TCACATT-CGCTTCTTCTAAAGGTTCTGGATCTTCCGCAGACTCTAACAAGTCCAAAGATTCTGA
*** *
2795285 TTCTGATACAACATCTAAAGGTTCTGACTCTTCCGTGGATTCAAACAACTCAAATGATTTTGGTT
65 TTCTGATACAACATCTAAAGGTTCTGACTCTTCCACAGATTCAAACAACTCAAAAGATTTTGGTT
* * *
2795350 CTACAAAGACTTCCCAATCTTCAGTAGGTTCCGGGGCTTCAAATTCCTCTATAAGTTCTGGTTTA
130 CTACAAAGACTTCCCAATCGTCAGTAGGTTCCGGGGCTTCAAATACCTCTATAAGTTCTAGTTTA
* * **
2795415 TCATCAGCTTCTAGTGGTTCTAAGGGTTCTGGCTCATCCTCACATTCCAGCTCCTCAACTCACGT
195 TCATCAGCTTCTAGTGGTTCTAAGGGTTCTGGATCATCCTCACATTCCAGATCCTCAACTCACAC
* ** * **
2795480 TAGTGCTACGAGTCATGGCTCTTTTTCTTTCTCACATTCAGGTTCAGGATCAGGATCATCC
260 TAGTGCTACAAGTCATGGCTCTTCATCTTTCTCACATTCAAGTTCAACATCAGGATCATCC
* ** * *
2795541 TCATATTCGCTTCTTCTAAAGGTTCTGGATCTTCCGGTGACTCTAACAAGTCTAAGGATTCTGAT
1 TCACATTCGCTTCTTCTAAAGGTTCTGGATCTTCCGCAGACTCTAACAAGTCCAAAGATTCTGAT
* * *
2795606 TCTGCTA-AGACTTCTAAAGGTTCTAGA-TCTTCCACAGATTCAAACAATTCAAAAGATTTTGGT
66 TCTGATACA-ACATCTAAAGGTTCT-GACTCTTCCACAGATTCAAACAACTCAAAAGATTTTGGT
** * *
2795669 TCTACCGAGACTTCCCAATCGTCATTAGGTTCCGGGGCTTCTAATACCTCTATAAGTTCTAGTTT
129 TCTACAAAGACTTCCCAATCGTCAGTAGGTTCCGGGGCTTCAAATACCTCTATAAGTTCTAGTTT
* * * * * *
2795734 ATCATTAGCTTCTAGTGGTTCTATGGGTTCTGGATCATCCTCCCATTCTA-ATTCTGCAACTCAT
194 ATCATCAGCTTCTAGTGGTTCTAAGGGTTCTGGATCATCCTCACATTCCAGATCCT-CAACTCAC
* * * *
2795798 ACTGGTGTTACAAGTCATGGCTCTTCATCTTTCTCACATTCAAGTTCAACTTTAGGATCATCC
258 ACTAGTGCTACAAGTCATGGCTCTTCATCTTTCTCACATTCAAGTTCAACATCAGGATCATCC
2795861 TCACATTC
1 TCACATTC
2795869 CGGTTCATTT
Statistics
Matches: 280, Mismatches: 45, Indels: 7
0.84 0.14 0.02
Matches are distributed among these distances:
319 4 0.01
320 268 0.96
321 8 0.03
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.35
Consensus pattern (320 bp):
TCACATTCGCTTCTTCTAAAGGTTCTGGATCTTCCGCAGACTCTAACAAGTCCAAAGATTCTGAT
TCTGATACAACATCTAAAGGTTCTGACTCTTCCACAGATTCAAACAACTCAAAAGATTTTGGTTC
TACAAAGACTTCCCAATCGTCAGTAGGTTCCGGGGCTTCAAATACCTCTATAAGTTCTAGTTTAT
CATCAGCTTCTAGTGGTTCTAAGGGTTCTGGATCATCCTCACATTCCAGATCCTCAACTCACACT
AGTGCTACAAGTCATGGCTCTTCATCTTTCTCACATTCAAGTTCAACATCAGGATCATCC
Found at i:2797263 original size:276 final size:275
Alignment explanation
Indices: 2796209--2798139 Score: 2755
Period size: 276 Copynumber: 7.1 Consensus size: 275
2796199 TGGATCATCC
* *
2796209 TCACATTCCGCTTCTTCTAAAGGTTCTGGCTCTTCCACAGATTCCAAAAAGTCCAAGGATTCTGG
1 TCACATTCCGCTTCTTCTAAAGGTTCTGGCTCTTCCACAGATTCTAAAAAGTCTAAGGATTCTGG
* * * * *
2796274 TTCTTCTACAACTTCTCGCTCTTTATCAGGTTCCGGGGCTTTAAGCTCCTCTTCAAGTTCTGGTT
66 TTCTGCTACGACTTCTCACTCTTCATCAGGTTCCGGGGCTTCAAG-TCCTCTTCAAGTTCTGGTT
* *
2796339 CTTCATCAGGTTCTAATGATTCTAAGCGTTCTGGCTCGTCTTCGCATTTCAGTTCTGCAAGTCAT
130 CTTCATCAGGTTCTAATGATTCTAAGCGTTCTGGCTCGTCTTCACATTTCGGTTCTGCAAGTCAT
* * *
2796404 ATTGTTGCTACGGGTCATGGCTCTTCATCTTTCTCACATTTAAGTGCAGCTTCTGGATCATCTTC
195 AGTGTTGCTACGGGTCATGGCTCTTCATCTTTCTCACATTCAAGTGCAGCTTCTGGATCATCCTC
2796469 ACATTCCAGTTCATTT
260 ACATTCCAGTTCATTT
*
2796485 ACACATTCCGCTTCTTCTAAAGGTTCTGGCTCTTCCACAGATTCTAAAAAGTCTAAGGATTCTGG
1 TCACATTCCGCTTCTTCTAAAGGTTCTGGCTCTTCCACAGATTCTAAAAAGTCTAAGGATTCTGG
* *
2796550 TTCTGCTACGACTTCTCATTCTTCATCAGGTTCTGGGGCTTCAAGT--TC-T--AGTTC----T-
66 TTCTGCTACGACTTCTCACTCTTCATCAGGTTCCGGGGCTTCAAGTCCTCTTCAAGTTCTGGTTC
* *
2796605 TT-ATC-GGATTCTAATGATTCTAAGCATTCTGGCTCGTCTTCACATTTTGGTTCTGCAAGTCAT
131 TTCATCAGG-TTCTAATGATTCTAAGCGTTCTGGCTCGTCTTCACATTTCGGTTCTGCAAGTCAT
* *
2796668 AGTGTTGCTACGGGTCATGGTTCTTCAACTTTCTCACATTCAAGTGCAGCTTCTGGATCATCCTC
195 AGTGTTGCTACGGGTCATGGCTCTTCATCTTTCTCACATTCAAGTGCAGCTTCTGGATCATCCTC
*
2796733 ACATTCCAATTCATTT
260 ACATTCCAGTTCATTT
** * * * * * * *
2796749 TCACATTTTGCTTCTTCTAAAGGTTCAGACTCTTCCGCAGATTC-AAACAAGTTTGATGATTCCG
1 TCACATTCCGCTTCTTCTAAAGGTTCTGGCTCTTCCACAGATTCTAAA-AAGTCTAAGGATTCTG
* *
2796813 GTTCTGCTATGACTTCTCACTCTTCATCAGGTTTC-GGG------G----CTTCAAGTTCTGGTT
65 GTTCTGCTACGACTTCTCACTCTTCATCAGGTTCCGGGGCTTCAAGTCCTCTTCAAGTTCTGGTT
*
2796867 CTTCATCAGGTTCTAATGATTCTAAGCGTTCTGGCTCATCTTCACATTTCGGTTCTGCAAGTCAT
130 CTTCATCAGGTTCTAATGATTCTAAGCGTTCTGGCTCGTCTTCACATTTCGGTTCTGCAAGTCAT
* * *
2796932 AGTGTTGCTATGGGTCATGACTCTTCATCTCTCTCACATTCAAGTGCAGCTTCTGGATCATCCTC
195 AGTGTTGCTACGGGTCATGGCTCTTCATCTTTCTCACATTCAAGTGCAGCTTCTGGATCATCCTC
2796997 ACATTCCAGTTCATTT
260 ACATTCCAGTTCATTT
* * *
2797013 TCACATTCCGCTTCTTCTAAAGGTTTTGGATCTTCCACAGATTCTAAAAAGTCTAAGGATTCTGA
1 TCACATTCCGCTTCTTCTAAAGGTTCTGGCTCTTCCACAGATTCTAAAAAGTCTAAGGATTCTGG
* *
2797078 TTTTGCTACGACTTCTCACTCTTCATCAGGTTCCGGGGCTTCAAGTTCCTCTTTAAGTTCTGGTT
66 TTCTGCTACGACTTCTCACTCTTCATCAGGTTCCGGGGCTTCAAG-TCCTCTTCAAGTTCTGGTT
* * *
2797143 CTTCATCAGGTTCTAATGATTCTAAACATTCTGGCTCGTCTTCACATTTCGATTCTGCAAGTCAT
130 CTTCATCAGGTTCTAATGATTCTAAGCGTTCTGGCTCGTCTTCACATTTCGGTTCTGCAAGTCAT
* * * *
2797208 AGTGTTGCTACGGGTCATGGCTCTTCATCTTCCTCAAATTCAAGTGCAACTTCTGGATCATCCTT
195 AGTGTTGCTACGGGTCATGGCTCTTCATCTTTCTCACATTCAAGTGCAGCTTCTGGATCATCCTC
2797273 ACATTCCAGTTCATTT
260 ACATTCCAGTTCATTT
* *
2797289 TCACATTCCGCTTCTTCTAAAGGTTCTGGCTCTTCCACAGATTCTAAAAAGTCCAAGGCTTCTGG
1 TCACATTCCGCTTCTTCTAAAGGTTCTGGCTCTTCCACAGATTCTAAAAAGTCTAAGGATTCTGG
* *
2797354 TTCTACTACGACTTCTCACTCTTCATCAGGTTTCGGGGCTTCAAGTTCCTCTTCAAGTTCTGGTT
66 TTCTGCTACGACTTCTCACTCTTCATCAGGTTCCGGGGCTTCAAG-TCCTCTTCAAGTTCTGGTT
* *
2797419 CTTCATCAGGTACTAATGAATCTAAGCGTTCTGGCTCGTCTTCACATTTCGGTTCTGCAAGTCAT
130 CTTCATCAGGTTCTAATGATTCTAAGCGTTCTGGCTCGTCTTCACATTTCGGTTCTGCAAGTCAT
**
2797484 AGTGTTGCTATAGGTCATGGCTCTTCATCTTTCTCACATTCAAGTGCAGCTTCTGGATCATCCTC
195 AGTGTTGCTACGGGTCATGGCTCTTCATCTTTCTCACATTCAAGTGCAGCTTCTGGATCATCCTC
*
2797549 ACATTCCGGTTCATTT
260 ACATTCCAGTTCATTT
*
2797565 TCACATTCCGCTTCTTCTAAAGGTTCTGGCTCTTCCACAGATTCTAAAAAGTCTAAAGATTCTGG
1 TCACATTCCGCTTCTTCTAAAGGTTCTGGCTCTTCCACAGATTCTAAAAAGTCTAAGGATTCTGG
2797630 TTCTGCTACGACTTCTCACTCTTCATCAGGTTCCGGGGCTTCAAGTTCCTCTTCAAGTTCTGGTT
66 TTCTGCTACGACTTCTCACTCTTCATCAGGTTCCGGGGCTTCAAG-TCCTCTTCAAGTTCTGGTT
* * *
2797695 CTTCATCAGGTTCTAATGTTTCTAAGCATTCTGGCTCGTCTTCACATTTCGATTCTGCAAGTCAT
130 CTTCATCAGGTTCTAATGATTCTAAGCGTTCTGGCTCGTCTTCACATTTCGGTTCTGCAAGTCAT
* * * *
2797760 AGTGTTGCTACAGGTCATGGCTCTTCATCTTCCTCACATTCAAGTGCAACTTCTGGATCATCCTT
195 AGTGTTGCTACGGGTCATGGCTCTTCATCTTTCTCACATTCAAGTGCAGCTTCTGGATCATCCTC
2797825 ACATTCCAGTTCATTT
260 ACATTCCAGTTCATTT
* * *
2797841 TCACATTCCGCTTCTTCTAAAGGTTCTGGCTATTCCACAGATTCTAAAAGGTCTAAGGCTTCTGG
1 TCACATTCCGCTTCTTCTAAAGGTTCTGGCTCTTCCACAGATTCTAAAAAGTCTAAGGATTCTGG
* * *
2797906 TTCTACTACGACTTCTCTCTCTTCATCAGGTTTC-GGG------G----CTTCAAGTTCTGGTTC
66 TTCTGCTACGACTTCTCACTCTTCATCAGGTTCCGGGGCTTCAAGTCCTCTTCAAGTTCTGGTTC
*** * * * * * *
2797960 TTCATCAGGTTCTAGCAATTCTAAGGGTTTTGGCTCATCTTCACA-ATCTGGTTCTACAAGTCAC
131 TTCATCAGGTTCTAATGATTCTAAGCGTTCTGGCTCGTCTTCACATTTC-GGTTCTGCAAGTCAT
* * * * * *
2798024 AATGTGGCTATGGGTCACGGCTCTTCATCTTTCTCACATTCAAGTGCAACTTCTGGATCATCTTC
195 AGTGTTGCTACGGGTCATGGCTCTTCATCTTTCTCACATTCAAGTGCAGCTTCTGGATCATCCTC
*
2798089 ACATTCTAGTTCATTT
260 ACATTCCAGTTCATTT
* *
2798105 TCACATTCCGCTTCTTCTAAAAGTTTTGGCTCTTC
1 TCACATTCCGCTTCTTCTAAAGGTTCTGGCTCTTC
2798140 ATCGGGTTCT
Statistics
Matches: 1492, Mismatches: 137, Indels: 64
0.88 0.08 0.04
Matches are distributed among these distances:
255 1 0.00
256 1 0.00
257 1 0.00
258 5 0.00
262 1 0.00
263 12 0.01
264 589 0.39
265 10 0.01
266 1 0.00
269 1 0.00
270 5 0.00
271 1 0.00
272 1 0.00
273 2 0.00
275 4 0.00
276 857 0.57
ACGTcount: A:0.20, C:0.25, G:0.17, T:0.38
Consensus pattern (275 bp):
TCACATTCCGCTTCTTCTAAAGGTTCTGGCTCTTCCACAGATTCTAAAAAGTCTAAGGATTCTGG
TTCTGCTACGACTTCTCACTCTTCATCAGGTTCCGGGGCTTCAAGTCCTCTTCAAGTTCTGGTTC
TTCATCAGGTTCTAATGATTCTAAGCGTTCTGGCTCGTCTTCACATTTCGGTTCTGCAAGTCATA
GTGTTGCTACGGGTCATGGCTCTTCATCTTTCTCACATTCAAGTGCAGCTTCTGGATCATCCTCA
CATTCCAGTTCATTT
Found at i:2798600 original size:39 final size:40
Alignment explanation
Indices: 2798546--2798737 Score: 187
Period size: 39 Copynumber: 4.9 Consensus size: 40
2798536 AGGCTCTTCC
* * * *
2798546 GCACACATTGGTTCTTCTTCAACATCTAGTCACTCTA-CG
1 GCACAAATCGGTTCTTCTGCAACATCTAGACACTCTAGCG
* * *
2798585 ACACAAATCGGTTCTTCTGCGAGATCTAGACACTCTA-CG
1 GCACAAATCGGTTCTTCTGCAACATCTAGACACTCTAGCG
* * * *
2798624 GCACAAATCGGTTCTTCTGCTATATCTAGTCACTC-AGCC
1 GCACAAATCGGTTCTTCTGCAACATCTAGACACTCTAGCG
* * *
2798663 GCACACAGCAGTTCTTCTGCAACATCTAG-CTACTC-AGCG
1 GCACAAATCGGTTCTTCTGCAACATCTAGAC-ACTCTAGCG
* * *
2798702 GCACACACCGGTTCTTCTGCAACATCTGGACACTCT
1 GCACAAATCGGTTCTTCTGCAACATCTAGACACTCT
2798738 GCGATACACA
Statistics
Matches: 128, Mismatches: 21, Indels: 7
0.82 0.13 0.04
Matches are distributed among these distances:
38 2 0.02
39 125 0.98
40 1 0.01
ACGTcount: A:0.24, C:0.32, G:0.16, T:0.28
Consensus pattern (40 bp):
GCACAAATCGGTTCTTCTGCAACATCTAGACACTCTAGCG
Found at i:2798747 original size:78 final size:78
Alignment explanation
Indices: 2798546--2798747 Score: 212
Period size: 78 Copynumber: 2.6 Consensus size: 78
2798536 AGGCTCTTCC
* * * * * * * *
2798546 GCACACATTGGTTCTTCTTCAACATCTAGTCACTCTACGACACAAATCGGTTCTTCTGCGAGATC
1 GCACACATCGGTTCTTCTGCAACATCTAGTCACTCTGCGACACACAGCAGTTCTTCTGCAACATC
2798611 TAGACACTCTACG
66 TAGACACTCTACG
* * * *
2798624 GCACAAATCGGTTCTTCTGCTATATCTAGTCACTCAGCCG-CACACAGCAGTTCTTCTGCAACAT
1 GCACACATCGGTTCTTCTGCAACATCTAGTCACTCTG-CGACACACAGCAGTTCTTCTGCAACAT
2798688 CTAG-CTACTC-AGCG
65 CTAGAC-ACTCTA-CG
* * * *
2798702 GCACACACCGGTTCTTCTGCAACATCTGGACACTCTGCGATACACA
1 GCACACATCGGTTCTTCTGCAACATCTAGTCACTCTGCGACACACA
2798748 CTGGTTCTTT
Statistics
Matches: 100, Mismatches: 20, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
77 4 0.04
78 94 0.94
79 2 0.02
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.27
Consensus pattern (78 bp):
GCACACATCGGTTCTTCTGCAACATCTAGTCACTCTGCGACACACAGCAGTTCTTCTGCAACATC
TAGACACTCTACG
Found at i:2802995 original size:14 final size:14
Alignment explanation
Indices: 2802973--2803009 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
2802963 TGTTTTACGC
2802973 TTTCTCGATTTTTCT
1 TTTC-CGATTTTTCT
2802988 TTTCCGATTTTTCT
1 TTTCCGATTTTTCT
2803002 TTTCCGAT
1 TTTCCGAT
2803010 CTACTCAGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 18 0.82
15 4 0.18
ACGTcount: A:0.08, C:0.22, G:0.08, T:0.62
Consensus pattern (14 bp):
TTTCCGATTTTTCT
Found at i:2805590 original size:2 final size:2
Alignment explanation
Indices: 2805583--2805623 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
2805573 TAGATTCTTT
2805583 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2805624 TACAATTGCT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2805759 original size:36 final size:34
Alignment explanation
Indices: 2805693--2806027 Score: 143
Period size: 36 Copynumber: 9.5 Consensus size: 34
2805683 ATTTATATAT
*
2805693 ATATATATATATTATAG-TTT-GAAATCATTTTAAGAA
1 ATATATA-ATA-TATAGTTTTAAAAAT-ATTTTAA-AA
*
2805729 ATATATAATATATAGTCTTTAAAAATATTTTGAAA
1 ATATATAATATATAGT-TTTAAAAATATTTTAAAA
* * *
2805764 ATATATAATATATGGTTTTTAAAACATTTTAAAAA
1 ATATATAATATATAGTTTTAAAAATATTTT-AAAA
* * *
2805799 ATTATATAATATATAATATT-GAAATCATTTTGAAAA
1 A-TATATAATATATAGTTTTAAAAAT-ATTTT-AAAA
** * * *
2805835 TATATATTTTATATGGTTTTTTAAACAT-TTTTGACAA
1 -ATATATAATATATAG--TTTTAAAAATATTTT-AAAA
* * *
2805872 CTATATAATATATAGTTTTGAAAAAAAAAAATTTGAAAA
1 ATATATAATATATAGTTTT-----AAAAATATTTTAAAA
* * *
2805911 TTTATATAAT-T-T-G-CTTAAATCAT-TTTTGAAAA
1 -ATATATAATATATAGTTTTAAA-AATATTTT-AAAA
* * *
2805943 TTATATAATATATAGTTTTGAAAACTTTTTTAAAA
1 ATATATAATATATAGTTTT-AAAAATATTTTAAAA
* * **
2805978 ATATAT--TATACAGTTTAAAAAATATTTTTGAA
1 ATATATAATATATAGTTTTAAAAATATTTTAAAA
* *
2806010 ATATATATTATAGAGTTT
1 ATATATAATATATAGTTT
2806028 ATATTATATA
Statistics
Matches: 228, Mismatches: 44, Indels: 56
0.70 0.13 0.17
Matches are distributed among these distances:
31 15 0.07
32 23 0.10
33 10 0.04
34 31 0.14
35 39 0.17
36 70 0.31
37 14 0.06
38 4 0.02
39 11 0.05
40 11 0.05
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.45
Consensus pattern (34 bp):
ATATATAATATATAGTTTTAAAAATATTTTAAAA
Found at i:2805775 original size:33 final size:34
Alignment explanation
Indices: 2805697--2805811 Score: 101
Period size: 35 Copynumber: 3.4 Consensus size: 34
2805687 ATATATATAT
* * * *
2805697 ATATATATTATA-GT-TTGAAATCATTTTAAGAA
1 ATATATAATATAGGTCTTTAAAACATTTTAAAAA
* **
2805729 ATATATAATATATAGTCTTTAAAA-ATATTTTGAAA
1 ATATATAATATA-GGTCTTTAAAACAT-TTTAAAAA
*
2805764 ATATATAATATATGGTTTTTAAAACATTTTAAAAA
1 ATATATAATATA-GGTCTTTAAAACATTTTAAAAA
2805799 ATTATATAATATA
1 A-TATATAATATA
2805812 TAATATTGAA
Statistics
Matches: 67, Mismatches: 10, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
32 11 0.16
34 4 0.06
35 39 0.58
36 13 0.19
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.43
Consensus pattern (34 bp):
ATATATAATATAGGTCTTTAAAACATTTTAAAAA
Found at i:2805862 original size:72 final size:68
Alignment explanation
Indices: 2805718--2805894 Score: 210
Period size: 72 Copynumber: 2.5 Consensus size: 68
2805708 AGTTTGAAAT
* *
2805718 CATTTTAAGAAATATATAATATATAGTCTTTAAAAATATTTTGAAAATATATAATATATGGTTTT
1 CATTTTAAAAAATATATAATATATAGT-TTT-GAAATATTTTGAAAATATATAATATATGGTTTT
2805783 TAAAA
64 TAAAA
* * *
2805788 CATTTTAAAAAATTATATAATATATAATATTGAAATCATTTTGAAAATATATATTTTATATGGTT
1 CATTTTAAAAAA-TATATAATATATAGTTTTGAAAT-ATTTTGAAAATATATA--ATATATGGTT
*
2805853 TTTTAAA
62 TTTAAAA
* * *
2805860 CATTTTTGACAACTATATAATATATAGTTTTGAAA
1 CA-TTTTAAAAAATATATAATATATAGTTTTGAAA
2805895 AAAAAAAATT
Statistics
Matches: 91, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
69 4 0.04
70 29 0.32
71 14 0.15
72 37 0.41
73 7 0.08
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.45
Consensus pattern (68 bp):
CATTTTAAAAAATATATAATATATAGTTTTGAAATATTTTGAAAATATATAATATATGGTTTTTA
AAA
Found at i:2805993 original size:33 final size:35
Alignment explanation
Indices: 2805927--2806027 Score: 100
Period size: 33 Copynumber: 2.9 Consensus size: 35
2805917 TAATTTGCTT
* * *
2805927 AAATCATTTTTGAAAATTATATAATATATAGTTTTGAA
1 AAAT-ATTTTTGAAAA--ATATATTATACAGTTTTAAA
*
2805965 AACT-TTTTT-AAAAATATATTATACAG-TTTAAA
1 AAATATTTTTGAAAAATATATTATACAGTTTTAAA
* *
2805997 AAATATTTTTGAAATATATATTATAGAGTTT
1 AAATATTTTTGAAAAATATATTATACAGTTT
2806028 ATATTATATA
Statistics
Matches: 53, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
32 8 0.15
33 16 0.30
34 15 0.28
35 6 0.11
36 5 0.09
38 3 0.06
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.46
Consensus pattern (35 bp):
AAATATTTTTGAAAAATATATTATACAGTTTTAAA
Found at i:2806016 original size:34 final size:34
Alignment explanation
Indices: 2805927--2806028 Score: 100
Period size: 34 Copynumber: 2.9 Consensus size: 34
2805917 TAATTTGCTT
* * *
2805927 AAATCATTTTTGAAAATTATATAATATATAGTTTTGAA
1 AAAT-ATTTTTG-AAA-TATATATTATACAG-TTTAAA
* *
2805965 AACT-TTTTT-AAAAATATATTATACAGTTTAAA
1 AAATATTTTTGAAATATATATTATACAGTTTAAA
*
2805997 AAATATTTTTGAAATATATATTATAGAGTTTA
1 AAATATTTTTGAAATATATATTATACAGTTTA
2806029 TATTATATAT
Statistics
Matches: 54, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
32 8 0.15
33 16 0.30
34 22 0.41
36 5 0.09
38 3 0.06
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.45
Consensus pattern (34 bp):
AAATATTTTTGAAATATATATTATACAGTTTAAA
Found at i:2807394 original size:20 final size:20
Alignment explanation
Indices: 2807357--2807394 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
2807347 TCTTAAGTTT
*
2807357 TTTTATTTAATTTATATTAC
1 TTTTATATAATTTATATTAC
2807377 TTTTATATATATTT-TATT
1 TTTTATATA-ATTTATATT
2807395 TATTTCTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTTATATAATTTATATTAC
Found at i:2808431 original size:30 final size:30
Alignment explanation
Indices: 2808335--2808482 Score: 83
Period size: 31 Copynumber: 4.9 Consensus size: 30
2808325 GCATATACGT
*
2808335 ATAGTTT-GGGATGAAATTGAAATATTTAA
1 ATAGTTTAGGGATGAAATTGAAATGTTTAA
* ** * *
2808364 AAAGTTTAGGGA-CCAATTTAGAATG--GAA
1 ATAGTTTAGGGATGAAATTGA-AATGTTTAA
2808392 GTCATAGTTTAGGGATGAAATTGAAATGTTTAA
1 ---ATAGTTTAGGGATGAAATTGAAATGTTTAA
* * * ** *
2808425 ATAGTTTAGGAAT-CAATTTAGAATGAAAGTCA
1 ATAGTTTAGGGATGAAATTGA-AATG--TTTAA
2808457 A-AGTTTAGGGATGAAATTGAAATGTT
1 ATAGTTTAGGGATGAAATTGAAATGTT
2808483 CAAAGGTTTA
Statistics
Matches: 85, Mismatches: 22, Indels: 24
0.65 0.17 0.18
Matches are distributed among these distances:
28 2 0.02
29 16 0.19
30 23 0.27
31 29 0.34
32 13 0.15
33 2 0.02
ACGTcount: A:0.41, C:0.03, G:0.23, T:0.33
Consensus pattern (30 bp):
ATAGTTTAGGGATGAAATTGAAATGTTTAA
Found at i:2808431 original size:61 final size:60
Alignment explanation
Indices: 2808335--2808564 Score: 270
Period size: 61 Copynumber: 3.8 Consensus size: 60
2808325 GCATATACGT
* * *
2808335 ATAGTTT-GGGATGAAATTGAAATATTTAAAAAGTTTAGGGACCAATTTAGAATGGAAGTC
1 ATAGTTTAGGGATGAAATTGAAATGTTT-AAAAGTTTAAGAACCAATTTAGAATGGAAGTC
* * *
2808395 ATAGTTTAGGGATGAAATTGAAATGTTTAAATAGTTTAGGAATCAATTTAGAATGAAAGTC
1 ATAGTTTAGGGATGAAATTGAAATGTTTAAA-AGTTTAAGAACCAATTTAGAATGGAAGTC
* * * * * *
2808456 AAAGTTTAGGGATGAAATTGAAATGTTCAAAGGTTTAAGGACTAATTTAGAAT-GATAATC
1 ATAGTTTAGGGATGAAATTGAAATGTTTAAAAGTTTAAGAACCAATTTAGAATGGA-AGTC
*
2808516 ATAGTTTAGGGAAGAAATTAGAACA--TTTAAAAGTTTAAGAACCAATTTA
1 ATAGTTTAGGGATGAAATT-GAA-ATGTTTAAAAGTTTAAGAACCAATTTA
2808565 AAATAAGAGT
Statistics
Matches: 146, Mismatches: 19, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
59 1 0.01
60 67 0.46
61 77 0.53
62 1 0.01
ACGTcount: A:0.42, C:0.05, G:0.21, T:0.32
Consensus pattern (60 bp):
ATAGTTTAGGGATGAAATTGAAATGTTTAAAAGTTTAAGAACCAATTTAGAATGGAAGTC
Done.