Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005546.1 Hibiscus syriacus cultivar Beakdansim tig00012840_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: 1755203
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 7 of 8
Found at i:1383566 original size:24 final size:22
Alignment explanation
Indices: 1383529--1383572 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
1383519 GATTCCCCTA
1383529 GGGGAATCGATTCCCATTCAAAG
1 GGGGAATCGATTCCC-TTCAAAG
*
1383552 GGGGAATCGGTTTCCCTTCAA
1 GGGGAATC-GATTCCCTTCAA
1383573 GGGTATCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (22 bp):
GGGGAATCGATTCCCTTCAAAG
Found at i:1396286 original size:46 final size:46
Alignment explanation
Indices: 1396219--1396313 Score: 181
Period size: 46 Copynumber: 2.1 Consensus size: 46
1396209 CTTGCTCAAG
1396219 GTGTACCTTTGTCTTAACTCTTTAGACTCTTTCCTTTCGCTCTTCA
1 GTGTACCTTTGTCTTAACTCTTTAGACTCTTTCCTTTCGCTCTTCA
*
1396265 GTGTACCTTTGTCTTAACTCTTTAGCCTCTTTCCTTTCGCTCTTCA
1 GTGTACCTTTGTCTTAACTCTTTAGACTCTTTCCTTTCGCTCTTCA
1396311 GTG
1 GTG
1396314 CCCTAACCCA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.12, C:0.28, G:0.13, T:0.47
Consensus pattern (46 bp):
GTGTACCTTTGTCTTAACTCTTTAGACTCTTTCCTTTCGCTCTTCA
Found at i:1400113 original size:9 final size:9
Alignment explanation
Indices: 1400101--1400151 Score: 50
Period size: 9 Copynumber: 5.7 Consensus size: 9
1400091 AATAATAGTA
1400101 ATAATAATT
1 ATAATAATT
1400110 ATAATAATGT
1 ATAATAAT-T
*
1400120 ATTATAA-T
1 ATAATAATT
* *
1400128 ATATTAGTT
1 ATAATAATT
*
1400137 ATAATAATA
1 ATAATAATT
1400146 ATAATA
1 ATAATA
1400152 TAATTTTATA
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
8 5 0.15
9 21 0.64
10 7 0.21
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (9 bp):
ATAATAATT
Found at i:1400439 original size:55 final size:55
Alignment explanation
Indices: 1400380--1400810 Score: 430
Period size: 55 Copynumber: 8.3 Consensus size: 55
1400370 GTAAAACTAA
* * *
1400380 AACAATCTTCATA-AAACGGGTCTGTTCCCTATTCCTTCAGAGAGTAT-AGAACTTG
1 AACAATCTTCA-ACAAACGTGTCTGCTCCCTATTCCTTCAGAGAGTATAAG-ACTCG
* * * * *
1400435 AACAACCTTCAACAAACGTGTCCGCTTCCTATTCCTTCAAAGAGTATAGGACT--
1 AACAATCTTCAACAAACGTGTCTGCTCCCTATTCCTTCAGAGAGTATAAGACTCG
* *
1400488 --CAATCTTCAACAAACGTGTCTCCTCCATATTCCTTCAGAGAGTATAAGACTCG
1 AACAATCTTCAACAAACGTGTCTGCTCCCTATTCCTTCAGAGAGTATAAGACTCG
* * * *
1400541 AACAATCTTCAACAATCATGTATGTTCCCTATTCCTTCAGAGAGTATAAGACTCG
1 AACAATCTTCAACAAACGTGTCTGCTCCCTATTCCTTCAGAGAGTATAAGACTCG
* * *
1400596 AACAATCTTCAACAATCGTGTATGCTCCCTATTCCTTCAGAGAGTATAAGAATCG
1 AACAATCTTCAACAAACGTGTCTGCTCCCTATTCCTTCAGAGAGTATAAGACTCG
* * *
1400651 AACAATCTTCAACAATCGTGTTTGCTCCCTATTTCTTCAGAGAGTATAAGACTCG
1 AACAATCTTCAACAAACGTGTCTGCTCCCTATTCCTTCAGAGAGTATAAGACTCG
* *
1400706 AACAA---T-------CGTGTCTGCT-CCTATTTCTTCAAAGAGTATAAGACTCG
1 AACAATCTTCAACAAACGTGTCTGCTCCCTATTCCTTCAGAGAGTATAAGACTCG
* *
1400750 ---AA---T----AATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCG
1 AACAATCTTCAACAAACGTGTCTGCTCCCTATTCCTTCAGAGAGTATAAGACTCG
*
1400795 AACAATCTTCCACAAA
1 AACAATCTTCAACAAA
1400811 TGAGTTCGCT
Statistics
Matches: 326, Mismatches: 30, Indels: 40
0.82 0.08 0.10
Matches are distributed among these distances:
41 3 0.01
44 37 0.11
45 36 0.11
48 2 0.01
51 45 0.14
52 1 0.00
54 1 0.00
55 200 0.61
56 1 0.00
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (55 bp):
AACAATCTTCAACAAACGTGTCTGCTCCCTATTCCTTCAGAGAGTATAAGACTCG
Found at i:1400608 original size:161 final size:164
Alignment explanation
Indices: 1400402--1400712 Score: 450
Period size: 161 Copynumber: 1.9 Consensus size: 164
1400392 AAAACGGGTC
* * *
1400402 TGTTCCCTATTCCTTCAGAGAGTATAGAACTTGAACAACCTTCAACAAACGTGTCCGCTTCCTAT
1 TGTTCCCTATTCCTTCAGAGAGTATAGAACTCGAACAACCTTCAACAAACGTGTACGCTCCCTAT
* *
1400467 TCCTTCAAAGAGTAT-AGGA-C-TCAATCTTCAACAAACGTGTCTCCTCCATATTCCTTCAGAGA
66 TCCTTCAAAGAGTATAAGAATCAACAATCTTCAACAAACGTGTCTCCTCCATATTCCTTCAGAGA
1400529 GTATAAGACTCGAACAATCTTCAACAATCATGTA
131 GTATAAGACTCGAACAATCTTCAACAATCATGTA
* * *
1400563 TGTTCCCTATTCCTTCAGAGAGTATA-AGACTCGAACAATCTTCAACAATCGTGTATGCTCCCTA
1 TGTTCCCTATTCCTTCAGAGAGTATAGA-ACTCGAACAACCTTCAACAAACGTGTACGCTCCCTA
* * * * * *
1400627 TTCCTTCAGAGAGTATAAGAATCGAACAATCTTCAACAATCGTGTTTGCTCCCTATTTCTTCAGA
65 TTCCTTCAAAGAGTATAAGAATC-AACAATCTTCAACAAACGTGTCTCCTCCATATTCCTTCAGA
1400692 GAGTATAAGACTCGAACAATC
129 GAGTATAAGACTCGAACAATC
1400713 GTGTCTGCTC
Statistics
Matches: 131, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
160 1 0.01
161 71 0.54
162 3 0.02
163 1 0.01
165 55 0.42
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (164 bp):
TGTTCCCTATTCCTTCAGAGAGTATAGAACTCGAACAACCTTCAACAAACGTGTACGCTCCCTAT
TCCTTCAAAGAGTATAAGAATCAACAATCTTCAACAAACGTGTCTCCTCCATATTCCTTCAGAGA
GTATAAGACTCGAACAATCTTCAACAATCATGTA
Found at i:1400786 original size:45 final size:45
Alignment explanation
Indices: 1400661--1400801 Score: 248
Period size: 45 Copynumber: 3.2 Consensus size: 45
1400651 AACAATCTTC
*
1400661 AACAATCGTGTTTGCTCCCTATTTCTTCAGAGAGTATAAGACTCG
1 AACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCG
*
1400706 AACAATCGTGTCTGCT-CCTATTTCTTCAAAGAGTATAAGACTCG
1 AACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCG
*
1400750 AATAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCG
1 AACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCG
1400795 AACAATC
1 AACAATC
1400802 TTCCACAAAT
Statistics
Matches: 90, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
44 42 0.47
45 48 0.53
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (45 bp):
AACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCG
Found at i:1401101 original size:55 final size:55
Alignment explanation
Indices: 1400763--1401843 Score: 1227
Period size: 54 Copynumber: 19.8 Consensus size: 55
1400753 AATCGTGTCT
* * * ** * *
1400763 GCTCCCTATTTCTTCAGAGAGTATA-AGACTCGAACAATCTTCCACAAATGAGTTC
1 GCTCCCTCTTTCTTTAGGGAGTATAGA-ACTCGAACAATCTTCTGCAAACGGGTTC
* * *
1400818 GCTCCCTCTTTCTTTCAGGAAGTATAGAACTCGAATAATATTCTGCAAACGGGTTC
1 GCTCCCTCTTTCTTT-AGGGAGTATAGAACTCGAACAATCTTCTGCAAACGGGTTC
* * * * *
1400874 GCTTCCTTTTTCTTTTAGGAAGTATAGAACTCGAATAATCTTCTGCAAATGGGTTC
1 GCTCCCTCTTTC-TTTAGGGAGTATAGAACTCGAACAATCTTCTGCAAACGGGTTC
* * * *
1400930 GCTCCCTCTTTCTTTCAGGAAGTATAGAACTCAAATAATCTTCTGTAAACGGGTTC
1 GCTCCCTCTTTCTTT-AGGGAGTATAGAACTCGAACAATCTTCTGCAAACGGGTTC
* * * * *
1400986 GCTCTCTTTTTCTTTTAGGAAGTATAGAACTTGAACAATCTTCTGCAAACGGGTTT
1 GCTCCCTCTTTC-TTTAGGGAGTATAGAACTCGAACAATCTTCTGCAAACGGGTTC
**
1401042 GCTCCCTCTTTCTTTCAGGGAGTATAGAACTCGAA-AATCTTCTAAAAACGGGTTC
1 GCTCCCTCTTTCTTT-AGGGAGTATAGAACTCGAACAATCTTCTGCAAACGGGTTC
* **
1401097 GCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAAC-ATATTCTTTAAACGGGTTC
1 GCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAACAATCTTCTGCAAACGGGTTC
* * * * *
1401151 GATCCCTCTTTCTTTAGGGAGTATATAACTCGAAAAATCTTCTGAAAATGGGTTC
1 GCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAACAATCTTCTGCAAACGGGTTC
* * * *
1401206 GCTCCCTCTTTCTTTAGGGAGTATAGAACTTGAAC-ATCTTATTCAAACGGGTTG
1 GCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAACAATCTTCTGCAAACGGGTTC
* * * * *
1401260 GCTCCCTTTTTCTTTAAGGAGTATAGAACTCG-ACCATCTTCTTCAAACAGGTT-
1 GCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAACAATCTTCTGCAAACGGGTTC
* * * * *
1401313 -CTCCATCTTTTTTTAGGGAATATAGAACTCGAAC-ATCTTCTGTAAACAGGTTC
1 GCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAACAATCTTCTGCAAACGGGTTC
* * * *
1401366 GCTCCCCCTTTCTTTAGGGAGTATAGAACTTGAACAATCTTATTCAAACGGGTTC
1 GCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAACAATCTTCTGCAAACGGGTTC
* * * *
1401421 GCTCCCTCTTTATTTAGGGAGTATAGAACTTC-AAC-ATCTTCTTCAAACGAGTTT
1 GCTCCCTCTTTCTTTAGGGAGTATAGAAC-TCGAACAATCTTCTGCAAACGGGTTC
* * * * * *
1401475 ACTCCCTCTTTATTTAGGGGGTATAGAACTTGAACAATCTTCTGAAAATGGGTTC
1 GCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAACAATCTTCTGCAAACGGGTTC
* * * *
1401530 GCTCCCTCTTCCTTTAGGGAGTATAGAAATCGAAC-ATCTTCT-AAACACGGGTTT
1 GCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAACAATCTTCTGCAA-ACGGGTTC
* * *
1401584 GCTCTCTCTTTCTTTAGGGAGTATAGAACTCGAACAATCTTCTGAAAATGGGTTC
1 GCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAACAATCTTCTGCAAACGGGTTC
* * * * * *
1401639 GCTCCCTCTTTCTTCAGGGAGTA-GGAACTCGAACAATCTTTTTCAAATGAGTTC
1 GCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAACAATCTTCTGCAAACGGGTTC
* * * *
1401693 GCTCACTCTTTCTTTAGGGAGTATAGAACTCGAACAATCTTATGAAAACGAGTTC
1 GCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAACAATCTTCTGCAAACGGGTTC
* * ** *
1401748 GCTCCCTCTTCCTTTAGGGAGTATAGAACTCAAAC-ATCTTCTAAAAATGGGTTC
1 GCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAACAATCTTCTGCAAACGGGTTC
*
1401802 GCTCCCTCTTTCTTTAGGGAGTATGGAACTCGAACAATCTTC
1 GCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAACAATCTTC
1401844 ATTTGCCTCA
Statistics
Matches: 881, Mismatches: 124, Indels: 42
0.84 0.12 0.04
Matches are distributed among these distances:
52 42 0.05
53 8 0.01
54 340 0.39
55 283 0.32
56 201 0.23
57 7 0.01
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (55 bp):
GCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAACAATCTTCTGCAAACGGGTTC
Found at i:1401190 original size:109 final size:109
Alignment explanation
Indices: 1400763--1401843 Score: 1262
Period size: 109 Copynumber: 9.9 Consensus size: 109
1400753 AATCGTGTCT
* * * ** * *
1400763 GCTCCCTATTTCTTCAGAGAGTATA-AGACTCGAACAATCTTCCACAAATGAGTTCGCTCCCTCT
1 GCTCCCTCTTTCTTTAGGGAGTATAGA-ACTCGAAC-ATCTTCTTCAAACGGGTTCGCTCCCTCT
* * * *
1400827 TTCTTTCAGGAAGTATAGAACTCGAATAATATTCTGCAAACGGGTTC
64 TTCTTT-AGGGAGTATAGAACTCGAACAATCTTCTGAAAACGGGTTC
* * * * * *
1400874 GCTTCCTTTTTCTTTTAGGAAGTATAGAACTCGAATAATCTTCTGCAAATGGGTTCGCTCCCTCT
1 GCTCCCTCTTTC-TTTAGGGAGTATAGAACTCGAA-CATCTTCTTCAAACGGGTTCGCTCCCTCT
* * * *
1400939 TTCTTTCAGGAAGTATAGAACTCAAATAATCTTCTGTAAACGGGTTC
64 TTCTTT-AGGGAGTATAGAACTCGAACAATCTTCTGAAAACGGGTTC
* * * * * *
1400986 GCTCTCTTTTTCTTTTAGGAAGTATAGAACTTGAACAATCTTCTGCAAACGGGTTTGCTCCCTCT
1 GCTCCCTCTTTC-TTTAGGGAGTATAGAACTCGAAC-ATCTTCTTCAAACGGGTTCGCTCCCTCT
*
1401051 TTCTTTCAGGGAGTATAGAACTCGAA-AATCTTCTAAAAACGGGTTC
64 TTCTTT-AGGGAGTATAGAACTCGAACAATCTTCTGAAAACGGGTTC
* * *
1401097 GCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAACATATTCTTTAAACGGGTTCGATCCCTCTTT
1 GCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAACATCTTCTTCAAACGGGTTCGCTCCCTCTTT
* * *
1401162 CTTTAGGGAGTATATAACTCGAAAAATCTTCTGAAAATGGGTTC
66 CTTTAGGGAGTATAGAACTCGAACAATCTTCTGAAAACGGGTTC
* * * *
1401206 GCTCCCTCTTTCTTTAGGGAGTATAGAACTTGAACATCTTATTCAAACGGGTTGGCTCCCTTTTT
1 GCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAACATCTTCTTCAAACGGGTTCGCTCCCTCTTT
* * ** *
1401271 CTTTAAGGAGTATAGAACTCG-ACCATCTTCTTCAAACAGGTT-
66 CTTTAGGGAGTATAGAACTCGAACAATCTTCTGAAAACGGGTTC
* * * * *
1401313 -CTCCATCTTTTTTTAGGGAATATAGAACTCGAACATCTTCTGT-AAACAGGTTCGCTCCCCCTT
1 GCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAACATCTTCT-TCAAACGGGTTCGCTCCCTCTT
* * **
1401376 TCTTTAGGGAGTATAGAACTTGAACAATCTTATTCAAACGGGTTC
65 TCTTTAGGGAGTATAGAACTCGAACAATCTTCTGAAAACGGGTTC
* * **
1401421 GCTCCCTCTTTATTTAGGGAGTATAGAACTTC-AACATCTTCTTCAAACGAGTTTACTCCCTCTT
1 GCTCCCTCTTTCTTTAGGGAGTATAGAAC-TCGAACATCTTCTTCAAACGGGTTCGCTCCCTCTT
* * * *
1401485 TATTTAGGGGGTATAGAACTTGAACAATCTTCTGAAAATGGGTTC
65 TCTTTAGGGAGTATAGAACTCGAACAATCTTCTGAAAACGGGTTC
* * * * *
1401530 GCTCCCTCTTCCTTTAGGGAGTATAGAAATCGAACATCTTC-TAAACACGGGTTTGCTCTCTCTT
1 GCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAACATCTTCTTCAA-ACGGGTTCGCTCCCTCTT
*
1401594 TCTTTAGGGAGTATAGAACTCGAACAATCTTCTGAAAATGGGTTC
65 TCTTTAGGGAGTATAGAACTCGAACAATCTTCTGAAAACGGGTTC
* * * * * *
1401639 GCTCCCTCTTTCTTCAGGGAGTA-GGAACTCGAACAATCTTTTTCAAATGAGTTCGCTCACTCTT
1 GCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAAC-ATCTTCTTCAAACGGGTTCGCTCCCTCTT
* *
1401703 TCTTTAGGGAGTATAGAACTCGAACAATCTTATGAAAACGAGTTC
65 TCTTTAGGGAGTATAGAACTCGAACAATCTTCTGAAAACGGGTTC
* * ** *
1401748 GCTCCCTCTTCCTTTAGGGAGTATAGAACTCAAACATCTTCTAAAAATGGGTTCGCTCCCTCTTT
1 GCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAACATCTTCTTCAAACGGGTTCGCTCCCTCTTT
*
1401813 CTTTAGGGAGTATGGAACTCGAACAATCTTC
66 CTTTAGGGAGTATAGAACTCGAACAATCTTC
1401844 ATTTGCCTCA
Statistics
Matches: 843, Mismatches: 111, Indels: 34
0.85 0.11 0.03
Matches are distributed among these distances:
106 72 0.09
107 19 0.02
108 48 0.06
109 462 0.55
110 35 0.04
111 38 0.05
112 168 0.20
113 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (109 bp):
GCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAACATCTTCTTCAAACGGGTTCGCTCCCTCTTT
CTTTAGGGAGTATAGAACTCGAACAATCTTCTGAAAACGGGTTC
Found at i:1402282 original size:37 final size:37
Alignment explanation
Indices: 1402241--1402373 Score: 153
Period size: 37 Copynumber: 3.6 Consensus size: 37
1402231 TTTCTCCAAC
*
1402241 ACTCTTCCGAGAAGGCTTAAAATAGATTTGCTTCACT
1 ACTCTTCCGAGAAGGCTTAAGATAGATTTGCTTCACT
* * *
1402278 ACTCTTCAGTGAAGGCTTAAGATGGATTTGCTTCACT
1 ACTCTTCCGAGAAGGCTTAAGATAGATTTGCTTCACT
* * * *
1402315 ACTCTT-CGATGAAGGCGTAGGATAGA-TCGCTTCATT
1 ACTCTTCCGA-GAAGGCTTAAGATAGATTTGCTTCACT
* *
1402351 ACTCTTCGGTGAAGGCTTAAGAT
1 ACTCTTCCGAGAAGGCTTAAGAT
1402374 TAATTTTGCT
Statistics
Matches: 79, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
36 26 0.33
37 53 0.67
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (37 bp):
ACTCTTCCGAGAAGGCTTAAGATAGATTTGCTTCACT
Found at i:1403847 original size:125 final size:125
Alignment explanation
Indices: 1403652--1403909 Score: 340
Period size: 125 Copynumber: 2.1 Consensus size: 125
1403642 CCTTCACTAG
*
1403652 TGCCCCAATATTATCTTATACTAGTACGAGCCCTCAAAATACCCCAACACCTCAAATTGCAAGGC
1 TGCCCCAACATTATCTTATACTAGTACGAGCCCTCAAAATACCCCAACACCTCAAATTGCAAGGC
* * *
1403717 TCATTC-TCAATGCCTTCTTAGTCT-AAGTCTTGTCATCTCAAATTGATGTGGGTTCAGTCA
66 TCATTCTTC-ATACCTCCTTAGTCTGAA-TCTTGTCATCTCAAACTGATGTGGGTTCAGTCA
* * * * ** * *
1403777 TGCCCCAACATTGTCTTATACTGGTACGAGCCTTCTAAATGTCCCATCACCTCAATTTGCAAGGC
1 TGCCCCAACATTATCTTATACTAGTACGAGCCCTCAAAATACCCCAACACCTCAAATTGCAAGGC
* * * *
1403842 TCATTCTTCATACCTCCTTGGTCTGAATCTTGTCATCTCAACCTGATGTGGGTTTAGTCG
66 TCATTCTTCATACCTCCTTAGTCTGAATCTTGTCATCTCAAACTGATGTGGGTTCAGTCA
1403902 TGCCCCAA
1 TGCCCCAA
1403910 GACATCATAA
Statistics
Matches: 115, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
125 111 0.97
126 4 0.03
ACGTcount: A:0.24, C:0.28, G:0.15, T:0.32
Consensus pattern (125 bp):
TGCCCCAACATTATCTTATACTAGTACGAGCCCTCAAAATACCCCAACACCTCAAATTGCAAGGC
TCATTCTTCATACCTCCTTAGTCTGAATCTTGTCATCTCAAACTGATGTGGGTTCAGTCA
Found at i:1407903 original size:55 final size:52
Alignment explanation
Indices: 1407812--1407914 Score: 143
Period size: 55 Copynumber: 1.9 Consensus size: 52
1407802 TAAAGCAATT
* *
1407812 TTCAGTCAGCTTCAAATTTCTTCATTCATCGAATGTCTTTCTTCATGGATCAGTC
1 TTCAATCAGCTTCAAATTTATTCATTCATCGAATGTC---CTTCATGGATCAGTC
* *
1407867 TTCAATCAGTTTCAAATTTATTCATTCATCGGATGTCCTTCATGGATC
1 TTCAATCAGCTTCAAATTTATTCATTCATCGAATGTCCTTCATGGATC
1407915 GTTTGAACAT
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
52 11 0.25
55 33 0.75
ACGTcount: A:0.23, C:0.22, G:0.13, T:0.42
Consensus pattern (52 bp):
TTCAATCAGCTTCAAATTTATTCATTCATCGAATGTCCTTCATGGATCAGTC
Found at i:1408290 original size:45 final size:46
Alignment explanation
Indices: 1408223--1408323 Score: 116
Period size: 45 Copynumber: 2.2 Consensus size: 46
1408213 TCATTTAAAA
* * *
1408223 AAAAAAAAATCCTAACCGCATGATATCTAATTCACATGCTTGTTCG-
1 AAAAATAAATCCTAACCACATGATATCTAATTCACATACTT-TTCGC
* * * *
1408269 AAAAATAAA-CCTAACCACATGATCTCTAGTTCGCATACTTTTTGC
1 AAAAATAAATCCTAACCACATGATATCTAATTCACATACTTTTCGC
1408314 AAAAATAAAT
1 AAAAATAAAT
1408324 AAATTCGAGG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
44 3 0.07
45 35 0.76
46 8 0.17
ACGTcount: A:0.42, C:0.21, G:0.09, T:0.29
Consensus pattern (46 bp):
AAAAATAAATCCTAACCACATGATATCTAATTCACATACTTTTCGC
Found at i:1412811 original size:24 final size:24
Alignment explanation
Indices: 1412745--1412856 Score: 84
Period size: 24 Copynumber: 4.7 Consensus size: 24
1412735 TAAATATTTT
*
1412745 TTCTGATTTCTGACT-TGAATTCTA
1 TTCTGATTTCTGA-TATGAATTCTG
* ** *
1412769 TTCTGA-TACATGACCTGGATTCTG
1 TTCTGATTTC-TGATATGAATTCTG
*
1412793 TTCTGATTTCTGATATGGATTCTG
1 TTCTGATTTCTGATATGAATTCTG
* * * * *
1412817 TTATGATATCTCATTTGAATTATG
1 TTCTGATTTCTGATATGAATTCTG
*
1412841 TTTTGATTTCTGATAT
1 TTCTGATTTCTGATAT
1412857 CTCCGTTTAC
Statistics
Matches: 68, Mismatches: 17, Indels: 6
0.75 0.19 0.07
Matches are distributed among these distances:
23 2 0.03
24 64 0.94
25 2 0.03
ACGTcount: A:0.21, C:0.13, G:0.16, T:0.49
Consensus pattern (24 bp):
TTCTGATTTCTGATATGAATTCTG
Found at i:1417915 original size:68 final size:68
Alignment explanation
Indices: 1417835--1418158 Score: 508
Period size: 68 Copynumber: 4.8 Consensus size: 68
1417825 AAAGATTATT
* * *
1417835 AGGCCTAACTGTGCATTTGAAAGAAAGGTGTCAATTATGTCTGTTAGATGAAAGGTTAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGTCAGTTAGATGAAAGGCTAAGTGCCT
1417900 TTG
66 TTG
* *
1417903 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGACAGTTAGATGAAAGGCTAAGTTCCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGTCAGTTAGATGAAAGGCTAAGTGCCT
1417968 TTG
66 TTG
* * *
1417971 AGGCCTAACTATGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGTCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGTCAGTTAGATGAAAGGCTAAGTGCCT
1418036 TTG
66 TTG
*
1418039 AGGCCTAAATGTGCATTTGACAGAAAGGTGTCAATTATGTCAGTTAGATGAAAGGCTAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGTCAGTTAGATGAAAGGCTAAGTGCCT
1418104 TTG
66 TTG
* * *
1418107 AGGCCTAGCTATGCATTTGGA-AGAAAGGTTTCAATTAT-TCCAGTTAGATGAA
1 AGGCCTAACTGTGCATTT-GACAGAAAGGTGTCAATTATGT-CAGTTAGATGAA
1418159 TGATTAAATA
Statistics
Matches: 237, Mismatches: 17, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
67 1 0.00
68 234 0.99
69 2 0.01
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.30
Consensus pattern (68 bp):
AGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGTCAGTTAGATGAAAGGCTAAGTGCCT
TTG
Found at i:1418559 original size:243 final size:243
Alignment explanation
Indices: 1418108--1418573 Score: 698
Period size: 243 Copynumber: 1.9 Consensus size: 243
1418098 GTGCCTTTGA
* ** *
1418108 GGCCTAGCTATGCATTTGGAAGAAAGGTTTCAATTATTCCAGTTAGATGAATGATTAAATACAGC
1 GGCCTAGCTATGCATTTGGAAGAAAGGTGTCAATTAGGCCAGTTAGATGAACGATTAAATACAGC
* *
1418173 TGAGTAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAAGATGTCAAGTATGCCAGTTAGATG
66 TGAGTAAAAGATAAATGGCATAACTGTGCATTTGGCAGAAAGATGTCAAGTATGCCAGTTAGATG
* ** * * *
1418238 AACGATTAAATACCGTTGAGTAAAAGATGAATGGCCTAGTTGTGCATTTGGTAGAAATGTGTCAA
131 AACGATTAAATACCATTGAGTAAAAGATGAATGGCCTAACTATGCATTTGGCAGAAAGGTGTCAA
** *
1418303 TTATGCCAGTTAGATGAATGGATAAATAACGTTGAGTAAAAGATGAAT
196 GCATGCAAGTTAGATGAATGGATAAATAACGTTGAGTAAAAGATGAAT
* * * * * *
1418351 GGCCTGGCTATGTATTTGGCAGAAAGGTGTCTATTAGGCCAGTTAGATGAACGATTAAATACTGT
1 GGCCTAGCTATGCATTTGGAAGAAAGGTGTCAATTAGGCCAGTTAGATGAACGATTAAATACAGC
* * *
1418416 TGAGTAAAAGATGAATGGCATAACTGTGCATTTGGCAGAAAGGTTTCAAGTATGCCAGTTAGATG
66 TGAGTAAAAGATAAATGGCATAACTGTGCATTTGGCAGAAAGATGTCAAGTATGCCAGTTAGATG
*
1418481 AACGGTTAAATACCATTGAGTAAAAGATGAATGGCCTAACTATGCATTTGGCAGAAAGGTGTCAA
131 AACGATTAAATACCATTGAGTAAAAGATGAATGGCCTAACTATGCATTTGGCAGAAAGGTGTCAA
*
1418546 GCATGCAAGTTAGATGAATGGCTAAATA
196 GCATGCAAGTTAGATGAATGGATAAATA
1418574 CCTTTGGGGT
Statistics
Matches: 197, Mismatches: 26, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
243 197 1.00
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.28
Consensus pattern (243 bp):
GGCCTAGCTATGCATTTGGAAGAAAGGTGTCAATTAGGCCAGTTAGATGAACGATTAAATACAGC
TGAGTAAAAGATAAATGGCATAACTGTGCATTTGGCAGAAAGATGTCAAGTATGCCAGTTAGATG
AACGATTAAATACCATTGAGTAAAAGATGAATGGCCTAACTATGCATTTGGCAGAAAGGTGTCAA
GCATGCAAGTTAGATGAATGGATAAATAACGTTGAGTAAAAGATGAAT
Found at i:1418575 original size:81 final size:81
Alignment explanation
Indices: 1418108--1418563 Score: 608
Period size: 81 Copynumber: 5.6 Consensus size: 81
1418098 GTGCCTTTGA
* * * * * * *
1418108 GGCCTAGCTATGCATTTGGAAGAAAGGTTTCAATTATTCCAGTTAGATGAATGATTAAATACAGC
1 GGCCTAGCTATGCATTTGGCAGAAAGGTGTCAAGTATGCCAGTTAGATGAACGATTAAATACCGT
*
1418173 TGAGTAAAAGATAAAT
66 TGAGTAAAAGATGAAT
* *
1418189 GGCCTAGCTGTGCATTTGGCAGAAAGATGTCAAGTATGCCAGTTAGATGAACGATTAAATACCGT
1 GGCCTAGCTATGCATTTGGCAGAAAGGTGTCAAGTATGCCAGTTAGATGAACGATTAAATACCGT
1418254 TGAGTAAAAGATGAAT
66 TGAGTAAAAGATGAAT
* * * * * * *
1418270 GGCCTAGTTGTGCATTTGGTAGAAATGTGTCAATTATGCCAGTTAGATGAATGGA-TAAATAACG
1 GGCCTAGCTATGCATTTGGCAGAAAGGTGTCAAGTATGCCAGTTAGATGAA-CGATTAAATACCG
1418334 TTGAGTAAAAGATGAAT
65 TTGAGTAAAAGATGAAT
* * * * * *
1418351 GGCCTGGCTATGTATTTGGCAGAAAGGTGTCTATTAGGCCAGTTAGATGAACGATTAAATACTGT
1 GGCCTAGCTATGCATTTGGCAGAAAGGTGTCAAGTATGCCAGTTAGATGAACGATTAAATACCGT
1418416 TGAGTAAAAGATGAAT
66 TGAGTAAAAGATGAAT
* * * * * *
1418432 GGCATAACTGTGCATTTGGCAGAAAGGTTTCAAGTATGCCAGTTAGATGAACGGTTAAATACCAT
1 GGCCTAGCTATGCATTTGGCAGAAAGGTGTCAAGTATGCCAGTTAGATGAACGATTAAATACCGT
1418497 TGAGTAAAAGATGAAT
66 TGAGTAAAAGATGAAT
* * *
1418513 GGCCTAACTATGCATTTGGCAGAAAGGTGTCAAGCATGCAAGTTAGATGAA
1 GGCCTAGCTATGCATTTGGCAGAAAGGTGTCAAGTATGCCAGTTAGATGAA
1418564 TGGCTAAATA
Statistics
Matches: 328, Mismatches: 45, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
80 2 0.01
81 324 0.99
82 2 0.01
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.28
Consensus pattern (81 bp):
GGCCTAGCTATGCATTTGGCAGAAAGGTGTCAAGTATGCCAGTTAGATGAACGATTAAATACCGT
TGAGTAAAAGATGAAT
Found at i:1420053 original size:55 final size:55
Alignment explanation
Indices: 1419987--1420302 Score: 535
Period size: 55 Copynumber: 5.8 Consensus size: 55
1419977 TGGCACTATA
* *
1419987 TGTGTACAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCATTG
1 TGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTG
* *
1420042 TGTGTGTAAAACTAAGAAATTCATAATAAGTTTCTGAATTTCCGTATGGGCACTG
1 TGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTG
*
1420097 TGTTTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTG
1 TGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTG
*
1420152 TGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGTGCACTG
1 TGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTG
* *
1420207 TGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGGCATTG
1 TGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTG
* *
1420262 TGTGTGC-AACCTAAGAAATTCATAATGAGTTTATGAATTTC
1 TGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTC
1420303 TATAATTGCA
Statistics
Matches: 247, Mismatches: 14, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
54 32 0.13
55 215 0.87
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.35
Consensus pattern (55 bp):
TGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTG
Found at i:1431352 original size:52 final size:53
Alignment explanation
Indices: 1431209--1431364 Score: 190
Period size: 53 Copynumber: 3.0 Consensus size: 53
1431199 ATAAGAATTT
* * *
1431209 TGGTATTTCAAGAGAAATAGTTTCAAGGGAAACAATCTCAAGTGAGATAAATT
1 TGGTGTTTCAAGAGAAATAATTTCAAGGGAAACAATCTCAAGTGAGATAAATC
* * * * *
1431262 TGGTGTTTCAAGAGAAACAA-TCCTAAGGGAGACTATCTCAAGGGAGATAAA-C
1 TGGTGTTTCAAGAGAAATAATTTC-AAGGGAAACAATCTCAAGTGAGATAAATC
** *
1431314 TGGTGTTTCAAGAGAAATAATTTCAAGAAAAACAATCTCAAGTTAGATAAA
1 TGGTGTTTCAAGAGAAATAATTTCAAGGGAAACAATCTCAAGTGAGATAAA
1431365 ATTTTATTTT
Statistics
Matches: 85, Mismatches: 16, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
52 42 0.49
53 43 0.51
ACGTcount: A:0.42, C:0.12, G:0.21, T:0.26
Consensus pattern (53 bp):
TGGTGTTTCAAGAGAAATAATTTCAAGGGAAACAATCTCAAGTGAGATAAATC
Found at i:1431470 original size:73 final size:73
Alignment explanation
Indices: 1431334--1431557 Score: 201
Period size: 73 Copynumber: 3.1 Consensus size: 73
1431324 AGAGAAATAA
* * * *
1431334 TTTCAAGAAAAACAATCTCAAGTTAGATAAAATTTTATTTTGAGAAAAATTATATCATGTGAGAT
1 TTTCAAGAGAAACAATCTCAAGTTAGATAAAATGTTATTTTGAGAAAAATTATATCAAGTGAGAC
1431399 GAAATTTG
66 GAAATTTG
* * * * *
1431407 TTTTAAG-GAAACTATCTCAA-TTGAGATAAAACTGTTCTTTTGAGAAAAATTGTCTCAAGTGAG
1 TTTCAAGAGAAACAATCTCAAGTT-AGATAAAA-TGTTATTTTGAGAAAAATTATATCAAGTGAG
**
1431470 ACGATTTTTG
64 ACGAAATTTG
* * * ** * *
1431480 TTTCAAGAGAAACCATCTCAAGTAAGAT----T-TTGTTTCAAGAAAAACTATCTCAAGTGAGAC
1 TTTCAAGAGAAACAATCTCAAGTTAGATAAAATGTTATTTTGAGAAAAATTATATCAAGTGAGAC
* *
1431540 AAAACTTG
66 GAAATTTG
1431548 TTTCAAGAGA
1 TTTCAAGAGA
1431558 TACGATCTTA
Statistics
Matches: 124, Mismatches: 23, Indels: 13
0.77 0.14 0.08
Matches are distributed among these distances:
68 40 0.32
69 1 0.01
71 2 0.02
72 19 0.15
73 45 0.36
74 16 0.13
75 1 0.01
ACGTcount: A:0.40, C:0.11, G:0.16, T:0.33
Consensus pattern (73 bp):
TTTCAAGAGAAACAATCTCAAGTTAGATAAAATGTTATTTTGAGAAAAATTATATCAAGTGAGAC
GAAATTTG
Found at i:1431553 original size:36 final size:36
Alignment explanation
Indices: 1431334--1431555 Score: 148
Period size: 36 Copynumber: 6.2 Consensus size: 36
1431324 AGAGAAATAA
* * *
1431334 TTTCAAGAAAAACAATCTCAAGTTAGATAAAATTTTA
1 TTTCAAGAAAAACTATCTCAAGTGAGATAAAA-TTTG
** * * * *
1431371 TTTTGAGAAAAATTATATCATGTGAGATGAAATTTG
1 TTTCAAGAAAAACTATCTCAAGTGAGATAAAATTTG
* * * *
1431407 TTTTAAG-GAAACTATCTCAATTGAGATAAAACTGTTC
1 TTTCAAGAAAAACTATCTCAAGTGAGATAAAA-T-TTG
** * * ** **
1431444 TTTTGAGAAAAATTGTCTCAAGTGAGACGATTTTTG
1 TTTCAAGAAAAACTATCTCAAGTGAGATAAAATTTG
* * *
1431480 TTTCAAGAGAAACCATCTCAAGTAAGAT----TTTG
1 TTTCAAGAAAAACTATCTCAAGTGAGATAAAATTTG
* *
1431512 TTTCAAGAAAAACTATCTCAAGTGAGACAAAACTTG
1 TTTCAAGAAAAACTATCTCAAGTGAGATAAAATTTG
1431548 TTTCAAGA
1 TTTCAAGA
1431556 GATACGATCT
Statistics
Matches: 138, Mismatches: 40, Indels: 15
0.72 0.21 0.08
Matches are distributed among these distances:
32 28 0.20
35 18 0.13
36 43 0.31
37 33 0.24
38 16 0.12
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.34
Consensus pattern (36 bp):
TTTCAAGAAAAACTATCTCAAGTGAGATAAAATTTG
Found at i:1432946 original size:44 final size:44
Alignment explanation
Indices: 1432876--1432961 Score: 145
Period size: 44 Copynumber: 2.0 Consensus size: 44
1432866 CGGTACTTTA
*
1432876 GCACCACCGTCACACAAACATTAGGTTACGTGCTAAGTATCAGT
1 GCACCACCGTCACACAAACATCAGGTTACGTGCTAAGTATCAGT
* *
1432920 GCACCACCGTCACACAAACGTCAGGTTACGTGCTCAGTATCA
1 GCACCACCGTCACACAAACATCAGGTTACGTGCTAAGTATCA
1432962 TATAAGAGGT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (44 bp):
GCACCACCGTCACACAAACATCAGGTTACGTGCTAAGTATCAGT
Found at i:1437937 original size:18 final size:18
Alignment explanation
Indices: 1437899--1437937 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
1437889 GTGAGTTGGT
* * *
1437899 AAAAAGGATTAAATGATA
1 AAAAACGATTAAAAGAAA
1437917 AAAAACGATTAAAAGAAA
1 AAAAACGATTAAAAGAAA
1437935 AAA
1 AAA
1437938 TAAAGAAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.69, C:0.03, G:0.13, T:0.15
Consensus pattern (18 bp):
AAAAACGATTAAAAGAAA
Found at i:1438581 original size:25 final size:24
Alignment explanation
Indices: 1438520--1438575 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 24
1438510 ATCATGTTTA
* *
1438520 AAAATAAAACTTAAAATATAAATG
1 AAAATAAAACTTAAAATAGAAAAG
1438544 AAAATGAAAACTTAAAA-AGAAAAG
1 AAAAT-AAAACTTAAAATAGAAAAG
1438568 AAAATAAA
1 AAAATAAA
1438576 TAACTTTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 3 0.10
24 15 0.52
25 11 0.38
ACGTcount: A:0.71, C:0.04, G:0.07, T:0.18
Consensus pattern (24 bp):
AAAATAAAACTTAAAATAGAAAAG
Found at i:1438813 original size:27 final size:26
Alignment explanation
Indices: 1438771--1438822 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
1438761 TTTCAGAAGG
*
1438771 TGCTGACTAGATCTTCTAGAAAACTGA
1 TGCTGACTAGACCTTCTA-AAAACTGA
*
1438798 TGCTGACTGGACCTTCTAAAAACTG
1 TGCTGACTAGACCTTCTAAAAACTG
1438823 CCACATCAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (26 bp):
TGCTGACTAGACCTTCTAAAAACTGA
Found at i:1448447 original size:17 final size:18
Alignment explanation
Indices: 1448425--1448459 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
1448415 CCAAAGTCAA
1448425 TCTTTT-ATTTTGAAAAT
1 TCTTTTGATTTTGAAAAT
1448442 TCTTTTGATTTTGAAAAT
1 TCTTTTGATTTTGAAAAT
1448460 AAGCGTAGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.29, C:0.06, G:0.09, T:0.57
Consensus pattern (18 bp):
TCTTTTGATTTTGAAAAT
Found at i:1448643 original size:24 final size:24
Alignment explanation
Indices: 1448597--1448652 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
1448587 AACATGTTTA
1448597 AAAAT-AAAACTTAAAAGAAAAAAG
1 AAAATGAAAACTTAAAAG-AAAAAG
1448621 AAAATGAAAACTTGAAAAG-AAAAG
1 AAAATGAAAACTT-AAAAGAAAAAG
1448645 AAAA-GAAA
1 AAAATGAAA
1448653 TAACTTTATA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
23 4 0.13
24 14 0.47
25 7 0.23
26 5 0.17
ACGTcount: A:0.73, C:0.04, G:0.12, T:0.11
Consensus pattern (24 bp):
AAAATGAAAACTTAAAAGAAAAAG
Found at i:1458791 original size:19 final size:19
Alignment explanation
Indices: 1458763--1458799 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
1458753 CCCGGACCCA
1458763 AAAACCCAA-TCAAAAACT
1 AAAACCCAATTCAAAAACT
1458781 AAAACCTCAATTCAAAAAC
1 AAAACC-CAATTCAAAAAC
1458800 CCAAATAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 3 0.18
20 8 0.47
ACGTcount: A:0.59, C:0.27, G:0.00, T:0.14
Consensus pattern (19 bp):
AAAACCCAATTCAAAAACT
Found at i:1458859 original size:33 final size:34
Alignment explanation
Indices: 1458821--1458894 Score: 114
Period size: 33 Copynumber: 2.2 Consensus size: 34
1458811 CCCAACTCAA
* *
1458821 AAACCCAAACTAAAACCTAAAATGGA-CCAAATC
1 AAACCCAAACCAAAACCCAAAATGGACCCAAATC
*
1458854 AAACCCAAACCAAAACCCAAAATGGACCCAAATG
1 AAACCCAAACCAAAACCCAAAATGGACCCAAATC
1458888 AAACCCA
1 AAACCCA
1458895 TATTTAATAC
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
33 24 0.65
34 13 0.35
ACGTcount: A:0.54, C:0.31, G:0.07, T:0.08
Consensus pattern (34 bp):
AAACCCAAACCAAAACCCAAAATGGACCCAAATC
Found at i:1460393 original size:7 final size:7
Alignment explanation
Indices: 1460381--1460419 Score: 62
Period size: 7 Copynumber: 5.7 Consensus size: 7
1460371 TTTTATTTAT
1460381 TTTTTTC
1 TTTTTTC
*
1460388 TTTTTTT
1 TTTTTTC
1460395 TTTTTTC
1 TTTTTTC
1460402 TTTTTTC
1 TTTTTTC
1460409 -TTTTTC
1 TTTTTTC
1460415 TTTTT
1 TTTTT
1460420 ATTATTTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 6 0.21
7 23 0.79
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (7 bp):
TTTTTTC
Found at i:1460399 original size:14 final size:14
Alignment explanation
Indices: 1460380--1460434 Score: 67
Period size: 14 Copynumber: 4.0 Consensus size: 14
1460370 ATTTTATTTA
1460380 TTTTTTTCTTTTTT
1 TTTTTTTCTTTTTT
1460394 TTTTTTTC-TTTTT
1 TTTTTTTCTTTTTT
* *
1460407 TCTTTTTCTTTTTA
1 TTTTTTTCTTTTTT
* *
1460421 TTATTTTATTTTTT
1 TTTTTTTCTTTTTT
1460435 AAAATTAGTT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
13 12 0.35
14 22 0.65
ACGTcount: A:0.05, C:0.07, G:0.00, T:0.87
Consensus pattern (14 bp):
TTTTTTTCTTTTTT
Found at i:1460416 original size:27 final size:27
Alignment explanation
Indices: 1460368--1460434 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
1460358 GTATTTATGT
* *
1460368 TTATTTTATTTATT-TTTTTCTTTTTT
1 TTATTTTATTTTTTCTTTTTCTTTTTA
* *
1460394 TTTTTTTCTTTTTTCTTTTTCTTTTTA
1 TTATTTTATTTTTTCTTTTTCTTTTTA
1460421 TTATTTTATTTTTT
1 TTATTTTATTTTTT
1460435 AAAATTAGTT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
26 11 0.32
27 23 0.68
ACGTcount: A:0.09, C:0.06, G:0.00, T:0.85
Consensus pattern (27 bp):
TTATTTTATTTTTTCTTTTTCTTTTTA
Found at i:1460433 original size:21 final size:20
Alignment explanation
Indices: 1460361--1460434 Score: 60
Period size: 21 Copynumber: 3.5 Consensus size: 20
1460351 GGTCCTTGTA
*
1460361 TTTATGTTTATTTTATTTATTTT
1 TTTAT-TTT-TTTT-TTTATTAT
* *
1460384 TTTCTTTTTTTTTTT-TTCT
1 TTTATTTTTTTTTTTATTAT
*
1460403 TTTTTCTTTTTCTTTTTATTAT
1 TTTAT-TTTTT-TTTTTATTAT
1460425 TTTATTTTTT
1 TTTATTTTTT
1460435 AAAATTAGTT
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
19 7 0.16
20 8 0.19
21 14 0.33
22 10 0.23
23 4 0.09
ACGTcount: A:0.09, C:0.05, G:0.01, T:0.84
Consensus pattern (20 bp):
TTTATTTTTTTTTTTATTAT
Found at i:1464964 original size:304 final size:309
Alignment explanation
Indices: 1464413--1465025 Score: 1159
Period size: 304 Copynumber: 2.0 Consensus size: 309
1464403 TGAAGGATTA
1464413 AAAGAAAATTTGACTTATTTGATATTCAATGAACTCTTGTTTTACAATTTGTTTTGATTGTGAGC
1 AAAGAAAATTTGACTTATTTGATATTCAATGAACTCTTGTTTTACAATTTGTTTTGATTGTGAGC
1464478 CGGAAGAAAATGACAACACTTTTGAATTTTATTCAGCAATTTTTTTCACATTTCTAAAATAAAAG
66 CGGAAGAAAATGACAACACTTTTGAATTTTATTCAGCAATTTTTTTCACATTTCTAAAATAAAAG
1464543 AAAAAAAACATTTTAAAATAGGACAATCTCAAGTGAAAAAGGTCGTTGAAGCTGGTGAGGCTCCT
131 AAAAAAAACATTTTAAAATAGGACAATCTCAAGTGAAAAAGGTCGTTGAAGCTGGTGAGGCTCCT
1464608 TTTGCCTATCGGAAAGAAAAAAAACAAGCGATGCTATAACGATGAAGCATTTC-TAAACGCAAAT
196 TTTGCCTATCGGAAAGAAAAAAAACAAGCGATGCTATAACGATGAAGCATTTCTTAAACGCAAAT
1464672 AGTTCAAGAGACCAGAAGGA-TGGAGGATAAACTTCTAACAC-TCATTG
261 AGTTCAAGAGACCAGAAGGACTGGAGGATAAACTTCTAACACTTCATTG
1464719 AAAGAAAATTTGACTTATTTGATATTCAATGAACTCTTGTTTTACAATTTG-TTTGATTGTGAGC
1 AAAGAAAATTTGACTTATTTGATATTCAATGAACTCTTGTTTTACAATTTGTTTTGATTGTGAGC
1464783 CGGAAG-AAATGACAACACTTTTGAATTTTATTCAGCAATTTTTTTCACATTTCTAAAATAAAAG
66 CGGAAGAAAATGACAACACTTTTGAATTTTATTCAGCAATTTTTTTCACATTTCTAAAATAAAAG
1464847 AAAAAAAACATTTTAAAATAGGACAATCTCAAGTGAAAAAGGTCGTTGAAGCTGGTGAGGCTCCT
131 AAAAAAAACATTTTAAAATAGGACAATCTCAAGTGAAAAAGGTCGTTGAAGCTGGTGAGGCTCCT
1464912 TTTGCCTCTATC-G-AAGAAAAAAAACAAGCGATGCTATAACGATGAAGCATTTCTTAAACGCAA
196 TTTG-C-CTATCGGAAAGAAAAAAAACAAGCGATGCTATAACGATGAAGCATTTCTTAAACGCAA
1464975 ATAGTTCAAGAGACCAGAAGGACTGGAGGATAAACTTCTAACACTTCATTG
259 ATAGTTCAAGAGACCAGAAGGACTGGAGGATAAACTTCTAACACTTCATTG
1465026 TGACATTCTC
Statistics
Matches: 302, Mismatches: 0, Indels: 9
0.97 0.00 0.03
Matches are distributed among these distances:
304 167 0.55
305 52 0.17
306 77 0.25
307 6 0.02
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.30
Consensus pattern (309 bp):
AAAGAAAATTTGACTTATTTGATATTCAATGAACTCTTGTTTTACAATTTGTTTTGATTGTGAGC
CGGAAGAAAATGACAACACTTTTGAATTTTATTCAGCAATTTTTTTCACATTTCTAAAATAAAAG
AAAAAAAACATTTTAAAATAGGACAATCTCAAGTGAAAAAGGTCGTTGAAGCTGGTGAGGCTCCT
TTTGCCTATCGGAAAGAAAAAAAACAAGCGATGCTATAACGATGAAGCATTTCTTAAACGCAAAT
AGTTCAAGAGACCAGAAGGACTGGAGGATAAACTTCTAACACTTCATTG
Found at i:1466046 original size:58 final size:58
Alignment explanation
Indices: 1465966--1466250 Score: 232
Period size: 58 Copynumber: 5.0 Consensus size: 58
1465956 TCAATGATAG
* * *
1465966 GATGTTTTCAAATGAACTTTTAAAAGAAGTTAAGCCTAATTTTTAAGGGTTTCTTAAT
1 GATGATTTCAAATGAACTTTTAAAAGAAGCTAAGCCTAATTTTTAAGGGTTTCTTGAT
* * * *
1466024 GATGATTTCCAATGAATTTTTAAAATAAGCTAAGCCTAATTTTTAGGGGTTTCTTG-T
1 GATGATTTCAAATGAACTTTTAAAAGAAGCTAAGCCTAATTTTTAAGGGTTTCTTGAT
* * * *
1466081 --TGTTTTCAAATG-AGTTCTT---AGAAACTAAGCCTAA-TTTTCAGGGTTTTCTTGAT
1 GATGATTTCAAATGAACTT-TTAAAAGAAGCTAAGCCTAATTTTTAAGGG-TTTCTTGAT
* * * * * *
1466134 AATTA-TTCCAATGAACTTTTAAAAGAAGCTCAGACTAATTTTTAGGGGTTTCTTGAT
1 GATGATTTCAAATGAACTTTTAAAAGAAGCTAAGCCTAATTTTTAAGGGTTTCTTGAT
* * ** * * * *
1466191 GATAACTGAAAATGAAAGATTTT--AAGAAACTAAGCTTGATTTTTAAGGGTTTCTTGAT
1 GATGATTTCAAATG-AA-CTTTTAAAAGAAGCTAAGCCTAATTTTTAAGGGTTTCTTGAT
1466249 GA
1 GA
1466251 GTAAGTCCTT
Statistics
Matches: 179, Mismatches: 35, Indels: 26
0.75 0.15 0.11
Matches are distributed among these distances:
51 7 0.04
52 20 0.11
53 1 0.01
54 12 0.07
55 16 0.09
57 25 0.14
58 92 0.51
59 2 0.01
60 4 0.02
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (58 bp):
GATGATTTCAAATGAACTTTTAAAAGAAGCTAAGCCTAATTTTTAAGGGTTTCTTGAT
Found at i:1466304 original size:42 final size:41
Alignment explanation
Indices: 1466246--1466358 Score: 111
Period size: 42 Copynumber: 2.7 Consensus size: 41
1466236 AGGGTTTCTT
* *
1466246 GATGAGTAAGTCCTTCGGGACATC-AGTAAGTCTTTCAAGCAT
1 GATGA-TAAATCCTTCGGGACATCTA-TAAGTCTTTCAAGCAA
* **
1466288 GATGCATAAATCCTTCGGGTCATCTATAAGTCTTTTGAGCAA
1 GATG-ATAAATCCTTCGGGACATCTATAAGTCTTTCAAGCAA
* * * *
1466330 GATGATAAGTCCTTCAGGCCATCCATAAG
1 GATGATAAATCCTTCGGGACATCTATAAG
1466359 ACCTTTAGGC
Statistics
Matches: 60, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
41 21 0.35
42 37 0.62
43 2 0.03
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.29
Consensus pattern (41 bp):
GATGATAAATCCTTCGGGACATCTATAAGTCTTTCAAGCAA
Found at i:1466536 original size:60 final size:59
Alignment explanation
Indices: 1466380--1466537 Score: 237
Period size: 59 Copynumber: 2.7 Consensus size: 59
1466370 TGATGTTTTC
* * *
1466380 AACATTTCCTTTTCTCGATTCACAACACTTCGAATTAGCAACGCCCTACCAGAGGGGTT
1 AACATTTCCTTTGCTCGATTCACAACACTTCGAATCAGCAACGCCCTACCAGAGGGGCT
* *
1466439 AACATTTTCTTTGCTCGATTCACAACACTTCAAATCAGCAACGCACC-ACCAGAGGGGCT
1 AACATTTCCTTTGCTCGATTCACAACACTTCGAATCAGCAACGC-CCTACCAGAGGGGCT
*
1466498 AACATTTCCTATTGCTTGATTCACAACACTTCGAATCAGC
1 AACATTTCCT-TTGCTCGATTCACAACACTTCGAATCAGC
1466538 TTAAGTCCTT
Statistics
Matches: 89, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
59 60 0.67
60 29 0.33
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.28
Consensus pattern (59 bp):
AACATTTCCTTTGCTCGATTCACAACACTTCGAATCAGCAACGCCCTACCAGAGGGGCT
Found at i:1466931 original size:59 final size:60
Alignment explanation
Indices: 1466852--1466989 Score: 181
Period size: 59 Copynumber: 2.3 Consensus size: 60
1466842 TCATTTGCTT
* * *
1466852 GATTCACAACACTTCAAATCAAAAATGCCCCACCAGAGGGGTTAACATTTCCT-TTACTC
1 GATTCACAACACTTCGAATCAAAAACGCCCAACCAGAGGGGTTAACATTTCCTATTACTC
*** *
1466911 -AGTTCACAACACTTCGAATCATCGACGCCCAACCAGAGGGGTTAACATTTCCTATTGCTC
1 GA-TTCACAACACTTCGAATCAAAAACGCCCAACCAGAGGGGTTAACATTTCCTATTACTC
*
1466971 GATTCATAACACTTCGAAT
1 GATTCACAACACTTCGAAT
1466990 AAGCTTAAGT
Statistics
Matches: 68, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
58 1 0.01
59 45 0.66
60 21 0.31
61 1 0.01
ACGTcount: A:0.32, C:0.28, G:0.14, T:0.26
Consensus pattern (60 bp):
GATTCACAACACTTCGAATCAAAAACGCCCAACCAGAGGGGTTAACATTTCCTATTACTC
Found at i:1467613 original size:24 final size:25
Alignment explanation
Indices: 1467559--1467606 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
1467549 TGCAATCAAA
1467559 AAATAAGACCCCAACTCAAAAACCC
1 AAATAAGACCCCAACTCAAAAACCC
1467584 AAATAAGACCCCAACTCAAAAAC
1 AAATAAGACCCCAACTCAAAAAC
1467607 TAAATAAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.54, C:0.33, G:0.04, T:0.08
Consensus pattern (25 bp):
AAATAAGACCCCAACTCAAAAACCC
Found at i:1468560 original size:10 final size:9
Alignment explanation
Indices: 1468536--1468605 Score: 52
Period size: 10 Copynumber: 7.4 Consensus size: 9
1468526 GGTCCTTGTA
1468536 TTTATGTTTAT
1 TTTAT-TTT-T
1468547 TTTATTTTT
1 TTTATTTTT
1468556 ATTTATTTTT
1 -TTTATTTTT
*
1468566 GTTTCTTTTT
1 -TTTATTTTT
**
1468576 ACTA-TTTT
1 TTTATTTTT
*
1468584 TTAATTTTT
1 TTTATTTTT
*
1468593 TTAATTTTT
1 TTTATTTTT
1468602 TTTA
1 TTTA
1468606 CATTAGGTTT
Statistics
Matches: 48, Mismatches: 9, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
8 5 0.10
9 18 0.38
10 20 0.42
11 5 0.10
ACGTcount: A:0.17, C:0.03, G:0.03, T:0.77
Consensus pattern (9 bp):
TTTATTTTT
Found at i:1470317 original size:28 final size:29
Alignment explanation
Indices: 1470258--1470404 Score: 210
Period size: 28 Copynumber: 5.2 Consensus size: 29
1470248 CACATTCGAA
* *
1470258 AATTCCCAAAATGTCACATTTTTCAAAAT
1 AATTCCCAGAATGTCACCTTTTTCAAAAT
1470287 AATTCCCAGAATGTCACCTTTTT-AAAAT
1 AATTCCCAGAATGTCACCTTTTTCAAAAT
1470315 AATTCCCAGAATGTCACC-TTTTCAAAAT
1 AATTCCCAGAATGTCACCTTTTTCAAAAT
**
1470343 AATTCATAGAATGTCA-CTTTTTCAAAAT
1 AATTCCCAGAATGTCACCTTTTTCAAAAT
* **
1470371 AATTCCCAAAATAACACCTTTTTCAAAAT
1 AATTCCCAGAATGTCACCTTTTTCAAAAT
1470400 AATTC
1 AATTC
1470405 TTATAATGTC
Statistics
Matches: 106, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
27 5 0.05
28 63 0.59
29 38 0.36
ACGTcount: A:0.39, C:0.21, G:0.05, T:0.35
Consensus pattern (29 bp):
AATTCCCAGAATGTCACCTTTTTCAAAAT
Found at i:1470469 original size:22 final size:21
Alignment explanation
Indices: 1470424--1470473 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
1470414 CACTGGGTCG
** *
1470424 GGTCAACGGTCGGGTCGGATC
1 GGTCAACGGTCGGGTCAAACC
1470445 GGTCAACGGGTCGGGTCAAACC
1 GGTCAAC-GGTCGGGTCAAACC
1470467 GGTCAAC
1 GGTCAAC
1470474 CCGGTCAACT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
21 7 0.28
22 18 0.72
ACGTcount: A:0.20, C:0.26, G:0.38, T:0.16
Consensus pattern (21 bp):
GGTCAACGGTCGGGTCAAACC
Found at i:1477227 original size:29 final size:29
Alignment explanation
Indices: 1477186--1477289 Score: 172
Period size: 29 Copynumber: 3.6 Consensus size: 29
1477176 CACATTCGAA
* *
1477186 AATTCCCAAAATGTAACATTTTTCAAAAT
1 AATTCCCAGAATGTCACATTTTTCAAAAT
*
1477215 AATTCCCAGAATGTCACCTTTTTCAAAAT
1 AATTCCCAGAATGTCACATTTTTCAAAAT
*
1477244 AATTCCTAGAATGTCACATTTTTCAAAAT
1 AATTCCCAGAATGTCACATTTTTCAAAAT
1477273 AATTCCCAGAATGTCAC
1 AATTCCCAGAATGTCAC
1477290 TAGGTCGGGT
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 69 1.00
ACGTcount: A:0.38, C:0.21, G:0.07, T:0.34
Consensus pattern (29 bp):
AATTCCCAGAATGTCACATTTTTCAAAAT
Found at i:1483370 original size:25 final size:24
Alignment explanation
Indices: 1483341--1483387 Score: 85
Period size: 25 Copynumber: 1.9 Consensus size: 24
1483331 ATGAATCTTT
1483341 TAGGCTAGATATTGAATGTAAATTA
1 TAGGCTAGATATTGAATG-AAATTA
1483366 TAGGCTAGATATTGAATGAAAT
1 TAGGCTAGATATTGAATGAAAT
1483388 ACATGACTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 4 0.18
25 18 0.82
ACGTcount: A:0.40, C:0.04, G:0.21, T:0.34
Consensus pattern (24 bp):
TAGGCTAGATATTGAATGAAATTA
Found at i:1485089 original size:26 final size:27
Alignment explanation
Indices: 1485048--1485098 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
1485038 GTAGCTCATC
*
1485048 TTTAGTATTTGACATAAAC-AAGGAGT
1 TTTAGTATTCGACATAAACTAAGGAGT
*
1485074 TTTAGTATTCGGCATAAACTAAGGA
1 TTTAGTATTCGACATAAACTAAGGA
1485099 TGATCAACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 17 0.77
27 5 0.23
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.33
Consensus pattern (27 bp):
TTTAGTATTCGACATAAACTAAGGAGT
Found at i:1486318 original size:21 final size:21
Alignment explanation
Indices: 1486294--1486334 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
1486284 TAAATATTTC
*
1486294 AATCATACTAAAAATGGAAAA
1 AATCAAACTAAAAATGGAAAA
* *
1486315 AATCAAAGTAAAATTGGAAA
1 AATCAAACTAAAAATGGAAA
1486335 TCAAATGTGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.61, C:0.07, G:0.12, T:0.20
Consensus pattern (21 bp):
AATCAAACTAAAAATGGAAAA
Found at i:1487394 original size:289 final size:289
Alignment explanation
Indices: 1486992--1487562 Score: 1108
Period size: 289 Copynumber: 2.0 Consensus size: 289
1486982 TCCTAGATTA
*
1486992 GTTACACTGACGGCTAAAATGTGCCTAAATAATACAAGATCTTATCATCCAAGGAAATAACATCT
1 GTTACACCGACGGCTAAAATGTGCCTAAATAATACAAGATCTTATCATCCAAGGAAATAACATCT
1487057 AATATTATCTAATCACATCAGTTAGCAATAATCCTTTCCCTTGATAGGAGATCACATTTTATATG
66 AATATTATCTAATCACATCAGTTAGCAATAATCCTTTCCCTTGATAGGAGATCACATTTTATATG
1487122 AAAATATTTCCCCATGATATTCTTTGATATGGTGACACTTTCCTTTTCTCCAAGGTCAATGTGAT
131 AAAATATTTCCCCATGATATTCTTT-ATATGGTGACACTTTCCTTTTCTCCAAGGTCAATGTGAT
1487187 CGGACATTCTTGCATTCAAATAAGTTTGGAGTCCGGACAAAAATAAGGTATTACAAGATTCAATA
195 CGGACATTCTTGCATTCAAATAAGTTTGGAGTCCGGACAAAAATAAGGTATTACAAGATTCAATA
1487252 AAATACCACTAATGAT-CTCTGATACATTT
260 AAATACCACTAATGATCCTCTGATACATTT
1487281 GTTACACCGACGGCTAAAATGTGCCTAAATAATACAAGATCTTATCATCCAAGGAAATAACATCT
1 GTTACACCGACGGCTAAAATGTGCCTAAATAATACAAGATCTTATCATCCAAGGAAATAACATCT
1487346 AATATTATCTAATCACATCAGTTAGCAATAATCCTTTCCCTTGATAGGAGATCACATTTTATATG
66 AATATTATCTAATCACATCAGTTAGCAATAATCCTTTCCCTTGATAGGAGATCACATTTTATATG
*
1487411 ACAATATTTCCCCATGATATTCTTTATATGGTGACACTTTCCTTTTCTCCAAGGTCAATGTGATC
131 AAAATATTTCCCCATGATATTCTTTATATGGTGACACTTTCCTTTTCTCCAAGGTCAATGTGATC
1487476 GGACATTCTTGCATTCAAATAAGTTTGGAGTCCGGACAAAAATAAGGTATTACAAGATTCAATAA
196 GGACATTCTTGCATTCAAATAAGTTTGGAGTCCGGACAAAAATAAGGTATTACAAGATTCAATAA
1487541 AATACCACTAATGATCCTCTGA
261 AATACCACTAATGATCCTCTGA
1487563 ATACTCATTT
Statistics
Matches: 279, Mismatches: 2, Indels: 2
0.99 0.01 0.01
Matches are distributed among these distances:
288 120 0.43
289 159 0.57
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.32
Consensus pattern (289 bp):
GTTACACCGACGGCTAAAATGTGCCTAAATAATACAAGATCTTATCATCCAAGGAAATAACATCT
AATATTATCTAATCACATCAGTTAGCAATAATCCTTTCCCTTGATAGGAGATCACATTTTATATG
AAAATATTTCCCCATGATATTCTTTATATGGTGACACTTTCCTTTTCTCCAAGGTCAATGTGATC
GGACATTCTTGCATTCAAATAAGTTTGGAGTCCGGACAAAAATAAGGTATTACAAGATTCAATAA
AATACCACTAATGATCCTCTGATACATTT
Found at i:1488108 original size:90 final size:87
Alignment explanation
Indices: 1488011--1488249 Score: 292
Period size: 90 Copynumber: 2.8 Consensus size: 87
1488001 ACTCTCAGTT
1488011 GGTGGTGTTGCTGGTGGTGAAGGTGGAGATTTTGAGGAAGGTGGCGTTGGAACATTAGCTGGAGG
1 GGTGGTGTTGCTGGTGGTGAAGGTGGAGATTTTGAGGAAGGTGGCGTTGGAACATTAGCTGGAGG
*
1488076 AGGCGGAGAACTAAAAATTATCTGC
66 AGGCGGAGAACTAAAAACTA--T-C
* ** *
1488101 GGTGGTGTTGCTGGTGGTGAAGGTGGAGACTTTGAGGAAGGTGGCGTTGGAACAAAATCTGGAGG
1 GGTGGTGTTGCTGGTGGTGAAGGTGGAGATTTTGAGGAAGGTGGCGTTGGAACATTAGCTGGAGG
** *
1488166 AAACGGTGAACTAAAAACTATC
66 AGGCGGAGAACTAAAAACTATC
* * * * *
1488188 --T-GTG--G-TGGAGGTGAAGGTGGAGATTTTGGGGAAGGCGGTGTTGGAACATTAGCCGGAGG
1 GGTGGTGTTGCTGGTGGTGAAGGTGGAGATTTTGAGGAAGGTGGCGTTGGAACATTAGCTGGAGG
1488247 AGG
66 AGG
1488250 TGGGGAAGGT
Statistics
Matches: 130, Mismatches: 19, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
81 46 0.35
82 1 0.01
84 3 0.02
85 1 0.01
87 1 0.01
88 1 0.01
90 77 0.59
ACGTcount: A:0.25, C:0.09, G:0.42, T:0.24
Consensus pattern (87 bp):
GGTGGTGTTGCTGGTGGTGAAGGTGGAGATTTTGAGGAAGGTGGCGTTGGAACATTAGCTGGAGG
AGGCGGAGAACTAAAAACTATC
Found at i:1488705 original size:75 final size:75
Alignment explanation
Indices: 1488594--1488791 Score: 235
Period size: 75 Copynumber: 2.7 Consensus size: 75
1488584 ATTTTTTTAG
* *
1488594 ACTTAATATTATGGTTTGAGTCTT-AAGATTTAACATTTTAATATTATGATTTGATTATGGATTT
1 ACTTAATATTGTGGTTTGAGTCTTGAA-ATTTGACATTTTAATATTATGATTTGATTATGGATTT
* *
1488658 TATTATTCTAT
65 TACTATTCTAA
* * * * *
1488669 AGTTAATATTGTGGTTTGAATCTTGAAATTTGACATTTTAATATTGTGGTTTGTTTATGGATTTT
1 ACTTAATATTGTGGTTTGAGTCTTGAAATTTGACATTTTAATATTATGATTTGATTATGGATTTT
* *
1488734 ACTGTTTTAA
66 ACTATTCTAA
* *
1488744 ACTTAATATTGTGGTTTGAGTATTGATATTTGAC--TTT-AT-TTATGATTT
1 ACTTAATATTGTGGTTTGAGTCTTGAAATTTGACATTTTAATATTATGATTT
1488792 TAAAATTATT
Statistics
Matches: 105, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
71 7 0.07
72 2 0.02
73 3 0.03
75 91 0.87
76 2 0.02
ACGTcount: A:0.27, C:0.05, G:0.16, T:0.53
Consensus pattern (75 bp):
ACTTAATATTGTGGTTTGAGTCTTGAAATTTGACATTTTAATATTATGATTTGATTATGGATTTT
ACTATTCTAA
Found at i:1488826 original size:19 final size:20
Alignment explanation
Indices: 1488782--1488823 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
1488772 TTTGACTTTA
*
1488782 TTTATGATTTTAAAATTATT
1 TTTATAATTTTAAAATTATT
1488802 TTTATAATTTTAAAATTATT
1 TTTATAATTTTAAAATTATT
1488822 TT
1 TT
1488824 ATAGGTTGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (20 bp):
TTTATAATTTTAAAATTATT
Found at i:1510703 original size:13 final size:14
Alignment explanation
Indices: 1510687--1510715 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
1510677 TATTAATTAA
1510687 AATAATATAA-TAT
1 AATAATATAACTAT
1510700 AATAATATAACTAT
1 AATAATATAACTAT
1510714 AA
1 AA
1510716 CGAAACAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (14 bp):
AATAATATAACTAT
Found at i:1511288 original size:23 final size:24
Alignment explanation
Indices: 1511248--1511305 Score: 91
Period size: 23 Copynumber: 2.4 Consensus size: 24
1511238 CTTTGTTTAG
*
1511248 TGCATCCTCTAGGTTGATGTATCCC
1 TGCAT-CTCTAGGTTGATCTATCCC
1511273 TGCATCTCTA-GTTGATCTATCCC
1 TGCATCTCTAGGTTGATCTATCCC
1511296 TGCATCTCTA
1 TGCATCTCTA
1511306 TATAATGCTT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
23 22 0.69
24 5 0.16
25 5 0.16
ACGTcount: A:0.17, C:0.29, G:0.16, T:0.38
Consensus pattern (24 bp):
TGCATCTCTAGGTTGATCTATCCC
Found at i:1523059 original size:18 final size:17
Alignment explanation
Indices: 1523017--1523053 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
1523007 AATATTATGC
1523017 TTTAATTTATTCCTTTA
1 TTTAATTTATTCCTTTA
1523034 TTTAATTTATTTCC-TTA
1 TTTAATTTA-TTCCTTTA
1523051 TTT
1 TTT
1523054 TTATTTCTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.22, C:0.11, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTAATTTATTCCTTTA
Found at i:1526330 original size:29 final size:29
Alignment explanation
Indices: 1526262--1526324 Score: 108
Period size: 29 Copynumber: 2.2 Consensus size: 29
1526252 AGGAGCTAGC
* *
1526262 GAGCTAAGGAAATTTATGGTTGTTGAGGA
1 GAGCTAAGGCAATTTATGGTTATTGAGGA
1526291 GAGCTAAGGCAATTTATGGTTATTGAGGA
1 GAGCTAAGGCAATTTATGGTTATTGAGGA
1526320 GAGCT
1 GAGCT
1526325 CCGGCATCTC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.30, C:0.06, G:0.33, T:0.30
Consensus pattern (29 bp):
GAGCTAAGGCAATTTATGGTTATTGAGGA
Found at i:1530333 original size:9 final size:9
Alignment explanation
Indices: 1530319--1530357 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
1530309 TATTTATGTT
1530319 TTTTTTTTG
1 TTTTTTTTG
*
1530328 TTTTTTTTA
1 TTTTTTTTG
1530337 TTTTTTTT-
1 TTTTTTTTG
*
1530345 ATTTTTTTG
1 TTTTTTTTG
1530354 TTTT
1 TTTT
1530358 AATTATATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
8 7 0.27
9 19 0.73
ACGTcount: A:0.05, C:0.00, G:0.05, T:0.90
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:1530344 original size:22 final size:22
Alignment explanation
Indices: 1530311--1530358 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
1530301 AGTCCTTATA
*
1530311 TTTATGTTTTTT-TTTTGTTTTT
1 TTTATGTTTTTTATTTT-TTTGT
*
1530333 TTTATTTTTTTTATTTTTTTGT
1 TTTATGTTTTTTATTTTTTTGT
1530355 TTTA
1 TTTA
1530359 ATTATATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 19 0.83
23 4 0.17
ACGTcount: A:0.08, C:0.00, G:0.06, T:0.85
Consensus pattern (22 bp):
TTTATGTTTTTTATTTTTTTGT
Found at i:1533575 original size:17 final size:17
Alignment explanation
Indices: 1533564--1533596 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
1533554 AAAAACACAC
1533564 ACAAAAAGAAAACAAAA
1 ACAAAAAGAAAACAAAA
*
1533581 AGAAAAAG-AAACAAAA
1 ACAAAAAGAAAACAAAA
1533597 TAAAGAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.82, C:0.09, G:0.09, T:0.00
Consensus pattern (17 bp):
ACAAAAAGAAAACAAAA
Found at i:1533603 original size:19 final size:17
Alignment explanation
Indices: 1533566--1533666 Score: 80
Period size: 20 Copynumber: 5.5 Consensus size: 17
1533556 AAACACACAC
*
1533566 AAAAAGAAAACAAAAAG
1 AAAAAGAAAAAAAAAAG
1533583 AAAAAGAAACAAAATAAAG
1 AAAAAGAAA-AAAA-AAAG
*
1533602 AAAAAGGAAGGAAAAAATAG
1 AAAAA-GAA--AAAAAAAAG
1533622 AAAAA-AAAAGAAAAAAGG
1 AAAAAGAAAA-AAAAAA-G
*
1533640 AAAAAAAGAAGAAAAAAAG
1 --AAAAAGAAAAAAAAAAG
1533659 -AAAAGAAA
1 AAAAAGAAA
1533667 GAAAGAAAAA
Statistics
Matches: 69, Mismatches: 5, Indels: 21
0.73 0.05 0.22
Matches are distributed among these distances:
16 9 0.13
17 14 0.20
18 6 0.09
19 10 0.14
20 22 0.32
21 7 0.10
22 1 0.01
ACGTcount: A:0.80, C:0.02, G:0.16, T:0.02
Consensus pattern (17 bp):
AAAAAGAAAAAAAAAAG
Found at i:1533645 original size:16 final size:15
Alignment explanation
Indices: 1533624--1533676 Score: 63
Period size: 16 Copynumber: 3.3 Consensus size: 15
1533614 AAAAATAGAA
1533624 AAAAAAAGAAAAAAGG
1 AAAAAAAGAAAAAA-G
1533640 AAAAAAAGAAGAAAA-
1 AAAAAAAGAA-AAAAG
1533655 AAAGAAAAGAAAGAAAG
1 AAA-AAAAGAAA-AAAG
1533672 AAAAA
1 AAAAA
1533677 TGATCAAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
15 4 0.12
16 22 0.67
17 7 0.21
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (15 bp):
AAAAAAAGAAAAAAG
Found at i:1533645 original size:39 final size:36
Alignment explanation
Indices: 1533566--1533676 Score: 107
Period size: 39 Copynumber: 2.9 Consensus size: 36
1533556 AAACACACAC
* *
1533566 AAAAAGAA-AACAAAAAGAAAAAGAAACAAAATAAAGA
1 AAAAAGAAGAA-AAAAAGAAAAAAAAAGAAAA-AAAGA
* *
1533603 AAAAGGAAGGAAAAAATAGAAAAAAAAAGAAAAAAGGAA
1 AAAAAGAA-GAAAAAA-AGAAAAAAAAAGAAAAAAAG-A
1533642 AAAAAGAAGAAAAAAAGAAAAGAAAGAAAGAAAAA
1 AAAAAGAAGAAAAAAAG-AAA-AAA-AAAGAAAAA
1533677 TGATCAAATA
Statistics
Matches: 62, Mismatches: 5, Indels: 11
0.79 0.06 0.14
Matches are distributed among these distances:
37 9 0.15
38 17 0.27
39 27 0.44
40 9 0.15
ACGTcount: A:0.80, C:0.02, G:0.16, T:0.02
Consensus pattern (36 bp):
AAAAAGAAGAAAAAAAGAAAAAAAAAGAAAAAAAGA
Found at i:1533646 original size:11 final size:11
Alignment explanation
Indices: 1533602--1533660 Score: 56
Period size: 11 Copynumber: 5.8 Consensus size: 11
1533592 CAAAATAAAG
* *
1533602 AAAAAGGAAGG
1 AAAAAAGAAGA
*
1533613 AAAAAA-TAGA
1 AAAAAAGAAGA
1533623 AAAAAA-AAG-
1 AAAAAAGAAGA
1533632 AAAAAAG--GA
1 AAAAAAGAAGA
1533641 AAAAAAGAAGA
1 AAAAAAGAAGA
1533652 AAAAAAGAA
1 AAAAAAGAA
1533661 AAGAAAGAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
8 1 0.03
9 13 0.32
10 10 0.25
11 16 0.40
ACGTcount: A:0.80, C:0.00, G:0.19, T:0.02
Consensus pattern (11 bp):
AAAAAAGAAGA
Found at i:1533654 original size:27 final size:27
Alignment explanation
Indices: 1533609--1533662 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
1533599 AAGAAAAAGG
1533609 AAGGAAAAAATAGAAAAAAAAAGAAAA
1 AAGGAAAAAATAGAAAAAAAAAGAAAA
1533636 AAGGAAAAAA-AGAAGAAAAAAAGAAAA
1 AAGGAAAAAATAGAA-AAAAAAAGAAAA
1533663 GAAAGAAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 4 0.15
27 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (27 bp):
AAGGAAAAAATAGAAAAAAAAAGAAAA
Found at i:1533667 original size:20 final size:19
Alignment explanation
Indices: 1533566--1533676 Score: 104
Period size: 19 Copynumber: 5.7 Consensus size: 19
1533556 AAACACACAC
1533566 AAAAAGAA-AACAAAAAGAA
1 AAAAAGAAGAA-AAAAAGAA
* *
1533585 AAAGA-AACAAAATAAAG-A
1 AAAAAGAAGAAAA-AAAGAA
*
1533603 AAAAGGAAGGAAAAAATAGAA
1 AAAAAGAA-GAAAAAA-AGAA
*
1533624 AAAAA-AAGAAAAAAGGAA
1 AAAAAGAAGAAAAAAAGAA
1533642 AAAAAGAAGAAAAAAAGAA
1 AAAAAGAAGAAAAAAAGAA
1533661 AAGAAAGAAAGAAAAA
1 AA-AAAG-AAGAAAAA
1533677 TGATCAAATA
Statistics
Matches: 76, Mismatches: 7, Indels: 16
0.77 0.07 0.16
Matches are distributed among these distances:
18 16 0.21
19 35 0.46
20 12 0.16
21 13 0.17
ACGTcount: A:0.80, C:0.02, G:0.16, T:0.02
Consensus pattern (19 bp):
AAAAAGAAGAAAAAAAGAA
Found at i:1533674 original size:50 final size:48
Alignment explanation
Indices: 1533566--1533676 Score: 125
Period size: 50 Copynumber: 2.2 Consensus size: 48
1533556 AAACACACAC
* * * *
1533566 AAAAAGAAAACAAAAAGAAAAAGAAACAAAATAAAGAAAAAGGAAGGAA
1 AAAAAGAAAA-AAAAAGAAAAAGAAACAAAAGAAAAAAAAAGAAAAGAA
1533615 AAAATAGAAAAAAAAAGAAAAAAGGAAA-AAAAGAAGAAAAAAAGAAAAGAA
1 AAAA-AGAAAAAAAAAG-AAAAA-GAAACAAAAGAA-AAAAAAAGAAAAGAA
*
1533666 AGAAAGAAAAA
1 AAAAAGAAAAA
1533677 TGATCAAATA
Statistics
Matches: 53, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
49 10 0.19
50 24 0.45
51 19 0.36
ACGTcount: A:0.80, C:0.02, G:0.16, T:0.02
Consensus pattern (48 bp):
AAAAAGAAAAAAAAAGAAAAAGAAACAAAAGAAAAAAAAAGAAAAGAA
Found at i:1536107 original size:41 final size:40
Alignment explanation
Indices: 1536011--1536107 Score: 90
Period size: 41 Copynumber: 2.4 Consensus size: 40
1536001 AGGGTTTCTT
*
1536011 GATGAGTAAGTCCTTCGGCCATCAGTAAGTCTTTCGAGCAT
1 GATGA-TAAGTCCTTCGGCCATCAGTAAGTCTTTCGAGCAA
* * * *
1536052 GATGCTTAAATCCTTCATGTCATCTA-TAAGTCATTT-GAGCAA
1 GATG-ATAAGTCCTTC-GGCCATC-AGTAAGTC-TTTCGAGCAA
1536094 GATGATAAGTCCTT
1 GATGATAAGTCCTT
1536108 TGGGCAATCC
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
41 21 0.47
42 20 0.44
43 4 0.09
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.33
Consensus pattern (40 bp):
GATGATAAGTCCTTCGGCCATCAGTAAGTCTTTCGAGCAA
Found at i:1536295 original size:275 final size:276
Alignment explanation
Indices: 1535677--1536621 Score: 1196
Period size: 274 Copynumber: 3.4 Consensus size: 276
1535667 TAAAAGGAAG
*
1535677 ATTTTTAGGGGTTCCTTGATGATAACTAAGAAACTAAGCTTGATTTTCAAGGGTTTCTTGATGAG
1 ATTTTTA-GGGTTCCTTGATGACAACTAAGAAACTAAGCTTGATTTTCAAGGGTTTCTTGATGAG
* ** * * * *
1535742 TAAGTACTTCGGGAAATCAATAAATATTTCGAGCATGATGCTTAAATCCTTCGGTTCATCTATTA
65 TAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGG-TCATCTATAA
* * *
1535807 GT-TTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACC-TTCAGACAGGATGTTCTC
129 GTCATTTCGAGCAAGATGATAAGTCCTTTGGGCCATCCATAAGACCTTTGA-ACAGGATGTTCTC
* * * *
1535870 AAATGAGTTTTTAGAAACTAAGCCTGGTTTTCAGGTA-TTTCTTGATGATTATCTCCAAATATTT
193 AAATGAGTTTTTAGAAACTAAGTCTGATTTTCAGG-AGATTCTTGATGATTATCTCCAAATAATT
1535934 TTTAAAGGAAGCTAAGCCT-
257 TTTAAAGGAAGCTAAGCCTA
* *
1535953 A-TTTTAGGGATTCCTTGATGACAACTAAAAAACAAAGCTTGATTTTCAAGGGTTTCTTGATGAG
1 ATTTTTAGGG-TTCCTTGATGACAACTAAGAAACTAAGCTTGATTTTCAAGGGTTTCTTGATGAG
*
1536017 TAAGTCCTTC-GGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCATGTCATCTATAA
65 TAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTC-GGTCATCTATAA
* **
1536081 GTCATTT-GAGCAAGATGATAAGTCCTTTGGGCAATCCATAAGACCTTTGAACAACATGTTCTCA
129 GTCATTTCGAGCAAGATGATAAGTCCTTTGGGCCATCCATAAGACCTTTGAACAGGATGTTCTCA
*
1536145 AATGAGTTTTTAGAAACTAAGTCAGATTTTCAGGAGATTCTTGATGATTATCTCCAAATAATTTT
194 AATGAGTTTTTAGAAACTAAGTCTGATTTTCAGGAGATTCTTGATGATTATCTCCAAATAATTTT
* *
1536210 TATATGAAGCT-AGCCTA
259 TAAAGGAAGCTAAGCCTA
*
1536227 ATTTTTAGGTGTTCCTTGATGACAACTAAGAAACTAAGCTTAATTTTCAAGGGTTTCTTGATGAG
1 ATTTTTAGG-GTTCCTTGATGACAACTAAGAAACTAAGCTTGATTTTCAAGGGTTTCTTGATGAG
* * *
1536292 TAAGTCCTTCGGGCCATCAGTAAGTCTTTTGAGAATGATGCTTAAATTCTTCGGTCATCTATAAG
65 TAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGTCATCTATAAG
* * ** *
1536357 -CCTTTCGAGCAAGATGATAAGT--TTTCGAGCCATCCATAAGACCTTTGGGCAGGATGTTTTCA
130 TCATTTCGAGCAAGATGATAAGTCCTTT-GGGCCATCCATAAGACCTTTGAACAGGATGTTCTCA
* * * *
1536419 AATGAGTTTTTAGAAATTAAGTCTGATTTTCAGG-GGTT-TTGATGGTTATCTCCAAAGAATTTT
194 AATGAGTTTTTAGAAACTAAGTCTGATTTTCAGGAGATTCTTGATGATTATCTCCAAATAATTTT
1536482 TAAAGGAAGCTAAGCCTA
259 TAAAGGAAGCTAAGCCTA
*
1536500 TTTTTTAAGGGTTCCTTGATGACAACTGAAACCGAAAGATTTTAAGAAACTAAGCTTGATTTTCA
1 ATTTTT-AGGGTTCCTTGATG---AC---AA-C---------TAAGAAACTAAGCTTGATTTTCA
* * * *
1536565 AGGGTATCTTGATGAGTAAGTCATTAGGGCCATCAGTAAGTCTTTAGAGCATGATGC
49 AGGGTTTCTTGATGAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGC
1536622 GTAAGTCTTT
Statistics
Matches: 587, Mismatches: 53, Indels: 45
0.86 0.08 0.07
Matches are distributed among these distances:
272 32 0.05
273 34 0.06
274 234 0.40
275 168 0.29
276 42 0.07
279 2 0.00
280 1 0.00
289 74 0.13
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.35
Consensus pattern (276 bp):
ATTTTTAGGGTTCCTTGATGACAACTAAGAAACTAAGCTTGATTTTCAAGGGTTTCTTGATGAGT
AAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGTCATCTATAAGT
CATTTCGAGCAAGATGATAAGTCCTTTGGGCCATCCATAAGACCTTTGAACAGGATGTTCTCAAA
TGAGTTTTTAGAAACTAAGTCTGATTTTCAGGAGATTCTTGATGATTATCTCCAAATAATTTTTA
AAGGAAGCTAAGCCTA
Found at i:1543132 original size:90 final size:89
Alignment explanation
Indices: 1543012--1543188 Score: 300
Period size: 90 Copynumber: 2.0 Consensus size: 89
1543002 TAATCCCGAA
* *
1543012 TATTTAATTTCAATTAATTAAATATAGATTTAATTAATTTAAAATAATAAAATCCCTAATATGAT
1 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTAAAATAATAAAA-CCCTAATATGAT
*
1543077 TAGGGTAACTTGGATATAAAAGGAT
65 TAAGGTAACTTGGATATAAAAGGAT
*
1543102 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATT
1 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTAAAATAATAAAACCCTAATATGATT
*
1543167 AAGGTAACTTGGCTATAAAAGG
66 AAGGTAACTTGGATATAAAAGG
1543189 GTGTGTTAGG
Statistics
Matches: 82, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
89 33 0.40
90 49 0.60
ACGTcount: A:0.46, C:0.07, G:0.10, T:0.37
Consensus pattern (89 bp):
TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTAAAATAATAAAACCCTAATATGATT
AAGGTAACTTGGATATAAAAGGAT
Found at i:1544079 original size:21 final size:21
Alignment explanation
Indices: 1544032--1544086 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
1544022 CGATTCTGAC
1544032 TATCGCATTGCGATTTCCCAA
1 TATCGCATTGCGATTTCCCAA
* * *
1544053 TTTCGCGTTGCGATTTTCCTAA
1 TATCGCATTGCGA-TTTCCCAA
*
1544075 -ATCGCAATGCGA
1 TATCGCATTGCGA
1544087 ATACGTCAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
21 20 0.74
22 7 0.26
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (21 bp):
TATCGCATTGCGATTTCCCAA
Found at i:1544099 original size:20 final size:20
Alignment explanation
Indices: 1544072--1544146 Score: 123
Period size: 20 Copynumber: 3.8 Consensus size: 20
1544062 GCGATTTTCC
1544072 TAAATCGCAATGCGAATACG
1 TAAATCGCAATGCGAATACG
* *
1544092 TCAATCGCAATGCGATTACG
1 TAAATCGCAATGCGAATACG
*
1544112 TAAATCGCAATGCAAATACG
1 TAAATCGCAATGCGAATACG
1544132 TAAATCGCAATGCGA
1 TAAATCGCAATGCGA
1544147 TTTACATAGC
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.39, C:0.21, G:0.19, T:0.21
Consensus pattern (20 bp):
TAAATCGCAATGCGAATACG
Found at i:1544122 original size:40 final size:40
Alignment explanation
Indices: 1544072--1544148 Score: 136
Period size: 40 Copynumber: 1.9 Consensus size: 40
1544062 GCGATTTTCC
* *
1544072 TAAATCGCAATGCGAATACGTCAATCGCAATGCGATTACG
1 TAAATCGCAATGCAAATACGTAAATCGCAATGCGATTACG
1544112 TAAATCGCAATGCAAATACGTAAATCGCAATGCGATT
1 TAAATCGCAATGCAAATACGTAAATCGCAATGCGATT
1544149 TACATAGCGC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.23
Consensus pattern (40 bp):
TAAATCGCAATGCAAATACGTAAATCGCAATGCGATTACG
Found at i:1544838 original size:20 final size:20
Alignment explanation
Indices: 1544815--1544858 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
1544805 ATTTGCGTTA
1544815 CGATAGTCATTTTCGTGTTG
1 CGATAGTCATTTTCGTGTTG
**
1544835 CGATTTTCATTTTCGTGTTG
1 CGATAGTCATTTTCGTGTTG
1544855 CGAT
1 CGAT
1544859 TTAAAGTTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.14, C:0.16, G:0.23, T:0.48
Consensus pattern (20 bp):
CGATAGTCATTTTCGTGTTG
Found at i:1544859 original size:20 final size:20
Alignment explanation
Indices: 1544821--1544860 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
1544811 GTTACGATAG
1544821 TCATTTTCGTGTTGCGATTT
1 TCATTTTCGTGTTGCGATTT
1544841 TCATTTTCGTGTTGCGATTT
1 TCATTTTCGTGTTGCGATTT
1544861 AAAGTTTCAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.10, C:0.15, G:0.20, T:0.55
Consensus pattern (20 bp):
TCATTTTCGTGTTGCGATTT
Found at i:1544868 original size:20 final size:20
Alignment explanation
Indices: 1544825--1544868 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
1544815 CGATAGTCAT
** *
1544825 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTAAAG
1544845 TTTCGTGTTGCGATTTAAAG
1 TTTCGTGTTGCGATTTAAAG
1544865 TTTC
1 TTTC
1544869 AGAAACTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.14, C:0.14, G:0.20, T:0.52
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTAAAG
Found at i:1546675 original size:20 final size:20
Alignment explanation
Indices: 1546646--1546769 Score: 152
Period size: 20 Copynumber: 6.5 Consensus size: 20
1546636 AGAATAGTTT
1546646 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
* *
1546666 ACTATTGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
1546686 ACTATCGCAAT--G-AGA-G
1 ACTATCGCAATGCGAAAATG
1546702 A--ATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
1546720 ACTATCGTAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
**
1546740 ACTATCGCAATGCGAATTTG
1 ACTATCGCAATGCGAAAATG
1546760 ACTATCGCAA
1 ACTATCGCAA
1546770 CGAAAGAATC
Statistics
Matches: 88, Mismatches: 10, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
14 8 0.09
16 3 0.03
17 4 0.05
18 3 0.03
20 70 0.80
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.22
Consensus pattern (20 bp):
ACTATCGCAATGCGAAAATG
Found at i:1546715 original size:34 final size:34
Alignment explanation
Indices: 1546672--1546788 Score: 117
Period size: 34 Copynumber: 3.3 Consensus size: 34
1546662 AATGACTATT
* *
1546672 GCAACGCGAAAATGACTATCGCAATGAGAGAATC
1 GCAATGCGAAAATGACTATCGCAATGAAAGAATC
*
1546706 GCAATGCGAAAATGACTATCGTAATGCGAAAATGACTATC
1 GCAATGCGAAAATGACTATCGCAAT--G-AAA-GA--ATC
** *
1546746 GCAATGCGAATTTGACTATCGCAACGAAAGAATC
1 GCAATGCGAAAATGACTATCGCAATGAAAGAATC
*
1546780 GCATTGCGA
1 GCAATGCGA
1546789 TTTTGTTGTT
Statistics
Matches: 69, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
34 34 0.49
36 3 0.04
37 5 0.07
38 3 0.04
40 24 0.35
ACGTcount: A:0.38, C:0.20, G:0.22, T:0.20
Consensus pattern (34 bp):
GCAATGCGAAAATGACTATCGCAATGAAAGAATC
Found at i:1546735 original size:54 final size:54
Alignment explanation
Indices: 1546649--1546751 Score: 179
Period size: 54 Copynumber: 1.9 Consensus size: 54
1546639 ATAGTTTACT
*
1546649 ATCGCAATGCGAAAATGACTATTGCAACGCGAAAATGACTATCGCAATGAGAGA
1 ATCGCAATGCGAAAATGACTATCGCAACGCGAAAATGACTATCGCAATGAGAGA
* *
1546703 ATCGCAATGCGAAAATGACTATCGTAATGCGAAAATGACTATCGCAATG
1 ATCGCAATGCGAAAATGACTATCGCAACGCGAAAATGACTATCGCAATG
1546752 CGAATTTGAC
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 46 1.00
ACGTcount: A:0.40, C:0.18, G:0.21, T:0.20
Consensus pattern (54 bp):
ATCGCAATGCGAAAATGACTATCGCAACGCGAAAATGACTATCGCAATGAGAGA
Found at i:1546767 original size:74 final size:74
Alignment explanation
Indices: 1546646--1546788 Score: 214
Period size: 74 Copynumber: 1.9 Consensus size: 74
1546636 AGAATAGTTT
* * *
1546646 ACTATCGCAATGCGAAAATGACTATTGCAACGCGAAAATGACTATCGCAATGAGAGAATCGCAAT
1 ACTATCGCAATGCGAAAATGACTATCGCAACGCGAAAATGACTATCGCAACGAAAGAATCGCAAT
1546711 GCGAAAATG
66 GCGAAAATG
* * ** *
1546720 ACTATCGTAATGCGAAAATGACTATCGCAATGCGAATTTGACTATCGCAACGAAAGAATCGCATT
1 ACTATCGCAATGCGAAAATGACTATCGCAACGCGAAAATGACTATCGCAACGAAAGAATCGCAAT
1546785 GCGA
66 GCGA
1546789 TTTTGTTGTT
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
74 61 1.00
ACGTcount: A:0.38, C:0.20, G:0.21, T:0.21
Consensus pattern (74 bp):
ACTATCGCAATGCGAAAATGACTATCGCAACGCGAAAATGACTATCGCAACGAAAGAATCGCAAT
GCGAAAATG
Found at i:1546820 original size:33 final size:34
Alignment explanation
Indices: 1546778--1546856 Score: 97
Period size: 33 Copynumber: 2.4 Consensus size: 34
1546768 AACGAAAGAA
* * * ** *
1546778 TCGCATTGCGATTTTGTTGTTGCGATTTTC-ATT
1 TCGCATTGCGATTCTCTCGTTGCGATAGTCAAAT
1546811 TCGCATTGCGATTCTCTCGTTGCGATAGTCAAAT
1 TCGCATTGCGATTCTCTCGTTGCGATAGTCAAAT
1546845 TCGCATTGCGAT
1 TCGCATTGCGAT
1546857 AGTCATTTTC
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
33 25 0.64
34 14 0.36
ACGTcount: A:0.16, C:0.20, G:0.22, T:0.42
Consensus pattern (34 bp):
TCGCATTGCGATTCTCTCGTTGCGATAGTCAAAT
Found at i:1546855 original size:20 final size:20
Alignment explanation
Indices: 1546830--1546895 Score: 105
Period size: 20 Copynumber: 3.3 Consensus size: 20
1546820 GATTCTCTCG
**
1546830 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCATTTTCGCA
1546850 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
1546870 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
1546890 TTGCGA
1 TTGCGA
1546896 ATTTAAGTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.36
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:1548853 original size:14 final size:14
Alignment explanation
Indices: 1548834--1548869 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
1548824 ATTGTTTAAT
1548834 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
1548848 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
1548862 TGATTTGT
1 TGATTTGT
1548870 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:1549031 original size:33 final size:34
Alignment explanation
Indices: 1548971--1549034 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 34
1548961 AAAACAGACT
** *
1548971 ATCGCAACGCGGAAATGACTATCGCAACGAGAGA
1 ATCGCAACGCGGAAATGAAAATAGCAACGAGAGA
*
1549005 ATCGCAATGC-GAAATGAAAATAGCAACGAG
1 ATCGCAACGCGGAAATGAAAATAGCAACGAG
1549035 TGACGCGTTG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
33 17 0.65
34 9 0.35
ACGTcount: A:0.42, C:0.20, G:0.25, T:0.12
Consensus pattern (34 bp):
ATCGCAACGCGGAAATGAAAATAGCAACGAGAGA
Found at i:1549103 original size:19 final size:19
Alignment explanation
Indices: 1549076--1549199 Score: 106
Period size: 19 Copynumber: 6.4 Consensus size: 19
1549066 AATTCACTCG
1549076 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
* *
1549095 TTGCAATTTTCATTTTGCA
1 TTGCGATTTTCATTTCGCA
*
1549114 TTGCGATTCTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
**
1549133 TTGCGATAGTCATTTC-CA
1 TTGCGATTTTCATTTCGCA
** *
1549151 CGTTGCGATAGTCATTTCCACA
1 --TTGCGATTTTCATTT-CGCA
** *
1549173 TTGCGATAGTCAATTCCGCA
1 TTGCGATTTTC-ATTTCGCA
1549193 TTGCGAT
1 TTGCGAT
1549200 AGTCATTTCC
Statistics
Matches: 91, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
18 2 0.02
19 47 0.52
20 36 0.40
21 4 0.04
22 2 0.02
ACGTcount: A:0.20, C:0.23, G:0.17, T:0.40
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:1549158 original size:20 final size:20
Alignment explanation
Indices: 1549133--1549236 Score: 138
Period size: 20 Copynumber: 5.2 Consensus size: 20
1549123 TCATTTCGCA
1549133 TTGCGATAGTCATTTCCACG
1 TTGCGATAGTCATTTCCACG
*
1549153 TTGCGATAGTCATTTCCACA
1 TTGCGATAGTCATTTCCACG
* * *
1549173 TTGCGATAGTCAATTCCGCA
1 TTGCGATAGTCATTTCCACG
**
1549193 TTGCGATAGTCATTTCCGTG
1 TTGCGATAGTCATTTCCACG
1549213 TTGCGATAGTCATATTCC-CG
1 TTGCGATAGTCAT-TTCCACG
1549233 TTGC
1 TTGC
1549237 AATTTCTGCA
Statistics
Matches: 76, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
20 72 0.95
21 4 0.05
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.36
Consensus pattern (20 bp):
TTGCGATAGTCATTTCCACG
Found at i:1549184 original size:40 final size:39
Alignment explanation
Indices: 1549074--1549236 Score: 150
Period size: 40 Copynumber: 4.2 Consensus size: 39
1549064 GCAATTCACT
** * ** **
1549074 CGTTGCGATTTTCATTT-CGCATTGCAATTTTCATTTTG
1 CGTTGCGATAGTCATTTCCGCATTGCGATAGTCATTTCC
* **
1549112 CATTGCGATTCTCATTT-CGCATTGCGATAGTCATTTCC
1 CGTTGCGATAGTCATTTCCGCATTGCGATAGTCATTTCC
* *
1549150 ACGTTGCGATAGTCATTTCCACATTGCGATAGTCAATTCC
1 -CGTTGCGATAGTCATTTCCGCATTGCGATAGTCATTTCC
* **
1549190 GCATTGCGATAGTCATTTCCGTGTTGCGATAGTCATATTCC
1 -CGTTGCGATAGTCATTTCCGCATTGCGATAGTCAT-TTCC
1549231 CGTTGC
1 CGTTGC
1549237 AATTTCTGCA
Statistics
Matches: 103, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
38 31 0.30
39 14 0.14
40 54 0.52
41 4 0.04
ACGTcount: A:0.19, C:0.23, G:0.18, T:0.39
Consensus pattern (39 bp):
CGTTGCGATAGTCATTTCCGCATTGCGATAGTCATTTCC
Found at i:1549197 original size:60 final size:60
Alignment explanation
Indices: 1549112--1549230 Score: 177
Period size: 60 Copynumber: 2.0 Consensus size: 60
1549102 TTTCATTTTG
* *
1549112 CATTGCGATTCTCATTTCGCATTGCGATAGTCATTTCCACGTTGCGATAGTCAT-TTCCA
1 CATTGCGATACTCATTCCGCATTGCGATAGTCATTTCCACGTTGCGATAGTCATATTCCA
* **
1549171 CATTGCGATAGTCAATTCCGCATTGCGATAGTCATTTCCGTGTTGCGATAGTCATATTCC
1 CATTGCGATACTC-ATTCCGCATTGCGATAGTCATTTCCACGTTGCGATAGTCATATTCC
1549231 CGTTGCAATT
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
59 11 0.21
60 38 0.72
61 4 0.08
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.36
Consensus pattern (60 bp):
CATTGCGATACTCATTCCGCATTGCGATAGTCATTTCCACGTTGCGATAGTCATATTCCA
Found at i:1551710 original size:24 final size:24
Alignment explanation
Indices: 1551643--1551702 Score: 93
Period size: 24 Copynumber: 2.5 Consensus size: 24
1551633 CTGAAAAATC
1551643 ATCAAAATTCGAGTATTGACCAAG
1 ATCAAAATTCGAGTATTGACCAAG
* *
1551667 ATCAAAGTCCGAGTATTGACCAAG
1 ATCAAAATTCGAGTATTGACCAAG
*
1551691 ATCAAATTTCGA
1 ATCAAAATTCGA
1551703 ATACTGACTA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.40, C:0.18, G:0.17, T:0.25
Consensus pattern (24 bp):
ATCAAAATTCGAGTATTGACCAAG
Found at i:1552572 original size:20 final size:20
Alignment explanation
Indices: 1552549--1552715 Score: 219
Period size: 20 Copynumber: 8.3 Consensus size: 20
1552539 CAGAATCTTG
*
1552549 TTGCAATTTACAG-ATTCGCA
1 TTGCGATTTAC-GTATTCGCA
*
1552569 TTGCGATTTACGTAATCGCA
1 TTGCGATTTACGTATTCGCA
1552589 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
*
1552609 TTGCGATTTACGTAATCGCA
1 TTGCGATTTACGTATTCGCA
* *
1552629 ATGCGATTTACGTACTCGCA
1 TTGCGATTTACGTATTCGCA
*
1552649 TTGCGATTTACGTAATCGCA
1 TTGCGATTTACGTATTCGCA
* ** *
1552669 TTGCGATTTTCCAAATTCGCG
1 TTGCGA-TTTACGTATTCGCA
1552690 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
1552710 TTGCGA
1 TTGCGA
1552716 ATTAGGAAAA
Statistics
Matches: 128, Mismatches: 17, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
19 1 0.01
20 112 0.88
21 15 0.12
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.36
Consensus pattern (20 bp):
TTGCGATTTACGTATTCGCA
Found at i:1552736 original size:21 final size:21
Alignment explanation
Indices: 1552712--1552757 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
1552702 TATTCGCATT
1552712 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
* * *
1552733 GCGAATTTGGGAAATCGCAAT
1 GCGAATTAGGAAAATCGCAAC
1552754 GCGA
1 GCGA
1552758 TAGTCAGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.17, G:0.28, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:1554784 original size:2 final size:2
Alignment explanation
Indices: 1554779--1554820 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
1554769 AGGTATAAAC
*
1554779 TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1554821 CATGTATATT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1567336 original size:11 final size:11
Alignment explanation
Indices: 1567320--1567344 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1567310 TGAATTTAAC
1567320 TTTTTTGTTTT
1 TTTTTTGTTTT
1567331 TTTTTTGTTTT
1 TTTTTTGTTTT
1567342 TTT
1 TTT
1567345 GTTTTTCCAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (11 bp):
TTTTTTGTTTT
Found at i:1567381 original size:12 final size:12
Alignment explanation
Indices: 1567366--1567410 Score: 58
Period size: 14 Copynumber: 3.8 Consensus size: 12
1567356 TTTTCTCAAG
1567366 TCTTTTTTGTTT
1 TCTTTTTTGTTT
1567378 TC--TTTTGTTT
1 TCTTTTTTGTTT
1567388 TCTCTATTTTGTTT
1 TCT-T-TTTTGTTT
1567402 TCTTTTTTG
1 TCTTTTTTG
1567411 ATCTGTTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
10 10 0.34
12 7 0.24
13 1 0.03
14 11 0.38
ACGTcount: A:0.02, C:0.11, G:0.09, T:0.78
Consensus pattern (12 bp):
TCTTTTTTGTTT
Found at i:1567421 original size:24 final size:24
Alignment explanation
Indices: 1567366--1567426 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
1567356 TTTTCTCAAG
*
1567366 TCTTTTTTGTTTTCTTTTGTTTTC
1 TCTTTTTTGTTTTCTTTTGTTATC
*
1567390 TCTATTTTGTTTTCTTTT-TTGATC
1 TCTTTTTTGTTTTCTTTTGTT-ATC
* *
1567414 TGTTTTTTTTTTT
1 TCTTTTTTGTTTT
1567427 TGAAGAAAAG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
23 2 0.06
24 29 0.94
ACGTcount: A:0.03, C:0.10, G:0.08, T:0.79
Consensus pattern (24 bp):
TCTTTTTTGTTTTCTTTTGTTATC
Found at i:1567710 original size:21 final size:21
Alignment explanation
Indices: 1567670--1567709 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
1567660 AGTGGTTATT
1567670 ATTTTAATAAAAACAATTTTA
1 ATTTTAATAAAAACAATTTTA
*
1567691 ATTTT-ATTAAAACAATTTT
1 ATTTTAATAAAAACAATTTT
1567710 TTTAGGTCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (21 bp):
ATTTTAATAAAAACAATTTTA
Found at i:1570627 original size:128 final size:128
Alignment explanation
Indices: 1570475--1570775 Score: 354
Period size: 128 Copynumber: 2.4 Consensus size: 128
1570465 GTGAAAGCTA
* * * * * *
1570475 AATCAGGGTTGACTTGCTTCACTGCTCTTCAAGAAGATAAAATCTGGAA-AA-AGGATCTATTTT
1 AATCAAGGTTGATTTGCTTCACTGCTCTTCAAGAAGATCAAATCT--AAGAACAGGACCTACTTC
* * * * * * *
1570538 ACTGCTCTTCAGGAATGATAGATCTGGAAACTTTGATTCACTTCGCTTCTCTTCAGGGAATGTTG
64 ACTACTCTTCAGGAAGGATACATCTGGAAACTTCGATTCACTTCGCTACTCTTCAAGGAAGGTTG
* * * * **
1570603 AATCGAGTTTGATTTGCTTTACTGCTCTTCAAAAAGATCAAATCTAAGAACTTGACCTACTTCAC
1 AATCAAGGTTGATTTGCTTCACTGCTCTTCAAGAAGATCAAATCTAAGAACAGGACCTACTTCAC
* *
1570668 TACTTTTCAGGAAGGTTACATCTGGAAACTTCGATTCACTTCGCTACTCTTCAAGGAAGGTTG
66 TACTCTTCAGGAAGGATACATCTGGAAACTTCGATTCACTTCGCTACTCTTCAAGGAAGGTTG
* * *
1570731 AATCAAGGTTGGTTTGCTTCACTGTTCTTCAGGAAGATCAAATCT
1 AATCAAGGTTGATTTGCTTCACTGCTCTTCAAGAAGATCAAATCT
1570776 TAAAATTAAA
Statistics
Matches: 143, Mismatches: 28, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
126 2 0.01
127 2 0.01
128 139 0.97
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (128 bp):
AATCAAGGTTGATTTGCTTCACTGCTCTTCAAGAAGATCAAATCTAAGAACAGGACCTACTTCAC
TACTCTTCAGGAAGGATACATCTGGAAACTTCGATTCACTTCGCTACTCTTCAAGGAAGGTTG
Found at i:1572092 original size:18 final size:18
Alignment explanation
Indices: 1572043--1572106 Score: 62
Period size: 17 Copynumber: 3.6 Consensus size: 18
1572033 CTTTTATTTA
*
1572043 TTTATTCTTTTTCATTTTCT
1 TTTA-TCTTTTCCATTTT-T
*
1572063 TTT-TC-ATTCCATTTCTT
1 TTTATCTTTTCCATTT-TT
1572080 TTTA-CTTTTCCATTTTT
1 TTTATCTTTTCCATTTTT
1572097 TTTATCTTTT
1 TTTATCTTTT
1572107 TTCTCTTTTC
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
17 18 0.49
18 16 0.43
20 3 0.08
ACGTcount: A:0.11, C:0.17, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTATCTTTTCCATTTTT
Found at i:1572098 original size:17 final size:19
Alignment explanation
Indices: 1572069--1572106 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
1572059 TTCTTTTTCA
1572069 TTCCATTTCTTTTTA-CTT
1 TTCCATTTCTTTTTATCTT
1572087 TTCCATTT-TTTTTATCTT
1 TTCCATTTCTTTTTATCTT
1572105 TT
1 TT
1572107 TTCTCTTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.11, C:0.18, G:0.00, T:0.71
Consensus pattern (19 bp):
TTCCATTTCTTTTTATCTT
Found at i:1586527 original size:14 final size:15
Alignment explanation
Indices: 1586508--1586536 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
1586498 CCCTATATTT
1586508 TGATGAAG-AAAACA
1 TGATGAAGCAAAACA
1586522 TGATGAAGCAAAACA
1 TGATGAAGCAAAACA
1586537 AACAGCTAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.55, C:0.10, G:0.21, T:0.14
Consensus pattern (15 bp):
TGATGAAGCAAAACA
Found at i:1586560 original size:21 final size:22
Alignment explanation
Indices: 1586536--1586576 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
1586526 GAAGCAAAAC
*
1586536 AAACAGCTAGAAGA-GAAATGG
1 AAACAACTAGAAGAGGAAATGG
1586557 AAACAACTAGAAGAGGAAAT
1 AAACAACTAGAAGAGGAAAT
1586577 TAGGGCTATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.56, C:0.10, G:0.24, T:0.10
Consensus pattern (22 bp):
AAACAACTAGAAGAGGAAATGG
Found at i:1588900 original size:6 final size:6
Alignment explanation
Indices: 1588889--1588913 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
1588879 TAGATTCTCC
1588889 TGTATA TGTATA TGTATA TGTATA T
1 TGTATA TGTATA TGTATA TGTATA T
1588914 ATATCTTCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (6 bp):
TGTATA
Found at i:1594507 original size:20 final size:20
Alignment explanation
Indices: 1594482--1594554 Score: 74
Period size: 20 Copynumber: 3.6 Consensus size: 20
1594472 TGTGTGTCTA
*
1594482 TATATATATATATTATTTTT
1 TATATATATATATTATTATT
* ** *
1594502 TATATATTTATATGGTTATG
1 TATATATATATATTATTATT
**
1594522 TATACGTATATATTATTATT
1 TATATATATATATTATTATT
*
1594542 TATATATTTATAT
1 TATATATATATAT
1594555 GGTTATGCTT
Statistics
Matches: 39, Mismatches: 14, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.34, C:0.01, G:0.05, T:0.59
Consensus pattern (20 bp):
TATATATATATATTATTATT
Found at i:1594586 original size:40 final size:40
Alignment explanation
Indices: 1594482--1594588 Score: 119
Period size: 40 Copynumber: 2.7 Consensus size: 40
1594472 TGTGTGTCTA
* * *
1594482 TATATATATATATTATTTTTTATATATTTATATGGTTATG
1 TATAAATATATATTATTATATATATATTTATATGGTTATG
** *
1594522 TATACGTATATATTATTATTTATATATTTATATGGTTATG
1 TATAAATATATATTATTATATATATATTTATATGGTTATG
*
1594562 CT-TAAATA-ATGTTATATATATATATAT
1 -TATAAATATATATTAT-TATATATATAT
1594589 ACGAAGGTAT
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
39 6 0.10
40 51 0.88
41 1 0.02
ACGTcount: A:0.36, C:0.02, G:0.07, T:0.55
Consensus pattern (40 bp):
TATAAATATATATTATTATATATATATTTATATGGTTATG
Found at i:1594644 original size:22 final size:20
Alignment explanation
Indices: 1594603--1594642 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
1594593 AGGTATGGGG
1594603 GCGTGTGTTTATATTATATA
1 GCGTGTGTTTATATTATATA
1594623 GCGTGTGTTTATATTATATA
1 GCGTGTGTTTATATTATATA
1594643 TATATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.05, G:0.20, T:0.50
Consensus pattern (20 bp):
GCGTGTGTTTATATTATATA
Found at i:1596464 original size:17 final size:17
Alignment explanation
Indices: 1596438--1596481 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
1596428 CATTTGGTGA
*
1596438 ATATTATTCAAAACATT
1 ATATTGTTCAAAACATT
1596455 ATATTGTTCAAAACATT
1 ATATTGTTCAAAACATT
1596472 ATATTGTTCA
1 ATATTGTTCA
1596482 CGAAATAACA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.41, C:0.11, G:0.05, T:0.43
Consensus pattern (17 bp):
ATATTGTTCAAAACATT
Found at i:1612708 original size:28 final size:27
Alignment explanation
Indices: 1612671--1612725 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
1612661 TTTGTTTTCT
1612671 AAATTAAATAACTTAATATA-AATACTAA
1 AAATTAAAT-A-TTAATATATAATACTAA
*
1612699 AAATTTAATATTAATATATTAATACTA
1 AAATTAAATATTAATATA-TAATACTA
1612726 TTATAATATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 8 0.33
27 1 0.04
28 15 0.62
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (27 bp):
AAATTAAATATTAATATATAATACTAA
Found at i:1613569 original size:19 final size:19
Alignment explanation
Indices: 1613545--1613583 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
1613535 TCTCTGTTGG
1613545 TTGGTTGTTGTTCTCTTGC
1 TTGGTTGTTGTTCTCTTGC
*
1613564 TTGGTTGTTTTTCTCTTGC
1 TTGGTTGTTGTTCTCTTGC
1613583 T
1 T
1613584 CATTGTTGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.00, C:0.15, G:0.23, T:0.62
Consensus pattern (19 bp):
TTGGTTGTTGTTCTCTTGC
Found at i:1614202 original size:17 final size:17
Alignment explanation
Indices: 1614180--1614212 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
1614170 TTTATTATGT
1614180 ATATAATAATAATATAA
1 ATATAATAATAATATAA
1614197 ATATAATAATAATATA
1 ATATAATAATAATATA
1614213 TAAATGTCAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
ATATAATAATAATATAA
Found at i:1616733 original size:13 final size:13
Alignment explanation
Indices: 1616717--1616745 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
1616707 TTTTCTTTCA
1616717 TTTTTTTC-AATT
1 TTTTTTTCAAATT
1616729 TTTTTTTCAAATT
1 TTTTTTTCAAATT
1616742 TTTT
1 TTTT
1616746 ACTAACCCGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTTTTCAAATT
Found at i:1616939 original size:2 final size:2
Alignment explanation
Indices: 1616927--1616966 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
1616917 AAGAAGGGAA
*
1616927 AT AT GT 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
1616967 GTATCAAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1618086 original size:17 final size:17
Alignment explanation
Indices: 1618064--1618186 Score: 93
Period size: 17 Copynumber: 7.1 Consensus size: 17
1618054 AATTAAGAGT
*
1618064 TAGTTTAATAAATGAAC
1 TAGTTTAATGAATGAAC
*
1618081 TAGTTTGATGAATGAAC
1 TAGTTTAATGAATGAAC
* *
1618098 TAGTTTAATTAATTAAC
1 TAGTTTAATGAATGAAC
* * *
1618115 TAACTTTATTCAATGAAC
1 T-AGTTTAATGAATGAAC
* * ** *
1618133 TTGTAATCTTGAATAAAC
1 TAGT-TTAATGAATGAAC
* *
1618151 TAATTTGATGAATGAAC
1 TAGTTTAATGAATGAAC
*
1618168 TAGTTTAATCAATGAAC
1 TAGTTTAATGAATGAAC
1618185 TA
1 TA
1618187 CTTTGTTAAA
Statistics
Matches: 80, Mismatches: 24, Indels: 4
0.74 0.22 0.04
Matches are distributed among these distances:
17 56 0.70
18 24 0.30
ACGTcount: A:0.41, C:0.09, G:0.12, T:0.38
Consensus pattern (17 bp):
TAGTTTAATGAATGAAC
Found at i:1622057 original size:17 final size:17
Alignment explanation
Indices: 1621936--1622058 Score: 79
Period size: 17 Copynumber: 7.1 Consensus size: 17
1621926 AATTAAGATT
*
1621936 TAGTTTAATAAATGAAC
1 TAGTTTAATCAATGAAC
* *
1621953 TAGTTTGATGAATGAAC
1 TAGTTTAATCAATGAAC
* *
1621970 TAGTTTAATTAATTAAC
1 TAGTTTAATCAATGAAC
** *
1621987 TAACATTATTCAATGAAC
1 T-AGTTTAATCAATGAAC
* *
1622005 T--TGTAATCTTGAATAAAC
1 TAGTTTAATC---AATGAAC
* *
1622023 TAGTTTGATGAATGAAC
1 TAGTTTAATCAATGAAC
*
1622040 TAGTTTAATCAATAAAC
1 TAGTTTAATCAATGAAC
1622057 TA
1 TA
1622059 CTTTGTTAAA
Statistics
Matches: 79, Mismatches: 21, Indels: 12
0.71 0.19 0.11
Matches are distributed among these distances:
15 4 0.05
17 52 0.66
18 19 0.24
20 4 0.05
ACGTcount: A:0.41, C:0.09, G:0.12, T:0.37
Consensus pattern (17 bp):
TAGTTTAATCAATGAAC
Found at i:1625736 original size:17 final size:17
Alignment explanation
Indices: 1625710--1625808 Score: 74
Period size: 17 Copynumber: 5.8 Consensus size: 17
1625700 TATTTTAATA
1625710 AATGAACTAGTTTGATG
1 AATGAACTAGTTTGATG
* * *
1625727 AATAAACTAGTTTAATT
1 AATGAACTAGTTTGATG
* * *
1625744 AATTAACTACTTT-ATTC
1 AATGAACTAGTTTGA-TG
* * **
1625761 AATGAACTTGTAATCTTG
1 AATGAACTAGT-TTGATG
1625779 AATGAACTAGTTTGATG
1 AATGAACTAGTTTGATG
*
1625796 AATTAACTAGTTT
1 AATGAACTAGTTT
1625809 TAATCAATGA
Statistics
Matches: 62, Mismatches: 17, Indels: 6
0.73 0.20 0.07
Matches are distributed among these distances:
16 1 0.02
17 49 0.79
18 12 0.19
ACGTcount: A:0.37, C:0.09, G:0.13, T:0.40
Consensus pattern (17 bp):
AATGAACTAGTTTGATG
Found at i:1629923 original size:21 final size:21
Alignment explanation
Indices: 1629899--1629957 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
1629889 TGATTTATTA
**
1629899 TTATGGATTTCATTTTTCTTG
1 TTATGGATTTCAAGTTTCTTG
* *
1629920 TTATGGATTTTAAGTTTGTTG
1 TTATGGATTTCAAGTTTCTTG
*
1629941 TTATGGATGTCAAGTTT
1 TTATGGATTTCAAGTTT
1629958 ATTGGAAAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.19, C:0.05, G:0.20, T:0.56
Consensus pattern (21 bp):
TTATGGATTTCAAGTTTCTTG
Found at i:1630157 original size:43 final size:43
Alignment explanation
Indices: 1630110--1630334 Score: 283
Period size: 43 Copynumber: 5.3 Consensus size: 43
1630100 ACCAGATCTT
* *
1630110 TTGCGGTGTTTGTGGGAAAAACGCCGCTAAATATCAAGACCTA
1 TTGCGGCGTTTGTGGGAAAAACGCCGCTAAATATCAACACCTA
*
1630153 TTGCGGCATTTGT-GGACAAAACGCCGCTAAATATCAACACCTA
1 TTGCGGCGTTTGTGGGA-AAAACGCCGCTAAATATCAACACCTA
* *
1630196 TTGCGGCGTTTGTGGAAAAAACGCCGCTAAATCTCAACACCTA
1 TTGCGGCGTTTGTGGGAAAAACGCCGCTAAATATCAACACCTA
* * * *
1630239 TTGCGGCATTTGTTGGAAAAA-GCCACCAAATATCAACACCTA
1 TTGCGGCGTTTGTGGGAAAAACGCCGCTAAATATCAACACCTA
* * * * ***
1630281 TTGCGGCGTTTGTTGGACAAATGCCGCTATATATCGTTACCTA
1 TTGCGGCGTTTGTGGGAAAAACGCCGCTAAATATCAACACCTA
1630324 TTGCGGCGTTT
1 TTGCGGCGTTT
1630335 TTTGTTACCA
Statistics
Matches: 159, Mismatches: 20, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
42 40 0.25
43 117 0.74
44 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (43 bp):
TTGCGGCGTTTGTGGGAAAAACGCCGCTAAATATCAACACCTA
Found at i:1630200 original size:86 final size:85
Alignment explanation
Indices: 1630110--1630330 Score: 300
Period size: 85 Copynumber: 2.6 Consensus size: 85
1630100 ACCAGATCTT
* *
1630110 TTGCGGTGTTTGTGGGAAAAACGCCGCTAAATATCAAGACCTATTGCGGCATTTG-TGGACAAAA
1 TTGCGGCGTTTGTGGGAAAAACGCCGCTAAATATCAACACCTATTGCGGCATTTGTTGGA-AAAA
* *
1630174 CGCCGCTAAATATCAACACCTA
65 -GCCACCAAATATCAACACCTA
* *
1630196 TTGCGGCGTTTGTGGAAAAAACGCCGCTAAATCTCAACACCTATTGCGGCATTTGTTGGAAAAAG
1 TTGCGGCGTTTGTGGGAAAAACGCCGCTAAATATCAACACCTATTGCGGCATTTGTTGGAAAAAG
1630261 CCACCAAATATCAACACCTA
66 CCACCAAATATCAACACCTA
* * * * ***
1630281 TTGCGGCGTTTGTTGGACAAATGCCGCTATATATCGTTACCTATTGCGGC
1 TTGCGGCGTTTGTGGGAAAAACGCCGCTAAATATCAACACCTATTGCGGC
1630331 GTTTTTTGTT
Statistics
Matches: 119, Mismatches: 15, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
85 60 0.50
86 55 0.46
87 4 0.03
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (85 bp):
TTGCGGCGTTTGTGGGAAAAACGCCGCTAAATATCAACACCTATTGCGGCATTTGTTGGAAAAAG
CCACCAAATATCAACACCTA
Found at i:1630968 original size:17 final size:17
Alignment explanation
Indices: 1630920--1630969 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
1630910 TAAGAGTTAT
*
1630920 TTTAATAAATGAACTAG
1 TTTAATAAATAAACTAG
* *
1630937 TTTGATGAATAAACTAG
1 TTTAATAAATAAACTAG
* *
1630954 TTTAATTAATTAACTA
1 TTTAATAAATAAACTA
1630970 ACTTTATTCA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.44, C:0.06, G:0.10, T:0.40
Consensus pattern (17 bp):
TTTAATAAATAAACTAG
Found at i:1634821 original size:17 final size:17
Alignment explanation
Indices: 1634799--1634841 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
1634789 AATTAAGAGT
1634799 TAGTTTAATAAATGAAC
1 TAGTTTAATAAATGAAC
* * *
1634816 TAGTTTGATGAATGAAT
1 TAGTTTAATAAATGAAC
1634833 TAGTTTAAT
1 TAGTTTAAT
1634842 TAATTAACTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.40, C:0.02, G:0.16, T:0.42
Consensus pattern (17 bp):
TAGTTTAATAAATGAAC
Found at i:1634895 original size:17 final size:17
Alignment explanation
Indices: 1634873--1634905 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1634863 CTTGTAATAT
*
1634873 TGAATGAACTAGTTTGA
1 TGAATGAACTACTTTGA
1634890 TGAATGAACTACTTTG
1 TGAATGAACTACTTTG
1634906 TTAAATTAAG
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:0.33, C:0.09, G:0.21, T:0.36
Consensus pattern (17 bp):
TGAATGAACTACTTTGA
Found at i:1639007 original size:2 final size:2
Alignment explanation
Indices: 1639000--1639035 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
1638990 TATCTTTCAA
1639000 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
1639036 CAAATGTATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1639846 original size:19 final size:20
Alignment explanation
Indices: 1639824--1639863 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
1639814 TTAGGTTCTA
1639824 TTTGA-TATTTTAAAAAAGT
1 TTTGAGTATTTTAAAAAAGT
*
1639843 TTTGAGTTTTTTTAAAAAAGT
1 TTTGAG-TATTTTAAAAAAGT
1639864 ATACTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
21 13 0.72
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTGAGTATTTTAAAAAAGT
Found at i:1642316 original size:20 final size:20
Alignment explanation
Indices: 1642291--1642328 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
1642281 TTTGGTTCAC
1642291 GGAATGTAAGATTACCAGTG
1 GGAATGTAAGATTACCAGTG
1642311 GGAATGTAAGATTACCAG
1 GGAATGTAAGATTACCAG
1642329 GGAATAGGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.11, G:0.29, T:0.24
Consensus pattern (20 bp):
GGAATGTAAGATTACCAGTG
Found at i:1648134 original size:796 final size:796
Alignment explanation
Indices: 1646602--1648199 Score: 3178
Period size: 796 Copynumber: 2.0 Consensus size: 796
1646592 ACTTGAATTT
1646602 GATGAAGGCTATTTTATAAAATTCAATACATGCTTAAATGTTTTGTTTGTATCTTGAAATCACCT
1 GATGAAGGCTATTTTATAAAATTCAATACATGCTTAAATGTTTTGTTTGTATCTTGAAATCACCT
1646667 TGGATGGTGATGGATTATATTGGACTATATGGGTTTCTCAAGGTAAAAATTGGAGAAAAATTCAA
66 TGGATGGTGATGGATTATATTGGACTATATGGGTTTCTCAAGGTAAAAATTGGAGAAAAATTCAA
*
1646732 GTGACTTATTGGTGATATTTGTTATCTTTCAAATATTATTTTGATGATTAAATTATTGGATTTAT
131 GTGACTTATTGGTGATATTTGTTATCTTTCAAAGATTATTTTGATGATTAAATTATTGGATTTAT
1646797 ACTTGAAATGTGAAATTTCTATGATTAGCCATTCAAGCATAAAAAATAAAAATAAGGGCTTAAGG
196 ACTTGAAATGTGAAATTTCTATGATTAGCCATTCAAGCATAAAAAATAAAAATAAGGGCTTAAGG
1646862 TGAAATTATGGTTTTAAAGGTGAATTCAAGTAATTAAGGTGGAAATGAAGTGCAGGAAACATTGT
261 TGAAATTATGGTTTTAAAGGTGAATTCAAGTAATTAAGGTGGAAATGAAGTGCAGGAAACATTGT
1646927 AATTAGAATGTTGTATTGGAATGAATATTATGAATATTTTCCTACATTATATGCACATGGTTTAG
326 AATTAGAATGTTGTATTGGAATGAATATTATGAATATTTTCCTACATTATATGCACATGGTTTAG
1646992 ATGGATTCTAACATGTGTTCTTGATTGTTTATGTTATGTATTTGATGTGTTTATAGACATCAATC
391 ATGGATTCTAACATGTGTTCTTGATTGTTTATGTTATGTATTTGATGTGTTTATAGACATCAATC
1647057 AAAATTGGGATCAAACTAGTGGCAAAGGAAAGGAAAATGTTGAGTTTAAAGCTTTGTGAGGCTTA
456 AAAATTGGGATCAAACTAGTGGCAAAGGAAAGGAAAATGTTGAGTTTAAAGCTTTGTGAGGCTTA
1647122 TATTTTGACTTATATAAAAAGCGTCAAGGTGAGTGCAATGCATACATAACATGATACATGAATGT
521 TATTTTGACTTATATAAAAAGCGTCAAGGTGAGTGCAATGCATACATAACATGATACATGAATGT
1647187 TTTATACATCATTATGAAGACTTGTGAAAAGTCTACCTTGTTTATATTGGCATGACATTTATGTT
586 TTTATACATCATTATGAAGACTTGTGAAAAGTCTACCTTGTTTATATTGGCATGACATTTATGTT
1647252 ATTGATCATATATTTTACATGTTCTAAATATGTCAAAAGTTAATATAGAATGCATTGATCACTAA
651 ATTGATCATATATTTTACATGTTCTAAATATGTCAAAAGTTAATATAGAATGCATTGATCACTAA
1647317 TTTATTTATGATGTTATATCATGAATGTTATTTTGGGTATGAAATGTCCAATGTTGAATTATGTT
716 TTTATTTATGATGTTATATCATGAATGTTATTTTGGGTATGAAATGTCCAATGTTGAATTATGTT
1647382 TATATACATCTCCATG
781 TATATACATCTCCATG
1647398 GATGAAGGCTATTTTATAAAATTCAATACATGCTTAAATGTTTTGTTTGTATCTTGAAATCACCT
1 GATGAAGGCTATTTTATAAAATTCAATACATGCTTAAATGTTTTGTTTGTATCTTGAAATCACCT
1647463 TGGATGGTGATGGATTATATTGGACTATATGGGTTTCTCAAGGTAAAAATTGGAGAAAAATTCAA
66 TGGATGGTGATGGATTATATTGGACTATATGGGTTTCTCAAGGTAAAAATTGGAGAAAAATTCAA
1647528 GTGACTTATTGGTGATATTTGTTATCTTTCAAAGATTATTTTGATGATTAAATTATTGGATTTAT
131 GTGACTTATTGGTGATATTTGTTATCTTTCAAAGATTATTTTGATGATTAAATTATTGGATTTAT
*
1647593 ACTTGAAATGTGAAATTTCTATGATTAGCCATTCAAGCATACAAAATAAAAATAAGGGCTTAAGG
196 ACTTGAAATGTGAAATTTCTATGATTAGCCATTCAAGCATAAAAAATAAAAATAAGGGCTTAAGG
1647658 TGAAATTATGGTTTTAAAGGTGAATTCAAGTAATTAAGGTGGAAATGAAGTGCAGGAAACATTGT
261 TGAAATTATGGTTTTAAAGGTGAATTCAAGTAATTAAGGTGGAAATGAAGTGCAGGAAACATTGT
1647723 AATTAGAATGTTGTATTGGAATGAATATTATGAATATTTTCCTACATTATATGCACATGGTTTAG
326 AATTAGAATGTTGTATTGGAATGAATATTATGAATATTTTCCTACATTATATGCACATGGTTTAG
1647788 ATGGATTCTAACATGTGTTCTTGATTGTTTATGTTATGTATTTGATGTGTTTATAGACATCAATC
391 ATGGATTCTAACATGTGTTCTTGATTGTTTATGTTATGTATTTGATGTGTTTATAGACATCAATC
1647853 AAAATTGGGATCAAACTAGTGGCAAAGGAAAGGAAAATGTTGAGTTTAAAGCTTTGTGAGGCTTA
456 AAAATTGGGATCAAACTAGTGGCAAAGGAAAGGAAAATGTTGAGTTTAAAGCTTTGTGAGGCTTA
1647918 TATTTTGACTTATATAAAAAGCGTCAAGGTGAGTGCAATGCATACATAACATGATACATGAATGT
521 TATTTTGACTTATATAAAAAGCGTCAAGGTGAGTGCAATGCATACATAACATGATACATGAATGT
1647983 TTTATACATCATTATGAAGACTTGTGAAAAGTCTACCTTGTTTATATTGGCATGACATTTATGTT
586 TTTATACATCATTATGAAGACTTGTGAAAAGTCTACCTTGTTTATATTGGCATGACATTTATGTT
1648048 ATTGATCATATATTTTACATGTTCTAAATATGTCAAAAGTTAATATAGAATGCATTGATCACTAA
651 ATTGATCATATATTTTACATGTTCTAAATATGTCAAAAGTTAATATAGAATGCATTGATCACTAA
1648113 TTTATTTATGATGTTATATCATGAATGTTATTTTGGGTATGAAATGTCCAATGTTGAATTATGTT
716 TTTATTTATGATGTTATATCATGAATGTTATTTTGGGTATGAAATGTCCAATGTTGAATTATGTT
1648178 TATATACATCTCCATG
781 TATATACATCTCCATG
1648194 GATGAA
1 GATGAA
1648200 ATAAATATAA
Statistics
Matches: 800, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
796 800 1.00
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.38
Consensus pattern (796 bp):
GATGAAGGCTATTTTATAAAATTCAATACATGCTTAAATGTTTTGTTTGTATCTTGAAATCACCT
TGGATGGTGATGGATTATATTGGACTATATGGGTTTCTCAAGGTAAAAATTGGAGAAAAATTCAA
GTGACTTATTGGTGATATTTGTTATCTTTCAAAGATTATTTTGATGATTAAATTATTGGATTTAT
ACTTGAAATGTGAAATTTCTATGATTAGCCATTCAAGCATAAAAAATAAAAATAAGGGCTTAAGG
TGAAATTATGGTTTTAAAGGTGAATTCAAGTAATTAAGGTGGAAATGAAGTGCAGGAAACATTGT
AATTAGAATGTTGTATTGGAATGAATATTATGAATATTTTCCTACATTATATGCACATGGTTTAG
ATGGATTCTAACATGTGTTCTTGATTGTTTATGTTATGTATTTGATGTGTTTATAGACATCAATC
AAAATTGGGATCAAACTAGTGGCAAAGGAAAGGAAAATGTTGAGTTTAAAGCTTTGTGAGGCTTA
TATTTTGACTTATATAAAAAGCGTCAAGGTGAGTGCAATGCATACATAACATGATACATGAATGT
TTTATACATCATTATGAAGACTTGTGAAAAGTCTACCTTGTTTATATTGGCATGACATTTATGTT
ATTGATCATATATTTTACATGTTCTAAATATGTCAAAAGTTAATATAGAATGCATTGATCACTAA
TTTATTTATGATGTTATATCATGAATGTTATTTTGGGTATGAAATGTCCAATGTTGAATTATGTT
TATATACATCTCCATG
Done.