Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008310.1 Hibiscus syriacus cultivar Beakdansim tig00111000_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: 3887810
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 12 of 15
Found at i:3063937 original size:105 final size:105
Alignment explanation
Indices: 3063753--3063942 Score: 258
Period size: 105 Copynumber: 1.8 Consensus size: 105
3063743 TTTTTTAAAA
* *
3063753 TATACGTTTTCAAAATCCTTTAAAAAACCATATATTATATGTTTTCAAAACCATTTCGAAAAACA
1 TATACGTTTTCAAAATCATTTAAAAAACCATATACTATATGTTTTCAAAACCATTTCGAAAAACA
*
3063818 TATTATATATGTTTTCAAAACCATTTTTAAAACTATACAC
66 TATTATATACGTTTTCAAAACCATTTTTAAAACTATACAC
* * * * * *
3063858 TATACGTTTTCAAAATTATTTTAAAAACTATATACTATATGTTTTCAAATCCGTTT-TAAAAAC-
1 TATACGTTTTCAAAATCATTTAAAAAACCATATACTATATGTTTTCAAAACCATTTCGAAAAACA
*
3063921 TATATATTATACGTTTTTAAAA
66 TAT-TA-TATACGTTTTCAAAA
3063943 ATAAGTTTCC
Statistics
Matches: 73, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
103 3 0.04
104 8 0.11
105 62 0.85
ACGTcount: A:0.41, C:0.14, G:0.04, T:0.41
Consensus pattern (105 bp):
TATACGTTTTCAAAATCATTTAAAAAACCATATACTATATGTTTTCAAAACCATTTCGAAAAACA
TATTATATACGTTTTCAAAACCATTTTTAAAACTATACAC
Found at i:3065769 original size:54 final size:51
Alignment explanation
Indices: 3065676--3065776 Score: 132
Period size: 54 Copynumber: 1.9 Consensus size: 51
3065666 CTTATTTTTC
*
3065676 TTTTTTTATTTTTTCAATTTAGAGCGCCATTTCGAGTTTTCACTCTAAATGT
1 TTTTTTTATTTTTTCAACTTAGAGCGCCATTTCGAGTTTTCAC-CTAAATGT
* *
3065728 TTTTTTCTTTTTTCTTCAACTTAGAGCGCCCTTTC-AGGTTTTCACCTAA
1 TTTTTT-TATTTT-TTCAACTTAGAGCGCCATTTCGA-GTTTTCACCTAA
3065777 GCGAAATATT
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
52 6 0.14
53 10 0.23
54 27 0.63
ACGTcount: A:0.19, C:0.20, G:0.11, T:0.50
Consensus pattern (51 bp):
TTTTTTTATTTTTTCAACTTAGAGCGCCATTTCGAGTTTTCACCTAAATGT
Found at i:3069421 original size:340 final size:340
Alignment explanation
Indices: 3068795--3069477 Score: 1321
Period size: 340 Copynumber: 2.0 Consensus size: 340
3068785 GTTCTTGTAA
3068795 CATTAACAGTAATTATTAGAACAATTCTAATATTACGTACAATGAGTGACATCTAGTAATATATC
1 CATTAACAGTAATTATTAGAACAATTCTAATATTACGTACAATGAGTGACATCTAGTAATATATC
3068860 ATTGCCACCTAAGGTACAAGAAAATATGATTCGACATATCATCTTGGCGATTAACTCTTTTATGT
66 ATTGCCACCTAAGGTACAAGAAAATATGATTCGACATATCATCTTGGCGATTAACTCTTTTATGT
3068925 ATTACATCCTATGTCTTTTATATATAGAATAGTCACACTTGTATAGCGCATCTATTGTTTCTTGA
131 ATTACATCCTATGTCTTTTATATATAGAATAGTCACACTTGTATAGCGCATCTATTGTTTCTTGA
3068990 TAAATAAAGTCGACTTTAATTAACAAATAGTTTGTGATATCTCATATGAACTTATTCGACCATGG
196 TAAATAAAGTCGACTTTAATTAACAAATAGTTTGTGATATCTCATATGAACTTATTCGACCATGG
*
3069055 CCATGTGTTTCTAGTCTCACTCAATCAAGTGGCCTGTGATATATTTCCTATTATATATGAAGGAC
261 CCATGTGTTTCTAGTCTCACTCAATCAAGTGGCCTGTGATATATTTCCTATTATATATGAAGAAC
3069120 AAATCATATCTTAAT
326 AAATCATATCTTAAT
*
3069135 CATTAGCAGTAATTATTAGAACAATTCTAATATTACGTACAATGAGTGACATCTAGTAATATATC
1 CATTAACAGTAATTATTAGAACAATTCTAATATTACGTACAATGAGTGACATCTAGTAATATATC
* *
3069200 ATTGTCACCTAAGTTACAAGAAAATATGATTCGACATATCATCTTGGCGATTAACTCTTTTATGT
66 ATTGCCACCTAAGGTACAAGAAAATATGATTCGACATATCATCTTGGCGATTAACTCTTTTATGT
3069265 ATTACATCCTATGTCTTTTATATATAGAATAGTCACACTTGTATAGCGCATCTATTGTTTCTTGA
131 ATTACATCCTATGTCTTTTATATATAGAATAGTCACACTTGTATAGCGCATCTATTGTTTCTTGA
3069330 TAAATAAAGTCGACTTTAATTAACAAATAGTTTGTGATATCTCATATGAACTTATTCGACCATGG
196 TAAATAAAGTCGACTTTAATTAACAAATAGTTTGTGATATCTCATATGAACTTATTCGACCATGG
3069395 CCATGTGTTTCTAGTCTCACTCAATCAAGTGGCCTGTGATATATTTCCTATTATATATGAAGAAC
261 CCATGTGTTTCTAGTCTCACTCAATCAAGTGGCCTGTGATATATTTCCTATTATATATGAAGAAC
*
3069460 AAATCCTATCTTAAT
326 AAATCATATCTTAAT
3069475 CAT
1 CAT
3069478 ACACACCCAC
Statistics
Matches: 338, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
340 338 1.00
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (340 bp):
CATTAACAGTAATTATTAGAACAATTCTAATATTACGTACAATGAGTGACATCTAGTAATATATC
ATTGCCACCTAAGGTACAAGAAAATATGATTCGACATATCATCTTGGCGATTAACTCTTTTATGT
ATTACATCCTATGTCTTTTATATATAGAATAGTCACACTTGTATAGCGCATCTATTGTTTCTTGA
TAAATAAAGTCGACTTTAATTAACAAATAGTTTGTGATATCTCATATGAACTTATTCGACCATGG
CCATGTGTTTCTAGTCTCACTCAATCAAGTGGCCTGTGATATATTTCCTATTATATATGAAGAAC
AAATCATATCTTAAT
Found at i:3074911 original size:2 final size:2
Alignment explanation
Indices: 3074899--3074936 Score: 67
Period size: 2 Copynumber: 18.5 Consensus size: 2
3074889 CAAAACAAAC
3074899 AT AT CAT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3074937 CACATTGTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 33 0.94
3 2 0.06
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:3081987 original size:35 final size:35
Alignment explanation
Indices: 3081942--3082041 Score: 139
Period size: 35 Copynumber: 2.9 Consensus size: 35
3081932 TATAGTTTTG
*
3081942 GAAAATATATAATATATAGTTTTTAAAAACAATTT
1 GAAAACATATAATATATAGTTTTTAAAAACAATTT
* *
3081977 GAAAACATATAGTATATAGTTTTTAAAATA-ATTTT
1 GAAAACATATAATATATAGTTTTTAAAA-ACAATTT
* *
3082012 GAAAACGTATAATATATAGTTTTTTAAAAC
1 GAAAACATATAATATATAGTTTTTAAAAAC
3082042 TTATAGTATA
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
34 1 0.02
35 55 0.96
36 1 0.02
ACGTcount: A:0.48, C:0.04, G:0.08, T:0.40
Consensus pattern (35 bp):
GAAAACATATAATATATAGTTTTTAAAAACAATTT
Found at i:3082040 original size:24 final size:24
Alignment explanation
Indices: 3082008--3082064 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 24
3081998 TTTAAAATAA
*
3082008 TTTTGAAAACGTATAATATATAGT
1 TTTTTAAAACGTATAATATATAGT
* *
3082032 TTTTTAAAACTTATAGTATATAGT
1 TTTTTAAAACGTATAATATATAGT
3082056 TTTTTAAAA
1 TTTTTAAAA
3082065 TAATTTTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.40, C:0.04, G:0.09, T:0.47
Consensus pattern (24 bp):
TTTTTAAAACGTATAATATATAGT
Found at i:3082041 original size:59 final size:56
Alignment explanation
Indices: 3081978--3082096 Score: 177
Period size: 59 Copynumber: 2.1 Consensus size: 56
3081968 AAACAATTTG
*
3081978 AAAACATATAGTATATAG-TTTTTAAAATAATTTTGAAAACGTATAATATATAGTTTTTT
1 AAAACATATAGTATATAGTTTTTTAAAATAATTTT-AAAACGCATAATA-A-AG-TTTTT
*
3082037 AAAACTTATAGTATATAGTTTTTTAAAATAATTTTAAAACGCATAATAAAGTTTTT
1 AAAACATATAGTATATAGTTTTTTAAAATAATTTTAAAACGCATAATAAAGTTTTT
3082093 AAAA
1 AAAA
3082097 TAATTTTGAA
Statistics
Matches: 57, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
56 9 0.16
57 2 0.04
58 1 0.02
59 29 0.51
60 16 0.28
ACGTcount: A:0.46, C:0.04, G:0.08, T:0.42
Consensus pattern (56 bp):
AAAACATATAGTATATAGTTTTTTAAAATAATTTTAAAACGCATAATAAAGTTTTT
Found at i:3082115 original size:92 final size:93
Alignment explanation
Indices: 3081929--3082133 Score: 279
Period size: 94 Copynumber: 2.2 Consensus size: 93
3081919 TAATAATTTC
** * *
3081929 ATATATAGTTTTGGAAAATATATAATATATAGTTTTTAAAAACAATTTGAAAACATATAGTATAT
1 ATATATAGTTTTTAAAAATATATAATATATAGTTTTTAAAAACAATTTGAAAACACATAG-ATAA
3081994 AGTTTTTAAAATAATTTTGAAAACGTATA
65 AGTTTTTAAAATAATTTTGAAAACGTATA
* * * * * *
3082023 ATATATAGTTTTTTAAAACT-TATAGTATATAGTTTTTTAAAATAATTTTAAAACGCATA-ATAA
1 ATATATAG-TTTTTAAAAATATATAATATATAGTTTTTAAAAACAATTTGAAAACACATAGATAA
*
3082086 AGTTTTTAAAATAATTTTGAAAATGTATA
65 AGTTTTTAAAATAATTTTGAAAACGTATA
3082115 ATATATAGTTTTTAAAAAT
1 ATATATAGTTTTTAAAAAT
3082134 GATTTTGAAA
Statistics
Matches: 98, Mismatches: 12, Indels: 5
0.85 0.10 0.04
Matches are distributed among these distances:
91 10 0.10
92 39 0.40
94 41 0.42
95 8 0.08
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.43
Consensus pattern (93 bp):
ATATATAGTTTTTAAAAATATATAATATATAGTTTTTAAAAACAATTTGAAAACACATAGATAAA
GTTTTTAAAATAATTTTGAAAACGTATA
Found at i:3082140 original size:36 final size:35
Alignment explanation
Indices: 3082032--3082161 Score: 160
Period size: 36 Copynumber: 3.8 Consensus size: 35
3082022 AATATATAGT
* * *
3082032 TTTTTAAAACTTATAGTATATAGTTTTTTAAAATAA
1 TTTTGAAAACGTATAATATATAG-TTTTTAAAATAA
*
3082068 TTTT-AAAACGCATAATA-A-AGTTTTTAAAATAA
1 TTTTGAAAACGTATAATATATAGTTTTTAAAATAA
* *
3082100 TTTTGAAAATGTATAATATATAGTTTTTAAAAATGA
1 TTTTGAAAACGTATAATATATAGTTTTT-AAAATAA
3082136 TTTTGAAAACGTATAATATATA-TTTT
1 TTTTGAAAACGTATAATATATAGTTTT
3082162 CTATTTTTAG
Statistics
Matches: 83, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
32 16 0.19
33 13 0.16
34 2 0.02
35 21 0.25
36 31 0.37
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.45
Consensus pattern (35 bp):
TTTTGAAAACGTATAATATATAGTTTTTAAAATAA
Found at i:3082200 original size:9 final size:9
Alignment explanation
Indices: 3082186--3082235 Score: 52
Period size: 9 Copynumber: 5.7 Consensus size: 9
3082176 ATATAGTTGG
3082186 TTATTTATT
1 TTATTTATT
3082195 TTATTT-TAT
1 TTATTTAT-T
3082204 TTATTTA-T
1 TTATTTATT
*
3082212 TTATTTCA-C
1 TTATTT-ATT
3082221 TTATTTATT
1 TTATTTATT
3082230 TTATTT
1 TTATTT
3082236 TACTATTTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
8 9 0.26
9 26 0.74
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (9 bp):
TTATTTATT
Found at i:3082237 original size:5 final size:4
Alignment explanation
Indices: 3082186--3082235 Score: 55
Period size: 4 Copynumber: 11.5 Consensus size: 4
3082176 ATATAGTTGG
*
3082186 TTAT TTATT TTATT TTAT TTAT TTAT TTAT TTCAC TTAT TTATT TTAT
1 TTAT TTA-T TTA-T TTAT TTAT TTAT TTAT TT-AT TTAT TTA-T TTAT
3082234 TT
1 TT
3082236 TACTATTTTA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
4 25 0.61
5 16 0.39
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (4 bp):
TTAT
Found at i:3082340 original size:31 final size:31
Alignment explanation
Indices: 3082302--3082375 Score: 121
Period size: 31 Copynumber: 2.4 Consensus size: 31
3082292 GGCCATACTA
* *
3082302 GCCTGACCCAGCACAACAAGCCTGGTAGGGG
1 GCCTGACCCAGCACAACAAGCATGGTAAGGG
3082333 GCCTGACCCAGCACAACAAGCATGGTAAGGG
1 GCCTGACCCAGCACAACAAGCATGGTAAGGG
*
3082364 GCCTAACCCAGC
1 GCCTGACCCAGC
3082376 CCAATCAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.28, C:0.34, G:0.28, T:0.09
Consensus pattern (31 bp):
GCCTGACCCAGCACAACAAGCATGGTAAGGG
Found at i:3083448 original size:18 final size:18
Alignment explanation
Indices: 3083427--3083479 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
3083417 CTCATTTAGC
3083427 ATTTTTCTTATATTTTTT
1 ATTTTTCTTATATTTTTT
* *
3083445 ATTTCTCTTAAATTTTTCT
1 ATTTTTCTTATATTTTT-T
*
3083464 -TTTTTATTAT-TTTTTT
1 ATTTTTCTTATATTTTTT
3083480 CTTCTCTTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
16 1 0.03
17 5 0.17
18 22 0.76
19 1 0.03
ACGTcount: A:0.17, C:0.08, G:0.00, T:0.75
Consensus pattern (18 bp):
ATTTTTCTTATATTTTTT
Found at i:3085600 original size:18 final size:17
Alignment explanation
Indices: 3085542--3085602 Score: 56
Period size: 18 Copynumber: 3.7 Consensus size: 17
3085532 GTTTTAATTA
*
3085542 ATAAAGTAAAACAAAAT
1 ATAAAGTAAAAGAAAAT
*
3085559 -TAAA-T-TAAGAAAAT
1 ATAAAGTAAAAGAAAAT
3085573 ATAAAGTAAAAGAAAACT
1 ATAAAGTAAAAGAAAA-T
* *
3085591 TTAAATTAAAAG
1 ATAAAGTAAAAG
3085603 GGTTTAATTG
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
14 7 0.20
15 5 0.14
16 5 0.14
17 7 0.20
18 11 0.31
ACGTcount: A:0.66, C:0.03, G:0.08, T:0.23
Consensus pattern (17 bp):
ATAAAGTAAAAGAAAAT
Found at i:3086779 original size:17 final size:17
Alignment explanation
Indices: 3086757--3086796 Score: 57
Period size: 16 Copynumber: 2.4 Consensus size: 17
3086747 TTGACCGAAA
3086757 AAATAAAATATAAAAAT-
1 AAATAAAAT-TAAAAATG
3086774 AAAT-AAATTAAAAATG
1 AAATAAAATTAAAAATG
3086790 AAATAAA
1 AAATAAA
3086797 TAAATAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 7 0.33
16 8 0.38
17 6 0.29
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.23
Consensus pattern (17 bp):
AAATAAAATTAAAAATG
Found at i:3086787 original size:16 final size:15
Alignment explanation
Indices: 3086754--3086806 Score: 56
Period size: 16 Copynumber: 3.6 Consensus size: 15
3086744 ACCTTGACCG
*
3086754 AAAAAATAAA-ATAT
1 AAAAAATAAATAAAT
3086768 -AAAAATAAATAAAT
1 AAAAAATAAATAAAT
*
3086782 TAAAAATGAAATAAAT
1 AAAAAAT-AAATAAAT
*
3086798 AAATAATAA
1 AAAAAATAA
3086807 TATGTAATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
13 9 0.27
14 3 0.09
15 8 0.24
16 13 0.39
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (15 bp):
AAAAAATAAATAAAT
Found at i:3086942 original size:35 final size:34
Alignment explanation
Indices: 3086865--3087047 Score: 147
Period size: 35 Copynumber: 5.3 Consensus size: 34
3086855 AAAACATTCA
* *
3086865 TTTTCAAAATCC--TTTAAAAACCATATATTATACG
1 TTTTCAAAA-CCATTTTAAAAA-TATATACTATACG
* *
3086899 TTTTCAAAACCATTTCGAAAAATATATTA-TATATG
1 TTTTCAAAACCATTT-TAAAAATATA-TACTATACG
* * *
3086934 TTTTCAAAACCATTTTTAAAACTATACATTATACG
1 TTTTCAAAACCA-TTTTAAAAATATATACTATACG
** * *
3086969 TTTTCAAAATTATTTTAAAAACTCTATACTATATG
1 TTTTCAAAACCATTTTAAAAA-TATATACTATACG
** *
3087004 TTTTCAAAACTGTTTTAAAAACTATATATTATACG
1 TTTTCAAAACCATTTTAAAAA-TATATACTATACG
*
3087039 TTTTAAAAA
1 TTTTCAAAA
3087048 ATAAGTTTTC
Statistics
Matches: 122, Mismatches: 20, Indels: 13
0.79 0.13 0.08
Matches are distributed among these distances:
33 2 0.02
34 18 0.15
35 92 0.75
36 10 0.08
ACGTcount: A:0.42, C:0.13, G:0.04, T:0.42
Consensus pattern (34 bp):
TTTTCAAAACCATTTTAAAAATATATACTATACG
Found at i:3086977 original size:70 final size:69
Alignment explanation
Indices: 3086865--3087047 Score: 219
Period size: 70 Copynumber: 2.6 Consensus size: 69
3086855 AAAACATTCA
*
3086865 TTTTCAAAATCC-TTTAAAAACCATATATTATACGTTTTCAAAACCATTTCGAAAAA-TATATTA
1 TTTTCAAAA-CCTTTTAAAAACTATATATTATACGTTTTCAAAACCATTT-GAAAAACTATA-TA
3086928 -TATATG
63 CTATATG
* * ** * *
3086934 TTTTCAAAACCATTTTTAAAACTATACATTATACGTTTTCAAAATTATTTTAAAAACTCTATACT
1 TTTTCAAAACC-TTTTAAAAACTATATATTATACGTTTTCAAAACCATTTGAAAAACTATATACT
3086999 ATATG
65 ATATG
* *
3087004 TTTTCAAAACTGTTTTAAAAACTATATATTATACGTTTTAAAAA
1 TTTTCAAAAC-CTTTTAAAAACTATATATTATACGTTTTCAAAA
3087048 ATAAGTTTTC
Statistics
Matches: 98, Mismatches: 11, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
68 2 0.02
69 16 0.16
70 80 0.82
ACGTcount: A:0.42, C:0.13, G:0.04, T:0.42
Consensus pattern (69 bp):
TTTTCAAAACCTTTTAAAAACTATATATTATACGTTTTCAAAACCATTTGAAAAACTATATACTA
TATG
Found at i:3087085 original size:38 final size:37
Alignment explanation
Indices: 3087015--3087086 Score: 108
Period size: 38 Copynumber: 1.9 Consensus size: 37
3087005 TTTCAAAACT
* *
3087015 GTTTTAAAAACTATATATTATACGTTTTAAAAAATAA
1 GTTTTAAAAACTATATATTATACATTTAAAAAAATAA
*
3087052 GTTTTCAAAAACTATATATTATATATTTAAAAAAA
1 GTTTT-AAAAACTATATATTATACATTTAAAAAAA
3087087 AACTATATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
37 5 0.16
38 26 0.84
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.40
Consensus pattern (37 bp):
GTTTTAAAAACTATATATTATACATTTAAAAAAATAA
Found at i:3087510 original size:13 final size:13
Alignment explanation
Indices: 3087492--3087517 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3087482 TAAACTCGTC
3087492 ATACTCACATAAT
1 ATACTCACATAAT
3087505 ATACTCACATAAT
1 ATACTCACATAAT
3087518 GAATTTACTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (13 bp):
ATACTCACATAAT
Found at i:3092792 original size:33 final size:33
Alignment explanation
Indices: 3092740--3092820 Score: 137
Period size: 33 Copynumber: 2.5 Consensus size: 33
3092730 TATTTTGTTT
*
3092740 GGGTCGGGTC-GGTTTTTTTAAGTGTGATATTC
1 GGGTCGGGTCGGGTTTTTTTAAGTGCGATATTC
*
3092772 GGGTCGAGTCGGGTTTTTTTAAGTGCGATATTC
1 GGGTCGGGTCGGGTTTTTTTAAGTGCGATATTC
3092805 GGGTCGGGTCGGGTTT
1 GGGTCGGGTCGGGTTT
3092821 GGGTTTAGGG
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
32 9 0.20
33 36 0.80
ACGTcount: A:0.11, C:0.11, G:0.38, T:0.40
Consensus pattern (33 bp):
GGGTCGGGTCGGGTTTTTTTAAGTGCGATATTC
Found at i:3093765 original size:2 final size:2
Alignment explanation
Indices: 3093760--3093810 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
3093750 TTATTCTTAT
3093760 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3093802 TA TA TA TA T
1 TA TA TA TA T
3093811 TCATTTGGCT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3093866 original size:20 final size:20
Alignment explanation
Indices: 3093843--3093882 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
3093833 TTCTATATTC
3093843 TATCGTTATTTATATATATA
1 TATCGTTATTTATATATATA
3093863 TATCGTTATTTATATATATA
1 TATCGTTATTTATATATATA
3093883 GATATATTTA
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:0.35, C:0.05, G:0.05, T:0.55
Consensus pattern (20 bp):
TATCGTTATTTATATATATA
Found at i:3093946 original size:16 final size:15
Alignment explanation
Indices: 3093909--3093982 Score: 60
Period size: 16 Copynumber: 4.7 Consensus size: 15
3093899 ATTCTTTTTC
*
3093909 ATATATCATTATTATTT
1 ATATAT-ATTTTTA-TT
3093926 ATATATATTTTTATT
1 ATATATATTTTTATT
* *
3093941 ACTATA-ATTATATGTT
1 A-TATATATT-TTTATT
3093957 ATATATATTTATTATT
1 ATATATATTT-TTATT
*
3093973 TTATATATTT
1 ATATATATTT
3093983 CATTTTATCT
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
15 11 0.23
16 30 0.64
17 6 0.13
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (15 bp):
ATATATATTTTTATT
Found at i:3094005 original size:15 final size:15
Alignment explanation
Indices: 3093985--3094016 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
3093975 ATATATTTCA
*
3093985 TTTTATCTTTTATTT
1 TTTTATCTTCTATTT
3094000 TTTTATCTTCTATTT
1 TTTTATCTTCTATTT
3094015 TT
1 TT
3094017 ATTTTTGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.12, C:0.09, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTATCTTCTATTT
Found at i:3094033 original size:20 final size:20
Alignment explanation
Indices: 3093986--3094039 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
3093976 TATATTTCAT
*
3093986 TTTATCTTTTATTTTTTTATC
1 TTTAT-TTTTATTTTTGTATC
3094007 TTCTATTTTTATTTTTGTAT-
1 TT-TATTTTTATTTTTGTATC
*
3094027 TGTTATTGTTATT
1 T-TTATTTTTATT
3094040 ATCTTCTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
20 10 0.34
21 16 0.55
22 3 0.10
ACGTcount: A:0.15, C:0.06, G:0.06, T:0.74
Consensus pattern (20 bp):
TTTATTTTTATTTTTGTATC
Found at i:3094083 original size:33 final size:32
Alignment explanation
Indices: 3094012--3094094 Score: 89
Period size: 32 Copynumber: 2.6 Consensus size: 32
3094002 TTATCTTCTA
*
3094012 TTTTTATTTTTGTATTGTTATTGTTATTATCT
1 TTTTTATTTTTGTATTGTTATTGTTATTATAT
*
3094044 TCTTTATTTTATGTATT-TTATT-TATATATATAT
1 TTTTTATTTT-TGTATTGTTATTGT-TAT-TATAT
* *
3094077 TTTTTATATTTGTTTTGT
1 TTTTTATTTTTGTATTGT
3094095 GCCTCTTTAT
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
31 1 0.02
32 22 0.52
33 19 0.45
ACGTcount: A:0.19, C:0.02, G:0.07, T:0.71
Consensus pattern (32 bp):
TTTTTATTTTTGTATTGTTATTGTTATTATAT
Found at i:3096859 original size:90 final size:89
Alignment explanation
Indices: 3096741--3096915 Score: 278
Period size: 90 Copynumber: 2.0 Consensus size: 89
3096731 TCCTGAATAT
* * * * *
3096741 TTAATTTCAATTAATTAAATATAGATTTAATTAATTTAAAATAATAAAATCCCTGATATGATTAG
1 TTAAATTCAATTAATTAAATATAAATTTAATTAATTTAAAATAATAAAAACCCTAATATGACTAG
3096806 GGTAACTTGGATATAAAAGGATTA
66 GGTAACTTGGATATAAAAGGATTA
*
3096830 TTAAATTCTAATTAATTAAATATAAATTTAATTAATTTGAAATAATAAAAACCCTAATATGACTA
1 TTAAATTC-AATTAATTAAATATAAATTTAATTAATTTAAAATAATAAAAACCCTAATATGACTA
*
3096895 GGGTAACTTGGCTATAAAAGG
65 GGGTAACTTGGATATAAAAGG
3096916 GTGTGTTAGG
Statistics
Matches: 78, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
89 7 0.09
90 71 0.91
ACGTcount: A:0.46, C:0.07, G:0.11, T:0.37
Consensus pattern (89 bp):
TTAAATTCAATTAATTAAATATAAATTTAATTAATTTAAAATAATAAAAACCCTAATATGACTAG
GGTAACTTGGATATAAAAGGATTA
Found at i:3107299 original size:110 final size:110
Alignment explanation
Indices: 3107101--3107307 Score: 333
Period size: 110 Copynumber: 1.9 Consensus size: 110
3107091 GCTTCCCAGT
* *
3107101 TTCAGAGTCAATTTCAACTTCACAGCGAGGGATATTGGACTCAAGACAACACAAGCTCAACTTCA
1 TTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGAACTCAAGACAACACAAGCTCAACTTCA
*
3107166 CAACGAAGGGGCGACTGATTGTCAACAAACAACTTTTCAGTTTCA
66 CAACGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCA
* * **
3107211 TTCAGAGTCAATTTCAACTTCACATCGAATGATATTGAACTTGAGACAACACAAGCTCAACTTCA
1 TTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGAACTCAAGACAACACAAGCTCAACTTCA
* *
3107276 CAGCGAAGGGGTGACTGACTGTCAACAAACAA
66 CAACGAAGGGGCGACTGACTGTCAACAAACAA
3107308 TTTCCAGAGC
Statistics
Matches: 88, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
110 88 1.00
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.23
Consensus pattern (110 bp):
TTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGAACTCAAGACAACACAAGCTCAACTTCA
CAACGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCA
Found at i:3108704 original size:2 final size:2
Alignment explanation
Indices: 3108697--3108748 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
3108687 ATTCTTATTT
3108697 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3108739 TA TA TA TA TA
1 TA TA TA TA TA
3108749 ATTATCTTCA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3108917 original size:14 final size:14
Alignment explanation
Indices: 3108900--3108965 Score: 57
Period size: 15 Copynumber: 4.6 Consensus size: 14
3108890 ATATATTTCA
3108900 TTTTATCTTTTATTT
1 TTTTATCTTTTA-TT
*
3108915 TTTTATCTTCTA-T
1 TTTTATCTTTTATT
3108928 TTTTAT-TTTTATT
1 TTTTATCTTTTATT
*
3108941 TTTGTAT-TGTTATT
1 TTT-TATCTTTTATT
3108955 GTTATTATCTT
1 -TT-TTATCTT
3108966 CTTTATTTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
12 4 0.10
13 11 0.26
14 9 0.21
15 16 0.38
16 2 0.05
ACGTcount: A:0.15, C:0.06, G:0.05, T:0.74
Consensus pattern (14 bp):
TTTTATCTTTTATT
Found at i:3108959 original size:26 final size:24
Alignment explanation
Indices: 3108863--3108960 Score: 70
Period size: 27 Copynumber: 3.7 Consensus size: 24
3108853 ATTACTATAA
* *
3108863 TTATATGTTATATATATTTATTATTT
1 TTATATTTTAT-TTTATTT-TTATTT
*
3108889 TATATATTTCATTTTATCTTTTATTT
1 T-TATATTTTATTTTAT-TTTTATTT
*
3108915 TTTTATCTTCTATTTTTATTTTTATTT
1 TTATAT-TT-TA-TTTTATTTTTATTT
*
3108942 TTGTATTGTTATTGTTATT
1 TTATATT-TTATT-TTATT
3108961 ATCTTCTTTA
Statistics
Matches: 59, Mismatches: 6, Indels: 14
0.75 0.08 0.18
Matches are distributed among these distances:
25 6 0.10
26 22 0.37
27 25 0.42
28 6 0.10
ACGTcount: A:0.21, C:0.04, G:0.04, T:0.70
Consensus pattern (24 bp):
TTATATTTTATTTTATTTTTATTT
Found at i:3108984 original size:14 final size:13
Alignment explanation
Indices: 3108883--3109009 Score: 50
Period size: 14 Copynumber: 9.2 Consensus size: 13
3108873 TATATATTTA
3108883 TTATTTTATATATT
1 TTATTTTAT-TATT
* *
3108897 TCATTTTA-TCTT
1 TTATTTTATTATT
*
3108909 TTATTTTTTTATCT
1 TTATTTTATTAT-T
3108923 TCTA-TTT-TTATTT
1 T-TATTTTATTA-TT
3108936 TTATTTT-TGTATT
1 TTATTTTAT-TATT
3108949 GTTATTGTTATTATCTTCT
1 -TTATT-TTATTA---T-T
3108968 TTATTTTATGTATT
1 TTATTTTAT-TATT
*
3108982 TTATTTATATATATA
1 TTATTT-TAT-TATT
3108997 TT-TTTTA-TATT
1 TTATTTTATTATT
3109008 TT
1 TT
3109010 TTTGTGCCTC
Statistics
Matches: 90, Mismatches: 8, Indels: 33
0.69 0.06 0.25
Matches are distributed among these distances:
11 5 0.06
12 11 0.12
13 15 0.17
14 30 0.33
15 15 0.17
16 1 0.01
17 4 0.04
18 8 0.09
19 1 0.01
ACGTcount: A:0.20, C:0.05, G:0.03, T:0.72
Consensus pattern (13 bp):
TTATTTTATTATT
Found at i:3109004 original size:33 final size:32
Alignment explanation
Indices: 3108933--3109009 Score: 86
Period size: 32 Copynumber: 2.3 Consensus size: 32
3108923 TCTATTTTTA
*
3108933 TTTTTATTTTTGTATTGTTATTGTTATTATCT
1 TTTTTATTTTTGTATTGTTATTGTTATTATAT
*
3108965 TCTTTATTTTATGTATT-TTATT-TATATATATAT
1 TTTTTATTTT-TGTATTGTTATTGT-TAT-TATAT
3108998 TTTTTATATTTT
1 TTTTTAT-TTTT
3109010 TTTGTGCCTC
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
31 1 0.03
32 17 0.45
33 17 0.45
34 3 0.08
ACGTcount: A:0.21, C:0.03, G:0.05, T:0.71
Consensus pattern (32 bp):
TTTTTATTTTTGTATTGTTATTGTTATTATAT
Found at i:3113102 original size:110 final size:110
Alignment explanation
Indices: 3112904--3113110 Score: 333
Period size: 110 Copynumber: 1.9 Consensus size: 110
3112894 GCTTCCCAGT
* *
3112904 TTCAGAGTCAATTTCAACTTCACAGCGAGGGATATTGGACTCAAGACAACACAAGCTCAACTTCA
1 TTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGAACTCAAGACAACACAAGCTCAACTTCA
*
3112969 CAACGAAGGGGCGACTGATTGTCAACAAACAACTTTTCAGTTTCA
66 CAACGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCA
* * **
3113014 TTCAGAGTCAATTTCAACTTCACATCGAATGATATTGAACTTGAGACAACACAAGCTCAACTTCA
1 TTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGAACTCAAGACAACACAAGCTCAACTTCA
* *
3113079 CAGCGAAGGGGTGACTGACTGTCAACAAACAA
66 CAACGAAGGGGCGACTGACTGTCAACAAACAA
3113111 TTTCCAGAGC
Statistics
Matches: 88, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
110 88 1.00
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.23
Consensus pattern (110 bp):
TTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGAACTCAAGACAACACAAGCTCAACTTCA
CAACGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCA
Found at i:3114515 original size:2 final size:2
Alignment explanation
Indices: 3114510--3114548 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
3114500 ATTCTTATTT
3114510 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3114549 TAATTATCTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3114671 original size:16 final size:15
Alignment explanation
Indices: 3114634--3114707 Score: 60
Period size: 16 Copynumber: 4.7 Consensus size: 15
3114624 ATTCTATTTC
*
3114634 ATATATCATTATTATTT
1 ATATAT-ATTTTTA-TT
3114651 ATATATATTTTTATT
1 ATATATATTTTTATT
* *
3114666 ACTATA-ATTATATGTT
1 A-TATATATT-TTTATT
3114682 ATATATATTTATTATT
1 ATATATATTT-TTATT
*
3114698 TTATATATTT
1 ATATATATTT
3114708 CATTTTATCT
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
15 11 0.23
16 30 0.64
17 6 0.13
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (15 bp):
ATATATATTTTTATT
Found at i:3114674 original size:48 final size:48
Alignment explanation
Indices: 3114597--3114707 Score: 129
Period size: 48 Copynumber: 2.3 Consensus size: 48
3114587 TATTCTATCG
* * * *
3114597 TTATTTATATATATATATATAATTTTAATTCTAT-TTCATATATCA-TTA
1 TTATTTATATATATTTATATAACTATAATTATATGTT-ATATAT-ATTTA
* *
3114645 TTATTTATATATATTTTTATTACTATAATTATATGTTATATATATTTA
1 TTATTTATATATATTTATATAACTATAATTATATGTTATATATATTTA
3114693 TTATTT-TATATATTT
1 TTATTTATATATATTT
3114708 CATTTTATCT
Statistics
Matches: 55, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
47 10 0.18
48 43 0.78
49 2 0.04
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.60
Consensus pattern (48 bp):
TTATTTATATATATTTATATAACTATAATTATATGTTATATATATTTA
Found at i:3114727 original size:14 final size:14
Alignment explanation
Indices: 3114710--3114775 Score: 57
Period size: 15 Copynumber: 4.6 Consensus size: 14
3114700 ATATATTTCA
3114710 TTTTATCTTTTATTT
1 TTTTATCTTTTA-TT
*
3114725 TTTTATCTTCTA-T
1 TTTTATCTTTTATT
3114738 TTTTAT-TTTTATT
1 TTTTATCTTTTATT
*
3114751 TTTGTAT-TGTTATT
1 TTT-TATCTTTTATT
3114765 GTTATTATCTT
1 -TT-TTATCTT
3114776 CTTTATTTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
12 4 0.10
13 11 0.26
14 9 0.21
15 16 0.38
16 2 0.05
ACGTcount: A:0.15, C:0.06, G:0.05, T:0.74
Consensus pattern (14 bp):
TTTTATCTTTTATT
Found at i:3114769 original size:26 final size:24
Alignment explanation
Indices: 3114673--3114770 Score: 70
Period size: 27 Copynumber: 3.7 Consensus size: 24
3114663 ATTACTATAA
* *
3114673 TTATATGTTATATATATTTATTATTT
1 TTATATTTTAT-TTTATTT-TTATTT
*
3114699 TATATATTTCATTTTATCTTTTATTT
1 T-TATATTTTATTTTAT-TTTTATTT
*
3114725 TTTTATCTTCTATTTTTATTTTTATTT
1 TTATAT-TT-TA-TTTTATTTTTATTT
*
3114752 TTGTATTGTTATTGTTATT
1 TTATATT-TTATT-TTATT
3114771 ATCTTCTTTA
Statistics
Matches: 59, Mismatches: 6, Indels: 14
0.75 0.08 0.18
Matches are distributed among these distances:
25 6 0.10
26 22 0.37
27 25 0.42
28 6 0.10
ACGTcount: A:0.21, C:0.04, G:0.04, T:0.70
Consensus pattern (24 bp):
TTATATTTTATTTTATTTTTATTT
Found at i:3114794 original size:14 final size:13
Alignment explanation
Indices: 3114693--3114823 Score: 51
Period size: 14 Copynumber: 9.5 Consensus size: 13
3114683 TATATATTTA
3114693 TTATTTTATATATT
1 TTATTTTAT-TATT
* *
3114707 TCATTTTA-TCTT
1 TTATTTTATTATT
*
3114719 TTATTTTTTTATCT
1 TTATTTTATTAT-T
3114733 TCTA-TTT-TTATTT
1 T-TATTTTATTA-TT
3114746 TTATTTT-TGTATT
1 TTATTTTAT-TATT
3114759 GTTATTGTTATTATCTTCT
1 -TTATT-TTATTA---T-T
3114778 TTATTTTATGTATT
1 TTATTTTAT-TATT
*
3114792 TTATTTATATATATA
1 TTATTT-TAT-TATT
3114807 TT-TTTTA-TATT
1 TTATTTTATTATT
3114818 TT-TTTT
1 TTATTTT
3114824 GTGCCTCTTT
Statistics
Matches: 94, Mismatches: 8, Indels: 33
0.70 0.06 0.24
Matches are distributed among these distances:
11 9 0.10
12 11 0.12
13 15 0.16
14 30 0.32
15 15 0.16
16 1 0.01
17 4 0.04
18 8 0.09
19 1 0.01
ACGTcount: A:0.20, C:0.05, G:0.03, T:0.73
Consensus pattern (13 bp):
TTATTTTATTATT
Found at i:3114814 original size:33 final size:32
Alignment explanation
Indices: 3114743--3114819 Score: 86
Period size: 32 Copynumber: 2.3 Consensus size: 32
3114733 TCTATTTTTA
*
3114743 TTTTTATTTTTGTATTGTTATTGTTATTATCT
1 TTTTTATTTTTGTATTGTTATTGTTATTATAT
*
3114775 TCTTTATTTTATGTATT-TTATT-TATATATATAT
1 TTTTTATTTT-TGTATTGTTATTGT-TAT-TATAT
3114808 TTTTTATATTTT
1 TTTTTAT-TTTT
3114820 TTTTGTGCCT
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
31 1 0.03
32 17 0.45
33 17 0.45
34 3 0.08
ACGTcount: A:0.21, C:0.03, G:0.05, T:0.71
Consensus pattern (32 bp):
TTTTTATTTTTGTATTGTTATTGTTATTATAT
Found at i:3119651 original size:15 final size:15
Alignment explanation
Indices: 3119631--3119661 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
3119621 TTTCAAATGA
3119631 TTTAATCTTAATATT
1 TTTAATCTTAATATT
3119646 TTTAATCTTAATATT
1 TTTAATCTTAATATT
3119661 T
1 T
3119662 AAGTTATTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.61
Consensus pattern (15 bp):
TTTAATCTTAATATT
Found at i:3123886 original size:19 final size:20
Alignment explanation
Indices: 3123840--3123899 Score: 68
Period size: 19 Copynumber: 2.9 Consensus size: 20
3123830 TTCCCCTGTG
3123840 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTT-CCC-TC-AA
3123863 GGGGGAATCGGTTCCCTC-A
1 GGGGGAATCGGTTCCCTCAA
* *
3123882 GGGGGGATCGATTCCCTC
1 GGGGGAATCGGTTCCCTC
3123900 TGCACCAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 17 0.49
21 2 0.06
22 3 0.09
23 13 0.37
ACGTcount: A:0.17, C:0.27, G:0.35, T:0.22
Consensus pattern (20 bp):
GGGGGAATCGGTTCCCTCAA
Found at i:3142863 original size:16 final size:18
Alignment explanation
Indices: 3142830--3142867 Score: 62
Period size: 16 Copynumber: 2.2 Consensus size: 18
3142820 ATATATATTA
3142830 TTATCTTTATCAAATAAT
1 TTATCTTTATCAAATAAT
3142848 TTATCTTT-TC-AATAAT
1 TTATCTTTATCAAATAAT
3142864 TTAT
1 TTAT
3142868 ATATTTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 10 0.50
17 2 0.10
18 8 0.40
ACGTcount: A:0.34, C:0.11, G:0.00, T:0.55
Consensus pattern (18 bp):
TTATCTTTATCAAATAAT
Found at i:3147311 original size:31 final size:31
Alignment explanation
Indices: 3147245--3147324 Score: 88
Period size: 31 Copynumber: 2.6 Consensus size: 31
3147235 ATGATGGTGA
* * * *
3147245 AATGATTATTTTGTTATAAATTGACAACGTT
1 AATGATTAATTTGTTACAAATTGACAACATC
* *
3147276 AATGATTAATTTGTTACAAATTGATAATATC
1 AATGATTAATTTGTTACAAATTGACAACATC
* *
3147307 AATGATCAATTTATTACA
1 AATGATTAATTTGTTACA
3147325 TTTGAAATTT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.42
Consensus pattern (31 bp):
AATGATTAATTTGTTACAAATTGACAACATC
Found at i:3148601 original size:16 final size:16
Alignment explanation
Indices: 3148570--3148626 Score: 55
Period size: 16 Copynumber: 3.6 Consensus size: 16
3148560 TAAATGATTC
* *
3148570 GACTTGTTATTGACCT
1 GACTTGATATTTACCT
3148586 GA-TCTGATATTTACCT
1 GACT-TGATATTTACCT
*
3148602 GACTTGACATTTACCT
1 GACTTGATATTTACCT
*
3148618 AACTT-ATAT
1 GACTTGATAT
3148627 ATTATTATAC
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
15 4 0.12
16 29 0.85
17 1 0.03
ACGTcount: A:0.26, C:0.19, G:0.12, T:0.42
Consensus pattern (16 bp):
GACTTGATATTTACCT
Found at i:3148694 original size:15 final size:17
Alignment explanation
Indices: 3148662--3148698 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
3148652 TTTACGTAAC
3148662 TATATTCATAAATCTTA
1 TATATTCATAAATCTTA
*
3148679 TATATT-ATATAT-TTA
1 TATATTCATAAATCTTA
3148694 TATAT
1 TATAT
3148699 AAAAATTACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 8 0.42
16 5 0.26
17 6 0.32
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (17 bp):
TATATTCATAAATCTTA
Found at i:3148743 original size:2 final size:2
Alignment explanation
Indices: 3148736--3148762 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3148726 ACATGTAAAC
3148736 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
3148763 TTGTCTTTGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3149184 original size:25 final size:24
Alignment explanation
Indices: 3149156--3149249 Score: 147
Period size: 25 Copynumber: 3.9 Consensus size: 24
3149146 TTAAATAATA
3149156 ATTGCATGTTATTAATTCATGTGG
1 ATTGCATGTTATTAATTCATGTGG
3149180 TATTGCATGTTATTAATTCATGTGG
1 -ATTGCATGTTATTAATTCATGTGG
*
3149205 --TGCATGTTATTAATTCATGTTGC
1 ATTGCATGTTATTAATTCATG-TGG
3149228 ATTGCATGTTATTAATTCATGT
1 ATTGCATGTTATTAATTCATGT
3149250 TACATTAGGT
Statistics
Matches: 65, Mismatches: 1, Indels: 7
0.89 0.01 0.10
Matches are distributed among these distances:
22 19 0.29
23 2 0.03
24 1 0.02
25 43 0.66
ACGTcount: A:0.24, C:0.10, G:0.18, T:0.48
Consensus pattern (24 bp):
ATTGCATGTTATTAATTCATGTGG
Found at i:3149215 original size:47 final size:47
Alignment explanation
Indices: 3149158--3149249 Score: 166
Period size: 47 Copynumber: 2.0 Consensus size: 47
3149148 AAATAATAAT
*
3149158 TGCATGTTATTAATTCATGTGGTATTGCATGTTATTAATTCATGTGG
1 TGCATGTTATTAATTCATGTGGCATTGCATGTTATTAATTCATGTGG
*
3149205 TGCATGTTATTAATTCATGTTGCATTGCATGTTATTAATTCATGT
1 TGCATGTTATTAATTCATGTGGCATTGCATGTTATTAATTCATGT
3149250 TACATTAGGT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.24, C:0.10, G:0.18, T:0.48
Consensus pattern (47 bp):
TGCATGTTATTAATTCATGTGGCATTGCATGTTATTAATTCATGTGG
Found at i:3149824 original size:8 final size:8
Alignment explanation
Indices: 3149813--3150009 Score: 319
Period size: 8 Copynumber: 25.0 Consensus size: 8
3149803 CCCATGCTGC
*
3149813 CATACATA
1 CATACATG
*
3149821 CATACATA
1 CATACATG
3149829 CATACATG
1 CATACATG
3149837 CATACATG
1 CATACATG
3149845 CATACATG
1 CATACATG
3149853 CATACATG
1 CATACATG
3149861 CATACATG
1 CATACATG
3149869 CATACATG
1 CATACATG
3149877 CATACATG
1 CATACATG
3149885 CATACATG
1 CATACATG
3149893 CATACATG
1 CATACATG
3149901 CATACATG
1 CATACATG
*
3149909 TATACATG
1 CATACATG
3149917 CATACATG
1 CATACATG
3149925 CATACATG
1 CATACATG
3149933 CATACATG
1 CATACATG
3149941 CAT--ATG
1 CATACATG
3149947 CATACATG
1 CATACATG
*
3149955 CATGCATG
1 CATACATG
3149963 CATACATG
1 CATACATG
**
3149971 CAT-GTTG
1 CATACATG
3149978 CATACATG
1 CATACATG
3149986 CATACATG
1 CATACATG
3149994 CATACATG
1 CATACATG
3150002 CATACATG
1 CATACATG
3150010 AATTTAATAT
Statistics
Matches: 177, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
6 6 0.03
7 5 0.03
8 166 0.94
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.26
Consensus pattern (8 bp):
CATACATG
Found at i:3150342 original size:4 final size:4
Alignment explanation
Indices: 3150298--3150432 Score: 218
Period size: 4 Copynumber: 34.0 Consensus size: 4
3150288 CATCAGGATG
* * * * *
3150298 CATA CATG CATA CATG CATG CATG CATA CATG CATA C-TA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
3150345 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
3150393 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
3150433 GTTGGATGCC
Statistics
Matches: 124, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
3 3 0.02
4 121 0.98
ACGTcount: A:0.46, C:0.25, G:0.04, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:3152378 original size:4 final size:4
Alignment explanation
Indices: 3152369--3152483 Score: 230
Period size: 4 Copynumber: 28.8 Consensus size: 4
3152359 CTTCCATACT
3152369 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
3152417 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
3152465 TGTA TGTA TGTA TGTA TGT
1 TGTA TGTA TGTA TGTA TGT
3152484 TATATTTGCA
Statistics
Matches: 111, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 111 1.00
ACGTcount: A:0.24, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TGTA
Found at i:3155091 original size:31 final size:34
Alignment explanation
Indices: 3155033--3155116 Score: 111
Period size: 33 Copynumber: 2.5 Consensus size: 34
3155023 AAAAATCAGT
*
3155033 TTTTGAAAATATATAGTATGGTTTTG-AAA-ATATG
1 TTTTGAAAACATATA-TA-GGTTTTGAAAATATATG
*
3155067 TTTTGAAAACATATATA-GTTTTGAAAATATATT
1 TTTTGAAAACATATATAGGTTTTGAAAATATATG
3155100 TTTTGAAAACATATATA
1 TTTTGAAAACATATATA
3155117 TAGTTTTTTA
Statistics
Matches: 46, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
31 6 0.13
32 3 0.07
33 23 0.50
34 14 0.30
ACGTcount: A:0.42, C:0.02, G:0.12, T:0.44
Consensus pattern (34 bp):
TTTTGAAAACATATATAGGTTTTGAAAATATATG
Found at i:3155115 original size:17 final size:17
Alignment explanation
Indices: 3155062--3155115 Score: 76
Period size: 17 Copynumber: 3.2 Consensus size: 17
3155052 GGTTTTGAAA
3155062 ATATGTTTTGAAAACAT
1 ATATGTTTTGAAAACAT
3155079 ATATAGTTTTG-AAA-AT
1 ATAT-GTTTTGAAAACAT
*
3155095 ATATTTTTTGAAAACAT
1 ATATGTTTTGAAAACAT
3155112 ATAT
1 ATAT
3155116 ATAGTTTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
15 5 0.15
16 9 0.27
17 13 0.39
18 6 0.18
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.44
Consensus pattern (17 bp):
ATATGTTTTGAAAACAT
Found at i:3155202 original size:20 final size:20
Alignment explanation
Indices: 3155177--3155216 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
3155167 TGAAAACATA
3155177 ATATTATATAGT-TTTATTAT
1 ATATTA-ATAGTATTTATTAT
*
3155197 ATATTAATATTATTTATTAT
1 ATATTAATAGTATTTATTAT
3155217 TTTTTTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (20 bp):
ATATTAATAGTATTTATTAT
Found at i:3155224 original size:21 final size:20
Alignment explanation
Indices: 3155200--3155240 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
3155190 TTATTATATA
*
3155200 TTAATATTATTTATTATTTTT
1 TTAATATTATTT-TTAGTTTT
*
3155221 TTAATTTTATTTTTAGTTTT
1 TTAATATTATTTTTAGTTTT
3155241 CCATGTCCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (20 bp):
TTAATATTATTTTTAGTTTT
Found at i:3156345 original size:5 final size:5
Alignment explanation
Indices: 3156332--3156388 Score: 80
Period size: 5 Copynumber: 11.6 Consensus size: 5
3156322 CTCCTTGCAG
* * *
3156332 ATTTC ATTTA ATTTA ATTTC ATTT- TTTTA ATTTA ATTTA ATTTA ATTTA
1 ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA
3156381 ATTTA ATT
1 ATTTA ATT
3156389 ATTTTTAATT
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
4 3 0.06
5 44 0.94
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (5 bp):
ATTTA
Found at i:3156395 original size:15 final size:15
Alignment explanation
Indices: 3156343--3156399 Score: 53
Period size: 15 Copynumber: 3.5 Consensus size: 15
3156333 TTTCATTTAA
*
3156343 TTTAATTTCATT-TT
1 TTTAATTTAATTATT
3156357 TTTAATTTAATTTAATTT
1 TTTAATTTAA-TT-A-TT
3156375 AATTTAATTTAATTATT
1 --TTTAATTTAATTATT
3156392 TTTAATTT
1 TTTAATTT
3156400 TCTTTTATTT
Statistics
Matches: 36, Mismatches: 1, Indels: 11
0.75 0.02 0.23
Matches are distributed among these distances:
14 9 0.25
15 10 0.28
17 2 0.06
18 3 0.08
19 2 0.06
20 10 0.28
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTAATTTAATTATT
Found at i:3156453 original size:30 final size:28
Alignment explanation
Indices: 3156361--3156466 Score: 90
Period size: 30 Copynumber: 3.7 Consensus size: 28
3156351 CATTTTTTTA
** * *
3156361 ATTTAATTTAATTTAATTTAATTTAATT
1 ATTTAATTTTCTTTTATTTATTTTAATT
* *
3156389 ATTTTTAATTTTCTTTTATTTCTTTTATTT
1 A--TTTAATTTTCTTTTATTTATTTTAATT
*
3156419 ATTTAATATTTCTTTTCTTTTATTTTAATT
1 ATTTAAT-TTTCTTTT-ATTTATTTTAATT
*
3156449 ATTT-ATTTAC-TTTATTTA
1 ATTTAATTTTCTTTTATTTA
3156467 AACCCTAATA
Statistics
Matches: 63, Mismatches: 11, Indels: 10
0.75 0.13 0.12
Matches are distributed among these distances:
26 4 0.06
27 3 0.05
28 10 0.16
29 10 0.16
30 36 0.57
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (28 bp):
ATTTAATTTTCTTTTATTTATTTTAATT
Found at i:3156462 original size:22 final size:21
Alignment explanation
Indices: 3156412--3156465 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 21
3156402 TTTTATTTCT
*
3156412 TTTA-TTTA-TTTAATATTTC
1 TTTACTTTATTTTAATATTTA
*
3156431 TTTTCTTTTATTTTAATTATTTA
1 TTTAC-TTTATTTTAA-TATTTA
3156454 TTTACTTTATTT
1 TTTACTTTATTT
3156466 AAACCCTAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
19 3 0.11
21 4 0.14
22 12 0.43
23 9 0.32
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.72
Consensus pattern (21 bp):
TTTACTTTATTTTAATATTTA
Found at i:3156973 original size:21 final size:22
Alignment explanation
Indices: 3156925--3156972 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
3156915 TTAAGTTTAA
*
3156925 ATTTTAATTTATCTTTTCGATC
1 ATTTTTATTTATCTTTTCGATC
*
3156947 ATTTTTATTTA-CTTTT-GATT
1 ATTTTTATTTATCTTTTCGATC
3156967 ATTTTT
1 ATTTTT
3156973 TTCAAATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 9 0.38
21 5 0.21
22 10 0.42
ACGTcount: A:0.21, C:0.08, G:0.04, T:0.67
Consensus pattern (22 bp):
ATTTTTATTTATCTTTTCGATC
Found at i:3162667 original size:5 final size:5
Alignment explanation
Indices: 3162650--3162682 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
3162640 AAAAAACAAA
*
3162650 AAAAG AAGA- AAAAG AAAAG AAAAG AAAAG AAAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
3162683 AGACCCATAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
4 3 0.12
5 22 0.88
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:3162677 original size:15 final size:14
Alignment explanation
Indices: 3162640--3162682 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
3162630 GTGCTGCAAC
*
3162640 AAAAAACAAAAAAAG
1 AAAAAA-AAGAAAAG
*
3162655 AAGAAAAAGAAAAG
1 AAAAAAAAGAAAAG
3162669 AAAAGAAAAGAAAA
1 AAAA-AAAAGAAAA
3162683 AGACCCATAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 10 0.42
15 14 0.58
ACGTcount: A:0.84, C:0.02, G:0.14, T:0.00
Consensus pattern (14 bp):
AAAAAAAAGAAAAG
Found at i:3166618 original size:19 final size:18
Alignment explanation
Indices: 3166589--3166638 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 18
3166579 GTGCTGCAAC
* *
3166589 AAAAAGCAAAAGAAAGAAGA
1 AAAAAG-AAAA-AAACAAAA
3166609 AAAAAGAAAAAAACAAAA
1 AAAAAGAAAAAAACAAAA
3166627 AGAAAAGAAAAA
1 A-AAAAGAAAAA
3166639 GACCCCTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 7 0.26
19 14 0.52
20 6 0.22
ACGTcount: A:0.82, C:0.04, G:0.14, T:0.00
Consensus pattern (18 bp):
AAAAAGAAAAAAACAAAA
Found at i:3167550 original size:202 final size:203
Alignment explanation
Indices: 3167199--3167582 Score: 689
Period size: 202 Copynumber: 1.9 Consensus size: 203
3167189 TTATTTTATA
3167199 TCACTAACCATGTCACAAGAATTGATTGATTTCCATACAGCTTCAAGACAAGTTCTTGTCATTAA
1 TCACTAACCATGTCACAAGAATTGATTGATTTCCATACAGCTTCAAGACAAGTTCTTGTCATTAA
*
3167264 AAAGGCTTTAAGCACTCAAATCATAGAAGATGATCAAAGAGAAAACATCTTCCATACTCATTGTC
66 AAAGGATTTAAGCACTCAAATCATAGAAGATGATCAAAGAGAAAACATCTTCCATACTCATTGTC
* *
3167329 ATGTAAACAACAAAGTTTGTTTCATGATCATCGATGGAGGAAGTTGTACGAACGTTTTTAAGCAT
131 ATGTAAACAACAAAGTTTGTTTCATGATAATCGATGGAGGAAATTGTACGAACGTTTTTAAGCAT
3167394 CATCCATG
196 CATCCATG
*
3167402 TCAC-AACCATGTCACAAGAATTGCTTGATTTCCATACAGCTTCAAGACAAGTTCTTGTCATTAA
1 TCACTAACCATGTCACAAGAATTGATTGATTTCCATACAGCTTCAAGACAAGTTCTTGTCATTAA
* ** *
3167466 AAAGGATTTAAGCACTCAAATCATAGATGATGATCAAAGAGAAAACATCTTCCATACTTGTTTTC
66 AAAGGATTTAAGCACTCAAATCATAGAAGATGATCAAAGAGAAAACATCTTCCATACTCATTGTC
3167531 ATGTAAACAACAAAGTTTGTTTCATGATAATCGATGGAGGAAATTGTACGAA
131 ATGTAAACAACAAAGTTTGTTTCATGATAATCGATGGAGGAAATTGTACGAA
3167583 TGTTGCAAGA
Statistics
Matches: 173, Mismatches: 8, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
202 169 0.98
203 4 0.02
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.30
Consensus pattern (203 bp):
TCACTAACCATGTCACAAGAATTGATTGATTTCCATACAGCTTCAAGACAAGTTCTTGTCATTAA
AAAGGATTTAAGCACTCAAATCATAGAAGATGATCAAAGAGAAAACATCTTCCATACTCATTGTC
ATGTAAACAACAAAGTTTGTTTCATGATAATCGATGGAGGAAATTGTACGAACGTTTTTAAGCAT
CATCCATG
Found at i:3168390 original size:17 final size:18
Alignment explanation
Indices: 3168350--3168395 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
3168340 ATTATTTCTA
*
3168350 AACCATTCTCTCATACCTT
1 AACCATT-TCTCATACCAT
*
3168369 TACCATTTCT-ATACCAT
1 AACCATTTCTCATACCAT
3168386 AACCATTTCT
1 AACCATTTCT
3168396 TTTTAAGCCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 15 0.62
18 3 0.12
19 6 0.25
ACGTcount: A:0.28, C:0.33, G:0.00, T:0.39
Consensus pattern (18 bp):
AACCATTTCTCATACCAT
Found at i:3169124 original size:202 final size:201
Alignment explanation
Indices: 3168649--3169436 Score: 1346
Period size: 201 Copynumber: 3.9 Consensus size: 201
3168639 ATATCACTAT
* *
3168649 CCATGTCACAAGAATTGATTGATTTCCATACAGCTTCAAGACAAGTTCTTGTCATTAAAAAGGCT
1 CCATGTCACAAGAATTGCTTGATTTCCATACAACTTCAAGACAAGTTCTTGTCATTAAAAAGGCT
*
3168714 TTAAGCACTCAAATCATAGAAGATGATCAAAGAGAAAACATATTCCATACTCGTTGTCATGTAAA
66 TTAAGCACTCAAATCATAGAAGATGATCAAAGAGAAAACATCTTCCATACTCGTTGTCATGTAAA
* *
3168779 CAACAAAGTTTGTTTCATGATCATCGATGGAGGAAGTTATATGAACGTTGCAAGCATCTTCCATG
131 CAACAAAGTTTGTTTCATGATCATCGATGGAGGAAGTTGTACGAACGTTGCAAGCATCTTCCATG
3168844 TCACAA
196 TCACAA
3168850 CCATGTCACAAGAATTGCTTGATTTCCATA-AAGCTTCAAGACAAGTTCTTGTCATTAAAAAGGC
1 CCATGTCACAAGAATTGCTTGATTTCCATACAA-CTTCAAGACAAGTTCTTGTCATTAAAAAGGC
3168914 TTTAAGCACT-ACAATCATAGAAGATGATCAAAGAGAAAACATCTTCCATACTCGTTGTCATGTA
65 TTTAAGCACTCA-AATCATAGAAGATGATCAAAGAGAAAACATCTTCCATACTCGTTGTCATGTA
* * * **
3168978 AACAACAAAGTTTGTTTCATGATCATCGATTGAGGAAGCTGTACAAACGTGTTTAAGCATCTTCC
129 AACAACAAAGTTTGTTTCATGATCATCGATGGAGGAAGTTGTACGAACGT-TGCAAGCATCTTCC
3169043 ATGTCACAA
193 ATGTCACAA
3169052 CCATGTCACAAGAATTGCTTGATTTCCATACAACTTCAAGACAAGTTCTTGTCATTAAAAAGGCT
1 CCATGTCACAAGAATTGCTTGATTTCCATACAACTTCAAGACAAGTTCTTGTCATTAAAAAGGCT
* *
3169117 TTAAGCACTCAAATCATAGAAGATGATCAAAGAGAAAACATCTTCCATACTTGTTTTCATGTAAA
66 TTAAGCACTCAAATCATAGAAGATGATCAAAGAGAAAACATCTTCCATACTCGTTGTCATGTAAA
3169182 CAACAAAGTTTGTTTCATGATCATCGATGGAGGAAGTTGTACGAACGTTGCAAGCATCTTCCATG
131 CAACAAAGTTTGTTTCATGATCATCGATGGAGGAAGTTGTACGAACGTTGCAAGCATCTTCCATG
3169247 TCACAA
196 TCACAA
* *
3169253 CCATGTCACAAGAATTGCTTGATTTCCATACAGCTTCAAGACAAGTTCTTGTCATTAAAAAGGAT
1 CCATGTCACAAGAATTGCTTGATTTCCATACAACTTCAAGACAAGTTCTTGTCATTAAAAAGGCT
* * *
3169318 TTAAGCACTCAAATCATAGATGATGATCAAAGAGAAAACATCTTCCATACTTGTTTTCATGTAAA
66 TTAAGCACTCAAATCATAGAAGATGATCAAAGAGAAAACATCTTCCATACTCGTTGTCATGTAAA
* * * *
3169383 CAAAAAATTTTGTTTCATGATAATCGATGGAGGAAGTTGTACGAATGTTGCAAG
131 CAACAAAGTTTGTTTCATGATCATCGATGGAGGAAGTTGTACGAACGTTGCAAG
3169437 AATCAGGTCT
Statistics
Matches: 558, Mismatches: 24, Indels: 10
0.94 0.04 0.02
Matches are distributed among these distances:
200 2 0.00
201 364 0.65
202 189 0.34
203 3 0.01
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (201 bp):
CCATGTCACAAGAATTGCTTGATTTCCATACAACTTCAAGACAAGTTCTTGTCATTAAAAAGGCT
TTAAGCACTCAAATCATAGAAGATGATCAAAGAGAAAACATCTTCCATACTCGTTGTCATGTAAA
CAACAAAGTTTGTTTCATGATCATCGATGGAGGAAGTTGTACGAACGTTGCAAGCATCTTCCATG
TCACAA
Found at i:3169397 original size:403 final size:403
Alignment explanation
Indices: 3168649--3169424 Score: 1383
Period size: 403 Copynumber: 1.9 Consensus size: 403
3168639 ATATCACTAT
*
3168649 CCATGTCACAAGAATTGATTGATTTCCATACAGCTTCAAGACAAGTTCTTGTCATTAAAAAGGCT
1 CCATGTCACAAGAATTGATTGATTTCCATACAACTTCAAGACAAGTTCTTGTCATTAAAAAGGCT
3168714 TTAAGCACTCAAATCATAGAAGATGATCAAAGAGAAAACATATTCCATACTCGTTGTCATGTAAA
66 TTAAGCACTCAAATCATAGAAGATGATCAAAGAGAAAACATATTCCATACTCGTTGTCATGTAAA
*
3168779 CAACAAAGTTTGTTTCATGATCATCGATGGAGGAAGTTATATGAACGTTGCAAGCATCTTCCATG
131 CAACAAAGTTTGTTTCATGATCATCGATGGAGGAAGTTATACGAACGTTGCAAGCATCTTCCATG
3168844 TCACAACCATGTCACAAGAATTGCTTGATTTCCATAAAGCTTCAAGACAAGTTCTTGTCATTAAA
196 TCACAACCATGTCACAAGAATTGCTTGATTTCCATAAAGCTTCAAGACAAGTTCTTGTCATTAAA
*
3168909 AAGGCTTTAAGCACTACAATCATAGAAGATGATCAAAGAGAAAACATCTTCCATACTCGTTGTCA
261 AAGGATTTAAGCACTACAATCATAGAAGATGATCAAAGAGAAAACATCTTCCATACTCGTTGTCA
* * *
3168974 TGTAAACAACAAAGTTTGTTTCATGATCATCGATTGAGGAAGCTGTACAAACGTGTTTAAGCATC
326 TGTAAACAAAAAAGTTTGTTTCATGATAATCGATGGAGGAAGCTGTACAAACGTGTTTAAGCATC
3169039 TTCCATGTCACAA
391 TTCCATGTCACAA
*
3169052 CCATGTCACAAGAATTGCTTGATTTCCATACAACTTCAAGACAAGTTCTTGTCATTAAAAAGGCT
1 CCATGTCACAAGAATTGATTGATTTCCATACAACTTCAAGACAAGTTCTTGTCATTAAAAAGGCT
* * *
3169117 TTAAGCACTCAAATCATAGAAGATGATCAAAGAGAAAACATCTTCCATACTTGTTTTCATGTAAA
66 TTAAGCACTCAAATCATAGAAGATGATCAAAGAGAAAACATATTCCATACTCGTTGTCATGTAAA
*
3169182 CAACAAAGTTTGTTTCATGATCATCGATGGAGGAAGTTGTACGAACGTTGCAAGCATCTTCCATG
131 CAACAAAGTTTGTTTCATGATCATCGATGGAGGAAGTTATACGAACGTTGCAAGCATCTTCCATG
*
3169247 TCACAACCATGTCACAAGAATTGCTTGATTTCCATACAGCTTCAAGACAAGTTCTTGTCATTAAA
196 TCACAACCATGTCACAAGAATTGCTTGATTTCCATAAAGCTTCAAGACAAGTTCTTGTCATTAAA
* * *
3169312 AAGGATTTAAGCACT-CAAATCATAGATGATGATCAAAGAGAAAACATCTTCCATACTTGTTTTC
261 AAGGATTTAAGCACTAC-AATCATAGAAGATGATCAAAGAGAAAACATCTTCCATACTCGTTGTC
* *
3169376 ATGTAAACAAAAAATTTTGTTTCATGATAATCGATGGAGGAAGTTGTAC
325 ATGTAAACAAAAAAGTTTGTTTCATGATAATCGATGGAGGAAGCTGTAC
3169425 GAATGTTGCA
Statistics
Matches: 355, Mismatches: 17, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
402 1 0.00
403 354 1.00
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (403 bp):
CCATGTCACAAGAATTGATTGATTTCCATACAACTTCAAGACAAGTTCTTGTCATTAAAAAGGCT
TTAAGCACTCAAATCATAGAAGATGATCAAAGAGAAAACATATTCCATACTCGTTGTCATGTAAA
CAACAAAGTTTGTTTCATGATCATCGATGGAGGAAGTTATACGAACGTTGCAAGCATCTTCCATG
TCACAACCATGTCACAAGAATTGCTTGATTTCCATAAAGCTTCAAGACAAGTTCTTGTCATTAAA
AAGGATTTAAGCACTACAATCATAGAAGATGATCAAAGAGAAAACATCTTCCATACTCGTTGTCA
TGTAAACAAAAAAGTTTGTTTCATGATAATCGATGGAGGAAGCTGTACAAACGTGTTTAAGCATC
TTCCATGTCACAA
Found at i:3169716 original size:6 final size:6
Alignment explanation
Indices: 3169697--3169735 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
3169687 CTTTCATTAC
*
3169697 TTTCCA TTTTCA TTTCCA TTTCCA TTTCCA TTTCC- TTTC
1 TTTCCA TTTCCA TTTCCA TTTCCA TTTCCA TTTCCA TTTC
3169736 TTAATTATCA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
5 4 0.13
6 27 0.87
ACGTcount: A:0.13, C:0.31, G:0.00, T:0.56
Consensus pattern (6 bp):
TTTCCA
Found at i:3170886 original size:201 final size:202
Alignment explanation
Indices: 3170536--3170927 Score: 696
Period size: 201 Copynumber: 1.9 Consensus size: 202
3170526 TTTTTTTATA
*
3170536 TCACTAACCATGTCACAAGAATTGATTGATTTCCATACAGCTTCAAGACAAGTTCTTTTCATTAA
1 TCACTAACCATGTCACAAGAATTGATTGATTTCCATACAGCTTCAAGACAAGTTCTTGTCATTAA
*
3170601 AAAGGCTTTAAGCACTCAAATCATAGAAGATGATCAAAGAGAAAACATATTCCATACTCGTTGTC
66 AAAGGCTTTAAGCACTCAAATCATAGAAGATGATCAAAGAGAAAACATATTACATACTCGTTGTC
*
3170666 ATGTAAACAACAAAGTTTGTTTCATGATCATCGATGGAGGAAGTTATACGAACGTTGCAAGCATC
131 ATGTAAACAACAAAGTTTGTTTCATGATAATCGATGGAGGAAGTTATACGAACGTTGCAAGCATC
3170731 TTCCATG
196 TTCCATG
*
3170738 TCAC-AACCATGTCACAAGAATTGCTTGATTTCCATACAGCTTCAAGACAAGTTCTTGTCATTAA
1 TCACTAACCATGTCACAAGAATTGATTGATTTCCATACAGCTTCAAGACAAGTTCTTGTCATTAA
* *
3170802 AAAGGCTTTAAGCACTCAAATCATAGAAGATGATCAAAGAGAAAACATCTTATATACTCGTTGTC
66 AAAGGCTTTAAGCACTCAAATCATAGAAGATGATCAAAGAGAAAACATATTACATACTCGTTGTC
* * *
3170867 ATGTAAATAACAAAGTTTGTTTCATGATAATCGATGGAGGAAGTTGTACGAATGTTGCAAG
131 ATGTAAACAACAAAGTTTGTTTCATGATAATCGATGGAGGAAGTTATACGAACGTTGCAAG
3170928 AATCAGGTCT
Statistics
Matches: 181, Mismatches: 9, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
201 177 0.98
202 4 0.02
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (202 bp):
TCACTAACCATGTCACAAGAATTGATTGATTTCCATACAGCTTCAAGACAAGTTCTTGTCATTAA
AAAGGCTTTAAGCACTCAAATCATAGAAGATGATCAAAGAGAAAACATATTACATACTCGTTGTC
ATGTAAACAACAAAGTTTGTTTCATGATAATCGATGGAGGAAGTTATACGAACGTTGCAAGCATC
TTCCATG
Found at i:3173820 original size:201 final size:201
Alignment explanation
Indices: 3173463--3173825 Score: 618
Period size: 201 Copynumber: 1.8 Consensus size: 201
3173453 CTAACCTTGC
* * **
3173463 CACAAGAATTGATTGATTTCCATACAGCTTTAAGGCAAGTTCTTGTCATTAAAAAGGCTTTAAGC
1 CACAAGAATTGATTGATTTCCATACAGCTTCAAGACAAGTTCTTGTCATTAAAAAGGCTTTAAAA
*
3173528 ACTCAAATCATAGAAGATGATCAAAGAGAAAACATATTCCATACTCGTTGTCATTTAAACAACAA
66 ACTCAAATCATAGAAGATGATCAAAGAGAAAACATATTCCATACTCGTTGTCATGTAAACAACAA
*
3173593 AGTTTGTTTCATGATCATCGATGGAGGAAGTTTTATGAACGTTGCAAGCATCTTCCATGTCACAA
131 AGTTTGTTTCATGATAATCGATGGAGGAAGTTTTATGAACGTTGCAAGCATCTTCCATGTCACAA
3173658 CCATGT
196 CCATGT
* * *
3173664 CACAATAATTGCTTGATTTCCATACAGCTTCAAGATAAGTTCTTGTCATTAAAAAGGCTTTAAAA
1 CACAAGAATTGATTGATTTCCATACAGCTTCAAGACAAGTTCTTGTCATTAAAAAGGCTTTAAAA
* * *
3173729 ACTCAAATCATAGAAGATGATCAAAGAGAAAAGATCTTCTATACTCGTTGTCATGTAAACAACAA
66 ACTCAAATCATAGAAGATGATCAAAGAGAAAACATATTCCATACTCGTTGTCATGTAAACAACAA
3173794 AGTTTGTTTCATGATAATCGATGGAGGAAGTT
131 AGTTTGTTTCATGATAATCGATGGAGGAAGTT
3173826 GTGCGAATGT
Statistics
Matches: 150, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
201 150 1.00
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.31
Consensus pattern (201 bp):
CACAAGAATTGATTGATTTCCATACAGCTTCAAGACAAGTTCTTGTCATTAAAAAGGCTTTAAAA
ACTCAAATCATAGAAGATGATCAAAGAGAAAACATATTCCATACTCGTTGTCATGTAAACAACAA
AGTTTGTTTCATGATAATCGATGGAGGAAGTTTTATGAACGTTGCAAGCATCTTCCATGTCACAA
CCATGT
Found at i:3175248 original size:203 final size:202
Alignment explanation
Indices: 3174896--3175289 Score: 673
Period size: 203 Copynumber: 1.9 Consensus size: 202
3174886 TTATTTTATA
*
3174896 TCACTAACCATGTCACAAGAATTGATTGATTTCCATACAACTTCAAGACAAGTTCTTGTCATTAA
1 TCACTAACCATGTCACAAGAATCGATTGATTTCCATACAACTTCAAGACAAGTTCTTGTCATTAA
* *
3174961 AAAGGCTTTAAGCACTCAAATCATAGAAGATGATCAAAGAGAAAACATATTCCATAGTCGTTGTC
66 AAAGGCTTTAAGCACTCAAATCATAGAAGATGATCAAAGAGAAAACATATTCCATACTCATTGTC
*
3175026 ATGTAAACAACAAAGTTTGTTTCATGATCATCGATGGAGGAAGTTGTACGAACGTTGCAAGCATC
131 ATGTAAACAACAAAGTTTGTTTCATGATAATCGATGGAGGAAGTTGTACGAACGTTGCAAGCATC
3175091 TTCCATG
196 TTCCATG
* * *
3175098 TCAC-AACCATGTTACAAGAATCGCTTGATTTCCATACAGCTTCAAAAGACAAGTTCTTGTCATT
1 TCACTAACCATGTCACAAGAATCGATTGATTTCCATACAACTTC--AAGACAAGTTCTTGTCATT
* *
3175162 AAAAAGGCTTTAAGCACTCAAATCATAGAAGATGATCAAAGAGAAAACATCTTCTATACTCATTG
64 AAAAAGGCTTTAAGCACTCAAATCATAGAAGATGATCAAAGAGAAAACATATTCCATACTCATTG
*
3175227 TCATGTAAACAACAAAGTTTGTTTCATGATAATCGATGGAGGAAGTTGTACGAATGTTGCAAG
129 TCATGTAAACAACAAAGTTTGTTTCATGATAATCGATGGAGGAAGTTGTACGAACGTTGCAAG
3175290 AATCAGGTCT
Statistics
Matches: 180, Mismatches: 10, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
201 35 0.19
202 4 0.02
203 141 0.78
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.29
Consensus pattern (202 bp):
TCACTAACCATGTCACAAGAATCGATTGATTTCCATACAACTTCAAGACAAGTTCTTGTCATTAA
AAAGGCTTTAAGCACTCAAATCATAGAAGATGATCAAAGAGAAAACATATTCCATACTCATTGTC
ATGTAAACAACAAAGTTTGTTTCATGATAATCGATGGAGGAAGTTGTACGAACGTTGCAAGCATC
TTCCATG
Found at i:3176720 original size:201 final size:202
Alignment explanation
Indices: 3176369--3176757 Score: 672
Period size: 201 Copynumber: 1.9 Consensus size: 202
3176359 TTTTTTTATA
* *
3176369 TCACTAACCATGTCACAAGAATTGATTGATTTCCATACAGCTTCAAGACAAGTTCTTGTCATTAA
1 TCACTAACCATGTCACAAGAATTGATTGATTTACATAAAGCTTCAAGACAAGTTCTTGTCATTAA
3176434 AAAGGCTTTAAGCACTCAAATCATAGAAGATGATCAAAGAGAAAACATATTCCATACTCGTTGTC
66 AAAGGCTTTAAGCACTCAAATCATAGAAGATGATCAAAGAGAAAACATATTCCATACTCGTTGTC
* * *
3176499 ATGTAAATAACAAAGTTTGTTTAATGATCATCGATGGATGAAGTTGTACGAACGTTGCCAGCATC
131 ATGTAAACAACAAAGTTTGTTTAATGATAATCGATGGAGGAAGTTGTACGAACGTTGCCAGCATC
3176564 TTCCATG
196 TTCCATG
*
3176571 TCAC-AACCATGTCACAAGAATTGCTTGATTTACATAAAGCTTCAAGACAAGTTCTTGTCATTAA
1 TCACTAACCATGTCACAAGAATTGATTGATTTACATAAAGCTTCAAGACAAGTTCTTGTCATTAA
*
3176635 AAAGGCTTTAAGCACTCAAATCATAGAAGATGATCAAAGAGAAAACATCTTCCATACTCGTTGTC
66 AAAGGCTTTAAGCACTCAAATCATAGAAGATGATCAAAGAGAAAACATATTCCATACTCGTTGTC
* * * *
3176700 ATGTAAACAACAAGGTTTGTTTCATGATAATCGATGGAGGAAGTTGTATGAATGTTGC
131 ATGTAAACAACAAAGTTTGTTTAATGATAATCGATGGAGGAAGTTGTACGAACGTTGC
3176758 AAGAATCAGG
Statistics
Matches: 176, Mismatches: 11, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
201 172 0.98
202 4 0.02
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (202 bp):
TCACTAACCATGTCACAAGAATTGATTGATTTACATAAAGCTTCAAGACAAGTTCTTGTCATTAA
AAAGGCTTTAAGCACTCAAATCATAGAAGATGATCAAAGAGAAAACATATTCCATACTCGTTGTC
ATGTAAACAACAAAGTTTGTTTAATGATAATCGATGGAGGAAGTTGTACGAACGTTGCCAGCATC
TTCCATG
Found at i:3178185 original size:201 final size:202
Alignment explanation
Indices: 3177835--3178226 Score: 642
Period size: 201 Copynumber: 1.9 Consensus size: 202
3177825 TTTTTTTATA
**
3177835 TCACTAACCATGTCACAAGAATTGATTGATTTCCATACTGCTTCAAGACAAGTTCTTGTCATTAA
1 TCACTAACCATGTCACAAGAATTGATTGATTTCCATAAAGCTTCAAGACAAGTTCTTGTCATTAA
* *
3177900 AAAGGCTTTAAGCACTCAAATCATAGAAGATGATCAAAGAGAAACCATATTCCATACTCGTTGTC
66 AAAGGCTTTAAGCACTCAAATCATAGAAGATGATCAAAGAGAAAACATATTCCATACTCATTGTC
* * *
3177965 ATGCAAATAACAAAGTTTGTTTCCTGAGCATCGATGGAGGAAGTTGTACAAACGTTGCAAGCATC
131 ATGCAAACAACAAAGTTTGTTTCATGAGAATCGATGGAGGAAGTTGTACAAACGTTGCAAGCATC
3178030 TTCAATG
196 TTCAATG
* *
3178037 TCAC-AACCATGTCACAAGAATTGCTTGTTTTCCATAAAGCTTCAAGACAAGTTCTTGTCATTAA
1 TCACTAACCATGTCACAAGAATTGATTGATTTCCATAAAGCTTCAAGACAAGTTCTTGTCATTAA
* *
3178101 AAAGGCTTTAAGCACTCAAATCATAGAAGATGATCAAAGAGAAAACATCTTCTATACTCATTGTC
66 AAAGGCTTTAAGCACTCAAATCATAGAAGATGATCAAAGAGAAAACATATTCCATACTCATTGTC
* * * *
3178166 ATGTAAACAACAAAGTTTGTTTCATGATAATCGATGGAGGAAGTTGTACGAATGTTGCAAG
131 ATGCAAACAACAAAGTTTGTTTCATGAGAATCGATGGAGGAAGTTGTACAAACGTTGCAAG
3178227 AATCAGGTGT
Statistics
Matches: 175, Mismatches: 15, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
201 171 0.98
202 4 0.02
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (202 bp):
TCACTAACCATGTCACAAGAATTGATTGATTTCCATAAAGCTTCAAGACAAGTTCTTGTCATTAA
AAAGGCTTTAAGCACTCAAATCATAGAAGATGATCAAAGAGAAAACATATTCCATACTCATTGTC
ATGCAAACAACAAAGTTTGTTTCATGAGAATCGATGGAGGAAGTTGTACAAACGTTGCAAGCATC
TTCAATG
Found at i:3180907 original size:201 final size:202
Alignment explanation
Indices: 3180550--3180941 Score: 678
Period size: 201 Copynumber: 1.9 Consensus size: 202
3180540 TTATTTTATA
* *
3180550 TCACTAACCATGTCACAAGAATTGATTGATTTCCATACAGCTTTAAGACAAGTTCTTGTCATTAA
1 TCACTAACCATGTCACAAGAAATGATTGATTTCCATACAGCTTCAAGACAAGTTCTTGTCATTAA
* *
3180615 AAAGGCTTTAAGCACTCAAATCATAAAAGATGATCAAAGAGAAAACATATTCCATACTCGTTGTC
66 AAAGGCTTTAAGCACTCAAATCATAAAAGATGATCAAAGAGAAAAAATATTCCATACTCATTGTC
* *
3180680 ATGTAAACAACAAAGTTTGTTTCATGATCATCGATGGAGGAAGTTGTACGAACGTTGCAAGCATC
131 ATGTAAACAACAAAGTTTGGTTCATGATAATCGATGGAGGAAGTTGTACGAACGTTGCAAGCATC
3180745 TTCCATG
196 TTCCATG
*
3180752 TCAC-AACCATGTCACAAGAAATGCTTGATTTCCATACAGCTTCAAGACAAGTTCTTGTCATTAA
1 TCACTAACCATGTCACAAGAAATGATTGATTTCCATACAGCTTCAAGACAAGTTCTTGTCATTAA
* * *
3180816 AAAGGCTTTAAGCACTCAAATCATAGAAGATGATCAAAGAGAAAAAATCTTCTATACTCATTGTC
66 AAAGGCTTTAAGCACTCAAATCATAAAAGATGATCAAAGAGAAAAAATATTCCATACTCATTGTC
*
3180881 ATGTAAACAACAAAGTTTGGTTCATGATAATCGATGGAGGAAGTTGTACGAATGTTGCAAG
131 ATGTAAACAACAAAGTTTGGTTCATGATAATCGATGGAGGAAGTTGTACGAACGTTGCAAG
3180942 AATCAGGTCT
Statistics
Matches: 179, Mismatches: 11, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
201 175 0.98
202 4 0.02
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.29
Consensus pattern (202 bp):
TCACTAACCATGTCACAAGAAATGATTGATTTCCATACAGCTTCAAGACAAGTTCTTGTCATTAA
AAAGGCTTTAAGCACTCAAATCATAAAAGATGATCAAAGAGAAAAAATATTCCATACTCATTGTC
ATGTAAACAACAAAGTTTGGTTCATGATAATCGATGGAGGAAGTTGTACGAACGTTGCAAGCATC
TTCCATG
Found at i:3182373 original size:201 final size:202
Alignment explanation
Indices: 3182022--3182410 Score: 681
Period size: 201 Copynumber: 1.9 Consensus size: 202
3182012 TTTTTTTATA
*
3182022 TCACTAACCATGTCACAAGAATTGATTGATTTCCATACAGCTTCAAGACAAGTTCTTGTCATTAA
1 TCACTAACCATGTCACAAGAATTGATTGATTTCCATAAAGCTTCAAGACAAGTTCTTGTCATTAA
3182087 AAAGGCTTTAAGCACTCAAATCATAGAAGATGATCAAAGAGAAAACATATTCCATACTCGTTGTC
66 AAAGGCTTTAAGCACTCAAATCATAGAAGATGATCAAAGAGAAAACATATTCCATACTCGTTGTC
* *
3182152 ATGTAAATAACAAAGTTTGTTTAATGATCATCGATGAAGGAAGTTGTACGAACGTTGCCAGCATC
131 ATGTAAACAACAAAGTTTGTTTAATGATAATCGATGAAGGAAGTTGTACGAACGTTGCCAGCATC
3182217 TTCCATG
196 TTCCATG
*
3182224 TCAC-AACCATGTCACAAGAATTGCTTGATTTCCATAAAGCTTCAAGACAAGTTCTTGTCATTAA
1 TCACTAACCATGTCACAAGAATTGATTGATTTCCATAAAGCTTCAAGACAAGTTCTTGTCATTAA
*
3182288 AAAGGCTTTAAGCACTCAAATCATAGAAGATGATCAAAGAGAAAACATCTTCCATACTCGTTGTC
66 AAAGGCTTTAAGCACTCAAATCATAGAAGATGATCAAAGAGAAAACATATTCCATACTCGTTGTC
* * * * *
3182353 ATGTAAACAACAAGGTTTGTTTCATGATAATCGATGGAGGAAGTTGTATGAATGTTGC
131 ATGTAAACAACAAAGTTTGTTTAATGATAATCGATGAAGGAAGTTGTACGAACGTTGC
3182411 AAGAATCAAG
Statistics
Matches: 177, Mismatches: 10, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
201 173 0.98
202 4 0.02
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (202 bp):
TCACTAACCATGTCACAAGAATTGATTGATTTCCATAAAGCTTCAAGACAAGTTCTTGTCATTAA
AAAGGCTTTAAGCACTCAAATCATAGAAGATGATCAAAGAGAAAACATATTCCATACTCGTTGTC
ATGTAAACAACAAAGTTTGTTTAATGATAATCGATGAAGGAAGTTGTACGAACGTTGCCAGCATC
TTCCATG
Found at i:3183003 original size:17 final size:17
Alignment explanation
Indices: 3182967--3183006 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
3182957 TAGAGTGCAA
**
3182967 AAGAAAAAGAAAAATTG
1 AAGAAAAAGAAAAAGAG
*
3182984 AAGAGAAAGAAAAAGAG
1 AAGAAAAAGAAAAAGAG
3183001 AAGAAA
1 AAGAAA
3183007 GGTTGCAAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.72, C:0.00, G:0.23, T:0.05
Consensus pattern (17 bp):
AAGAAAAAGAAAAAGAG
Found at i:3183855 original size:201 final size:202
Alignment explanation
Indices: 3183489--3183880 Score: 590
Period size: 201 Copynumber: 1.9 Consensus size: 202
3183479 TTTTTTTATA
* *
3183489 TCACTAACCAAGTCACAAGAATTAATTGATTTCCATACAGCTGCAAGTCAAGTTCTTGTCATTAA
1 TCACTAACCAAGTCACAAGAATTAATTGATTTCCATAAAGCTGCAAGACAAGTTCTTGTCATTAA
** * ** *
3183554 AAAGGCTTTAAGCACTCAAATCATAGAAGATGATCAAAGAGAAACCATATTCCATACTTGTTTTC
66 AAAGGCTTTAAAAACTCAAATCATAGAAGATGATCAAAGAGAAAACATATTCCATACTCATTGTC
* * *
3183619 ATGTAAATAACAAAGTTTGTTTCCTGATCATCGATGGAGGAAGTTGTACGAACGTTGCAAGCATC
131 ATGTAAACAACAAAGTTTGTTTCATGATAATCGATGGAGGAAGTTGTACGAACGTTGCAAGCATC
3183684 TTCAATG
196 TTCAATG
* ** * *
3183691 TCAC-AACCATGTCACAAGAATTGCTTGTTTTCCATAAAGCTTCAAGACAAGTTCTTGTCATTAA
1 TCACTAACCAAGTCACAAGAATTAATTGATTTCCATAAAGCTGCAAGACAAGTTCTTGTCATTAA
*
3183755 AAAGGCTTTAAAAACTCAAATCATA-AATGATGATCAAAGAGAAAACATCTTCCATACTCATTGT
66 AAAGGCTTTAAAAACTCAAATCATAGAA-GATGATCAAAGAGAAAACATATTCCATACTCATTGT
* *
3183819 CATGTAAACAACAAAGTTTGTTTCATGATAATCGATGGAGGAAGTTGTATGAATGTTGCAAG
130 CATGTAAACAACAAAGTTTGTTTCATGATAATCGATGGAGGAAGTTGTACGAACGTTGCAAG
3183881 AATCAGGTCT
Statistics
Matches: 170, Mismatches: 19, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
200 2 0.01
201 164 0.96
202 4 0.02
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.30
Consensus pattern (202 bp):
TCACTAACCAAGTCACAAGAATTAATTGATTTCCATAAAGCTGCAAGACAAGTTCTTGTCATTAA
AAAGGCTTTAAAAACTCAAATCATAGAAGATGATCAAAGAGAAAACATATTCCATACTCATTGTC
ATGTAAACAACAAAGTTTGTTTCATGATAATCGATGGAGGAAGTTGTACGAACGTTGCAAGCATC
TTCAATG
Found at i:3185311 original size:201 final size:201
Alignment explanation
Indices: 3184966--3185344 Score: 616
Period size: 201 Copynumber: 1.9 Consensus size: 201
3184956 CTAACCTAGC
* * *
3184966 CACAAGAATTGATTGATTTCCATACAGCTTTAAGACAAGTTCTTTTCATTAAAAAGGCTTTAAGC
1 CACAAGAATTGATTGATTTCCATACAACTTTAAGACAAGTTCTTGTCATTAAAAAGGCTTTAAAC
* *
3185031 ACTCAAATCATAGAAGATGATCAAAGAGAAAACATTTTCCATACTCGTTGTCATTTAAACAACAA
66 ACTCAAATCATAGAAGATGATCAAAGAGAAAACATCTTCCATACTCGTTGTCATGTAAACAACAA
*
3185096 AGTTTGTTTCATGATCATCGATGGAGGAAGTTGTACGAACGTTGCAAGCATCTTCCATGTCACAA
131 AGTTTGTTTCATGATAATCGATGGAGGAAGTTGTACGAACGTTGCAAGCATCTTCCATGTCACAA
3185161 CCATGT
196 CCATGT
* *
3185167 CACAAGAATTGCTTGATTTCCATACAACTTCT-AGATAAGTTCTTGTCATTAAAAAGGCTTTAAA
1 CACAAGAATTGATTGATTTCCATACAACTT-TAAGACAAGTTCTTGTCATTAAAAAGGCTTTAAA
* * * * *
3185231 CGCTCAAATCATAGAAGATGATCAAAGAGAAAAGATCTTCTATTCTCGTTTTCATGTAAACAACA
65 CACTCAAATCATAGAAGATGATCAAAGAGAAAACATCTTCCATACTCGTTGTCATGTAAACAACA
*
3185296 AAGTTTGTTTCATGATAATCGATGGAGGAAGTTGTACGAATGTTGCAAG
130 AAGTTTGTTTCATGATAATCGATGGAGGAAGTTGTACGAACGTTGCAAG
3185345 AATCAGGTCT
Statistics
Matches: 163, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
201 162 0.99
202 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.31
Consensus pattern (201 bp):
CACAAGAATTGATTGATTTCCATACAACTTTAAGACAAGTTCTTGTCATTAAAAAGGCTTTAAAC
ACTCAAATCATAGAAGATGATCAAAGAGAAAACATCTTCCATACTCGTTGTCATGTAAACAACAA
AGTTTGTTTCATGATAATCGATGGAGGAAGTTGTACGAACGTTGCAAGCATCTTCCATGTCACAA
CCATGT
Found at i:3186739 original size:201 final size:202
Alignment explanation
Indices: 3186388--3186779 Score: 687
Period size: 201 Copynumber: 1.9 Consensus size: 202
3186378 TTATTTTATA
*
3186388 TCACTAACCATGTCACAAGAATTGATTGATTTCCATACAGCTTTAAGACAAGTTCTTGTCATTAA
1 TCACTAACCATGTCACAAGAATTGATTGATTTCCATACAGCTTCAAGACAAGTTCTTGTCATTAA
*
3186453 AAAGGCTTTAAGCACTCAAATCATAGAAGATGATCAAAGAGAAAACATATTCCATACTCGTTGTC
66 AAAGGCTTTAAGCACTCAAATCATAGAAGATGATCAAAGAGAAAACATATTCCATACTCATTGTC
* * *
3186518 ATGTAAACAGCAATGTTTGTTTCATGATCATCGATGGAGGAAGTTGTACAAACGTTGCAAGCATC
131 ATGTAAACAACAAAGTTTGTTTCATGATAATCGATGGAGGAAGTTGTACAAACGTTGCAAGCATC
3186583 TTCCATG
196 TTCCATG
*
3186590 TCAC-AACCATGTCACAAGAATTGCTTGATTTCCATACAGCTTCAAGACAAGTTCTTGTCATTAA
1 TCACTAACCATGTCACAAGAATTGATTGATTTCCATACAGCTTCAAGACAAGTTCTTGTCATTAA
* *
3186654 AAAGGCTTTAAGCACTCAAATCATAGAAGATGATCAAAGAGAAAACATCTTCTATACTCATTGTC
66 AAAGGCTTTAAGCACTCAAATCATAGAAGATGATCAAAGAGAAAACATATTCCATACTCATTGTC
* *
3186719 ATGTAAACAACAAAGTTTGTTTCATGATAATCGATGGAGGAAGTTGTACGAATGTTGCAAG
131 ATGTAAACAACAAAGTTTGTTTCATGATAATCGATGGAGGAAGTTGTACAAACGTTGCAAG
3186780 AATCAGGTCT
Statistics
Matches: 180, Mismatches: 10, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
201 176 0.98
202 4 0.02
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (202 bp):
TCACTAACCATGTCACAAGAATTGATTGATTTCCATACAGCTTCAAGACAAGTTCTTGTCATTAA
AAAGGCTTTAAGCACTCAAATCATAGAAGATGATCAAAGAGAAAACATATTCCATACTCATTGTC
ATGTAAACAACAAAGTTTGTTTCATGATAATCGATGGAGGAAGTTGTACAAACGTTGCAAGCATC
TTCCATG
Found at i:3189688 original size:196 final size:196
Alignment explanation
Indices: 3189352--3189713 Score: 652
Period size: 196 Copynumber: 1.8 Consensus size: 196
3189342 CAAGAATTGA
3189352 TTGATTTCCATACAGCTTCAAGACAAGTTCTTGTCATTAAAAAGGCTTTAAGCACTCAAATCATA
1 TTGATTTCCATACAGCTTCAAGACAAGTTCTTGTCATTAAAAAGGCTTTAAGCACTCAAATCATA
*
3189417 GAAGATGATCAAAGAGAAAACATATTCCATACTCGTTGTCATGTAAACAACAAAGTTTGTTTCAT
66 GAAGATGATCAAAGAGAAAACATATTCCATACTCATTGTCATGTAAACAACAAAGTTTGTTTCAT
* * *
3189482 GATCATCGATGGAGGAAGTTTTACTAACGTTGCAAGCATCTTCCATGTCACAACCATGTCACAAG
131 GATAATCGATGGAGGAAGTTGTACGAACGTTGCAAGCATCTTCCATGTCACAACCATGTCACAAG
3189547 C
196 C
*
3189548 TTGATTTCCATACAGCTTCAAGACAAGTTCTTGTCATTAAAAAGGCTTTAAGCACTCGAATCATA
1 TTGATTTCCATACAGCTTCAAGACAAGTTCTTGTCATTAAAAAGGCTTTAAGCACTCAAATCATA
* *
3189613 GAAGATGATCAAAGAGAAAACATCTTCTATACTCATTGTCATGTAAACAACAAAGTTTGTTTCAT
66 GAAGATGATCAAAGAGAAAACATATTCCATACTCATTGTCATGTAAACAACAAAGTTTGTTTCAT
*
3189678 GATAATCGATGGAGGAAGTTGTACGAATGTTGCAAG
131 GATAATCGATGGAGGAAGTTGTACGAACGTTGCAAG
3189714 AATCAGGTGT
Statistics
Matches: 158, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
196 158 1.00
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.30
Consensus pattern (196 bp):
TTGATTTCCATACAGCTTCAAGACAAGTTCTTGTCATTAAAAAGGCTTTAAGCACTCAAATCATA
GAAGATGATCAAAGAGAAAACATATTCCATACTCATTGTCATGTAAACAACAAAGTTTGTTTCAT
GATAATCGATGGAGGAAGTTGTACGAACGTTGCAAGCATCTTCCATGTCACAACCATGTCACAAG
C
Found at i:3191161 original size:201 final size:202
Alignment explanation
Indices: 3190795--3191183 Score: 654
Period size: 201 Copynumber: 1.9 Consensus size: 202
3190785 TTTTTTTATA
*
3190795 TCACTAACCATGTCACAAGAATTGATTGATTTCCATACAGCTTCAAGACAAGTTCTTGTCATTAA
1 TCACTAACCATGTCACAAGAATTGATTGATTTCCATAAAGCTTCAAGACAAGTTCTTGTCATTAA
3190860 AAAGGCTTTAAGCACTCAAATCATAGAAGATGATCAAAGAGAAAACATATTCCATACTAGTTGTC
66 AAAGGCTTTAAGCACTCAAATCATAGAAGATGATCAAAGAGAAAACATATTCCATACTAGTTGTC
* *
3190925 ATGTAAATAACAAAGTTTGTCTAATGATCATCGATGGAGGAAGTTGTACGAACGTTGCCAGCATC
131 ATGTAAACAACAAAGTTTGTCTAATGATAATCGATGGAGGAAGTTGTACGAACGTTGCCAGCATC
3190990 TTCCATG
196 TTCCATG
* * *
3190997 TCAC-AACCATGTCACAAGAATTGCTTGATTTCTATAAATCTTCAAGACAAGTTCTTGTCATTAA
1 TCACTAACCATGTCACAAGAATTGATTGATTTCCATAAAGCTTCAAGACAAGTTCTTGTCATTAA
* *
3191061 AAAGGCTTTAAGCACTCAAATCATAGAAGATGATCAAAGAGAAAACATCTTCCATACTCGTTGTC
66 AAAGGCTTTAAGCACTCAAATCATAGAAGATGATCAAAGAGAAAACATATTCCATACTAGTTGTC
* * * * *
3191126 ATGTAAACAACAAGGTTTGTTTCATGATAATCGATGGAGGAAGTTGTATGAATGTTGC
131 ATGTAAACAACAAAGTTTGTCTAATGATAATCGATGGAGGAAGTTGTACGAACGTTGC
3191184 AAGAATCAGG
Statistics
Matches: 174, Mismatches: 13, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
201 170 0.98
202 4 0.02
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (202 bp):
TCACTAACCATGTCACAAGAATTGATTGATTTCCATAAAGCTTCAAGACAAGTTCTTGTCATTAA
AAAGGCTTTAAGCACTCAAATCATAGAAGATGATCAAAGAGAAAACATATTCCATACTAGTTGTC
ATGTAAACAACAAAGTTTGTCTAATGATAATCGATGGAGGAAGTTGTACGAACGTTGCCAGCATC
TTCCATG
Found at i:3200821 original size:47 final size:45
Alignment explanation
Indices: 3200724--3200848 Score: 164
Period size: 47 Copynumber: 2.8 Consensus size: 45
3200714 GGTAAGTATG
**
3200724 AAAATAAGCTTACGAGCTTAT-GAAT-AATGACAAGTATATTGAT
1 AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGAT
* * *
3200767 AAAATAAGCTTATGAGCTTATGGAATTTAAATGGTAAGTATTTTGGT
1 AAAATAAGCTTACGAGCTTATGGAA--TAAATGGTAAGTATATTGAT
*
3200814 AAAATAAGCTTACGAGCTTATGGGATAAATGGTAA
1 AAAATAAGCTTACGAGCTTATGGAATAAATGGTAA
3200849 AAGATTTTAT
Statistics
Matches: 71, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
43 20 0.28
44 3 0.04
45 10 0.14
46 1 0.01
47 37 0.52
ACGTcount: A:0.41, C:0.07, G:0.20, T:0.32
Consensus pattern (45 bp):
AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGAT
Found at i:3201528 original size:167 final size:168
Alignment explanation
Indices: 3201248--3201582 Score: 600
Period size: 167 Copynumber: 2.0 Consensus size: 168
3201238 TTCATTACTA
* *
3201248 TTTATAAAAAATCTTTTGAATTAAATTTTCTATAACAAAATATAAATTATATGATATGATATCTT
1 TTTATAAAAAATCTTTTGAATTAAATTTGCTATAACAAAATATAAATTATATGATATGATATATT
*
3201313 TATAATACCAATTACCATTTTAAGAAAATAAATTTTAAATCTCTTTTAAATTGATAAATGCTTTT
66 TATAATACCAATTACCATTTTAAGAAAATAAATTTTAAATCGCTTTTAAATTGATAAATGCTTTT
*
3201378 AGAAATACGAGTTATGAGTGTTACACTTTCAATTCTCG
131 AGAAATACGAGTTATGAGTGTTACACTTTCAATCCTCG
3201416 TTTATAAAAAATCTTTTGAATTAAA-TTGCTATAACAAAATATAAATTATATGATATGATATATT
1 TTTATAAAAAATCTTTTGAATTAAATTTGCTATAACAAAATATAAATTATATGATATGATATATT
* *
3201480 TATAATATCAATTACCATTTTAAGAAAATAAATTTTAAATCGCTTTTAAATTGATAAATTCTTTT
66 TATAATACCAATTACCATTTTAAGAAAATAAATTTTAAATCGCTTTTAAATTGATAAATGCTTTT
*
3201545 AGAAATACGAGTTATGGGTGTTACACTTTCAATCCTCG
131 AGAAATACGAGTTATGAGTGTTACACTTTCAATCCTCG
3201583 AGTAGCAGGT
Statistics
Matches: 160, Mismatches: 7, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
167 135 0.84
168 25 0.16
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.41
Consensus pattern (168 bp):
TTTATAAAAAATCTTTTGAATTAAATTTGCTATAACAAAATATAAATTATATGATATGATATATT
TATAATACCAATTACCATTTTAAGAAAATAAATTTTAAATCGCTTTTAAATTGATAAATGCTTTT
AGAAATACGAGTTATGAGTGTTACACTTTCAATCCTCG
Found at i:3201948 original size:10 final size:10
Alignment explanation
Indices: 3201933--3201957 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
3201923 GCATTGCATT
3201933 TTTAGTTGCA
1 TTTAGTTGCA
3201943 TTTAGTTGCA
1 TTTAGTTGCA
3201953 TTTAG
1 TTTAG
3201958 GTTATATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.20, C:0.08, G:0.20, T:0.52
Consensus pattern (10 bp):
TTTAGTTGCA
Found at i:3202163 original size:20 final size:20
Alignment explanation
Indices: 3202138--3202187 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
3202128 CGTGAGGAGC
*
3202138 AGATTTATCTCGCCGAGGTA
1 AGATTTATCTCGCCGAGGCA
3202158 AGATTTATCTCGCCGAGGCA
1 AGATTTATCTCGCCGAGGCA
3202178 AGATTTATCT
1 AGATTTATCT
3202188 AAAGAAGTCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (20 bp):
AGATTTATCTCGCCGAGGCA
Found at i:3223673 original size:22 final size:22
Alignment explanation
Indices: 3223625--3223673 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
3223615 TTTGGACCCA
3223625 GTTTGAGTTTGGTTCGGGCTCG
1 GTTTGAGTTTGGTTCGGGCTCG
* * *
3223647 ATTTGGGTTTGGTTTGGGC-CTG
1 GTTTGAGTTTGGTTCGGGCTC-G
3223669 GTTTG
1 GTTTG
3223674 TAAATGGGTT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 1 0.05
22 21 0.95
ACGTcount: A:0.04, C:0.10, G:0.41, T:0.45
Consensus pattern (22 bp):
GTTTGAGTTTGGTTCGGGCTCG
Found at i:3223708 original size:3 final size:3
Alignment explanation
Indices: 3223700--3223738 Score: 53
Period size: 3 Copynumber: 13.0 Consensus size: 3
3223690 AATATTTTAT
*
3223700 TAA TAA TAA TAA T-A TAA GAA TAA TAA TAA TAAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA
3223739 AGACGAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 2 0.06
3 27 0.84
4 3 0.09
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:3225178 original size:56 final size:56
Alignment explanation
Indices: 3225111--3225222 Score: 170
Period size: 56 Copynumber: 2.0 Consensus size: 56
3225101 AATATAACAT
* * * **
3225111 TAACTTGAAATATAATTTAAATTGCTAAAGTTGATAAGATGAATTTGCGTTGAAAA
1 TAACATGAAATATAATTTAAATTACTAAAGTTGATAAGATAAATTTGAATTGAAAA
*
3225167 TAACATGAAATATAATTTAAATTACTAAATTTGATAAGATAAATTTGAATTGAAAA
1 TAACATGAAATATAATTTAAATTACTAAAGTTGATAAGATAAATTTGAATTGAAAA
3225223 GAACCTGACA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
56 50 1.00
ACGTcount: A:0.47, C:0.04, G:0.12, T:0.36
Consensus pattern (56 bp):
TAACATGAAATATAATTTAAATTACTAAAGTTGATAAGATAAATTTGAATTGAAAA
Found at i:3231506 original size:23 final size:23
Alignment explanation
Indices: 3231476--3231527 Score: 104
Period size: 23 Copynumber: 2.3 Consensus size: 23
3231466 CAACTCACTG
3231476 GTCAACTCGTTGACTTTAACCGA
1 GTCAACTCGTTGACTTTAACCGA
3231499 GTCAACTCGTTGACTTTAACCGA
1 GTCAACTCGTTGACTTTAACCGA
3231522 GTCAAC
1 GTCAAC
3231528 CCATTAACCG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (23 bp):
GTCAACTCGTTGACTTTAACCGA
Found at i:3238271 original size:24 final size:24
Alignment explanation
Indices: 3238239--3238314 Score: 73
Period size: 24 Copynumber: 3.2 Consensus size: 24
3238229 ATCTTATTTC
*
3238239 TGTTTTGATTTCCT-ATATGAATTA
1 TGTTATGATTT-CTGATATGAATTA
* * *
3238263 TGTTCTGATTTTTGATATGGATTA
1 TGTTATGATTTCTGATATGAATTA
* * *
3238287 TGTTATGATATCTGATCTAAATTA
1 TGTTATGATTTCTGATATGAATTA
3238311 TGTT
1 TGTT
3238315 TTATTTGGGG
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
23 1 0.02
24 41 0.98
ACGTcount: A:0.25, C:0.07, G:0.16, T:0.53
Consensus pattern (24 bp):
TGTTATGATTTCTGATATGAATTA
Found at i:3239570 original size:11 final size:10
Alignment explanation
Indices: 3239556--3239600 Score: 63
Period size: 10 Copynumber: 4.4 Consensus size: 10
3239546 AAAAACAAAT
3239556 AAAAAGAGAGG
1 AAAAAGAGA-G
*
3239567 AAAAATAGAG
1 AAAAAGAGAG
*
3239577 GAAAAGAGAG
1 AAAAAGAGAG
3239587 AAAAAGAGAG
1 AAAAAGAGAG
3239597 AAAA
1 AAAA
3239601 GATTATGCTT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
10 22 0.73
11 8 0.27
ACGTcount: A:0.69, C:0.00, G:0.29, T:0.02
Consensus pattern (10 bp):
AAAAAGAGAG
Found at i:3243338 original size:20 final size:20
Alignment explanation
Indices: 3243309--3243346 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
3243299 CCTCTTCAAA
*
3243309 GGGGGAATCGGTTCCCTCAT
1 GGGGGAATCGATTCCCTCAT
*
3243329 GGGGGGATCGATTCCCTC
1 GGGGGAATCGATTCCCTC
3243347 TGCACCAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.26, G:0.37, T:0.24
Consensus pattern (20 bp):
GGGGGAATCGATTCCCTCAT
Found at i:3255490 original size:38 final size:38
Alignment explanation
Indices: 3255394--3255485 Score: 134
Period size: 38 Copynumber: 2.5 Consensus size: 38
3255384 ACAATTTTCG
* *
3255394 TCTCACTCGAGAAAGTTTCTTTTGAAACAAAAATTTTA
1 TCTCACTTGAGATAGTTTCTTTTGAAACAAAAATTTTA
* *
3255432 TCTCCCTTGATATAGTTTCTTTTGAAA-AAAAA-TTTA
1 TCTCACTTGAGATAGTTTCTTTTGAAACAAAAATTTTA
3255468 TCTCACTTGAGATAGTTT
1 TCTCACTTGAGATAGTTT
3255486 TTCTTCAAAT
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
36 20 0.42
37 5 0.10
38 23 0.48
ACGTcount: A:0.33, C:0.15, G:0.11, T:0.41
Consensus pattern (38 bp):
TCTCACTTGAGATAGTTTCTTTTGAAACAAAAATTTTA
Found at i:3255567 original size:23 final size:22
Alignment explanation
Indices: 3255537--3255582 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
3255527 AGAATAAGAA
* *
3255537 TTTTATCTAACTTGAGGTAGTT
1 TTTTATCTAACTCGAGATAGTT
*
3255559 TTTTCATCTCACTCGAGATAGTT
1 TTTT-ATCTAACTCGAGATAGTT
3255582 T
1 T
3255583 CTCTTGAAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.22, C:0.15, G:0.15, T:0.48
Consensus pattern (22 bp):
TTTTATCTAACTCGAGATAGTT
Found at i:3255601 original size:37 final size:36
Alignment explanation
Indices: 3255560--3255838 Score: 109
Period size: 37 Copynumber: 7.9 Consensus size: 36
3255550 GAGGTAGTTT
3255560 TTTCATCTCACTCGAGATAGTTTCTCTTGAAACATAA
1 TTTCATCTCACTCGAGATAGTTTCTCTTGAAA-ATAA
* **
3255597 TTTCATCTCACTTC-AGATA-TTTTTCCTTG-AAATGG
1 TTTCATCTCAC-TCGAGATAGTTTCT-CTTGAAAATAA
* * ** *
3255632 TTT-TTCTCGCTCGAG-TGAGTTTCTCTCAAAACAAAAA
1 TTTCATCTCACTCGAGAT-AGTTTCTCT-TGAA-AATAA
* * * * *
3255669 TTTTATCTCACTTGAAATATTTTCCCTTG--AAT--
1 TTTCATCTCACTCGAGATAGTTTCTCTTGAAAATAA
* * * *
3255701 TTTCGTCTCACTCGATATGGTTTCTCTCGAAAA-AA
1 TTTCATCTCACTCGAGATAGTTTCTCTTGAAAATAA
* * * *
3255736 ATT-ATCTCGCTTGAGATAAATTTCTCTT-AAAAT--
1 TTTCATCTCACTCGAGAT-AGTTTCTCTTGAAAATAA
** * *
3255769 TTTTGTCTTACTCGAGATAGTTTCTCTTGAAACAAAA
1 TTTCATCTCACTCGAGATAGTTTCTCTTGAAA-ATAA
** * * * *
3255806 TTTTTTCTCACTTGAGGTATTTTCTCTTAAAAA
1 TTTCATCTCACTCGAGATAGTTTCTCTTGAAAA
3255839 GATTTTTATC
Statistics
Matches: 172, Mismatches: 49, Indels: 43
0.65 0.19 0.16
Matches are distributed among these distances:
32 21 0.12
33 14 0.08
34 41 0.24
35 19 0.11
36 8 0.05
37 51 0.30
38 17 0.10
39 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.11, T:0.42
Consensus pattern (36 bp):
TTTCATCTCACTCGAGATAGTTTCTCTTGAAAATAA
Found at i:3255690 original size:72 final size:71
Alignment explanation
Indices: 3255565--3255818 Score: 193
Period size: 71 Copynumber: 3.6 Consensus size: 71
3255555 AGTTTTTTCA
** * * *
3255565 TCTCACTCGAGATAGTTTCTCTTGAAACATAATTTCATCTCACTTCAGATATTTTTCCTTGAAAT
1 TCTCACTCGAGATAGTTTCTCTCAAAACAAAATTTCATCTCACTTCAAATATTTTCCCTTGAAAT
3255630 GGTTTT
66 GGTTTT
* * *
3255636 TCTCGCTCGAG-TGAGTTTCTCTCAAAACAAAAATTTTATCTCACTTGAAATATTTTCCCTTG-A
1 TCTCACTCGAGAT-AGTTTCTCTCAAAAC-AAAATTTCATCTCACTTCAAATATTTTCCCTTGAA
*
3255699 AT--TTTCG
64 ATGGTTT-T
* * * * * * * * *
3255706 TCTCACTCGATATGGTTTCTCTCGAAA-AAAA-TT-ATCTCGCTTGAGATAAATTTCTCTTAAAA
1 TCTCACTCGAGATAGTTTCTCTCAAAACAAAATTTCATCTCACTTCAAAT-ATTTTCCCTTGAAA
3255768 T--TTTT
65 TGGTTTT
* ** **
3255773 GTCTTACTCGAGATAGTTTCTCTTGAAACAAAATTTTTTCTCACTT
1 -TCTCACTCGAGATAGTTTCTCTCAAAACAAAATTTCATCTCACTT
3255819 GAGGTATTTT
Statistics
Matches: 148, Mismatches: 25, Indels: 20
0.77 0.13 0.10
Matches are distributed among these distances:
66 12 0.08
67 10 0.07
68 33 0.22
69 7 0.05
70 24 0.16
71 34 0.23
72 28 0.19
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.42
Consensus pattern (71 bp):
TCTCACTCGAGATAGTTTCTCTCAAAACAAAATTTCATCTCACTTCAAATATTTTCCCTTGAAAT
GGTTTT
Found at i:3255749 original size:66 final size:69
Alignment explanation
Indices: 3255559--3255807 Score: 195
Period size: 68 Copynumber: 3.6 Consensus size: 69
3255549 TGAGGTAGTT
* * * * * * *
3255559 TTTTCATCTCACTCGAGATAGTTTCTCTTGAAACATAATTTCATCTCACTTCAGAT-ATTTTTCC
1 TTTTCGTCTCACTCGAGATAGTTTCTCTCGAAACA-AAATT-ATCTCACTTGAAATAAATTTCCC
*
3255623 TTGAAA
64 TTAAAA
* * * *
3255629 TGGTTT-TTCTCGCTCGAG-TGAGTTTCTCTCAAAACAAAAATTTTATCTCACTTGAAAT-ATTT
1 T--TTTCGTCTCACTCGAGAT-AGTTTCTCTCGAAAC-AAAA--TTATCTCACTTGAAATAAATT
*
3255691 TCCCTT-GAA
60 TCCCTTAAAA
* * * * *
3255700 TTTTCGTCTCACTCGATATGGTTTCTCTCGAAA-AAAATTATCTCGCTTGAGATAAATTTCTCTT
1 TTTTCGTCTCACTCGAGATAGTTTCTCTCGAAACAAAATTATCTCACTTGAAATAAATTTCCCTT
3255764 AAAA
66 AAAA
* * *
3255768 TTTTTGTCTTACTCGAGATAGTTTCTCTTGAAACAAAATT
1 TTTTCGTCTCACTCGAGATAGTTTCTCTCGAAACAAAATT
3255808 TTTTCTCACT
Statistics
Matches: 144, Mismatches: 24, Indels: 23
0.75 0.13 0.12
Matches are distributed among these distances:
66 14 0.10
67 8 0.06
68 34 0.24
69 9 0.06
70 23 0.16
71 29 0.20
72 25 0.17
73 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.11, T:0.42
Consensus pattern (69 bp):
TTTTCGTCTCACTCGAGATAGTTTCTCTCGAAACAAAATTATCTCACTTGAAATAAATTTCCCTT
AAAA
Found at i:3255863 original size:35 final size:37
Alignment explanation
Indices: 3255789--3255865 Score: 88
Period size: 34 Copynumber: 2.1 Consensus size: 37
3255779 CTCGAGATAG
* **
3255789 TTTCTCTTGAAACAAAATTTTTTCTCACTTGAGGTAT
1 TTTCTCTTGAAACAAAATTTTTTATCACTTGAGCAAT
*
3255826 TTTCTCTT-AAA-AAGA-TTTTTATCACTTGAGACAAT
1 TTTCTCTTGAAACAAAATTTTTTATCACTTGAG-CAAT
3255861 TTTCT
1 TTTCT
3255866 AACATGACTT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
34 14 0.40
35 10 0.29
36 3 0.09
37 8 0.23
ACGTcount: A:0.29, C:0.16, G:0.09, T:0.47
Consensus pattern (37 bp):
TTTCTCTTGAAACAAAATTTTTTATCACTTGAGCAAT
Found at i:3257686 original size:29 final size:29
Alignment explanation
Indices: 3257645--3257711 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
3257635 TTTTATTAAC
*
3257645 TCATATTTACTTTTCAT-TTATCATCATTTA
1 TCAT-TTTACTTTT-ATATTATCACCATTTA
* * *
3257675 TCATTTTCCTTTTATATTTTTACCATTTA
1 TCATTTTACTTTTATATTATCACCATTTA
3257704 TCATTTTA
1 TCATTTTA
3257712 TTATTTTTTG
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
28 2 0.06
29 25 0.81
30 4 0.13
ACGTcount: A:0.24, C:0.16, G:0.00, T:0.60
Consensus pattern (29 bp):
TCATTTTACTTTTATATTATCACCATTTA
Found at i:3257710 original size:15 final size:15
Alignment explanation
Indices: 3257669--3257711 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
3257659 CATTTATCAT
3257669 CATTTATCATTTT-C
1 CATTTATCATTTTAC
*
3257683 CTTTTAT-ATTTTTAC
1 CATTTATCA-TTTTAC
3257698 CATTTATCATTTTA
1 CATTTATCATTTTA
3257712 TTATTTTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
13 1 0.04
14 10 0.42
15 12 0.50
16 1 0.04
ACGTcount: A:0.23, C:0.16, G:0.00, T:0.60
Consensus pattern (15 bp):
CATTTATCATTTTAC
Found at i:3267496 original size:18 final size:18
Alignment explanation
Indices: 3267438--3267524 Score: 84
Period size: 18 Copynumber: 4.6 Consensus size: 18
3267428 AAGTAGCTTG
*
3267438 GTATCGATACTCCTATCGTAA
1 GTATCGATACTCCCAT-G--A
*
3267459 GTATTGATACTCTACCATGA
1 GTATCGATACTC--CCATGA
3267479 GTATCGATACTCCCATGA
1 GTATCGATACTCCCATGA
* *
3267497 CTATCAATACTCCCATGA
1 GTATCGATACTCCCATGA
*
3267515 GCATCGATAC
1 GTATCGATAC
3267525 GAAAATGGTT
Statistics
Matches: 56, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
18 29 0.52
20 12 0.21
21 11 0.20
22 1 0.02
23 3 0.05
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (18 bp):
GTATCGATACTCCCATGA
Found at i:3270780 original size:25 final size:25
Alignment explanation
Indices: 3270729--3270780 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
3270719 GTAAAGGACG
*
3270729 AATGAAATAATAAATAAATCAAGAT
1 AATGAAATAATAAATAAATCAAAAT
*
3270754 AATGAAATATTAAAATAAAT-AAAAT
1 AATGAAATAAT-AAATAAATCAAAAT
3270779 AA
1 AA
3270781 CACCATGAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 16 0.67
26 8 0.33
ACGTcount: A:0.67, C:0.02, G:0.06, T:0.25
Consensus pattern (25 bp):
AATGAAATAATAAATAAATCAAAAT
Found at i:3271285 original size:17 final size:15
Alignment explanation
Indices: 3271261--3271295 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
3271251 ATATGTATAT
*
3271261 ATATATATATATTAA
1 ATATAGATATATTAA
3271276 ATATAGATATATTAA
1 ATATAGATATATTAA
3271291 ATATA
1 ATATA
3271296 CGTTAACTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (15 bp):
ATATAGATATATTAA
Found at i:3273927 original size:21 final size:22
Alignment explanation
Indices: 3273901--3273947 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
3273891 TAAAACTGCC
3273901 AAAAAATAA-AATT-AATGTTAA
1 AAAAAATAAGAATTAAAT-TTAA
*
3273922 AAAAAATAAGTATTAAATTTAA
1 AAAAAATAAGAATTAAATTTAA
3273944 AAAA
1 AAAA
3273948 TAAATGTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 9 0.39
22 11 0.48
23 3 0.13
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (22 bp):
AAAAAATAAGAATTAAATTTAA
Found at i:3274736 original size:20 final size:20
Alignment explanation
Indices: 3274711--3274759 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
3274701 ACGTTTGGAA
*
3274711 CTCGTCGCTCCTTTGTTGAT
1 CTCGTCACTCCTTTGTTGAT
3274731 CTCGTCACTCCTTTGTTGAT
1 CTCGTCACTCCTTTGTTGAT
3274751 CTCGTCACT
1 CTCGTCACT
3274760 GAAAATAGGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.08, C:0.33, G:0.16, T:0.43
Consensus pattern (20 bp):
CTCGTCACTCCTTTGTTGAT
Found at i:3275170 original size:4 final size:4
Alignment explanation
Indices: 3275161--3275220 Score: 66
Period size: 4 Copynumber: 13.8 Consensus size: 4
3275151 CTGAAATGAT
3275161 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAATA TATAA TATAA TATAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAA-A TA-AA TA-AA TA-AA
*
3275209 TATAA TATA TAA
1 TA-AA TAAA TAA
3275221 CTTTAATATA
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
4 30 0.58
5 21 0.40
6 1 0.02
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (4 bp):
TAAA
Found at i:3275231 original size:2 final size:2
Alignment explanation
Indices: 3275191--3275322 Score: 58
Period size: 2 Copynumber: 71.0 Consensus size: 2
3275181 TAAATAAATA
*
3275191 AT AT AT A- AT AT A- AT AT A- AT AT A- AT AT AT A- ACT TT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT
* * *
3275228 AT AT AT ACT A- AT AT AC GT AT A- AG AT AT -T A- AT AT A- AT AT
1 AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * *
3275266 GT AT A- AC AT ACT AT AT A- AT AT TT ACT AT A- AT AT AT AA AT AT
1 AT AT AT AT AT A-T AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT
3275307 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
3275323 GTAGACACTC
Statistics
Matches: 98, Mismatches: 14, Indels: 36
0.66 0.09 0.24
Matches are distributed among these distances:
1 14 0.14
2 78 0.80
3 6 0.06
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (2 bp):
AT
Found at i:3275438 original size:3 final size:3
Alignment explanation
Indices: 3275430--3275461 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
3275420 ATATTTAGTA
3275430 TAT TAT TAT TAT TAT TAT TAT TAT TAT T-T TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
3275462 CTTATTTTAC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:3276845 original size:20 final size:21
Alignment explanation
Indices: 3276798--3276853 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
3276788 AATTATCATT
*
3276798 TTATTTTATTTTATCTTGTTTA
1 TTATTTTA-TTTATCTTATTTA
*
3276820 AT-TTTTATTTATC-TATTTA
1 TTATTTTATTTATCTTATTTA
3276839 TTATTTTAATTTATC
1 TTATTTT-ATTTATC
3276854 AAATATTTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
19 6 0.21
20 10 0.34
21 12 0.41
22 1 0.03
ACGTcount: A:0.23, C:0.05, G:0.02, T:0.70
Consensus pattern (21 bp):
TTATTTTATTTATCTTATTTA
Found at i:3282005 original size:21 final size:22
Alignment explanation
Indices: 3281965--3282005 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
3281955 AGATTGAAGC
*
3281965 TGGGGCAAGAGAAACCAATTTT
1 TGGGGCAAGAGAAACAAATTTT
3281987 TGGGGCAAG-GAAACAAATT
1 TGGGGCAAGAGAAACAAATT
3282006 GTCTCAGGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.39, C:0.12, G:0.29, T:0.20
Consensus pattern (22 bp):
TGGGGCAAGAGAAACAAATTTT
Found at i:3282478 original size:35 final size:36
Alignment explanation
Indices: 3282434--3282503 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 36
3282424 CTTGAAATTG
*
3282434 TTTCGCTCAAAAC-AATTTTGTCTCACTTGAGACAA
1 TTTCGCTCAAAACGAATTTCGTCTCACTTGAGACAA
* *
3282469 TTTCTCTCAAAACGAATTTCGTCTCGCTTGAGACA
1 TTTCGCTCAAAACGAATTTCGTCTCACTTGAGACA
3282504 TTTTTCCTCT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
35 12 0.39
36 19 0.61
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.34
Consensus pattern (36 bp):
TTTCGCTCAAAACGAATTTCGTCTCACTTGAGACAA
Found at i:3282669 original size:66 final size:64
Alignment explanation
Indices: 3282584--3282711 Score: 186
Period size: 66 Copynumber: 2.0 Consensus size: 64
3282574 TCAAAATAAG
* * **
3282584 TTTTGTCTCTTGAGACAGTTTCTTTTG-ATGAAATATCTTTGAGTCTGTTTCTTTGGAAACAAAA
1 TTTTGTCTCTTGAGACAGTTTCTTTTGAAGGAAA-ATCTTTGAGTCTATTTCACTGGAAACAAAA
3282648 TTTTGTCTCTTTTGAGACAGTTTCTTTTGAAGGAAAATCTTTGAGTCTATTTCACTGGAAACAA
1 TTTTGTCTC--TTGAGACAGTTTCTTTTGAAGGAAAATCTTTGAGTCTATTTCACTGGAAACAA
3282712 CAACCATCTT
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
64 9 0.16
66 43 0.75
67 5 0.09
ACGTcount: A:0.26, C:0.13, G:0.17, T:0.44
Consensus pattern (64 bp):
TTTTGTCTCTTGAGACAGTTTCTTTTGAAGGAAAATCTTTGAGTCTATTTCACTGGAAACAAAA
Found at i:3282784 original size:67 final size:68
Alignment explanation
Indices: 3282706--3282838 Score: 182
Period size: 68 Copynumber: 2.0 Consensus size: 68
3282696 ATTTCACTGG
3282706 AAACAACAACCATCTTTGAGA-CGCTTT-TCTTGAAACAAATCTTATTTTCCTTGAGACT-GTTT
1 AAACAACAACCATCTTTGAGATCG-TTTCTCTTGAAACAAATCTTATTTTCCTTGAGA-TAGTTT
3282768 CTCAT
64 CTCAT
* * * * *
3282773 AAACAATAACCATCTTTGAGATTGTTTCTCTTGAAATAATTCTTATTTTTCTTGAGATAGTTTCT
1 AAACAACAACCATCTTTGAGATCGTTTCTCTTGAAACAAATCTTATTTTCCTTGAGATAGTTTCT
3282838 C
66 C
3282839 GTGAAATACT
Statistics
Matches: 58, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
67 24 0.41
68 34 0.59
ACGTcount: A:0.29, C:0.19, G:0.11, T:0.41
Consensus pattern (68 bp):
AAACAACAACCATCTTTGAGATCGTTTCTCTTGAAACAAATCTTATTTTCCTTGAGATAGTTTCT
CAT
Found at i:3284813 original size:133 final size:133
Alignment explanation
Indices: 3284332--3285017 Score: 921
Period size: 133 Copynumber: 5.1 Consensus size: 133
3284322 CCCACCTCTA
**
3284332 GTAGGAACCGTGTCACCCTAGATAACCAGCCGTCCTCATCACGTAGGAACTGTGTTATCACCTTC
1 GTAGGAACCGTGTCACCCTAGATAACCAGCCGTCCTCATCACGTAGGAACCATGTTATCACCTTC
* * *
3284397 CCTAAAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATCCACTGACCAG-CCGTCCTCA
66 CCTAAAGATGGCCAAAACTCTTCATCACGTATGAGCCGTGTCATCCACCGACCAGATC-TCCTCA
*
3284461 TCAT
130 TCAC
* * * *
3284465 GTAGGAACCGTGTTACCCTAGATAGCCAGCCATCCTCGTCACGTAGGAACCATGTTATCACC-TC
1 GTAGGAACCGTGTCACCCTAGATAACCAGCCGTCCTCATCACGTAGGAACCATGTTATCACCTTC
* * * * ** *
3284529 CCTAAAGATGGCCACAACTCTTCATCAAGTATGAGCCATGTCATCTATTGACTAGATCTCCTCAT
66 CCTAAAGATGGCCAAAACTCTTCATCACGTATGAGCCGTGTCATCCACCGACCAGATCTCCTCAT
3284594 CAC
131 CAC
* * *
3284597 GTAGGAACCTTGTCACCCTCATATAACCAGCCGTCCTCATCACGTAAGAACCATGTTATCACCTT
1 GTAGGAACCGTGTCACCCT-AGATAACCAGCCGTCCTCATCACGTAGGAACCATGTTATCACCTT
* * * * *
3284662 CCCTAAAGATGGCTAAAACTCTTCATCACCTATGAGTCGTGTCATCCACCGACCAGTTATCCTCA
65 CCCTAAAGATGGCCAAAACTCTTCATCACGTATGAGCCGTGTCATCCACCGACCAGATCTCCTCA
*
3284727 TCGC
130 TCAC
* *
3284731 GTAGGAACCGTGTCACCCTAGATAACCAACCGTCCTCATCTCGTAGGAACCATGTTATCACCTTC
1 GTAGGAACCGTGTCACCCTAGATAACCAGCCGTCCTCATCACGTAGGAACCATGTTATCACCTTC
* * *
3284796 CCTAAAGATGGCCAAAACTCTTCATCACGTATGAGCCGTGTCATCTACCGACTAGATCTTCTCAT
66 CCTAAAGATGGCCAAAACTCTTCATCACGTATGAGCCGTGTCATCCACCGACCAGATCTCCTCAT
3284861 CAC
131 CAC
* * *
3284864 GTAGGAACCGTGTCACACTCAGATAACCAGACGTCCTCATCATGTAGGAACCGA-GTTATCACCC
1 GTAGGAACCGTGTCACCCT-AGATAACCAGCCGTCCTCATCACGTAGGAACC-ATGTTATCA-CC
** ** *
3284928 TT-CCTAAAGATGGCCAAAAACTCTTCATCACAAATGAGTAGTGTCATCCCCCGACCAGATCTCC
63 TTCCCTAAAGATGGCC-AAAACTCTTCATCACGTATGAGCCGTGTCATCCACCGACCAGATCTCC
3284992 TCATCAC
127 TCATCAC
**
3284999 GTAGGAGTCGTGTCACCCT
1 GTAGGAACCGTGTCACCCT
3285018 TAGAAGACCA
Statistics
Matches: 482, Mismatches: 64, Indels: 12
0.86 0.11 0.02
Matches are distributed among these distances:
132 77 0.16
133 214 0.44
134 123 0.26
135 68 0.14
ACGTcount: A:0.27, C:0.31, G:0.17, T:0.25
Consensus pattern (133 bp):
GTAGGAACCGTGTCACCCTAGATAACCAGCCGTCCTCATCACGTAGGAACCATGTTATCACCTTC
CCTAAAGATGGCCAAAACTCTTCATCACGTATGAGCCGTGTCATCCACCGACCAGATCTCCTCAT
CAC
Found at i:3285232 original size:3 final size:3
Alignment explanation
Indices: 3285224--3285320 Score: 180
Period size: 3 Copynumber: 33.0 Consensus size: 3
3285214 TTAATTATAT
3285224 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
3285271 TTA TTA TTA TTA TTA TTA TTA TTA -TA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
3285318 TTA
1 TTA
3285321 GTTTACATGT
Statistics
Matches: 92, Mismatches: 0, Indels: 4
0.96 0.00 0.04
Matches are distributed among these distances:
2 4 0.04
3 88 0.96
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:3285652 original size:14 final size:14
Alignment explanation
Indices: 3285614--3285653 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
3285604 AACAGTGCCC
* *
3285614 ATGAATAATGAACA
1 ATGAACAATGTACA
3285628 ATGAACAATGTACA
1 ATGAACAATGTACA
*
3285642 TTGAACAATGTA
1 ATGAACAATGTA
3285654 TCGATGCACT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.50, C:0.10, G:0.15, T:0.25
Consensus pattern (14 bp):
ATGAACAATGTACA
Found at i:3290060 original size:184 final size:185
Alignment explanation
Indices: 3289746--3290134 Score: 667
Period size: 184 Copynumber: 2.1 Consensus size: 185
3289736 TTAAAATTTT
* * *
3289746 AAATTTTAAATATATTATATATAACATATGGGCTCAGCCCAAACTATTTAAAACTCAATTAATAA
1 AAATATTAAATATATTATATATAACATATGGGCTCAGCCCAAACCATTTAAAACCCAATTAATAA
*
3289811 TTTAAGATCTAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTTATATAAAA-TT
66 TTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTTATATAAAATTT
* *
3289875 TTATTTTATAATTATATATTATTTAAATTAATTGTAAACTG-TTTTCTGAATTAAA
131 TTATTTTACAATTATATATTATTTAAATTAATTATAAACTGATTTT-TGAATTAAA
3289930 AAATATTAAATATATTATATATAACATATGGGCTCAGCCCAAACCATTTAAAACCCAATTAATAA
1 AAATATTAAATATATTATATATAACATATGGGCTCAGCCCAAACCATTTAAAACCCAATTAATAA
3289995 TTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTTATATAAAATTT
66 TTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTTATATAAAATTT
*
3290060 TTATTTTACAATTATATATTATTTAAATTAATTATAAACTGATTTTTGAATTATA
131 TTATTTTACAATTATATATTATTTAAATTAATTATAAACTGATTTTTGAATTAAA
* *
3290115 AAATATTTAAT-TTTTATATA
1 AAATATTAAATATATTATATA
3290135 AATTAGAAAA
Statistics
Matches: 194, Mismatches: 9, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
184 131 0.68
185 59 0.30
186 4 0.02
ACGTcount: A:0.46, C:0.09, G:0.04, T:0.42
Consensus pattern (185 bp):
AAATATTAAATATATTATATATAACATATGGGCTCAGCCCAAACCATTTAAAACCCAATTAATAA
TTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTTATATAAAATTT
TTATTTTACAATTATATATTATTTAAATTAATTATAAACTGATTTTTGAATTAAA
Done.