Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009639.1 Hibiscus syriacus cultivar Beakdansim tig00117048_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: 15077257
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 14 of 62
Found at i:3158640 original size:13 final size:13
Alignment explanation
Indices: 3158622--3158647 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3158612 AGAAATTCAA
3158622 ATCCTAATGCTTG
1 ATCCTAATGCTTG
3158635 ATCCTAATGCTTG
1 ATCCTAATGCTTG
3158648 CAAATGAAAT
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:0.23, C:0.23, G:0.15, T:0.38
Consensus pattern (13 bp):
ATCCTAATGCTTG
Found at i:3160624 original size:2 final size:2
Alignment explanation
Indices: 3160617--3160665 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
3160607 ATACGACCCG
3160617 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
3160659 TA TA TA T
1 TA TA TA T
3160666 GGGTCATATC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3163718 original size:15 final size:15
Alignment explanation
Indices: 3163694--3163728 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
3163684 TACCCTTTTC
*
3163694 CTATTTTGGTTTATT
1 CTATTATGGTTTATT
3163709 CTATTATGGTTTATT
1 CTATTATGGTTTATT
3163724 CTATT
1 CTATT
3163729 TTAATTTTCA
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:0.17, C:0.09, G:0.11, T:0.63
Consensus pattern (15 bp):
CTATTATGGTTTATT
Found at i:3164143 original size:17 final size:17
Alignment explanation
Indices: 3164117--3164149 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
3164107 TTGTGTTTTT
*
3164117 TTCGTCCTCGCATTTGC
1 TTCGTACTCGCATTTGC
3164134 TTCGTACTCGCATTTG
1 TTCGTACTCGCATTTG
3164150 TTGTTTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.09, C:0.30, G:0.18, T:0.42
Consensus pattern (17 bp):
TTCGTACTCGCATTTGC
Found at i:3165713 original size:55 final size:55
Alignment explanation
Indices: 3164934--3165705 Score: 991
Period size: 55 Copynumber: 14.1 Consensus size: 55
3164924 ATAGAACTAG
* * * *
3164934 ATCTTCAACAAACGTGTCCGCTCCCTA-TTCTTTCAGAGAGTATAGGACTTGAACAA
1 ATCTTCAACAATCGTGTCTGCTCCCTATTTC-TTCAGAGAGTATAAGACTCGAAC-A
* * * * * * *
3164990 ATCTTCAACAAACGTGTCCGCTCCTTATTCCTTCAGAGAGTTTAGGATTCG----
1 ATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACA
* * * *
3165041 ATCTTCAACAAACGTGTCAGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAATA
1 ATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACA
** * *
3165096 ATCTTCAACAAATCGTGTCTGCTCTTTATTCCTTCAGAGAGTATAAGACTCGAATA
1 ATCTTCAAC-AATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACA
* * * *
3165152 ATCTTTAACAAACGTGTCTACTCCCTATTTCTT-TGAGAGTATAAGACTCGAACA
1 ATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACA
*
3165206 ATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCAAACA
1 ATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACA
* * *
3165261 ATCTTCAACAATCGTGTTTGCTCCCTATTTTTTCAGAGAGTATAAGACTCAAACA
1 ATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACA
* *
3165316 ATCTTCAACAATCGTGTCTGCTCCTTATTTCTTCAGAGAGTATAAGACTCGAATA
1 ATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACA
** * ** * *
3165371 ATCTTCTGCAATCGCGTCTGCTCCCTATCCCTTCAAAGAGTATAAGTCTCGAACA
1 ATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACA
* * *
3165426 ATCTTCAACAATCGTGTTTGCTCCCTATTTTTTCAGAGAGTATAGGACTCGAACA
1 ATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACA
* * ** *
3165481 ATCTTCAACAAACGTGACTGCTCCCTATTTCTTCAGAGACCATAAGACTCGAATA
1 ATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACA
* * * *
3165536 ATCTTCTATAATTGTGTCTGCT-CCTATTTCTTCAGAGAGTATAAGACTCGAGCA
1 ATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACA
* *
3165590 ATCTTCAACAATCGTGCCTACTCCCTATTTCTTCAGAGAGTATAAGACTCGAACA
1 ATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACA
* * *
3165645 ATCTTCAACAATCGTGTCTGCTCTCTATTCCTTCAGAGAGTATAAGACTCGAATA
1 ATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACA
3165700 ATCTTC
1 ATCTTC
3165706 TGCAATCGGG
Statistics
Matches: 627, Mismatches: 81, Indels: 17
0.86 0.11 0.02
Matches are distributed among these distances:
51 46 0.07
54 94 0.15
55 392 0.63
56 93 0.15
57 2 0.00
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.32
Consensus pattern (55 bp):
ATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACA
Found at i:3170350 original size:13 final size:13
Alignment explanation
Indices: 3170332--3170370 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
3170322 CATGCGATGC
3170332 AAATGCTAAATGT
1 AAATGCTAAATGT
*
3170345 AAATGCTAAATGC
1 AAATGCTAAATGT
* *
3170358 AAGTGCAAAATGT
1 AAATGCTAAATGT
3170371 GTTAATTCCA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.46, C:0.10, G:0.18, T:0.26
Consensus pattern (13 bp):
AAATGCTAAATGT
Found at i:3170807 original size:55 final size:54
Alignment explanation
Indices: 3170719--3170859 Score: 192
Period size: 55 Copynumber: 2.6 Consensus size: 54
3170709 CAACTTCAAA
** * * **
3170719 CTTCATTCATCGGAGTCTTTCTTCATGGATCGTTCTTCAATCAATTTCAGTTTT
1 CTTCATTCATCGGAGTCCATCTTCATGAATCGTTCTTCAATCAAGTTCAAATTT
3170773 CTTCATTCATCGGATGTCCATCTTCATGAATCGTTCTTCAATCAAGTTCAAATTT
1 CTTCATTCATCGGA-GTCCATCTTCATGAATCGTTCTTCAATCAAGTTCAAATTT
* *
3170828 CTTCATTCATCGGACGTCCCTCTTTATGAATC
1 CTTCATTCATCGGA-GTCCATCTTCATGAATC
3170860 ACTTGAATGT
Statistics
Matches: 77, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
54 14 0.18
55 63 0.82
ACGTcount: A:0.21, C:0.25, G:0.12, T:0.42
Consensus pattern (54 bp):
CTTCATTCATCGGAGTCCATCTTCATGAATCGTTCTTCAATCAAGTTCAAATTT
Found at i:3172827 original size:17 final size:16
Alignment explanation
Indices: 3172797--3172959 Score: 52
Period size: 17 Copynumber: 10.0 Consensus size: 16
3172787 ATTGGACCTG
* *
3172797 AAAATAAAAAATATTTA
1 AAAATAATATATA-TTA
3172814 AAAATAATATATATTA
1 AAAATAATATATATTA
* *
3172830 ATAAT-ATATATAATA
1 AAAATAATATATATTA
* * *
3172845 ATATATACTGAGATATT-
1 A-AAATAAT-ATATATTA
***
3172862 ATTTTAA-ATATATCTA
1 AAAATAATATATAT-TA
* *
3172878 TAATATAATAT-TTTTA
1 -AAAATAATATATATTA
3172894 AATAATATATATATATT-
1 AA-AATA-ATATATATTA
3172911 AAAATAATATACCTATT-
1 AAAATAATATA--TATTA
** *
3172928 ATTAT-ATATATATTTT
1 AAAATAATATATA-TTA
3172944 AAAATAATATATATTA
1 AAAATAATATATATTA
3172960 CAATATATAT
Statistics
Matches: 108, Mismatches: 23, Indels: 31
0.67 0.14 0.19
Matches are distributed among these distances:
14 7 0.06
15 20 0.19
16 31 0.29
17 40 0.37
18 10 0.09
ACGTcount: A:0.53, C:0.02, G:0.01, T:0.44
Consensus pattern (16 bp):
AAAATAATATATATTA
Found at i:3172908 original size:29 final size:29
Alignment explanation
Indices: 3172868--3172996 Score: 80
Period size: 29 Copynumber: 4.7 Consensus size: 29
3172858 TATTATTTTA
*
3172868 AATATATCTATAATATAATATTTTTAAAT
1 AATATATATATAATATAATATTTTTAAAT
* * * * **
3172897 AATATATATATATTAAAATA-ATATACCT
1 AATATATATATAATATAATATTTTTAAAT
*
3172925 -AT-TAT-TAT-ATAT-ATATTTTAAAAT
1 AATATATATATAATATAATATTTTTAAAT
*
3172949 AATATATATTACAATAT-ATATTTTT-AAT
1 AATATATA-TATAATATAATATTTTTAAAT
*
3172977 -ATATA-ATAATAATAAAATAT
1 AATATATAT-ATAATATAATAT
3172997 GTCATAATAA
Statistics
Matches: 74, Mismatches: 18, Indels: 18
0.67 0.16 0.16
Matches are distributed among these distances:
23 3 0.04
24 5 0.07
25 6 0.08
26 12 0.16
27 11 0.15
28 9 0.12
29 28 0.38
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (29 bp):
AATATATATATAATATAATATTTTTAAAT
Found at i:3172967 original size:33 final size:32
Alignment explanation
Indices: 3172869--3172969 Score: 100
Period size: 33 Copynumber: 3.1 Consensus size: 32
3172859 ATTATTTTAA
* * *
3172869 ATATATCTA-TAATATAATAT-TTTTAAATAAT
1 ATATATATATTAAAATAATATATATTAAAT-AT
*
3172900 ATATATATATTAAAATAATATACCTATT-ATTAT
1 ATATATATATTAAAATAATATA--TATTAAATAT
*
3172933 ATATATATTTTAAAATAATATATATTACAATAT
1 ATATATATATTAAAATAATATATATTA-AATAT
3172966 ATAT
1 ATAT
3172970 TTTTAATATA
Statistics
Matches: 58, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
31 12 0.21
32 10 0.17
33 31 0.53
34 2 0.03
35 3 0.05
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.47
Consensus pattern (32 bp):
ATATATATATTAAAATAATATATATTAAATAT
Found at i:3172996 original size:31 final size:31
Alignment explanation
Indices: 3172897--3172996 Score: 96
Period size: 31 Copynumber: 3.2 Consensus size: 31
3172887 ATTTTTAAAT
* * *
3172897 AATATATATATATTAAAATAATATACCTATTAT
1 AATATATATATTTTAAAATAATATA--TAATAA
* * *
3172930 TATATATATATTTTAAAATAATATATATTAC
1 AATATATATATTTTAAAATAATATATAATAA
3172961 AATATATAT-TTTTAATATATAATA-ATAATAA
1 AATATATATATTTTAA-A-ATAATATATAATAA
3172992 AATAT
1 AATAT
3172997 GTCATAATAA
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
30 6 0.10
31 24 0.41
32 6 0.10
33 23 0.39
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (31 bp):
AATATATATATTTTAAAATAATATATAATAA
Found at i:3173020 original size:17 final size:15
Alignment explanation
Indices: 3172985--3173017 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
3172975 ATATATAATA
*
3172985 ATAATAAAATATGTC
1 ATAATAAAAAATGTC
3173000 ATAATAAAAAATGTC
1 ATAATAAAAAATGTC
3173015 ATA
1 ATA
3173018 TAACATATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.30
Consensus pattern (15 bp):
ATAATAAAAAATGTC
Found at i:3173456 original size:40 final size:40
Alignment explanation
Indices: 3173412--3173635 Score: 109
Period size: 40 Copynumber: 5.5 Consensus size: 40
3173402 TACTCTTCTT
*
3173412 TCTAAAGGATGATGAA-TCTTGGGACGATCTTACTTATTCC
1 TCTAAAGGATGAT-AAGTCATGGGACGATCTTACTTATTCC
* * * * **
3173452 TCTAAAGGGTGCTAAGTCATGTGACGATCTTACTTCTTTT
1 TCTAAAGGATGATAAGTCATGGGACGATCTTACTTATTCC
* *** * * *
3173492 TCTAAAGGATGTTAAGTC-TCAAACGATGGGTGA-TTCGCTTCTC
1 TCTAAAGGATGATAAGTCATGGGACGAT--CTTACTT--ATTC-C
* * * * *
3173535 TTTCTGAAGGATGCTGATTC-TGGGGACGATCTTACTCATTCC
1 --TCTAAAGGATGATAAGTCAT-GGGACGATCTTACTTATTCC
* *
3173577 TCTAAAGGATGCTAAGTCATGTGACGATCTTACTCT-TTCC
1 TCTAAAGGATGATAAGTCATGGGACGATCTTACT-TATTCC
*
3173617 TCTGAAGGATGCA-AAGTCA
1 TCTAAAGGATG-ATAAGTCA
3173636 CAATCGATGG
Statistics
Matches: 137, Mismatches: 34, Indels: 26
0.70 0.17 0.13
Matches are distributed among these distances:
39 8 0.06
40 96 0.70
41 3 0.02
42 4 0.03
43 3 0.02
44 2 0.01
45 16 0.12
46 5 0.04
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.34
Consensus pattern (40 bp):
TCTAAAGGATGATAAGTCATGGGACGATCTTACTTATTCC
Found at i:3173590 original size:125 final size:125
Alignment explanation
Indices: 3173408--3173763 Score: 396
Period size: 125 Copynumber: 2.9 Consensus size: 125
3173398 GATCTACTCT
* * * *
3173408 TCTTTCTAAAGGATGATGAATCTTGGGACGATCTTACTTATTCCTCTAAAGGGTGCTAAGTCATG
1 TCTTTCTGAAGGATGCTGAATCTCGGGACGATCTTACTTATTCCTCTAAAGGATGCTAAGTCATG
* ** * ***
3173473 TGACGATCTTACTTCTTT-TTCTAAAGGATGTTAAGTCTCAAACGATGGGTGAT-TCGCTTC
66 TGACGATCTTACTTCTTTCCTCTAAAGGATGCAAAGTCACAAACGATGGACAATCT-G-TTC
* * *
3173533 TCTTTCTGAAGGATGCTGATTCTGGGGACGATCTTACTCATTCCTCTAAAGGATGCTAAGTCATG
1 TCTTTCTGAAGGATGCTGAATCTCGGGACGATCTTACTTATTCCTCTAAAGGATGCTAAGTCATG
* *
3173598 TGACGATCTTAC-TCTTTCCTCTGAAGGATGCAAAGTCACAATCGATGGACAATCTGTTC
66 TGACGATCTTACTTCTTTCCTCTAAAGGATGCAAAGTCACAAACGATGGACAATCTGTTC
* * ** * * *
3173657 TGTTTTTTGAAGGATGCTGAATCTCGACAAGATCTTTCTTATTCCTCTAAAGGATGCTAAGTCGT
1 T-CTTTCTGAAGGATGCTGAATCTCGGGACGATCTTACTTATTCCTCTAAAGGATGCTAAGTCAT
* * * * * *
3173722 GAGACGATCTTACTAC-TACCTATGAAGGATGCTAAGTCACAA
65 GTGACGATCTTACTTCTTTCCTCTAAAGGATGCAAAGTCACAA
3173764 CCGGTGGGGT
Statistics
Matches: 197, Mismatches: 30, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
124 9 0.05
125 186 0.94
126 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (125 bp):
TCTTTCTGAAGGATGCTGAATCTCGGGACGATCTTACTTATTCCTCTAAAGGATGCTAAGTCATG
TGACGATCTTACTTCTTTCCTCTAAAGGATGCAAAGTCACAAACGATGGACAATCTGTTC
Found at i:3176135 original size:18 final size:17
Alignment explanation
Indices: 3176112--3176147 Score: 63
Period size: 18 Copynumber: 2.1 Consensus size: 17
3176102 TTTGAAAGAT
3176112 TTAAACGTGAATCAGAAA
1 TTAAACGTGAATCA-AAA
3176130 TTAAACGTGAATCAAAA
1 TTAAACGTGAATCAAAA
3176147 T
1 T
3176148 AAATATAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.50, C:0.11, G:0.14, T:0.25
Consensus pattern (17 bp):
TTAAACGTGAATCAAAA
Found at i:3177684 original size:21 final size:21
Alignment explanation
Indices: 3177632--3177692 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
3177622 TCTGGATTTC
* *
3177632 TGGTTTCGATACCAAACCTCT
1 TGGTTTCAATACCAAACCCCT
* * *
3177653 CGATTTTAATACCAAACCCCT
1 TGGTTTCAATACCAAACCCCT
*
3177674 TGGTTTCAATACTAAACCC
1 TGGTTTCAATACCAAACCC
3177693 TTAGTATTGA
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.30, C:0.30, G:0.10, T:0.31
Consensus pattern (21 bp):
TGGTTTCAATACCAAACCCCT
Found at i:3180799 original size:20 final size:20
Alignment explanation
Indices: 3180776--3180829 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
3180766 CCTCTCTTAA
* *
3180776 GTATTGATACCCTACCCAAG
1 GTATCGATACCCCACCCAAG
3180796 GTATCGATACCCCACCCAAG
1 GTATCGATACCCCACCCAAG
3180816 GTATCGATACCCCA
1 GTATCGATACCCCA
3180830 ATATTGATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.30, C:0.35, G:0.15, T:0.20
Consensus pattern (20 bp):
GTATCGATACCCCACCCAAG
Found at i:3181151 original size:22 final size:22
Alignment explanation
Indices: 3181123--3181171 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
3181113 TTTATACACG
3181123 AATTTGACCTTCAAACTACCCA
1 AATTTGACCTTCAAACTACCCA
*
3181145 AATTTGACCTTTAAACTACCCA
1 AATTTGACCTTCAAACTACCCA
3181167 AATTT
1 AATTT
3181172 CTTACATTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.37, C:0.27, G:0.04, T:0.33
Consensus pattern (22 bp):
AATTTGACCTTCAAACTACCCA
Found at i:3181717 original size:3 final size:3
Alignment explanation
Indices: 3181711--3181743 Score: 50
Period size: 3 Copynumber: 11.0 Consensus size: 3
3181701 TATTGAGGAG
3181711 GAA GAA GAA GAA GAA GAGA GAA -AA GAA GAA GAA
1 GAA GAA GAA GAA GAA GA-A GAA GAA GAA GAA GAA
3181744 ATAGAAGAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 23 0.82
4 3 0.11
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:3181736 original size:12 final size:11
Alignment explanation
Indices: 3181711--3181751 Score: 55
Period size: 12 Copynumber: 3.5 Consensus size: 11
3181701 TATTGAGGAG
3181711 GAAGAAGAAGAA
1 GAAGAAGAA-AA
3181723 GAAGAGAGAAAA
1 GAAGA-AGAAAA
3181735 GAAGAAGAAATA
1 GAAGAAGAAA-A
3181747 GAAGA
1 GAAGA
3181752 GTGTTTTGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
11 5 0.19
12 18 0.67
13 4 0.15
ACGTcount: A:0.66, C:0.00, G:0.32, T:0.02
Consensus pattern (11 bp):
GAAGAAGAAAA
Found at i:3183958 original size:24 final size:25
Alignment explanation
Indices: 3183908--3183964 Score: 107
Period size: 25 Copynumber: 2.3 Consensus size: 25
3183898 ATTCGTCGGA
3183908 TTTAAT-TGCTCTTGTCACTTGCTT
1 TTTAATCTGCTCTTGTCACTTGCTT
3183932 TTTAATCTGCTCTTGTCACTTGCTT
1 TTTAATCTGCTCTTGTCACTTGCTT
3183957 TTTAATCT
1 TTTAATCT
3183965 CGAAGGATCT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 6 0.19
25 26 0.81
ACGTcount: A:0.14, C:0.21, G:0.11, T:0.54
Consensus pattern (25 bp):
TTTAATCTGCTCTTGTCACTTGCTT
Found at i:3189043 original size:2 final size:2
Alignment explanation
Indices: 3189036--3189066 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
3189026 ATACGACCCG
3189036 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3189067 GGGTCATATC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3191358 original size:21 final size:21
Alignment explanation
Indices: 3191327--3191379 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
3191317 GCGTTGCATT
3191327 TCGCG-TGCGATAGTTGGAAA
1 TCGCGTTGCGATAGTTGGAAA
3191347 TCGCGTTGCGATAGTTGGAAA
1 TCGCGTTGCGATAGTTGGAAA
3191368 TCGCGTTGCGAT
1 TCGCGTTGCGAT
3191380 GGTCTACAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 5 0.16
21 27 0.84
ACGTcount: A:0.21, C:0.17, G:0.34, T:0.28
Consensus pattern (21 bp):
TCGCGTTGCGATAGTTGGAAA
Found at i:3191435 original size:20 final size:20
Alignment explanation
Indices: 3191410--3191460 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
3191400 TTTTCCCAAT
*
3191410 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGGAAA
* **
3191430 TCGCAACGCGAATTGGGAAA
1 TCGCAATGCGAATAAGGAAA
3191450 TCGCAATGCGA
1 TCGCAATGCGA
3191461 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.37, C:0.20, G:0.25, T:0.18
Consensus pattern (20 bp):
TCGCAATGCGAATAAGGAAA
Found at i:3191472 original size:20 final size:20
Alignment explanation
Indices: 3191449--3191562 Score: 86
Period size: 20 Copynumber: 5.7 Consensus size: 20
3191439 GAATTGGGAA
*
3191449 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * *
3191469 ATCGTAATGCGATACTTATT
1 ATCGCAACGCGATACTGACT
* * *
3191489 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
*
3191510 ATCGCAACGAGATACTGACT
1 ATCGCAACGCGATACTGACT
* * *
3191530 TTTGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
3191550 TTCGCAACGCGAT
1 ATCGCAACGCGAT
3191563 TTACATAGCG
Statistics
Matches: 75, Mismatches: 16, Indels: 6
0.77 0.16 0.06
Matches are distributed among these distances:
19 1 0.01
20 59 0.79
21 13 0.17
22 2 0.03
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:3192146 original size:19 final size:19
Alignment explanation
Indices: 3192124--3192174 Score: 93
Period size: 19 Copynumber: 2.7 Consensus size: 19
3192114 GAAACCAAAA
*
3192124 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
3192143 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
3192162 TCGCGTTGCGATT
1 TCGCGTTGCGATT
3192175 CTCTCGTCGC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:3192194 original size:33 final size:33
Alignment explanation
Indices: 3192157--3192244 Score: 140
Period size: 33 Copynumber: 2.6 Consensus size: 33
3192147 GTTGCGATTT
*
3192157 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCACGATAG
* *
3192190 TCATTTTGCGTTGCGATTCTCTCGTTACGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCACGATAG
3192223 TCATTTCCGCGTTGCGATTCTC
1 TCATTT-CGCGTTGCGATTCTC
3192245 ATTATCTCGC
Statistics
Matches: 50, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
33 36 0.72
34 14 0.28
ACGTcount: A:0.12, C:0.26, G:0.22, T:0.40
Consensus pattern (33 bp):
TCATTTCGCGTTGCGATTCTCTCGTCACGATAG
Found at i:3194067 original size:92 final size:87
Alignment explanation
Indices: 3193913--3194093 Score: 240
Period size: 90 Copynumber: 2.0 Consensus size: 87
3193903 TTAGATGCTT
3193913 AGTAAATTATTCGGTTGCTGCAAATACTGCTAAACTGTTTATTAACACTGTGAAGTTAGTATTTG
1 AGTAAATTATTCGGTTGCTGC-AATACTGCTAAACTGTTTATTAACACTGTGAAGTTAGTATTTG
*
3193978 TCTTTTTGTTTTGT-TTTTGTTTGA
65 TC--TTTGTTTTGTCTTTTGGTTGA
* * *
3194002 AGTAAATTTATTCGGTTGCTGC-CTTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGTA
1 AGTAAA-TTATTCGGTTGCTGCAATACTGCTAAAC--TGT-TT-ATTAACACTGTGAAGTTAGTA
3194066 TTTGTCTTTGTTTTGTCTTTTGGTTGA
61 TTTGTCTTTGTTTTGTCTTTTGGTTGA
3194093 A
1 A
3194094 AGTTGAAATA
Statistics
Matches: 82, Mismatches: 4, Indels: 10
0.85 0.04 0.10
Matches are distributed among these distances:
88 10 0.12
89 6 0.07
90 28 0.34
91 12 0.15
92 26 0.32
ACGTcount: A:0.22, C:0.12, G:0.19, T:0.48
Consensus pattern (87 bp):
AGTAAATTATTCGGTTGCTGCAATACTGCTAAACTGTTTATTAACACTGTGAAGTTAGTATTTGT
CTTTGTTTTGTCTTTTGGTTGA
Found at i:3194430 original size:42 final size:42
Alignment explanation
Indices: 3194312--3194482 Score: 186
Period size: 42 Copynumber: 4.1 Consensus size: 42
3194302 GACTCGCCTG
* *
3194312 TCATCCCTCAAGAGT-CACTCCTATCGTTGAAGAGGCCCCTA
1 TCATCCCTCAAGAGTCCACTCCTATCGTTCAAGAGGCCACTA
* * * *
3194353 TCATTCCTCGAGAGTCCCCT-CTCA-CGTTCAAGAGGCCACTG
1 TCATCCCTCAAGAGTCCACTCCT-ATCGTTCAAGAGGCCACTA
* *
3194394 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATCCCTCAAGAGTCCACTCCTATCGTTCAAGAGGCCACTA
* * * * * *
3194436 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTT
1 TCATCCCTCAAGAGTCCACTCCTATCGTTCAAGAGGCCACTA
3194478 TCATC
1 TCATC
3194483 GTTGAAGAGG
Statistics
Matches: 105, Mismatches: 21, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
41 47 0.45
42 58 0.55
ACGTcount: A:0.22, C:0.37, G:0.17, T:0.25
Consensus pattern (42 bp):
TCATCCCTCAAGAGTCCACTCCTATCGTTCAAGAGGCCACTA
Found at i:3194447 original size:83 final size:83
Alignment explanation
Indices: 3194309--3194482 Score: 314
Period size: 83 Copynumber: 2.1 Consensus size: 83
3194299 CCCGACTCGC
3194309 CTGTCATCCCTCAAGAGTCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCTC
1 CTGTCATCCCTCAAGAGTCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCTC
*
3194374 TCA-CGTTCAAGAGGCCA
66 CCACCGTTCAAGAGGCCA
3194391 CTGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
1 CTGTCATCCCTCAAGAGT-CACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
3194456 CCCACCGTTCAAGAGGCCA
65 CCCACCGTTCAAGAGGCCA
*
3194475 CTTTCATC
1 CTGTCATC
3194483 GTTGAAGAGG
Statistics
Matches: 88, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
82 18 0.20
83 49 0.56
84 21 0.24
ACGTcount: A:0.21, C:0.37, G:0.17, T:0.25
Consensus pattern (83 bp):
CTGTCATCCCTCAAGAGTCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCTC
CCACCGTTCAAGAGGCCA
Found at i:3194485 original size:21 final size:21
Alignment explanation
Indices: 3194377--3194492 Score: 56
Period size: 21 Copynumber: 5.5 Consensus size: 21
3194367 TCCCCTCTCA
*
3194377 CGTTCAAGAGGCCACTGTCAT
1 CGTTCAAGAGGCCACTTTCAT
** * *
3194398 CCCTCAAGAGTCCAC-TCCTAT
1 CGTTCAAGAGGCCACTTTC-AT
* * *
3194419 CGTTGAAGAGGCCCCTATCATT
1 CGTTCAAGAGGCCACTTTCA-T
* * * * ** *
3194441 C-CTCGAGAGTCCCCTCCCAC
1 CGTTCAAGAGGCCACTTTCAT
3194461 CGTTCAAGAGGCCACTTTCAT
1 CGTTCAAGAGGCCACTTTCAT
*
3194482 CGTTGAAGAGG
1 CGTTCAAGAGG
3194493 TCCCTCCCCC
Statistics
Matches: 64, Mismatches: 27, Indels: 8
0.65 0.27 0.08
Matches are distributed among these distances:
20 2 0.03
21 59 0.92
22 3 0.05
ACGTcount: A:0.22, C:0.34, G:0.21, T:0.23
Consensus pattern (21 bp):
CGTTCAAGAGGCCACTTTCAT
Found at i:3194498 original size:42 final size:41
Alignment explanation
Indices: 3194312--3194512 Score: 138
Period size: 42 Copynumber: 4.8 Consensus size: 41
3194302 GACTCGCCTG
* * * * * * *
3194312 TCATCCCTCAAGAGTCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATCCTTGAAGAGTCCCTCCCACCGTTCAAGAGGCCACTA
* * *
3194353 TCATTCCTCG-AGAGTCCCCTCTCA-CGTTCAAGAGGCCACTG
1 TCA-TCCTTGAAGAGT-CCCTCCCACCGTTCAAGAGGCCACTA
* * * * * *
3194394 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATCCTTGAAGAGTCC-CTCCCACCGTTCAAGAGGCCACTA
* *
3194436 TCATTCCTCG-AGAGTCCCCTCCCACCGTTCAAGAGGCCACTT
1 TCA-TCCTTGAAGAGT-CCCTCCCACCGTTCAAGAGGCCACTA
* * *
3194478 TCATCGTTGAAGAGGTCCCTCCCCCCATTCAAGAG
1 TCATCCTTGAAGA-GTCCCTCCCACCGTTCAAGAG
3194513 CCCGATCACA
Statistics
Matches: 122, Mismatches: 29, Indels: 17
0.73 0.17 0.10
Matches are distributed among these distances:
40 5 0.04
41 38 0.31
42 72 0.59
43 7 0.06
ACGTcount: A:0.22, C:0.36, G:0.18, T:0.24
Consensus pattern (41 bp):
TCATCCTTGAAGAGTCCCTCCCACCGTTCAAGAGGCCACTA
Found at i:3195864 original size:14 final size:14
Alignment explanation
Indices: 3195845--3195880 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
3195835 GATTGTTTAT
3195845 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
3195859 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
3195873 TGATTTGT
1 TGATTTGT
3195881 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:3196017 original size:19 final size:19
Alignment explanation
Indices: 3195993--3196031 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
3195983 CTATCACAAT
3195993 GCGAAATGAAAATCGCAAC
1 GCGAAATGAAAATCGCAAC
3196012 GCGAAATGAAAATCGCAAC
1 GCGAAATGAAAATCGCAAC
3196031 G
1 G
3196032 AGTGAATCGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.46, C:0.21, G:0.23, T:0.10
Consensus pattern (19 bp):
GCGAAATGAAAATCGCAAC
Found at i:3196166 original size:33 final size:33
Alignment explanation
Indices: 3196060--3196184 Score: 191
Period size: 32 Copynumber: 3.8 Consensus size: 33
3196050 ATTAAATTCG
*
3196060 CGTTGCGATTTTCATTTCGCA-TGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
** **
3196092 CGTTGCGATTTTCATTTCGCATTGCGA-AATAG
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
3196124 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
3196157 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
3196185 AGTAATTTCC
Statistics
Matches: 82, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
32 48 0.59
33 34 0.41
ACGTcount: A:0.15, C:0.23, G:0.20, T:0.42
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
Found at i:3196169 original size:65 final size:64
Alignment explanation
Indices: 3196059--3196183 Score: 232
Period size: 65 Copynumber: 1.9 Consensus size: 64
3196049 AATTAAATTC
3196059 GCGTTGCGATTTTCATTTCGCATGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGCGAAATA
1 GCGTTGCGATTTTCATTTCGCATGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGCGAAATA
*
3196123 GCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGA
1 GCGTTGCGATTTTCATTTCGCA-TGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGCGA
3196184 TAGTAATTTC
Statistics
Matches: 59, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
64 22 0.37
65 37 0.63
ACGTcount: A:0.15, C:0.23, G:0.21, T:0.41
Consensus pattern (64 bp):
GCGTTGCGATTTTCATTTCGCATGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGCGAAATA
Found at i:3198668 original size:24 final size:23
Alignment explanation
Indices: 3198634--3198686 Score: 70
Period size: 24 Copynumber: 2.3 Consensus size: 23
3198624 CTGAAACATC
*
3198634 ATCAAAATCCGAGTATTGACCAAT
1 ATCAAAATCCGAGTATTGA-CAAG
* *
3198658 ATCAAAGTCCGGGTATTGACAAG
1 ATCAAAATCCGAGTATTGACAAG
3198681 ATCAAA
1 ATCAAA
3198687 TTTCGAATAC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 9 0.35
24 17 0.65
ACGTcount: A:0.42, C:0.19, G:0.17, T:0.23
Consensus pattern (23 bp):
ATCAAAATCCGAGTATTGACAAG
Found at i:3199532 original size:20 final size:20
Alignment explanation
Indices: 3199499--3199577 Score: 61
Period size: 20 Copynumber: 3.9 Consensus size: 20
3199489 AATTTGGAAA
* *
3199499 ATCGCAATGCGATACTGACT
1 ATCGCAACGAGATACTGACT
* *
3199519 ATCGCAACGAGATAAT-ACAAA
1 ATCGCAACGAGATACTGAC--T
*
3199540 ATCGCAACGAGATTCTGACT
1 ATCGCAACGAGATACTGACT
* * *
3199560 TTCGTAACGAGATTCTGA
1 ATCGCAACGAGATACTGA
3199578 AAATTGCAAT
Statistics
Matches: 47, Mismatches: 9, Indels: 6
0.76 0.15 0.10
Matches are distributed among these distances:
19 2 0.04
20 29 0.62
21 14 0.30
22 2 0.04
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.24
Consensus pattern (20 bp):
ATCGCAACGAGATACTGACT
Found at i:3199893 original size:19 final size:19
Alignment explanation
Indices: 3199863--3199910 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
3199853 CGATTTCTCG
3199863 TTGCGA-TTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
3199881 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
3199900 TTGCGATTTTC
1 TTGCGATTTTC
3199911 TCGTTGCGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
18 6 0.21
19 23 0.79
ACGTcount: A:0.15, C:0.21, G:0.17, T:0.48
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:3201527 original size:21 final size:20
Alignment explanation
Indices: 3201503--3201562 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 20
3201493 GAACGGTGGG
3201503 GGGGACTCTTGAGGGA-GGATA
1 GGGGACTCTTGAGGGATGG--A
* **
3201524 GGGGCCTCTTGAACGATTGGA
1 GGGGACTCTTGAGGGA-TGGA
3201545 GGGGACTCTTGAGGGATG
1 GGGGACTCTTGAGGGATG
3201563 ACAGGTGAGT
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
20 2 0.06
21 27 0.87
23 2 0.06
ACGTcount: A:0.20, C:0.13, G:0.45, T:0.22
Consensus pattern (20 bp):
GGGGACTCTTGAGGGATGGA
Found at i:3202011 original size:14 final size:14
Alignment explanation
Indices: 3201992--3202049 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
3201982 ATGGGAAATG
3201992 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
3202006 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
3202022 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
3202038 AAAATCGCAACG
1 AAAATCGCAACG
3202050 CGAAACACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.24, G:0.17, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:3202034 original size:32 final size:33
Alignment explanation
Indices: 3201943--3202054 Score: 163
Period size: 33 Copynumber: 3.4 Consensus size: 33
3201933 GAAAATGACT
* *
3201943 ATCGCAACGTGAAATGAAAATTGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
* * *
3201976 ATTGCAATGGGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
*
3202009 ATCGCAATGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
3202041 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
3202055 CACAAATCGC
Statistics
Matches: 72, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
32 29 0.40
33 43 0.60
ACGTcount: A:0.47, C:0.20, G:0.20, T:0.13
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:3202083 original size:19 final size:19
Alignment explanation
Indices: 3202061--3202142 Score: 104
Period size: 18 Copynumber: 4.6 Consensus size: 19
3202051 GAAACACAAA
3202061 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
3202080 TCGCGTTGCGA-TTTCATT
1 TCGCATTGCGATTTTCATT
*
3202098 TCGCATTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
3202114 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
3202131 TCGCATTGCGAT
1 TCGCATTGCGAT
3202143 AGCCATTCCG
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
14 6 0.11
15 3 0.06
16 4 0.07
17 4 0.07
18 20 0.37
19 17 0.31
ACGTcount: A:0.13, C:0.21, G:0.21, T:0.45
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:3202149 original size:19 final size:19
Alignment explanation
Indices: 3202127--3202169 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
3202117 TTGCGATTTT
3202127 CATTTCGCATTGCGATAGC
1 CATTTCGCATTGCGATAGC
* * *
3202146 CATTCCGCGTTGCGATAGT
1 CATTTCGCATTGCGATAGC
3202165 CATTT
1 CATTT
3202170 TCGTGTTGCG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.19, C:0.26, G:0.21, T:0.35
Consensus pattern (19 bp):
CATTTCGCATTGCGATAGC
Found at i:3202674 original size:18 final size:18
Alignment explanation
Indices: 3202648--3202692 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
3202638 GTCGATCAGA
*
3202648 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
3202666 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
3202684 TGATGGCTC
1 TGATGGCTC
3202693 CCGAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:3204017 original size:19 final size:19
Alignment explanation
Indices: 3203993--3204033 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
3203983 GATAGTTTCT
3203993 GAAATGAAAATCGCAACAC
1 GAAATGAAAATCGCAACAC
** *
3204012 GAAATGACTATCGCAACGC
1 GAAATGAAAATCGCAACAC
3204031 GAA
1 GAA
3204034 TTTGACTATC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.46, C:0.22, G:0.20, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACAC
Found at i:3204041 original size:20 final size:19
Alignment explanation
Indices: 3204002--3204047 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
3203992 TGAAATGAAA
3204002 ATCGCAACACGAAATGACT
1 ATCGCAACACGAAATGACT
* *
3204021 ATCGCAACGCGAATTTGACT
1 ATCGCAACACGAA-ATGACT
3204041 ATCGCAA
1 ATCGCAA
3204048 TGAGAGAATC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 12 0.50
20 12 0.50
ACGTcount: A:0.37, C:0.26, G:0.17, T:0.20
Consensus pattern (19 bp):
ATCGCAACACGAAATGACT
Found at i:3204337 original size:22 final size:22
Alignment explanation
Indices: 3204310--3204353 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
3204300 GATGGAGATA
3204310 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
* *
3204332 GACGGATTTTGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
3204354 TGAGAGAGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.18, C:0.14, G:0.45, T:0.23
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:3204584 original size:20 final size:20
Alignment explanation
Indices: 3204536--3204647 Score: 82
Period size: 20 Copynumber: 5.5 Consensus size: 20
3204526 GATTATGTAT
*
3204536 TATCGCGTTACGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
3204556 AATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
* ** *
3204576 TATCTCGTTGCGATTTTGT-AT
1 TATCGCGTTGCGA--AAGTCAG
* * *
3204597 TATCGCATTGCGATAGTAAG
1 TATCGCGTTGCGAAAGTCAG
* * *
3204617 TATCACATTGCGATAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
3204637 TATCGCATTGC
1 TATCGCGTTGC
3204648 AATTTTCTCA
Statistics
Matches: 75, Mismatches: 14, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
19 3 0.04
20 58 0.77
21 12 0.16
22 2 0.03
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:3204653 original size:61 final size:61
Alignment explanation
Indices: 3204516--3204653 Score: 168
Period size: 61 Copynumber: 2.3 Consensus size: 61
3204506 GCGCTTGAAA
* * * * *
3204516 ATCGCATTGCGATTATGTATTATCGCGTTACGAAAGTCAGAATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATTTTGTATTATCGCATTACGAAAGTAAGAATCACATTGCGAAAGTCAGT
* * * * * *
3204577 ATCTCGTTGCGATTTTGTATTATCGCATTGCGATAGTAAGTATCACATTGCGATAGTCAGT
1 ATCGCATTGCGATTTTGTATTATCGCATTACGAAAGTAAGAATCACATTGCGAAAGTCAGT
*
3204638 ATCGCATTGCAATTTT
1 ATCGCATTGCGATTTT
3204654 CTCAATTCGC
Statistics
Matches: 63, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
61 63 1.00
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.35
Consensus pattern (61 bp):
ATCGCATTGCGATTTTGTATTATCGCATTACGAAAGTAAGAATCACATTGCGAAAGTCAGT
Found at i:3206580 original size:27 final size:27
Alignment explanation
Indices: 3206526--3206582 Score: 71
Period size: 27 Copynumber: 2.0 Consensus size: 27
3206516 AAATTATTAG
*
3206526 TAAAATAATAATAATAATATATTAATA
1 TAAAATAATAATAATAATATAATAATA
3206553 TAAAATAATAATATATCAA-ATAATATATA
1 TAAAATAATAATA-AT-AATATAATA-ATA
3206582 T
1 T
3206583 TTTAATCCCG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
27 13 0.50
28 7 0.27
29 6 0.23
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (27 bp):
TAAAATAATAATAATAATATAATAATA
Found at i:3206907 original size:54 final size:55
Alignment explanation
Indices: 3206843--3207437 Score: 661
Period size: 54 Copynumber: 11.1 Consensus size: 55
3206833 ATAGAACTAG
* * *
3206843 ATCTTCAACAAACGTGTCCGCTCCCTA-TT-TTCAGAGAGTATAGGACTTGAACAA
1 ATCTTCAACAAACGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAAC-A
* * * * * *
3206897 ATCTTCAACAAACGTGTCCGCT-CCTATTCCTTAAGAGAGTTTAGGATTCG----
1 ATCTTCAACAAACGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACA
* *
3206947 ATCTTC-ACAAACGTGTCAGCTCCCTA-TTCTTTCAGAGAGTATAAGACTCGAATA
1 ATCTTCAACAAACGTGTCTGCTCCCTATTTC-TTCAGAGAGTATAAGACTCGAACA
** * *
3207001 ATCTTCAACAAATCGTGT-TGCTCTTTATTCCTTCAGAG-GTATAAGACTCGAATA
1 ATCTTCAACAAA-CGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACA
* * * *
3207055 ATCTTTAACAAATGTGTCTACTCCCTATTTCTTC--TGAG-AT-AGACTCGAAC-
1 ATCTTCAACAAACGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACA
* *
3207105 ATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCAAACA
1 ATCTTCAACAAACGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACA
* * *
3207160 ATCTTCAACAATCGT-TTTGCTCCCTATTTCTTCAGAGAGTATAGGACTCGAACA
1 ATCTTCAACAAACGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACA
* * *
3207214 ATCTTCAACAAATGTGACTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAATA
1 ATCTTCAACAAACGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACA
*** ** *
3207269 ATC-TCTGTAATTGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAGCA
1 ATCTTCAACAAACGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACA
* * *
3207323 ATCTTCAACAATCGTGTCTACT-CCTATTTCTTCAGAGAGTATAAGACTCAAACA
1 ATCTTCAACAAACGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACA
* * * * *
3207377 ATCTTCAACAATCGTGTCTGCTCTCTATTCCTTCAGAGAGTATAAGACTTGAATA
1 ATCTTCAACAAACGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACA
3207432 ATCTTC
1 ATCTTC
3207438 TGCAATCGAG
Statistics
Matches: 462, Mismatches: 58, Indels: 41
0.82 0.10 0.07
Matches are distributed among these distances:
49 16 0.03
50 56 0.12
51 9 0.02
52 6 0.01
53 11 0.02
54 224 0.48
55 133 0.29
56 7 0.02
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (55 bp):
ATCTTCAACAAACGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACA
Found at i:3207241 original size:109 final size:111
Alignment explanation
Indices: 3206843--3207437 Score: 662
Period size: 109 Copynumber: 5.5 Consensus size: 111
3206833 ATAGAACTAG
* * * *
3206843 ATCTTCAACAAACGTGTCCGCTCCCTA-TT-TTCAGAGAGTATAGGACTTGAACAAATCTTCAAC
1 ATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAAC-AATCTTCAAC
* * * * * * *
3206906 AAA-CGTGTCCGCT-CCTATTCCTTAAGAGAGTTTAGGA-T---TCG
65 AAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCAAACA
* * *
3206947 ATCTTC-ACAAACGTGTCAGCTCCCTA-TTCTTTCAGAGAGTATAAGACTCGAATAATCTTCAAC
1 ATCTTCAACAATCGTGTCTGCTCCCTATTTC-TTCAGAGAGTATAAGACTCGAACAATCTTCAAC
** * * *
3207010 AAATCGTGT-TGCTCTTTATTCCTTCAGAG-GTATAAGACTCGAATA
65 AAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCAAACA
* * *
3207055 ATCTTTAACAAAT-GTGTCTACTCCCTATTTCTTC--TGAG-AT-AGACTCGAAC-ATCTTCAAC
1 ATCTTCAAC-AATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAAC
3207114 -AATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCAAACA
65 AAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCAAACA
* *
3207160 ATCTTCAACAATCGT-TTTGCTCCCTATTTCTTCAGAGAGTATAGGACTCGAACAATCTTCAACA
1 ATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACA
* * *
3207224 AAT-GTGACTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAATA
66 AATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCAAACA
*** * *
3207269 ATC-TCTGTAATTGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAGCAATCTTCAAC-
1 ATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACA
*
3207332 AATCGTGTCTACT-CCTATTTCTTCAGAGAGTATAAGACTCAAACA
66 AATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCAAACA
* * * *
3207377 ATCTTCAACAATCGTGTCTGCTCTCTATTCCTTCAGAGAGTATAAGACTTGAATAATCTTC
1 ATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTC
3207438 TGCAATCGAG
Statistics
Matches: 416, Mismatches: 52, Indels: 41
0.82 0.10 0.08
Matches are distributed among these distances:
103 29 0.07
104 73 0.18
105 71 0.17
106 5 0.01
107 5 0.01
108 57 0.14
109 168 0.40
110 8 0.02
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (111 bp):
ATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACA
AATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCAAACA
Found at i:3207329 original size:163 final size:163
Alignment explanation
Indices: 3206843--3207435 Score: 680
Period size: 163 Copynumber: 3.7 Consensus size: 163
3206833 ATAGAACTAG
* * * *
3206843 ATCTTCAACAAACGTGTCCGCTCCCTA-TT-TTCAGAGAGTATAGGACTTGAACAAATCTTCAAC
1 ATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAAC-AATCTTCAAC
* * * * * * * * *
3206906 AAACGTGTCCGCT-CCTATTCCTTAAGAGAGTTTAGGATTCG-AT-CT-TCACAAACGTGTCAGC
65 AAATGTGTCTGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAATAATCTCACAATCGTGTCTGC
*
3206967 TCCCTA-TTCTTTCAGAGAGTATAAGACTCGAATA
130 TCCCTATTTC-TTCAGAGAGTATAAGACTCGAACA
** * * *
3207001 ATCTTCAACAAATCGTGT-TGCTCTTTATTCCTTCAGAG-GTATAAGACTCGAATAATCTTTAAC
1 ATCTTCAAC-AATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAAC
* * * *
3207064 AAATGTGTCTACTCCCTATTTCTTC--TGAG-AT-AGACTCGAA-CATCTTCAACAATCGTGTCT
65 AAATGTGTCTGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAATAATC-TC-ACAATCGTGTCT
*
3207124 GCTCCCTATTTCTTCAGAGAGTATAAGACTCAAACA
128 GCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACA
* *
3207160 ATCTTCAACAATCGT-TTTGCTCCCTATTTCTTCAGAGAGTATAGGACTCGAACAATCTTCAACA
1 ATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACA
* * ** *
3207224 AATGTGACTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAATAATCTCTGTAATTGTGTCTGC
66 AATGTGTCTGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAATAATCTC-ACAATCGTGTCTGC
*
3207289 TCCCTATTTCTTCAGAGAGTATAAGACTCGAGCA
130 TCCCTATTTCTTCAGAGAGTATAAGACTCGAACA
* *
3207323 ATCTTCAACAATCGTGTCTACT-CCTATTTCTTCAGAGAGTATAAGACTCAAACAATCTTCAAC-
1 ATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACA
* *
3207386 AATCGTGTCTGCTCTCTATTCCTTCAGAGAGTATAAGACTTGAATAATCT
66 AAT-GTGTCTGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAATAATCT
3207436 TCTGCAATCG
Statistics
Matches: 369, Mismatches: 47, Indels: 33
0.82 0.10 0.07
Matches are distributed among these distances:
155 5 0.01
156 3 0.01
157 4 0.01
158 59 0.16
159 123 0.33
160 10 0.03
161 3 0.01
162 5 0.01
163 150 0.41
164 7 0.02
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.33
Consensus pattern (163 bp):
ATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACA
AATGTGTCTGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAATAATCTCACAATCGTGTCTGCT
CCCTATTTCTTCAGAGAGTATAAGACTCGAACA
Found at i:3212563 original size:13 final size:13
Alignment explanation
Indices: 3212545--3212569 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3212535 CATGCGATGC
3212545 AAATGCTAAATGT
1 AAATGCTAAATGT
3212558 AAATGCTAAATG
1 AAATGCTAAATG
3212570 CAAGTGCAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.16, T:0.28
Consensus pattern (13 bp):
AAATGCTAAATGT
Found at i:3212996 original size:55 final size:55
Alignment explanation
Indices: 3212932--3213072 Score: 194
Period size: 55 Copynumber: 2.6 Consensus size: 55
3212922 CAACTTCAAA
** * * **
3212932 CTTCATTCATCGGATGTCTTTCTTCATGGATCGTTCTTCAATCAATTTCAGTTTT
1 CTTCATTCATCGGATGTCCATCTTCATGAATCGTTCTTCAATCAAGTTCAAATTT
3212987 CTTCATTCATCGGATGTCCATCTTCATGAATCGTTCTTCAATCAAGTTCAAATTT
1 CTTCATTCATCGGATGTCCATCTTCATGAATCGTTCTTCAATCAAGTTCAAATTT
* * *
3213042 CTTCA-TCATCGGACGTCCCTCTTTATGAATC
1 CTTCATTCATCGGATGTCCATCTTCATGAATC
3213073 ACTTGAATGT
Statistics
Matches: 77, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
54 23 0.30
55 54 0.70
ACGTcount: A:0.21, C:0.25, G:0.12, T:0.42
Consensus pattern (55 bp):
CTTCATTCATCGGATGTCCATCTTCATGAATCGTTCTTCAATCAAGTTCAAATTT
Found at i:3215081 original size:18 final size:19
Alignment explanation
Indices: 3215058--3215125 Score: 54
Period size: 20 Copynumber: 3.6 Consensus size: 19
3215048 AAATATATCT
*
3215058 ATAATATAATAT-TTTTAA
1 ATAATATAATATATATTAA
3215076 AT-A-ATAATATATATTAA
1 ATAATATAATATATATTAA
3215093 ATAATACCT-ATATATATATAA
1 ATAATA--TAATATATAT-TAA
*
3215114 TTTAATATAATA
1 -ATAATATAATA
3215126 ATAATAAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 13
0.73 0.04 0.24
Matches are distributed among these distances:
16 7 0.17
17 8 0.20
18 3 0.08
19 1 0.03
20 9 0.22
21 7 0.17
22 5 0.12
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (19 bp):
ATAATATAATATATATTAA
Found at i:3215098 original size:20 final size:23
Alignment explanation
Indices: 3215075--3215131 Score: 57
Period size: 24 Copynumber: 2.4 Consensus size: 23
3215065 AATATTTTTA
3215075 AATAATAATATAT-A-TTAA-AT
1 AATAATAATATATAATTTAATAT
3215095 AATACCTATATATATATAATTTAATAT
1 AATA---ATA-ATATATAATTTAATAT
3215122 AATAATAATA
1 AATAATAATA
3215132 AAAAAATATG
Statistics
Matches: 30, Mismatches: 0, Indels: 11
0.73 0.00 0.27
Matches are distributed among these distances:
20 4 0.13
23 6 0.20
24 9 0.30
25 1 0.03
26 4 0.13
27 6 0.20
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (23 bp):
AATAATAATATATAATTTAATAT
Found at i:3215152 original size:15 final size:15
Alignment explanation
Indices: 3215129--3215165 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
3215119 TATAATAATA
3215129 ATAA-AAAAATATGTC
1 ATAATAAAAA-ATGTC
3215144 ATAATAAAAAATGTC
1 ATAATAAAAAATGTC
3215159 AT-ATAAA
1 ATAATAAA
3215166 TATAAATAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 5 0.24
15 11 0.52
16 5 0.24
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.27
Consensus pattern (15 bp):
ATAATAAAAAATGTC
Found at i:3215745 original size:40 final size:40
Alignment explanation
Indices: 3215554--3215777 Score: 139
Period size: 40 Copynumber: 5.5 Consensus size: 40
3215544 TACTCTTCTT
* * *
3215554 TCTAAAGGATGATGAA-TCTTGGGACGATCTTACTTATTCC
1 TCTAAAGGATGCT-AAGTCATGGGACGATCTTACTCATTCC
* * * **
3215594 TCTAAAGGGTGCTAAGTCATGTGACGATCTTACTTATTTT
1 TCTAAAGGATGCTAAGTCATGGGACGATCTTACTCATTCC
* *** * * * *
3215634 TCTAAAGGATGTTAAGTC-TCAAACGATGGGTGATTCGCTTCTC
1 TCTAAAGGATGCTAAGTCATGGGACGAT--CTTACTC-ATTC-C
* * *
3215677 TTTCTGAAGGATGCTGATTC-TGGGGACGATCTTACTCATTCC
1 --TCTAAAGGATGCTAAGTCAT-GGGACGATCTTACTCATTCC
* *
3215719 TCTAAAGGATGCTAAGTCATGTGACGATCTTACTCCTTCC
1 TCTAAAGGATGCTAAGTCATGGGACGATCTTACTCATTCC
* * *
3215759 TGTGAAGGATGCAAAGTCA
1 TCTAAAGGATGCTAAGTCA
3215778 CAATCGATGG
Statistics
Matches: 138, Mismatches: 37, Indels: 18
0.72 0.19 0.09
Matches are distributed among these distances:
39 8 0.06
40 96 0.70
41 4 0.03
42 3 0.02
43 3 0.02
44 4 0.03
45 15 0.11
46 5 0.04
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (40 bp):
TCTAAAGGATGCTAAGTCATGGGACGATCTTACTCATTCC
Found at i:3215767 original size:125 final size:123
Alignment explanation
Indices: 3215550--3215901 Score: 361
Period size: 125 Copynumber: 2.9 Consensus size: 123
3215540 GATCTACTCT
* * * *
3215550 TCTTTCTAAAGGATGATGAATCTTGGGACGATCTTACTTATTCCTCTAAAGGGTGCTAAGTCATG
1 TCTTTCTGAAGGATGCTGAATCTCGGGACGATCTTAC-TATTCCTCTAAAGGATGCTAAGTCATG
* ** ** * ***
3215615 TGACGATCTTACTTATTTTTCTAAAGGATGTTAAGTCTCAAACGATGGGTGAT-TCGCTTC
65 TGACGATCTTACTCATTCCTCTAAAGGATGCAAAGTCACAAACGATGGACAATCT-G-TTC
* *
3215675 TCTTTCTGAAGGATGCTGATTCTGGGGACGATCTTACTCATTCCTCTAAAGGATGCTAAGTCATG
1 TCTTTCTGAAGGATGCTGAATCTCGGGACGATCTTACT-ATTCCTCTAAAGGATGCTAAGTCATG
* * * *
3215740 TGACGATCTTACTCCTTCCTGTGAAGGATGCAAAGTCACAATCGATGGACAATCTGTTC
65 TGACGATCTTACTCATTCCTCTAAAGGATGCAAAGTCACAAACGATGGACAATCTGTTC
* * ** * * *
3215799 TATTTTTTGAAGGATGCTGAATCTCGACAAGATCTTTCTATTCCTCTAAAGGATGCTAAGTCGTG
1 T-CTTTCTGAAGGATGCTGAATCTCGGGACGATCTTACTATTCCTCTAAAGGATGCTAAGTCATG
* * * *
3215864 AGACGATCTTACT-A--CCTATTAAGGATGCTAAGTCACAA
65 TGACGATCTTACTCATTCCTCTAAAGGATGCAAAGTCACAA
3215902 CCGGTGGGGT
Statistics
Matches: 192, Mismatches: 32, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
121 21 0.11
124 42 0.22
125 128 0.67
126 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (123 bp):
TCTTTCTGAAGGATGCTGAATCTCGGGACGATCTTACTATTCCTCTAAAGGATGCTAAGTCATGT
GACGATCTTACTCATTCCTCTAAAGGATGCAAAGTCACAAACGATGGACAATCTGTTC
Found at i:3215872 original size:39 final size:40
Alignment explanation
Indices: 3215701--3215898 Score: 122
Period size: 40 Copynumber: 4.9 Consensus size: 40
3215691 TGATTCTGGG
*
3215701 GACGATCTTACTCATTCCTCTAAAGGATGCTAAGTCAT-GT
1 GACGATCTTACT-ATTCCTCTAAAGGATGCTAAGTCATCGA
* * * *
3215741 GACGATCTTACTCCTTCCTGTGAAGGATGCAAAGTCACAATCGA
1 GACGATCTTACT-ATTCCTCTAAAGGATGCTAAGT--C-ATCGA
* * * * *
3215785 TGGACAATCTGTTCTATT-TTTTGAAGGATGCTGAA-TC-TCGA
1 --GACGATCT-TACTATTCCTCTAAAGGATGCT-AAGTCATCGA
* * * *
3215826 CAAGATCTTTCTATTCCTCTAAAGGATGCTAAGTCGT-GA
1 GACGATCTTACTATTCCTCTAAAGGATGCTAAGTCATCGA
* *
3215865 GACGATCTTACTA--CCTATTAAGGATGCTAAGTCA
1 GACGATCTTACTATTCCTCTAAAGGATGCTAAGTCA
3215899 CAACCGGTGG
Statistics
Matches: 124, Mismatches: 23, Indels: 25
0.72 0.13 0.15
Matches are distributed among these distances:
37 18 0.15
38 9 0.07
39 30 0.24
40 32 0.26
41 4 0.03
42 1 0.01
43 3 0.02
44 1 0.01
45 12 0.10
46 11 0.09
47 3 0.02
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (40 bp):
GACGATCTTACTATTCCTCTAAAGGATGCTAAGTCATCGA
Found at i:3217283 original size:13 final size:13
Alignment explanation
Indices: 3217265--3217291 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3217255 AGCCATTAGT
3217265 TTCATAAACAATA
1 TTCATAAACAATA
3217278 TTCATAAACAATA
1 TTCATAAACAATA
3217291 T
1 T
3217292 GACATGACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (13 bp):
TTCATAAACAATA
Found at i:3220764 original size:22 final size:22
Alignment explanation
Indices: 3220736--3220784 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
3220726 TTTATACACG
3220736 AATTTGACCTTCAAACTACCCA
1 AATTTGACCTTCAAACTACCCA
3220758 AATTTGACCTTCAAACTACCCA
1 AATTTGACCTTCAAACTACCCA
3220780 AATTT
1 AATTT
3220785 CTTACATTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.37, C:0.29, G:0.04, T:0.31
Consensus pattern (22 bp):
AATTTGACCTTCAAACTACCCA
Found at i:3224820 original size:45 final size:41
Alignment explanation
Indices: 3224771--3224858 Score: 106
Period size: 41 Copynumber: 2.0 Consensus size: 41
3224761 ATGCTAAAGA
3224771 TAAATCCTAAAAGATACAAAAGACAATTCCTAAAATT-ATTTGAAT
1 TAAATCCTAAAA-AT---AAAGACAATTCCT-AAATTAATTTGAAT
*
3224816 TAAATCCTAAAAATAAAGATAATTCCTAAATTCAATTTGAAT
1 TAAATCCTAAAAATAAAGACAATTCCTAAATT-AATTTGAAT
3224858 T
1 T
3224859 TGAATTTTGG
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
40 5 0.12
41 12 0.30
42 9 0.22
44 2 0.05
45 12 0.30
ACGTcount: A:0.50, C:0.12, G:0.06, T:0.32
Consensus pattern (41 bp):
TAAATCCTAAAAATAAAGACAATTCCTAAATTAATTTGAAT
Found at i:3226639 original size:13 final size:13
Alignment explanation
Indices: 3226621--3226646 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3226611 TAGGAATTCA
3226621 ATCCTAATGCTTG
1 ATCCTAATGCTTG
3226634 ATCCTAATGCTTG
1 ATCCTAATGCTTG
3226647 CAAATGAATA
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:0.23, C:0.23, G:0.15, T:0.38
Consensus pattern (13 bp):
ATCCTAATGCTTG
Found at i:3226756 original size:19 final size:19
Alignment explanation
Indices: 3226716--3226757 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
3226706 TTCAAACTCG
* *
3226716 TTCTTAAATAAAACAGCGT
1 TTCTTAAATAAAACAACAT
3226735 TTCTTAAATAAAACAACAT
1 TTCTTAAATAAAACAACAT
3226754 TTCT
1 TTCT
3226758 AAACTGAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.43, C:0.17, G:0.05, T:0.36
Consensus pattern (19 bp):
TTCTTAAATAAAACAACAT
Found at i:3227919 original size:638 final size:639
Alignment explanation
Indices: 3226992--3228175 Score: 2192
Period size: 638 Copynumber: 1.9 Consensus size: 639
3226982 AAACGCGAAG
3226992 CAACTTGATTCCAGAGACGTCTCGAAATGCCTTCTTTCCTTTCTCATGTTCATGGGTGTGTTGGG
1 CAACTTGATTCCAGAGACGTCTCGAAATGCCTTCTTTCCTTTCTCATGTTCATGGGTGTGTTGGG
3227057 GAAATTTTTTGAGGCAGTCCTCGAACTTCGAGTAGGTTTTTTTATTAGTCCCGCTTGTTGCAAAG
66 GAAATTTTTTGAGGCAGTCCTCGAACTTCGAGTAGGTTTTTTTATTAGTCCCGCTTGTTGCAAAG
3227122 CTCTCACCAAACTTACTGACGACTGTTATTCTAAATTGTTTCGTTATAACCCATTTTTCCCAATT
131 CTCTCACCAAACTTACTGACGACTGTTATTCTAAATTGTTTCGTTATAACCCATTTTTCCCAATT
3227187 GCTGGAGACCTTTTGCGGGATTTCTGCTTCAGCGCCTAAATGAACTGAACAAGTTCAATTCATTC
196 GCTGGAGACCTTTTGCGGGATTTCTGCTTCAGCGCCTAAATGAACTGAACAAGTTCAATTCATTC
3227252 AAGGCCCTTACGGAAGACGGTTCTTTTTTATGTTTTGAGGCTTACTATTGATTCTTGGTAAT-AA
261 AAGGCCCTTACGGAAGACGGTTCTTTTTTATGTTTTGAGGCTTACTATTGATTCTTGGTAATAAA
3227316 AAATATTTTATTTGATCAAAATAAATATGTTTTTATCAGCTCTTCTATAATTTCGTGTTCTAAAT
326 AAATATTTTATTTGATCAAAATAAATATG-TTTTATCAGCTCTTCTATAATTTCGTGTTCTAAAT
3227381 GAGTTAGACCATTGATTTTTTGCTCTAAAATTGGTATGTGACAT-AATGCTACAAAACATGCTTG
390 GAGTTAGACCA-T--TTTTTTGCTCTAAAATTGGTATGTGACATAAATGCTACAAAACATGCTTG
3227445 TAAGTTACATTCTACCACTAGGCATCATTTTTATGATAGAC-GGCAAAATAAAGTGTTACAGATG
452 TAAGTTACATTCT---ACTAGGCATCA-TTTTATGATAGACAGGCAAAAT-AAGTGTTACAGATG
3227509 ACATTACCT-TA-AAAGTGTTAGAGATACACAAAAACCCAAAGCTTCATAAATCCAAAAAAAATC
512 ACATTACCTATACAAAGTGTTAGAGATACACAAAAACCCAAAGCTTCATAAATCCAAAAAAAATC
3227572 TAAATCCTAATGTCGAATCAAAACCCATCGATATGTCTTGAGTTTAGCATTTACTGTTAACCC
577 TAAATCCTAATGTCGAATCAAAACCCATCGATATGTCTTGAGTTTAGCATTTACTGTTAACCC
3227635 CAACTTGATTCCAGAGACGTCTCGAAATGCCTTTCTTTCCTTTCTCATGTTCATGGGTGTG-TGG
1 CAACTTGATTCCAGAGACGTCTCGAAATGCC-TTCTTTCCTTTCTCATGTTCATGGGTGTGTTGG
3227699 GGAAA-TTTTTGAGGCAGTCCTCGAACTTCGAGTAGGTTTTTTTATTAGTCCCGC-TGTTGCAAA
65 GGAAATTTTTTGAGGCAGTCCTCGAACTTCGAGTAGGTTTTTTTATTAGTCCCGCTTGTTGCAAA
3227762 GCTCTCACCAAACTTACTGACGACTGTTATTCTAAATTGTTTCGTTATAA-CCATTTTT-CCAAT
130 GCTCTCACCAAACTTACTGACGACTGTTATTCTAAATTGTTTCGTTATAACCCATTTTTCCCAAT
3227825 TGCTGGAGACCTTTTGC-GGATTTCTGCTTCAGCGCCTAAATGAACTGAACAAGTTCAATTCATT
195 TGCTGGAGACCTTTTGCGGGATTTCTGCTTCAGCGCCTAAATGAACTGAACAAGTTCAATTCATT
3227889 CAAGGCCCTTACGGAAGACGGTTCTTTTTTATGTTTTGAGGCTTACTATTGATTCTTGGTAATAA
260 CAAGGCCCTTACGGAAGACGGTTCTTTTTTATGTTTTGAGGCTTACTATTGATTCTTGGTAATAA
3227954 AAAATATTTTATTTGATCAAAATAAATATGTTTTATCAGCTCTTCTATAATTTCGTGTTCTAAAT
325 AAAATATTTTATTTGATCAAAATAAATATGTTTTATCAGCTCTTCTATAATTTCGTGTTCTAAAT
3228019 GAGTTAGACCATTTTTTTGCTCTAAAATTGGTATGTGACATAAATGCTACAAAACATGCTTGTAA
390 GAGTTAGACCATTTTTTTGCTCTAAAATTGGTATGTGACATAAATGCTACAAAACATGCTTGTAA
3228084 GTTACATTCTACTAGGCATCATTTTATGATAGACGAGGCAAAATAAGTGTTACAGATGACATTAC
455 GTTACATTCTACTAGGCATCATTTTATGATAGAC-AGGCAAAATAAGTGTTACAGATGACATTAC
3228149 CTATACAAAGTGTTAGAGATACACAAA
519 CTATACAAAGTGTTAGAGATACACAAA
3228176 TCTCCTTTTT
Statistics
Matches: 534, Mismatches: 0, Indels: 22
0.96 0.00 0.04
Matches are distributed among these distances:
632 13 0.02
633 34 0.06
634 10 0.02
635 50 0.09
636 33 0.06
637 1 0.00
638 156 0.29
639 53 0.10
640 8 0.01
641 59 0.11
642 49 0.09
643 39 0.07
644 29 0.05
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.36
Consensus pattern (639 bp):
CAACTTGATTCCAGAGACGTCTCGAAATGCCTTCTTTCCTTTCTCATGTTCATGGGTGTGTTGGG
GAAATTTTTTGAGGCAGTCCTCGAACTTCGAGTAGGTTTTTTTATTAGTCCCGCTTGTTGCAAAG
CTCTCACCAAACTTACTGACGACTGTTATTCTAAATTGTTTCGTTATAACCCATTTTTCCCAATT
GCTGGAGACCTTTTGCGGGATTTCTGCTTCAGCGCCTAAATGAACTGAACAAGTTCAATTCATTC
AAGGCCCTTACGGAAGACGGTTCTTTTTTATGTTTTGAGGCTTACTATTGATTCTTGGTAATAAA
AAATATTTTATTTGATCAAAATAAATATGTTTTATCAGCTCTTCTATAATTTCGTGTTCTAAATG
AGTTAGACCATTTTTTTGCTCTAAAATTGGTATGTGACATAAATGCTACAAAACATGCTTGTAAG
TTACATTCTACTAGGCATCATTTTATGATAGACAGGCAAAATAAGTGTTACAGATGACATTACCT
ATACAAAGTGTTAGAGATACACAAAAACCCAAAGCTTCATAAATCCAAAAAAAATCTAAATCCTA
ATGTCGAATCAAAACCCATCGATATGTCTTGAGTTTAGCATTTACTGTTAACCC
Found at i:3228867 original size:23 final size:22
Alignment explanation
Indices: 3228841--3228907 Score: 64
Period size: 23 Copynumber: 2.9 Consensus size: 22
3228831 TACCAAAGTC
3228841 GAAACATAGTGTCACAAAACAGA
1 GAAACAT-GTGTCACAAAACAGA
* * *
3228864 GAAATCACGTGCCACAAGAGCAGA
1 GAAA-CATGTGTCACAA-AACAGA
3228888 GAAA-AGTGTGTCACAAAACA
1 GAAACA-TGTGTCACAAAACA
3228908 AAGATTATTA
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
22 4 0.11
23 20 0.57
24 11 0.31
ACGTcount: A:0.48, C:0.19, G:0.21, T:0.12
Consensus pattern (22 bp):
GAAACATGTGTCACAAAACAGA
Found at i:3229200 original size:2 final size:2
Alignment explanation
Indices: 3229193--3229223 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
3229183 ATACGACCCG
3229193 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3229224 GGGTCATATC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3232200 original size:15 final size:15
Alignment explanation
Indices: 3232176--3232210 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
3232166 TACCCTTTTC
*
3232176 CTATTTTGGTTTATT
1 CTATTATGGTTTATT
3232191 CTATTATGGTTTATT
1 CTATTATGGTTTATT
3232206 CTATT
1 CTATT
3232211 TTAATTTTCA
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:0.17, C:0.09, G:0.11, T:0.63
Consensus pattern (15 bp):
CTATTATGGTTTATT
Found at i:3233104 original size:3 final size:3
Alignment explanation
Indices: 3233098--3233154 Score: 66
Period size: 3 Copynumber: 19.7 Consensus size: 3
3233088 AAATTATTAG
* *
3233098 TAA TAA TAA TAA TAA TAA T-A TAT TAA T-A TTA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
3233144 TCAA T-A TAA TA
1 T-AA TAA TAA TA
3233155 TATATTTTTA
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
2 6 0.13
3 38 0.81
4 3 0.06
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:3233130 original size:11 final size:11
Alignment explanation
Indices: 3233098--3233154 Score: 64
Period size: 11 Copynumber: 5.2 Consensus size: 11
3233088 AAATTATTAG
3233098 TAATAATAATAA
1 TAATAAT-ATAA
*
3233110 TAATAATATAT
1 TAATAATATAA
*
3233121 TAATATTATAA
1 TAATAATATAA
3233132 TAAT-A-ATAA
1 TAATAATATAA
3233141 TAATCAATATAA
1 TAAT-AATATAA
3233153 TA
1 TA
3233155 TATATTTTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
9 8 0.21
11 17 0.45
12 13 0.34
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.39
Consensus pattern (11 bp):
TAATAATATAA
Found at i:3234206 original size:55 final size:55
Alignment explanation
Indices: 3233426--3234198 Score: 991
Period size: 55 Copynumber: 14.1 Consensus size: 55
3233416 ATAGAACTAG
* * * *
3233426 ATCTTCAACAAACGTGTCCGCTCCCTA-TTCTTTCAGAGAGTATAGGACTTGAACAA
1 ATCTTCAACAATCGTGTCTGCTCCCTATTTC-TTCAGAGAGTATAAGACTCGAAC-A
* * * * * *
3233482 ATCTTCAACAAACGTGTCCGCTCCCTATTCCTTCAGAGAGTTTAGGATTCG----
1 ATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACA
* * * *
3233533 ATCTTCAACAAACGTGTCAGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAATA
1 ATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACA
** * *
3233588 ATCTTCAACAAATCGTGTCTGCTCTTTATTCCTTCAGAGAGTATAAGACTCGAATA
1 ATCTTCAAC-AATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACA
* * * *
3233644 ATCTTTAACAAACGTGTCTACTCCCTATTTCTTCTGAGAGTATAAGACTCGAACA
1 ATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACA
* *
3233699 ATCTTCAACAATCGTGTTTGCTCCCTATTTCTTCAGAGAGTATAAGACTCAAACA
1 ATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACA
* * * *
3233754 ATATTCAACAATCGTGTTTGCTCCCTATTTTTTCAGAGAGTATAAGACTCAAACA
1 ATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACA
* ** *
3233809 ATCTT-AACAATCGTGTCTGCTCCTTATTTCTTCAGAGAGTATAAGACAAGAATA
1 ATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACA
** * * * *
3233863 ATCTTCTGCAATCGCGTCTGCTCCCTATCTCTTCAAAGAGTATAAAACTCGAACA
1 ATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACA
* *
3233918 ATCTTCAACAATCGTGTTTGCTCCCTATTTCTTCAGAGAGTATAGGACTCGAACA
1 ATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACA
* * *
3233973 ATCTTCAACAAACGTGTTTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAATA
1 ATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACA
*** * *
3234028 ATCTTCTGTAATTGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAGCA
1 ATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACA
* *
3234083 ATCTTCAACAATCGTGTCTACTCCCTATTTCTTTAGAGAGTATAAGACTCGAACA
1 ATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACA
* * * *
3234138 ATCTTCAACAATCGTGTATGCTCTCTATTCCTTCAGAGAGTATAAGACTCGAATA
1 ATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACA
3234193 ATCTTC
1 ATCTTC
3234199 TGGAATCGGG
Statistics
Matches: 632, Mismatches: 78, Indels: 15
0.87 0.11 0.02
Matches are distributed among these distances:
51 47 0.07
54 47 0.07
55 442 0.70
56 94 0.15
57 2 0.00
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.32
Consensus pattern (55 bp):
ATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACA
Found at i:3237746 original size:35 final size:35
Alignment explanation
Indices: 3237700--3237770 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
3237690 GAAGTGATGT
3237700 CAATGTTTAGTCTCGATGTTATTTTGGGTAAGGAA
1 CAATGTTTAGTCTCGATGTTATTTTGGGTAAGGAA
3237735 CAATGTTTAGTCTCGATGTTATTTTGGGTAAGGAA
1 CAATGTTTAGTCTCGATGTTATTTTGGGTAAGGAA
3237770 C
1 C
3237771 CCAACAACGG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.25, C:0.10, G:0.25, T:0.39
Consensus pattern (35 bp):
CAATGTTTAGTCTCGATGTTATTTTGGGTAAGGAA
Found at i:3239961 original size:55 final size:55
Alignment explanation
Indices: 3239878--3240037 Score: 218
Period size: 55 Copynumber: 3.0 Consensus size: 55
3239868 TTGGAAAAAG
* * *
3239878 TCTTCAATCAACTTCAAA---CTTCATTCATCGGATGTCTTTCTTCATGGATCGT
1 TCTTCAATCAAGTTCAAATTTCTTCATTCATCGGATGTCCTTCTTCATGAATCGT
* ** *
3239930 TCTTCAATCAATTTCAGTTTTCTTCATTCATCGGATGTCCATCTTCATGAATCGT
1 TCTTCAATCAAGTTCAAATTTCTTCATTCATCGGATGTCCTTCTTCATGAATCGT
* *
3239985 TCTTCAATCAAGTTCAAATTTCTTCATTCATCGGACGTCCTTCTTTATGAATC
1 TCTTCAATCAAGTTCAAATTTCTTCATTCATCGGATGTCCTTCTTCATGAATC
3240038 ACTTGAATGT
Statistics
Matches: 93, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
52 15 0.16
55 78 0.84
ACGTcount: A:0.23, C:0.24, G:0.11, T:0.42
Consensus pattern (55 bp):
TCTTCAATCAAGTTCAAATTTCTTCATTCATCGGATGTCCTTCTTCATGAATCGT
Found at i:3242039 original size:21 final size:18
Alignment explanation
Indices: 3241999--3242045 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 18
3241989 AAATATATCT
*
3241999 ATAATATAATATTTTTAA
1 ATAATATAATATTTTAAA
3242017 ATAATATATATATATATTAAA
1 ATAATATA-ATAT-T-TTAAA
3242038 ATAATATA
1 ATAATATA
3242046 CCTATTATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 8 0.32
19 4 0.16
20 1 0.04
21 12 0.48
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATAATATAATATTTTAAA
Found at i:3242044 original size:17 final size:17
Alignment explanation
Indices: 3242019--3242093 Score: 59
Period size: 17 Copynumber: 4.6 Consensus size: 17
3242009 ATTTTTAAAT
3242019 AATATATATATATATTAA
1 AATA-ATATATATATTAA
**
3242037 AATAATATACCTATT--
1 AATAATATATATATTAA
* *
3242052 -ATTATATATATTTTAA
1 AATAATATATATATTAA
* *
3242068 AATAATATATATACTAC
1 AATAATATATATATTAA
3242085 AAT-ATATAT
1 AATAATATAT
3242094 TTTTAATATA
Statistics
Matches: 44, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
14 10 0.23
16 6 0.14
17 24 0.55
18 4 0.09
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (17 bp):
AATAATATATATATTAA
Found at i:3242090 original size:31 final size:31
Alignment explanation
Indices: 3242024--3242096 Score: 92
Period size: 31 Copynumber: 2.4 Consensus size: 31
3242014 TAAATAATAT
* * * **
3242024 ATATATATATTAAAATAATATACCTATTATT
1 ATATATATTTTAAAATAATATACATACTACA
*
3242055 ATATATATTTTAAAATAATATATATACTACA
1 ATATATATTTTAAAATAATATACATACTACA
3242086 ATATATATTTT
1 ATATATATTTT
3242097 TAATATATAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.47
Consensus pattern (31 bp):
ATATATATTTTAAAATAATATACATACTACA
Found at i:3242121 original size:20 final size:19
Alignment explanation
Indices: 3242098--3242136 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
3242088 ATATATTTTT
3242098 AATATATAATAATAATAAAA
1 AATATATAATAATAA-AAAA
* *
3242118 AATATGTCATAATAAAAAA
1 AATATATAATAATAAAAAA
3242137 TGTCATATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.28
Consensus pattern (19 bp):
AATATATAATAATAAAAAA
Found at i:3242162 original size:16 final size:17
Alignment explanation
Indices: 3242141--3242180 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
3242131 AAAAAATGTC
*
3242141 ATATAACAT-ATAAATA
1 ATATAAAATAATAAATA
3242157 ATATAAAATAATAAAT-
1 ATATAAAATAATAAATA
3242173 -TATAAAAT
1 ATATAAAAT
3242181 CTACCGATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 8 0.36
16 8 0.36
17 6 0.27
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (17 bp):
ATATAAAATAATAAATA
Found at i:3242720 original size:125 final size:124
Alignment explanation
Indices: 3242538--3242893 Score: 381
Period size: 125 Copynumber: 2.9 Consensus size: 124
3242528 GATCTACTCT
* * * *
3242538 TCTTTCTAAAGGATGATGAATCTTGGGACGATCTTACTTATTCCTCTAAAGGGTGCTAAGTCATG
1 TCTTTCTGAAGGATGCTGAATCTCGGGACGATCTTACTTATTCCTCTAAAGGATGCTAAGTCATG
* ** ** * ***
3242603 TGACGATCTTACTTCTTTTTCTAAAGGATGTTAAGTCTCAAACGATGGGTGAT-TCGCTTC
66 TGACGATCTTACTCCTTCCTCTAAAGGATGCAAAGTCACAAACGATGGACAATCT-G-TTC
* * *
3242663 TCTTTCTGAAGGATGCTGATTCTGGGGACGATCTTACTCATTCCTCTAAAGGATGCTAAGTCATG
1 TCTTTCTGAAGGATGCTGAATCTCGGGACGATCTTACTTATTCCTCTAAAGGATGCTAAGTCATG
* *
3242728 TGACGATCTTACTCCTTCCTCTGAAGGATGCAAAGTCACAATCGATGGACAATCTGTTC
66 TGACGATCTTACTCCTTCCTCTAAAGGATGCAAAGTCACAAACGATGGACAATCTGTTC
* * *** * * * *
3242787 TGTTTTTTGAAGGATGCTGAATCTCAACAAGATCTTTCTTATTCCTCTAAAGGATACTAAGTCGT
1 T-CTTTCTGAAGGATGCTGAATCTCGGGACGATCTTACTTATTCCTCTAAAGGATGCTAAGTCAT
* * * * * *
3242852 GAGACGATCTTACTACTACCTATTAAGGATGCTAAGTCACAA
65 GTGACGATCTTACTCCTTCCTCTAAAGGATGCAAAGTCACAA
3242894 CCGGTGGGGT
Statistics
Matches: 194, Mismatches: 35, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
124 4 0.02
125 189 0.97
126 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.34
Consensus pattern (124 bp):
TCTTTCTGAAGGATGCTGAATCTCGGGACGATCTTACTTATTCCTCTAAAGGATGCTAAGTCATG
TGACGATCTTACTCCTTCCTCTAAAGGATGCAAAGTCACAAACGATGGACAATCTGTTC
Found at i:3242733 original size:40 final size:40
Alignment explanation
Indices: 3242542--3242765 Score: 141
Period size: 40 Copynumber: 5.5 Consensus size: 40
3242532 TACTCTTCTT
* * *
3242542 TCTAAAGGATGATGAA-TCTTGGGACGATCTTACTTATTCC
1 TCTAAAGGATGCT-AAGTCATGGGACGATCTTACTCATTCC
* * **
3242582 TCTAAAGGGTGCTAAGTCATGTGACGATCTTACTTC-TTTT
1 TCTAAAGGATGCTAAGTCATGGGACGATCTTAC-TCATTCC
* *** * * * *
3242622 TCTAAAGGATGTTAAGTC-TCAAACGATGGGTGATTCGCTTCTC
1 TCTAAAGGATGCTAAGTCATGGGACGAT--CTTACTC-ATTC-C
* * *
3242665 TTTCTGAAGGATGCTGATTC-TGGGGACGATCTTACTCATTCC
1 --TCTAAAGGATGCTAAGTCAT-GGGACGATCTTACTCATTCC
* *
3242707 TCTAAAGGATGCTAAGTCATGTGACGATCTTACTCCTTCC
1 TCTAAAGGATGCTAAGTCATGGGACGATCTTACTCATTCC
* *
3242747 TCTGAAGGATGCAAAGTCA
1 TCTAAAGGATGCTAAGTCA
3242766 CAATCGATGG
Statistics
Matches: 138, Mismatches: 35, Indels: 22
0.71 0.18 0.11
Matches are distributed among these distances:
39 8 0.06
40 96 0.70
41 4 0.03
42 3 0.02
43 3 0.02
44 4 0.03
45 15 0.11
46 5 0.04
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (40 bp):
TCTAAAGGATGCTAAGTCATGGGACGATCTTACTCATTCC
Found at i:3246392 original size:22 final size:23
Alignment explanation
Indices: 3246347--3246406 Score: 68
Period size: 23 Copynumber: 2.7 Consensus size: 23
3246337 TTCCCCTACA
*
3246347 GGGGAATCAGTTCCCCTTCAAAG
1 GGGGAATCGGTTCCCCTTCAAAG
* *
3246370 GGGGAATCGGTTCTCTTTC-AAG
1 GGGGAATCGGTTCCCCTTCAAAG
* *
3246392 GGGGTATCGATTCCC
1 GGGGAATCGGTTCCC
3246407 TCTGTACTAA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
22 15 0.48
23 16 0.52
ACGTcount: A:0.20, C:0.23, G:0.30, T:0.27
Consensus pattern (23 bp):
GGGGAATCGGTTCCCCTTCAAAG
Found at i:3247711 original size:14 final size:15
Alignment explanation
Indices: 3247676--3247708 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
3247666 CCGAAATACA
3247676 GAAATCAGATATCAG
1 GAAATCAGATATCAG
3247691 GAAATCA-ATATTCAG
1 GAAATCAGATA-TCAG
3247706 GAA
1 GAA
3247709 TCACGTATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 3 0.18
15 14 0.82
ACGTcount: A:0.48, C:0.12, G:0.18, T:0.21
Consensus pattern (15 bp):
GAAATCAGATATCAG
Found at i:3248506 original size:29 final size:29
Alignment explanation
Indices: 3248453--3248577 Score: 103
Period size: 29 Copynumber: 4.3 Consensus size: 29
3248443 TATTTTACAG
* * *
3248453 AAATGGCACCCTTTTTAAAAT-AATTACTA
1 AAATAGCA-CCTTTTTAAATTAAATTACCA
* *
3248482 AAATATCACCTTTTTAAATTAAATTCCCA
1 AAATAGCACCTTTTTAAATTAAATTACCA
* * *
3248511 ATATAGCACCTTTTTGAATTAAATTCCCA
1 AAATAGCACCTTTTTAAATTAAATTACCA
* * *
3248540 AAAAAGCACCCATTTCAAATT-AATT-CCA
1 AAATAGCA-CCTTTTTAAATTAAATTACCA
*
3248568 AATTAGCACC
1 AAATAGCACC
3248578 CATTTCGAAT
Statistics
Matches: 79, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
27 2 0.03
28 20 0.25
29 48 0.61
30 9 0.11
ACGTcount: A:0.41, C:0.22, G:0.05, T:0.33
Consensus pattern (29 bp):
AAATAGCACCTTTTTAAATTAAATTACCA
Found at i:3248607 original size:29 final size:28
Alignment explanation
Indices: 3248498--3248607 Score: 98
Period size: 29 Copynumber: 3.8 Consensus size: 28
3248488 CACCTTTTTA
* * *
3248498 AATTAAATTCCCAATATAGCA-CCTTTTTG
1 AATT-AATTCCCAAAAT-GCACCCATTTCG
* *
3248527 AATTAAATTCCCAAAAAAGCACCCATTTCA
1 AATT-AATTCCC-AAAATGCACCCATTTCG
*
3248557 AATTAATT-CCAAATTAGCACCCATTTCG
1 AATTAATTCCCAAAAT-GCACCCATTTCG
3248585 AATTAATTCCCAAAATGTCACCC
1 AATTAATTCCCAAAATG-CACCC
3248608 GGTCAACGGT
Statistics
Matches: 67, Mismatches: 9, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
27 3 0.04
28 22 0.33
29 30 0.45
30 12 0.18
ACGTcount: A:0.39, C:0.25, G:0.05, T:0.30
Consensus pattern (28 bp):
AATTAATTCCCAAAATGCACCCATTTCG
Found at i:3255565 original size:29 final size:29
Alignment explanation
Indices: 3255540--3255718 Score: 175
Period size: 29 Copynumber: 6.2 Consensus size: 29
3255530 AATAATTACT
* *
3255540 AAAATAGCACATTTTCAAATTAAATTTCC
1 AAAATAGCACATTTTCGAATTAAATTCCC
* *
3255569 AAAATAGCACTTTTTCGAATTAAGTTCCC
1 AAAATAGCACATTTTCGAATTAAATTCCC
* * * *
3255598 AATATAACACCTTTTTGAATTAAATTCCC
1 AAAATAGCACATTTTCGAATTAAATTCCC
* * * *
3255627 AATATAACACCTTTTTGAATTAAATTCCC
1 AAAATAGCACATTTTCGAATTAAATTCCC
* *
3255656 AAAATATCACCATTTTCTAATT-AATTCCC
1 AAAATAGCA-CATTTTCGAATTAAATTCCC
*
3255685 AAAATAGCATCCA-TTTCAAATT-AATTCCC
1 AAAATAGCA--CATTTTCGAATTAAATTCCC
3255714 AAAAT
1 AAAAT
3255719 GTCACCCGGT
Statistics
Matches: 132, Mismatches: 16, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
29 120 0.91
30 12 0.09
ACGTcount: A:0.40, C:0.21, G:0.04, T:0.35
Consensus pattern (29 bp):
AAAATAGCACATTTTCGAATTAAATTCCC
Found at i:3255711 original size:87 final size:87
Alignment explanation
Indices: 3255557--3255715 Score: 205
Period size: 87 Copynumber: 1.8 Consensus size: 87
3255547 CACATTTTCA
* * * * **
3255557 AATTAAATTTCCAAAATAGCACTTTTTCGAATTAAGTTCCCAATATAACACCTTTTTGAATTAAA
1 AATTAAATTCCCAAAATAGCACATTTTCGAATTAAGTTCCCAAAATAACACCATTTCAAATTAAA
3255622 TTCCCAATATAACACCTTTTTG
66 TTCCCAATATAACACCTTTTTG
* * *
3255644 AATTAAATTCCCAAAATATCACCATTTTCTAATTAA-TTCCCAAAATAGCATCCATTTCAAATT-
1 AATTAAATTCCCAAAATAGCA-CATTTTCGAATTAAGTTCCCAAAATAACA-CCATTTCAAATTA
3255707 AATTCCCAA
64 AATTCCCAA
3255716 AATGTCACCC
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
87 40 0.66
88 21 0.34
ACGTcount: A:0.39, C:0.21, G:0.04, T:0.36
Consensus pattern (87 bp):
AATTAAATTCCCAAAATAGCACATTTTCGAATTAAGTTCCCAAAATAACACCATTTCAAATTAAA
TTCCCAATATAACACCTTTTTG
Found at i:3255724 original size:58 final size:58
Alignment explanation
Indices: 3255540--3255724 Score: 198
Period size: 58 Copynumber: 3.2 Consensus size: 58
3255530 AATAATTACT
* * * *
3255540 AAAATAGCA-CATTTTCAAATTAAATTTCCAAAATAGCACTTTTTCGAATTAAGTTCCC
1 AAAATATCACCATTTTCTAATTAAATTCCCAAAATAGCACCTTTTCGAATTAA-TTCCC
* * * * *
3255598 AATATAACACC-TTTT-TGAATTAAATTCCCAATATAACACCTTTTTGAATTAAATTCCC
1 AAAATATCACCATTTTCT-AATTAAATTCCCAAAATAGCACCTTTTCGAATT-AATTCCC
* *
3255656 AAAATATCACCATTTTCTAATT-AATTCCCAAAATAGCATCCATTTCAAATTAATTCCC
1 AAAATATCACCATTTTCTAATTAAATTCCCAAAATAGCA-CCTTTTCGAATTAATTCCC
*
3255714 AAAATGTCACC
1 AAAATATCACC
3255725 CGGTCAACGG
Statistics
Matches: 105, Mismatches: 16, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
58 84 0.80
59 20 0.19
60 1 0.01
ACGTcount: A:0.39, C:0.22, G:0.04, T:0.35
Consensus pattern (58 bp):
AAAATATCACCATTTTCTAATTAAATTCCCAAAATAGCACCTTTTCGAATTAATTCCC
Found at i:3255751 original size:13 final size:13
Alignment explanation
Indices: 3255733--3255757 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3255723 CCCGGTCAAC
3255733 GGTTAACGGGTCG
1 GGTTAACGGGTCG
3255746 GGTTAACGGGTC
1 GGTTAACGGGTC
3255758 AAGTCGGTCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.16, G:0.44, T:0.24
Consensus pattern (13 bp):
GGTTAACGGGTCG
Found at i:3262527 original size:18 final size:17
Alignment explanation
Indices: 3262495--3262528 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
3262485 TCAGTCGGTC
3262495 CGGTTTGAACGGTTCAA
1 CGGTTTGAACGGTTCAA
*
3262512 CGGTTCTGACCGGTTCA
1 CGGTT-TGAACGGTTCA
3262529 CTAGTAACGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.18, C:0.24, G:0.29, T:0.29
Consensus pattern (17 bp):
CGGTTTGAACGGTTCAA
Found at i:3278615 original size:50 final size:50
Alignment explanation
Indices: 3278540--3278640 Score: 202
Period size: 50 Copynumber: 2.0 Consensus size: 50
3278530 TTTCCCGACG
3278540 AGCTGATGACTGCTATAACAGTAGCATTCCAAATGACTGGTAGAGATGAT
1 AGCTGATGACTGCTATAACAGTAGCATTCCAAATGACTGGTAGAGATGAT
3278590 AGCTGATGACTGCTATAACAGTAGCATTCCAAATGACTGGTAGAGATGAT
1 AGCTGATGACTGCTATAACAGTAGCATTCCAAATGACTGGTAGAGATGAT
3278640 A
1 A
3278641 AGAGAATTAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.26
Consensus pattern (50 bp):
AGCTGATGACTGCTATAACAGTAGCATTCCAAATGACTGGTAGAGATGAT
Found at i:3282205 original size:48 final size:48
Alignment explanation
Indices: 3282144--3282237 Score: 118
Period size: 48 Copynumber: 2.0 Consensus size: 48
3282134 TCCGATTTGA
*
3282144 ATTCTGTTCTGATA-CATGACCTGAATTCTGTTCTAATTTCTAATATGG
1 ATTCTGTTATGATATC-TGACCTGAATTCTGTTCTAATTTCTAATATGG
** * * *
3282192 ATTCTGTTATGATATCTGATTTGAATTCTGTTTTGATTTCTGATAT
1 ATTCTGTTATGATATCTGACCTGAATTCTGTTCTAATTTCTAATAT
3282238 CTTTGTTTAC
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
48 38 0.97
49 1 0.03
ACGTcount: A:0.23, C:0.13, G:0.15, T:0.49
Consensus pattern (48 bp):
ATTCTGTTATGATATCTGACCTGAATTCTGTTCTAATTTCTAATATGG
Found at i:3282219 original size:24 final size:24
Alignment explanation
Indices: 3282137--3282235 Score: 92
Period size: 24 Copynumber: 4.1 Consensus size: 24
3282127 TCTGACTTCC
3282137 GATTTGAATTCTGTTCTGATA-CAT
1 GATTTGAATTCTGTTCTGATATC-T
** * *
3282161 GACCTGAATTCTGTTCTAATTTCT
1 GATTTGAATTCTGTTCTGATATCT
* * * *
3282185 AATATGGATTCTGTTATGATATCT
1 GATTTGAATTCTGTTCTGATATCT
* *
3282209 GATTTGAATTCTGTTTTGATTTCT
1 GATTTGAATTCTGTTCTGATATCT
3282233 GAT
1 GAT
3282236 ATCTTTGTTT
Statistics
Matches: 58, Mismatches: 16, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
24 57 0.98
25 1 0.02
ACGTcount: A:0.23, C:0.12, G:0.16, T:0.48
Consensus pattern (24 bp):
GATTTGAATTCTGTTCTGATATCT
Found at i:3286956 original size:24 final size:24
Alignment explanation
Indices: 3286919--3286990 Score: 65
Period size: 24 Copynumber: 3.0 Consensus size: 24
3286909 GATACATGAC
* *
3286919 CTGAATTTTGTTCTGATTTCTGAT
1 CTGAATTCTATTCTGATTTCTGAT
*
3286943 CTGGATTCTATTCTGATATT-TGAT
1 CTGAATTCTATTCTGAT-TTCTGAT
* * * *
3286967 TTGAATTTTGTTTTGATTTCTGAT
1 CTGAATTCTATTCTGATTTCTGAT
3286991 ATCTTTGATT
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
23 2 0.05
24 34 0.89
25 2 0.05
ACGTcount: A:0.18, C:0.10, G:0.17, T:0.56
Consensus pattern (24 bp):
CTGAATTCTATTCTGATTTCTGAT
Found at i:3291764 original size:24 final size:24
Alignment explanation
Indices: 3291736--3291820 Score: 109
Period size: 24 Copynumber: 3.5 Consensus size: 24
3291726 GAATATTTTA
3291736 TCTGACTTTC-GATTTGAATTCTGT
1 TCTGA-TTTCTGATTTGAATTCTGT
* *
3291760 TCTGATTTCTGATCTGGATTCTGT
1 TCTGATTTCTGATTTGAATTCTGT
* *
3291784 TCTGATATCTGATTTGAATTCAGT
1 TCTGATTTCTGATTTGAATTCTGT
*
3291808 TTTGATTTCTGAT
1 TCTGATTTCTGAT
3291821 ATCTTTGATT
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
23 4 0.08
24 48 0.92
ACGTcount: A:0.18, C:0.14, G:0.18, T:0.51
Consensus pattern (24 bp):
TCTGATTTCTGATTTGAATTCTGT
Found at i:3291775 original size:12 final size:12
Alignment explanation
Indices: 3291735--3291820 Score: 50
Period size: 12 Copynumber: 7.2 Consensus size: 12
3291725 TGAATATTTT
3291735 ATCTGACTTTC-G
1 ATCTGA-TTTCTG
* *
3291747 ATTTGAATTCTG
1 ATCTGATTTCTG
*
3291759 TTCTGATTTCTG
1 ATCTGATTTCTG
3291771 ATCTGGA-TTCTG
1 ATCT-GATTTCTG
* *
3291783 TTCTGATATCTG
1 ATCTGATTTCTG
* * *
3291795 ATTTGAATTCAG
1 ATCTGATTTCTG
* *
3291807 TTTTGATTTCTG
1 ATCTGATTTCTG
3291819 AT
1 AT
3291821 ATCTTTGATT
Statistics
Matches: 54, Mismatches: 17, Indels: 6
0.70 0.22 0.08
Matches are distributed among these distances:
11 5 0.09
12 47 0.87
13 2 0.04
ACGTcount: A:0.19, C:0.14, G:0.17, T:0.50
Consensus pattern (12 bp):
ATCTGATTTCTG
Found at i:3292805 original size:24 final size:24
Alignment explanation
Indices: 3292747--3292799 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
3292737 GGTTACAAAT
*
3292747 TGCTCACACACTTGGCATTTATGA
1 TGCTCACACCCTTGGCATTTATGA
3292771 TGCTCACACCCTTGGCATTTATGA
1 TGCTCACACCCTTGGCATTTATGA
3292795 TGCTC
1 TGCTC
3292800 GAACCCGGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (24 bp):
TGCTCACACCCTTGGCATTTATGA
Found at i:3293987 original size:225 final size:228
Alignment explanation
Indices: 3293596--3294051 Score: 882
Period size: 225 Copynumber: 2.0 Consensus size: 228
3293586 TTAATAGAAA
3293596 CTTTTCACCTTATATTATGAAAATAGTTTTGATAAAATGTTATAAAGAGCCAGTTTTTCTTTATA
1 CTTTTCACCTTATATTATGAAAATAGTTTTGATAAAATGTTATAAAGAGCCAGTTTTTCTTTATA
3293661 AATGAGATTACAAAATTTTACACTAATAATGTCAAGAGGATGTTAGACGTACAATCAAAGGCTAA
66 AATGAGATTACAAAATTTTACACTAATAATGTCAAGAGGATGTTAGACGTACAATCAAAGGCTAA
3293726 ATTAATAATAATAAGTCCTTGAAAGTTGAAACTTA-TTT-TTAAAATAAATAATGTATA-TTATT
131 ATTAATAATAATAAGTCCTTGAAAGTTGAAACTTATTTTATTAAAATAAATAATGTATATTTATT
3293788 GCCCTAGAAACTTAACATTTAGCTTGTATCGTC
196 GCCCTAGAAACTTAACATTTAGCTTGTATCGTC
*
3293821 CTTTTCACCTTATATTATGTAAATAGTTTTGATAAAATGTTATAAAGAGCCAGTTTTTCTTTATA
1 CTTTTCACCTTATATTATGAAAATAGTTTTGATAAAATGTTATAAAGAGCCAGTTTTTCTTTATA
3293886 AATGAGATTACAAAATTTTACACTAATAATGTCAAGAGGATGTTAGACGTACAATCAAAGGCTAA
66 AATGAGATTACAAAATTTTACACTAATAATGTCAAGAGGATGTTAGACGTACAATCAAAGGCTAA
3293951 ATTAATAATAATAAGTCCTTGAAAGTTGAAACTTATTTTATTAAAATAAATAATGTATATTTATT
131 ATTAATAATAATAAGTCCTTGAAAGTTGAAACTTATTTTATTAAAATAAATAATGTATATTTATT
3294016 GCCCTAGAAACTTAACATTTAGCTTGTATCGTC
196 GCCCTAGAAACTTAACATTTAGCTTGTATCGTC
3294049 CTT
1 CTT
3294052 GAATTTTAAT
Statistics
Matches: 227, Mismatches: 1, Indels: 3
0.98 0.00 0.01
Matches are distributed among these distances:
225 164 0.72
226 3 0.01
227 19 0.08
228 41 0.18
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.38
Consensus pattern (228 bp):
CTTTTCACCTTATATTATGAAAATAGTTTTGATAAAATGTTATAAAGAGCCAGTTTTTCTTTATA
AATGAGATTACAAAATTTTACACTAATAATGTCAAGAGGATGTTAGACGTACAATCAAAGGCTAA
ATTAATAATAATAAGTCCTTGAAAGTTGAAACTTATTTTATTAAAATAAATAATGTATATTTATT
GCCCTAGAAACTTAACATTTAGCTTGTATCGTC
Found at i:3301264 original size:20 final size:20
Alignment explanation
Indices: 3301241--3301294 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 20
3301231 CATCTATTTC
*
3301241 TATCATCCATCATCCATCAT
1 TATCATCCATCATCCACCAT
3301261 TATCAT-CATCAAAT-CACCAT
1 TATCATCCATC--ATCCACCAT
*
3301281 TCTCATCCATCATC
1 TATCATCCATCATC
3301295 ACCCAAACCT
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
19 6 0.21
20 16 0.57
21 6 0.21
ACGTcount: A:0.31, C:0.35, G:0.00, T:0.33
Consensus pattern (20 bp):
TATCATCCATCATCCACCAT
Found at i:3303145 original size:61 final size:61
Alignment explanation
Indices: 3303068--3303198 Score: 190
Period size: 61 Copynumber: 2.1 Consensus size: 61
3303058 AAGGAGACTA
* *
3303068 AGTGCAGGTGGTGGGCACAATCTTATGTGTCATATTCGAATTAGCACTAGAGTGTAAACCT
1 AGTGCAGGTGGTGGGCACAACCTTATGTGTCATATTCGAATTAGCACTAGAGCGTAAACCT
* ** * * *
3303129 AGTGTAGGTGGTGGGCATGACCTTATGTGTCATATTCGGATTAGCACTAGAGCGTAAGCTT
1 AGTGCAGGTGGTGGGCACAACCTTATGTGTCATATTCGAATTAGCACTAGAGCGTAAACCT
3303190 AGTGCAGGT
1 AGTGCAGGT
3303199 TTAGCACTAC
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.25, C:0.15, G:0.30, T:0.30
Consensus pattern (61 bp):
AGTGCAGGTGGTGGGCACAACCTTATGTGTCATATTCGAATTAGCACTAGAGCGTAAACCT
Found at i:3303688 original size:16 final size:16
Alignment explanation
Indices: 3303664--3303708 Score: 54
Period size: 19 Copynumber: 2.6 Consensus size: 16
3303654 ACAATTTCTT
*
3303664 AATATAATTAGTATTA
1 AATAAAATTAGTATTA
3303680 AATAAAATTAATAGTATTA
1 AATAAAA-T--TAGTATTA
3303699 AATAAAATTA
1 AATAAAATTA
3303709 ATAGTATGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
16 8 0.32
17 1 0.04
18 1 0.04
19 15 0.60
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (16 bp):
AATAAAATTAGTATTA
Found at i:3303727 original size:19 final size:19
Alignment explanation
Indices: 3303672--3303715 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
3303662 TTAATATAAT
3303672 TAGTATTAAATAAAATTAA
1 TAGTATTAAATAAAATTAA
3303691 TAGTATTAAATAAAATTAA
1 TAGTATTAAATAAAATTAA
3303710 TAGTAT
1 TAGTAT
3303716 GAATAAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.39
Consensus pattern (19 bp):
TAGTATTAAATAAAATTAA
Found at i:3309549 original size:174 final size:175
Alignment explanation
Indices: 3309257--3309607 Score: 686
Period size: 174 Copynumber: 2.0 Consensus size: 175
3309247 GTGAATTGTG
3309257 AATGTGATGTGTTGCAAATGATGCATAGAATTTTGGAAACGGTTTTGTGAAAATCTATATATATT
1 AATGTGATGTGTTGCAAATGATGCATAGAATTTTGGAAACGGTTTTGTGAAAATC-ATATATATT
3309322 CTGAATGTGAATTGGATGAGCTGAACTTTCTCATTGTCCAAATATATGGGTTGATCATGAAAACT
65 CTGAATGTGAATTGGATGAGCTGAACTTTCTCATTGTCCAAATATATGGGTTGATCATGAAAACT
3309387 AAATTCGTAAGTGTGTTTCAAGGTGTATTTGAATCGATATGTGAAA
130 AAATTCGTAAGTGTGTTTCAAGGTGTATTTGAATCGATATGTGAAA
3309433 AATGTGATGTGTTGCAAATGATGCATAGAATTTTGGAAACGGTTTTGTGAAAATC-TATATATTC
1 AATGTGATGTGTTGCAAATGATGCATAGAATTTTGGAAACGGTTTTGTGAAAATCATATATATTC
3309497 TGAATGTGAATTGGATGAGCTGAACTTTCTCATTGTCCAAATATATGGGTTGATCATGAAAACTA
66 TGAATGTGAATTGGATGAGCTGAACTTTCTCATTGTCCAAATATATGGGTTGATCATGAAAACTA
3309562 AATTCGTAAGTGTGTTTCAAGGTGTATTTGAATCGATATGTGAAA
131 AATTCGTAAGTGTGTTTCAAGGTGTATTTGAATCGATATGTGAAA
3309607 A
1 A
3309608 CTTGGTTGTT
Statistics
Matches: 175, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
174 120 0.69
176 55 0.31
ACGTcount: A:0.32, C:0.09, G:0.22, T:0.36
Consensus pattern (175 bp):
AATGTGATGTGTTGCAAATGATGCATAGAATTTTGGAAACGGTTTTGTGAAAATCATATATATTC
TGAATGTGAATTGGATGAGCTGAACTTTCTCATTGTCCAAATATATGGGTTGATCATGAAAACTA
AATTCGTAAGTGTGTTTCAAGGTGTATTTGAATCGATATGTGAAA
Found at i:3311609 original size:32 final size:32
Alignment explanation
Indices: 3311563--3311623 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
3311553 TAAATGTGAT
*
3311563 ACTGACACTCTTGTGCATTATATGAATGCAAC
1 ACTGACACTATTGTGCATTATATGAATGCAAC
* *
3311595 ACTGACTCTATTGTGCATTATCTGAATGC
1 ACTGACACTATTGTGCATTATATGAATGC
3311624 GAGCTGACAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.34
Consensus pattern (32 bp):
ACTGACACTATTGTGCATTATATGAATGCAAC
Found at i:3314923 original size:15 final size:15
Alignment explanation
Indices: 3314903--3314931 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
3314893 TGGCCGACCG
3314903 AACCGAATTAACCAT
1 AACCGAATTAACCAT
3314918 AACCGAATTAACCA
1 AACCGAATTAACCA
3314932 AATTTTTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.28, G:0.07, T:0.17
Consensus pattern (15 bp):
AACCGAATTAACCAT
Found at i:3315073 original size:15 final size:15
Alignment explanation
Indices: 3315039--3315077 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
3315029 ACCGAAATTT
3315039 TTTAAAATTTTTGAA
1 TTTAAAATTTTTGAA
*
3315054 TTTAATAATTTTTTAA
1 TTTAA-AATTTTTGAA
*
3315070 TTAAAAAT
1 TTTAAAAT
3315078 AATTAAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (15 bp):
TTTAAAATTTTTGAA
Found at i:3315243 original size:23 final size:23
Alignment explanation
Indices: 3315213--3315257 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
3315203 GCAGAACTGG
3315213 AAGCATAATTCAGTATACAAACC
1 AAGCATAATTCAGTATACAAACC
3315236 AAGCATAATTCAGTATACAAAC
1 AAGCATAATTCAGTATACAAAC
3315258 AGTTTACACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.49, C:0.20, G:0.09, T:0.22
Consensus pattern (23 bp):
AAGCATAATTCAGTATACAAACC
Found at i:3319107 original size:18 final size:18
Alignment explanation
Indices: 3319086--3319123 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
3319076 ATTTTATTTA
3319086 GTTTTAAAATTTAAATGG
1 GTTTTAAAATTTAAATGG
3319104 GTTTTAAAATTTAAATGG
1 GTTTTAAAATTTAAATGG
3319122 GT
1 GT
3319124 AGTGGGCTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.18, T:0.45
Consensus pattern (18 bp):
GTTTTAAAATTTAAATGG
Found at i:3321711 original size:17 final size:18
Alignment explanation
Indices: 3321689--3321722 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
3321679 CTAATAGTGC
3321689 ATTATAT-ACTATCATAG
1 ATTATATGACTATCATAG
*
3321706 ATTATATGATTATCATA
1 ATTATATGACTATCATA
3321723 TAAATTATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.41, C:0.09, G:0.06, T:0.44
Consensus pattern (18 bp):
ATTATATGACTATCATAG
Found at i:3324599 original size:27 final size:27
Alignment explanation
Indices: 3324569--3324646 Score: 120
Period size: 27 Copynumber: 2.8 Consensus size: 27
3324559 ATTAGCTGTT
3324569 GGGAAGAAACAAGAGGTTGTTGGATTG
1 GGGAAGAAACAAGAGGTTGTTGGATTG
*
3324596 GGGAATAAACAAGAGGTTGTTGGATTG
1 GGGAAGAAACAAGAGGTTGTTGGATTG
*
3324623 GGGAAGAAATAAAAGAGGTTGTTG
1 GGGAAG-AA-ACAAGAGGTTGTTG
3324647 TTGCTCAGGA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
27 31 0.67
28 2 0.04
29 13 0.28
ACGTcount: A:0.36, C:0.03, G:0.38, T:0.23
Consensus pattern (27 bp):
GGGAAGAAACAAGAGGTTGTTGGATTG
Found at i:3340786 original size:15 final size:16
Alignment explanation
Indices: 3340768--3340805 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
3340758 AAATTATGAT
3340768 TAAATTT-ATTTTATA
1 TAAATTTAATTTTATA
*
3340783 TAAATTTAATTTTATT
1 TAAATTTAATTTTATA
3340799 TAAATTT
1 TAAATTT
3340806 TATAAATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 7 0.33
16 14 0.67
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TAAATTTAATTTTATA
Found at i:3342005 original size:17 final size:17
Alignment explanation
Indices: 3341983--3342017 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
3341973 ATAAATTACA
3341983 AGGCAGCAACATCCAAC
1 AGGCAGCAACATCCAAC
*
3342000 AGGCAGCAGCATCCAAC
1 AGGCAGCAACATCCAAC
3342017 A
1 A
3342018 CTTCTGCATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.40, C:0.34, G:0.20, T:0.06
Consensus pattern (17 bp):
AGGCAGCAACATCCAAC
Found at i:3343851 original size:17 final size:17
Alignment explanation
Indices: 3343831--3343865 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
3343821 GGAAGTCAAC
3343831 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
3343848 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
3343865 G
1 G
3343866 TCGGGTCGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.11, C:0.23, G:0.49, T:0.17
Consensus pattern (17 bp):
GGTCAACGGTCGGGTCG
Found at i:3346775 original size:12 final size:12
Alignment explanation
Indices: 3346760--3346873 Score: 86
Period size: 12 Copynumber: 9.5 Consensus size: 12
3346750 TTGGATTTAA
*
3346760 GTTCGAGTTTGG
1 GTTCGGGTTTGG
**
3346772 GTTCGGGTTCAG
1 GTTCGGGTTTGG
* * *
3346784 GATCGGGTTCGT
1 GTTCGGGTTTGG
*
3346796 GTTTGGGTTTGG
1 GTTCGGGTTTGG
* * *
3346808 GTTTGGTTTTAG
1 GTTCGGGTTTGG
3346820 GTTCGGGTTTGG
1 GTTCGGGTTTGG
*
3346832 GTTCGAGTTAT-G
1 GTTCGGGTT-TGG
**
3346844 GTTCGGGTTCAG
1 GTTCGGGTTTGG
*
3346856 GTTCTGGTTTGG
1 GTTCGGGTTTGG
3346868 GTTCGG
1 GTTCGG
3346874 TTAGAGAATA
Statistics
Matches: 78, Mismatches: 22, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
12 77 0.99
13 1 0.01
ACGTcount: A:0.06, C:0.10, G:0.42, T:0.42
Consensus pattern (12 bp):
GTTCGGGTTTGG
Found at i:3346779 original size:6 final size:6
Alignment explanation
Indices: 3346760--3346873 Score: 66
Period size: 6 Copynumber: 19.0 Consensus size: 6
3346750 TTGGATTTAA
* * * * * * *
3346760 GTTCGA GTTTGG GTTCGG GTTCAG GATCGG GTTCGT GTTTGG GTTTGG
1 GTTCGG GTTCGG GTTCGG GTTCGG GTTCGG GTTCGG GTTCGG GTTCGG
* * ** * * ** *
3346808 GTTTGG TTTTAG GTTCGG GTTTGG GTTCGA GTTATG GTTCGG GTTCAG
1 GTTCGG GTTCGG GTTCGG GTTCGG GTTCGG GTTCGG GTTCGG GTTCGG
* *
3346856 GTTCTG GTTTGG GTTCGG
1 GTTCGG GTTCGG GTTCGG
3346874 TTAGAGAATA
Statistics
Matches: 80, Mismatches: 28, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
6 80 1.00
ACGTcount: A:0.06, C:0.10, G:0.42, T:0.42
Consensus pattern (6 bp):
GTTCGG
Found at i:3347669 original size:18 final size:18
Alignment explanation
Indices: 3347648--3347713 Score: 55
Period size: 18 Copynumber: 3.7 Consensus size: 18
3347638 ATTAATGAAC
*
3347648 TATATAATATATAGTTTA
1 TATATAATATATACTTTA
** *
3347666 TATATACCATGTACTTTA
1 TATATAATATATACTTTA
*
3347684 TATAT-ATATAGT-TTTTA
1 TATATAATATA-TACTTTA
*
3347701 TATATAGTATATA
1 TATATAATATATA
3347714 TAATATAAAT
Statistics
Matches: 36, Mismatches: 9, Indels: 6
0.71 0.18 0.12
Matches are distributed among these distances:
17 12 0.33
18 24 0.67
ACGTcount: A:0.39, C:0.05, G:0.06, T:0.50
Consensus pattern (18 bp):
TATATAATATATACTTTA
Found at i:3347691 original size:33 final size:33
Alignment explanation
Indices: 3347619--3347705 Score: 104
Period size: 33 Copynumber: 2.6 Consensus size: 33
3347609 ATTAATAAAT
* *
3347619 TAATATATAGCTTATATATATTAATGAACTATA
1 TAATATATAGTTTATATATATCAATGAACTATA
* * *
3347652 TAATATATAGTTTATATATA-CCATGTACTTTA
1 TAATATATAGTTTATATATATCAATGAACTATA
*
3347684 TATATATATAGTTTTTATATAT
1 TA-ATATATAGTTTATATATAT
3347706 AGTATATATA
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
32 10 0.22
33 36 0.78
ACGTcount: A:0.40, C:0.06, G:0.06, T:0.48
Consensus pattern (33 bp):
TAATATATAGTTTATATATATCAATGAACTATA
Found at i:3347715 original size:13 final size:13
Alignment explanation
Indices: 3347682--3347720 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
3347672 CCATGTACTT
3347682 TATATATATATAG
1 TATATATATATAG
* *
3347695 TTTTTATATATAG
1 TATATATATATAG
3347708 TATATATAATATA
1 TATATAT-ATATA
3347721 AATAGTTTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
13 16 0.76
14 5 0.24
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (13 bp):
TATATATATATAG
Done.