Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167882.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_15, 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: 22478863
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 61000 characters in sequence are not A, C, G, or T
File 106 of 106
Found at i:22385871 original size:3 final size:3
Alignment explanation
Indices: 22385863--22385905 Score: 54
Period size: 3 Copynumber: 14.7 Consensus size: 3
22385853 AAAAATATTC
*
22385863 TAT TAT TAT TAT TAT TAT T-T AGAT TAT TAT TAT T-T TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TA
22385906 ATTTAACATT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
2 3 0.09
3 31 0.89
4 1 0.03
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:22388117 original size:46 final size:45
Alignment explanation
Indices: 22388050--22388260 Score: 158
Period size: 46 Copynumber: 4.6 Consensus size: 45
22388040 GAATTTTTAA
*
22388050 TTTTCAGGATTAGGTTTTTAAAGTTGTTGAGCATTTATGTCAAAAC
1 TTTTCAAGATTAGGTTTTTAAAGTTGTTGAGC-TTTATGTCAAAAC
* * **
22388096 TTTTCACGATTATGTTTTTAAAGTT-TTCGAGCCTTTATGTTGAAAC
1 TTTTCAAGATTAGGTTTTTAAAGTTGTT-GAG-CTTTATGTCAAAAC
* * * *** * *
22388142 TTTTAAAGATT-GGATTTTTTTTAAGTTGTTAAGCTTTTACACCGAAGC
1 TTTTCAAGATTAGG---TTTTTAAAGTTGTTGAGC-TTTATGTCAAAAC
* * * *
22388190 TTTTTAAGATTAGGTTTTTAAAATTATTGAGTCTTTATGTCAAATC
1 TTTTCAAGATTAGGTTTTTAAAGTTGTTGAG-CTTTATGTCAAAAC
*
22388236 TTTTTC-AGATTAGATTTTTAAAGTT
1 -TTTTCAAGATTAGGTTTTTAAAGTT
22388261 ATGGAGTCTT
Statistics
Matches: 128, Mismatches: 27, Indels: 20
0.73 0.15 0.11
Matches are distributed among these distances:
45 3 0.02
46 84 0.66
47 7 0.05
48 30 0.23
49 4 0.03
ACGTcount: A:0.27, C:0.09, G:0.16, T:0.48
Consensus pattern (45 bp):
TTTTCAAGATTAGGTTTTTAAAGTTGTTGAGCTTTATGTCAAAAC
Found at i:22388285 original size:46 final size:46
Alignment explanation
Indices: 22388189--22388308 Score: 127
Period size: 46 Copynumber: 2.6 Consensus size: 46
22388179 TACACCGAAG
* * * * *
22388189 CTTTTTAAGATTAGGTTTTTAAAATTATTGAGTCTTTATGTCAAAT
1 CTTTTTCAGATTAGATTTTTAAAGTTATGGAGTCTTTATCTCAAAT
22388235 CTTTTTCAGATTAGATTTTTAAAGTTATGGAGTCTTTGCATCT-AAA-
1 CTTTTTCAGATTAGATTTTTAAAGTTATGGAGTCTTT--ATCTCAAAT
* *
22388281 CTTTTTCAAAATGAGATTTTTTAAAGTT
1 CTTTTTC-AGATTAGA-TTTTTAAAGTT
22388309 GTTGAACCTT
Statistics
Matches: 63, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
46 40 0.63
47 9 0.14
48 14 0.22
ACGTcount: A:0.30, C:0.08, G:0.13, T:0.48
Consensus pattern (46 bp):
CTTTTTCAGATTAGATTTTTAAAGTTATGGAGTCTTTATCTCAAAT
Found at i:22388301 original size:140 final size:140
Alignment explanation
Indices: 22388057--22388311 Score: 310
Period size: 140 Copynumber: 1.8 Consensus size: 140
22388047 TAATTTTCAG
* * *
22388057 GATTAGGTTTTTAAAGTTGTTGAGCATTTATGTCAAAACTTTTCACGATTATGTTTTTAAAGTTT
1 GATTAGGTTTTTAAAATTATTGAGCATTTATGTCAAAACTTTTCACGATTATGTTTTTAAAGTTA
* *
22388122 TCGAGCCTTTATGTTGAAACTTTTAAAGATTGGATTTTTTTTAAGTTGTTAAGCTTTTACACCGA
66 TCGAGCCTTTATGCTGAAACTTTTAAAGATTGGATTTTTTTAAAGTTGTTAAGCTTTTACACCGA
22388187 AGCTTTTTAA
131 AGCTTTTTAA
*
22388197 GATTAGGTTTTTAAAATTATTGAGTC-TTTATGTCAAATCTTTTTCA-GATTA-GATTTTTAAAG
1 GATTAGGTTTTTAAAATTATTGAG-CATTTATGTCAAAAC-TTTTCACGATTATG-TTTTTAAAG
* *
22388259 TTATGGAGTCTTTGCAT-CT-AAACTTTTTCAAA-A-TGAGA-TTTTTTAAAGTTGTT
63 TTATCGAGCCTTT--ATGCTGAAAC-TTTT-AAAGATTG-GATTTTTTTAAAGTTGTT
22388312 GAACCTTTGC
Statistics
Matches: 99, Mismatches: 8, Indels: 16
0.80 0.07 0.13
Matches are distributed among these distances:
139 1 0.01
140 78 0.79
141 15 0.15
142 5 0.05
ACGTcount: A:0.28, C:0.09, G:0.16, T:0.47
Consensus pattern (140 bp):
GATTAGGTTTTTAAAATTATTGAGCATTTATGTCAAAACTTTTCACGATTATGTTTTTAAAGTTA
TCGAGCCTTTATGCTGAAACTTTTAAAGATTGGATTTTTTTAAAGTTGTTAAGCTTTTACACCGA
AGCTTTTTAA
Found at i:22391110 original size:8 final size:8
Alignment explanation
Indices: 22391099--22391193 Score: 59
Period size: 8 Copynumber: 11.9 Consensus size: 8
22391089 TGTAAAATCC
22391099 TAAAACCT
1 TAAAACCT
*
22391107 TAAAACCC
1 TAAAACCT
*
22391115 GAAAACCT
1 TAAAACCT
22391123 TGAAAACC-
1 T-AAAACCT
*
22391131 TAAAATCT
1 TAAAACCT
* *
22391139 TGAAATCT
1 TAAAACCT
** *
22391147 CGAAATCT
1 TAAAACCT
*
22391155 TAAAACCC
1 TAAAACCT
22391163 TAAAACCCT
1 TAAAA-CCT
*
22391172 AAAAACC-
1 TAAAACCT
22391179 TAAAACCT
1 TAAAACCT
*
22391187 TGAAACC
1 TAAAACC
22391194 CTGCAATCCT
Statistics
Matches: 68, Mismatches: 15, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
7 11 0.16
8 45 0.66
9 12 0.18
ACGTcount: A:0.48, C:0.26, G:0.05, T:0.20
Consensus pattern (8 bp):
TAAAACCT
Found at i:22391119 original size:16 final size:16
Alignment explanation
Indices: 22391091--22391195 Score: 88
Period size: 16 Copynumber: 6.6 Consensus size: 16
22391081 AAAAATCATG
*
22391091 TAAAATCCTAAAACCT
1 TAAAACCCTAAAACCT
*
22391107 TAAAACCCGAAAACCT
1 TAAAACCCTAAAACCT
*
22391123 TGAAAA-CCTAAAATCT
1 T-AAAACCCTAAAACCT
* * * *
22391139 TGAAA-TCTCGAAATCT
1 TAAAACCCT-AAAACCT
*
22391155 TAAAACCCTAAAACCC
1 TAAAACCCTAAAACCT
*
22391171 TAAAAACCTAAAACCT
1 TAAAACCCTAAAACCT
*
22391187 TGAAACCCT
1 TAAAACCCT
22391196 GCAATCCTGA
Statistics
Matches: 70, Mismatches: 16, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
15 5 0.07
16 59 0.84
17 6 0.09
ACGTcount: A:0.48, C:0.27, G:0.05, T:0.21
Consensus pattern (16 bp):
TAAAACCCTAAAACCT
Found at i:22393189 original size:17 final size:17
Alignment explanation
Indices: 22393169--22393201 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
22393159 TAAATAATTT
*
22393169 TTTTTATTATTAGACTC
1 TTTTTATAATTAGACTC
22393186 TTTTTATAATTAGACT
1 TTTTTATAATTAGACT
22393202 AAAAAAGTGG
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:0.27, C:0.09, G:0.06, T:0.58
Consensus pattern (17 bp):
TTTTTATAATTAGACTC
Found at i:22396063 original size:146 final size:147
Alignment explanation
Indices: 22395796--22396091 Score: 368
Period size: 147 Copynumber: 2.0 Consensus size: 147
22395786 GACCCCTTAT
**
22395796 AATATTATTTACTCTTTCCAAATGAAGAAGTTAATTGGCATTAAAATATAAAAAAAAGTCAATTT
1 AATATTATTTACTCTTTCCAAATGAAGAAGTTAATTGGCACCAAAATATAAAAAAAAGTCAATTT
* * *
22395861 GAATTATGGTAATAAGAATGAAATAACAACTAAAAAATACCATCTTTTCATATAGTAG-AAAATT
66 GAATGATGGTAATAAAAATGAAATAACAACTAAAAAATACCATCTTTTAATATAGTAGAAAAATT
*
22395925 ATTTTATGGAGAATGTGA
131 -TTTTATGGAGAATATGA
* * * * * *
22395943 AATATTATTTACTCTTTCCGAATAGAA-AAGTTGATTGGCACCAAAGTAT-AAAGAAAGTTATTT
1 AATATTATTTACTCTTTCCAAAT-GAAGAAGTTAATTGGCACCAAAATATAAAAAAAAGTCAATT
* * *
22396006 TGAATGATGGTAATAAAAATG-AATCAACAATTAAAAATGTACCATTTTTTAAT-TAGTAGAATA
65 TGAATGATGGTAATAAAAATGAAAT-AACAACTAAAAA-ATACCATCTTTTAATATAGTAG-A-A
22396069 AAATTTTTTATGGAGAATATGA
126 AAATTTTTTATGGAGAATATGA
22396091 A
1 A
22396092 GTTAATTATT
Statistics
Matches: 128, Mismatches: 15, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
145 3 0.02
146 47 0.37
147 52 0.41
148 20 0.16
149 6 0.05
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.34
Consensus pattern (147 bp):
AATATTATTTACTCTTTCCAAATGAAGAAGTTAATTGGCACCAAAATATAAAAAAAAGTCAATTT
GAATGATGGTAATAAAAATGAAATAACAACTAAAAAATACCATCTTTTAATATAGTAGAAAAATT
TTTTATGGAGAATATGA
Found at i:22396134 original size:25 final size:25
Alignment explanation
Indices: 22396095--22396148 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
22396085 ATATGAAGTT
*
22396095 AATTATTGTGAATTTAATATTTTA-A
1 AATTATTGTCAATTTAAT-TTTTATA
* *
22396120 AATTATTGTCTATTTAGTTTTTATA
1 AATTATTGTCAATTTAATTTTTATA
22396145 AATT
1 AATT
22396149 TTATTTAGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 5 0.20
25 20 0.80
ACGTcount: A:0.35, C:0.02, G:0.07, T:0.56
Consensus pattern (25 bp):
AATTATTGTCAATTTAATTTTTATA
Found at i:22396785 original size:22 final size:22
Alignment explanation
Indices: 22396757--22396827 Score: 72
Period size: 22 Copynumber: 3.2 Consensus size: 22
22396747 AGTAATCATC
*
22396757 GATAATTTAATATTAAATTAGT
1 GATAATTTAATATTAAATAAGT
*
22396779 GATAATTTAAT-TGTAAATAAAT
1 GATAATTTAATAT-TAAATAAGT
* * * *
22396801 AATAATTTAGTAATAAATAATT
1 GATAATTTAATATTAAATAAGT
22396823 GATAA
1 GATAA
22396828 CTTTTTAGTA
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
21 1 0.03
22 39 0.98
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (22 bp):
GATAATTTAATATTAAATAAGT
Found at i:22397040 original size:66 final size:66
Alignment explanation
Indices: 22396910--22397040 Score: 147
Period size: 66 Copynumber: 2.0 Consensus size: 66
22396900 TGTAAATGCA
* * * ** *
22396910 TAATAACATAGTACTAAATCAAGGATAACTTAACAAAAAATAAGTGATAATTTTGTAGTTAATTA
1 TAATAACATAGAAATAAATCAAGGATAACTTAACAAAAAATAAGTAATAATTTAATAGTAAATTA
22396975 C
66 C
* * ** *
22396976 TAATAACTTAGAAATAAATCAATGG-TAACTTAATAGTAAATTAGTAATAATTTAATAGTAAATT
1 TAATAACATAGAAATAAATCAA-GGATAACTTAACAAAAAATAAGTAATAATTTAATAGTAAATT
22397040 A
65 A
22397041 GTTTTAGCTT
Statistics
Matches: 53, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
66 51 0.96
67 2 0.04
ACGTcount: A:0.50, C:0.07, G:0.10, T:0.34
Consensus pattern (66 bp):
TAATAACATAGAAATAAATCAAGGATAACTTAACAAAAAATAAGTAATAATTTAATAGTAAATTA
C
Found at i:22397052 original size:22 final size:22
Alignment explanation
Indices: 22397001--22397058 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
22396991 AAATCAATGG
22397001 TAACTTAATAGTAAATTAGTAA
1 TAACTTAATAGTAAATTAGTAA
* **
22397023 TAATTTAATAGTAAATTAGTTT
1 TAACTTAATAGTAAATTAGTAA
*
22397045 TAGCTTAATAGTAA
1 TAACTTAATAGTAA
22397059 TTAATTGACA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.45, C:0.03, G:0.10, T:0.41
Consensus pattern (22 bp):
TAACTTAATAGTAAATTAGTAA
Found at i:22397240 original size:44 final size:43
Alignment explanation
Indices: 22397170--22397272 Score: 109
Period size: 44 Copynumber: 2.4 Consensus size: 43
22397160 ATAAATTAAT
* * * *
22397170 ATAATTTAATAGTAAATTATCAATAATATAATAGTTAATCAGTG
1 ATAACTTAATAGTAAATTAGCAATAATATAATA-TAAATCAGTA
* * *
22397214 ATAACTTAATAATAAATTAGGC-ATAATTTAATATAAATTAGTA
1 ATAACTTAATAGTAAATTA-GCAATAATATAATATAAATCAGTA
*
22397257 ATAACTTGATAGTAAA
1 ATAACTTAATAGTAAA
22397273 CCATAAATAA
Statistics
Matches: 49, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
43 21 0.43
44 27 0.55
45 1 0.02
ACGTcount: A:0.50, C:0.05, G:0.09, T:0.37
Consensus pattern (43 bp):
ATAACTTAATAGTAAATTAGCAATAATATAATATAAATCAGTA
Found at i:22397242 original size:87 final size:87
Alignment explanation
Indices: 22397151--22397317 Score: 194
Period size: 87 Copynumber: 1.9 Consensus size: 87
22397141 AATCACTGAA
* ** * *
22397151 AATTTAAAAATAAATTAAT-ATAATTTAATAGTAAATTATCAATAATATAATAGTTAATC-AGTG
1 AATTT-AAAATAAATTAATAATAACTTAATAGTAAACCATAAATAATATAATAGTAAATCGA-TG
22397214 ATAACTTAATAATAAATTAGGCAT
64 ATAACTTAATAATAAATTAGGCAT
* * * * *
22397238 AATTTAATATAAATTAGTAATAACTTGATAGTAAACCATAAATAATTTAGTAGTAAATCGATGAT
1 AATTTAAAATAAATTAATAATAACTTAATAGTAAACCATAAATAATATAATAGTAAATCGATGAT
* *
22397303 AATTTTATAATAAAT
66 AACTTAATAATAAAT
22397318 AATAAAAAAT
Statistics
Matches: 66, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
86 11 0.17
87 54 0.82
88 1 0.02
ACGTcount: A:0.50, C:0.05, G:0.08, T:0.37
Consensus pattern (87 bp):
AATTTAAAATAAATTAATAATAACTTAATAGTAAACCATAAATAATATAATAGTAAATCGATGAT
AACTTAATAATAAATTAGGCAT
Found at i:22397269 original size:65 final size:65
Alignment explanation
Indices: 22397127--22397253 Score: 175
Period size: 65 Copynumber: 2.0 Consensus size: 65
22397117 TAAATAATTG
* * *
22397127 ATAATTTAATAGTTAATCACTGAAAATTTAAAAATAAATTAATATAATTTAATAGTAAATTATCA
1 ATAATATAATAGTTAATCACTGAAAACTTAAAAATAAATTAACATAATTTAATAGTAAATTATCA
* * * *
22397192 ATAATATAATAGTTAATCAGTGATAACTTAATAATAAATTAGGCATAATTTAATA-TAAATTA
1 ATAATATAATAGTTAATCACTGAAAACTTAAAAATAAATTA-ACATAATTTAATAGTAAATTA
22397254 GTAATAACTT
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
65 43 0.80
66 11 0.20
ACGTcount: A:0.51, C:0.05, G:0.06, T:0.38
Consensus pattern (65 bp):
ATAATATAATAGTTAATCACTGAAAACTTAAAAATAAATTAACATAATTTAATAGTAAATTATCA
Found at i:22397323 original size:44 final size:44
Alignment explanation
Indices: 22397275--22397370 Score: 122
Period size: 44 Copynumber: 2.2 Consensus size: 44
22397265 ATAGTAAACC
* * * * *
22397275 ATAAATAATTTAGTAGTAAATCGATGATAATTTTATAATAAATA-
1 ATAAAAAATTAAGTAGTAAATCAATGA-AATATAATAATAAATAT
*
22397319 ATAAAAAATTAAGTAGTAAATCAATGAAATATAATAGTAAATAT
1 ATAAAAAATTAAGTAGTAAATCAATGAAATATAATAATAAATAT
22397363 ATAAAAAA
1 ATAAAAAA
22397371 ATAACGGTAA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
43 13 0.29
44 32 0.71
ACGTcount: A:0.57, C:0.02, G:0.08, T:0.32
Consensus pattern (44 bp):
ATAAAAAATTAAGTAGTAAATCAATGAAATATAATAATAAATAT
Found at i:22397381 original size:43 final size:43
Alignment explanation
Indices: 22397289--22397391 Score: 111
Period size: 44 Copynumber: 2.4 Consensus size: 43
22397279 ATAATTTAGT
* * * *
22397289 AGTAAATCGATGATAATTTTATAATAAATAATAAAAAATTAAG
1 AGTAAATCAATGATAATATAATAATAAATAATAAAAAAATAAG
*
22397332 TAGTAAATCAATGA-AATATAATAGTAAATATATAAAAAAATAACG
1 -AGTAAATCAATGATAATATAATAATAAATA-ATAAAAAAATAA-G
*
22397377 -GTAAATCATTGATAA
1 AGTAAATCAATGATAA
22397392 GTTAGTGGTA
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
43 24 0.48
44 25 0.50
45 1 0.02
ACGTcount: A:0.56, C:0.04, G:0.10, T:0.30
Consensus pattern (43 bp):
AGTAAATCAATGATAATATAATAATAAATAATAAAAAAATAAG
Found at i:22397465 original size:24 final size:24
Alignment explanation
Indices: 22397405--22397471 Score: 75
Period size: 24 Copynumber: 2.9 Consensus size: 24
22397395 AGTGGTAAAT
* *
22397405 TAATAATTTTGTAGTAAA-T-CAC
1 TAATAATTTAGTAGTAAATTACAA
* *
22397427 TAATAATGTAATAGTAAATTACAA
1 TAATAATTTAGTAGTAAATTACAA
*
22397451 TGATAATTTAGTAGTAAATTA
1 TAATAATTTAGTAGTAAATTA
22397472 GTTAATTATT
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
22 15 0.42
23 1 0.03
24 20 0.56
ACGTcount: A:0.46, C:0.04, G:0.10, T:0.39
Consensus pattern (24 bp):
TAATAATTTAGTAGTAAATTACAA
Found at i:22397565 original size:21 final size:21
Alignment explanation
Indices: 22397540--22397694 Score: 60
Period size: 22 Copynumber: 7.2 Consensus size: 21
22397530 AATTTATAAT
* *
22397540 AAATCATTAATAACTTAGTGG
1 AAATCATTAATAACTTAATAG
** * *
22397561 AAATCACCAAGAATTTAATAG
1 AAATCATTAATAACTTAATAG
* *
22397582 AAATCATTAATAAGTTAATGAT
1 AAATCATTAATAACTTAAT-AG
* * * *
22397604 AAATAATTTATAAGTTAATGG
1 AAATCATTAATAACTTAATAG
* * * * *
22397625 CAATCGTTCATAAAATATAA-AT
1 AAATCATTAAT-AACT-TAATAG
* * * *
22397647 AAATTATTGATAATTTAGTAG
1 AAATCATTAATAACTTAATAG
*
22397668 TAAATTATTAATAACTTAATAG
1 -AAATCATTAATAACTTAATAG
22397690 TAAAT
1 -AAAT
22397695 AACTGATAAC
Statistics
Matches: 97, Mismatches: 32, Indels: 9
0.70 0.23 0.07
Matches are distributed among these distances:
20 2 0.02
21 41 0.42
22 51 0.53
23 3 0.03
ACGTcount: A:0.48, C:0.06, G:0.10, T:0.35
Consensus pattern (21 bp):
AAATCATTAATAACTTAATAG
Found at i:22397616 original size:22 final size:22
Alignment explanation
Indices: 22397582--22397623 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
22397572 AATTTAATAG
*
22397582 AAATCATTAATAAGTTAATGAT
1 AAATAATTAATAAGTTAATGAT
*
22397604 AAATAATTTATAAGTTAATG
1 AAATAATTAATAAGTTAATG
22397624 GCAATCGTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.50, C:0.02, G:0.10, T:0.38
Consensus pattern (22 bp):
AAATAATTAATAAGTTAATGAT
Found at i:22397671 original size:22 final size:22
Alignment explanation
Indices: 22397646--22397704 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 22
22397636 AAAATATAAA
* *
22397646 TAAATTATTGATAATTTAGTAG
1 TAAATTATTGATAACTTAATAG
*
22397668 TAAATTATTAATAACTTAATAG
1 TAAATTATTGATAACTTAATAG
* *
22397690 TAAATAACTGATAAC
1 TAAATTATTGATAAC
22397705 ATAACTGTCA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.47, C:0.05, G:0.08, T:0.39
Consensus pattern (22 bp):
TAAATTATTGATAACTTAATAG
Found at i:22398041 original size:22 final size:22
Alignment explanation
Indices: 22398000--22398129 Score: 66
Period size: 22 Copynumber: 5.9 Consensus size: 22
22397990 AAATAATAAA
* * *
22398000 TGATAACTTAGTAGTCAATTAT
1 TGATAACTTAATAATAAATTAT
*
22398022 TGATAACTTAATAATAAATTAG
1 TGATAACTTAATAATAAATTAT
* * * * *
22398044 TAATAAGTTAATAGTAAATCAA
1 TGATAACTTAATAATAAATTAT
** *
22398066 TG-TCAGTTTAGTAAT-AATTAAT
1 TGAT-AACTTAATAATAAATT-AT
* *
22398088 TGATAAAATTAATAATAAATCAT
1 TGAT-AACTTAATAATAAATTAT
** *
22398111 AAATAACTTAATAGTAAAT
1 TGATAACTTAATAATAAAT
22398130 CAACTATAAT
Statistics
Matches: 79, Mismatches: 25, Indels: 8
0.71 0.22 0.07
Matches are distributed among these distances:
21 4 0.05
22 59 0.75
23 13 0.16
24 3 0.04
ACGTcount: A:0.48, C:0.05, G:0.09, T:0.37
Consensus pattern (22 bp):
TGATAACTTAATAATAAATTAT
Found at i:22398122 original size:67 final size:66
Alignment explanation
Indices: 22398007--22398132 Score: 175
Period size: 67 Copynumber: 1.9 Consensus size: 66
22397997 AAATGATAAC
* * * *
22398007 TTAGTAGTCAATTATTGATAACTTAATAATAAATTAGTAATAAGTTAATAGTAAATCAATGTCAG
1 TTAGTAATCAATTATTGATAAATTAATAATAAATCAGTAATAACTTAATAGTAAATCAATGTCAG
22398072 T
66 T
22398073 TTAGTAAT-AATTAATTGATAAAATTAATAATAAATCA-TAAATAACTTAATAGTAAATCAA
1 TTAGTAATCAATT-ATTGAT-AAATTAATAATAAATCAGT-AATAACTTAATAGTAAATCAA
22398133 CTATAATTTA
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
65 4 0.08
66 14 0.26
67 35 0.66
ACGTcount: A:0.49, C:0.06, G:0.09, T:0.37
Consensus pattern (66 bp):
TTAGTAATCAATTATTGATAAATTAATAATAAATCAGTAATAACTTAATAGTAAATCAATGTCAG
T
Found at i:22398143 original size:67 final size:65
Alignment explanation
Indices: 22398002--22398145 Score: 166
Period size: 67 Copynumber: 2.2 Consensus size: 65
22397992 ATAATAAATG
* * * * *
22398002 ATAACTTAGTAGTCAATTATTGATAACTTAATAATAAATTAGTAATAAGTTAATAGTAAATCAAT
1 ATAATTTAGTAATCAATTATTGATAAATTAATAATAAATCAGTAATAACTTAATAGTAAATCAAT
* *
22398067 GTCAGTTTAGTAAT-AATTAATTGATAAAATTAATAATAAATCA-TAAATAACTTAATAGTAAAT
1 AT-AATTTAGTAATCAATT-ATTGAT-AAATTAATAATAAATCAGT-AATAACTTAATAGTAAAT
22398130 CAACT
62 CAA-T
22398135 ATAATTTAGTA
1 ATAATTTAGTA
22398146 GTTAAAATTA
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
65 5 0.08
66 15 0.23
67 43 0.66
68 2 0.03
ACGTcount: A:0.49, C:0.06, G:0.08, T:0.37
Consensus pattern (65 bp):
ATAATTTAGTAATCAATTATTGATAAATTAATAATAAATCAGTAATAACTTAATAGTAAATCAAT
Found at i:22398237 original size:21 final size:22
Alignment explanation
Indices: 22398096--22398239 Score: 93
Period size: 22 Copynumber: 6.5 Consensus size: 22
22398086 ATTGATAAAA
* * *
22398096 TTAATAATAAATCATAAATAAC
1 TTAATAGTAAATCATCAATAAT
* *
22398118 TTAATAGTAAATCAACTATAAT
1 TTAATAGTAAATCATCAATAAT
* * *
22398140 TTAGTAGTTAAA--AT-TATAAAC
1 TTAATAG-TAAATCATCAAT-AAT
*
22398161 TTAAAAGTAAATCA--ATATAATT
1 TTAATAGTAAATCATCA-ATAA-T
*
22398183 TAATAATAGTTAATCATCAATAAT
1 T--TAATAGTAAATCATCAATAAT
*
22398207 TTAATAGTAAATCATGAATAAT
1 TTAATAGTAAATCATCAATAAT
22398229 TTAAT-GTAAAT
1 TTAATAGTAAAT
22398240 TAGTAATAAT
Statistics
Matches: 96, Mismatches: 16, Indels: 21
0.72 0.12 0.16
Matches are distributed among these distances:
20 7 0.07
21 16 0.17
22 51 0.53
23 4 0.04
24 13 0.14
25 4 0.04
26 1 0.01
ACGTcount: A:0.51, C:0.06, G:0.06, T:0.37
Consensus pattern (22 bp):
TTAATAGTAAATCATCAATAAT
Found at i:22398304 original size:22 final size:21
Alignment explanation
Indices: 22398201--22398305 Score: 68
Period size: 22 Copynumber: 4.9 Consensus size: 21
22398191 GTTAATCATC
*
22398201 AATAATTTAATAGTAAATCATG
1 AATAATTTAATAGTAAAT-TTG
*
22398223 AATAATTTAAT-GTAAATTAG
1 AATAATTTAATAGTAAATTTG
* * *
22398243 TAATAATTTGATAATGAATTATG
1 -AATAATTTAATAGTAAATT-TG
** * *
22398266 GTTAATTTAGTAATAAATTTG
1 AATAATTTAATAGTAAATTTG
* *
22398287 TGATAATTTTATAGTAAAT
1 -AATAATTTAATAGTAAAT
22398306 AATTGAAAAC
Statistics
Matches: 64, Mismatches: 15, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
20 1 0.02
21 18 0.28
22 44 0.69
23 1 0.02
ACGTcount: A:0.45, C:0.01, G:0.11, T:0.43
Consensus pattern (21 bp):
AATAATTTAATAGTAAATTTG
Found at i:22398380 original size:22 final size:22
Alignment explanation
Indices: 22398355--22398402 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
22398345 TAAATGTATA
22398355 ATAACAT-GATAGGAAATTATTG
1 ATAACATAGATA-GAAATTATTG
** *
22398377 ATAATTTAGATATAAATTATTG
1 ATAACATAGATAGAAATTATTG
22398399 ATAA
1 ATAA
22398403 ACTTTATAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.48, C:0.02, G:0.12, T:0.38
Consensus pattern (22 bp):
ATAACATAGATAGAAATTATTG
Found at i:22400857 original size:44 final size:44
Alignment explanation
Indices: 22400769--22400990 Score: 154
Period size: 44 Copynumber: 5.1 Consensus size: 44
22400759 TTCTGATAAA
* * * * *
22400769 TTAATAGTAAATTAGTT-ATAATTTTATAATAAATC-GTCACTAAT
1 TTAATAATAAATCA-TTAATAATTTAATAATAAATCAAT-ATTAAT
* * * *
22400813 TTATTAATAAATTATCAATAATTTAATAATAAAT-AATTTATAAT
1 TTAATAATAAATCATTAATAATTTAATAATAAATCAATAT-TAAT
* * * *
22400857 TTAGTAGTAAATCATTAATAAATTAATAACAAATCAATATTAAT
1 TTAATAATAAATCATTAATAATTTAATAATAAATCAATATTAAT
* *
22400901 TTAAT-ATAAATCATTAATAATTT-ATAAT-ATTC-ATAGATAAT
1 TTAATAATAAATCATTAATAATTTAATAATAAATCAATA-TTAAT
* ** * * *
22400942 TTAATAATAAAT-AGTTGATAAAATAATAATAAATTAATAATAAC
1 TTAATAATAAATCA-TTAATAATTTAATAATAAATCAATATTAAT
22400986 TTAAT
1 TTAAT
22400991 TATCGATAAT
Statistics
Matches: 142, Mismatches: 26, Indels: 20
0.76 0.14 0.11
Matches are distributed among these distances:
40 3 0.02
41 13 0.09
42 17 0.12
43 22 0.15
44 80 0.56
45 7 0.05
ACGTcount: A:0.51, C:0.05, G:0.04, T:0.41
Consensus pattern (44 bp):
TTAATAATAAATCATTAATAATTTAATAATAAATCAATATTAAT
Found at i:22400859 original size:22 final size:22
Alignment explanation
Indices: 22400764--22400990 Score: 135
Period size: 22 Copynumber: 10.5 Consensus size: 22
22400754 AAAAATTCTG
* * *
22400764 ATAAATTAATAGTAAATTAGTT-
1 ATAATTTAATAATAAA-TAATTA
* ** *
22400786 ATAATTTTATAATAAATCGTCA
1 ATAATTTAATAATAAATAATTA
* * * *
22400808 CTAATTTATTAATAAATTATCA
1 ATAATTTAATAATAAATAATTA
*
22400830 ATAATTTAATAATAAATAATTT
1 ATAATTTAATAATAAATAATTA
* * *
22400852 ATAATTTAGTAGTAAATCATTA
1 ATAATTTAATAATAAATAATTA
* *
22400874 ATAAATTAATAACAAATCAA-TA
1 ATAATTTAATAATAAAT-AATTA
* *
22400896 TTAATTTAAT-ATAAATCATTA
1 ATAATTTAATAATAAATAATTA
* *
22400917 ATAATTT-ATAAT-ATTCA-TA
1 ATAATTTAATAATAAATAATTA
* *
22400936 GATAATTTAATAATAAATAGTTG
1 -ATAATTTAATAATAAATAATTA
**
22400959 ATAAAATAATAATAAATTAA-TA
1 ATAATTTAATAATAAA-TAATTA
*
22400981 ATAACTTAAT
1 ATAATTTAAT
22400991 TATCGATAAT
Statistics
Matches: 156, Mismatches: 40, Indels: 18
0.73 0.19 0.08
Matches are distributed among these distances:
19 2 0.01
20 14 0.09
21 23 0.15
22 113 0.72
23 4 0.03
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.41
Consensus pattern (22 bp):
ATAATTTAATAATAAATAATTA
Found at i:22400989 original size:11 final size:11
Alignment explanation
Indices: 22400817--22400990 Score: 83
Period size: 11 Copynumber: 16.1 Consensus size: 11
22400807 ACTAATTTAT
22400817 TAATAAATT-A
1 TAATAAATTAA
*
22400827 TCAATAATTTAA
1 T-AATAAATTAA
22400839 TAATAAA-TAA
1 TAATAAATTAA
* * *
22400849 TTTATAATTTAG
1 -TAATAAATTAA
* * *
22400861 TAGTAAATCAT
1 TAATAAATTAA
22400872 TAATAAATTAA
1 TAATAAATTAA
* *
22400883 TAACAAATCAA
1 TAATAAATTAA
* *
22400894 TATTAATTTAA
1 TAATAAATTAA
* *
22400905 T-ATAAATCAT
1 TAATAAATTAA
*
22400915 TAAT-AATTTA
1 TAATAAATTAA
*
22400925 TAAT--ATTCA
1 TAATAAATTAA
*
22400934 TAGATAATTTAA
1 TA-ATAAATTAA
*
22400946 TAATAAA-TAGT
1 TAATAAATTA-A
* *
22400957 TGATAAAATAA
1 TAATAAATTAA
22400968 TAATAAATTAA
1 TAATAAATTAA
*
22400979 TAATAACTTAA
1 TAATAAATTAA
22400990 T
1 T
22400991 TATCGATAAT
Statistics
Matches: 118, Mismatches: 36, Indels: 19
0.68 0.21 0.11
Matches are distributed among these distances:
9 6 0.05
10 21 0.18
11 80 0.68
12 11 0.09
ACGTcount: A:0.53, C:0.04, G:0.03, T:0.40
Consensus pattern (11 bp):
TAATAAATTAA
Found at i:22403125 original size:38 final size:38
Alignment explanation
Indices: 22403083--22403159 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
22403073 TCATATTCAG
22403083 AGGAATGGTTGTTGCTCGTGAAATTCTTTTCCTCCTCA
1 AGGAATGGTTGTTGCTCGTGAAATTCTTTTCCTCCTCA
22403121 AGGAATGGTTGTTGCTCGTGAAATTCTTTTCCTCCTCA
1 AGGAATGGTTGTTGCTCGTGAAATTCTTTTCCTCCTCA
22403159 A
1 A
22403160 TTTCACATTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.39
Consensus pattern (38 bp):
AGGAATGGTTGTTGCTCGTGAAATTCTTTTCCTCCTCA
Found at i:22408881 original size:59 final size:59
Alignment explanation
Indices: 22408808--22408943 Score: 159
Period size: 60 Copynumber: 2.3 Consensus size: 59
22408798 TTTGTAAATT
* * * *
22408808 TATTTAAATAAATTTTTATATTTT-TGTTAGATTCAAATAAGTTTTTTA-TCTTTAATTTA
1 TATTTAAATAAATTTTTAAATTTTAT-TTAGATTCAAATAAATCTTTAACT-TTTAATTTA
* *
22408867 TATTTAAATTAATTTTTAAATTTTAATTTATATTCAAATAAATCTTTAACTTTTAATTTA
1 TATTTAAATAAATTTTTAAATTTT-ATTTAGATTCAAATAAATCTTTAACTTTTAATTTA
*
22408927 CATTTAAATAAGATTTT
1 TATTTAAATAA-ATTTT
22408944 AATATAAATT
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
59 22 0.34
60 36 0.55
61 7 0.11
ACGTcount: A:0.38, C:0.04, G:0.03, T:0.55
Consensus pattern (59 bp):
TATTTAAATAAATTTTTAAATTTTATTTAGATTCAAATAAATCTTTAACTTTTAATTTA
Found at i:22408883 original size:30 final size:30
Alignment explanation
Indices: 22408808--22408980 Score: 113
Period size: 30 Copynumber: 5.6 Consensus size: 30
22408798 TTTGTAAATT
*
22408808 TATTTAAATAAATTTTTATATTTT--TGTTA
1 TATTTAAATTAATTTTTATATTTTAAT-TTA
* *
22408837 GATTCAAA-TAAGTTTTT-TATCTTTAATTTA
1 TATTTAAATTAA-TTTTTATAT-TTTAATTTA
*
22408867 TATTTAAATTAATTTTTAAATTTTAATTTA
1 TATTTAAATTAATTTTTATATTTTAATTTA
* * *
22408897 TATTCAAATAAATCTTTA-ACTTTTAATTTA
1 TATTTAAATTAATTTTTATA-TTTTAATTTA
* * **
22408927 CATTTAAATAAGATTTTAATATAAATTAATTTA
1 TATTTAAATTA-ATTTT--TATATTTTAATTTA
* *
22408960 TTATTTGAAATAAAATTTTAT
1 -TATTT-AAATTAATTTTTAT
22408981 TTAATATAAA
Statistics
Matches: 115, Mismatches: 16, Indels: 23
0.75 0.10 0.15
Matches are distributed among these distances:
28 5 0.04
29 15 0.13
30 57 0.50
31 10 0.09
32 3 0.03
33 10 0.09
34 9 0.08
35 6 0.05
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.54
Consensus pattern (30 bp):
TATTTAAATTAATTTTTATATTTTAATTTA
Found at i:22409015 original size:23 final size:24
Alignment explanation
Indices: 22408971--22409021 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
22408961 TATTTGAAAT
*
22408971 AAAATTTTATTTAATATAAATAAA
1 AAAATTTTATTAAATATAAATAAA
22408995 CAAAA-TTTATTAAATAT-AATAAA
1 -AAAATTTTATTAAATATAAATAAA
22409018 AAAA
1 AAAA
22409022 CATATAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 4 0.16
23 6 0.24
24 11 0.44
25 4 0.16
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (24 bp):
AAAATTTTATTAAATATAAATAAA
Found at i:22410180 original size:6 final size:6
Alignment explanation
Indices: 22410171--22410239 Score: 79
Period size: 6 Copynumber: 11.2 Consensus size: 6
22410161 TTTCTCTTCA
*
22410171 TTTTAT TTTTAT TTTT-T TAATTTAT TTTTAT TTTGTAT TTTACAT TTTTA-
1 TTTTAT TTTTAT TTTTAT T--TTTAT TTTTAT TTT-TAT TTT-TAT TTTTAT
22410221 TTTTAT TTTTAT TTTTAT T
1 TTTTAT TTTTAT TTTTAT T
22410240 ATTTTATATA
Statistics
Matches: 55, Mismatches: 3, Indels: 10
0.81 0.04 0.15
Matches are distributed among these distances:
5 7 0.13
6 32 0.58
7 14 0.25
8 2 0.04
ACGTcount: A:0.19, C:0.01, G:0.01, T:0.78
Consensus pattern (6 bp):
TTTTAT
Found at i:22410199 original size:25 final size:25
Alignment explanation
Indices: 22410171--22410245 Score: 78
Period size: 31 Copynumber: 2.8 Consensus size: 25
22410161 TTTCTCTTCA
22410171 TTTTATTTTTATTTTTTTAATTTAT
1 TTTTATTTTTATTTTTTTAATTTAT
*
22410196 TTTTATTTTGTATTTTACATTTTTATTTTAT
1 TTTTATTTT-TA--TT---TTTTTAATTTAT
*
22410227 TTTTATTTTTATTATTTTA
1 TTTTATTTTTATTTTTTTA
22410246 TATATGTATA
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
25 14 0.33
26 2 0.05
28 4 0.10
30 2 0.05
31 20 0.48
ACGTcount: A:0.20, C:0.01, G:0.01, T:0.77
Consensus pattern (25 bp):
TTTTATTTTTATTTTTTTAATTTAT
Found at i:22410246 original size:25 final size:25
Alignment explanation
Indices: 22410170--22410246 Score: 88
Period size: 25 Copynumber: 3.1 Consensus size: 25
22410160 TTTTCTCTTC
*
22410170 ATTTTATTTTTATTTTT-TTAATTT
1 ATTTTATTTTTATTTTTATTATTTT
*
22410194 ATTTTTATTTTGTA-TTTTA-CATTTTT
1 A-TTTTATTTT-TATTTTTATTA-TTTT
22410220 ATTTTATTTTTATTTTTATTATTTT
1 ATTTTATTTTTATTTTTATTATTTT
22410245 AT
1 AT
22410247 ATATGTATAT
Statistics
Matches: 44, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
24 3 0.07
25 34 0.77
26 7 0.16
ACGTcount: A:0.21, C:0.01, G:0.01, T:0.77
Consensus pattern (25 bp):
ATTTTATTTTTATTTTTATTATTTT
Found at i:22410275 original size:50 final size:49
Alignment explanation
Indices: 22410159--22410297 Score: 129
Period size: 50 Copynumber: 2.8 Consensus size: 49
22410149 TTTTCTTTTC
* * * * *
22410159 TTTTTCTCTTCATTTTATTTTTATTTTT-TTAATTTATTTTTATTTTGTA
1 TTTTTCTTTTC-TTTTATTTTTATTTTTATTATTTTATTTGTATTATATA
* *
22410208 TTTTACATTTTTATTTTATTTTTATTTTTATTATTTTATATATGTA-TATATA
1 TTTTTC--TTTTCTTTTATTTTTATTTTTATTATTTTAT-T-TGTATTATATA
* *
22410260 TTTTTCTTTTCTTTTATTATTATTATTATTATTATTAT
1 TTTTTCTTTTCTTTTATTTTTATTTTTATTATT-TTAT
22410298 CTTAGATTTA
Statistics
Matches: 73, Mismatches: 11, Indels: 10
0.78 0.12 0.11
Matches are distributed among these distances:
49 5 0.07
50 40 0.55
51 15 0.21
52 10 0.14
53 3 0.04
ACGTcount: A:0.22, C:0.04, G:0.01, T:0.73
Consensus pattern (49 bp):
TTTTTCTTTTCTTTTATTTTTATTTTTATTATTTTATTTGTATTATATA
Found at i:22410281 original size:3 final size:3
Alignment explanation
Indices: 22410273--22410297 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
22410263 TTCTTTTCTT
22410273 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
22410298 CTTAGATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:22410300 original size:28 final size:28
Alignment explanation
Indices: 22410216--22410343 Score: 77
Period size: 28 Copynumber: 4.5 Consensus size: 28
22410206 TATTTTACAT
* *
22410216 TTTTATT-TTATTTTTATTTTTATTA--
1 TTTTATTATTATTATTATTATTATTATC
* * *
22410241 TTTTATATATGTA-TATATATTTTTCTTTTC
1 TTTTAT-TAT-TATTAT-TATTATTATTATC
22410271 TTTTATTATTATTATTATTATTATTATC
1 TTTTATTATTATTATTATTATTATTATC
** *
22410299 TTAGATTTATGTATTTATTAATATGTATATATC
1 TTTTA-TTAT-TA-TTATTATTAT-TAT-TATC
22410332 -TTTATTATTATT
1 TTTTATTATTATT
22410344 TATTTTTCTT
Statistics
Matches: 80, Mismatches: 11, Indels: 20
0.72 0.10 0.18
Matches are distributed among these distances:
25 6 0.08
26 1 0.01
27 3 0.04
28 26 0.32
29 12 0.15
30 10 0.12
31 13 0.16
32 5 0.06
33 4 0.05
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.67
Consensus pattern (28 bp):
TTTTATTATTATTATTATTATTATTATC
Found at i:22410404 original size:22 final size:21
Alignment explanation
Indices: 22410361--22410471 Score: 68
Period size: 21 Copynumber: 5.1 Consensus size: 21
22410351 CTTTTTTTTC
*
22410361 CTGTTAATATTTCTGTAA-TTAT
1 CTGTTAAT-TTT-TTTAATTTAT
22410383 CTGTT-ATTTAATTTTAATTTAT
1 CTGTTAATTT--TTTTAATTTAT
*
22410405 CTGTTAATTTTTTTGATTTAT
1 CTGTTAATTTTTTTAATTTAT
* *
22410426 CTGATTTATTTTCGTTTGATTT-T
1 CTG-TTAATTTT--TTTAATTTAT
* * *
22410449 -TTTTATTTTTTTTTATTTAT
1 CTGTTAATTTTTTTAATTTAT
22410469 CTG
1 CTG
22410472 ACTGGAAATT
Statistics
Matches: 72, Mismatches: 8, Indels: 19
0.73 0.08 0.19
Matches are distributed among these distances:
19 7 0.10
20 3 0.04
21 26 0.36
22 23 0.32
23 5 0.07
24 8 0.11
ACGTcount: A:0.20, C:0.06, G:0.08, T:0.66
Consensus pattern (21 bp):
CTGTTAATTTTTTTAATTTAT
Found at i:22410756 original size:11 final size:10
Alignment explanation
Indices: 22410729--22410755 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
22410719 ATTTTTTTGA
22410729 GATTTTTGGT
1 GATTTTTGGT
22410739 GATTTTTGGT
1 GATTTTTGGT
22410749 GATTTTT
1 GATTTTT
22410756 TTTCTGGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.11, C:0.00, G:0.26, T:0.63
Consensus pattern (10 bp):
GATTTTTGGT
Found at i:22411356 original size:4 final size:4
Alignment explanation
Indices: 22411296--22411345 Score: 59
Period size: 4 Copynumber: 12.8 Consensus size: 4
22411286 TTTTTTTTGA
* *
22411296 ATTT ATTT ATTT ATTT ATTT GTTT ATTT TTTT A-TT -TTT ATTT ATTAT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATT-T
22411343 ATT
1 ATT
22411346 AGGTTTATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
3 4 0.10
4 31 0.79
5 4 0.10
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (4 bp):
ATTT
Found at i:22411385 original size:17 final size:16
Alignment explanation
Indices: 22411324--22411417 Score: 64
Period size: 17 Copynumber: 5.6 Consensus size: 16
22411314 TTGTTTATTT
22411324 TTTTATTTTTA-TTTA
1 TTTTATTTTTATTTTA
* *
22411339 TTATATTAGGTTTATTTAA
1 TTTTATT---TTTATTTTA
* *
22411358 TATTCTTTTTATCTTTA
1 TTTTATTTTTAT-TTTA
*
22411375 TTTTATTTTTATTTTTG
1 TTTTATTTTTA-TTTTA
*
22411392 TTTTACTTTTTGTTTTA
1 TTTTA-TTTTTATTTTA
*
22411409 TTTTGTTTT
1 TTTTATTTT
22411418 ATTATTCTAT
Statistics
Matches: 60, Mismatches: 12, Indels: 13
0.71 0.14 0.15
Matches are distributed among these distances:
15 6 0.10
16 9 0.15
17 28 0.47
18 10 0.17
19 7 0.12
ACGTcount: A:0.17, C:0.03, G:0.05, T:0.74
Consensus pattern (16 bp):
TTTTATTTTTATTTTA
Found at i:22411395 original size:11 final size:11
Alignment explanation
Indices: 22411371--22411420 Score: 68
Period size: 11 Copynumber: 4.5 Consensus size: 11
22411361 TCTTTTTATC
22411371 TTTATTTTAT-T
1 TTTATTTT-TGT
22411382 TTTATTTTTGT
1 TTTATTTTTGT
22411393 TTTACTTTTTGT
1 TTTA-TTTTTGT
22411405 TTTA-TTTTGT
1 TTTATTTTTGT
22411415 TTTATT
1 TTTATT
22411421 ATTCTATTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
10 11 0.31
11 14 0.39
12 11 0.31
ACGTcount: A:0.12, C:0.02, G:0.06, T:0.80
Consensus pattern (11 bp):
TTTATTTTTGT
Found at i:22411499 original size:59 final size:58
Alignment explanation
Indices: 22411427--22411845 Score: 342
Period size: 59 Copynumber: 7.3 Consensus size: 58
22411417 TATTATTCTA
* *
22411427 TTTTCTT-TAAATAAAAACCAAAAAAAAAATATTTTGGGGAAAAGTTGAAAGTATCAAT
1 TTTTCTTAAAAATAAAAATCAAAAAAAAAAT-TTTTGGGGAAAAGTTGAAAGTATCAAT
* * * *
22411485 TTTTTTTAAAAATAAAATTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAACTATCAAT
1 TTTTCTTAAAAATAAAA-ATCAAAAAAAAAATTTTTGGGGAAAAGTTGAAAGTATCAAT
* * * *
22411544 TTTTCTTGAAAATCAAAATTTTC-AAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAAT
1 TTTTCTTAAAAAT-AAAA--ATCAAAAAAAAAATTTTTGGGGAAAAGTTGAAAGTATCAAT
* ** * * *
22411604 TTTCCTTAAAAATAAATTTCTAAAAAAATATTTTTGGGGAAAAGTTAAAAGTATCAAT
1 TTTTCTTAAAAATAAAAATCAAAAAAAAAATTTTTGGGGAAAAGTTGAAAGTATCAAT
** * ** * *
22411662 TTTTCTTAAAAATAAATTTTTAAAAAATCAATTTTT-GAGAAAAATTG--A-TA-C--T
1 TTTTCTTAAAAATAAA-AATCAAAAAAAAAATTTTTGGGGAAAAGTTGAAAGTATCAAT
* * * ** * *
22411714 ATTCCTTGAAAATCAAAGTTTC-CAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAAT
1 TTTTCTTAAAAAT-AAA-AATCAAAAAAAAAATTTTTGGGGAAAAGTTGAAAGTATCAAT
* *** *
22411773 TTTTCTTAAAAATAAATATTC--AAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAA-
1 TTTTCTTAAAAATAAA-AATCAAAAAAAAAATTTTTGGGGAAAAGTTGAAAGTATCAAT
22411829 TTTTCTTTAAAAATAAA
1 TTTTC-TTAAAAATAAA
22411846 TTTTTGAGGA
Statistics
Matches: 302, Mismatches: 44, Indels: 31
0.80 0.12 0.08
Matches are distributed among these distances:
52 21 0.07
53 15 0.05
54 1 0.00
55 3 0.01
56 8 0.03
57 46 0.15
58 70 0.23
59 73 0.24
60 61 0.20
61 4 0.01
ACGTcount: A:0.46, C:0.07, G:0.11, T:0.36
Consensus pattern (58 bp):
TTTTCTTAAAAATAAAAATCAAAAAAAAAATTTTTGGGGAAAAGTTGAAAGTATCAAT
Found at i:22411547 original size:58 final size:57
Alignment explanation
Indices: 22411449--22411845 Score: 420
Period size: 58 Copynumber: 6.9 Consensus size: 57
22411439 AAAAACCAAA
22411449 AAAAAAATA-TTTTGGGGAAAAGTTGAAAGTATCAATTTTTTTTAAAAATAAAATTTC
1 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAA-TTTTTTTAAAAATAAAATTTC
* *
22411506 AAAAAAAATATTTTTGGGGAAAAGTTGAAACTATCAATTTTTCTTGAAAATCAAAATTTTC
1 -AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTT-TTAAAAAT-AAAA-TTTC
* *
22411567 AAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAATTTC
1 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTT-TTTAAAAATAAAATTTC
* *
22411624 TAAAAAAATATTTTTGGGGAAAAGTTAAAAGTATCAATTTTTCTTAAAAAT-AAATTTT
1 -AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTT-TTAAAAATAAAATTTC
* * * * ** * *
22411682 TAAAAAATCAATTTTT-GAGAAAAATTG--A-TA-CTA-TTCCTTGAAAATCAAAGTTTC
1 AAAAAAAT--ATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTTTAAAAAT-AAAATTTC
*
22411736 CAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT-AAATATTC
1 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTT-TTAAAAATAAAAT-TTC
*** *
22411794 -AAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTAAAAATAAA
1 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTT-TTTAAAAATAAA
22411846 TTTTTGAGGA
Statistics
Matches: 286, Mismatches: 32, Indels: 42
0.79 0.09 0.12
Matches are distributed among these distances:
52 13 0.05
53 11 0.04
54 14 0.05
55 3 0.01
56 3 0.01
57 59 0.21
58 85 0.30
59 45 0.16
60 49 0.17
61 4 0.01
ACGTcount: A:0.46, C:0.06, G:0.12, T:0.36
Consensus pattern (57 bp):
AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTTTAAAAATAAAATTTC
Found at i:22411935 original size:29 final size:29
Alignment explanation
Indices: 22411855--22411948 Score: 86
Period size: 29 Copynumber: 3.1 Consensus size: 29
22411845 ATTTTTGAGG
22411855 AAAAGTTGAAAGTATCAATTTTTCTCT-AA
1 AAAAGTTGAAAGTATCAATTTTT-TCTGAA
* *
22411884 ATTAAAGTTTCAAAAGAAT--ATTTTTTCTGAA
1 A--AAAG-TT-GAAAGTATCAATTTTTTCTGAA
*
22411915 AAAAGTTGAAAGTATCAATTTTCTCTGCAA
1 AAAAGTTGAAAGTATCAATTTTTTCTG-AA
22411945 AAAA
1 AAAA
22411949 ACAATCATTC
Statistics
Matches: 52, Mismatches: 5, Indels: 15
0.72 0.07 0.21
Matches are distributed among these distances:
27 6 0.12
28 2 0.04
29 14 0.27
30 9 0.17
31 13 0.25
32 2 0.04
33 6 0.12
ACGTcount: A:0.44, C:0.10, G:0.11, T:0.36
Consensus pattern (29 bp):
AAAAGTTGAAAGTATCAATTTTTTCTGAA
Found at i:22415066 original size:15 final size:15
Alignment explanation
Indices: 22415041--22415087 Score: 85
Period size: 15 Copynumber: 3.1 Consensus size: 15
22415031 TTTGCATACA
22415041 TGCATTTTTCATTCAT
1 TGCA-TTTTCATTCAT
22415057 TGCATTTTCATTCAT
1 TGCATTTTCATTCAT
22415072 TGCATTTTCATTCAT
1 TGCATTTTCATTCAT
22415087 T
1 T
22415088 ACACTTAACA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
15 27 0.87
16 4 0.13
ACGTcount: A:0.19, C:0.19, G:0.06, T:0.55
Consensus pattern (15 bp):
TGCATTTTCATTCAT
Found at i:22422330 original size:8 final size:8
Alignment explanation
Indices: 22422300--22422330 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
22422290 ACTATGCTTG
22422300 AAAAAAAT
1 AAAAAAAT
*
22422308 GAAAAAAT
1 AAAAAAAT
22422316 AAAAAAAT
1 AAAAAAAT
22422324 AAAAAAA
1 AAAAAAA
22422331 AAGTGAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.87, C:0.00, G:0.03, T:0.10
Consensus pattern (8 bp):
AAAAAAAT
Found at i:22423494 original size:43 final size:41
Alignment explanation
Indices: 22423340--22423506 Score: 226
Period size: 41 Copynumber: 4.0 Consensus size: 41
22423330 GTCGATGAGT
*
22423340 AATTTACTTTTTCAAAGTCGTGGTGCCTCTTTTTAGAGGAGC
1 AATTTA-TTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
* * *
22423382 AATTTACTTTTCAAAGTCATGGTGCCTCTGTTTAAAGGAGC
1 AATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
*
22423423 AATTTATCTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
1 AATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
* * * *
22423464 CATTTATGTTTCTCAAAGTCGTTGAGCCTCTGTTTATAGGAGC
1 AATTTAT-TTT-TCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
22423507 TTTGATCAAA
Statistics
Matches: 110, Mismatches: 13, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
41 74 0.67
42 8 0.07
43 28 0.25
ACGTcount: A:0.23, C:0.17, G:0.22, T:0.38
Consensus pattern (41 bp):
AATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
Found at i:22423730 original size:6 final size:6
Alignment explanation
Indices: 22423721--22423793 Score: 71
Period size: 6 Copynumber: 12.2 Consensus size: 6
22423711 TTTCTCTTCA
* *
22423721 TTTTAT TTTTAT TTTT-T AATTTAT TTTTAT TTTGTAT TTTACAT TTTTA-
1 TTTTAT TTTTAT TTTTAT -TTTTAT TTTTAT TTT-TAT TTT-TAT TTTTAT
*
22423770 TTTTA- TTTTAT TTTTAT TATTAT T
1 TTTTAT TTTTAT TTTTAT TTTTAT T
22423794 ATTTTATATA
Statistics
Matches: 57, Mismatches: 6, Indels: 8
0.80 0.08 0.11
Matches are distributed among these distances:
5 11 0.19
6 34 0.60
7 12 0.21
ACGTcount: A:0.21, C:0.01, G:0.01, T:0.77
Consensus pattern (6 bp):
TTTTAT
Found at i:22423743 original size:18 final size:18
Alignment explanation
Indices: 22423720--22423840 Score: 95
Period size: 18 Copynumber: 6.4 Consensus size: 18
22423710 TTTTCTCTTC
22423720 ATTTTATTTTTATTTTTT
1 ATTTTATTTTTATTTTTT
* *
22423738 AATTTATTTTTATTTTGT
1 ATTTTATTTTTATTTTTT
22423756 ATTTTACATTTTTA--TTTT
1 ATTTT--ATTTTTATTTTTT
22423774 ATTTTATTTTTATTATTATT
1 ATTTTATTTTTATT-TT-TT
22423794 ATTTTATATATGTATATTTTTTT
1 ATTTTAT-T-T-T-TA-TTTTTT
* * *
22423817 CTTTTATTATTATTATTT
1 ATTTTATTTTTATTTTTT
22423835 -TTTTAT
1 ATTTTAT
22423841 CTTAGATTTA
Statistics
Matches: 85, Mismatches: 7, Indels: 23
0.74 0.06 0.20
Matches are distributed among these distances:
16 7 0.08
17 6 0.07
18 33 0.39
19 4 0.05
20 17 0.20
21 1 0.01
22 2 0.02
23 9 0.11
24 4 0.05
25 2 0.02
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.74
Consensus pattern (18 bp):
ATTTTATTTTTATTTTTT
Found at i:22423759 original size:31 final size:29
Alignment explanation
Indices: 22423721--22423799 Score: 88
Period size: 30 Copynumber: 2.6 Consensus size: 29
22423711 TTTCTCTTCA
22423721 TTTTATTTTTATTTTTTAATTTATTTTTAT
1 TTTTATTTTTATTTTTTAATTTA-TTTTAT
* *
22423751 TTTGTA-TTTTACATTTTTATTTTATTTTAT
1 TTT-TATTTTTA-TTTTTTAATTTATTTTAT
*
22423781 TTTTATTATTATTATTTTA
1 TTTTATTTTTATT-TTTTA
22423800 TATATGTATA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
29 3 0.07
30 26 0.63
31 12 0.29
ACGTcount: A:0.22, C:0.01, G:0.01, T:0.76
Consensus pattern (29 bp):
TTTTATTTTTATTTTTTAATTTATTTTAT
Found at i:22423795 original size:25 final size:24
Alignment explanation
Indices: 22423720--22423840 Score: 75
Period size: 25 Copynumber: 4.5 Consensus size: 24
22423710 TTTTCTCTTC
*
22423720 ATTTTATTTTTATT-TTTTAATTT
1 ATTTTATTTTTATTATTTTATTTT
22423743 ATTTTTATTTTGTATTTTACATTTTTATTTT
1 A-TTTTATTTT-TA--TT--A-TTTTATTTT
22423774 ATTTTATTTTTATTATTATTATTTT
1 ATTTTATTTTTATTATT-TTATTTT
* *
22423799 ATATATGTATATTTTTTTCTTTTATTATT
1 AT-T-T-TAT-TTTTATTATTTTATT-TT
22423828 ATTATT-TTTTTAT
1 ATT-TTATTTTTAT
22423841 CTTAGATTTA
Statistics
Matches: 80, Mismatches: 4, Indels: 26
0.73 0.04 0.24
Matches are distributed among these distances:
23 1 0.01
24 11 0.14
25 17 0.21
26 2 0.03
27 6 0.08
28 11 0.14
29 14 0.17
30 9 0.11
31 9 0.11
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.74
Consensus pattern (24 bp):
ATTTTATTTTTATTATTTTATTTT
Found at i:22423953 original size:21 final size:21
Alignment explanation
Indices: 22423895--22423972 Score: 70
Period size: 22 Copynumber: 3.6 Consensus size: 21
22423885 TTCTTTTTTT
*
22423895 TCTGTTAATATTTATGTAA-TTA
1 TCTGTTAAT-TTT-TTTAATTTA
22423917 TCTGTT-ATTTAATTTTAATTTA
1 TCTGTTAATTT--TTTTAATTTA
*
22423939 TCTGTTAATTTTTTTGATTTA
1 TCTGTTAATTTTTTTAATTTA
*
22423960 TCTGATTTATTTT
1 TCTG-TTAATTTT
22423973 CGTTTGATTT
Statistics
Matches: 48, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
20 2 0.04
21 19 0.40
22 23 0.48
23 4 0.08
ACGTcount: A:0.24, C:0.05, G:0.08, T:0.63
Consensus pattern (21 bp):
TCTGTTAATTTTTTTAATTTA
Found at i:22424838 original size:26 final size:25
Alignment explanation
Indices: 22424801--22424854 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
22424791 GAGCCGCTCC
*
22424801 ATTTTTTTTTTGAATTTATTTATTT
1 ATTTTTTATTTGAATTTATTTATTT
** *
22424826 ATTTGTTTATTTGTTTTTTTTTATTT
1 ATTT-TTTATTTGAATTTATTTATTT
22424852 ATT
1 ATT
22424855 AGATTAGGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 4 0.17
26 20 0.83
ACGTcount: A:0.17, C:0.00, G:0.06, T:0.78
Consensus pattern (25 bp):
ATTTTTTATTTGAATTTATTTATTT
Found at i:22424870 original size:4 final size:4
Alignment explanation
Indices: 22424814--22424854 Score: 50
Period size: 4 Copynumber: 10.8 Consensus size: 4
22424804 TTTTTTTTGA
* *
22424814 ATTT ATTT ATTT ATTT GTTT ATTT GTTT -TTT -TTT ATTT ATT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATT
22424855 AGATTAGGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
3 6 0.18
4 27 0.82
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.78
Consensus pattern (4 bp):
ATTT
Found at i:22424897 original size:16 final size:16
Alignment explanation
Indices: 22424878--22424943 Score: 60
Period size: 16 Copynumber: 3.9 Consensus size: 16
22424868 TTAATATTCT
*
22424878 TTTTATCTTTATTTTA
1 TTTTATTTTTATTTTA
*
22424894 TTTTTATTTTTGTTTTA
1 -TTTTATTTTTATTTTA
* * *
22424911 CTTTATTTTTTTTTTG
1 TTTTATTTTTATTTTA
22424927 TTTTATTATTCTATTTT
1 TTTTATT-TT-TATTTT
22424944 CTTTAAATAA
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
16 19 0.47
17 16 0.40
18 5 0.12
ACGTcount: A:0.14, C:0.05, G:0.03, T:0.79
Consensus pattern (16 bp):
TTTTATTTTTATTTTA
Found at i:22424899 original size:17 final size:17
Alignment explanation
Indices: 22424877--22424910 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
22424867 TTTAATATTC
22424877 TTTTTATCTTTATTTTA
1 TTTTTATCTTTATTTTA
* *
22424894 TTTTTATTTTTGTTTTA
1 TTTTTATCTTTATTTTA
22424911 CTTTATTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.79
Consensus pattern (17 bp):
TTTTTATCTTTATTTTA
Found at i:22424943 original size:21 final size:20
Alignment explanation
Indices: 22424891--22424936 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 20
22424881 TATCTTTATT
22424891 TTATTTTTATTTTTGTTTTAC
1 TTATTTTT-TTTTTGTTTTAC
22424912 TTTATTTTTTTTTTGTTTTA-
1 -TTATTTTTTTTTTGTTTTAC
22424932 TTATT
1 TTATT
22424937 CTATTTTCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.21
21 11 0.46
22 8 0.33
ACGTcount: A:0.13, C:0.02, G:0.04, T:0.80
Consensus pattern (20 bp):
TTATTTTTTTTTTGTTTTAC
Found at i:22425028 original size:58 final size:57
Alignment explanation
Indices: 22424963--22425355 Score: 422
Period size: 59 Copynumber: 6.7 Consensus size: 57
22424953 AAAACCAAAA
* * *
22424963 AAAAAATATTTTTGGAAAAAAGTTAAAAGTATCAATTTTTCTTGAAAATCAAAGTTGC
1 AAAAAATATTTTTGGAAAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT-AAAGTTTC
* * *
22425021 AAGAAATATTTTTTGGAGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTC
1 AAAAAATA-TTTTTGGAAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAGTTTC
*
22425079 AAAAAAAATATTTTTGGAAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA-TTTCC
1 --AAAAAATATTTTTGGAAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAGTTT-C
** * *
22425138 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAA-TTTTCTTTAAAAATAAATTTTT
1 -AAAAAATATTTTTGGAAAAAAGTTGAAAGTATCAATTTTTC-TTAAAAATAAAGTTTC
*
22425196 AAAAAATCAATTTTT-GAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAA-TCTTC
1 AAAAAAT--ATTTTTGGA-AAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAGT-TTC
* * *
22425255 -AAAAATGATTTTT-GAAGAAAAGTTAAAAGTATCAA-TTTTCTTCGAAATTAAAGTTTC
1 AAAAAAT-ATTTTTGGAA-AAAAGTTGAAAGTATCAATTTTTCTT-AAAAATAAAGTTTC
** *
22425312 AAAAGAATATTTTTTCTAGAAAAAGTTGAAAGTGTCAATTTTTC
1 AAAA-AATA-TTTTTGGA-AAAAAGTTGAAAGTATCAATTTTTC
22425356 CTGCATAAAA
Statistics
Matches: 292, Mismatches: 23, Indels: 37
0.83 0.07 0.11
Matches are distributed among these distances:
56 7 0.02
57 46 0.16
58 74 0.25
59 130 0.45
60 29 0.10
61 6 0.02
ACGTcount: A:0.45, C:0.07, G:0.11, T:0.37
Consensus pattern (57 bp):
AAAAAATATTTTTGGAAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAGTTTC
Found at i:22425083 original size:117 final size:114
Alignment explanation
Indices: 22424962--22425355 Score: 456
Period size: 117 Copynumber: 3.4 Consensus size: 114
22424952 AAAAACCAAA
* * *
22424962 AAAAAAATATTTTTGGA-AAAAAGTTAAAAGTATCAATTTTTCTTGAAAATCAAAGTTGCAAGAA
1 AAAAAAATATTTTTGGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT-AAA-TTCCAA-AA
22425026 ATATTTTTTGGAGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTC
63 ATATTTTTTGGAGAAAAGTTGAAAGTATCAA-TTTTCTTAAAAATAAAATTTC
*
22425079 AAAAAAAATATTTTTGGA-AAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCCAAAAA
1 -AAAAAAATATTTTTGGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAA-TTCCAAAAA
* * *
22425143 AATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCTTTAAAAAT-AAATTTT
64 TAT-TTTTTGGAGAAAAGTTGAAAGTATCAATTTTC-TTAAAAATAAAATTTC
* * *
22425195 TAAAAAATCAATTTTT-GAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATCTTCAAAA
1 AAAAAAAT--ATTTTTGGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAT-TCCAAAA
* * * * *
22425259 ATGA-TTTTTGAAGAAAAGTTAAAAGTATCAATTTTCTTCGAAATTAAAGTTTC
63 AT-ATTTTTTGGAGAAAAGTTGAAAGTATCAATTTTCTT-AAAAATAAAATTTC
* ** *
22425312 AAAAGAATATTTTTTCTAGAAAAAGTTGAAAGTGTCAATTTTTC
1 AAAAAAATA-TTTTTGGAGAAAAAGTTGAAAGTATCAATTTTTC
22425356 CTGCATAAAA
Statistics
Matches: 240, Mismatches: 25, Indels: 23
0.83 0.09 0.08
Matches are distributed among these distances:
115 10 0.04
116 57 0.24
117 125 0.52
118 48 0.20
ACGTcount: A:0.45, C:0.07, G:0.11, T:0.37
Consensus pattern (114 bp):
AAAAAAATATTTTTGGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTCCAAAAATA
TTTTTTGGAGAAAAGTTGAAAGTATCAATTTTCTTAAAAATAAAATTTC
Found at i:22425258 original size:176 final size:174
Alignment explanation
Indices: 22424962--22425355 Score: 480
Period size: 176 Copynumber: 2.2 Consensus size: 174
22424952 AAAAACCAAA
* * * *
22424962 AAAAAAATATTTTTGGAAAAAAGTTAAAAGTATCAATTTTTCTTGAAAATCAAAGTTGCAAGAAA
1 AAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATCAAAGTTGCAAAAAA
*
22425027 TATTTTTTGGAGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTCAAAAAAAAT-ATT
66 TAATTTTTGGAGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTC---AAAAATGATT
*
22425091 TTTGGAA-AAAAGTTGAAAGTATCAATTTTCCTT-AAAAATAAA-TTTCC
128 TTT-GAAGAAAAGTTAAAAGTATCAATTTT-CTTCAAAAATAAAGTTT-C
* * **
22425138 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAA-TTTTCTTTAAAAAT-AAATTTTTAAAAA
1 AAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTC-TTAAAAATCAAAGTTGCAAAAA
22425201 ATCAATTTTT-GAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT-AAATCTTCAAAAATGAT
65 AT-AATTTTTGGA-GAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAAT-TTCAAAAATGAT
* *
22425264 TTTTGAAGAAAAGTTAAAAGTATCAATTTTCTTCGAAATTAAAGTTTC
127 TTTTGAAGAAAAGTTAAAAGTATCAATTTTCTTCAAAAATAAAGTTTC
* ** *
22425312 AAAAGAATATTTTTTCTAGAAAAAGTTGAAAGTGTCAATTTTTC
1 AAAAAAATA-TTTTT-GGGAAAAAGTTGAAAGTATCAATTTTTC
22425356 CTGCATAAAA
Statistics
Matches: 190, Mismatches: 17, Indels: 21
0.83 0.07 0.09
Matches are distributed among these distances:
173 12 0.06
174 43 0.23
175 30 0.16
176 100 0.53
177 5 0.03
ACGTcount: A:0.45, C:0.07, G:0.11, T:0.37
Consensus pattern (174 bp):
AAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATCAAAGTTGCAAAAAA
TAATTTTTGGAGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTCAAAAATGATTTTT
GAAGAAAAGTTAAAAGTATCAATTTTCTTCAAAAATAAAGTTTC
Found at i:22430264 original size:24 final size:25
Alignment explanation
Indices: 22430236--22430283 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
22430226 TGAAGTTTCT
22430236 TATATTAA-ATAAAA-AAATTATTTG
1 TATA-TAATATAAAAGAAATTATTTG
*
22430260 TATATAATTTAAAAGAAATTATTT
1 TATATAATATAAAAGAAATTATTT
22430284 ATGTTATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 3 0.14
24 9 0.43
25 9 0.43
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (25 bp):
TATATAATATAAAAGAAATTATTTG
Found at i:22432752 original size:29 final size:30
Alignment explanation
Indices: 22432710--22432886 Score: 139
Period size: 30 Copynumber: 5.8 Consensus size: 30
22432700 AGATTTTGTA
22432710 AATTTAT-TT-AAATAAATTTTTATATTTT
1 AATTTATATTCAAATAAATTTTTATATTTT
* * *
22432738 TA-TTAGATTCAAATAAGTTTTT-TATCTTT
1 AATTTATATTCAAATAAATTTTTATAT-TTT
* * *
22432767 AATTTATATTTAAATTAATTTTTAAATTTT
1 AATTTATATTCAAATAAATTTTTATATTTT
*
22432797 AATTTATATTCAAATAAATCTTTA-ACTTTT
1 AATTTATATTCAAATAAATTTTTATA-TTTT
* * **
22432827 AATTTACATTTAAATAAGATTTTAATATAAATT
1 AATTTATATTCAAATAA-ATTTT--TATATTTT
* *
22432860 AATTTATTATTTGAAATAAAATTTTAT
1 AATTTA-TA-TTCAAATAAATTTTTAT
22432887 TTAATATAAA
Statistics
Matches: 117, Mismatches: 20, Indels: 20
0.75 0.13 0.13
Matches are distributed among these distances:
27 3 0.03
28 6 0.05
29 16 0.14
30 59 0.50
31 6 0.05
32 3 0.03
33 10 0.09
34 6 0.05
35 8 0.07
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.54
Consensus pattern (30 bp):
AATTTATATTCAAATAAATTTTTATATTTT
Found at i:22432787 original size:59 final size:60
Alignment explanation
Indices: 22432714--22432849 Score: 168
Period size: 60 Copynumber: 2.3 Consensus size: 60
22432704 TTTGTAAATT
* * * * *
22432714 TATTTAAATAAATTTTTATATTTTTA-TTAGATTCAAATAAGTTTTTTA-TCTTTAATTTA
1 TATTTAAATAAATTTTTAAATTTTAATTTAGATTCAAATAAATCTTTAACT-TTTAATTTA
* *
22432773 TATTTAAATTAATTTTTAAATTTTAATTTATATTCAAATAAATCTTTAACTTTTAATTTA
1 TATTTAAATAAATTTTTAAATTTTAATTTAGATTCAAATAAATCTTTAACTTTTAATTTA
*
22432833 CATTTAAATAAGATTTT
1 TATTTAAATAA-ATTTT
22432850 AATATAAATT
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
59 23 0.35
60 36 0.55
61 6 0.09
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.55
Consensus pattern (60 bp):
TATTTAAATAAATTTTTAAATTTTAATTTAGATTCAAATAAATCTTTAACTTTTAATTTA
Found at i:22432909 original size:24 final size:24
Alignment explanation
Indices: 22432877--22432923 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
22432867 TATTTGAAAT
*
22432877 AAAATTTTATTTAATATAAATAAAC
1 AAAATTTTATTAAATAT-AATAAAC
22432902 AAAA-TTTATTAAATATAATAAA
1 AAAATTTTATTAAATATAATAAA
22432924 AAACATATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 6 0.29
24 11 0.52
25 4 0.19
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (24 bp):
AAAATTTTATTAAATATAATAAAC
Found at i:22432925 original size:20 final size:21
Alignment explanation
Indices: 22432873--22432925 Score: 54
Period size: 24 Copynumber: 2.4 Consensus size: 21
22432863 TTATTATTTG
* *
22432873 AAATAAAATTTTATTTAATAT
1 AAATAAAAATTTATTAAATAT
22432894 AAATAAACAAAATTTATTAAATAT
1 AAAT--A-AAAATTTATTAAATAT
22432918 -AATAAAAA
1 AAATAAAAA
22432926 ACATATAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
20 4 0.15
21 5 0.19
23 4 0.15
24 14 0.52
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (21 bp):
AAATAAAAATTTATTAAATAT
Found at i:22434094 original size:6 final size:6
Alignment explanation
Indices: 22434083--22434206 Score: 60
Period size: 6 Copynumber: 20.2 Consensus size: 6
22434073 TTTCTCTTCA
* *
22434083 TTTTAT TTTTAT TTTT-T TAATTTA- TTTTAT TTTGT-T TTTACAT TTTTAA
1 TTTTAT TTTTAT TTTTAT T--TTTAT TTTTAT TTT-TAT TTT-TAT TTTTAT
* * * *
22434132 TTTTAT TTAT-T TTTTAT TTATTAT TATTTAT ATATGTA- TATTAT TTTTCT
1 TTTTAT TTTTAT TTTTAT TT-TTAT T-TTTAT -T-TTTAT TTTTAT TTTTAT
* * *
22434182 TTTTAT TATTAT TATTAT TATTAT T
1 TTTTAT TTTTAT TTTTAT TTTTAT T
22434207 ATCTTAGATT
Statistics
Matches: 93, Mismatches: 14, Indels: 22
0.72 0.11 0.17
Matches are distributed among these distances:
5 12 0.13
6 57 0.61
7 18 0.19
8 6 0.06
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (6 bp):
TTTTAT
Found at i:22434114 original size:29 final size:29
Alignment explanation
Indices: 22434082--22434188 Score: 88
Period size: 29 Copynumber: 3.5 Consensus size: 29
22434072 TTTTCTCTTC
22434082 ATTTTATTTTTATTTTTTTAATTTATTTT
1 ATTTTATTTTTATTTTTTTAATTTATTTT
* **
22434111 ATTTTGTTTTTACATTTTTAATTTTATTTAT
1 ATTTTATTTTTATTTTTTTAA-TTTATTT-T
* * * *
22434142 TTTTTATTTATTATTATTTATATATGTATATT
1 ATTTTATTT-TTATT-TTTTTA-ATTTATTTT
*
22434174 ATTTTTCTTTTTATT
1 A-TTTTATTTTTATT
22434189 ATTATTATTA
Statistics
Matches: 60, Mismatches: 12, Indels: 9
0.74 0.15 0.11
Matches are distributed among these distances:
29 18 0.30
30 7 0.12
31 8 0.13
32 9 0.15
33 17 0.28
34 1 0.02
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.74
Consensus pattern (29 bp):
ATTTTATTTTTATTTTTTTAATTTATTTT
Found at i:22434145 original size:10 final size:10
Alignment explanation
Indices: 22434084--22434162 Score: 54
Period size: 10 Copynumber: 7.5 Consensus size: 10
22434074 TTCTCTTCAT
22434084 TTTATTTTTA
1 TTTATTTTTA
*
22434094 TTT-TTTTAA
1 TTTATTTTTA
22434103 TTTA-TTTTA
1 TTTATTTTTA
*
22434112 TTTTGTTTTTACA
1 -TTTATTTTT--A
*
22434125 TTTTTAATTTTA
1 --TTTATTTTTA
22434137 TTTATTTTTTA
1 TTTA-TTTTTA
*
22434148 TTTATTATTA
1 TTTATTTTTA
22434158 TTTAT
1 TTTAT
22434163 ATATGTATAT
Statistics
Matches: 55, Mismatches: 7, Indels: 14
0.72 0.09 0.18
Matches are distributed among these distances:
9 12 0.22
10 20 0.36
11 13 0.24
12 1 0.02
13 1 0.02
14 8 0.15
ACGTcount: A:0.22, C:0.01, G:0.01, T:0.76
Consensus pattern (10 bp):
TTTATTTTTA
Found at i:22434147 original size:17 final size:17
Alignment explanation
Indices: 22434125--22434208 Score: 52
Period size: 17 Copynumber: 5.0 Consensus size: 17
22434115 TGTTTTTACA
22434125 TTTTTAATT-TTATTTAT
1 TTTTTAATTATTA-TTAT
*
22434142 TTTTTATTTATTATTA-
1 TTTTTAATTATTATTAT
*
22434158 TTTATATATGTA-TATTAT
1 TTTTTA-AT-TATTATTAT
**
22434176 TTTTCTTTTTATTATTA-
1 TTTT-TAATTATTATTAT
*
22434193 TTATT-ATTATTATTAT
1 TTTTTAATTATTATTAT
22434209 CTTAGATTTA
Statistics
Matches: 52, Mismatches: 8, Indels: 15
0.69 0.11 0.20
Matches are distributed among these distances:
15 9 0.17
16 6 0.12
17 22 0.42
18 14 0.27
19 1 0.02
ACGTcount: A:0.26, C:0.01, G:0.01, T:0.71
Consensus pattern (17 bp):
TTTTTAATTATTATTAT
Found at i:22434157 original size:3 final size:3
Alignment explanation
Indices: 22434149--22434208 Score: 59
Period size: 3 Copynumber: 19.3 Consensus size: 3
22434139 TATTTTTTAT
* * *
22434149 TTA TTA TTA TTTA TATA TGTA -TA TTA TTT TTC TTT TTA TTA TTA TTA
1 TTA TTA TTA -TTA T-TA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA
22434196 TTA TTA TTA TTA T
1 TTA TTA TTA TTA T
22434209 CTTAGATTTA
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
2 2 0.04
3 39 0.80
4 8 0.16
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:22434332 original size:22 final size:21
Alignment explanation
Indices: 22434274--22434384 Score: 68
Period size: 22 Copynumber: 5.1 Consensus size: 21
22434264 CTTTTTTTTC
* * *
22434274 CTGTTAATATTTATGTAATTAT
1 CTGTTAAT-TTTTTTTATTTAT
*
22434296 CTGTT-ATTTAATTTTATTTTAT
1 CTGTTAATTT-TTTTTA-TTTAT
22434318 CTGTTAATTTTTTTTGATTTAT
1 CTGTTAATTTTTTTT-ATTTAT
* *
22434340 CTGATTTATTTTCATTTGATTT-T
1 CTG-TTAATTTT--TTTTATTTAT
*
22434363 -TTTTAA-TTTTTTTATTTAT
1 CTGTTAATTTTTTTTATTTAT
22434382 CTG
1 CTG
22434385 GCTGAAAATT
Statistics
Matches: 69, Mismatches: 11, Indels: 20
0.69 0.11 0.20
Matches are distributed among these distances:
18 7 0.10
19 1 0.01
20 6 0.09
21 8 0.12
22 27 0.39
23 13 0.19
24 4 0.06
25 3 0.04
ACGTcount: A:0.22, C:0.05, G:0.07, T:0.66
Consensus pattern (21 bp):
CTGTTAATTTTTTTTATTTAT
Found at i:22435220 original size:9 final size:9
Alignment explanation
Indices: 22435183--22435229 Score: 51
Period size: 9 Copynumber: 5.2 Consensus size: 9
22435173 CTCCAGGTTT
22435183 TTTTTTTTGA
1 TTTTTTTT-A
* *
22435193 ATTTATTTA
1 TTTTTTTTA
*
22435202 -TTTGTTTA
1 TTTTTTTTA
22435210 TTTTTTTTA
1 TTTTTTTTA
22435219 TTTTTTTTA
1 TTTTTTTTA
22435228 TT
1 TT
22435230 AGATTAGGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
8 7 0.22
9 19 0.59
10 6 0.19
ACGTcount: A:0.15, C:0.00, G:0.04, T:0.81
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:22435268 original size:27 final size:27
Alignment explanation
Indices: 22435238--22435304 Score: 77
Period size: 27 Copynumber: 2.5 Consensus size: 27
22435228 TTAGATTAGG
22435238 TTTATTTAATATTCTTT-TTAT-CTTTAT
1 TTTATTT-ATATT-TTTGTTATACTTTAT
* *
22435265 TTTATTTTTATTTTTGTTTTACTTTAT
1 TTTATTTATATTTTTGTTATACTTTAT
22435292 TTTATTT-TATTTT
1 TTTATTTATATTTT
22435305 ATTATTCTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
25 3 0.08
26 13 0.36
27 20 0.56
ACGTcount: A:0.18, C:0.04, G:0.01, T:0.76
Consensus pattern (27 bp):
TTTATTTATATTTTTGTTATACTTTAT
Found at i:22435270 original size:5 final size:5
Alignment explanation
Indices: 22435253--22435307 Score: 65
Period size: 5 Copynumber: 10.4 Consensus size: 5
22435243 TTAATATTCT
* *
22435253 TTTTA TCTTTA TTTTA TTTTTA TTTTTG TTTTA CTTTA TTTTA TTTTA
1 TTTTA T-TTTA TTTTA -TTTTA -TTTTA TTTTA TTTTA TTTTA TTTTA
22435301 TTTTA TT
1 TTTTA TT
22435308 ATTCTATTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
5 29 0.66
6 15 0.34
ACGTcount: A:0.16, C:0.04, G:0.02, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:22435300 original size:10 final size:10
Alignment explanation
Indices: 22435206--22435307 Score: 66
Period size: 10 Copynumber: 9.6 Consensus size: 10
22435196 TATTTATTTG
22435206 TTTATTTT-T
1 TTTATTTTAT
22435215 TTTATTTT-T
1 TTTATTTTAT
*
22435224 TTTATTAGATTAGG
1 TTTATT---TTA-T
22435238 TTTATTTAATAT
1 TTTATTT--TAT
*
22435250 TCT-TTTTAT
1 TTTATTTTAT
22435259 CTTTATTTTATT
1 -TTTATTTTA-T
*
22435271 TTTATTTTTGT
1 TTTA-TTTTAT
*
22435282 TTTACTTTAT
1 TTTATTTTAT
22435292 TTTATTTTAT
1 TTTATTTTAT
22435302 TTTATT
1 TTTATT
22435308 ATTCTATTTT
Statistics
Matches: 74, Mismatches: 8, Indels: 21
0.72 0.08 0.20
Matches are distributed among these distances:
9 18 0.24
10 21 0.28
11 18 0.24
12 9 0.12
13 2 0.03
14 6 0.08
ACGTcount: A:0.19, C:0.03, G:0.04, T:0.75
Consensus pattern (10 bp):
TTTATTTTAT
Found at i:22435322 original size:32 final size:33
Alignment explanation
Indices: 22435254--22435322 Score: 90
Period size: 32 Copynumber: 2.1 Consensus size: 33
22435244 TAATATTCTT
*
22435254 TTTATCTTTATTTTATTTTTATTTTTGTTTTAC
1 TTTATCTTTATTTTATTTTTATTTTTATTTTAC
22435287 TTTAT-TTTATTTTA-TTTTATTATTCTATTTT-C
1 TTTATCTTTATTTTATTTTTATT-TT-TATTTTAC
22435319 TTTA
1 TTTA
22435323 AATAAAAACC
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
31 7 0.21
32 16 0.48
33 10 0.30
ACGTcount: A:0.17, C:0.06, G:0.01, T:0.75
Consensus pattern (33 bp):
TTTATCTTTATTTTATTTTTATTTTTATTTTAC
Found at i:22435381 original size:27 final size:27
Alignment explanation
Indices: 22435351--22435441 Score: 69
Period size: 30 Copynumber: 3.2 Consensus size: 27
22435341 ATATTTTGGG
22435351 GAAAAGTTGAAAGTATCAATTTTTCTT
1 GAAAAGTTGAAAGTATCAATTTTTCTT
* * *
22435378 GAAAA--TCAAAGTTTCAAGAAATATTTTTTT
1 GAAAAGTTGAAAGTATC----AAT-TTTTCTT
22435408 GAAAAAAGTTGAAAGTATCAATTTTTCTT
1 G--AAAAGTTGAAAGTATCAATTTTTCTT
*
22435437 AAAAA
1 GAAAA
22435442 TAAAATTTCA
Statistics
Matches: 48, Mismatches: 7, Indels: 18
0.66 0.10 0.25
Matches are distributed among these distances:
25 8 0.17
27 9 0.19
29 9 0.19
30 10 0.21
32 4 0.08
34 8 0.17
ACGTcount: A:0.44, C:0.07, G:0.12, T:0.37
Consensus pattern (27 bp):
GAAAAGTTGAAAGTATCAATTTTTCTT
Found at i:22435507 original size:60 final size:59
Alignment explanation
Indices: 22435333--22435525 Score: 239
Period size: 59 Copynumber: 3.2 Consensus size: 59
22435323 AATAAAAACC
* *
22435333 AAAAAATAATATTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATCAAAGTTTC-
1 AAAAAAT-AT-TTTTGGGGAAAAATTGAAAGTATCAATTTTTCTTGAAAATCAAAATTTCA
* ** * *
22435393 AAGAAATATTTTTTTGAAAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT-AAAATTTCAAA
1 AAAAAATATTTTTGGGGAAAAA-TTGAAAGTATCAATTTTTCTTGAAAATCAAAATTTC--A
*
22435454 AAAAAATATTTTTGGGGAAAAATTGAAACTATC-ATTTTTCTTGAAAATCAAAATTTTCA
1 AAAAAATATTTTTGGGGAAAAATTGAAAGTATCAATTTTTCTTGAAAATCAAAA-TTTCA
22435513 AAAAAATATTTTT
1 AAAAAATATTTTT
22435526 AAAAATATTA
Statistics
Matches: 114, Mismatches: 13, Indels: 13
0.81 0.09 0.09
Matches are distributed among these distances:
58 16 0.14
59 56 0.49
60 20 0.18
61 22 0.19
ACGTcount: A:0.46, C:0.06, G:0.10, T:0.37
Consensus pattern (59 bp):
AAAAAATATTTTTGGGGAAAAATTGAAAGTATCAATTTTTCTTGAAAATCAAAATTTCA
Found at i:22439079 original size:24 final size:25
Alignment explanation
Indices: 22439051--22439098 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
22439041 TGAAGTATCT
22439051 TATATTAA-ATAAAA-AAATTATTTG
1 TATA-TAATATAAAAGAAATTATTTG
*
22439075 TATATAATTTAAAAGAAATTATTT
1 TATATAATATAAAAGAAATTATTT
22439099 ATGTTATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 3 0.14
24 9 0.43
25 9 0.43
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (25 bp):
TATATAATATAAAAGAAATTATTTG
Found at i:22441583 original size:29 final size:30
Alignment explanation
Indices: 22441541--22441716 Score: 139
Period size: 30 Copynumber: 5.8 Consensus size: 30
22441531 AGATTTTGTA
22441541 AATTTAT-TT-AAATAAATTTTTATATTTT
1 AATTTATATTCAAATAAATTTTTATATTTT
* *
22441569 TA-TTAGATTCAAAT-AATTTTT-TATCTTT
1 AATTTATATTCAAATAAATTTTTATAT-TTT
* * *
22441597 AATTTATATTTAAATTAATTTTTAAATTTT
1 AATTTATATTCAAATAAATTTTTATATTTT
*
22441627 AATTTATATTCAAATAAATCTTTA-ACTTTT
1 AATTTATATTCAAATAAATTTTTATA-TTTT
* * **
22441657 AATTTACATTTAAATAAGATTTTAATATAAATT
1 AATTTATATTCAAATAA-ATTTT--TATATTTT
* *
22441690 AATTTATTATTTGAAATAAAATTTTAT
1 AATTTA-TA-TTCAAATAAATTTTTAT
22441717 TTAATATAAA
Statistics
Matches: 118, Mismatches: 17, Indels: 22
0.75 0.11 0.14
Matches are distributed among these distances:
27 6 0.05
28 14 0.12
29 15 0.13
30 50 0.42
31 6 0.05
32 3 0.03
33 10 0.08
34 6 0.05
35 8 0.07
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.54
Consensus pattern (30 bp):
AATTTATATTCAAATAAATTTTTATATTTT
Found at i:22441751 original size:23 final size:24
Alignment explanation
Indices: 22441707--22441757 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
22441697 TATTTGAAAT
*
22441707 AAAATTTTATTTAATATAAATAAA
1 AAAATTTTATTAAATATAAATAAA
22441731 CAAAA-TTTATTAAATAT-AATAAA
1 -AAAATTTTATTAAATATAAATAAA
22441754 AAAA
1 AAAA
22441758 CATATAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 4 0.16
23 6 0.24
24 11 0.44
25 4 0.16
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (24 bp):
AAAATTTTATTAAATATAAATAAA
Found at i:22442922 original size:25 final size:26
Alignment explanation
Indices: 22442894--22442944 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
22442884 TTTCTCTTCA
*
22442894 TTTTCTTTTTATTTTT-TTAATTTAT
1 TTTTATTTTTATTTTTATTAATTTAT
*
22442919 TTTTATTTTTATTTTTATTATTTTAT
1 TTTTATTTTTATTTTTATTAATTTAT
22442945 ATATGTATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 15 0.65
26 8 0.35
ACGTcount: A:0.18, C:0.02, G:0.00, T:0.80
Consensus pattern (26 bp):
TTTTATTTTTATTTTTATTAATTTAT
Found at i:22442923 original size:6 final size:6
Alignment explanation
Indices: 22442894--22442937 Score: 54
Period size: 6 Copynumber: 7.2 Consensus size: 6
22442884 TTTCTCTTCA
*
22442894 TTTTCT TTTTAT TTTT-T TAATTTAT TTTTAT TTTTAT TTTTAT T
1 TTTTAT TTTTAT TTTTAT T--TTTAT TTTTAT TTTTAT TTTTAT T
22442938 ATTTTATATA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
5 2 0.06
6 27 0.79
7 3 0.09
8 2 0.06
ACGTcount: A:0.16, C:0.02, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTAT
Found at i:22443115 original size:21 final size:21
Alignment explanation
Indices: 22443058--22443134 Score: 68
Period size: 22 Copynumber: 3.5 Consensus size: 21
22443048 CTTTTTTTTC
*
22443058 CTGTTAATATTTATGTAA-TTAT
1 CTGTTAAT-TTT-TTTAATTTAT
22443080 CTGTT-ATTTAATTTTAATTTAT
1 CTGTTAATTT--TTTTAATTTAT
*
22443102 CTGTTAATTTTTTTGATTTAT
1 CTGTTAATTTTTTTAATTTAT
*
22443123 CTGATTTATTTT
1 CTG-TTAATTTT
22443135 CATTTGATTT
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
20 2 0.04
21 19 0.40
22 22 0.47
23 4 0.09
ACGTcount: A:0.25, C:0.05, G:0.08, T:0.62
Consensus pattern (21 bp):
CTGTTAATTTTTTTAATTTAT
Found at i:22444018 original size:9 final size:9
Alignment explanation
Indices: 22443977--22444027 Score: 52
Period size: 9 Copynumber: 5.9 Consensus size: 9
22443967 CCGCTCCAGG
22443977 TTTTT-TTT
1 TTTTTATTT
* *
22443985 TTTTGAATT
1 TTTTTATTT
*
22443994 TATTTA-TT
1 TTTTTATTT
*
22444002 TGTTTATTT
1 TTTTTATTT
22444011 TTTTTATTT
1 TTTTTATTT
22444020 TTTTTATT
1 TTTTTATT
22444028 AGATTAGGTT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
8 11 0.31
9 24 0.69
ACGTcount: A:0.14, C:0.00, G:0.04, T:0.82
Consensus pattern (9 bp):
TTTTTATTT
Found at i:22444077 original size:12 final size:12
Alignment explanation
Indices: 22444045--22444118 Score: 53
Period size: 12 Copynumber: 5.8 Consensus size: 12
22444035 GTTTATTTAA
22444045 TATTCTTTTTATCCT
1 TATT-TTTTTAT--T
*
22444060 TATTTTATT-TT
1 TATTTTTTTATT
*
22444071 TATTTTTGT-TT
1 TATTTTTTTATT
22444082 TACTTTTTTTATT
1 TA-TTTTTTTATT
*
22444095 TATTTTATTATT
1 TATTTTTTTATT
22444107 CTATTTTCTTTA
1 -TATTTT-TTTA
22444119 AATAAAAACC
Statistics
Matches: 49, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
11 12 0.24
12 15 0.31
13 11 0.22
14 7 0.14
15 4 0.08
ACGTcount: A:0.16, C:0.08, G:0.01, T:0.74
Consensus pattern (12 bp):
TATTTTTTTATT
Found at i:22444214 original size:59 final size:60
Alignment explanation
Indices: 22444130--22444321 Score: 239
Period size: 59 Copynumber: 3.2 Consensus size: 60
22444120 ATAAAAACCA
* *
22444130 AAAAAAAATA-TTTTGGGAAAAAGTTGAAAGTATCAA-TTTTCTTTGAAAATCAAAGTTTC
1 AAAAAAAATATTTTTGGAAAAAAGTTGAAAGTATCAATTTTTC-TTGAAAATCAAAATTTC
* * * *
22444189 AAGAAATAT-TTTTTTGAAAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT-AAAATTTC
1 AAAAAAAATATTTTTGGAAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATCAAAATTTC
** * * *
22444247 AAAAAAAATATTTTTGGGGAAAAGTTGAAACTATCAATTTTTCTTGAAAATCATAATTTT
1 AAAAAAAATATTTTTGGAAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATCAAAATTTC
*
22444307 TAAAAAAATATTTTT
1 AAAAAAAATATTTTT
22444322 AAAACTATTA
Statistics
Matches: 113, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
58 14 0.12
59 74 0.65
60 25 0.22
ACGTcount: A:0.46, C:0.06, G:0.10, T:0.38
Consensus pattern (60 bp):
AAAAAAAATATTTTTGGAAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATCAAAATTTC
Found at i:22444228 original size:27 final size:28
Alignment explanation
Indices: 22444147--22444229 Score: 71
Period size: 27 Copynumber: 2.9 Consensus size: 28
22444137 ATATTTTGGG
22444147 AAAAAGTTGAAAGTATCAATTTTCTTTGAA
1 AAAAAGTTGAAAGTATCAA-TTT-TTTGAA
** * *
22444177 AATCAAAGTTTCAAGAAAT-ATTTTTTTG-A
1 AA--AAAGTTGAAAG-TATCAATTTTTTGAA
22444206 AAAAAGTTGAAAGTATCAATTTTT
1 AAAAAGTTGAAAGTATCAATTTTT
22444230 CTTAAAAATA
Statistics
Matches: 41, Mismatches: 8, Indels: 11
0.68 0.13 0.18
Matches are distributed among these distances:
26 2 0.05
27 15 0.37
29 3 0.07
30 6 0.15
31 3 0.07
32 10 0.24
33 2 0.05
ACGTcount: A:0.43, C:0.06, G:0.12, T:0.39
Consensus pattern (28 bp):
AAAAAGTTGAAAGTATCAATTTTTTGAA
Found at i:22444692 original size:38 final size:38
Alignment explanation
Indices: 22444650--22444726 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
22444640 TCATATTCAG
22444650 AGGAATGGTTGTTGCTCGTGAAATTCTTTTCCTCCTCA
1 AGGAATGGTTGTTGCTCGTGAAATTCTTTTCCTCCTCA
22444688 AGGAATGGTTGTTGCTCGTGAAATTCTTTTCCTCCTCA
1 AGGAATGGTTGTTGCTCGTGAAATTCTTTTCCTCCTCA
22444726 A
1 A
22444727 TTTCACATTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.39
Consensus pattern (38 bp):
AGGAATGGTTGTTGCTCGTGAAATTCTTTTCCTCCTCA
Found at i:22447556 original size:24 final size:25
Alignment explanation
Indices: 22447528--22447575 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
22447518 TGAAGTATCT
22447528 TATATTAA-ATAAAA-AAATTATTTG
1 TATA-TAATATAAAAGAAATTATTTG
*
22447552 TATATAATTTAAAAGAAATTATTT
1 TATATAATATAAAAGAAATTATTT
22447576 ATGTTATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 3 0.14
24 9 0.43
25 9 0.43
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (25 bp):
TATATAATATAAAAGAAATTATTTG
Found at i:22450042 original size:29 final size:30
Alignment explanation
Indices: 22450000--22450176 Score: 139
Period size: 30 Copynumber: 5.8 Consensus size: 30
22449990 AGATTTTGTA
22450000 AATTTAT-TT-AAATAAATTTTTATATTTT
1 AATTTATATTCAAATAAATTTTTATATTTT
* * *
22450028 TA-TTAGATTCAAATAAGTTTTT-TATCTTT
1 AATTTATATTCAAATAAATTTTTATAT-TTT
* * *
22450057 AATTTATATTTAAATTAATTTTTAAATTTT
1 AATTTATATTCAAATAAATTTTTATATTTT
*
22450087 AATTTATATTCAAATAAATCTTTA-ACTTTT
1 AATTTATATTCAAATAAATTTTTATA-TTTT
* * **
22450117 AATTTACATTTAAATAAGATTTTAATATAAATT
1 AATTTATATTCAAATAA-ATTTT--TATATTTT
* *
22450150 AATTTATTATTTGAAATAAAATTTTAT
1 AATTTA-TA-TTCAAATAAATTTTTAT
22450177 TTAATATAAA
Statistics
Matches: 117, Mismatches: 20, Indels: 20
0.75 0.13 0.13
Matches are distributed among these distances:
27 3 0.03
28 6 0.05
29 16 0.14
30 59 0.50
31 6 0.05
32 3 0.03
33 10 0.09
34 6 0.05
35 8 0.07
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.54
Consensus pattern (30 bp):
AATTTATATTCAAATAAATTTTTATATTTT
Found at i:22450077 original size:59 final size:60
Alignment explanation
Indices: 22450004--22450139 Score: 168
Period size: 60 Copynumber: 2.3 Consensus size: 60
22449994 TTTGTAAATT
* * * * *
22450004 TATTTAAATAAATTTTTATATTTTTA-TTAGATTCAAATAAGTTTTTTA-TCTTTAATTTA
1 TATTTAAATAAATTTTTAAATTTTAATTTAGATTCAAATAAATCTTTAACT-TTTAATTTA
* *
22450063 TATTTAAATTAATTTTTAAATTTTAATTTATATTCAAATAAATCTTTAACTTTTAATTTA
1 TATTTAAATAAATTTTTAAATTTTAATTTAGATTCAAATAAATCTTTAACTTTTAATTTA
*
22450123 CATTTAAATAAGATTTT
1 TATTTAAATAA-ATTTT
22450140 AATATAAATT
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
59 23 0.35
60 36 0.55
61 6 0.09
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.55
Consensus pattern (60 bp):
TATTTAAATAAATTTTTAAATTTTAATTTAGATTCAAATAAATCTTTAACTTTTAATTTA
Found at i:22450211 original size:23 final size:24
Alignment explanation
Indices: 22450167--22450217 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
22450157 TATTTGAAAT
*
22450167 AAAATTTTATTTAATATAAATAAA
1 AAAATTTTATTAAATATAAATAAA
22450191 CAAAA-TTTATTAAATAT-AATAAA
1 -AAAATTTTATTAAATATAAATAAA
22450214 AAAA
1 AAAA
22450218 CATATAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 4 0.16
23 6 0.24
24 11 0.44
25 4 0.16
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (24 bp):
AAAATTTTATTAAATATAAATAAA
Found at i:22451386 original size:6 final size:6
Alignment explanation
Indices: 22451377--22451449 Score: 64
Period size: 6 Copynumber: 12.2 Consensus size: 6
22451367 TTTCTCTTCA
*
22451377 TTTTAT TTTTAT TTTT-T TAATTTAT TTTTAT TTTGT-T TTTACAT TTTTA-
1 TTTTAT TTTTAT TTTTAT T--TTTAT TTTTAT TTT-TAT TTT-TAT TTTTAT
*
22451426 TTTTA- TTTTAT TTTTAT TATTAT T
1 TTTTAT TTTTAT TTTTAT TTTTAT T
22451450 ATTTTATATA
Statistics
Matches: 57, Mismatches: 4, Indels: 12
0.78 0.05 0.16
Matches are distributed among these distances:
5 12 0.21
6 35 0.61
7 8 0.14
8 2 0.04
ACGTcount: A:0.19, C:0.01, G:0.01, T:0.78
Consensus pattern (6 bp):
TTTTAT
Found at i:22451410 original size:30 final size:29
Alignment explanation
Indices: 22451376--22451455 Score: 88
Period size: 30 Copynumber: 2.7 Consensus size: 29
22451366 TTTTCTCTTC
22451376 ATTTTATTTTTATTTTTTTAATTTATTTTT
1 ATTTTATTTTTATTTTTTTAATTTA-TTTT
* ** *
22451406 ATTTTGTTTTTACATTTTTATTTTATTTT
1 ATTTTATTTTTATTTTTTTAATTTATTTT
* *
22451435 ATTTTTATTATTATTATTTTA
1 A-TTTTATTTTTATTTTTTTA
22451456 TATATGTATA
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
29 5 0.12
30 35 0.88
ACGTcount: A:0.21, C:0.01, G:0.01, T:0.76
Consensus pattern (29 bp):
ATTTTATTTTTATTTTTTTAATTTATTTT
Found at i:22451447 original size:3 final size:3
Alignment explanation
Indices: 22451423--22451504 Score: 59
Period size: 3 Copynumber: 28.3 Consensus size: 3
22451413 TTTTACATTT
*
22451423 TTA TT- TTA TT- TTA TTT TTA TTA TTA TTA TT- TTA TATA TGTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA T-TA TTA
* * *
22451466 TATA TTT TTC TT- TTC TT- TTA TTA TTA TTA TTA TTA TTA T
1 T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
22451505 CTTAGATTTA
Statistics
Matches: 66, Mismatches: 5, Indels: 16
0.76 0.06 0.18
Matches are distributed among these distances:
2 12 0.18
3 46 0.70
4 8 0.12
ACGTcount: A:0.26, C:0.02, G:0.01, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:22451613 original size:22 final size:22
Alignment explanation
Indices: 22451588--22451651 Score: 66
Period size: 21 Copynumber: 3.0 Consensus size: 22
22451578 ATTTATGTAA
22451588 TTATCTGTTATTTAATTTT-ATT
1 TTATCTGTTATTT-ATTTTCATT
*
22451610 TTATCTGTTAATTT-TTTTGA-T
1 TTATCTGTT-ATTTATTTTCATT
22451631 TTATCTG--ATTTATTTTCATT
1 TTATCTGTTATTTATTTTCATT
22451651 T
1 T
22451652 GATTTTTTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
18 4 0.11
19 5 0.14
20 2 0.05
21 12 0.32
22 10 0.27
23 4 0.11
ACGTcount: A:0.20, C:0.06, G:0.06, T:0.67
Consensus pattern (22 bp):
TTATCTGTTATTTATTTTCATT
Found at i:22452565 original size:5 final size:5
Alignment explanation
Indices: 22452548--22452602 Score: 65
Period size: 5 Copynumber: 10.4 Consensus size: 5
22452538 TTAATATTCT
* *
22452548 TTTTA TCTTTA TTTTA TTTTTA TTTTTG TTTTA CTTTA TTTTA TTTTA
1 TTTTA T-TTTA TTTTA -TTTTA -TTTTA TTTTA TTTTA TTTTA TTTTA
22452596 TTTTA TT
1 TTTTA TT
22452603 ATTCTATTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
5 29 0.66
6 15 0.34
ACGTcount: A:0.16, C:0.04, G:0.02, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:22452566 original size:27 final size:27
Alignment explanation
Indices: 22452533--22452599 Score: 77
Period size: 27 Copynumber: 2.5 Consensus size: 27
22452523 TTAGATTAGG
22452533 TTTATTTAATATTCTTT-TTAT-CTTTAT
1 TTTATTT-ATATT-TTTGTTATACTTTAT
* *
22452560 TTTATTTTTATTTTTGTTTTACTTTAT
1 TTTATTTATATTTTTGTTATACTTTAT
22452587 TTTATTT-TATTTT
1 TTTATTTATATTTT
22452600 ATTATTCTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
25 3 0.08
26 13 0.36
27 20 0.56
ACGTcount: A:0.18, C:0.04, G:0.01, T:0.76
Consensus pattern (27 bp):
TTTATTTATATTTTTGTTATACTTTAT
Found at i:22452617 original size:32 final size:33
Alignment explanation
Indices: 22452549--22452617 Score: 90
Period size: 32 Copynumber: 2.1 Consensus size: 33
22452539 TAATATTCTT
*
22452549 TTTATCTTTATTTTATTTTTATTTTTGTTTTAC
1 TTTATCTTTATTTTATTTTTATTTTTATTTTAC
22452582 TTTAT-TTTATTTTA-TTTTATTATTCTATTTT-C
1 TTTATCTTTATTTTATTTTTATT-TT-TATTTTAC
22452614 TTTA
1 TTTA
22452618 AATAAAAACC
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
31 7 0.21
32 16 0.48
33 10 0.30
ACGTcount: A:0.17, C:0.06, G:0.01, T:0.75
Consensus pattern (33 bp):
TTTATCTTTATTTTATTTTTATTTTTATTTTAC
Found at i:22452718 original size:59 final size:60
Alignment explanation
Indices: 22452628--22452820 Score: 241
Period size: 59 Copynumber: 3.2 Consensus size: 60
22452618 AATAAAAACC
* * *
22452628 AAAAAATAATATTTTGGG-GAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTC-
1 AAAAAAT-AT-TTTTGGGAAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATCAAAATTTCA
* ** *
22452688 AAGAAATATTTTTTTGAAAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT-AAAATTTCAA
1 AAAAAATATTTTTGGGAAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATCAAAATTTC-A
* *
22452748 AAAAAATATTTTTGGGGAAAAA-TTGAAACTATCAATTTTTCTTGAAAATCAAAATTTTCA
1 AAAAAATATTTTTGGGAAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATCAAAA-TTTCA
22452808 AAAAAATATTTTT
1 AAAAAATATTTTT
22452821 AAAAATATTA
Statistics
Matches: 115, Mismatches: 13, Indels: 10
0.83 0.09 0.07
Matches are distributed among these distances:
58 12 0.10
59 57 0.50
60 42 0.37
61 4 0.03
ACGTcount: A:0.46, C:0.07, G:0.10, T:0.37
Consensus pattern (60 bp):
AAAAAATATTTTTGGGAAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATCAAAATTTCA
Found at i:22452727 original size:27 final size:28
Alignment explanation
Indices: 22452647--22452728 Score: 69
Period size: 27 Copynumber: 2.8 Consensus size: 28
22452637 TATTTTGGGG
22452647 AAAAGTTGAAAGTATCAATTTTCCTTGAAA
1 AAAAGTTGAAAGTATCAATTTT--TTGAAA
** * *
22452677 ATCAAAGTTTCAAGAAAT-ATTTTTTTG-AA
1 A--AAAGTTGAAAG-TATCAATTTTTTGAAA
22452706 AAAAGTTGAAAGTATCAATTTTT
1 AAAAGTTGAAAGTATCAATTTTT
22452729 CTTAAAAATA
Statistics
Matches: 40, Mismatches: 8, Indels: 11
0.68 0.14 0.19
Matches are distributed among these distances:
26 2 0.05
27 15 0.38
29 3 0.08
30 4 0.10
32 14 0.35
33 2 0.05
ACGTcount: A:0.43, C:0.07, G:0.12, T:0.38
Consensus pattern (28 bp):
AAAAGTTGAAAGTATCAATTTTTTGAAA
Found at i:22456006 original size:24 final size:25
Alignment explanation
Indices: 22455978--22456025 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
22455968 TGAAGTATCT
22455978 TATATTAA-ATAAAA-AAATTATTTG
1 TATA-TAATATAAAAGAAATTATTTG
*
22456002 TATATAATTTAAAAGAAATTATTT
1 TATATAATATAAAAGAAATTATTT
22456026 ATGTTATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 3 0.14
24 9 0.43
25 9 0.43
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (25 bp):
TATATAATATAAAAGAAATTATTTG
Found at i:22457612 original size:2 final size:2
Alignment explanation
Indices: 22457605--22457645 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
22457595 CCTGTAGACA
*
22457605 AT AT AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
22457646 ATCGAGTTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:22457747 original size:129 final size:129
Alignment explanation
Indices: 22457516--22457762 Score: 467
Period size: 129 Copynumber: 1.9 Consensus size: 129
22457506 CATCTAAGTC
22457516 AATCGAGTTTAGGATAAAGAACAGATCAAAGATTTAAAGAATCAAAGATCAAAGAAGGACAAAAT
1 AATCGAGTTTAGGATAAAGAACAGATCAAAGATTTAAAGAATCAAAGATCAAAGAAGGACAAAAT
* *
22457581 CTAAGATTTGAATCCCTGTAGACAATATATATTTATATATATATATATATATATATATATATAT
66 CTAAGATTTAAATCCCTGTAGACAATATATATATATATATATATATATATATATATATATATAT
22457645 AATCGAGTTTAGGATAAAGAACAGATCAAAGATTTAAAGAATCAAAGATCAAAGAAGGACAAAAT
1 AATCGAGTTTAGGATAAAGAACAGATCAAAGATTTAAAGAATCAAAGATCAAAGAAGGACAAAAT
*
22457710 CTAAGATTTAAATCCCTGTAGACAATATATATATATATATATATATATTTATA
66 CTAAGATTTAAATCCCTGTAGACAATATATATATATATATATATATATATATA
22457763 CACACCAAAA
Statistics
Matches: 115, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
129 115 1.00
ACGTcount: A:0.49, C:0.09, G:0.13, T:0.30
Consensus pattern (129 bp):
AATCGAGTTTAGGATAAAGAACAGATCAAAGATTTAAAGAATCAAAGATCAAAGAAGGACAAAAT
CTAAGATTTAAATCCCTGTAGACAATATATATATATATATATATATATATATATATATATATAT
Found at i:22458639 original size:29 final size:30
Alignment explanation
Indices: 22458597--22458773 Score: 139
Period size: 30 Copynumber: 5.8 Consensus size: 30
22458587 AGATTTTGTA
22458597 AATTTAT-TT-AAATAAATTTTTATATTTT
1 AATTTATATTCAAATAAATTTTTATATTTT
* * *
22458625 TA-TTAGATTCAAATAAGTTTTT-TATCTTT
1 AATTTATATTCAAATAAATTTTTATAT-TTT
* * *
22458654 AATTTATATTTAAATTAATTTTTAAATTTT
1 AATTTATATTCAAATAAATTTTTATATTTT
*
22458684 AATTTATATTCAAATAAATCTTTA-ACTTTT
1 AATTTATATTCAAATAAATTTTTATA-TTTT
* * **
22458714 AATTTACATTTAAATAAGATTTTAATATAAATT
1 AATTTATATTCAAATAA-ATTTT--TATATTTT
* *
22458747 AATTTATTATTTGAAATAAAATTTTAT
1 AATTTA-TA-TTCAAATAAATTTTTAT
22458774 TTAATATAAA
Statistics
Matches: 117, Mismatches: 20, Indels: 20
0.75 0.13 0.13
Matches are distributed among these distances:
27 3 0.03
28 6 0.05
29 16 0.14
30 59 0.50
31 6 0.05
32 3 0.03
33 10 0.09
34 6 0.05
35 8 0.07
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.54
Consensus pattern (30 bp):
AATTTATATTCAAATAAATTTTTATATTTT
Found at i:22458674 original size:59 final size:60
Alignment explanation
Indices: 22458601--22458736 Score: 168
Period size: 60 Copynumber: 2.3 Consensus size: 60
22458591 TTTGTAAATT
* * * * *
22458601 TATTTAAATAAATTTTTATATTTTTA-TTAGATTCAAATAAGTTTTTTA-TCTTTAATTTA
1 TATTTAAATAAATTTTTAAATTTTAATTTAGATTCAAATAAATCTTTAACT-TTTAATTTA
* *
22458660 TATTTAAATTAATTTTTAAATTTTAATTTATATTCAAATAAATCTTTAACTTTTAATTTA
1 TATTTAAATAAATTTTTAAATTTTAATTTAGATTCAAATAAATCTTTAACTTTTAATTTA
*
22458720 CATTTAAATAAGATTTT
1 TATTTAAATAA-ATTTT
22458737 AATATAAATT
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
59 23 0.35
60 36 0.55
61 6 0.09
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.55
Consensus pattern (60 bp):
TATTTAAATAAATTTTTAAATTTTAATTTAGATTCAAATAAATCTTTAACTTTTAATTTA
Found at i:22458808 original size:23 final size:23
Alignment explanation
Indices: 22458764--22458836 Score: 71
Period size: 24 Copynumber: 3.3 Consensus size: 23
22458754 TATTTGAAAT
* *
22458764 AAAATTTTATTTAATATAAATAA
1 AAAAATTTATTAAATATAAATAA
22458787 ACAAAATTTATTAAATAT-AATAA
1 A-AAAATTTATTAAATATAAATAA
* * *
22458810 AAAAACTTA-T-AATTTAATTAA
1 AAAAATTTATTAAATATAAATAA
22458831 AAAAAT
1 AAAAAT
22458837 AATCCAAAGA
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
20 4 0.10
21 10 0.24
22 7 0.17
23 7 0.17
24 14 0.33
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (23 bp):
AAAAATTTATTAAATATAAATAA
Found at i:22460643 original size:27 final size:25
Alignment explanation
Indices: 22460601--22460703 Score: 77
Period size: 27 Copynumber: 4.0 Consensus size: 25
22460591 TATTTGATTA
*
22460601 ATTTTTATAAATATATATTAATATAT
1 ATTTTTATAAAAATATA-TAATATAT
*
22460627 ATTTTTAATAAAAATATATTAAT-TTT
1 ATTTTT-ATAAAAATATA-TAATATAT
* *
22460653 A-ATTTATATAAAATA-ATAATTTAT
1 ATTTTTATA-AAAATATATAATATAT
*
22460677 ATTATTTAATAATAAATTTATAATATA
1 ATT-TTT-ATAA-AAATATATAATATA
22460704 AGATACGAAT
Statistics
Matches: 62, Mismatches: 7, Indels: 14
0.75 0.08 0.17
Matches are distributed among these distances:
23 4 0.06
24 7 0.11
25 9 0.15
26 13 0.21
27 22 0.35
28 7 0.11
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (25 bp):
ATTTTTATAAAAATATATAATATAT
Found at i:22464347 original size:27 final size:27
Alignment explanation
Indices: 22464309--22464365 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
22464299 AATGTTAGCA
22464309 TATGAAATATATAGAAAGAAAAAAAAT
1 TATGAAATATATAGAAAGAAAAAAAAT
22464336 TATGAAATATATAGAAAGAAAAAAAAT
1 TATGAAATATATAGAAAGAAAAAAAAT
22464363 TAT
1 TAT
22464366 CAGTAAAAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.65, C:0.00, G:0.11, T:0.25
Consensus pattern (27 bp):
TATGAAATATATAGAAAGAAAAAAAAT
Found at i:22467703 original size:18 final size:18
Alignment explanation
Indices: 22467680--22467720 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
22467670 TCTCCTAAAT
22467680 ATATACATACATACATAA
1 ATATACATACATACATAA
* * *
22467698 ATATACATATATATATAT
1 ATATACATACATACATAA
22467716 ATATA
1 ATATA
22467721 TTAAACTTCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.54, C:0.10, G:0.00, T:0.37
Consensus pattern (18 bp):
ATATACATACATACATAA
Found at i:22468521 original size:32 final size:32
Alignment explanation
Indices: 22468480--22468542 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
22468470 CAAATACAAT
22468480 ATAAAATTATATTAT-TTAATTTAATCATATTA
1 ATAAAATTATATTATCTTAATTT-ATCATATTA
* *
22468512 ATAATATTATTTTATCTTAATTTATCATATT
1 ATAAAATTATATTATCTTAATTTATCATATT
22468543 TTGTGTATCA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 21 0.75
33 7 0.25
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (32 bp):
ATAAAATTATATTATCTTAATTTATCATATTA
Found at i:22477870 original size:31 final size:31
Alignment explanation
Indices: 22477807--22477870 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
22477797 AAGTGTATAT
* *
22477807 TATTTTTCTTAAATTCTTATTTTAATAATAA
1 TATTTTTCTTAAATTCTTATTATAAAAATAA
* *
22477838 TATTTTTTTTTAA-TCTTATTATAAAAAGTAA
1 TATTTTTCTTAAATTCTTATTATAAAAA-TAA
22477869 TA
1 TA
22477871 AAGAACAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 12 0.43
31 16 0.57
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.56
Consensus pattern (31 bp):
TATTTTTCTTAAATTCTTATTATAAAAATAA
Done.