Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167937.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_2, 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: 35885061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 165000 characters in sequence are not A, C, G, or T
File 143 of 195
Found at i:24094904 original size:36 final size:35
Alignment explanation
Indices: 24094829--24094906 Score: 102
Period size: 36 Copynumber: 2.2 Consensus size: 35
24094819 CAAAAATCGC
* *
24094829 AAGATTCGCAAAGGTTCAAAATTCATAAAAATTCC
1 AAGATTCGCAAAGGTCCAAAATTCATAAAAATTCA
* **
24094864 AAGATTTGCAAAGGTCCCAAAATTCATAAAGGTTCA
1 AAGATTCGCAAAGGT-CCAAAATTCATAAAAATTCA
24094900 AAGATTC
1 AAGATTC
24094907 ATAAAAATTC
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
35 14 0.39
36 22 0.61
ACGTcount: A:0.44, C:0.17, G:0.14, T:0.26
Consensus pattern (35 bp):
AAGATTCGCAAAGGTCCAAAATTCATAAAAATTCA
Found at i:24094956 original size:18 final size:18
Alignment explanation
Indices: 24094828--24094964 Score: 80
Period size: 18 Copynumber: 7.7 Consensus size: 18
24094818 TCAAAAATCG
*
24094828 CAAGATTCGCAAAGGTT-
1 CAAGATTCACAAAGGTTC
* * **
24094845 CAAAATTCATAAAAATTC
1 CAAGATTCACAAAGGTTC
** *
24094863 CAAGATTTGCAAAGGTCC
1 CAAGATTCACAAAGGTTC
* *
24094881 CAAAATTCATAAAGGTTC
1 CAAGATTCACAAAGGTTC
* * **
24094899 AAAGATTCATAAAAATT-
1 CAAGATTCACAAAGGTTC
* ** * *
24094916 CTAGATTTGCATAGATTC
1 CAAGATTCACAAAGGTTC
*
24094934 TAAGATTCACAAAGGTTC
1 CAAGATTCACAAAGGTTC
24094952 CAAGATTCACAAA
1 CAAGATTCACAAA
24094965 ATTTCCACAA
Statistics
Matches: 83, Mismatches: 35, Indels: 3
0.69 0.29 0.02
Matches are distributed among these distances:
17 22 0.27
18 61 0.73
ACGTcount: A:0.43, C:0.17, G:0.13, T:0.27
Consensus pattern (18 bp):
CAAGATTCACAAAGGTTC
Found at i:24095067 original size:22 final size:21
Alignment explanation
Indices: 24095004--24095122 Score: 78
Period size: 22 Copynumber: 5.4 Consensus size: 21
24094994 AATGAAGCTT
*
24095004 TTTAAAATTTGAAAATTCACA
1 TTTAAAATTTAAAAATTCACA
* ** *
24095025 TTCAAAAAATTTTTGAGATTCACA
1 TT--TAAAA-TTTAAAAATTCACA
*
24095049 TTTAAAATTTCAAAAATTCATA
1 TTTAAAATTT-AAAAATTCACA
*
24095071 GTTT-AAATCTTAAAGATTCACA
1 -TTTAAAAT-TTAAAAATTCACA
** *
24095093 TCCAAGATTTAAAAATTCACA
1 TTTAAAATTTAAAAATTCACA
24095114 TTTGAAAAT
1 TTT-AAAAT
24095123 CTTAGAGATT
Statistics
Matches: 72, Mismatches: 18, Indels: 15
0.69 0.17 0.14
Matches are distributed among these distances:
21 19 0.26
22 31 0.43
23 9 0.12
24 13 0.18
ACGTcount: A:0.45, C:0.12, G:0.06, T:0.37
Consensus pattern (21 bp):
TTTAAAATTTAAAAATTCACA
Found at i:24095093 original size:44 final size:43
Alignment explanation
Indices: 24095007--24095134 Score: 114
Period size: 44 Copynumber: 2.9 Consensus size: 43
24094997 GAAGCTTTTT
* * * ** **
24095007 AAAATTTGAAAATTCACATTCAAAAAATTTTTGAGATTCACATTT
1 AAAATTTAAAAATTCACATT--TAAAATCTTAAAGATTCACATCC
*
24095052 AAAATTTCAAAAATTCATAGTTT-AAATCTTAAAGATTCACATCC
1 AAAATTT-AAAAATTCACA-TTTAAAATCTTAAAGATTCACATCC
* *
24095096 AAGATTTAAAAATTCACATTTGAAAATCTTAGAGATTCA
1 AAAATTTAAAAATTCACATTT-AAAATCTTAAAGATTCA
24095135 TATACAAGAT
Statistics
Matches: 68, Mismatches: 11, Indels: 9
0.77 0.12 0.10
Matches are distributed among these distances:
42 3 0.04
43 10 0.15
44 37 0.54
45 7 0.10
46 9 0.13
47 2 0.03
ACGTcount: A:0.45, C:0.12, G:0.07, T:0.35
Consensus pattern (43 bp):
AAAATTTAAAAATTCACATTTAAAATCTTAAAGATTCACATCC
Found at i:24095162 original size:34 final size:34
Alignment explanation
Indices: 24095124--24095188 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 34
24095114 TTTGAAAATC
* * *
24095124 TTAGAGATTCATATACAAGATTTCAAGGACTATT
1 TTAGAAATTCACATACAAGATTTCAAAGACTATT
*
24095158 TTAGAAATTCACATCCAAGATTTCAAAGACT
1 TTAGAAATTCACATACAAGATTTCAAAGACT
24095189 TTTATTTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.32
Consensus pattern (34 bp):
TTAGAAATTCACATACAAGATTTCAAAGACTATT
Found at i:24095247 original size:46 final size:46
Alignment explanation
Indices: 24095170--24095280 Score: 118
Period size: 46 Copynumber: 2.4 Consensus size: 46
24095160 AGAAATTCAC
* ** *
24095170 ATCCAAGATTTCAAAGACTT-TTATTTTAAAATCTTTAAGGACTCAT
1 ATCCAAAATTTCAAAGA-TTCACATTTGAAAATCTTTAAGGACTCAT
* * *
24095216 ATCCAAAATTTCAAAGATTCACATTTGAAAATTTTTAATGATTCAT
1 ATCCAAAATTTCAAAGATTCACATTTGAAAATCTTTAAGGACTCAT
* *
24095262 ATCTAAAA-TTCAGAGATTC
1 ATCCAAAATTTCAAAGATTC
24095281 TTATTAAAAA
Statistics
Matches: 55, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
45 12 0.22
46 43 0.78
ACGTcount: A:0.40, C:0.14, G:0.08, T:0.38
Consensus pattern (46 bp):
ATCCAAAATTTCAAAGATTCACATTTGAAAATCTTTAAGGACTCAT
Found at i:24095269 original size:23 final size:23
Alignment explanation
Indices: 24095196--24095271 Score: 64
Period size: 23 Copynumber: 3.3 Consensus size: 23
24095186 ACTTTTATTT
* * *
24095196 TAAAATCTTTAAGGACTCATATC
1 TAAAATTTTTAAAGATTCATATC
* * * *
24095219 CAAAA-TTTCAAAGATTCACATT
1 TAAAATTTTTAAAGATTCATATC
*
24095241 TGAAAATTTTTAATGATTCATATC
1 T-AAAATTTTTAAAGATTCATATC
24095265 TAAAATT
1 TAAAATT
24095272 CAGAGATTCT
Statistics
Matches: 39, Mismatches: 12, Indels: 4
0.71 0.22 0.07
Matches are distributed among these distances:
22 11 0.28
23 14 0.36
24 14 0.36
ACGTcount: A:0.42, C:0.13, G:0.07, T:0.38
Consensus pattern (23 bp):
TAAAATTTTTAAAGATTCATATC
Found at i:24095294 original size:45 final size:46
Alignment explanation
Indices: 24095197--24095295 Score: 110
Period size: 46 Copynumber: 2.2 Consensus size: 46
24095187 CTTTTATTTT
* **
24095197 AAAATCTTTAAGGACTCATATCCAAAATTTCAAAGATTCACATTTG
1 AAAATTTTTAAGGACTCATATCCAAAATTTCAAAGATTCACATTAA
* * * * **
24095243 AAAATTTTTAATGATTCATATCTAAAA-TTCAGAGATTCTTATTAA
1 AAAATTTTTAAGGACTCATATCCAAAATTTCAAAGATTCACATTAA
24095288 AAAATTTT
1 AAAATTTT
24095296 GAGATTTTCA
Statistics
Matches: 44, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
45 21 0.48
46 23 0.52
ACGTcount: A:0.42, C:0.12, G:0.07, T:0.38
Consensus pattern (46 bp):
AAAATTTTTAAGGACTCATATCCAAAATTTCAAAGATTCACATTAA
Found at i:24098435 original size:138 final size:139
Alignment explanation
Indices: 24098173--24098563 Score: 389
Period size: 138 Copynumber: 2.8 Consensus size: 139
24098163 TGTCCTAAAC
* * * * * * *
24098173 AAATAAAATAATGTACATACAAAAATGTTTACAAGAATAAAAATGTATATACAAATACATGTAAG
1 AAATGAAATGATGTACATACAAAGATATTTACATGGATAAAAATGTATATACAAATACATGTATG
* * * * * *
24098238 CAATACATGGTAAAAATAAGAATTTATATTGAAAACTATGTACAACACT-AAAAAGGTAAATATT
66 CAATACATAGT-AAAATAAGAATTCATATTCAAAACTATGTACAAAATTGAAAAAGGTAAAGATT
** **
24098302 -TTCTTAAA-
130 ACCCCCAAAG
* * *
24098310 AAA-GAAAAATGGTGTACATACAAAGATATTTACATGGATAAAAATGTATATACAGATGCATGTA
1 AAATG--AAATGATGTACATACAAAGATATTTACATGGATAAAAATGTATATACAAATACATGTA
* **
24098374 TGCAATACACAGTAAAAGTAAGAATTCATATTCAAAACTATGTACAAAATTGAATTA-GTAAAGA
64 TGCAATACATAGTAAAA-TAAGAATTCATATTCAAAACTATGTACAAAATTGAAAAAGGTAAAGA
24098438 TTACCCCCAAAG
128 TTACCCCCAAAG
* * * * * * * *
24098450 AAATGAAGTTATGTACATAAAAAGTTATTTACATAGATAAAAATGCATATGCAAATACATGTATA
1 AAATGAAATGATGTACATACAAAGATATTTACATGGATAAAAATGTATATACAAATACATGTATG
* * *
24098515 CAATATATAG-AACAACAAGAATTCATATTCACAACTATGTACAAAATTG
66 CAATACATAGTAA-AATAAGAATTCATATTCAAAACTATGTACAAAATTG
24098564 GTAAAAGTAA
Statistics
Matches: 208, Mismatches: 38, Indels: 15
0.80 0.15 0.06
Matches are distributed among these distances:
137 7 0.03
138 131 0.63
139 66 0.32
140 3 0.01
141 1 0.00
ACGTcount: A:0.50, C:0.11, G:0.12, T:0.28
Consensus pattern (139 bp):
AAATGAAATGATGTACATACAAAGATATTTACATGGATAAAAATGTATATACAAATACATGTATG
CAATACATAGTAAAATAAGAATTCATATTCAAAACTATGTACAAAATTGAAAAAGGTAAAGATTA
CCCCCAAAG
Found at i:24100504 original size:42 final size:42
Alignment explanation
Indices: 24100424--24100511 Score: 97
Period size: 42 Copynumber: 2.0 Consensus size: 42
24100414 AAAATAAAAC
* * *
24100424 TCCTTTTATTTTTACTTAATATTATTATTATTATTTTATTTA
1 TCCTTTTATTTTTAATTAACATTATTAGTATTATTTTATTTA
*
24100466 TCCTTTTATTTTTAAATTAACA-TCTTAGTATTTATTTATTATTTA
1 TCCTTTTATTTTT-AATTAACATTATTAGTA-TTA-TT-TTATTTA
24100511 T
1 T
24100512 TGTTACTGAT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
42 19 0.50
43 9 0.24
44 2 0.05
45 8 0.21
ACGTcount: A:0.27, C:0.08, G:0.01, T:0.64
Consensus pattern (42 bp):
TCCTTTTATTTTTAATTAACATTATTAGTATTATTTTATTTA
Found at i:24100634 original size:19 final size:19
Alignment explanation
Indices: 24100610--24100657 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
24100600 TAACAAAAAT
* *
24100610 AAAATAAAAGTGAAATCAG
1 AAAATAAAAATAAAATCAG
*
24100629 AAAATAAAAATAAAATGAG
1 AAAATAAAAATAAAATCAG
24100648 AAAATAAAAA
1 AAAATAAAAA
24100658 CTTACAAACG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.73, C:0.02, G:0.10, T:0.15
Consensus pattern (19 bp):
AAAATAAAAATAAAATCAG
Found at i:24100657 original size:25 final size:23
Alignment explanation
Indices: 24100603--24100650 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 23
24100593 ATACAAATAA
*
24100603 CAAAAATAAAATAAAAGTGAAAT
1 CAAAAATAAAATAAAAGAGAAAT
24100626 CAGAAAATAAAAATAAAATGAGAAA
1 CA-AAAAT-AAAATAAAA-GAGAAA
24100651 ATAAAAACTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 2 0.10
24 5 0.24
25 9 0.43
26 5 0.24
ACGTcount: A:0.71, C:0.04, G:0.10, T:0.15
Consensus pattern (23 bp):
CAAAAATAAAATAAAAGAGAAAT
Found at i:24101054 original size:10 final size:11
Alignment explanation
Indices: 24101025--24101052 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
24101015 CTGATGATTC
24101025 CAAAAAATTTT
1 CAAAAAATTTT
24101036 CAAAAAATTTT
1 CAAAAAATTTT
24101047 CAAAAA
1 CAAAAA
24101053 TTCCCAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.61, C:0.11, G:0.00, T:0.29
Consensus pattern (11 bp):
CAAAAAATTTT
Found at i:24101621 original size:3 final size:3
Alignment explanation
Indices: 24101610--24101688 Score: 149
Period size: 3 Copynumber: 26.0 Consensus size: 3
24101600 GAAGAAATGA
24101610 AAT ATAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
24101656 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
24101689 TTTTTATGAA
Statistics
Matches: 75, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 72 0.96
4 3 0.04
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:24102164 original size:75 final size:74
Alignment explanation
Indices: 24101937--24102171 Score: 208
Period size: 75 Copynumber: 3.2 Consensus size: 74
24101927 ATAACTTTTG
* * * * * * *
24101937 AAAA-TTTAAAAGGCTCATTTGACCAAAGGCAATAAAACTTTAAATTT-AAAGGTTCATCTGATC
1 AAAACTTTAAATGGCTCATCTAACCAGAGGCACTGAAACTTTAAATTTAAAAAGTTCATCTGATC
**
24102000 AGAGGTTAT
66 AGAGGAAAT
* * * *
24102009 AAAATTTTAAATGGCTCATCTGACCAGAGGTATTGAAACTTTATAATTTAAAAAGTTTC-TCTGA
1 AAAACTTTAAATGGCTCATCTAACCAGAGGCACTGAAACTTTA-AATTTAAAAAG-TTCATCTGA
* *
24102073 TTA-AAGAATAT
64 TCAGAGGAA-AT
** * * *
24102084 AAAACTTTAAATGGCTTTTCTAACCATAGGCACTGAAACTTTAGAATTTAAAAAGCTCATCTGAC
1 AAAACTTTAAATGGCTCATCTAACCAGAGGCACTGAAACTTTA-AATTTAAAAAGTTCATCTGAT
*
24102149 CAGAGGCAAT
65 CAGAGGAAAT
*
24102159 GAAACTTTAAATG
1 AAAACTTTAAATG
24102172 ACCCATGAAA
Statistics
Matches: 131, Mismatches: 25, Indels: 11
0.78 0.15 0.07
Matches are distributed among these distances:
72 4 0.03
73 32 0.24
74 9 0.07
75 80 0.61
76 6 0.05
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.31
Consensus pattern (74 bp):
AAAACTTTAAATGGCTCATCTAACCAGAGGCACTGAAACTTTAAATTTAAAAAGTTCATCTGATC
AGAGGAAAT
Found at i:24102310 original size:34 final size:33
Alignment explanation
Indices: 24102235--24102316 Score: 103
Period size: 34 Copynumber: 2.5 Consensus size: 33
24102225 AACCAAAAAC
*
24102235 AATGAAACTTTAAATGGCTATTCTAACAGAGAT
1 AATGAAACTTTAAATAGCTATTCTAACAGAGAT
* * *
24102268 AATAAAACTTTAAATAGCTCATT-TGACCAGAGGT
1 AATGAAACTTTAAATAGCT-ATTCT-AACAGAGAT
24102302 AATGAAACTTTAAAT
1 AATGAAACTTTAAAT
24102317 TAAAAATCTG
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
33 18 0.43
34 24 0.57
ACGTcount: A:0.44, C:0.12, G:0.13, T:0.30
Consensus pattern (33 bp):
AATGAAACTTTAAATAGCTATTCTAACAGAGAT
Found at i:24102524 original size:48 final size:48
Alignment explanation
Indices: 24102468--24102561 Score: 161
Period size: 48 Copynumber: 2.0 Consensus size: 48
24102458 AACCAGAGGC
* *
24102468 AATGAAACTTTAAATTAAAAATCTGAAAGGATTTATAGATTATGCCTT
1 AATGAAACTTTAAATTAAAAATCTAAAAGGACTTATAGATTATGCCTT
*
24102516 AATGAAACTTTAAATTAAAAATCTAAAATGACTTATAGATTATGCC
1 AATGAAACTTTAAATTAAAAATCTAAAAGGACTTATAGATTATGCC
24102562 ATTTGGTCTT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.46, C:0.10, G:0.11, T:0.34
Consensus pattern (48 bp):
AATGAAACTTTAAATTAAAAATCTAAAAGGACTTATAGATTATGCCTT
Found at i:24102702 original size:214 final size:215
Alignment explanation
Indices: 24102301--24102727 Score: 637
Period size: 215 Copynumber: 2.0 Consensus size: 215
24102291 TGACCAGAGG
*
24102301 TAATGAAACTTTAAATTAAAAATCTGAAAGGACTTATAGATTATGCCTTATGGTCTTACAAATCA
1 TAATGAAACTTTAAATTAAAAATCTAAAAGGACTTATAGATTATGCCTTATGGTCTTACAAATCA
* * * * *
24102366 TGCTTAATTTGATGGAGTCTTTTAACCAGAGGCTCTTAAAATTAAAAAGCTCATTTGACTATATA
66 TGCTTAATTTGATGCAGTCCTCTAACCAGAGGCTCTTAAAATTAAAAAGCTCATATGACTATAAA
*
24102431 GACTATAAAACTTTAAATGGCTCATCTAACCAGAGGCAATGAAACTTTAAATT-AAAAATCTGAA
131 GACTATAAAACTTTAAATGGCTCATCTAACCAGAGGCAATGAAACTTAAAATTAAAAAATCTGAA
24102495 AGGATTTATAGATTATGCCT
196 AGGATTTATAGATTATGCCT
*
24102515 TAATGAAACTTTAAATTAAAAATCTAAAATGACTTATAGATTATGCCATT-TGGTCTTACAAATC
1 TAATGAAACTTTAAATTAAAAATCTAAAAGGACTTATAGATTATGCC-TTATGGTCTTACAAATC
*
24102579 ATGCTTAATTTTGATGCAGTCCTCTAACCAGAGGCTCTTAAAATTAAAAAGCTTATATGA-T-TA
65 ATGCTTAA-TTTGATGCAGTCCTCTAACCAGAGGCTCTTAAAATTAAAAAGCTCATATGACTATA
** * * * * *
24102642 AAGGTTATGAAACTTTAAATGGCTCATCTGACTAGAGGTAATGAAAGTTAAAATTTAAAAAATCT
129 AAGACTATAAAACTTTAAATGGCTCATCTAACCAGAGGCAATGAAACTTAAAA-TTAAAAAATCT
* *
24102707 GAGAGGATTTGTAGATTATGC
193 GAAAGGATTTATAGATTATGC
24102728 TTTTTGGTCT
Statistics
Matches: 191, Mismatches: 18, Indels: 7
0.88 0.08 0.03
Matches are distributed among these distances:
213 46 0.24
214 70 0.37
215 75 0.39
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.33
Consensus pattern (215 bp):
TAATGAAACTTTAAATTAAAAATCTAAAAGGACTTATAGATTATGCCTTATGGTCTTACAAATCA
TGCTTAATTTGATGCAGTCCTCTAACCAGAGGCTCTTAAAATTAAAAAGCTCATATGACTATAAA
GACTATAAAACTTTAAATGGCTCATCTAACCAGAGGCAATGAAACTTAAAATTAAAAAATCTGAA
AGGATTTATAGATTATGCCT
Found at i:24113705 original size:5 final size:6
Alignment explanation
Indices: 24113690--24113715 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
24113680 AATTTTTACC
24113690 TTTTTA TTTTTA TTTTTA TTTTTA TT
1 TTTTTA TTTTTA TTTTTA TTTTTA TT
24113716 CTAAGATGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTA
Found at i:24114636 original size:3 final size:3
Alignment explanation
Indices: 24114623--24114656 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
24114613 TTTGAAGAAA
*
24114623 TAT TTT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
24114657 TAATAAATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TAT
Found at i:24116038 original size:22 final size:24
Alignment explanation
Indices: 24116003--24116059 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 24
24115993 TGAAGAAAAC
*
24116003 AAAGAAAAA-ATGTC-AGAAA-GA
1 AAAGAAAAATATGTCAAAAAAGGA
*
24116024 AAAGAAAAATGTGTCAAAAAAGGA
1 AAAGAAAAATATGTCAAAAAAGGA
*
24116048 AATGAAAAATAT
1 AAAGAAAAATAT
24116060 ATAATAATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
21 9 0.31
22 4 0.14
23 4 0.14
24 12 0.41
ACGTcount: A:0.65, C:0.04, G:0.18, T:0.14
Consensus pattern (24 bp):
AAAGAAAAATATGTCAAAAAAGGA
Found at i:24116068 original size:3 final size:3
Alignment explanation
Indices: 24116055--24116091 Score: 65
Period size: 3 Copynumber: 12.0 Consensus size: 3
24116045 GGAAATGAAA
24116055 AAT ATAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
24116092 TTTATGAGAC
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 30 0.91
4 3 0.09
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:24116874 original size:20 final size:20
Alignment explanation
Indices: 24116823--24116874 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 20
24116813 TAATGAACCT
24116823 TACAAATATATTATTAGTCA
1 TACAAATATATTATTAGTCA
24116843 TGCAAGCAAATATATTATTAGTCA
1 T---A-CAAATATATTATTAGTCA
24116867 TACAAATA
1 TACAAATA
24116875 ATAAATAATC
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
20 7 0.25
21 1 0.04
23 1 0.04
24 19 0.68
ACGTcount: A:0.46, C:0.12, G:0.08, T:0.35
Consensus pattern (20 bp):
TACAAATATATTATTAGTCA
Found at i:24116896 original size:29 final size:27
Alignment explanation
Indices: 24116859--24116912 Score: 72
Period size: 29 Copynumber: 1.9 Consensus size: 27
24116849 CAAATATATT
24116859 ATTAGTCATACAAATAATAAATAATCATA
1 ATTAGTCATACAAA-AATAAA-AATCATA
* *
24116888 ATTATTCATGCAAAAATAAAAATCA
1 ATTAGTCATACAAAAATAAAAATCA
24116913 AACAAAAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 5 0.22
28 6 0.26
29 12 0.52
ACGTcount: A:0.56, C:0.11, G:0.04, T:0.30
Consensus pattern (27 bp):
ATTAGTCATACAAAAATAAAAATCATA
Found at i:24117050 original size:15 final size:15
Alignment explanation
Indices: 24116997--24117064 Score: 56
Period size: 14 Copynumber: 4.8 Consensus size: 15
24116987 CAACTAAACA
*
24116997 AGAAAAT-AAGAAAT
1 AGAAAATCAAAAAAT
24117011 A-AGAAAT-AAAAAA-
1 AGA-AAATCAAAAAAT
* * *
24117024 ATAAAAGCAAAAAGT
1 AGAAAATCAAAAAAT
24117039 A-AAAATCAAAAAAT
1 AGAAAATCAAAAAAT
24117053 AGAAAATCAAAA
1 AGAAAATCAAAA
24117065 TTAAAATCAA
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
13 5 0.11
14 28 0.64
15 11 0.25
ACGTcount: A:0.75, C:0.04, G:0.09, T:0.12
Consensus pattern (15 bp):
AGAAAATCAAAAAAT
Found at i:24117094 original size:18 final size:18
Alignment explanation
Indices: 24117048--24117094 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
24117038 TAAAAATCAA
**
24117048 AAAATAGAAAATCAAAATT
1 AAAATA-AAAATCAAAAAG
*
24117067 AAAATCAAAATCAAAAAG
1 AAAATAAAAATCAAAAAG
24117085 AAAATAAAAA
1 AAAATAAAAA
24117095 AAGAAAAACC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
18 19 0.79
19 5 0.21
ACGTcount: A:0.74, C:0.06, G:0.04, T:0.15
Consensus pattern (18 bp):
AAAATAAAAATCAAAAAG
Found at i:24118134 original size:9 final size:9
Alignment explanation
Indices: 24118105--24118172 Score: 77
Period size: 9 Copynumber: 7.7 Consensus size: 9
24118095 GTTCAACCAT
24118105 TTTTTTGAC
1 TTTTTTGAC
*
24118114 TTCTTTTTAC
1 TT-TTTTGAC
24118124 TTTTTTGAC
1 TTTTTTGAC
**
24118133 TTTTTTTTC
1 TTTTTTGAC
*
24118142 TCTTTTGAC
1 TTTTTTGAC
24118151 TTTTTT--C
1 TTTTTTGAC
24118158 TTTTTTGAC
1 TTTTTTGAC
24118167 TTTTTT
1 TTTTTT
24118173 TTTGACTAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
7 7 0.15
9 33 0.69
10 8 0.17
ACGTcount: A:0.07, C:0.13, G:0.06, T:0.74
Consensus pattern (9 bp):
TTTTTTGAC
Found at i:24118137 original size:16 final size:16
Alignment explanation
Indices: 24118105--24118172 Score: 82
Period size: 16 Copynumber: 3.9 Consensus size: 16
24118095 GTTCAACCAT
24118105 TTTTTTGACTTCTTTTTAC
1 TTTTTTGAC-T-TTTTT-C
24118124 TTTTTTGACTTTTTTTTC
1 TTTTTTGAC--TTTTTTC
*
24118142 TCTTTTGACTTTTTTC
1 TTTTTTGACTTTTTTC
24118158 TTTTTTGACTTTTTT
1 TTTTTTGACTTTTTT
24118173 TTTGACTAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
16 21 0.46
18 9 0.20
19 14 0.30
20 2 0.04
ACGTcount: A:0.07, C:0.13, G:0.06, T:0.74
Consensus pattern (16 bp):
TTTTTTGACTTTTTTC
Found at i:24118175 original size:19 final size:18
Alignment explanation
Indices: 24118105--24118174 Score: 99
Period size: 18 Copynumber: 3.9 Consensus size: 18
24118095 GTTCAACCAT
*
24118105 TTTTTTGACTTCTTTTTAC
1 TTTTTTGACTT-TTTTTTC
24118124 TTTTTTGACTTTTTTTTC
1 TTTTTTGACTTTTTTTTC
*
24118142 TCTTTTGAC--TTTTTTC
1 TTTTTTGACTTTTTTTTC
24118158 TTTTTTGACTTTTTTTT
1 TTTTTTGACTTTTTTTT
24118175 TGACTAAAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
16 15 0.33
18 20 0.43
19 11 0.24
ACGTcount: A:0.07, C:0.13, G:0.06, T:0.74
Consensus pattern (18 bp):
TTTTTTGACTTTTTTTTC
Found at i:24118219 original size:27 final size:27
Alignment explanation
Indices: 24118182--24118233 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
24118172 TTTTGACTAA
*
24118182 AAATGAAATTAGA-TCAAAAATAAAATT
1 AAATGAAATTAAAGTC-AAAATAAAATT
*
24118209 AAATTAAATTAAAGTCAAAATAAAA
1 AAATGAAATTAAAGTCAAAATAAAA
24118234 ATTAGCATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 20 0.91
28 2 0.09
ACGTcount: A:0.65, C:0.04, G:0.06, T:0.25
Consensus pattern (27 bp):
AAATGAAATTAAAGTCAAAATAAAATT
Found at i:24118259 original size:24 final size:22
Alignment explanation
Indices: 24118202--24118268 Score: 62
Period size: 24 Copynumber: 2.9 Consensus size: 22
24118192 AGATCAAAAA
24118202 TAAAATTAAATTAAATTAAAGT
1 TAAAATTAAATTAAATTAAAGT
* * *
24118224 CAAAATAAAAATTAGCATTAAAGT
1 TAAAAT-TAAATTA-AATTAAAGT
* *
24118248 TAAAATTCAAATCAAAATAAA
1 TAAAATT-AAATTAAATTAAA
24118269 AAATTTTGGC
Statistics
Matches: 34, Mismatches: 8, Indels: 5
0.72 0.17 0.11
Matches are distributed among these distances:
22 5 0.15
23 11 0.32
24 18 0.53
ACGTcount: A:0.61, C:0.06, G:0.04, T:0.28
Consensus pattern (22 bp):
TAAAATTAAATTAAATTAAAGT
Found at i:24127663 original size:48 final size:48
Alignment explanation
Indices: 24127567--24127664 Score: 151
Period size: 48 Copynumber: 2.0 Consensus size: 48
24127557 CCCTCCAACA
*
24127567 ATAATGACTTGAGACACCTTATCACGAGAGGTGCATCTAGCGTAAAAG
1 ATAATGACTTGAGACACCTTATCACGAGAGGTGCATCTAACGTAAAAG
* * * *
24127615 ATAATGACTTGAGAGACCTTATCATGAGAGGTGCATCTAATGTGAAAG
1 ATAATGACTTGAGACACCTTATCACGAGAGGTGCATCTAACGTAAAAG
24127663 AT
1 AT
24127665 GTTTTCATGC
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (48 bp):
ATAATGACTTGAGACACCTTATCACGAGAGGTGCATCTAACGTAAAAG
Found at i:24132440 original size:22 final size:22
Alignment explanation
Indices: 24132409--24132452 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
24132399 TGTATATTTA
* *
24132409 TATTTTTATCTCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
24132431 TATTTGTATCCCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
24132453 GACAAAAAAT
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:0.32, C:0.11, G:0.11, T:0.45
Consensus pattern (22 bp):
TATTTGTATCCCTAGAATTAAG
Found at i:24156527 original size:18 final size:18
Alignment explanation
Indices: 24156502--24156557 Score: 76
Period size: 21 Copynumber: 2.9 Consensus size: 18
24156492 TATGGTAAAT
24156502 GATACATTTGAGGTGGAG
1 GATACATTTGAGGTGGAG
*
24156520 GATTCATTTGAGGAGGTGGAG
1 GATACATTT---GAGGTGGAG
24156541 GATACATTTGAGGTGGA
1 GATACATTTGAGGTGGA
24156558 TAATAACCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
18 16 0.48
21 17 0.52
ACGTcount: A:0.27, C:0.05, G:0.39, T:0.29
Consensus pattern (18 bp):
GATACATTTGAGGTGGAG
Found at i:24156537 original size:21 final size:21
Alignment explanation
Indices: 24156511--24156553 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
24156501 TGATACATTT
*
24156511 GAGGTGGAGGATTCATTTGAG
1 GAGGTGGAGGATACATTTGAG
24156532 GAGGTGGAGGATACATTTGAG
1 GAGGTGGAGGATACATTTGAG
24156553 G
1 G
24156554 TGGATAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.26, C:0.05, G:0.44, T:0.26
Consensus pattern (21 bp):
GAGGTGGAGGATACATTTGAG
Found at i:24156583 original size:18 final size:18
Alignment explanation
Indices: 24156560--24156596 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
24156550 GAGGTGGATA
*
24156560 ATAACCATATAGAGGTTG
1 ATAACCATAAAGAGGTTG
24156578 ATAACCATAAAGAGGTTG
1 ATAACCATAAAGAGGTTG
24156596 A
1 A
24156597 AAATTAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.43, C:0.11, G:0.22, T:0.24
Consensus pattern (18 bp):
ATAACCATAAAGAGGTTG
Found at i:24156912 original size:6 final size:6
Alignment explanation
Indices: 24156901--24156961 Score: 86
Period size: 6 Copynumber: 10.2 Consensus size: 6
24156891 CCAAAATTCA
* *
24156901 CACCAT CACCAT CACTAT CACCAT CACCAT CACCAT CACCAT CATCAT
1 CACCAT CACCAT CACCAT CACCAT CACCAT CACCAT CACCAT CACCAT
* *
24156949 CATCAT CATCAT C
1 CACCAT CACCAT C
24156962 TAGACTTAAA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 52 1.00
ACGTcount: A:0.33, C:0.44, G:0.00, T:0.23
Consensus pattern (6 bp):
CACCAT
Found at i:24160582 original size:494 final size:489
Alignment explanation
Indices: 24159931--24160872 Score: 1496
Period size: 495 Copynumber: 1.9 Consensus size: 489
24159921 TTTACGCTAA
**
24159931 ATTTTTTAATTTTTAATTTTTAATCTTAAGAGTAATAGATCATAAAATGCTAAATTATTAAGTAA
1 ATTTTTTAATTTTTAATTTTTAATCTTAAGAGTAATAGATCATAAAACACTAAATTATTAAGTAA
24159996 CTTAATCTTTTTGATACACTAATTGATATAAATTTTTTTATCACAAATAACTTTCAATAATTATA
66 CTTAATCTTTTTGATACACTAATTGATATAAATTTTTTTATCACAAATAACTTTCAATAATTATA
* * * *
24160061 TAATAAATATAATCTTCAATGATTACACAAAAATAATAAGAATTAATCTAATATTAAAAGAACTG
131 TAATAAATAAAATCTTCAATAATTACACAAAAATAATAAGAATTAATCTAATATCAAAAAAACTG
* * *
24160126 ACAACAATATAAATACTAAAATAAC-AAAAAAATTATTAAATTTCAAACACAAAATTATAAATTA
196 ACAACAATATAAATACCAAAACAACAAAAAAAATTATTAAATTTCAAACACAAAATCATAAATTA
* * *
24160190 ATATATAACACAATCAAAATATAATATTTAATTTTAATTA-ATTTTCATTTAACTTATACAAAAA
261 ATATATAACAAAATCAAAATATAATATTTAATTTTAAATATATTTTCATCTAACTTATACAAAAA
* *
24160254 AATTTATCAAAATTTTTCAGCTAAAATCTCTATATATATCATATTAAATTATTAATCTCTTAA-T
326 AATTTATC-AAA--TTTCAGCTAAAATCTCTATATAT-T-ATATTAAATCATTAATCCCTTAATT
** *
24160318 TTTTTAATTATAAATATTTAATCCCTCTAATTAGATTTTATCTAAAAAAATTTCAAAAATTAAAA
386 TTTTTAATTATAAATATTTAAAACCTCTAATTAAATTTTATCTAAAAAAATTTCAAAAATTAAAA
24160383 ATTTTCAAACTTATATTTTAATAAAATTTTCCAACTTAT
451 ATTTTCAAACTTATATTTTAATAAAATTTTCCAACTTAT
*
24160422 ATTTTTTAATTTTTAGTTTTTAATCTTAATAAGAGTAATAGATCATAAAACACTAAATTTATTAA
1 ATTTTTTAATTTTTAATTTTTAATC-T--TAAGAGTAATAGATCATAAAACACTAAA-TTATTAA
* * *
24160487 GTAACTTAATCTTTTTGATATACTAATTGATATAATTTTTTTTATCACAAAT-TCTTTCAATAAT
62 GTAACTTAATCTTTTTGATACACTAATTGATATAAATTTTTTTATCACAAATAACTTTCAATAAT
24160551 TATATAATAAATAAAATCTTCAATAATTACACAAAAATAATAAGAATTAATCTAATATCAAAAAA
127 TATATAATAAATAAAATCTTCAATAATTACACAAAAATAATAAGAATTAATCTAATATCAAAAAA
* *
24160616 ATTGACAACAATATAAATACCAAAACAACAAAAAAAATTATTAAATTTCAAATACAAAATCATAA
192 ACTGACAACAATATAAATACCAAAACAACAAAAAAAATTATTAAATTTCAAACACAAAATCATAA
* * * *
24160681 ATTCATATATAACAAAATTAAAATATAATATTTAATTTTAAATATTTTTTTATCTAACTTATACA
257 ATTAATATATAACAAAATCAAAATATAATATTTAATTTTAAATATATTTTCATCTAACTTATACA
*
24160746 AAAAAATTTATCAAATTTCATCTAAAATCTCTATATATTATATTAAATCATTAATCCCTTAATTT
322 AAAAAATTTATCAAATTTCAGCTAAAATCTCTATATATTATATTAAATCATTAATCCCTTAATTT
* * *
24160811 TTTTAATTATAAATTTTTAAAACCTCTAATTAAATTTTATCTTAAAAAATTTTAAAAATTAA
387 TTTTAATTATAAATATTTAAAACCTCTAATTAAATTTTATCTAAAAAAATTTCAAAAATTAA
24160873 TTACAAAATT
Statistics
Matches: 413, Mismatches: 31, Indels: 13
0.90 0.07 0.03
Matches are distributed among these distances:
491 45 0.11
492 60 0.15
493 22 0.05
494 124 0.30
495 133 0.32
496 29 0.07
ACGTcount: A:0.47, C:0.10, G:0.02, T:0.41
Consensus pattern (489 bp):
ATTTTTTAATTTTTAATTTTTAATCTTAAGAGTAATAGATCATAAAACACTAAATTATTAAGTAA
CTTAATCTTTTTGATACACTAATTGATATAAATTTTTTTATCACAAATAACTTTCAATAATTATA
TAATAAATAAAATCTTCAATAATTACACAAAAATAATAAGAATTAATCTAATATCAAAAAAACTG
ACAACAATATAAATACCAAAACAACAAAAAAAATTATTAAATTTCAAACACAAAATCATAAATTA
ATATATAACAAAATCAAAATATAATATTTAATTTTAAATATATTTTCATCTAACTTATACAAAAA
AATTTATCAAATTTCAGCTAAAATCTCTATATATTATATTAAATCATTAATCCCTTAATTTTTTT
AATTATAAATATTTAAAACCTCTAATTAAATTTTATCTAAAAAAATTTCAAAAATTAAAAATTTT
CAAACTTATATTTTAATAAAATTTTCCAACTTAT
Found at i:24160674 original size:22 final size:23
Alignment explanation
Indices: 24160649--24160704 Score: 57
Period size: 22 Copynumber: 2.5 Consensus size: 23
24160639 AACAACAAAA
24160649 AAAATTATTAAATTTCA-A-AT-AC
1 AAAATTA-TAAA-TTCATATATAAC
*
24160671 AAAATCATAAATTCATATATAAC
1 AAAATTATAAATTCATATATAAC
24160694 AAAATTA-AAAT
1 AAAATTATAAAT
24160705 ATAATATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
20 4 0.14
21 5 0.17
22 12 0.41
23 8 0.28
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.32
Consensus pattern (23 bp):
AAAATTATAAATTCATATATAAC
Found at i:24161109 original size:17 final size:18
Alignment explanation
Indices: 24161087--24161121 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
24161077 TTCGAAAATC
*
24161087 TTTTTCTTCTCTC-TTTT
1 TTTTTCATCTCTCATTTT
24161104 TTTTTCATCTCTCATTTT
1 TTTTTCATCTCTCATTTT
24161122 CTCTCGCATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.06, C:0.23, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTTTCATCTCTCATTTT
Found at i:24164039 original size:52 final size:52
Alignment explanation
Indices: 24163937--24164041 Score: 147
Period size: 52 Copynumber: 2.0 Consensus size: 52
24163927 TGGATAATAA
* *
24163937 GACTTGCAGAAAAAGAATTCTAAGAGAAAAAAGATTCTCAAAATGTAAGTTT
1 GACTTGCAGAAAAAGAATTCTAAGAGAAAAAAGATTCTCAAAAGGCAAGTTT
* * * * *
24163989 GACTTGCAGAAGAAGAATTCTAAGAGAAAAATGATTTTTAATAGGCAAGTTT
1 GACTTGCAGAAAAAGAATTCTAAGAGAAAAAAGATTCTCAAAAGGCAAGTTT
24164041 G
1 G
24164042 TATGCTTATA
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.45, C:0.09, G:0.20, T:0.27
Consensus pattern (52 bp):
GACTTGCAGAAAAAGAATTCTAAGAGAAAAAAGATTCTCAAAAGGCAAGTTT
Found at i:24170251 original size:132 final size:132
Alignment explanation
Indices: 24170014--24170278 Score: 433
Period size: 132 Copynumber: 2.0 Consensus size: 132
24170004 CTTTTGAGAT
*
24170014 AATTGGTTATCCAATTTAACATGGTATTAGAGCTCTTGAATTAGGATCTTAGAAAACAAAACCCT
1 AATTGGTTACCCAATTTAACATGGTATTAGAGCTCTTGAATTAGGATCTTAGAAAACAAAACCCT
* *
24170079 TTTAATATTTCTTCACCTAGTGTTTTGTTGCCCATTGGAGTGGGCAATGCTTCTTTAATTTTTCT
66 TTTAATATTTATTCACCTAGTGTTTTGTTGCCCATTGGAGTGGGCAATGCTTCTTTAATCTTTCT
24170144 TC
131 TC
* *
24170146 AATTGGTTACCCAATTTAACATGGTATTAGAGCTCTTGAATTAGGA-CTTTAGGAAACACAACCC
1 AATTGGTTACCCAATTTAACATGGTATTAGAGCTCTTGAATTAGGATC-TTAGAAAACAAAACCC
* * * *
24170210 TTTTAATATTTATTCACCTAGTGTTTTGTTGCCTATTGGAGTGTGCCATGCTTCTTTGATCTTTC
65 TTTTAATATTTATTCACCTAGTGTTTTGTTGCCCATTGGAGTGGGCAATGCTTCTTTAATCTTTC
24170275 TTC
130 TTC
24170278 A
1 A
24170279 GCTAGAAATT
Statistics
Matches: 123, Mismatches: 9, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
131 1 0.01
132 122 0.99
ACGTcount: A:0.26, C:0.17, G:0.16, T:0.41
Consensus pattern (132 bp):
AATTGGTTACCCAATTTAACATGGTATTAGAGCTCTTGAATTAGGATCTTAGAAAACAAAACCCT
TTTAATATTTATTCACCTAGTGTTTTGTTGCCCATTGGAGTGGGCAATGCTTCTTTAATCTTTCT
TC
Found at i:24182208 original size:16 final size:17
Alignment explanation
Indices: 24182176--24182212 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
24182166 ATTATTTTTT
24182176 AAATAATTTTATGTTCA
1 AAATAATTTTATGTTCA
*
24182193 AAATTATTTT-TGTTCA
1 AAATAATTTTATGTTCA
24182209 AAAT
1 AAAT
24182213 GTAAATAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (17 bp):
AAATAATTTTATGTTCA
Found at i:24185654 original size:27 final size:27
Alignment explanation
Indices: 24185616--24185668 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
24185606 ATCTATTAGT
*
24185616 AAAATTTTTTATTGAAAATTATCCTCC
1 AAAACTTTTTATTGAAAATTATCCTCC
24185643 AAAACTTTTTATTGAAAATTATCCTC
1 AAAACTTTTTATTGAAAATTATCCTC
24185669 TAATATATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.38, C:0.15, G:0.04, T:0.43
Consensus pattern (27 bp):
AAAACTTTTTATTGAAAATTATCCTCC
Found at i:24185855 original size:22 final size:21
Alignment explanation
Indices: 24185828--24185877 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
24185818 CATCAATTAA
24185828 AAATAA-ACAAAACTTATCATGC
1 AAATAATACAAAA--TATCATGC
*
24185850 AAATAATATAAAATATCATGC
1 AAATAATACAAAATATCATGC
24185871 AAA-AATA
1 AAATAATA
24185878 TTATTAATCA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 4 0.15
21 11 0.42
22 6 0.23
23 5 0.19
ACGTcount: A:0.60, C:0.12, G:0.04, T:0.24
Consensus pattern (21 bp):
AAATAATACAAAATATCATGC
Found at i:24185887 original size:20 final size:22
Alignment explanation
Indices: 24185843--24185921 Score: 87
Period size: 21 Copynumber: 3.7 Consensus size: 22
24185833 AACAAAACTT
*
24185843 ATCATGCAA-ATAATA-TAAAA
1 ATCATGCAATATAATATTATAA
*
24185863 TATCATGCAA-A-AATATTATTA
1 -ATCATGCAATATAATATTATAA
24185884 ATCATGCCAATATAATATTATAA
1 ATCATG-CAATATAATATTATAA
24185907 ATCATGCAAT-TAATA
1 ATCATGCAATATAATA
24185922 AATCACACAA
Statistics
Matches: 51, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
20 10 0.20
21 21 0.41
22 5 0.10
23 15 0.29
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.33
Consensus pattern (22 bp):
ATCATGCAATATAATATTATAA
Found at i:24185964 original size:19 final size:19
Alignment explanation
Indices: 24185940--24185996 Score: 71
Period size: 19 Copynumber: 3.1 Consensus size: 19
24185930 AATTGAATAT
*
24185940 ATTAATAACCATGCAATTA
1 ATTAATAAACATGCAATTA
*
24185959 ATTAATAATCATGCAA-TA
1 ATTAATAAACATGCAATTA
* *
24185977 ATAAATAAATATGCAATTA
1 ATTAATAAACATGCAATTA
24185996 A
1 A
24185997 ATCATGCCAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
18 15 0.45
19 18 0.55
ACGTcount: A:0.53, C:0.11, G:0.05, T:0.32
Consensus pattern (19 bp):
ATTAATAAACATGCAATTA
Found at i:24186112 original size:17 final size:18
Alignment explanation
Indices: 24186075--24186114 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 18
24186065 AAATATTAAT
*
24186075 TAAA-AAATAAAATAGAA
1 TAAACAAATAAAATAAAA
24186092 -AAACAAAT-AAATAAAA
1 TAAACAAATAAAATAAAA
24186108 TAAACAA
1 TAAACAA
24186115 GAAAAGAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.78, C:0.05, G:0.03, T:0.15
Consensus pattern (18 bp):
TAAACAAATAAAATAAAA
Found at i:24187186 original size:31 final size:33
Alignment explanation
Indices: 24187148--24187232 Score: 88
Period size: 31 Copynumber: 2.7 Consensus size: 33
24187138 TGGAGATGAA
24187148 CGGACTAAGC-AAGATTGAAAAA-GAAAGTGAT
1 CGGACTAAGCAAAGATTGAAAAATGAAAGTGAT
* *
24187179 CGGACTAAGCTAAAG--TAAAAAATGAAGGTGAT
1 CGGACTAAGC-AAAGATTGAAAAATGAAAGTGAT
** *
24187211 AAGACTAAGCAAAGATCGAAAA
1 CGGACTAAGCAAAGATTGAAAA
24187233 TGACTTAATT
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
31 20 0.47
32 16 0.37
33 7 0.16
ACGTcount: A:0.51, C:0.11, G:0.24, T:0.15
Consensus pattern (33 bp):
CGGACTAAGCAAAGATTGAAAAATGAAAGTGAT
Found at i:24187233 original size:32 final size:32
Alignment explanation
Indices: 24187150--24187235 Score: 86
Period size: 32 Copynumber: 2.7 Consensus size: 32
24187140 GAGATGAACG
* * **
24187150 GACTAAGC-AAGATTGAAAAAGAAAGTGATCG
1 GACTAAGCAAAGATAGAAAATGAAAGTGATAA
* *
24187181 GACTAAGCTAAAG-TAAAAAATGAAGGTGATAA
1 GACTAAGC-AAAGATAGAAAATGAAAGTGATAA
*
24187213 GACTAAGCAAAGATCGAAAATGA
1 GACTAAGCAAAGATAGAAAATGA
24187236 CTTAATTTGA
Statistics
Matches: 44, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
31 12 0.27
32 29 0.66
33 3 0.07
ACGTcount: A:0.51, C:0.09, G:0.23, T:0.16
Consensus pattern (32 bp):
GACTAAGCAAAGATAGAAAATGAAAGTGATAA
Found at i:24190364 original size:20 final size:20
Alignment explanation
Indices: 24190327--24190367 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
24190317 GTTTGAGACT
*
24190327 ATTAAAACTTAAACTTCATC
1 ATTAAAACTTAAAATTCATC
24190347 ATTAAAAC-TAAGAATTCATC
1 ATTAAAACTTAA-AATTCATC
24190367 A
1 A
24190368 CTTTAACAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 3 0.16
20 16 0.84
ACGTcount: A:0.49, C:0.17, G:0.02, T:0.32
Consensus pattern (20 bp):
ATTAAAACTTAAAATTCATC
Found at i:24190476 original size:2 final size:2
Alignment explanation
Indices: 24190471--24190498 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
24190461 AAATGTGAGA
24190471 GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT
24190499 CCCCTTGAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
GT
Found at i:24190538 original size:54 final size:54
Alignment explanation
Indices: 24190480--24190640 Score: 187
Period size: 60 Copynumber: 2.9 Consensus size: 54
24190470 AGTGTGTGTG
*
24190480 TGTGTGTGTGTGTGTGTGTCCCCTTGAATTCAAACTTAAGACTTAGTGTATATA
1 TGTGTGTGTGTGTGTGTGTCTCCTTGAATTCAAACTTAAGACTTAGTGTATATA
* **
24190534 TGTGTTTATGTTTGTGTGTTTGTGTCTCCTTGAATTCAAACTTAAGACCCAGTGTATATA
1 TGTG----TG--TGTGTGTGTGTGTCTCCTTGAATTCAAACTTAAGACTTAGTGTATATA
* * * * *
24190594 TGTGTGTGTATGTGTGTATGTCCTTGAGTTCAGACTTAAGACTTAGT
1 TGTGTGTGTGTGTGTGTGTCTCCTTGAATTCAAACTTAAGACTTAGT
24190641 AGAATGCTAT
Statistics
Matches: 89, Mismatches: 12, Indels: 12
0.79 0.11 0.11
Matches are distributed among these distances:
54 37 0.42
56 2 0.02
58 2 0.02
60 48 0.54
ACGTcount: A:0.21, C:0.12, G:0.24, T:0.43
Consensus pattern (54 bp):
TGTGTGTGTGTGTGTGTGTCTCCTTGAATTCAAACTTAAGACTTAGTGTATATA
Found at i:24190610 original size:60 final size:60
Alignment explanation
Indices: 24190474--24190610 Score: 197
Period size: 60 Copynumber: 2.3 Consensus size: 60
24190464 TGTGAGAGTG
* **
24190474 TGTGTGTGTGTGTGTGTGTGTGTGTCCCCTTGAATTCAAACTTAAGACTTAGTGTATATA
1 TGTGTGTGTATGTGTGTGTGTGTGTCCCCTTGAATTCAAACTTAAGACCCAGTGTATATA
* *
24190534 TGTGT-T-TATGTTTGTGTGTTTGTGTCTCCTTGAATTCAAACTTAAGACCCAGTGTATATA
1 TGTGTGTGTATG--TGTGTGTGTGTGTCCCCTTGAATTCAAACTTAAGACCCAGTGTATATA
24190594 TGTGTGTGTATGTGTGT
1 TGTGTGTGTATGTGTGT
24190611 ATGTCCTTGA
Statistics
Matches: 68, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
58 3 0.04
59 1 0.01
60 59 0.87
61 1 0.01
62 4 0.06
ACGTcount: A:0.19, C:0.11, G:0.26, T:0.45
Consensus pattern (60 bp):
TGTGTGTGTATGTGTGTGTGTGTGTCCCCTTGAATTCAAACTTAAGACCCAGTGTATATA
Found at i:24194048 original size:2 final size:2
Alignment explanation
Indices: 24194041--24194069 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
24194031 ACTGTTCCAT
24194041 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 T
24194070 TCTAAAGGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:24196181 original size:27 final size:25
Alignment explanation
Indices: 24196122--24196193 Score: 65
Period size: 27 Copynumber: 2.8 Consensus size: 25
24196112 TTGTGTCTGA
*
24196122 TGATGTGTGTGTGCATG-TTAAATGG
1 TGATG-GTGTGTGCTTGTTTAAATGG
*
24196147 TTAGTGGTGTGTGCTTGTCTTAAATAGG
1 TGA-TGGTGTGTGCTTGT-TTAAAT-GG
**
24196175 TGATGGTGCATGCTTGTTT
1 TGATGGTGTGTGCTTGTTT
24196194 TTAATGATGC
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
25 12 0.32
26 4 0.11
27 18 0.47
28 4 0.11
ACGTcount: A:0.17, C:0.07, G:0.33, T:0.43
Consensus pattern (25 bp):
TGATGGTGTGTGCTTGTTTAAATGG
Found at i:24201889 original size:17 final size:18
Alignment explanation
Indices: 24201867--24201906 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
24201857 TTAAGTTTCT
*
24201867 ATTTTCTTGGAAGTG-CC
1 ATTTTCTTGGAAGAGTCC
*
24201884 ATTTTCTTGTAAGAGTCC
1 ATTTTCTTGGAAGAGTCC
24201902 ATTTT
1 ATTTT
24201907 GGATTTAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.20, C:0.15, G:0.17, T:0.47
Consensus pattern (18 bp):
ATTTTCTTGGAAGAGTCC
Found at i:24202697 original size:21 final size:19
Alignment explanation
Indices: 24202654--24202702 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 19
24202644 AATTATTTTA
24202654 AAAAT-AAATTAAAAAACT
1 AAAATAAAATTAAAAAACT
*
24202672 AAAATAAAATTACAAAAATT
1 AAAATAAAATTA-AAAAACT
24202692 ATAAATAAAAT
1 A-AAATAAAAT
24202703 ATATTAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 5 0.19
19 6 0.22
20 7 0.26
21 9 0.33
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.24
Consensus pattern (19 bp):
AAAATAAAATTAAAAAACT
Found at i:24203561 original size:157 final size:156
Alignment explanation
Indices: 24203273--24203656 Score: 459
Period size: 157 Copynumber: 2.4 Consensus size: 156
24203263 AGTTGCCTTG
* * * * * * ** *
24203273 CTTTATTAAATTAGATAATGTCTTGTATGTATCAAGATACAATGACTTTGTGAAAGGTAAAGTTG
1 CTTTATT-AATTAGATAGTGTATTGTGTGTATTAAGATGCAATGACTTTGTGAATGGTAAAACTA
* * *
24203338 TTACGTATTTTACTTTATGATTATTGTTGTGTATTGTGCTTGTTGATGAACTACTTTTATAATAA
65 TTGCGTATTTTACTTTATGATTATTGTTGTGTATTGTACTTGTTGATAAACTACTTTTATAATAA
24203403 TTCAAAGCAT-AATATTTGATA-GAAATT
130 TTCAAAGCATAAAT-TTTG-TAGGAAATT
*
24203430 TTTTATTGAATTAGATAGTGTATTGTGTGTATTAAGATGCAATGACTTTGTGAATGGTAAAACTA
1 CTTTATT-AATTAGATAGTGTATTGTGTGTATTAAGATGCAATGACTTTGTGAATGGTAAAACTA
* ** * * *
24203495 TTGTGTATTTTGTTTTATGATTCTTGTTTTGTATTGTACTTGTTGATAAACTACTTTTATAGTAA
65 TTGCGTATTTTACTTTATGATTATTGTTGTGTATTGTACTTGTTGATAAACTACTTTTATAATAA
*
24203560 TTCAAAGCCTAAATTTTGTAGGAAATT
130 TTCAAAGCATAAATTTTGTAGGAAATT
* * * * *
24203587 CTTTATTAGAGTAGATAGTGTTTTATGCGTATTGAA-ATGTAATGACTTTGTGAATGGTGAAAAC
1 CTTTATTA-ATTAGATAGTGTATTGTGTGTATT-AAGATGCAATGACTTTGTGAATGGT-AAAAC
24203651 TATTGC
63 TATTGC
24203657 ATACTTAATC
Statistics
Matches: 194, Mismatches: 28, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
156 3 0.02
157 176 0.91
158 15 0.08
ACGTcount: A:0.30, C:0.07, G:0.18, T:0.45
Consensus pattern (156 bp):
CTTTATTAATTAGATAGTGTATTGTGTGTATTAAGATGCAATGACTTTGTGAATGGTAAAACTAT
TGCGTATTTTACTTTATGATTATTGTTGTGTATTGTACTTGTTGATAAACTACTTTTATAATAAT
TCAAAGCATAAATTTTGTAGGAAATT
Found at i:24204337 original size:19 final size:20
Alignment explanation
Indices: 24204296--24204338 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
24204286 TTAGAATTTC
* **
24204296 TATGAATTTGAACTTTATGA
1 TATGAATTTGAACTTCACAA
24204316 TATGAATTT-AACTTCACAA
1 TATGAATTTGAACTTCACAA
24204335 TATG
1 TATG
24204339 TGCATTTGAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.37, C:0.09, G:0.12, T:0.42
Consensus pattern (20 bp):
TATGAATTTGAACTTCACAA
Found at i:24208101 original size:18 final size:20
Alignment explanation
Indices: 24208076--24208129 Score: 67
Period size: 18 Copynumber: 2.7 Consensus size: 20
24208066 TATAATTAAC
*
24208076 TGAATAATCAATTAT-TATA
1 TGAATAATCAATTATATAAA
24208095 T-AATAATCAAGTTATAATAAA
1 TGAATAATCAA-TTAT-ATAAA
24208116 TGAATAATCAATTA
1 TGAATAATCAATTA
24208130 AAAAATAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
18 9 0.30
19 5 0.17
21 7 0.23
22 9 0.30
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.37
Consensus pattern (20 bp):
TGAATAATCAATTATATAAA
Found at i:24208121 original size:22 final size:21
Alignment explanation
Indices: 24208066--24208129 Score: 71
Period size: 22 Copynumber: 3.1 Consensus size: 21
24208056 ATTAAATTCA
*
24208066 TATAATTAACTGAATAATCAAT
1 TATAA-TAAATGAATAATCAAT
*
24208088 TAT--TATAT-AATAATCAAGT
1 TATAATAAATGAATAATCAA-T
24208107 TATAATAAATGAATAATCAAT
1 TATAATAAATGAATAATCAAT
24208128 TA
1 TA
24208130 AAAAATAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
18 9 0.26
19 7 0.20
21 7 0.20
22 12 0.34
ACGTcount: A:0.52, C:0.06, G:0.05, T:0.38
Consensus pattern (21 bp):
TATAATAAATGAATAATCAAT
Found at i:24208707 original size:2 final size:2
Alignment explanation
Indices: 24208700--24208744 Score: 65
Period size: 2 Copynumber: 22.5 Consensus size: 2
24208690 AGTATGTCTC
*
24208700 AT AT AT AT AT AT AT AT GT AT AT AT AT A- AT CAT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT
24208742 AT A
1 AT A
24208745 AAAGAATGGA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
1 1 0.03
2 36 0.92
3 2 0.05
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:24212521 original size:30 final size:30
Alignment explanation
Indices: 24212487--24212560 Score: 85
Period size: 30 Copynumber: 2.5 Consensus size: 30
24212477 CTTTACATTG
*
24212487 AAATAAGCTTTTAAACTTTAACTTGTATCC
1 AAATAAGCTTTTAAACTTTAACTTGTATAC
* ** * *
24212517 AAATAAGCCTTTATCCTTTAATTTGTATAT
1 AAATAAGCTTTTAAACTTTAACTTGTATAC
*
24212547 AAATAACCTTTTAA
1 AAATAAGCTTTTAA
24212561 CATAAATCAA
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.38, C:0.15, G:0.05, T:0.42
Consensus pattern (30 bp):
AAATAAGCTTTTAAACTTTAACTTGTATAC
Found at i:24215360 original size:689 final size:681
Alignment explanation
Indices: 24213451--24215497 Score: 1651
Period size: 695 Copynumber: 3.0 Consensus size: 681
24213441 CTTCGTTAGC
* * * *
24213451 ATATATATATATATATATCATCTATATATAAAAGCGTAAATTCCAAAATTGTTAATAGTGATCGA
1 ATATATGTATATATA-ATTATCTATATATAAAAGTGTAAATTCCAAAACTGTTAATAGTGATCGA
* * * *
24213516 CTGAAATACTCCTATAAATTTTTAAATTAACAAATTCATCCTTAAATATATAACTTGTTATTAA-
65 CTTAAATAC-CCTATAAAATTTTAAATTAACAAATTCATTCTTAAATATATAA-TTTTTATTAAT
* * *
24213580 TTATTTAAATTTAATTTAAATCACAA-ATAATTAAAAATAAAATTTATGAGAAATAAAACTATTT
128 TTATTTAAATTTAATTTAAAT-AAAATATAATTAAAAATAAAGTTTATGAGAAATAAAACTACTT
* *
24213644 AAAATTTTAATTTTAAGTGTGAACAGTAATTGACTAAAATATCTTTAGT-AATTTTTTTTATAAA
192 AAAATTTTAATTTTAAGTATTAACAGTAATTGACTAAAATATCTTTAGTAAATTTTTTTTATAAA
*
24213708 TTTTAATTTAAATGAA-TTTTTATTATTAGAC-TTTTTTT-ATAATTAAACTAAAAAAGTACTAA
257 TTTTAATTTAAATGAATTTTTTAATATTAGACTTTTTTTTAATAATT-AACTAAAAAAGTACTAA
*
24213770 AAGTGATTGACTAAATC-CTTAATAAAACTTTAATTTAAAAAATATTTAAAGTGATTGATTAAAA
321 AAGTGATTGACTAAA-CACTTAATAAAATTTTAATTT--AAAATA-TTAAAGTGATT-ATTAAAA
* *
24213834 TACCATTAGTAA-TTTTTTATAAATTTTAATTTAAATGATTTTATTTTTATTATTAAACTCTTTT
381 TATCATTAGTAATTTTTTTATAAACTTTAATTTAAATGATTTTA-TTTTATTATTAAACTCTTTT
* * * * *
24213898 CATAAGTAAAATAATTTTTCACATCATATAAAAATACAAATAGAATAATATAAAAGCTTAATGTG
445 CATAAGTAAAATGA-TTTTAATATCA-ATGAAAATACAAATAGAATTATATAAAAGCTTAATGTG
* * *
24213963 CATAGTAATAAAACAATTTTATGAAATTTGTTTCTTTAGTTGTTGTAAAAATAATTATATATACA
508 CATAGCAATAAAACAA-TTTATGAAGTTTGTTTCTTTAGTTGTTGTAAAAATAATTATATATGCA
* * *
24214028 ATTTATGTTGATAAATAAATTTATT-AAAA-AATCATAATTAAGTCATTTAAGCATATTTGTTTT
572 ATTTATGTTAATAAATAAATTTATTAAAAATAATCATAATTAAGTCATTTAAGTATATTTTTTTT
* * *
24214091 TTTCTCTATTTTTTGCCTTTCAATTTTTTTCTTTTAATATATTAACTAT
637 TTTTTTTATTTTTTACCTTTCAA-TTTTTT-TTTTAATATATTAAC--T
* * * *
24214140 ATATATGTAATAATCATCTATCTATCTCTATATATAAACGTGTGAATTCTAAAACTGTTAATAGT
1 ATATATGT-AT-AT-AT-AAT-TA--TCTATATATAAAAGTGTAAATTCCAAAACTGTTAATAGT
* * * * *
24214205 GATCAACCTAAGTATCCCTATAAAATTTTAAATTAACAAATTCA-TCTTTAAATTTATAACTTTT
59 GATCGACTTAAATA-CCCTATAAAATTTTAAATTAACAAATTCATTC-TTAAATATATAATTTTT
* *
24214269 ATTAATTTATTTAAATTTAATTTAAATCAAATATGATTAAAAATAAAGTTTATGAGAAATAAAAC
122 ATTAATTTATTTAAATTTAATTTAAATAAAATATAATTAAAAATAAAGTTTATGAGAAATAAAAC
* * ** * * *
24214334 TACTTAAAA-TTTAATTTTAAGCATTAATAGGTTTTTTA-TAAATTTTAAT-TTTAATTATTAGA
187 TACTTAAAATTTTAATTTTAAGTATTAACA-GTAATTGACTAAA--AT-ATCTTT-AGTA--A-A
* ** * ** ** *****
24214396 TTTTTTTAAT-AA--TTAAACTAAA-AAAGTACTAAAAGTGATT-GACTAAACGTTAATAAAATT
244 TTTTTTTTATAAATTTTAATTTAAATGAA-TTTTTTAA-T-ATTAGACTTTTTTTTAAT--AA--
* * * * * *
24214456 TTAATTTCAAAAA-TATTAAAAGTGATTGATTAAAATAC-TATTAGAAATTTT--TTTATAAAT-
302 TTAA-CTAAAAAAGTACTAAAAGTGATTGACT-AAACACTTAATA-AAATTTTAATTTA-AAATA
24214516 TT----T-ACTT-TT-AAATGAT--TT--T-ATTTTATTTATTAAACTCTT--TTTCAAA--A--
363 TTAAAGTGA-TTATTAAAAT-ATCATTAGTAATTTT-TTTA-TAAACT-TTAATTT-AAATGATT
* * * *
24214563 GTA----A--AAT-AA-T-TTTT--TACA-TAAAATGA---AAATA-CAAATAGAACAATATAAA
422 TTATTTTATTATTAAACTCTTTTCATA-AGTAAAATGATTTTAATATC-AAT-GAA-AATACAAA
* * * * * ** * ***
24214612 -A-ACTTAATATGCATA--TTAA--T--AAAGCAATTATATGAAGTT-TGTTTCTTTAGTTGT-T
483 TAGAATT-ATAT-AAAAGCTTAATGTGCATAGCAA-TAAAACAATTTATG-AAGTTT-GTT-TCT
* **** * *** * * ** * * **
24214667 GTAAAAACAATTGTATATGCAACTTATGT-TGATAAATAAAT-TT-ATTAA-AAA-TAATTGTAA
542 -T--TAGTTGTTGTAAAAATAA-TTATATATG--CAATTTATGTTAATAAATAAATTTATTAAAA
* * * * * *
24214727 TTAAGTCAT--TTAAG-CATATT-TGTTTGTTTTTTTTTTTTTTTT------GCCTTTCAATTTT
601 ATAA-TCATAATTAAGTCAT-TTAAGTATATTTTTTTTTTTTTTTATTTTTTACCTTTCAATTTT
24214782 TTGTTTTAATATATTAACT
664 TT-TTTTAATATATTAACT
* * *
24214801 ATATATGTAT-TATAATTATCTATATATACAAA-TGTAAACTCCAAAACTATTAATAGTGATTGA
1 ATATATGTATATATAATTATCTATATATA-AAAGTGTAAATTCCAAAACTGTTAATAGTGATCGA
*
24214864 TTTAAATACCAC-ATAAAATTTTAAATTAACAAATTCATTCTTAAATATATAATTTTTATTAATT
65 CTTAAATACC-CTATAAAATTTTAAATTAACAAATTCATTCTTAAATATATAATTTTTATTAATT
* * *
24214928 TATTTAAATTTAATTTAAATAAAATATAATT-AAAA-AAAGTTTTTTAGAAATAAAACTACATAA
129 TATTTAAATTTAATTTAAATAAAATATAATTAAAAATAAAGTTTATGAGAAATAAAACTACTTAA
24214991 AATTTTAATTTTAAGTATTAACAGTAATTGACTAAAATATCTTTAGTAAATTTTTTTTATAAATT
194 AATTTTAATTTTAAGTATTAACAGTAATTGACTAAAATATCTTTAGTAAATTTTTTTTATAAATT
24215056 TTAATTTAAATGAATTTTTTAATATTAGACTTTTTTTTTAATAATTAGACTAAAAAAGTACTAAA
259 TTAATTTAAATGAATTTTTTAATATTAGAC-TTTTTTTTAATAATTA-ACTAAAAAAGTACTAAA
24215121 AGTGATTGACTAAACACTTAATAAAATTTTAATTTCGAAAATATTAGAAGTGATTATTAAAATAT
322 AGTGATTGACTAAACACTTAATAAAATTTTAATTT--AAAATATTA-AAGTGATTATTAAAATAT
24215186 CATTAGTAATTTTTTTATAAACTTTAATTTAAATGATTTTATTTTATTATTAAACTCTATTTCAT
384 CATTAGTAATTTTTTTATAAACTTTAATTTAAATGATTTTATTTTATTATTAAACTCT-TTTCAT
24215251 AAGTAAAATGATTTTAATATCGAATGAAAATACAAATAGAATTATATAAAAGCTTAATGTGCATA
448 AAGTAAAATGATTTTAATATC-AATGAAAATACAAATAGAATTATATAAAAGCTTAATGTGCATA
*
24215316 GGAATAAAACAATTATATGAAGTTTGTTTCTTTAGTTGTTGTAAAAATAATTATATATGCAATTT
512 GCAATAAAACAATT-TATGAAGTTTGTTTCTTTAGTTGTTGTAAAAATAATTATATATGCAATTT
24215381 ATGTTAATAAATAAATTTATTAAAAATAATCATAATTAAGTCATTTAAGTATATATATATATTTT
576 ATGTTAATAAATAAATTTATTAAAAATAATCATAATTAAGTCATTTAAGTATAT-T-T-T-TTTT
* * *
24215446 TTTCTCTGTTTTTTACCTTTCAATTTTTTGTTTTAATATATTAACT
637 TTTTTTTATTTTTTACCTTTCAATTTTTT-TTTTAATATATTAACT
24215492 ATATAT
1 ATATAT
24215498 ATTTATATGT
Statistics
Matches: 1022, Mismatches: 188, Indels: 294
0.68 0.12 0.20
Matches are distributed among these distances:
644 21 0.02
645 31 0.03
646 11 0.01
647 8 0.01
648 26 0.03
649 6 0.01
650 32 0.03
651 26 0.03
652 78 0.08
653 46 0.05
654 7 0.01
655 6 0.01
656 6 0.01
657 11 0.01
658 9 0.01
659 6 0.01
660 2 0.00
661 11 0.01
663 21 0.02
664 9 0.01
665 1 0.00
667 4 0.00
668 12 0.01
669 10 0.01
670 25 0.02
671 15 0.01
672 26 0.03
673 31 0.03
674 14 0.01
675 14 0.01
676 19 0.02
677 35 0.03
678 8 0.01
679 16 0.02
680 18 0.02
681 18 0.02
682 5 0.00
683 1 0.00
684 2 0.00
685 9 0.01
689 9 0.01
690 3 0.00
691 44 0.04
692 11 0.01
693 11 0.01
694 37 0.04
695 150 0.15
696 6 0.01
697 9 0.01
698 8 0.01
699 2 0.00
700 7 0.01
701 17 0.02
702 3 0.00
703 4 0.00
704 5 0.00
705 22 0.02
706 18 0.02
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.44
Consensus pattern (681 bp):
ATATATGTATATATAATTATCTATATATAAAAGTGTAAATTCCAAAACTGTTAATAGTGATCGAC
TTAAATACCCTATAAAATTTTAAATTAACAAATTCATTCTTAAATATATAATTTTTATTAATTTA
TTTAAATTTAATTTAAATAAAATATAATTAAAAATAAAGTTTATGAGAAATAAAACTACTTAAAA
TTTTAATTTTAAGTATTAACAGTAATTGACTAAAATATCTTTAGTAAATTTTTTTTATAAATTTT
AATTTAAATGAATTTTTTAATATTAGACTTTTTTTTAATAATTAACTAAAAAAGTACTAAAAGTG
ATTGACTAAACACTTAATAAAATTTTAATTTAAAATATTAAAGTGATTATTAAAATATCATTAGT
AATTTTTTTATAAACTTTAATTTAAATGATTTTATTTTATTATTAAACTCTTTTCATAAGTAAAA
TGATTTTAATATCAATGAAAATACAAATAGAATTATATAAAAGCTTAATGTGCATAGCAATAAAA
CAATTTATGAAGTTTGTTTCTTTAGTTGTTGTAAAAATAATTATATATGCAATTTATGTTAATAA
ATAAATTTATTAAAAATAATCATAATTAAGTCATTTAAGTATATTTTTTTTTTTTTTTATTTTTT
ACCTTTCAATTTTTTTTTTAATATATTAACT
Found at i:24216336 original size:14 final size:15
Alignment explanation
Indices: 24216305--24216333 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
24216295 TTTTTATATT
24216305 TTTATATAATAAAAA
1 TTTATATAATAAAAA
24216320 TTTATATAATAAAA
1 TTTATATAATAAAA
24216334 TTTTTTTAAA
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:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TTTATATAATAAAAA
Found at i:24216341 original size:18 final size:18
Alignment explanation
Indices: 24216303--24216353 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 18
24216293 TATTTTTATA
24216303 TTTTTATATAATAAAA--
1 TTTTTATATAATAAAATT
*
24216319 -ATTTATATAATAAAATT
1 TTTTTATATAATAAAATT
* *
24216336 TTTTTAAATAAAAAAATT
1 TTTTTATATAATAAAATT
24216354 AAATTTTCAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
15 14 0.50
18 14 0.50
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TTTTTATATAATAAAATT
Found at i:24217963 original size:68 final size:68
Alignment explanation
Indices: 24217851--24217987 Score: 256
Period size: 68 Copynumber: 2.0 Consensus size: 68
24217841 GGTATAAAAA
* *
24217851 TATAAAAAAAAGTCATTGTGAATGATGGTAACAGCAATAGAACAATAATTAAAAATATACTATCT
1 TATAAAAAAAAGTCATTGTGAATGATGGTAACAACAATAAAACAATAATTAAAAATATACTATCT
24217916 TTT
66 TTT
24217919 TATAAAAAAAAGTCATTGTGAATGATGGTAACAACAATAAAACAATAATTAAAAATATACTATCT
1 TATAAAAAAAAGTCATTGTGAATGATGGTAACAACAATAAAACAATAATTAAAAATATACTATCT
24217984 TTT
66 TTT
24217987 T
1 T
24217988 GTTTAGTAAA
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 67 1.00
ACGTcount: A:0.50, C:0.09, G:0.10, T:0.31
Consensus pattern (68 bp):
TATAAAAAAAAGTCATTGTGAATGATGGTAACAACAATAAAACAATAATTAAAAATATACTATCT
TTT
Found at i:24218669 original size:11 final size:11
Alignment explanation
Indices: 24218653--24218687 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
24218643 TGGTAATTAC
24218653 TAATAACTTAA
1 TAATAACTTAA
*
24218664 TAATAAATTAA
1 TAATAACTTAA
24218675 TAATAACTTAA
1 TAATAACTTAA
24218686 TA
1 TA
24218688 GTAAATAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (11 bp):
TAATAACTTAA
Found at i:24218678 original size:22 final size:22
Alignment explanation
Indices: 24218647--24218702 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
24218637 ACTTAGTGGT
*
24218647 AATTACTAATAACTTAATAATA
1 AATTAATAATAACTTAATAATA
*
24218669 AATTAATAATAACTTAATAGTA
1 AATTAATAATAACTTAATAATA
* *
24218691 AATAAATGATAA
1 AATTAATAATAA
24218703 TTTAGTAGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.57, C:0.05, G:0.04, T:0.34
Consensus pattern (22 bp):
AATTAATAATAACTTAATAATA
Found at i:24218711 original size:22 final size:22
Alignment explanation
Indices: 24218653--24218716 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 22
24218643 TGGTAATTAC
* *
24218653 TAATAACTTAATAATAAATTAA
1 TAATAACTTAATAGTAAATAAA
24218675 TAATAACTTAATAGTAAATAAA
1 TAATAACTTAATAGTAAATAAA
* * * *
24218697 TGATAATTTAGTAGTTAATA
1 TAATAACTTAATAGTAAATA
24218717 GTCGATAACC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.53, C:0.03, G:0.06, T:0.38
Consensus pattern (22 bp):
TAATAACTTAATAGTAAATAAA
Found at i:24219125 original size:22 final size:22
Alignment explanation
Indices: 24219107--24219177 Score: 63
Period size: 22 Copynumber: 3.2 Consensus size: 22
24219097 GTGAATCATA
24219107 AATAATTTAGTGATAAATCAAT
1 AATAATTTAGTGATAAATCAAT
* *
24219129 AGTAATTTTGTGATAAAT-AATT
1 AATAATTTAGTGATAAATCAA-T
* * * *
24219151 AAAAATTAAATGGTAAATCAAT
1 AATAATTTAGTGATAAATCAAT
*
24219173 GATAA
1 AATAA
24219178 CATAATAATA
Statistics
Matches: 37, Mismatches: 10, Indels: 4
0.73 0.20 0.08
Matches are distributed among these distances:
21 2 0.05
22 33 0.89
23 2 0.05
ACGTcount: A:0.51, C:0.03, G:0.11, T:0.35
Consensus pattern (22 bp):
AATAATTTAGTGATAAATCAAT
Found at i:24219225 original size:19 final size:21
Alignment explanation
Indices: 24219198--24219243 Score: 60
Period size: 19 Copynumber: 2.2 Consensus size: 21
24219188 AATATATAAA
*
24219198 AATATATTGATAA-TTA-AGT
1 AATAAATTGATAACTTAGAGT
24219217 AATAAATTGATAACTTAGTAGT
1 AATAAATTGATAACTTAG-AGT
24219239 AATAA
1 AATAA
24219244 CTAATAATGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 12 0.52
20 3 0.13
22 8 0.35
ACGTcount: A:0.50, C:0.02, G:0.11, T:0.37
Consensus pattern (21 bp):
AATAAATTGATAACTTAGAGT
Found at i:24219283 original size:22 final size:22
Alignment explanation
Indices: 24219226--24219285 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
24219216 TAATAAATTG
24219226 ATAACTTAGTAGT-AATAACTA
1 ATAACTTAGTAGTAAATAACTA
* *
24219247 ATAA-TGTAATAGTAAATTACTA
1 ATAACT-TAGTAGTAAATAACTA
*
24219269 ATAACTTAGTTGTAAAT
1 ATAACTTAGTAGTAAAT
24219286 CTGTAATAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
20 1 0.03
21 10 0.31
22 20 0.62
23 1 0.03
ACGTcount: A:0.47, C:0.07, G:0.10, T:0.37
Consensus pattern (22 bp):
ATAACTTAGTAGTAAATAACTA
Found at i:24219445 original size:22 final size:22
Alignment explanation
Indices: 24219411--24219467 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
24219401 AATGATTGGT
* *
24219411 AAATCATTT-ATAACTTAACGGC
1 AAATC-TTTCATAAATTAACAGC
*
24219433 AAATCTTTCATAAATTAATAGC
1 AAATCTTTCATAAATTAACAGC
*
24219455 AAATCCTTCATAA
1 AAATCTTTCATAA
24219468 TTTAGTAGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 3 0.10
22 27 0.90
ACGTcount: A:0.44, C:0.18, G:0.05, T:0.33
Consensus pattern (22 bp):
AAATCTTTCATAAATTAACAGC
Found at i:24219509 original size:22 final size:22
Alignment explanation
Indices: 24219464--24219536 Score: 83
Period size: 22 Copynumber: 3.3 Consensus size: 22
24219454 CAAATCCTTC
* * *
24219464 ATAATTTAGTAGTATATTATTG
1 ATAACTTAGTAGTAAATAATTG
*
24219486 ATAACTTAGTAGTAAATAACTG
1 ATAACTTAGTAGTAAATAATTG
* * *
24219508 ATAACTTAATTGTCAATAATTG
1 ATAACTTAGTAGTAAATAATTG
24219530 ATAACTT
1 ATAACTT
24219537 TTATTATACT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.41, C:0.07, G:0.11, T:0.41
Consensus pattern (22 bp):
ATAACTTAGTAGTAAATAATTG
Found at i:24219865 original size:32 final size:33
Alignment explanation
Indices: 24219786--24219865 Score: 94
Period size: 33 Copynumber: 2.5 Consensus size: 33
24219776 ATCAATAATC
24219786 ATAAAAAATATATC-ATAAGTTATCAAAATATT
1 ATAAAAAATATATCAATAAGTTATCAAAATATT
* * * *
24219818 ATTAAAATTATATCAATAGGTTA-CAAAAATTTT
1 ATAAAAAATATATCAATAAGTTATC-AAAATATT
24219851 ATAAAAAAT-TATCAA
1 ATAAAAAATATATCAA
24219866 AATTATATCA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
32 19 0.47
33 21 0.52
ACGTcount: A:0.55, C:0.06, G:0.04, T:0.35
Consensus pattern (33 bp):
ATAAAAAATATATCAATAAGTTATCAAAATATT
Found at i:24219913 original size:21 final size:21
Alignment explanation
Indices: 24219821--24219914 Score: 64
Period size: 21 Copynumber: 4.4 Consensus size: 21
24219811 AAATATTATT
** *
24219821 AAAATTATATCAATAGGTTACA
1 AAAATTATATC-ATAAATTACC
* * * *
24219843 AAAATTTTATAAAAAATTATC
1 AAAATTATATCATAAATTACC
* * *
24219864 AAAATTATATCA-ATGACTACT
1 AAAATTATATCATA-AATTACC
*
24219885 AAACTTATATCATAAATTACC
1 AAAATTATATCATAAATTACC
24219906 AAAATTATA
1 AAAATTATA
24219915 CAAAAGGTTA
Statistics
Matches: 52, Mismatches: 18, Indels: 5
0.69 0.24 0.07
Matches are distributed among these distances:
20 1 0.02
21 41 0.79
22 10 0.19
ACGTcount: A:0.52, C:0.11, G:0.03, T:0.34
Consensus pattern (21 bp):
AAAATTATATCATAAATTACC
Found at i:24221527 original size:36 final size:35
Alignment explanation
Indices: 24221476--24221543 Score: 100
Period size: 36 Copynumber: 1.9 Consensus size: 35
24221466 ATATGTGAAG
* *
24221476 TCAGTTGTAGGTTTATGCCTAGTAAAACATTTGCTA
1 TCAGTTGTAGATTTATGCCCAG-AAAACATTTGCTA
*
24221512 TCAGTTGTATATTTATGCCCAGAAAACATTTG
1 TCAGTTGTAGATTTATGCCCAGAAAACATTTG
24221544 GTTTATATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
35 10 0.34
36 19 0.66
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (35 bp):
TCAGTTGTAGATTTATGCCCAGAAAACATTTGCTA
Found at i:24226621 original size:97 final size:97
Alignment explanation
Indices: 24226498--24226695 Score: 371
Period size: 97 Copynumber: 2.1 Consensus size: 97
24226488 TCAATAATAG
24226498 TGTT-ATAATTTGTGTGGCGATATATAGAAAGATTTTATAGTAAAAGACACCTTTAATAATTCTC
1 TGTTAATAATTTGTGTGGCGATATATAGAAAGATTTTATAGTAAAAGACACCTTTAATAATTCTC
24226562 AAAATATTTAGAGAAAAATTTTTGAAGGCGTT
66 AAAATATTTAGAGAAAAATTTTTGAAGGCGTT
*
24226594 TGTTAATAATTTGTGTGGCGGTATATAGAAAGATTTTATAGTAAAAGACACCTTTAATAATTCTC
1 TGTTAATAATTTGTGTGGCGATATATAGAAAGATTTTATAGTAAAAGACACCTTTAATAATTCTC
*
24226659 AAAATATTTAGAGAAAAATTTTTGAAGGTGTT
66 AAAATATTTAGAGAAAAATTTTTGAAGGCGTT
24226691 TGTTA
1 TGTTA
24226696 TTAACAAACG
Statistics
Matches: 99, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
96 4 0.04
97 95 0.96
ACGTcount: A:0.38, C:0.07, G:0.17, T:0.38
Consensus pattern (97 bp):
TGTTAATAATTTGTGTGGCGATATATAGAAAGATTTTATAGTAAAAGACACCTTTAATAATTCTC
AAAATATTTAGAGAAAAATTTTTGAAGGCGTT
Found at i:24235801 original size:10 final size:10
Alignment explanation
Indices: 24235775--24235824 Score: 57
Period size: 10 Copynumber: 4.9 Consensus size: 10
24235765 GTTGGTTTTC
24235775 AAAAAAA-AA
1 AAAAAAAGAA
24235784 AAAAAAAGAA
1 AAAAAAAGAA
24235794 AAAAAAAGAA
1 AAAAAAAGAA
* *
24235804 ACAGAAAGAA
1 AAAAAAAGAA
24235814 AGAAAGAAAGA
1 A-AAA-AAAGA
24235825 TGGTTCCCAT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
9 7 0.21
10 21 0.62
11 1 0.03
12 5 0.15
ACGTcount: A:0.84, C:0.02, G:0.14, T:0.00
Consensus pattern (10 bp):
AAAAAAAGAA
Found at i:24235819 original size:18 final size:16
Alignment explanation
Indices: 24235776--24235822 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 16
24235766 TTGGTTTTCA
* *
24235776 AAAAAAAAAAAAAAAG
1 AAAAAAAAAGAAACAG
24235792 AAAAAAAAAGAAACAG
1 AAAAAAAAAGAAACAG
24235808 AAAGAAAGAAAGAAA
1 AAA-AAA-AAAGAAA
24235823 GATGGTTCCC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
16 17 0.63
17 3 0.11
18 7 0.26
ACGTcount: A:0.85, C:0.02, G:0.13, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAGAAACAG
Found at i:24241845 original size:12 final size:12
Alignment explanation
Indices: 24241828--24241860 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
24241818 CTAGCTTAAC
24241828 TAAAGAAAACTA
1 TAAAGAAAACTA
*
24241840 TAAAG-AAACTT
1 TAAAGAAAACTA
24241851 TAAAGAAAAC
1 TAAAGAAAAC
24241861 CAAAACTAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.64, C:0.09, G:0.09, T:0.18
Consensus pattern (12 bp):
TAAAGAAAACTA
Found at i:24243426 original size:11 final size:11
Alignment explanation
Indices: 24243410--24243510 Score: 55
Period size: 11 Copynumber: 9.2 Consensus size: 11
24243400 TAAGCTATGT
24243410 TATTAATTTAC
1 TATTAATTTAC
24243421 TATTAAGTTATA-
1 TATTAA-TT-TAC
* * *
24243433 AATGACTTTA-
1 TATTAATTTAC
*
24243443 TATTAAGTTATC
1 TATTAATTTA-C
*
24243455 AATT-ATTTAC
1 TATTAATTTAC
* *
24243465 TATTAAATTAT
1 TATTAATTTAC
*
24243476 TATTGATTTAC
1 TATTAATTTAC
* *
24243487 TATTAAGTTAT
1 TATTAATTTAC
*
24243498 TACTAATTTAC
1 TATTAATTTAC
24243509 TA
1 TA
24243511 CTAAGTTATT
Statistics
Matches: 64, Mismatches: 21, Indels: 10
0.67 0.22 0.11
Matches are distributed among these distances:
10 12 0.19
11 42 0.66
12 8 0.12
13 2 0.03
ACGTcount: A:0.38, C:0.07, G:0.05, T:0.50
Consensus pattern (11 bp):
TATTAATTTAC
Found at i:24243520 original size:22 final size:22
Alignment explanation
Indices: 24243413--24243529 Score: 128
Period size: 22 Copynumber: 5.3 Consensus size: 22
24243403 GCTATGTTAT
*
24243413 TAATTTACTATTAAGTTATAAA
1 TAATTTACTATTAAGTTATTAA
* *
24243435 TGACTTTA-TATTAAGTTATCAA
1 T-AATTTACTATTAAGTTATTAA
* * *
24243457 TTATTTACTATTAAATTATTAT
1 TAATTTACTATTAAGTTATTAA
* *
24243479 TGATTTACTATTAAGTTATTAC
1 TAATTTACTATTAAGTTATTAA
* *
24243501 TAATTTACTACTAAGTTATTGA
1 TAATTTACTATTAAGTTATTAA
24243523 TAATTTA
1 TAATTTA
24243530 TTCCAAAGTT
Statistics
Matches: 79, Mismatches: 14, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
21 4 0.05
22 70 0.89
23 5 0.06
ACGTcount: A:0.38, C:0.07, G:0.06, T:0.50
Consensus pattern (22 bp):
TAATTTACTATTAAGTTATTAA
Found at i:24243538 original size:22 final size:22
Alignment explanation
Indices: 24243459--24243541 Score: 62
Period size: 22 Copynumber: 3.8 Consensus size: 22
24243449 GTTATCAATT
* * *
24243459 ATTTACTATTAAA-TTATTATTG
1 ATTTACTA-CAAAGTTATTACTA
**
24243481 ATTTACTATTAAGTTATTACTA
1 ATTTACTACAAAGTTATTACTA
*
24243503 ATTTACTACTAAGTTATTGA-TA
1 ATTTACTACAAAGTTATT-ACTA
* *
24243525 ATTTATTCCAAAGTTAT
1 ATTTACTACAAAGTTAT
24243542 CAATGATTTA
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
21 3 0.06
22 48 0.92
23 1 0.02
ACGTcount: A:0.36, C:0.08, G:0.06, T:0.49
Consensus pattern (22 bp):
ATTTACTACAAAGTTATTACTA
Found at i:24243550 original size:22 final size:22
Alignment explanation
Indices: 24243525--24243576 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
24243515 GTTATTGATA
24243525 ATTTATT-CCAAAGTTATCAATG
1 ATTTATTGCCAAA-TTATCAATG
* *
24243547 ATTTATTGCTAAATTATCATTG
1 ATTTATTGCCAAATTATCAATG
24243569 ATTTATTG
1 ATTTATTG
24243577 TCATCACTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
22 23 0.85
23 4 0.15
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.48
Consensus pattern (22 bp):
ATTTATTGCCAAATTATCAATG
Found at i:24243655 original size:22 final size:22
Alignment explanation
Indices: 24243614--24243656 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
24243604 ACTTATCTAG
* *
24243614 CACTAAGTTATCGATAATTTAA
1 CACTAAGTTAACAATAATTTAA
*
24243636 CACTAAGTTAACAATGATTTA
1 CACTAAGTTAACAATAATTTA
24243657 TTACTATCAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.35
Consensus pattern (22 bp):
CACTAAGTTAACAATAATTTAA
Found at i:24244465 original size:22 final size:22
Alignment explanation
Indices: 24244440--24244593 Score: 110
Period size: 22 Copynumber: 6.9 Consensus size: 22
24244430 CTAATTGATA
* *
24244440 ACTACATTATCACTGATTTATT
1 ACTAAATTATCAATGATTTATT
** * * *
24244462 ACTATGTTATCAGTGACTTACT
1 ACTAAATTATCAATGATTTATT
** *
24244484 ACTAAGCTATCAATGATTTTTT
1 ACTAAATTATCAATGATTTATT
**
24244506 ACTAAATTATCAATGATTTGCT
1 ACTAAATTATCAATGATTTATT
* *
24244528 ATTAAATTATCATTGATTTATT
1 ACTAAATTATCAATGATTTATT
** * *
24244550 ACTATGTTATAAATTATATTTATT
1 ACTAAATTATCAA-T-GATTTATT
* *
24244574 ACTATATTATAAATGATTTA
1 ACTAAATTATCAATGATTTA
24244594 CCACTAAGTT
Statistics
Matches: 103, Mismatches: 27, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
22 82 0.80
23 2 0.02
24 19 0.18
ACGTcount: A:0.35, C:0.11, G:0.07, T:0.47
Consensus pattern (22 bp):
ACTAAATTATCAATGATTTATT
Found at i:24244495 original size:44 final size:44
Alignment explanation
Indices: 24244447--24244559 Score: 127
Period size: 44 Copynumber: 2.6 Consensus size: 44
24244437 ATAACTACAT
* * *
24244447 TATCACTGATTTATTACTATGTTATCAGTGACTTACTACTAAGC
1 TATCAATGATTTATTACTATGTTATCAATGACTTACTACTAAAC
* ** * * * *
24244491 TATCAATGATTTTTTACTAAATTATCAATGATTTGCTATTAAAT
1 TATCAATGATTTATTACTATGTTATCAATGACTTACTACTAAAC
*
24244535 TATCATTGATTTATTACTATGTTAT
1 TATCAATGATTTATTACTATGTTAT
24244560 AAATTATATT
Statistics
Matches: 55, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
44 55 1.00
ACGTcount: A:0.32, C:0.12, G:0.09, T:0.47
Consensus pattern (44 bp):
TATCAATGATTTATTACTATGTTATCAATGACTTACTACTAAAC
Found at i:24248389 original size:14 final size:14
Alignment explanation
Indices: 24248370--24248413 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 14
24248360 ATATATCCAA
*
24248370 TTAAAAATAAAAAT
1 TTAAAAAAAAAAAT
24248384 TTAAAACAAAAAAAT
1 TTAAAA-AAAAAAAT
24248399 TATAAAAAGAAAAAA
1 T-TAAAAA-AAAAAA
24248414 AGACAAAAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
14 6 0.23
15 9 0.35
16 11 0.42
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.20
Consensus pattern (14 bp):
TTAAAAAAAAAAAT
Found at i:24249618 original size:13 final size:14
Alignment explanation
Indices: 24249600--24249629 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
24249590 AAAAGATGAA
24249600 ATATTTT-TAATTT
1 ATATTTTATAATTT
24249613 ATATTTTATAATTT
1 ATATTTTATAATTT
24249627 ATA
1 ATA
24249630 AAATATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
ATATTTTATAATTT
Found at i:24254731 original size:609 final size:588
Alignment explanation
Indices: 24252964--24254736 Score: 2124
Period size: 581 Copynumber: 3.0 Consensus size: 588
24252954 CGTTGATTTT
* * * *
24252964 AGATTGAACTTTATGATGGTGACTCAGACGATCCTCATACTTGCTACTAGTTACTTGTTGTTCTT
1 AGATTGGACTTTATGATGGTGACTCAAACGATCCTCATACTTGTTGCTAGTTACTTGTTGTTCTT
* * *
24253029 AGGGAAACACCCATATATGGTGTTTGCCACGGT-CTTCTTTAAAAATGGGATGAAAATGATATTA
66 AGGGAAACA-CCAT-TATGGTGCTTGCCACAGTCCTTC-TTAAAAATGAGATGAAAATGATATTA
* ** * *
24253093 GCTTTTTAGTTCATGAAAAGAGTGAATAGAAGGGAGCCATTTTACGTGGCCATGCTGATTTACAA
128 GCATTTTAGTTCAAAAAAAAAGTGAATAGAA-GGAGCCATTTTACATGGCCATGCTGATTTACAA
* * * *
24253158 GGGTGAGTTAGAGATGAACCAATGTTCAATAAGGTGAAAAAAGTGTTAGAAGAGTTTGAGAGCGT
192 GGATAAGTTAGAGATGAACCAATGCTCAATAAGGTG-AAAAAGTGTTAGAAGAGTTTGAGAGTGT
* * * * * * *
24253223 GATGCCAGAATAATTACCTAAGGTTCTACCTGTTACAGATGGTAGATCATGAAATTGAACTTCTC
256 GATGTCAGAATAATTGCCTAAGGTTCTACCTCTTAAAGATGGTAGACCATGAGATTGAACTTTTC
* * * * * * *
24253288 AAAAAGTTAAGCCTCTAGCTAAAGGTTCCTATCATATGGCTCCATTAGAGTTGGTTAAATT-AGA
321 TAGAAGTTAAGCCTCTAGCTAAAGGTACCTATCTTATGGCTCCACTAAAGTTGGTCAAATTAAGA
* * * * *
24253352 AAACAATTACATGAACTATTGCAAGTTGGATTCATTAGGTAATCAAAAGCTCCTTTTAC-GGCAC
386 AAACAATTACATGAACTACTACAAGCTAGATTCATTAGGCAATCAAAAGCT-CTTTT-CGGGCAC
*
24253416 TAGTGTTGTTTCAGAGAAAACATGATGGGAGTTTGCACTTGTATATGGATTATAGTGCCTTGAAC
449 TAGTGTTGTTTCAGAGAAAACATGATGGGAGTTTGCACTTGTATGTGGATTATAGTGCCTTGAAC
* * * * *
24253481 AAAGTTACAGTGAAGAAAAAATATCCAATCCCTCTCATCGCTGCCTATTTGATCAATTGAGTTAT
514 AAAGTTATAGTGAAGAACAAATATCCAATTCCTCTCATCGCTACCTATTTGATCAATTGAGTCAT
24253546 GCAAATCTTA
579 GCAAATCTTA
* * * *
24253556 AGATTGGACTTTATGATGGTGACTCAAACAATCCTCATATTTGTGGCTAGTTGCTTGTTGTTCTT
1 AGATTGGACTTTATGATGGTGACTCAAACGATCCTCATACTTGTTGCTAGTTACTTGTTGTTCTT
* * * *
24253621 AGGG--A-A--A--A--GTGCTTACCACAGTCCTCCCTAAAAATGTGATGAAAATGATATTAGCA
66 AGGGAAACACCATTATGGTGCTTGCCACAGTCCTTCTTAAAAATGAGATGAAAATGATATTAGCA
* * * *
24253677 TTTTAGTTCAAAAAAAAAGTGAACAGAATGGAGCCCTTTTACATGGCCATGTTGATTTACTAGGA
131 TTTTAGTTCAAAAAAAAAGTGAATAGAA-GGAGCCATTTTACATGGCCATGCTGATTTACAAGGA
* *
24253742 TAAGTTAGAGATGAAACCAATGCTCGATAAGGTGAAAAAGGTGTT-GAAAGAGTTTGAAAGTGTG
195 TAAGTTAGAGATG-AACCAATGCTCAATAAGGTGAAAAA-GTGTTAG-AAGAGTTTGAGAGTGTG
* * * *
24253806 ATGTC-GAGTAGTTGCCCAAGGTTCTACCTCTTAAAGATAGTAGACCATGAGATTGAACTTCTT-
257 ATGTCAGAATAATTGCCTAAGGTTCTACCTCTTAAAGATGGTAGACCATGAGATTGAACTT-TTC
* * * *
24253869 TAGGAGTTAAGCCTCTAGCTAAAGGAACCTATCTTATGGCTCCACTAAAATTGG-CTAAACTAAG
321 TAGAAGTTAAGCCTCTAGCTAAAGGTACCTATCTTATGGCTCCACTAAAGTTGGTC-AAATTAAG
* * * * * *
24253933 AAAACAATTACATG-ACTACTATAAACTAAATTCATTAGGCAATTAAAAGCTTTTTTTCGAGCAC
385 AAAACAATTACATGAACTACTACAAGCTAGATTCATTAGGCAATCAAAAGC-TCTTTTCGGGCAC
* * *
24253997 TAGTGTTGTTTCAAAGAAAACATGATTGGAGTTTGCACTTGTAGGTGGATTATAGTGCCTTGAAC
449 TAGTGTTGTTTCAGAGAAAACATGATGGGAGTTTGCACTTGTATGTGGATTATAGTGCCTTGAAC
* *
24254062 AAAGTTATAGTGAAGAACAAATATCTAA-TCCGTCTCATTGCTTACCTATTTGATCAATTGAGTC
514 AAAGTTATAGTGAAGAACAAATATCCAATTCC-TCTCATCGC-TACCTATTTGATCAATTGAGTC
*
24254126 ATGTAAACGACTTTAATGTTGTA
577 ATG----C-A----AAT-CT-TA
* * * **
24254149 TTAGGATTGGACTTTATGATGGTGACTTAAATGATCTTTTTACTTGTTGCTAGTTACTTGTTGTT
1 --A-GATTGGACTTTATGATGGTGACTCAAACGATCCTCATACTTGTTGCTAGTTACTTGTTGTT
* * *
24254214 CTTGGGGAAACACTCATGTATGGTGCTTGCCACAGTCCTTCTTAAAAATAAGATGAAAATGAGAT
63 CTTAGGGAAACAC-CAT-TATGGTGCTTGCCACAGTCCTTCTTAAAAATGAGATGAAAATGATAT
* * * * * * *
24254279 TAGCATTTTAATTCAAAAAAAAAGTGAATAGAAGAGAGCCTTTTTATATGGTCGTACCGATTTAC
126 TAGCATTTTAGTTCAAAAAAAAAGTGAATAGAAG-GAGCCATTTTACATGGCCATGCTGATTTAC
* * * *
24254344 AAGGACAAGCTAGAGATGAAGCTAATGCTCAATAAGGTGAAAAAGTTGTTAGAAGAGTTTGTGAG
190 AAGGATAAGTTAGAGATGAA-CCAATGCTCAATAAGGTGAAAAAG-TGTTAGAAGAGTTTGAGAG
* * * *
24254409 TGTGATGTCAAAATAATTGCCTAGGGTTTTACCTCTTAAAGATGGTAGACCATGAGATTAAACTT
253 TGTGATGTCAGAATAATTGCCTAAGGTTCTACCTCTTAAAGATGGTAGACCATGAGATTGAACTT
*
24254474 TTCTAGAAGTTAAGCCTCTAGCTAAAGGTCCCTATCTTATGGCTCCACTAAAGTTGGTCAAATTA
318 TTCTAGAAGTTAAGCCTCTAGCTAAAGGTACCTATCTTATGGCTCCACTAAAGTTGGTCAAATTA
*
24254539 AGAAAATAATTACATGAACTACTACAAGCTAGATTCATTAGGCAATCAAAAGCTCTTTTCGGGGC
383 AGAAAACAATTACATGAACTACTACAAGCTAGATTCATTAGGCAATCAAAAGCTCTTTTC-GGGC
* * * * * *
24254604 ACCAATGTTGTTTTAGAGAAAATATGATGGGAGTTTGTAGTTGTATGTGGATTATAGTGCCTTGA
447 ACTAGTGTTGTTTCAGAGAAAACATGATGGGAGTTTGCACTTGTATGTGGATTATAGTGCCTTGA
*
24254669 ACAAAGTTATAGTGAAGAACAAATATCCAATTCCTCTCATCACTAACCTATTTGATCAATTGAGT
512 ACAAAGTTATAGTGAAGAACAAATATCCAATTCCTCTCATCGCT-ACCTATTTGATCAATTGAGT
24254734 CAT
576 CAT
24254737 ACCCAATACT
Statistics
Matches: 995, Mismatches: 139, Indels: 77
0.82 0.11 0.06
Matches are distributed among these distances:
580 3 0.00
581 334 0.34
582 86 0.09
583 1 0.00
586 2 0.00
587 1 0.00
589 1 0.00
590 1 0.00
591 3 0.00
592 62 0.06
593 2 0.00
595 1 0.00
596 58 0.06
598 1 0.00
599 1 0.00
602 1 0.00
605 1 0.00
606 4 0.00
607 153 0.15
608 125 0.13
609 151 0.15
610 3 0.00
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (588 bp):
AGATTGGACTTTATGATGGTGACTCAAACGATCCTCATACTTGTTGCTAGTTACTTGTTGTTCTT
AGGGAAACACCATTATGGTGCTTGCCACAGTCCTTCTTAAAAATGAGATGAAAATGATATTAGCA
TTTTAGTTCAAAAAAAAAGTGAATAGAAGGAGCCATTTTACATGGCCATGCTGATTTACAAGGAT
AAGTTAGAGATGAACCAATGCTCAATAAGGTGAAAAAGTGTTAGAAGAGTTTGAGAGTGTGATGT
CAGAATAATTGCCTAAGGTTCTACCTCTTAAAGATGGTAGACCATGAGATTGAACTTTTCTAGAA
GTTAAGCCTCTAGCTAAAGGTACCTATCTTATGGCTCCACTAAAGTTGGTCAAATTAAGAAAACA
ATTACATGAACTACTACAAGCTAGATTCATTAGGCAATCAAAAGCTCTTTTCGGGCACTAGTGTT
GTTTCAGAGAAAACATGATGGGAGTTTGCACTTGTATGTGGATTATAGTGCCTTGAACAAAGTTA
TAGTGAAGAACAAATATCCAATTCCTCTCATCGCTACCTATTTGATCAATTGAGTCATGCAAATC
TTA
Found at i:24262214 original size:13 final size:13
Alignment explanation
Indices: 24262196--24262222 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
24262186 TTACACTAAT
24262196 TAATAAAATTTTC
1 TAATAAAATTTTC
24262209 TAATAAAATTTTC
1 TAATAAAATTTTC
24262222 T
1 T
24262223 TTGTTATAAT
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:0.44, C:0.07, G:0.00, T:0.48
Consensus pattern (13 bp):
TAATAAAATTTTC
Found at i:24265639 original size:58 final size:58
Alignment explanation
Indices: 24265549--24265659 Score: 159
Period size: 58 Copynumber: 1.9 Consensus size: 58
24265539 CAATTTGCAT
* * *
24265549 CTTAGCATAGACCAAATAAAAAAAATTAGAACACAAAAAAAAAGATTTAATATGGGTA
1 CTTAGCATAAACCAAACAAAAAAAATGAGAACACAAAAAAAAAGATTTAATATGGGTA
* * * *
24265607 CTTAGCATAAACCAAGCAAATAAAATGAGAACATAAAAAGAAAGATTTAATAT
1 CTTAGCATAAACCAAACAAAAAAAATGAGAACACAAAAAAAAAGATTTAATAT
24265660 TGGCATTTAC
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
58 46 1.00
ACGTcount: A:0.57, C:0.11, G:0.12, T:0.21
Consensus pattern (58 bp):
CTTAGCATAAACCAAACAAAAAAAATGAGAACACAAAAAAAAAGATTTAATATGGGTA
Found at i:24267422 original size:2 final size:2
Alignment explanation
Indices: 24267409--24267449 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
24267399 TACAATCAAG
*
24267409 TA TA TC TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
24267450 TTTACGGGAT
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:0.46, C:0.02, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:24268458 original size:14 final size:15
Alignment explanation
Indices: 24268436--24268470 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
24268426 CGATTTTTAC
*
24268436 ATTTGATTTAAA-TA
1 ATTTAATTTAAACTA
24268450 ATTTAATTTAAACTA
1 ATTTAATTTAAACTA
24268465 ATTTAA
1 ATTTAA
24268471 ACATAATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.58
15 8 0.42
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (15 bp):
ATTTAATTTAAACTA
Found at i:24270085 original size:10 final size:10
Alignment explanation
Indices: 24270070--24270094 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
24270060 GCCATCTAGC
24270070 AAAAAAGAAA
1 AAAAAAGAAA
24270080 AAAAAAGAAA
1 AAAAAAGAAA
24270090 AAAAA
1 AAAAA
24270095 TCAATTTCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (10 bp):
AAAAAAGAAA
Found at i:24273147 original size:18 final size:19
Alignment explanation
Indices: 24273106--24273147 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
24273096 TTAAAATCAA
24273106 GTTTTTATGTATCCATTTT
1 GTTTTTATGTATCCATTTT
24273125 GTTTTTATGT-TCCCATTTT
1 GTTTTTATGTAT-CCATTTT
24273144 -TTTT
1 GTTTT
24273148 ATTTTTTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 5 0.23
19 17 0.77
ACGTcount: A:0.12, C:0.12, G:0.10, T:0.67
Consensus pattern (19 bp):
GTTTTTATGTATCCATTTT
Found at i:24275083 original size:15 final size:16
Alignment explanation
Indices: 24275063--24275093 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
24275053 TCAAACATTT
24275063 CAAAAAAAAA-AAAAA
1 CAAAAAAAAAGAAAAA
24275078 CAAAAAAAAAGAAAAA
1 CAAAAAAAAAGAAAAA
24275094 AGAGCAAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.90, C:0.06, G:0.03, T:0.00
Consensus pattern (16 bp):
CAAAAAAAAAGAAAAA
Found at i:24275318 original size:149 final size:152
Alignment explanation
Indices: 24274988--24275318 Score: 361
Period size: 149 Copynumber: 2.2 Consensus size: 152
24274978 AGTCTGGGGT
* * * * *
24274988 AAAAAGTAAATAAGGCTTT-AGTTGGAATCCTAAGAATTCAAAGAAGTAGATTGCTAAAGATGAA
1 AAAAAGTGAATAAAG-TTTCAGTTAGAATCCTAAGAATTCAAAGAAATAGATTGCTAAAGATAAA
*
24275052 GTCAAACATTTCAAAAAAAAAAAAAACAAAAAAAAAGAAAAAAGAGCAAAGAAAGAAAGACATGC
65 GGCAAACATTTCAAAAAAAAAAAAAACAAAAAAAAAGAAAAAAGAGCAAAGAAAGAAAGACATGC
* *
24275117 ACTCAGAGATGAGAATCCAAGGC
130 ACTCAAAGATGAGAATCCAAGGA
* * * * * *
24275140 AAAAAGTGAATAAAGTTACAGGTAAAATCCTAAGAATTC-AAGAAAATGGATTGTTAAAGTTAAA
1 AAAAAGTGAATAAAGTTTCAGTTAGAATCCTAAGAATTCAAAG-AAATAGATTGCTAAAGATAAA
** ** ** * * *
24275204 GGCAAATGTTTC-AAAAAAAATGAAA-AAATGAAAA-AAAAAAGAGTAAAGAAAGAAAGGCATGT
65 GGCAAACATTTCAAAAAAAAAAAAAACAAAAAAAAAGAAAAAAGAGCAAAGAAAGAAAGACATGC
*
24275266 ACTTCAAAGATGA-AGATCCGA-GA
130 AC-TCAAAGATGAGA-ATCCAAGGA
24275289 AAAAAGTGAATAAAGTTTCAGTTAGAATCC
1 AAAAAGTGAATAAAGTTTCAGTTAGAATCC
24275319 CAAATATAAA
Statistics
Matches: 148, Mismatches: 27, Indels: 11
0.80 0.15 0.06
Matches are distributed among these distances:
149 56 0.38
150 21 0.14
151 16 0.11
152 55 0.37
ACGTcount: A:0.54, C:0.09, G:0.18, T:0.18
Consensus pattern (152 bp):
AAAAAGTGAATAAAGTTTCAGTTAGAATCCTAAGAATTCAAAGAAATAGATTGCTAAAGATAAAG
GCAAACATTTCAAAAAAAAAAAAAACAAAAAAAAAGAAAAAAGAGCAAAGAAAGAAAGACATGCA
CTCAAAGATGAGAATCCAAGGA
Found at i:24275526 original size:148 final size:145
Alignment explanation
Indices: 24275234--24275554 Score: 315
Period size: 147 Copynumber: 2.2 Consensus size: 145
24275224 TGAAAAAATG
* * * *
24275234 AAAAAAAAAAGAGTAAAGAAAGAAAGGCATGTACTTCAAAGATGAAGATCCGAGAAAAAAGTGAA
1 AAAAAAAAAAGAGTAAAGAAAGAAAGACATGCACCTCAAAAATGAAGATCCGAGAAAAAAGTGAA
* *** * * * * **
24275299 TAAAGTTTCAGTTAGAATCCCAAATATAAAGAAAGATAAAATTTTAAAAAGTAGAATGCTAAAGA
66 CAAACCATCAGTCAGAATCCCAAATAAAAAAAAAGATAAAATTTCAAAAAAAAGAATGCTAAAGA
* *
24275364 TAAAATTAAGTGTTT
131 TAAAATCAAATGTTT
*
24275379 CAAAAAAAAAAGAGTAAAGAAAGAAAGACATGCACCT-AGAAAATG-AGAGCTCGAGATAAAAAG
1 -AAAAAAAAAAGAGTAAAGAAAGAAAGACATGCACCTCA-AAAATGAAGATC-CGAGA-AAAAAG
* * *
24275442 TGAACGAACCATCAGTCAGAATTCCAAGTAAAAAAAAAGGATAAAA-TTCAAGAAAAAAGAATGC
62 TGAACAAACCATCAGTCAGAATCCCAAATAAAAAAAAA-GATAAAATTTCAA-AAAAAAGAATGC
* * * *
24275506 TAGAGTTGAAGTCAAATGTTT
125 TAAAGATAAAATCAAATGTTT
* * * *
24275527 AAAAAAATATGAGCAAACAAAGAAAGAC
1 AAAAAAAAAAGAGTAAAGAAAGAAAGAC
24275555 GCATGACTTT
Statistics
Matches: 142, Mismatches: 28, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
145 5 0.04
146 43 0.30
147 62 0.44
148 32 0.23
ACGTcount: A:0.55, C:0.09, G:0.18, T:0.18
Consensus pattern (145 bp):
AAAAAAAAAAGAGTAAAGAAAGAAAGACATGCACCTCAAAAATGAAGATCCGAGAAAAAAGTGAA
CAAACCATCAGTCAGAATCCCAAATAAAAAAAAAGATAAAATTTCAAAAAAAAGAATGCTAAAGA
TAAAATCAAATGTTT
Found at i:24276554 original size:41 final size:41
Alignment explanation
Indices: 24276476--24276554 Score: 106
Period size: 41 Copynumber: 1.9 Consensus size: 41
24276466 ATTCGTATTC
* *
24276476 ACATCTATATCATGAAAGAAATATTCACATTTGCATCACTT
1 ACATATATATCATGAAAGAAATATTCACATTTACATCACTT
**
24276517 ACATATATATCATGAGAA-AAATATTCGTATTTACATCA
1 ACATATATATCATGA-AAGAAATATTCACATTTACATCA
24276555 TTTGCATTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 31 0.94
42 2 0.06
ACGTcount: A:0.42, C:0.16, G:0.08, T:0.34
Consensus pattern (41 bp):
ACATATATATCATGAAAGAAATATTCACATTTACATCACTT
Found at i:24277103 original size:22 final size:21
Alignment explanation
Indices: 24277078--24277140 Score: 72
Period size: 23 Copynumber: 2.8 Consensus size: 21
24277068 CCAAATCAGC
24277078 TGGCACCTAAGCTCAGATTAGT
1 TGGCACCTAAGCT-AGATTAGT
* *
24277100 TGGCACTTTATACCTAGATTAGT
1 TGGCAC-CTA-AGCTAGATTAGT
24277123 TGGCACCTAAGCTTAGAT
1 TGGCACCTAAGC-TAGAT
24277141 CAACTAGCAC
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
21 2 0.06
22 13 0.38
23 16 0.47
24 3 0.09
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.32
Consensus pattern (21 bp):
TGGCACCTAAGCTAGATTAGT
Found at i:24277549 original size:104 final size:103
Alignment explanation
Indices: 24277279--24277570 Score: 338
Period size: 104 Copynumber: 2.8 Consensus size: 103
24277269 AATCTTTAAG
* ** * * * *
24277279 ACCTCCAGACAAAATATTTTAAAATTTTGAAGTTTCAATGCCTTTGATTAGGAAGAGCATTCATA
1 ACCTCTAG-CAAAATATTTTAAAATTTCAAAGTTTCAATACCTCTAATTA-GAAGAGCATTCAAA
** * *
24277344 GATGTTGAGATTTGTAAGACCGTAAAGCATAATTTCCAAG
64 GATGTCAAGATTTGTAAGACCGTAAAGCATAATTGCCAAA
* * *
24277384 ACCTCTGGCAAAACATTTT-AAATCTTCAAAGTTTCAATACCTCTTATT-GAAGGAGCATTCAAA
1 ACCTCTAGCAAAATATTTTAAAAT-TTCAAAGTTTCAATACCTCTAATTAGAA-GAGCATTCAAA
**
24277447 GATGTCAAGATTTGTAAGACC-TCAAAGCATAATTGGTAAA
64 GATGTCAAGATTTGTAAGACCGT-AAAGCATAATTGCCAAA
* *
24277487 ACCTCTAAGCAAGATATTTTAAAATTTCAAAGTTTCAATACCTCTAATTAGAAAAGCATTCAAAG
1 ACCTCT-AGCAAAATATTTTAAAATTTCAAAGTTTCAATACCTCTAATTAGAAGAGCATTCAAAG
*
24277552 ATTTCAAGATTTGTAAGAC
65 ATGTCAAGATTTGTAAGAC
24277571 TTCTAGGTGT
Statistics
Matches: 160, Mismatches: 21, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
102 4 0.03
103 52 0.32
104 91 0.57
105 13 0.08
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (103 bp):
ACCTCTAGCAAAATATTTTAAAATTTCAAAGTTTCAATACCTCTAATTAGAAGAGCATTCAAAGA
TGTCAAGATTTGTAAGACCGTAAAGCATAATTGCCAAA
Found at i:24279665 original size:11 final size:11
Alignment explanation
Indices: 24279649--24279673 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
24279639 GCCATCCCAC
24279649 AAAGAAGACAA
1 AAAGAAGACAA
24279660 AAAGAAGACAA
1 AAAGAAGACAA
24279671 AAA
1 AAA
24279674 AATCAGTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.76, C:0.08, G:0.16, T:0.00
Consensus pattern (11 bp):
AAAGAAGACAA
Found at i:24283388 original size:21 final size:21
Alignment explanation
Indices: 24283362--24283404 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
24283352 ATCTCAAATA
24283362 AGTGTTGCTT-TGTCTTTTATG
1 AGTGTTG-TTGTGTCTTTTATG
24283383 AGTGTTGTTGTGTCTTTTATG
1 AGTGTTGTTGTGTCTTTTATG
24283404 A
1 A
24283405 TCAAGTTAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.12, C:0.07, G:0.26, T:0.56
Consensus pattern (21 bp):
AGTGTTGTTGTGTCTTTTATG
Found at i:24284888 original size:16 final size:17
Alignment explanation
Indices: 24284850--24284890 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
24284840 AACATGCAAT
*
24284850 ACTATGAATCAAAACAA
1 ACTATAAATCAAAACAA
*
24284867 A-AATAAATC-AAACAA
1 ACTATAAATCAAAACAA
24284882 ACTATAAAT
1 ACTATAAAT
24284891 AACTAAAAGC
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
15 7 0.35
16 12 0.60
17 1 0.05
ACGTcount: A:0.63, C:0.15, G:0.02, T:0.20
Consensus pattern (17 bp):
ACTATAAATCAAAACAA
Found at i:24285219 original size:16 final size:16
Alignment explanation
Indices: 24285200--24285233 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
24285190 TAATTCAACC
*
24285200 AAATTATAAAACCCTA
1 AAATAATAAAACCCTA
*
24285216 AAATAATGAAACCCTA
1 AAATAATAAAACCCTA
24285232 AA
1 AA
24285234 CTTTGTAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.59, C:0.18, G:0.03, T:0.21
Consensus pattern (16 bp):
AAATAATAAAACCCTA
Found at i:24285363 original size:27 final size:28
Alignment explanation
Indices: 24285306--24285363 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 28
24285296 ATGAAATTAT
* **
24285306 AAACTAATAAAACAAACCCTAAATATGC
1 AAACTAATAAAACAAACACTAAATAACC
24285334 AAACT-ATAAAACATAA-ACTAAATAACC
1 AAACTAATAAAACA-AACACTAAATAACC
24285361 AAA
1 AAA
24285364 AATCAAATCA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
27 19 0.73
28 7 0.27
ACGTcount: A:0.62, C:0.19, G:0.02, T:0.17
Consensus pattern (28 bp):
AAACTAATAAAACAAACACTAAATAACC
Found at i:24292224 original size:153 final size:153
Alignment explanation
Indices: 24292026--24292332 Score: 404
Period size: 154 Copynumber: 2.0 Consensus size: 153
24292016 TGAAAAAATT
* *
24292026 CATAAAACTCTATGAAAAAACAAACTACATAATTCACCCCATTTAACAACCT-AATCTAACTTT-
1 CATAAAACTCTATGAAAAAACAAACTA-AGAATTCACCCCATTTAACAA-CTAAATATAACTTTG
* *
24292089 AACAACTTTTACAAACTCAAACAAAAATCATAAACCAATTCTTCTATCAAGCACTTGTTCATTAA
64 AACAACTTTTACAAACTCAAACAAAAATCATAAACCAACTCTTCTATCAAGCACTTGCTCATTAA
*
24292154 ATACAACAATATCAACAAGTTAATG
129 ATACAACAACATCAACAAGTTAATG
* ** *
24292179 CATACAACTCTATGAAAAAACAAATCGT-AGAATTCACCCTTTTTAACAACTAAATATAATTTTG
1 CATAAAACTCTATGAAAAAACAAA-C-TAAGAATTCACCCCATTTAACAACTAAATATAACTTTG
* * * *
24292243 AACAACTTTTATAGACTCAAACAGAAATCATTAACCAACTCTTCTATCAAGCACTTGCTCATTAA
64 AACAACTTTTACAAACTCAAACAAAAATCATAAACCAACTCTTCTATCAAGCACTTGCTCATTAA
* * * *
24292308 TTATAGCAACGTCAACAAGTTAATG
129 ATACAACAACATCAACAAGTTAATG
24292333 TAATTGTGAT
Statistics
Matches: 133, Mismatches: 17, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
152 2 0.02
153 50 0.38
154 80 0.60
155 1 0.01
ACGTcount: A:0.44, C:0.22, G:0.06, T:0.29
Consensus pattern (153 bp):
CATAAAACTCTATGAAAAAACAAACTAAGAATTCACCCCATTTAACAACTAAATATAACTTTGAA
CAACTTTTACAAACTCAAACAAAAATCATAAACCAACTCTTCTATCAAGCACTTGCTCATTAAAT
ACAACAACATCAACAAGTTAATG
Found at i:24294703 original size:19 final size:20
Alignment explanation
Indices: 24294676--24294731 Score: 87
Period size: 19 Copynumber: 2.9 Consensus size: 20
24294666 TCATGTAAAT
24294676 AATATCATGCAATAATAT-A
1 AATATCATGCAATAATATAA
* *
24294695 AATAACATGTAATAATATAA
1 AATATCATGCAATAATATAA
24294715 AATATCATGCAATAATA
1 AATATCATGCAATAATA
24294732 ATTACTATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 16 0.50
20 16 0.50
ACGTcount: A:0.55, C:0.09, G:0.05, T:0.30
Consensus pattern (20 bp):
AATATCATGCAATAATATAA
Found at i:24294782 original size:19 final size:21
Alignment explanation
Indices: 24294745--24294784 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
24294735 ACTATATTAC
24294745 TAATCATGCAAATAATAAATAA
1 TAATCATGCAAAT-ATAAATAA
24294767 TAATCATGC-AAT-TAAATA
1 TAATCATGCAAATATAAATA
24294785 TGCAAGCAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
21 3 0.17
22 9 0.50
ACGTcount: A:0.55, C:0.10, G:0.05, T:0.30
Consensus pattern (21 bp):
TAATCATGCAAATATAAATAA
Found at i:24294889 original size:8 final size:8
Alignment explanation
Indices: 24294876--24294905 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
24294866 GATAAATAAC
24294876 AAAAAAAT
1 AAAAAAAT
24294884 AAAAAAAT
1 AAAAAAAT
24294892 AAAAAAAAT
1 -AAAAAAAT
24294901 AAAAA
1 AAAAA
24294906 TCATAAATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (8 bp):
AAAAAAAT
Found at i:24294890 original size:9 final size:9
Alignment explanation
Indices: 24294876--24294905 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
24294866 GATAAATAAC
24294876 AAAAAAAT-
1 AAAAAAATA
24294884 AAAAAAATA
1 AAAAAAATA
24294893 AAAAAAATA
1 AAAAAAATA
24294902 AAAA
1 AAAA
24294906 TCATAAATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 8 0.38
9 13 0.62
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (9 bp):
AAAAAAATA
Found at i:24295852 original size:20 final size:20
Alignment explanation
Indices: 24295817--24295855 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
24295807 TGATTTTTTA
**
24295817 TTTTTTATTTGTTTTTTATG
1 TTTTTTATTTAATTTTTATG
24295837 TTTTTTATTTAATTTTTAT
1 TTTTTTATTTAATTTTTAT
24295856 TAAAGTAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.15, C:0.00, G:0.05, T:0.79
Consensus pattern (20 bp):
TTTTTTATTTAATTTTTATG
Found at i:24296529 original size:50 final size:50
Alignment explanation
Indices: 24296461--24296559 Score: 119
Period size: 50 Copynumber: 2.0 Consensus size: 50
24296451 TTTTTATTAT
** *
24296461 TTTACAAGTTTTGTTTCTAGACTTTCCACCATTTGGGATT-AATTTAGAAA
1 TTTACAAGTTTTAATTCTAAACTTTCCACCATTTGGG-TTAAATTTAGAAA
* * * *
24296511 TTTATAAGTTTTAATTCTAAATTTTCCACTATTTTGGTTAAATTTAGAA
1 TTTACAAGTTTTAATTCTAAACTTTCCACCATTTGGGTTAAATTTAGAA
24296560 TCTAAACTCT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
49 2 0.05
50 39 0.95
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.47
Consensus pattern (50 bp):
TTTACAAGTTTTAATTCTAAACTTTCCACCATTTGGGTTAAATTTAGAAA
Found at i:24298247 original size:15 final size:15
Alignment explanation
Indices: 24298225--24298262 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
24298215 GGATAAAAAC
24298225 AAAATAAATCAA-GAT
1 AAAATAAA-CAAGGAT
*
24298240 ACAATAAACAAGGAT
1 AAAATAAACAAGGAT
24298255 AAAATAAA
1 AAAATAAA
24298263 ATGATAAGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 3 0.15
15 17 0.85
ACGTcount: A:0.68, C:0.08, G:0.08, T:0.16
Consensus pattern (15 bp):
AAAATAAACAAGGAT
Found at i:24298578 original size:22 final size:22
Alignment explanation
Indices: 24298532--24298588 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 22
24298522 GCAAAGCAAG
* *
24298532 TTGAAACTCAAAGATTCACAAT
1 TTGAAATTCAAAGAATCACAAT
*
24298554 TTG-AGTTCAAAGAATCACAATT
1 TTGAAATTCAAAGAATCACAA-T
24298576 TTGAAATTCAAAG
1 TTGAAATTCAAAG
24298589 GTTCTCAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
21 14 0.48
22 7 0.24
23 8 0.28
ACGTcount: A:0.44, C:0.14, G:0.12, T:0.30
Consensus pattern (22 bp):
TTGAAATTCAAAGAATCACAAT
Found at i:24298597 original size:23 final size:23
Alignment explanation
Indices: 24298532--24298598 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 23
24298522 GCAAAGCAAG
*
24298532 TTGAAACTCAAAGATTCACAA-T
1 TTGAAATTCAAAGATTCACAATT
* *
24298554 TTG-AGTTCAAAGAATCACAATT
1 TTGAAATTCAAAGATTCACAATT
* *
24298576 TTGAAATTCAAAGGTTCTCAATT
1 TTGAAATTCAAAGATTCACAATT
24298599 CAAAGATTCA
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
21 14 0.39
22 7 0.19
23 15 0.42
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (23 bp):
TTGAAATTCAAAGATTCACAATT
Done.