Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168270.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_5, 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: 27802247
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 124000 characters in sequence are not A, C, G, or T
File 134 of 147
Found at i:24206159 original size:12 final size:12
Alignment explanation
Indices: 24206144--24206170 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
24206134 ATTTGAGTAA
24206144 ATGATTTATTTC
1 ATGATTTATTTC
24206156 ATGATTTATTTC
1 ATGATTTATTTC
24206168 ATG
1 ATG
24206171 TGTAAATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.26, C:0.07, G:0.11, T:0.56
Consensus pattern (12 bp):
ATGATTTATTTC
Found at i:24206959 original size:31 final size:32
Alignment explanation
Indices: 24206924--24207002 Score: 101
Period size: 32 Copynumber: 2.6 Consensus size: 32
24206914 ACGCAGATTT
*
24206924 CATTTGATTTCA-TTGTTAAAATATTAATGCA
1 CATTTGATTTCATTTGATAAAATATTAATGCA
* *
24206955 CATTTGATTTTATTTGATAAAATATTAATGTA
1 CATTTGATTTCATTTGATAAAATATTAATGCA
*
24206987 CA-TGGA-TTCATTTGAT
1 CATTTGATTTCATTTGAT
24207003 TTCATTTGTA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
30 9 0.21
31 14 0.33
32 19 0.45
ACGTcount: A:0.34, C:0.08, G:0.11, T:0.47
Consensus pattern (32 bp):
CATTTGATTTCATTTGATAAAATATTAATGCA
Found at i:24207236 original size:21 final size:18
Alignment explanation
Indices: 24207210--24207261 Score: 50
Period size: 18 Copynumber: 2.7 Consensus size: 18
24207200 TACTTACAAT
*
24207210 TTTTATTATTTCAATATTAA
1 TTTTATTATTT-AAAATT-A
*
24207230 CTTTTATAATTTAAAATTA
1 -TTTTATTATTTAAAATTA
*
24207249 TTTTATTAATTAA
1 TTTTATTATTTAA
24207262 CCTACTCACA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 11 0.41
19 1 0.04
20 5 0.19
21 10 0.37
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (18 bp):
TTTTATTATTTAAAATTA
Found at i:24208208 original size:22 final size:21
Alignment explanation
Indices: 24208183--24208242 Score: 57
Period size: 25 Copynumber: 2.7 Consensus size: 21
24208173 TTGATTTTAA
* *
24208183 ATATAAAAATTTTTATTTTTT
1 ATATAAAAATTATTAATTTTT
24208204 GATATCGAAAATATTATTAATTTTT
1 -ATAT--AAAA-ATTATTAATTTTT
*
24208229 ATTTAAAAATTATT
1 ATATAAAAATTATT
24208243 TGGATTCAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
21 6 0.19
22 8 0.25
24 7 0.22
25 11 0.34
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (21 bp):
ATATAAAAATTATTAATTTTT
Found at i:24215475 original size:24 final size:24
Alignment explanation
Indices: 24215448--24215496 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
24215438 ATTCTCGAAA
*
24215448 AATGAAGATCTGAAGATCAAGAAG
1 AATGAAGATCTGAAGACCAAGAAG
*
24215472 AATGAAGATTTGAAGACCAAGAAG
1 AATGAAGATCTGAAGACCAAGAAG
24215496 A
1 A
24215497 CTGATGGAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.51, C:0.08, G:0.24, T:0.16
Consensus pattern (24 bp):
AATGAAGATCTGAAGACCAAGAAG
Found at i:24215999 original size:35 final size:35
Alignment explanation
Indices: 24215959--24216032 Score: 121
Period size: 35 Copynumber: 2.1 Consensus size: 35
24215949 TTATCAGAGA
*
24215959 TTGTAATTTACAATTCTAAAAAAGAAATTTATTAT
1 TTGTAATTTACAAATCTAAAAAAGAAATTTATTAT
* *
24215994 TTGTAATTTATAAATCTAATAAAGAAATTTATTAT
1 TTGTAATTTACAAATCTAAAAAAGAAATTTATTAT
24216029 TTGT
1 TTGT
24216033 TTCAAATTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.43, C:0.04, G:0.07, T:0.46
Consensus pattern (35 bp):
TTGTAATTTACAAATCTAAAAAAGAAATTTATTAT
Found at i:24217765 original size:2 final size:2
Alignment explanation
Indices: 24217758--24217790 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
24217748 CATCAAGCAA
24217758 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
24217791 AAGGTACTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:24219624 original size:2 final size:2
Alignment explanation
Indices: 24219617--24219645 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
24219607 GATTTCAATC
24219617 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
24219646 AGGCTACCTG
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:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:24226049 original size:22 final size:23
Alignment explanation
Indices: 24225998--24226049 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
24225988 AAAAATTTTT
*
24225998 TATTTTATTTTAGAAAAAATTAA
1 TATTTTATTTAAGAAAAAATTAA
** *
24226021 TGCTTTATTTAAG-AAAAATTGA
1 TATTTTATTTAAGAAAAAATTAA
24226043 TATTTTA
1 TATTTTA
24226050 ACTTTTTCTC
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
22 13 0.57
23 10 0.43
ACGTcount: A:0.42, C:0.02, G:0.08, T:0.48
Consensus pattern (23 bp):
TATTTTATTTAAGAAAAAATTAA
Found at i:24226086 original size:58 final size:57
Alignment explanation
Indices: 24226024--24226244 Score: 291
Period size: 58 Copynumber: 3.8 Consensus size: 57
24226014 AAATTAATGC
* * * * *
24226024 TTTATTTAAGAAAAATTGATATTTTAACTTTTTCTCAAAATATTTTTTCAAATATTTT
1 TTTATTTAAGAAAAATTGATACTTCAACTTTTCCTCAAAACATTTTTTGAAATA-TTT
* *
24226082 TTTATTTAAGAAAAATTGATACTTCAACTTTTCCTCAAAATAATTTTTGAAATATTT
1 TTTATTTAAGAAAAATTGATACTTCAACTTTTCCTCAAAACATTTTTTGAAATATTT
* * *
24226139 TTTATTTAAGAAAAATTAATATTTTAACTTTTCCAT-AAAACATTTTTTTGAAATAATTT
1 TTTATTTAAGAAAAATTGATACTTCAACTTTTCC-TCAAAACA-TTTTTTGAAAT-ATTT
* *
24226198 TTTATTTAAGAAAAATTGTTACTTCAACTTTTCCTTAAAACATTTTT
1 TTTATTTAAGAAAAATTGATACTTCAACTTTTCCTCAAAACATTTTT
24226245 ACTTCAACTT
Statistics
Matches: 145, Mismatches: 14, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
57 39 0.27
58 66 0.46
59 40 0.28
ACGTcount: A:0.38, C:0.09, G:0.04, T:0.49
Consensus pattern (57 bp):
TTTATTTAAGAAAAATTGATACTTCAACTTTTCCTCAAAACATTTTTTGAAATATTT
Found at i:24226227 original size:116 final size:115
Alignment explanation
Indices: 24226024--24226237 Score: 340
Period size: 116 Copynumber: 1.9 Consensus size: 115
24226014 AAATTAATGC
* * * *
24226024 TTTATTTAAGAAAAATTGATATTTTAACTTTTTCTCAAAATATTTTTTCAAATATTTTTTTATTT
1 TTTATTTAAGAAAAATTAATATTTTAACTTTTCCTAAAAATATTTTTTCAAATAATTTTTTATTT
24226089 AAGAAAAATTGATACTTCAACTTTTCCTCAAAATAATTTTTGAAATATTT
66 AAGAAAAATTGATACTTCAACTTTTCCTCAAAATAATTTTTGAAATATTT
*
24226139 TTTATTTAAGAAAAATTAATATTTTAACTTTTCCATAAAACAT-TTTTTTGAAATAATTTTTTAT
1 TTTATTTAAGAAAAATTAATATTTTAACTTTTCC-TAAAA-ATATTTTTTCAAATAATTTTTTAT
* *
24226203 TTAAGAAAAATTGTTACTTCAACTTTTCCTTAAAA
64 TTAAGAAAAATTGATACTTCAACTTTTCCTCAAAA
24226238 CATTTTTACT
Statistics
Matches: 90, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
115 32 0.36
116 56 0.62
117 2 0.02
ACGTcount: A:0.38, C:0.09, G:0.04, T:0.49
Consensus pattern (115 bp):
TTTATTTAAGAAAAATTAATATTTTAACTTTTCCTAAAAATATTTTTTCAAATAATTTTTTATTT
AAGAAAAATTGATACTTCAACTTTTCCTCAAAATAATTTTTGAAATATTT
Found at i:24226250 original size:27 final size:27
Alignment explanation
Indices: 24226208--24226271 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
24226198 TTTATTTAAG
* *
24226208 AAAA-ATTGTTACTTCAACTTTTCCTT
1 AAAACATTTTTACTTCAACTTTTCCTC
24226234 AAAACATTTTTACTTCAACTTTTCCTC
1 AAAACATTTTTACTTCAACTTTTCCTC
24226261 AAAACATTTTT
1 AAAACATTTTT
24226272 TTCAATATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
26 4 0.11
27 31 0.89
ACGTcount: A:0.33, C:0.20, G:0.02, T:0.45
Consensus pattern (27 bp):
AAAACATTTTTACTTCAACTTTTCCTC
Found at i:24226309 original size:86 final size:86
Alignment explanation
Indices: 24226164--24226330 Score: 257
Period size: 86 Copynumber: 1.9 Consensus size: 86
24226154 TTAATATTTT
* **
24226164 AACTTTTCCATAAAACATTTTTTTGAAATAATTTTTTATTTAAGAAAAATTGTTACTTCAACTTT
1 AACTTTTCCATAAAACATTTTTTTCAAATAATTTTTTATTTAAGAAAAATTGAAACTTCAACTTT
24226229 TCCTTAAAACATTTTTACTTC
66 TCCTTAAAACATTTTTACTTC
* *
24226250 AACTTTTCC-TCAAAACATTTTTTTC-AATATTTTTTTTATTTAAGGAAAATTGAAACTTCAACT
1 AACTTTTCCAT-AAAACATTTTTTTCAAATA-ATTTTTTATTTAAGAAAAATTGAAACTTCAACT
24226313 TTTCCTTAAAACATTTTT
64 TTTCCTTAAAACATTTTT
24226331 CTGAAATAAT
Statistics
Matches: 74, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
85 5 0.07
86 69 0.93
ACGTcount: A:0.34, C:0.14, G:0.04, T:0.48
Consensus pattern (86 bp):
AACTTTTCCATAAAACATTTTTTTCAAATAATTTTTTATTTAAGAAAAATTGAAACTTCAACTTT
TCCTTAAAACATTTTTACTTC
Found at i:24226337 original size:145 final size:145
Alignment explanation
Indices: 24226101--24226391 Score: 399
Period size: 145 Copynumber: 2.0 Consensus size: 145
24226091 GAAAAATTGA
* * * *
24226101 TACTTCAACTTTTCCTCAAAATAATTTTTGAAATATTTTTTATTTAAGAAAAATTAATATTTTAA
1 TACTTCAACTTTTCCTCAAAACAATTTTTCAAATATTTTTTATTTAAGAAAAATTAATACTTCAA
* *
24226166 CTTTTCCATAAAACATTTTTTTGAAATAA-TTTTTTATTTAAGAAAAATTGTTACTTCAACTTTT
66 CTTTTCCATAAAACATTTTTCTGAAATAATTTTTTTATTTAAGAAAAATTGATACTTCAACTTTT
*
24226230 CCTTAAAACAT-TTT
131 CCTCAAAACATATTT
* * *
24226244 TACTTCAACTTTTCCTCAAAACATTTTTTTCAATATTTTTTTTATTTAAGGAAAATTGAA-ACTT
1 TACTTCAACTTTTCCTCAAAACA-ATTTTTCAA-ATATTTTTTATTTAAGAAAAATT-AATACTT
* ** *
24226308 CAACTTTTCCTTAAAACATTTTTCTGAAATAATTTTTTTATTTGTGAAAAATTGATACTTCAATT
63 CAACTTTTCCATAAAACATTTTTCTGAAATAATTTTTTTATTTAAGAAAAATTGATACTTCAACT
*
24226373 TTTTCTCAAAACATATTT
128 TTTCCTCAAAACATATTT
24226391 T
1 T
24226392 TGAAATATTT
Statistics
Matches: 128, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
143 22 0.17
144 7 0.05
145 53 0.41
146 42 0.33
147 4 0.03
ACGTcount: A:0.35, C:0.12, G:0.04, T:0.48
Consensus pattern (145 bp):
TACTTCAACTTTTCCTCAAAACAATTTTTCAAATATTTTTTATTTAAGAAAAATTAATACTTCAA
CTTTTCCATAAAACATTTTTCTGAAATAATTTTTTTATTTAAGAAAAATTGATACTTCAACTTTT
CCTCAAAACATATTT
Found at i:24226384 original size:60 final size:59
Alignment explanation
Indices: 24226244--24226433 Score: 215
Period size: 60 Copynumber: 3.2 Consensus size: 59
24226234 AAAACATTTT
** * *
24226244 TACTTCAACTTTTCCTCAAAACATTTTTTTCAATATTTTTTTTATTTAAGGAAAATTGA
1 TACTTCAACTTTTCCTCAAAACATTTTTTGAAATAATTTTTTTATTTAAGAAAAATTGA
* * **
24226303 AACTTCAACTTTTCCTTAAAACATTTTTCTGAAATAATTTTTTTATTTGTGAAAAATTGA
1 TACTTCAACTTTTCCTCAAAACATTTTT-TGAAATAATTTTTTTATTTAAGAAAAATTGA
* * * *
24226363 TACTTCAATTTTTTCTCAAAACATATTTTTGAAAT-A-TTTTTTA-GTAAGAAAAATTGT
1 TACTTCAACTTTTCCTCAAAACAT-TTTTTGAAATAATTTTTTTATTTAAGAAAAATTGA
* *
24226420 TATTTTAACTTTTC
1 TACTTCAACTTTTC
24226434 TTTACAATAT
Statistics
Matches: 109, Mismatches: 20, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
57 20 0.18
58 7 0.06
59 27 0.25
60 51 0.47
61 4 0.04
ACGTcount: A:0.34, C:0.12, G:0.06, T:0.49
Consensus pattern (59 bp):
TACTTCAACTTTTCCTCAAAACATTTTTTGAAATAATTTTTTTATTTAAGAAAAATTGA
Found at i:24228632 original size:18 final size:18
Alignment explanation
Indices: 24228530--24228634 Score: 52
Period size: 18 Copynumber: 5.7 Consensus size: 18
24228520 AAGAATTCAT
*
24228530 ATTTTC-AATTTCGTAAGA
1 ATTTTCAAATTT-GCAAGA
* * *
24228548 ATTTTTCAACTTCGCATGA
1 A-TTTTCAAATTTGCAAGA
* * **
24228567 TTTTTAAAATTCACAAGA
1 ATTTTCAAATTTGCAAGA
* *
24228585 A-TTTAAAGATTTGCCAGA
1 ATTTTCAA-ATTTGCAAGA
**
24228603 ATTTTTTTAATTTGCAAGA
1 A-TTTTCAAATTTGCAAGA
24228622 ATTTTCAAATTTG
1 ATTTTCAAATTTG
24228635 AGAGATTCAC
Statistics
Matches: 64, Mismatches: 18, Indels: 10
0.70 0.20 0.11
Matches are distributed among these distances:
17 6 0.09
18 32 0.50
19 19 0.30
20 7 0.11
ACGTcount: A:0.34, C:0.11, G:0.10, T:0.44
Consensus pattern (18 bp):
ATTTTCAAATTTGCAAGA
Found at i:24228848 original size:47 final size:46
Alignment explanation
Indices: 24228791--24228947 Score: 158
Period size: 47 Copynumber: 3.4 Consensus size: 46
24228781 TTCACATTAA
* *
24228791 AAAAACTTTAGTGTTTCACATCTAATATTGTAAAGATTCTCATTCG
1 AAAAACTTTAGGGTTTCACATCTAATATTTTAAAGATTCTCATTCG
* * * * * *
24228837 AAAAACTTTTAGGGATTCACAACCAAAATTTTAAAAATTCTCATTTG
1 AAAAAC-TTTAGGGTTTCACATCTAATATTTTAAAGATTCTCATTCG
* *
24228884 AAAAAACTTTAGTGTTTCACAT-TCAATATTTTAAATG-TTTTCATTC-
1 -AAAAACTTTAGGGTTTCACATCT-AATATTTTAAA-GATTCTCATTCG
*
24228930 AAAAATTTTAGGGTTTCA
1 AAAAACTTTAGGGTTTCA
24228948 TCCAAAACTT
Statistics
Matches: 89, Mismatches: 18, Indels: 9
0.77 0.16 0.08
Matches are distributed among these distances:
45 16 0.18
46 6 0.07
47 61 0.69
48 6 0.07
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.39
Consensus pattern (46 bp):
AAAAACTTTAGGGTTTCACATCTAATATTTTAAAGATTCTCATTCG
Found at i:24228980 original size:23 final size:23
Alignment explanation
Indices: 24228951--24229044 Score: 63
Period size: 23 Copynumber: 4.2 Consensus size: 23
24228941 GGTTTCATCC
24228951 AAAACTTCAAAGATTCTGATTTA
1 AAAACTTCAAAGATTCTGATTTA
** *
24228974 AAAACTT-TGAGAATTC-GCATTAA
1 AAAACTTCAAAG-ATTCTG-ATTTA
* *
24228997 AAAATTTTC-AAGATTCTTATTT-
1 AAAA-CTTCAAAGATTCTGATTTA
**
24229019 AAAA-TTCAAAGATTCTTTTTTA
1 AAAACTTCAAAGATTCTGATTTA
24229041 AAAA
1 AAAA
24229045 TTTTTAGAGA
Statistics
Matches: 56, Mismatches: 8, Indels: 15
0.71 0.10 0.19
Matches are distributed among these distances:
20 3 0.05
21 12 0.21
22 11 0.20
23 26 0.46
24 4 0.07
ACGTcount: A:0.44, C:0.11, G:0.07, T:0.38
Consensus pattern (23 bp):
AAAACTTCAAAGATTCTGATTTA
Found at i:24234517 original size:24 final size:22
Alignment explanation
Indices: 24234469--24234517 Score: 53
Period size: 24 Copynumber: 2.1 Consensus size: 22
24234459 ATTGTAAGGG
* * *
24234469 TTAAATTTGTATTTTAAATTTA
1 TTAAATTTGTATTTAAAAATAA
24234491 TTAAATATTGTTATTTAAAAATAA
1 TTAAAT-TTG-TATTTAAAAATAA
24234515 TTA
1 TTA
24234518 TATTAATCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 6 0.27
23 3 0.14
24 13 0.59
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (22 bp):
TTAAATTTGTATTTAAAAATAA
Found at i:24235277 original size:9 final size:8
Alignment explanation
Indices: 24235263--24235306 Score: 51
Period size: 7 Copynumber: 5.9 Consensus size: 8
24235253 TGTGCTGGGA
24235263 AAAATTTTG
1 AAAA-TTTG
24235272 AAAATTTG
1 AAAATTTG
24235280 -AAATTT-
1 AAAATTTG
24235286 AAAATTT-
1 AAAATTTG
24235293 AAAATTT-
1 AAAATTTG
24235300 AAAATTT
1 AAAATTT
24235307 ATTTTGAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
7 26 0.76
8 4 0.12
9 4 0.12
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (8 bp):
AAAATTTG
Found at i:24235285 original size:7 final size:7
Alignment explanation
Indices: 24235272--24235307 Score: 63
Period size: 7 Copynumber: 5.1 Consensus size: 7
24235262 AAAAATTTTG
24235272 AAAATTT
1 AAAATTT
*
24235279 GAAATTT
1 AAAATTT
24235286 AAAATTT
1 AAAATTT
24235293 AAAATTT
1 AAAATTT
24235300 AAAATTT
1 AAAATTT
24235307 A
1 A
24235308 TTTTGAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.42
Consensus pattern (7 bp):
AAAATTT
Found at i:24235330 original size:13 final size:14
Alignment explanation
Indices: 24235303--24235336 Score: 52
Period size: 13 Copynumber: 2.4 Consensus size: 14
24235293 AAAATTTAAA
24235303 ATTTATTTTGAATTT
1 ATTT-TTTTGAATTT
24235318 ATTTTTTTG-ATTT
1 ATTTTTTTGAATTT
24235331 ATTTTT
1 ATTTTT
24235337 GTTATTGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 10 0.53
14 5 0.26
15 4 0.21
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.74
Consensus pattern (14 bp):
ATTTTTTTGAATTT
Found at i:24239371 original size:70 final size:69
Alignment explanation
Indices: 24239254--24239398 Score: 254
Period size: 70 Copynumber: 2.1 Consensus size: 69
24239244 GACTTTATCC
* *
24239254 CTTTATATTTCTGCTAGATAGCCATTGGTGATCCTAACTTGCAAAGTTGTCCTAATGTCCGATGT
1 CTTTATATTTCTGCTAGATAGCCATTGGTGATCCCAACTTACAAAGTTGTCCTAATGTCCGATGT
24239319 TGAT
66 TGAT
*
24239323 CTTTGATATTTCTGCTAGATAGGCATTGGTGATCCCAACTTACAAAGTTGTCCTAATGTCCGATG
1 CTTT-ATATTTCTGCTAGATAGCCATTGGTGATCCCAACTTACAAAGTTGTCCTAATGTCCGATG
24239388 TTGAT
65 TTGAT
24239393 CTTTAT
1 CTTTAT
24239399 GTGTTTTTCC
Statistics
Matches: 72, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
69 6 0.08
70 66 0.92
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.39
Consensus pattern (69 bp):
CTTTATATTTCTGCTAGATAGCCATTGGTGATCCCAACTTACAAAGTTGTCCTAATGTCCGATGT
TGAT
Found at i:24267097 original size:11 final size:11
Alignment explanation
Indices: 24267081--24267118 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
24267071 AAACATAATT
24267081 TAAAATTTTAA
1 TAAAATTTTAA
*
24267092 TAAAATTTTTA
1 TAAAATTTTAA
24267103 TATAAA-TTTAA
1 TA-AAATTTTAA
24267114 TAAAA
1 TAAAA
24267119 ATAAAAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 3 0.12
11 18 0.75
12 3 0.12
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (11 bp):
TAAAATTTTAA
Found at i:24271184 original size:20 final size:18
Alignment explanation
Indices: 24271161--24271199 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
24271151 TAATGGCTAC
24271161 TTGTTGCCTATATTTTTTTA
1 TTGTT-CCTAT-TTTTTTTA
*
24271181 TTGTTTCTATTTTTTTTA
1 TTGTTCCTATTTTTTTTA
24271199 T
1 T
24271200 ATATTTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
19 4 0.22
20 5 0.28
ACGTcount: A:0.13, C:0.08, G:0.08, T:0.72
Consensus pattern (18 bp):
TTGTTCCTATTTTTTTTA
Found at i:24271238 original size:30 final size:29
Alignment explanation
Indices: 24271194--24271263 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 29
24271184 TTTCTATTTT
*
24271194 TTTTATATATTTAAAATTATCAAAATTTAA-A
1 TTTTA-ATAATTAAAATTA--AAAATTTAACA
24271225 TTTTAATAATTAAAATTAAAAATTTAACA
1 TTTTAATAATTAAAATTAAAAATTTAACA
*
24271254 TTTTACTAAT
1 TTTTAATAAT
24271264 CGATTATACA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
28 9 0.25
29 10 0.28
30 12 0.33
31 5 0.14
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (29 bp):
TTTTAATAATTAAAATTAAAAATTTAACA
Found at i:24280109 original size:51 final size:53
Alignment explanation
Indices: 24280040--24280156 Score: 141
Period size: 51 Copynumber: 2.2 Consensus size: 53
24280030 TTGAAAATTT
* * *
24280040 ATTTTCAAAAATTCTTAAAAACT-TTCTAATATTTATTTTCAAAAA-CTTT-GA
1 ATTTTTAAAAATTCTTAAAAA-TGTTCGAATATTTATTTTCAAAAATCTTTAAA
* * *
24280091 ATTTTTAAAATTTTTTAAAAATGTTCGAATATTTATTTTTAAAAATCTTTAAA
1 ATTTTTAAAAATTCTTAAAAATGTTCGAATATTTATTTTCAAAAATCTTTAAA
24280144 ATTTTTTAAAAAT
1 A-TTTTTAAAAAT
24280157 ATATTTTTAA
Statistics
Matches: 55, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
50 1 0.02
51 38 0.69
52 4 0.07
53 2 0.04
54 10 0.18
ACGTcount: A:0.42, C:0.07, G:0.03, T:0.49
Consensus pattern (53 bp):
ATTTTTAAAAATTCTTAAAAATGTTCGAATATTTATTTTCAAAAATCTTTAAA
Found at i:24280147 original size:23 final size:24
Alignment explanation
Indices: 24280102--24280147 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
24280092 TTTTTAAAAT
* *
24280102 TTTTTAAAAATGTTCGAATATTTA
1 TTTTTAAAAATCTTCGAAAATTTA
*
24280126 TTTTTAAAAATCTT-TAAAATTT
1 TTTTTAAAAATCTTCGAAAATTT
24280148 TTTAAAAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 6 0.32
24 13 0.68
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.52
Consensus pattern (24 bp):
TTTTTAAAAATCTTCGAAAATTTA
Found at i:24286668 original size:35 final size:35
Alignment explanation
Indices: 24286625--24286698 Score: 139
Period size: 35 Copynumber: 2.1 Consensus size: 35
24286615 TTTCTCTTCA
*
24286625 GTTAACTTGTTCACTTCAATATTTCTATCTTTTCT
1 GTTAACTTGTTCACTTCAATATCTCTATCTTTTCT
24286660 GTTAACTTGTTCACTTCAATATCTCTATCTTTTCT
1 GTTAACTTGTTCACTTCAATATCTCTATCTTTTCT
24286695 GTTA
1 GTTA
24286699 TACTAGCATT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.20, C:0.20, G:0.07, T:0.53
Consensus pattern (35 bp):
GTTAACTTGTTCACTTCAATATCTCTATCTTTTCT
Found at i:24307676 original size:2 final size:2
Alignment explanation
Indices: 24307669--24307699 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
24307659 TCCCCAAGGA
24307669 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
24307700 TCTTGCCTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:24313405 original size:66 final size:67
Alignment explanation
Indices: 24313322--24313454 Score: 182
Period size: 67 Copynumber: 2.0 Consensus size: 67
24313312 AAAAAGTTAA
*
24313322 AAAAAATTATTTAAAAAAATG-TTTAAGGAAAAGCT-AAAGTATCAATTTTCTTTAAATAAAAAT
1 AAAAAATTATTTAAAAAAAAGATTTAAGGAAAAGCTGAAA-TATCAATTTTCTTTAAATAAAAA-
24313385 ATAT
64 ATAT
* * * *
24313389 AAAAAA-TATTTCAAAAAAAGATTTGAGGAAAAGTTGAAATATCAGTTTTCTTTAAATAAAAAAT
1 AAAAAATTATTTAAAAAAAAGATTTAAGGAAAAGCTGAAATATCAATTTTCTTTAAATAAAAAAT
24313453 AT
66 AT
24313455 TTTAAAAAAA
Statistics
Matches: 59, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
66 16 0.27
67 40 0.68
68 3 0.05
ACGTcount: A:0.53, C:0.05, G:0.09, T:0.33
Consensus pattern (67 bp):
AAAAAATTATTTAAAAAAAAGATTTAAGGAAAAGCTGAAATATCAATTTTCTTTAAATAAAAAAT
AT
Found at i:24313497 original size:58 final size:56
Alignment explanation
Indices: 24313387--24313736 Score: 321
Period size: 57 Copynumber: 6.0 Consensus size: 56
24313377 ATAAAAATAT
* * *
24313387 ATAAAAAATATTTCAAAAAAAGA-TTTGAGGAAAAGTTGAAATATCAGTTTTCTTTAA
1 ATAAAAAATATTTTAAAAAAA-ATTTTGAGAAAAAGTTGAAATATCAATTTTC-TTAA
24313444 ATAAAAAATATTTTAAAAAAAATTTTGAGAAAAAGTTGAAATATCAAATTTTCTTAA
1 ATAAAAAATATTTTAAAAAAAATTTTGAGAAAAAGTTGAAATATC-AATTTTCTTAA
* ** *
24313501 ATAAAAAAAATATTTAAAAAATGTTTTGAGAAAAAGTTGAAGTATCAATTTTTCTTAA
1 ATAAAAAATAT-TTTAAAAAAAATTTTGAGAAAAAGTTGAAATATCAA-TTTTCTTAA
* * * * * *
24313559 ATAAAAAAAGGGTAATTCAAAACATATTTTAAGAAAAAGTTGAAATATCAATTTCTCTTCA
1 AT-AAAAAA---TATTTTAAAAAAAATTTTGAGAAAAAGTTGAAATATCAATTT-TCTTAA
* * * *
24313620 ATAAAAAAAGGTATTTTTAAAATATTATTTTTGAGAAAAA-TTTAAAGTATCAATTTTTCATAA
1 AT-AAAAAA--TA-TTTTAAAA-A-AAATTTTGAGAAAAAGTTGAAA-TATCAA-TTTTCTTAA
* *
24313683 AT-AAAAATATTTTAAAAAATTATTTAG-GAAAAAAGTTGAAATATCAATTTTCTT
1 ATAAAAAATATTTTAAAAAA-AATTTTGAG-AAAAAGTTGAAATATCAATTTTCTT
24313737 CCAAAAAAAA
Statistics
Matches: 245, Mismatches: 31, Indels: 35
0.79 0.10 0.11
Matches are distributed among these distances:
56 8 0.03
57 73 0.30
58 61 0.25
59 8 0.03
60 7 0.03
61 56 0.23
62 6 0.02
63 23 0.09
64 3 0.01
ACGTcount: A:0.50, C:0.05, G:0.09, T:0.36
Consensus pattern (56 bp):
ATAAAAAATATTTTAAAAAAAATTTTGAGAAAAAGTTGAAATATCAATTTTCTTAA
Found at i:24313608 original size:61 final size:59
Alignment explanation
Indices: 24313402--24314040 Score: 330
Period size: 58 Copynumber: 10.8 Consensus size: 59
24313392 AAATATTTCA
* * * *
24313402 AAAAAAGA-TTTGAGGAAAAGTTGAAATATC-AGTTTTCTTTAAAT-AAAAAA-TATTTT
1 AAAAAATATTTTGAGAAAAAGTTGAAATATCAATTTTTC-TTAAATAAAAAAAGTAATTT
* * *
24313458 AAAAAAAATTTTGAGAAAAAGTTGAAATATCAAATTTTCTTAAATAAAAAAAAT-ATTT
1 AAAAAATATTTTGAGAAAAAGTTGAAATATCAATTTTTCTTAAATAAAAAAAGTAATTT
* * *
24313516 AAAAAATGTTTTGAGAAAAAGTTGAAGTATCAATTTTTCTTAAATAAAAAAAGGGTAATTC
1 AAAAAATATTTTGAGAAAAAGTTGAAATATCAATTTTTCTTAAATAAAAAAA--GTAATTT
* * * * *
24313577 AAAACATATTTTAAGAAAAAGTTGAAATATCAATTTCTCTTCAATAAAAAAAGGTATTTTT
1 AAAAAATATTTTGAGAAAAAGTTGAAATATCAATTTTTCTTAAATAAAAAAA-GTA-ATTT
* * * *
24313638 AAAATATTATTTTTGAGAAAAA-TTTAAAGTATCAATTTTTCATAAAT--AAAAA-TATTTT
1 AAAA-AATA-TTTTGAGAAAAAGTTGAAA-TATCAATTTTTCTTAAATAAAAAAAGTAATTT
* **
24313696 AAAAAATTATTTAG-GAAAAAAGTTGAAATATCAA-TTTTCTTCCA-AAAAAAAG--ATTT
1 AAAAAA-TATTTTGAG-AAAAAGTTGAAATATCAATTTTTCTTAAATAAAAAAAGTAATTT
* * * * ** *
24313752 CAAAAATTTTTTTTTA-AAGACAAGTTGAACTATTGA-TTTTCTT--CTAAAAATATA-TATATT
1 -AAAAA-ATATTTTGAGAA-A-AAGTTGAAATATCAATTTTTCTTAAATAAAAA-A-AGTA-ATT
24313812 T
59 T
* * * * * * *
24313813 CAAAAAATGTTTTTAAAGAAAAGTT-AAAGTATCGATTTTTTTTAAATAATAAAAAAT-TTTT
1 -AAAAAATATTTTGAGA-AAAAGTTGAAA-TATCAATTTTTCTTAAATAA-AAAAAGTAATTT
* * * * * * *
24313874 AAAAAATATTTTTTTTAAGAAAAAATTGAAGTATCGATTTTTCTTAAGTACAAACAA-TAATAT
1 AAAAAATA----TTTTGAGAAAAAGTTGAAATATCAATTTTTCTTAAATA-AAAAAAGTAATTT
* * *
24313937 -ATAAAT-GTTTGAGAAAATGTT-AAAGTATCAATTTTT-TT-AATAAAAAAA-T-ATTT
1 AAAAAATATTTTGAGAAAAAGTTGAAA-TATCAATTTTTCTTAAATAAAAAAAGTAATTT
* * * * *
24313990 TAAAACTA-TTTAAGAAAAATAGTCGAAAGTATCAATTTTTTCCTAAATAAA
1 AAAAAATATTTTGAG-AAAA-AGTTGAAA-TATCAA-TTTTTCTTAAATAAA
24314041 GCACAAATTT
Statistics
Matches: 458, Mismatches: 73, Indels: 100
0.73 0.12 0.16
Matches are distributed among these distances:
53 3 0.01
54 15 0.03
55 7 0.02
56 26 0.06
57 94 0.21
58 103 0.22
59 7 0.02
60 35 0.08
61 81 0.18
62 15 0.03
63 60 0.13
64 12 0.03
ACGTcount: A:0.48, C:0.05, G:0.09, T:0.38
Consensus pattern (59 bp):
AAAAAATATTTTGAGAAAAAGTTGAAATATCAATTTTTCTTAAATAAAAAAAGTAATTT
Found at i:24314890 original size:13 final size:13
Alignment explanation
Indices: 24314835--24314882 Score: 80
Period size: 13 Copynumber: 3.8 Consensus size: 13
24314825 TTTTTAAAAT
*
24314835 AAAAATATAT-AA
1 AAAAATATTTCAA
24314847 AAAAATATTTCAA
1 AAAAATATTTCAA
24314860 AAAAATATTTCAA
1 AAAAATATTTCAA
24314873 AAAAATATTT
1 AAAAATATTT
24314883 GAAGAAAAGT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
12 9 0.26
13 25 0.74
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (13 bp):
AAAAATATTTCAA
Found at i:24314894 original size:79 final size:78
Alignment explanation
Indices: 24314769--24314925 Score: 205
Period size: 79 Copynumber: 2.0 Consensus size: 78
24314759 AAGAGCTATT
* *
24314769 AAAAAATTTTAAAAAAATTATTTCAAAAAATGTTTGCGAAAAAGTTGAAATATC-A-TTTTTTAA
1 AAAAAATTTTAAAAAAATTATTTCAAAAAATATTTGAGAAAAAGTTGAAATATCAATTTTTTTAA
24314832 AATAAAAATATATA
66 AATAAAAA-ATATA
*
24314846 AAAAAATATTTCAAAAAAA-TATTTCAAAAAAATATTTGA-AGAAAAGTTGAAGTATCAATTTTT
1 AAAAAAT-TTT-AAAAAAATTATTTC-AAAAAATATTTGAGA-AAAAGTTGAAATATCAA-TTTT
24314909 TTTAAAATAAAAAATAT
61 TTTAAAATAAAAAATAT
24314926 TTTTAAAAAA
Statistics
Matches: 70, Mismatches: 3, Indels: 10
0.84 0.04 0.12
Matches are distributed among these distances:
77 7 0.10
78 10 0.14
79 32 0.46
80 1 0.01
81 4 0.06
82 16 0.23
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.34
Consensus pattern (78 bp):
AAAAAATTTTAAAAAAATTATTTCAAAAAATATTTGAGAAAAAGTTGAAATATCAATTTTTTTAA
AATAAAAAATATA
Found at i:24314934 original size:58 final size:57
Alignment explanation
Indices: 24314859--24315461 Score: 350
Period size: 59 Copynumber: 10.4 Consensus size: 57
24314849 AAATATTTCA
**
24314859 AAAAAATATTTCAAAAAAATA-TTTGAAGAAAAGTTGAAGTATCAATTTTTTTTAAAAT
1 AAAAAATATTTTTAAAAAATATTTTGAAGAAAAGTTGAAGTATCAA-TTTTTTT-AAAT
* *
24314917 AAAAAATATTTTTAAAAAATATATTTTTAAGAAAAAGTTGAAGTATCAATTTTTTCAAAT
1 AAAAAATATTTTT-AAAAA-ATATTTTGAAG-AAAAGTTGAAGTATCAATTTTTTTAAAT
* *
24314977 AAAAAATA-TTTT-AAAAATATTTTG-AGAAAAAGCTGAAGTATTAATTTTTCTTAAAT
1 AAAAAATATTTTTAAAAAATATTTTGAAG-AAAAGTTGAAGTATCAATTTTT-TTAAAT
*** * * * **
24315033 AAAATAGGGTATTTCAAAAATATTTT-AAGGAAAAGTTGAAATATCAAATTTGCTTAAAT
1 AAAA-AATATTTTTAAAAAATATTTTGAA-GAAAAGTTGAAGTATC-AATTTTTTTAAAT
** * * * * *
24315092 AAAAAAAGGTATTTCCAAAAAAAAAAAACTTTTGAGGAAAAATTGAAATATCCAATTTTCTTAAA
1 -AAAAAA--TATTT----TTAAAAAATA-TTTTGAAGAAAAGTTGAAGTAT-CAATTTTTTTAAA
24315157 T
57 T
* * * *
24315158 -AAAAATA-TTTCAAAAATTTATTTTGAGGAAAAGTTGAAATATCAA---TTTTAAA-
1 AAAAAATATTTTTAAAAA-ATATTTTGAAGAAAAGTTGAAGTATCAATTTTTTTAAAT
* * * * * *
24315210 AAAATATA-TTTTAGAAAATATTTTTTAATAAAAAGTTGAAGTACCAAATTTCTTT---T
1 AAAAAATATTTTTAAAAAATA-TTTTGAA-GAAAAGTTGAAGTATC-AATTTTTTTAAAT
* * *
24315266 AAAAAATATATTTCAAAAAATATTTTTAAGAAAAAGTTGAAGTATCGATTTTTCTTAAAT
1 AAAAAATAT-TTTTAAAAAATATTTTGAAG-AAAAGTTGAAGTATCAATTTTT-TTAAAT
* * * *** * *
24315326 AATAAAAAATATTTCAATTTTGTTTTTGAA-AAAAATTGAAGTATCAATTTTTTTAAAAT
1 AA-AAAATATTTTTAAAAAAT-ATTTTGAAGAAAAGTTGAAGTATCAATTTTTTT-AAAT
* * * * *
24315385 AAAAAAAATAATATAAAAAAT-GTTTGAAGAAAAGTTGAAGTATCAATTTTCCTT--A-
1 AAAAAATAT-TTTTAAAAAATATTTTGAAGAAAAGTTGAAGTATCAATTTT-TTTAAAT
24315440 AAAAAATA-TTTT-AAAAATATTT
1 AAAAAATATTTTTAAAAAATATTT
24315462 AAGGAAAAAA
Statistics
Matches: 427, Mismatches: 74, Indels: 93
0.72 0.12 0.16
Matches are distributed among these distances:
52 8 0.02
53 28 0.07
54 13 0.03
55 32 0.07
56 32 0.07
57 60 0.14
58 57 0.13
59 74 0.17
60 33 0.08
61 28 0.07
62 19 0.04
64 5 0.01
65 6 0.01
66 30 0.07
67 2 0.00
ACGTcount: A:0.50, C:0.05, G:0.09, T:0.37
Consensus pattern (57 bp):
AAAAAATATTTTTAAAAAATATTTTGAAGAAAAGTTGAAGTATCAATTTTTTTAAAT
Found at i:24314940 original size:15 final size:14
Alignment explanation
Indices: 24314917--24314952 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 14
24314907 TTTTTAAAAT
24314917 AAAAAATATTTTTA
1 AAAAAATATTTTTA
24314931 AAAAATATATTTTTA
1 AAAAA-ATATTTTTA
24314946 AGAAAAA
1 A-AAAAA
24314953 GTTGAAGTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 5 0.25
15 11 0.55
16 4 0.20
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (14 bp):
AAAAAATATTTTTA
Found at i:24315299 original size:14 final size:14
Alignment explanation
Indices: 24315262--24315299 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
24315252 ACCAAATTTC
24315262 TTTTAAAAAATATA
1 TTTTAAAAAATATA
*
24315276 TTTCAAAAAATAT-
1 TTTTAAAAAATATA
24315289 TTTTAAGAAAA
1 TTTTAA-AAAA
24315300 AGTTGAAGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 5 0.24
14 16 0.76
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (14 bp):
TTTTAAAAAATATA
Found at i:24325334 original size:2 final size:2
Alignment explanation
Indices: 24325327--24325397 Score: 65
Period size: 2 Copynumber: 36.5 Consensus size: 2
24325317 TTCAGTAAGC
* ** *
24325327 TA TA TA TA TA TA TA TA TA TA TA -A AA TA -A GC TA TC TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
** *
24325367 CG TG TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
24325398 CTTCCGTATT
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
1 2 0.04
2 55 0.96
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.45
Consensus pattern (2 bp):
TA
Found at i:24325358 original size:30 final size:31
Alignment explanation
Indices: 24325322--24325380 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
24325312 TTAATTTCAG
24325322 TAAGCTATATATATA-TATATATATATAAAA
1 TAAGCTATATATATACTATATATATATAAAA
* *
24325352 TAAGCTATCTATATACGTGTATATATATA
1 TAAGCTATATATATAC-TATATATATATA
24325381 TATATATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 14 0.56
32 11 0.44
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.41
Consensus pattern (31 bp):
TAAGCTATATATATACTATATATATATAAAA
Found at i:24329060 original size:7 final size:7
Alignment explanation
Indices: 24329048--24329078 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
24329038 TAACTCTTAG
24329048 TTTTTAT
1 TTTTTAT
24329055 TTTTTAT
1 TTTTTAT
24329062 TTTTTAT
1 TTTTTAT
24329069 TTTTTAT
1 TTTTTAT
24329076 TTT
1 TTT
24329079 CTAATATCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (7 bp):
TTTTTAT
Found at i:24331419 original size:14 final size:14
Alignment explanation
Indices: 24331399--24331433 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
24331389 TTTGTTTCGC
24331399 AAAAAATAACTTTT
1 AAAAAATAACTTTT
* *
24331413 CAAAAATAATTTTT
1 AAAAAATAACTTTT
24331427 AAAAAAT
1 AAAAAAT
24331434 GTTTACATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (14 bp):
AAAAAATAACTTTT
Found at i:24331589 original size:10 final size:9
Alignment explanation
Indices: 24331551--24331600 Score: 52
Period size: 10 Copynumber: 5.7 Consensus size: 9
24331541 TTAATATAAC
24331551 TATTAAAA-
1 TATTAAAAT
24331559 TATTAAAAAT
1 TATT-AAAAT
*
24331569 TATT--TAT
1 TATTAAAAT
24331576 TATTAAAAT
1 TATTAAAAT
24331585 ATATTAAAAT
1 -TATTAAAAT
24331595 TATTAA
1 TATTAA
24331601 TATAAAAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
7 6 0.17
8 4 0.11
9 12 0.34
10 13 0.37
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (9 bp):
TATTAAAAT
Found at i:24331608 original size:25 final size:27
Alignment explanation
Indices: 24331558--24331610 Score: 74
Period size: 25 Copynumber: 2.0 Consensus size: 27
24331548 AACTATTAAA
* *
24331558 ATATTAAAAATTATTTATTATTAAAAT
1 ATATTAAAAATTATTTAATATAAAAAT
24331585 ATATT-AAAATTA-TTAATATAAAAAT
1 ATATTAAAAATTATTTAATATAAAAAT
24331610 A
1 A
24331611 ATTTATATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 12 0.50
26 7 0.29
27 5 0.21
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (27 bp):
ATATTAAAAATTATTTAATATAAAAAT
Found at i:24331722 original size:18 final size:15
Alignment explanation
Indices: 24331678--24331872 Score: 145
Period size: 15 Copynumber: 12.9 Consensus size: 15
24331668 ATAAAATTAT
**
24331678 TTATTTATTTTTATA
1 TTATTTATTAATATA
24331693 TTATTTATTAATATA
1 TTATTTATTAATATA
*
24331708 TTATTTATGAATA-A
1 TTATTTATTAATATA
*
24331722 -TATATATTAATATA
1 TTATTTATTAATATA
* *
24331736 TTATATTAATGATATA
1 TTAT-TTATTAATATA
24331752 TTATTTATTAATAATA
1 TTATTTATTAAT-ATA
24331768 TTA-TTA-TAATATTCA
1 TTATTTATTAATA-T-A
*
24331783 TTAATTAAATTAATA-A
1 TT-ATT-TATTAATATA
*
24331799 -TATTTATT-TTATA
1 TTATTTATTAATATA
24331812 -TATTTATTAATATA
1 TTATTTATTAATATA
* *
24331826 TTATATTAATAGTATA
1 TTAT-TTATTAATATA
24331842 TTATTTATTTATATAATA
1 TTATTTA-TTA-AT-ATA
*
24331860 TTATTTATAAATA
1 TTATTTATTAATA
24331873 AAATTATGCT
Statistics
Matches: 144, Mismatches: 19, Indels: 34
0.73 0.10 0.17
Matches are distributed among these distances:
12 2 0.01
13 23 0.16
14 14 0.10
15 48 0.33
16 37 0.26
17 4 0.03
18 11 0.08
19 5 0.03
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.56
Consensus pattern (15 bp):
TTATTTATTAATATA
Found at i:24331775 original size:24 final size:24
Alignment explanation
Indices: 24331748--24331864 Score: 81
Period size: 24 Copynumber: 5.0 Consensus size: 24
24331738 ATATTAATGA
24331748 TATATTATTTATTAATAATATTAT
1 TATATTATTTATTAATAATATTAT
* *
24331772 TATAATATTCATTAATTAA-ATTA-
1 TATATTATTTATTAA-TAATATTAT
* *
24331795 -ATAATATTTATT-TTATATATTTAT
1 TATATTATTTATTAATA-ATA-TTAT
*
24331819 TA-ATATATTATATTAATAGTA-TAT
1 TATAT-TATT-TATTAATAATATTAT
24331843 TAT-TTATTTA-T-ATAATATTAT
1 TATATTATTTATTAATAATATTAT
24331864 T
1 T
24331865 TATAAATAAA
Statistics
Matches: 74, Mismatches: 8, Indels: 25
0.69 0.07 0.23
Matches are distributed among these distances:
20 7 0.09
21 6 0.08
22 14 0.19
23 7 0.09
24 24 0.32
25 8 0.11
26 6 0.08
27 2 0.03
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (24 bp):
TATATTATTTATTAATAATATTAT
Found at i:24331790 original size:59 final size:59
Alignment explanation
Indices: 24331689--24331862 Score: 162
Period size: 59 Copynumber: 2.9 Consensus size: 59
24331679 TATTTATTTT
*
24331689 TATATTATTTATTAATATATTATTTATGAATAATATATATT-AA-TATATTATATTAATGA
1 TATATTATTTATTAATATATTA-TTATGAATAATATATATTAAATTA-ATAATATTAATGA
* * **
24331748 TATATTATTTATTAATAATATTATTAT-AATATTCAT-TAATTAAATTAATAATATTTATTT
1 TATATTATTTATTAAT-ATATTATTATGAATAAT-ATAT-ATTAAATTAATAATATTAATGA
* * * *
24331808 TATA-TATTTATTAATATATTA-TATTAATAGTATATTATTTATTTATATAATATTA
1 TATATTATTTATTAATATATTATTATGAATAATATA-TATTAAATTA-ATAATATTA
24331863 TTTATAAATA
Statistics
Matches: 97, Mismatches: 9, Indels: 18
0.78 0.07 0.15
Matches are distributed among these distances:
57 5 0.05
58 24 0.25
59 45 0.46
60 21 0.22
61 2 0.02
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.55
Consensus pattern (59 bp):
TATATTATTTATTAATATATTATTATGAATAATATATATTAAATTAATAATATTAATGA
Found at i:24331797 original size:33 final size:35
Alignment explanation
Indices: 24331758--24331822 Score: 98
Period size: 35 Copynumber: 1.9 Consensus size: 35
24331748 TATATTATTT
24331758 ATTAATAATA-TTATTATA-ATATTCATTAATTAA
1 ATTAATAATATTTATTATATATATTCATTAATTAA
* *
24331791 ATTAATAATATTTATTTTATATATTTATTAAT
1 ATTAATAATATTTATTATATATATTCATTAAT
24331823 ATATTATATT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 10 0.36
34 7 0.25
35 11 0.39
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.54
Consensus pattern (35 bp):
ATTAATAATATTTATTATATATATTCATTAATTAA
Found at i:24331843 original size:16 final size:15
Alignment explanation
Indices: 24331689--24331862 Score: 92
Period size: 13 Copynumber: 11.9 Consensus size: 15
24331679 TATTTATTTT
24331689 TATATTATT-TATTAA
1 TATA-TATTATATTAA
*
24331704 TATATTATT-TATGAA
1 TATA-TATTATATTAA
24331719 TA-ATA-TATATT-A
1 TATATATTATATTAA
24331731 -ATATATTATATTAA
1 TATATATTATATTAA
24331745 TGATATATTATTTATTAA
1 T-ATATATTA--TATTAA
24331763 TA-ATATTAT-TATAA
1 TATATATTATAT-TAA
*
24331777 TATTCATTAATTAAATTAA
1 TA-T-A-T-ATTATATTAA
*
24331796 TA-ATATT-TATT-T
1 TATATATTATATTAA
24331808 TATATATT-TATT-A
1 TATATATTATATTAA
24331821 -ATATATTATATTAA
1 TATATATTATATTAA
24331835 TAGTATATTAT-TT-A
1 TA-TATATTATATTAA
* *
24331849 TTTATATAATATTA
1 TATATATTATATTA
24331863 TTTATAAATA
Statistics
Matches: 129, Mismatches: 8, Indels: 44
0.71 0.04 0.24
Matches are distributed among these distances:
11 1 0.01
12 14 0.11
13 35 0.27
14 16 0.12
15 20 0.16
16 23 0.18
17 2 0.02
18 8 0.06
19 9 0.07
20 1 0.01
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.55
Consensus pattern (15 bp):
TATATATTATATTAA
Found at i:24332081 original size:13 final size:14
Alignment explanation
Indices: 24332055--24332082 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
24332045 TCTGAAAATA
24332055 TAAAAATTATTTTT
1 TAAAAATTATTTTT
24332069 TAAAAATTATTTTT
1 TAAAAATTATTTTT
24332083 CACAAAAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TAAAAATTATTTTT
Found at i:24332089 original size:15 final size:14
Alignment explanation
Indices: 24332056--24332089 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
24332046 CTGAAAATAT
*
24332056 AAAAATTATTTTTT
1 AAAAATTATTTTTC
24332070 AAAAATTATTTTTC
1 AAAAATTATTTTTC
24332084 ACAAAA
1 A-AAAA
24332090 ACAAACATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (14 bp):
AAAAATTATTTTTC
Found at i:24339165 original size:19 final size:19
Alignment explanation
Indices: 24339139--24339180 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
24339129 ACTAAATCTA
* *
24339139 AAATAAATTTTTA-TTATT
1 AAATAAAATTTAATTTATT
24339157 AAATAAAATTTAATTTATT
1 AAATAAAATTTAATTTATT
24339176 AAATA
1 AAATA
24339181 TATATAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
AAATAAAATTTAATTTATT
Found at i:24344590 original size:22 final size:22
Alignment explanation
Indices: 24344564--24344607 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
24344554 AGCATTTTAT
* * *
24344564 TTATAATTTTTTTATTATAATA
1 TTATAATTATTTAATTAGAATA
24344586 TTATAATTATTTAATTAGAATA
1 TTATAATTATTTAATTAGAATA
24344608 AAGATTTATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (22 bp):
TTATAATTATTTAATTAGAATA
Found at i:24344690 original size:10 final size:11
Alignment explanation
Indices: 24344647--24344691 Score: 58
Period size: 11 Copynumber: 4.1 Consensus size: 11
24344637 TTACTTCTAA
24344647 ATATAAATTTT
1 ATATAAATTTT
24344658 ATATAAAGTTTT
1 ATATAAA-TTTT
24344670 GATA-AAATTTT
1 -ATATAAATTTT
24344681 ATAT-AATTTT
1 ATATAAATTTT
24344691 A
1 A
24344692 ATTTATAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
10 10 0.32
11 11 0.35
12 7 0.23
13 3 0.10
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.51
Consensus pattern (11 bp):
ATATAAATTTT
Found at i:24344976 original size:14 final size:14
Alignment explanation
Indices: 24344935--24344989 Score: 58
Period size: 14 Copynumber: 3.9 Consensus size: 14
24344925 TCGAAATTAA
*
24344935 TAAAATATTATTTT
1 TAAAATATTATATT
* *
24344949 TTAAATATAAATATT
1 TAAAATAT-TATATT
*
24344964 TAAAATATTATATA
1 TAAAATATTATATT
24344978 TAAAATA-TATAT
1 TAAAATATTATAT
24344990 AAATAAAAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
13 5 0.15
14 18 0.53
15 11 0.32
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
TAAAATATTATATT
Found at i:24344990 original size:15 final size:15
Alignment explanation
Indices: 24344951--24344997 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
24344941 ATTATTTTTT
* *
24344951 AAATATAAATATTTA
1 AAATATATATATATA
24344966 AAATAT-TATATATA
1 AAATATATATATATA
*
24344980 AAATATATATAAATA
1 AAATATATATATATA
24344995 AAA
1 AAA
24344998 ATTTAAATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
14 12 0.43
15 16 0.57
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
AAATATATATATATA
Found at i:24344996 original size:29 final size:29
Alignment explanation
Indices: 24344928--24344997 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 29
24344918 GCTCGATTCG
* * * *
24344928 AAATTAATAAAATATTATTTTTTAAATAT
1 AAATAAATAAAATATTATATATAAAATAT
**
24344957 AAATATTTAAAATATTATATATAAAATAT
1 AAATAAATAAAATATTATATATAAAATAT
*
24344986 ATATAAATAAAA
1 AAATAAATAAAA
24344998 ATTTAAATAA
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (29 bp):
AAATAAATAAAATATTATATATAAAATAT
Found at i:24346072 original size:14 final size:15
Alignment explanation
Indices: 24346053--24346083 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
24346043 ATATACTATA
24346053 TAATTATA-ATATTT
1 TAATTATATATATTT
24346067 TAATTATATATATTT
1 TAATTATATATATTT
24346082 TA
1 TA
24346084 TTCGAGTTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TAATTATATATATTT
Found at i:24353388 original size:2 final size:2
Alignment explanation
Indices: 24353381--24353408 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
24353371 AGAAAATAAA
24353381 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
24353409 ATCCTTTTGT
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:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:24354230 original size:18 final size:18
Alignment explanation
Indices: 24354182--24354230 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
24354172 ATTAATTTAT
*
24354182 ATTTACAAATTA-AAAAA
1 ATTTATAAATTATAAAAA
*
24354199 ATTTATTAATTATAAAAA
1 ATTTATAAATTATAAAAA
24354217 A-TTATAAATATATA
1 ATTTATAAAT-TATA
24354231 TCAAATGATA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 17 0.63
18 10 0.37
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (18 bp):
ATTTATAAATTATAAAAA
Found at i:24360336 original size:18 final size:18
Alignment explanation
Indices: 24360309--24360343 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
24360299 TCTTCAGTGT
*
24360309 AAGAACAAAAACAACAAA
1 AAGAAAAAAAACAACAAA
*
24360327 AAGAAAAAAAATAACAA
1 AAGAAAAAAAACAACAA
24360344 GCATTAAACA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.80, C:0.11, G:0.06, T:0.03
Consensus pattern (18 bp):
AAGAAAAAAAACAACAAA
Found at i:24362153 original size:14 final size:14
Alignment explanation
Indices: 24362134--24362164 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
24362124 TAGGAATGTT
*
24362134 TTTTTTTATTATTA
1 TTTTTTAATTATTA
24362148 TTTTTTAATTATTA
1 TTTTTTAATTATTA
24362162 TTT
1 TTT
24362165 CATCCAAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTTTAATTATTA
Found at i:24365010 original size:24 final size:24
Alignment explanation
Indices: 24364983--24365048 Score: 59
Period size: 24 Copynumber: 2.8 Consensus size: 24
24364973 TTTCGATAAA
24364983 ATTAAAATTAATGATAAAGGTGAG
1 ATTAAAATTAATGATAAAGGTGAG
*
24365007 ATTAATTATT-ATGAT---GGTGAG
1 ATTAA-AATTAATGATAAAGGTGAG
24365028 ATTAAATATTATAATGATAAA
1 ATTAAA-A-T-TAATGATAAA
24365049 ATTAAAATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 13
0.68 0.04 0.28
Matches are distributed among these distances:
21 12 0.38
22 1 0.03
23 1 0.03
24 15 0.47
25 3 0.09
ACGTcount: A:0.47, C:0.00, G:0.17, T:0.36
Consensus pattern (24 bp):
ATTAAAATTAATGATAAAGGTGAG
Found at i:24365179 original size:26 final size:27
Alignment explanation
Indices: 24365150--24365200 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
24365140 AGTAAAAATT
24365150 ATATTAATAAAA-TAATAAATTATTTA
1 ATATTAATAAAATTAATAAATTATTTA
**
24365176 ATATTTGTAAAATTAATAAATTATT
1 ATATTAATAAAATTAATAAATTATT
24365201 AAAAATTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 10 0.45
27 12 0.55
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (27 bp):
ATATTAATAAAATTAATAAATTATTTA
Found at i:24365208 original size:27 final size:26
Alignment explanation
Indices: 24365157--24365208 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
24365147 ATTATATTAA
* *
24365157 TAAAATAATAAATTATTTAATATTTG
1 TAAAATAATAAATTATTAAAAATTTG
24365183 TAAAATTAATAAATTATTAAAAATTT
1 TAAAA-TAATAAATTATTAAAAATTT
24365209 TAATTTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 5 0.22
27 18 0.78
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (26 bp):
TAAAATAATAAATTATTAAAAATTTG
Found at i:24372010 original size:15 final size:15
Alignment explanation
Indices: 24371986--24372015 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
24371976 ATAAAAATAA
*
24371986 TTTTATATTTAAAAT
1 TTTTAAATTTAAAAT
24372001 TTTTAAATTTAAAAT
1 TTTTAAATTTAAAAT
24372016 AGATATATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TTTTAAATTTAAAAT
Found at i:24372438 original size:2 final size:2
Alignment explanation
Indices: 24372431--24372464 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
24372421 GTATTATGTA
24372431 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24372465 TAGATAAGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24385626 original size:27 final size:27
Alignment explanation
Indices: 24385558--24385643 Score: 111
Period size: 27 Copynumber: 3.2 Consensus size: 27
24385548 CGGAGTTGAC
* * *
24385558 GGAGTGCCAAATGCCGGCGCCGAAGAA
1 GGAGTTCCAAACGCCGGCGTCGAAGAA
* *
24385585 GG-GTACCAAACGCCGGAGTCGAAGAA
1 GGAGTTCCAAACGCCGGCGTCGAAGAA
*
24385611 GGAGTTCCAAACGCCGGCGTCGAAGAG
1 GGAGTTCCAAACGCCGGCGTCGAAGAA
24385638 GGAGTT
1 GGAGTT
24385644 GCGAAGGCAG
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
26 22 0.43
27 29 0.57
ACGTcount: A:0.29, C:0.23, G:0.37, T:0.10
Consensus pattern (27 bp):
GGAGTTCCAAACGCCGGCGTCGAAGAA
Found at i:24389992 original size:24 final size:24
Alignment explanation
Indices: 24389965--24390010 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
24389955 AAATGTTTAT
*
24389965 AAAATATGA-AAATTTTAAAATTA
1 AAAAAATGATAAATTTTAAAATTA
* *
24389988 AAAAAATTATATATTTTAAAATT
1 AAAAAATGATAAATTTTAAAATT
24390011 TATTTTCAGT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (24 bp):
AAAAAATGATAAATTTTAAAATTA
Found at i:24390063 original size:15 final size:15
Alignment explanation
Indices: 24390026--24390081 Score: 60
Period size: 15 Copynumber: 3.7 Consensus size: 15
24390016 TCAGTAAATA
*
24390026 TTTAATATATTTAATT
1 TTTAAT-TATATAATT
* *
24390042 ATAAATTATATAATT
1 TTTAATTATATAATT
*
24390057 TTTAATTATATTATT
1 TTTAATTATATAATT
24390072 TTTAA-TATAT
1 TTTAATTATAT
24390082 TTTTATTGTA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
14 5 0.15
15 25 0.74
16 4 0.12
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TTTAATTATATAATT
Found at i:24390077 original size:22 final size:24
Alignment explanation
Indices: 24390020--24390083 Score: 73
Period size: 22 Copynumber: 2.8 Consensus size: 24
24390010 TTATTTTCAG
24390020 TAAA-TATTTAATATATTTAATTA
1 TAAATTATTTAATATATTTAATTA
*
24390043 TAAATTATATAAT-T-TTTAATTA
1 TAAATTATTTAATATATTTAATTA
*
24390065 TATTATT-TTTAATATATTT
1 TA-AATTATTTAATATATTT
24390084 TTATTGTATT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
22 15 0.44
23 9 0.26
24 10 0.29
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (24 bp):
TAAATTATTTAATATATTTAATTA
Found at i:24390093 original size:25 final size:27
Alignment explanation
Indices: 24390049--24390100 Score: 72
Period size: 25 Copynumber: 2.0 Consensus size: 27
24390039 ATTATAAATT
*
24390049 ATATAATTTTTAATTATATTATTTTTA
1 ATATAATTTTTAATTATATTAATTTTA
*
24390076 ATAT-ATTTTT-ATTGTATTAATTTTA
1 ATATAATTTTTAATTATATTAATTTTA
24390101 TATTAATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 13 0.57
26 6 0.26
27 4 0.17
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (27 bp):
ATATAATTTTTAATTATATTAATTTTA
Found at i:24390331 original size:14 final size:14
Alignment explanation
Indices: 24390259--24390332 Score: 50
Period size: 14 Copynumber: 5.4 Consensus size: 14
24390249 TATTAATTTA
*
24390259 AATTATTAATATTAT
1 AATTATTAATAAT-T
*
24390274 AATTGATTAAT-ATA
1 AATT-ATTAATAATT
*
24390288 AATGA-TAATAA-T
1 AATTATTAATAATT
*
24390300 -ATTATTAAT-ATG
1 AATTATTAATAATT
24390312 ATATTATTAATAATT
1 A-ATTATTAATAATT
24390327 AATTAT
1 AATTAT
24390333 ATATAATAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 15
0.67 0.10 0.22
Matches are distributed among these distances:
11 4 0.09
12 8 0.18
13 2 0.04
14 17 0.38
15 8 0.18
16 6 0.13
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (14 bp):
AATTATTAATAATT
Found at i:24390494 original size:31 final size:31
Alignment explanation
Indices: 24390428--24390495 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
24390418 TATTAGAGAT
* *
24390428 ATTAAATTTTAAATTTTATGTAATTACAAAA
1 ATTAAATTTTAAATTTCATGTAAGTACAAAA
* * *
24390459 ATTAAATTTTAAATTTCATGTGAGTATAAAG
1 ATTAAATTTTAAATTTCATGTAAGTACAAAA
24390490 ATTAAA
1 ATTAAA
24390496 ATACAAATTC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.43
Consensus pattern (31 bp):
ATTAAATTTTAAATTTCATGTAAGTACAAAA
Found at i:24391450 original size:15 final size:15
Alignment explanation
Indices: 24391427--24391482 Score: 71
Period size: 15 Copynumber: 3.8 Consensus size: 15
24391417 TTAAAAAGTA
*
24391427 TAAATTAATTTTGAT
1 TAAAATAATTTTGAT
*
24391442 TAAAATAATTTTTA-
1 TAAAATAATTTTGAT
24391456 T-AAATAAATTTTGAT
1 TAAAAT-AATTTTGAT
24391471 TAAAATAATTTT
1 TAAAATAATTTT
24391483 AAAAAATTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
13 4 0.11
14 8 0.23
15 19 0.54
16 4 0.11
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (15 bp):
TAAAATAATTTTGAT
Found at i:24391465 original size:29 final size:29
Alignment explanation
Indices: 24391425--24391482 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
24391415 AATTAAAAAG
*
24391425 TATAAATTAATTTTGATTAAAATAATTTT
1 TATAAATAAATTTTGATTAAAATAATTTT
24391454 TATAAATAAATTTTGATTAAAATAATTTT
1 TATAAATAAATTTTGATTAAAATAATTTT
24391483 AAAAAATTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (29 bp):
TATAAATAAATTTTGATTAAAATAATTTT
Found at i:24391489 original size:29 final size:29
Alignment explanation
Indices: 24391428--24391489 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 29
24391418 TAAAAAGTAT
* * *
24391428 AAATTAATTTTGATTAAAATAATTTTTAT
1 AAATAAATTTTGATTAAAATAATTTTAAA
24391457 AAATAAATTTTGATTAAAATAATTTTAAA
1 AAATAAATTTTGATTAAAATAATTTTAAA
24391486 AAAT
1 AAAT
24391490 TATATTTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (29 bp):
AAATAAATTTTGATTAAAATAATTTTAAA
Found at i:24391767 original size:19 final size:17
Alignment explanation
Indices: 24391733--24391776 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
24391723 TGAAGATTTA
* *
24391733 AAATTACTATTTAATAAC
1 AAATTATTATTAAAT-AC
24391751 AAATATATTATTAAATAC
1 AAAT-TATTATTAAATAC
24391769 AAATTATT
1 AAATTATT
24391777 GTGACTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 4 0.17
18 10 0.43
19 9 0.39
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (17 bp):
AAATTATTATTAAATAC
Found at i:24395220 original size:22 final size:22
Alignment explanation
Indices: 24395170--24395220 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
24395160 TTTTATTTAT
*
24395170 AAATTTATTTAAATACATTAAA
1 AAATTTATTAAAATACATTAAA
**
24395192 ATTTTTATTAAAATA-ATATAAA
1 AAATTTATTAAAATACAT-TAAA
24395214 AAATTTA
1 AAATTTA
24395221 AAATATAAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
21 2 0.09
22 21 0.91
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
AAATTTATTAAAATACATTAAA
Found at i:24408770 original size:56 final size:55
Alignment explanation
Indices: 24408667--24408773 Score: 128
Period size: 56 Copynumber: 1.9 Consensus size: 55
24408657 ACATCAACTA
* * * *
24408667 AATGCTATGTTTCTAATTTAGGAAACGTAGTTTTTGGTGAATTTTTTTTTTTATT
1 AATGCTATGTTTATAATTTAGGAAACGTAATTTTTGGTAAATATTTTTTTTTATT
*
24408722 AATGACTATGTTTATACTTTTA-GAAACGTAATTTTT-GTAAAATATTTTTTTT
1 AATG-CTATGTTTATA-ATTTAGGAAACGTAATTTTTGGT-AAATATTTTTTTT
24408774 AGTCTTAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
55 6 0.14
56 34 0.77
57 4 0.09
ACGTcount: A:0.28, C:0.06, G:0.13, T:0.53
Consensus pattern (55 bp):
AATGCTATGTTTATAATTTAGGAAACGTAATTTTTGGTAAATATTTTTTTTTATT
Found at i:24408931 original size:107 final size:107
Alignment explanation
Indices: 24408818--24409028 Score: 287
Period size: 107 Copynumber: 2.0 Consensus size: 107
24408808 TAAGTTAATG
* * * *
24408818 AATCTCACCAAATCTTCTCATTTTACTTTTCCAAGGATTTTTTTTTTACAACAAAAAATTACAAA
1 AATCTCACAAAATCTTCTCATTTTACTTTTCCAAGAACTTTTTTTTTACAACAAAAAACTACAAA
* * *
24408883 GACTACCTTTTTTATGTAAGAAATGTAGTCTTTGTGCACTGA
66 AACTACCTTTCTTATGTAAGAAATGTAGTCTTTATGCACTGA
* * * * * *
24408925 AATCTCACAAAATCTTTTCATTTTATTTTTTCAAGAACTTTTTTTTTATAACCAAAAACTATAAA
1 AATCTCACAAAATCTTCTCATTTTACTTTTCCAAGAACTTTTTTTTTACAACAAAAAACTACAAA
* *
24408990 AACTACCTTTCTTATGTAAGAGATGTAGTTTTTATGCAC
66 AACTACCTTTCTTATGTAAGAAATGTAGTCTTTATGCAC
24409029 AAAAGCAAAA
Statistics
Matches: 89, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
107 89 1.00
ACGTcount: A:0.34, C:0.17, G:0.08, T:0.42
Consensus pattern (107 bp):
AATCTCACAAAATCTTCTCATTTTACTTTTCCAAGAACTTTTTTTTTACAACAAAAAACTACAAA
AACTACCTTTCTTATGTAAGAAATGTAGTCTTTATGCACTGA
Found at i:24409188 original size:101 final size:102
Alignment explanation
Indices: 24409065--24409312 Score: 293
Period size: 105 Copynumber: 2.4 Consensus size: 102
24409055 TAAGTCAATG
* * *
24409065 AATCTCACCAAATCTCCTC-TTTTACTTTTCTAAGAATTTTTACAACAAAAAATTACAAAGACTA
1 AATCTCATCAAATCTTCTCATTTTACTTTTCTAAGAATTTTTACAACAAAAAACTACAAAGACTA
* * * * * *
24409129 CCTTTCTTATGTAAGAAAGGTATTCTTTATGCATTAA
66 CCCTTCTTATGTAAGAAACGAAATATTTATGCATCAA
* * * * *
24409166 AATCTCATCAAATCTTCTCTTTTTAC-TATCTCAAAAACTTTTTTTACAATAAAAAACTATAAAG
1 AATCTCATCAAATCTTCTCATTTTACTTTTCT-AAGAA---TTTTTACAACAAAAAACTACAAAG
*
24409230 ACTACCCTTCTTATGTAAGAAACGAAATATTTGTGCATCAA
62 ACTACCCTTCTTATGTAAGAAACGAAATATTTATGCATCAA
* *
24409271 AATCTCATCAAATCTTCTCATTTTACTTTGCCAAGAATTTTT
1 AATCTCATCAAATCTTCTCATTTTACTTTTCTAAGAATTTTT
24409313 TTTAGAATAA
Statistics
Matches: 122, Mismatches: 19, Indels: 11
0.80 0.12 0.07
Matches are distributed among these distances:
101 21 0.17
102 15 0.12
105 84 0.69
106 2 0.02
ACGTcount: A:0.36, C:0.19, G:0.06, T:0.38
Consensus pattern (102 bp):
AATCTCATCAAATCTTCTCATTTTACTTTTCTAAGAATTTTTACAACAAAAAACTACAAAGACTA
CCCTTCTTATGTAAGAAACGAAATATTTATGCATCAA
Found at i:24409243 original size:105 final size:105
Alignment explanation
Indices: 24409101--24409326 Score: 301
Period size: 105 Copynumber: 2.2 Consensus size: 105
24409091 TTTCTAAGAA
* * * * * * * *
24409101 TTTTTACAACAAAAAATTACAAAGACTACCTTTCTTATGTAAGAAAGGTATTCTTTATGCATTAA
1 TTTTTACAATAAAAAACTACAAAGACTACCCTTCTTATGTAAGAAACGAAATATTTATGCATCAA
*
24409166 AATCTCATCAAATCTTCTCTTTTTACTAT-CTCAAAAACTT
66 AATCTCATCAAATCTTCTCATTTTACTATGC-CAAAAACTT
* *
24409206 TTTTTACAATAAAAAACTATAAAGACTACCCTTCTTATGTAAGAAACGAAATATTTGTGCATCAA
1 TTTTTACAATAAAAAACTACAAAGACTACCCTTCTTATGTAAGAAACGAAATATTTATGCATCAA
* * *
24409271 AATCTCATCAAATCTTCTCATTTTACTTTGCCAAGAATTT
66 AATCTCATCAAATCTTCTCATTTTACTATGCCAAAAACTT
*
24409311 TTTTTAGAATAAAAAA
1 TTTTTACAATAAAAAA
24409327 AAATTATGGG
Statistics
Matches: 105, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
105 104 0.99
106 1 0.01
ACGTcount: A:0.39, C:0.17, G:0.07, T:0.38
Consensus pattern (105 bp):
TTTTTACAATAAAAAACTACAAAGACTACCCTTCTTATGTAAGAAACGAAATATTTATGCATCAA
AATCTCATCAAATCTTCTCATTTTACTATGCCAAAAACTT
Found at i:24410563 original size:29 final size:31
Alignment explanation
Indices: 24410529--24410587 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 31
24410519 ATTGTTTAGA
* *
24410529 TTGTAATTTCGTTAAA-AAAA-TAATGATAC
1 TTGTAATTTCATTAAATAAAAGCAATGATAC
24410558 TTGTAATTTCATTAAATAAAAGCAATGATA
1 TTGTAATTTCATTAAATAAAAGCAATGATA
24410588 GACGATCTAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 15 0.58
30 4 0.15
31 7 0.27
ACGTcount: A:0.46, C:0.07, G:0.10, T:0.37
Consensus pattern (31 bp):
TTGTAATTTCATTAAATAAAAGCAATGATAC
Found at i:24414358 original size:18 final size:18
Alignment explanation
Indices: 24414328--24414372 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
24414318 AAAAATAAAA
*
24414328 AAAATCATAAAAATAATTTT
1 AAAAT-ATAAAAA-AAGTTT
24414348 AAAATATAAAAAAAGTTT
1 AAAATATAAAAAAAGTTT
*
24414366 AAGATAT
1 AAAATAT
24414373 TCAAAAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 11 0.48
19 7 0.30
20 5 0.22
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.31
Consensus pattern (18 bp):
AAAATATAAAAAAAGTTT
Found at i:24416889 original size:29 final size:29
Alignment explanation
Indices: 24416825--24416881 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
24416815 TTTTAATTAT
* * *
24416825 AATTTATCTCACTGTTGATGTACTTTTAC
1 AATTTATCTCACTATTGATATACTTCTAC
24416854 AATTTATCTCACTATTGATATACTTCTA
1 AATTTATCTCACTATTGATATACTTCTA
24416882 TAGATTATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.28, C:0.18, G:0.07, T:0.47
Consensus pattern (29 bp):
AATTTATCTCACTATTGATATACTTCTAC
Found at i:24423365 original size:19 final size:19
Alignment explanation
Indices: 24423341--24423383 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
24423331 ATTTAGTCAT
24423341 ATACCTCTTCAGTAGCCAC
1 ATACCTCTTCAGTAGCCAC
24423360 ATACCTCTTCAGTAGCCAC
1 ATACCTCTTCAGTAGCCAC
24423379 ATACC
1 ATACC
24423384 ATACATATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.28, C:0.37, G:0.09, T:0.26
Consensus pattern (19 bp):
ATACCTCTTCAGTAGCCAC
Found at i:24433967 original size:30 final size:30
Alignment explanation
Indices: 24433899--24433968 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 30
24433889 TTTTTATTAT
* *
24433899 ATCTAAATAAGTTATTAATTCTTAATTTGC
1 ATCTAAATAAATTATTAATTCTTAATTTGA
*
24433929 ATCCAAATAAATTATTAA-TCTTTAATTTGTA
1 ATCTAAATAAATTATTAATTC-TTAATTTG-A
24433960 AT-TAAATAA
1 ATCTAAATAA
24433969 GCCTTTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
29 2 0.06
30 30 0.88
31 2 0.06
ACGTcount: A:0.43, C:0.09, G:0.04, T:0.44
Consensus pattern (30 bp):
ATCTAAATAAATTATTAATTCTTAATTTGA
Found at i:24434663 original size:70 final size:71
Alignment explanation
Indices: 24434403--24435047 Score: 391
Period size: 71 Copynumber: 9.1 Consensus size: 71
24434393 GGACTACATT
* * * * * ** * * *
24434403 TTTTTATCTTAAAAACATAATCTTTATTAAGATTTCAAAATTTCGATAATAAAGTTTTAACATCT
1 TTTTTATCTTAAAAACATGATTTTTGTTAAAATTTTAAAATTTTAAAAATAAAATTTCAACATCT
**
24434468 ACTATGT
66 ACTA-CA
* * * *
24434475 TTTTTATATT-AAAA-ATGCAATCTTTTGTTAAAATTTTATAATTTTGAAAACAAAATTTCAACA
1 TTTTTATCTTAAAAACATG--AT-TTTTGTTAAAATTTTAAAATTTTAAAAATAAAATTTCAACA
* * *
24434538 TCCATTACTT
63 TCTACTAC-A
* * * * * * **
24434548 TTTTTATCCTAAAAA-ATGGTATGTGGTAAAA-TTTAGAATTCCAAAAATAAAATTTCAACAT-T
1 TTTTTATCTTAAAAACATGATTTTTGTTAAAATTTTAAAATTTTAAAAATAAAATTTCAACATCT
* *
24434610 CATTACG
66 -ACTACA
* * * *
24434617 TTTTTATCTTAAAAACACT-ATTTTTGTT-AAATTCTAAAATTTCAAAAATAAAGTTTTAACATC
1 TTTTTATCTTAAAAACA-TGATTTTTGTTAAAATTTTAAAATTTTAAAAATAAAATTTCAACATC
*
24434680 TACTATA
65 TACTACA
* * * ** *
24434687 TTTTTAT-TT-AAAATATGATTTTTGTTAAAATTTTAAAAATTTGAAAATATAGCTTT-GACATC
1 TTTTTATCTTAAAAACATGATTTTTGTTAAAATTTTAAAATTTTAAAAATA-AAATTTCAACATC
* * *
24434749 GATTATA
65 TACTACA
* * * * * * * * *
24434756 TTTGTATCCTAAAAACAT-AGTATTTGGTAAAATTCTAAAATTTTGAAAATATAGTTTCAACGT-
1 TTTTTATCTTAAAAACATGA-TTTTTGTTAAAATTTTAAAATTTTAAAAATAAAATTTCAACATC
*
24434819 TCACTATA
65 T-ACTACA
* * * * * ** *
24434827 TTTTTATCTTAAAAATATAATCTTTGTTAAAATTTTACAATTTTAAAAAT-ATATTTTTATATCT
1 TTTTTATCTTAAAAACATGATTTTTGTTAAAATTTTAAAATTTTAAAAATAAAATTTCAACATCT
*
24434891 ATTACA
66 ACTACA
* * * ** *
24434897 TTTTTATTTTGAAAACACGATTTTTTGTTAAAATTCCAAAATTTTGAAAAAAAAAATATTTCAAC
1 TTTTTATCTTAAAAACATGA-TTTTTGTTAAAATTTTAAAATTTT--AAAAATAAA-ATTTCAAC
24434962 ATCTACTAC-
62 ATCTACTACA
* * * *
24434971 TATTTTATCTTAAAAACATGGTATGTGTTAAAATTTTAAAATTTTAAAAATATAATTTCAACATC
1 T-TTTTATCTTAAAAACATGATTTTTGTTAAAATTTTAAAATTTTAAAAATAAAATTTCAACATC
* *
24435036 CACTATA
65 TACTACA
24435043 TTTTT
1 TTTTT
24435048 TAATTTAAAA
Statistics
Matches: 437, Mismatches: 109, Indels: 55
0.73 0.18 0.09
Matches are distributed among these distances:
67 1 0.00
68 14 0.03
69 53 0.12
70 106 0.24
71 135 0.31
72 21 0.05
73 50 0.11
74 29 0.07
75 28 0.06
ACGTcount: A:0.40, C:0.10, G:0.06, T:0.44
Consensus pattern (71 bp):
TTTTTATCTTAAAAACATGATTTTTGTTAAAATTTTAAAATTTTAAAAATAAAATTTCAACATCT
ACTACA
Found at i:24435432 original size:29 final size:29
Alignment explanation
Indices: 24435372--24435428 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 29
24435362 GTAAAGACTC
24435372 ATTTAAATAAAAATTAAAAATAAAAAATT
1 ATTTAAATAAAAATTAAAAATAAAAAATT
*
24435401 ATTTAAAT-ATAA-TAAAAATATAAAAATT
1 ATTTAAATAAAAATTAAAAATA-AAAAATT
24435429 TATTAAAAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 8 0.31
28 10 0.38
29 8 0.31
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (29 bp):
ATTTAAATAAAAATTAAAAATAAAAAATT
Found at i:24435774 original size:14 final size:14
Alignment explanation
Indices: 24435755--24435796 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
24435745 ATCATATCTC
24435755 ATAATTTAAAATAA
1 ATAATTTAAAATAA
* *
24435769 ATAATTATAAATTAT
1 ATAATT-TAAAATAA
24435784 AT-ATTTAAAATAA
1 ATAATTTAAAATAA
24435797 TTTTAATAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
13 6 0.26
14 9 0.39
15 8 0.35
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
ATAATTTAAAATAA
Found at i:24438384 original size:11 final size:11
Alignment explanation
Indices: 24438370--24438404 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
24438360 ACAATAAACG
24438370 AATGAATTTTA
1 AATGAATTTTA
24438381 AATGAATTTTA
1 AATGAATTTTA
*
24438392 AATGAACTTTA
1 AATGAATTTTA
24438403 AA
1 AA
24438405 CGAGTTTGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.49, C:0.03, G:0.09, T:0.40
Consensus pattern (11 bp):
AATGAATTTTA
Found at i:24438523 original size:22 final size:22
Alignment explanation
Indices: 24438495--24438541 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
24438485 TGTTTGAAAT
24438495 AATTTGTTAAGCTCAATAAACG
1 AATTTGTTAAGCTCAATAAACG
24438517 AATTTGTTAAGCTCAATAAACG
1 AATTTGTTAAGCTCAATAAACG
24438539 AAT
1 AAT
24438542 ATAAATGAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.32
Consensus pattern (22 bp):
AATTTGTTAAGCTCAATAAACG
Found at i:24439633 original size:2 final size:2
Alignment explanation
Indices: 24439626--24439652 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
24439616 TTGCCTGCTT
24439626 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
24439653 ATATATATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:24439657 original size:2 final size:2
Alignment explanation
Indices: 24439652--24439676 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
24439642 TCTCTCTCTC
24439652 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 T
24439677 TTTCTCTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:24451983 original size:24 final size:24
Alignment explanation
Indices: 24451956--24452009 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
24451946 CAAAAACATA
24451956 ACATGTAATCAACCACTTAAGATG
1 ACATGTAATCAACCACTTAAGATG
*
24451980 ACATGTAATCAATCACTTAAGATG
1 ACATGTAATCAACCACTTAAGATG
24452004 ACATGT
1 ACATGT
24452010 CATTTTATGG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.41, C:0.19, G:0.13, T:0.28
Consensus pattern (24 bp):
ACATGTAATCAACCACTTAAGATG
Found at i:24452487 original size:30 final size:30
Alignment explanation
Indices: 24452380--24452487 Score: 87
Period size: 30 Copynumber: 3.6 Consensus size: 30
24452370 TTTATTACAT
*
24452380 CTAAATAAACCCTTAA-TTTTTA-TTTTAC
1 CTAAATAAACCCTTAACTTTTAATTTTTAC
* * *
24452408 TCACAAATAAACCCTCAAACTTTTAATTTGTATC
1 -C-TAAATAAACCCT-TAACTTTTAATTTTTA-C
** * *
24452442 C-AAATAAGTCATTAACCTTTAATTTTTAC
1 CTAAATAAACCCTTAACTTTTAATTTTTAC
24452471 CTAAATAAACCCTTAAC
1 CTAAATAAACCCTTAAC
24452488 ATATATCAAT
Statistics
Matches: 60, Mismatches: 13, Indels: 11
0.71 0.15 0.13
Matches are distributed among these distances:
29 3 0.05
30 36 0.60
31 10 0.17
32 5 0.08
33 5 0.08
34 1 0.02
ACGTcount: A:0.39, C:0.21, G:0.02, T:0.38
Consensus pattern (30 bp):
CTAAATAAACCCTTAACTTTTAATTTTTAC
Found at i:24455726 original size:31 final size:29
Alignment explanation
Indices: 24455691--24455789 Score: 80
Period size: 30 Copynumber: 3.4 Consensus size: 29
24455681 ATAATCAACG
24455691 AAATTGAAAAGTACTGTAACAAAATTCAATA
1 AAATT-AAAAGTA-TGTAACAAAATTCAATA
* **
24455722 AAATTAAAA--ATATAA-AATAA-TCAACG
1 AAATTAAAAGTATGTAACAA-AATTCAATA
*
24455748 AAATTGAAAAGTATTGTGACAAAATTCAATA
1 AAATT-AAAAGTA-TGTAACAAAATTCAATA
*
24455779 AGATTAAAAGT
1 AAATTAAAAGT
24455790 TCAATGAATT
Statistics
Matches: 53, Mismatches: 8, Indels: 15
0.70 0.11 0.20
Matches are distributed among these distances:
26 11 0.21
27 10 0.19
28 1 0.02
29 1 0.02
30 15 0.28
31 15 0.28
ACGTcount: A:0.57, C:0.07, G:0.10, T:0.26
Consensus pattern (29 bp):
AAATTAAAAGTATGTAACAAAATTCAATA
Found at i:24455757 original size:19 final size:19
Alignment explanation
Indices: 24455678--24455757 Score: 51
Period size: 19 Copynumber: 4.2 Consensus size: 19
24455668 AAGTTTTTAT
24455678 AAAATAATCAACGAAATTG
1 AAAATAATCAACGAAATTG
* * * *
24455697 AAAAGTACTGTAACAAAATTC
1 AAAA-TAAT-CAACGAAATTG
*
24455718 AATAA-AATTAA--AAATAT-
1 AA-AATAATCAACGAAAT-TG
24455735 AAAATAATCAACGAAATTG
1 AAAATAATCAACGAAATTG
24455754 AAAA
1 AAAA
24455758 GTATTGTGAC
Statistics
Matches: 47, Mismatches: 6, Indels: 16
0.68 0.09 0.23
Matches are distributed among these distances:
16 2 0.04
17 11 0.23
18 2 0.04
19 15 0.32
20 5 0.11
21 10 0.21
22 2 0.04
ACGTcount: A:0.61, C:0.09, G:0.07, T:0.23
Consensus pattern (19 bp):
AAAATAATCAACGAAATTG
Found at i:24455770 original size:57 final size:57
Alignment explanation
Indices: 24455675--24455787 Score: 199
Period size: 57 Copynumber: 2.0 Consensus size: 57
24455665 GTTAAGTTTT
24455675 TATAAAATAATCAACGAAATTGAAAAGTACTGTAACAAAATTCAATAAAATTAAAAA
1 TATAAAATAATCAACGAAATTGAAAAGTACTGTAACAAAATTCAATAAAATTAAAAA
* * *
24455732 TATAAAATAATCAACGAAATTGAAAAGTATTGTGACAAAATTCAATAAGATTAAAA
1 TATAAAATAATCAACGAAATTGAAAAGTACTGTAACAAAATTCAATAAAATTAAAA
24455788 GTTCAATGAA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 53 1.00
ACGTcount: A:0.58, C:0.08, G:0.09, T:0.26
Consensus pattern (57 bp):
TATAAAATAATCAACGAAATTGAAAAGTACTGTAACAAAATTCAATAAAATTAAAAA
Found at i:24456130 original size:15 final size:15
Alignment explanation
Indices: 24456110--24456139 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
24456100 TTCATTTTAA
*
24456110 TTTAATGATAATAAT
1 TTTAATAATAATAAT
24456125 TTTAATAATAATAAT
1 TTTAATAATAATAAT
24456140 AATTTTAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (15 bp):
TTTAATAATAATAAT
Found at i:24456138 original size:18 final size:18
Alignment explanation
Indices: 24456112--24456160 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
24456102 CATTTTAATT
*
24456112 TAATGATAATAATTTTAA
1 TAATAATAATAATTTTAA
24456130 TAATAATAATAATTTTAA
1 TAATAATAATAATTTTAA
*
24456148 -AAAATATAATAAT
1 TAATA-ATAATAAT
24456161 AAAAAAAAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 3 0.11
18 25 0.89
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (18 bp):
TAATAATAATAATTTTAA
Found at i:24460227 original size:39 final size:39
Alignment explanation
Indices: 24460173--24460247 Score: 123
Period size: 39 Copynumber: 1.9 Consensus size: 39
24460163 AAGAGAATCC
* *
24460173 ATCTATATTTAAAATTAAAACTATCCCCTTCTTATTTAT
1 ATCTATACTTAAAATTAAAACTATCACCTTCTTATTTAT
*
24460212 ATCTATACTTAAAATTAAAACTGTCACCTTCTTATT
1 ATCTATACTTAAAATTAAAACTATCACCTTCTTATT
24460248 ATAACAAGGG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.36, C:0.19, G:0.01, T:0.44
Consensus pattern (39 bp):
ATCTATACTTAAAATTAAAACTATCACCTTCTTATTTAT
Found at i:24471582 original size:47 final size:48
Alignment explanation
Indices: 24471524--24472028 Score: 449
Period size: 47 Copynumber: 10.6 Consensus size: 48
24471514 TTGAGAACAT
* * *
24471524 ATGAGATTTTTAAAGTTGTTGAGCCTCTACTTAGAGGAATTTTTTCATG
1 ATGA-ATTTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAACTTTTTCAAG
* *
24471573 ATGAA-TTTTAAAGTTGTTAAGCCTCTGCTTAGAGGAGCTTTTTCAAG
1 ATGAATTTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAACTTTTTCAAG
* * * * *
24471620 ATGAATTTTTAAAGTTGCTGAGCCTCTACTTAGAGAAATTTTTTCATG
1 ATGAATTTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAACTTTTTCAAG
* * *
24471668 ATGAA-TTTTAAAGTTGTTGAGCCTCTGCTTAGAAGAGCTTTTTTAAG
1 ATGAATTTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAACTTTTTCAAG
* * * * *
24471715 ATGAATTTTTAAAATTGTTGAGCATCTGCTTAGATGAGCCTTTTCCAAG
1 ATGAATTTTTAAAGTTGTTGAGCCTCTGCTTAGAGGA-ACTTTTTCAAG
* * * * * *
24471764 ATAAATTTTTAAAGTTATTGA-CCTTTTGCTTAGATGAGC-CTTTCAATG
1 ATGAATTTTTAAAGTTGTTGAGCC-TCTGCTTAGAGGAACTTTTTCAA-G
* * * * *
24471812 ATGAA-TTTTAAAGTTATTGA-CTTTTGCTTAGATGAGCCTTTTT-AAG
1 ATGAATTTTTAAAGTTGTTGAGCCTCTGCTTAGAGGA-ACTTTTTCAAG
* * *
24471858 ATGAATTTTTATAAAGTTATTGAGCCTCTACTTAGA-GAACTTTTTTAATG
1 ATGAA-TTTT-TAAAGTTGTTGAGCCTCTGCTTAGAGGAACTTTTTCAA-G
* * * *
24471908 AT-AAATTTTAAAATTGTTGAGCCTTTGTTTAGA--AACCTTTTTCAAG
1 ATGAATTTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAA-CTTTTTCAAG
* * * * *
24471954 ATGAATTTTTAAAGTTATTGAACCTTTGCTTAGAGGAGCCTTTTCCAAG
1 ATGAATTTTTAAAGTTGTTGAGCCTCTGCTTAGAGGA-ACTTTTTCAAG
* *
24472003 ATAAATTTTTAAAG-TATTGAGCCTCT
1 ATGAATTTTTAAAGTTGTTGAGCCTCT
24472029 TTTTTAAAAT
Statistics
Matches: 379, Mismatches: 59, Indels: 37
0.80 0.12 0.08
Matches are distributed among these distances:
46 24 0.06
47 159 0.42
48 101 0.27
49 83 0.22
50 12 0.03
ACGTcount: A:0.29, C:0.12, G:0.17, T:0.42
Consensus pattern (48 bp):
ATGAATTTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAACTTTTTCAAG
Found at i:24471692 original size:95 final size:96
Alignment explanation
Indices: 24471524--24472028 Score: 503
Period size: 95 Copynumber: 5.3 Consensus size: 96
24471514 TTGAGAACAT
* * *
24471524 ATGAGATTTTTAAAGTTGTTGAGCCTCTACTTAGAGGAA-TTTTTTCATGATGAA-TTTTAAAGT
1 ATGA-ATTTTTAAAGTTGTTGAGCCTCTGCTTAGA-GAACCTTTTTCAAGATGAATTTTTAAAGT
* *
24471587 TGTTAAGCCTCTGCTTAGAGGAGCTTTTTCAAG
64 TATTGAGCCTCTGCTTAGAGGAGCTTTTTCAAG
* * ** * *
24471620 ATGAATTTTTAAAGTTGCTGAGCCTCTACTTAGAGAAATTTTTTCATGATGAA-TTTTAAAGTTG
1 ATGAATTTTTAAAGTTGTTGAGCCTCTGCTTAGAGAACCTTTTTCAAGATGAATTTTTAAAGTTA
* *
24471684 TTGAGCCTCTGCTTAGAAGAGCTTTTTTAAG
66 TTGAGCCTCTGCTTAGAGGAGCTTTTTCAAG
* * * * *
24471715 ATGAATTTTTAAAATTGTTGAGCATCTGCTTAGATGAGCCTTTTCCAAGATAAATTTTTAAAGTT
1 ATGAATTTTTAAAGTTGTTGAGCCTCTGCTTAGA-GAACCTTTTTCAAGATGAATTTTTAAAGTT
* * *
24471780 ATTGA-CCTTTTGCTTAGATGAGC-CTTTCAATG
65 ATTGAGCC-TCTGCTTAGAGGAGCTTTTTCAA-G
* * * *
24471812 ATGAA-TTTTAAAGTTATTGA-CTTTTGCTTAGATGAGCCTTTTT-AAGATGAATTTTTATAAAG
1 ATGAATTTTTAAAGTTGTTGAGCCTCTGCTTAGA-GAACCTTTTTCAAGATGAA-TTTT-TAAAG
* * *
24471874 TTATTGAGCCTCTACTTAGA-GAACTTTTTTAATG
63 TTATTGAGCCTCTGCTTAGAGGAGCTTTTTCAA-G
* * * *
24471908 AT-AAATTTTAAAATTGTTGAGCCTTTGTTTAGA-AACCTTTTTCAAGATGAATTTTTAAAGTTA
1 ATGAATTTTTAAAGTTGTTGAGCCTCTGCTTAGAGAACCTTTTTCAAGATGAATTTTTAAAGTTA
* * *
24471971 TTGAACCTTTGCTTAGAGGAGCCTTTTCCAAG
66 TTGAGCCTCTGCTTAGAGGAG-CTTTTTCAAG
* *
24472003 ATAAATTTTTAAAG-TATTGAGCCTCT
1 ATGAATTTTTAAAGTTGTTGAGCCTCT
24472029 TTTTTAAAAT
Statistics
Matches: 349, Mismatches: 45, Indels: 31
0.82 0.11 0.07
Matches are distributed among these distances:
94 32 0.09
95 169 0.48
96 103 0.30
97 45 0.13
ACGTcount: A:0.29, C:0.12, G:0.17, T:0.42
Consensus pattern (96 bp):
ATGAATTTTTAAAGTTGTTGAGCCTCTGCTTAGAGAACCTTTTTCAAGATGAATTTTTAAAGTTA
TTGAGCCTCTGCTTAGAGGAGCTTTTTCAAG
Found at i:24471808 original size:143 final size:140
Alignment explanation
Indices: 24471531--24472028 Score: 479
Period size: 143 Copynumber: 3.5 Consensus size: 140
24471521 CATATGAGAT
* * * * * *
24471531 TTTTAAAGTTGTTGAGCCTCTACTTAGAGGA-ATTTTTTCATGATGAA-TTTTAAAGTTGTTAAG
1 TTTTAAAGTTATTGAGCCTCTGCTTAGAGGAGCTTTTTT-AAGATGAATTTTTAAAATTGTTGAG
* * * *
24471594 CCTCTGCTTAGAGGAGCTTTTTCAAGATGAATTTTTAAAGTTGCTGAGCCTCTACTTAGAGAAAT
65 CCTCTGCTTAGA-GAGCTTTTTCAAGATAAATTTTTAAAGTTGTTGAGCCTTTGCTTAGAG-AA-
**
24471659 TTTTTCATGATGAA
127 CCTTTCATGATGAA
* *
24471673 TTTTAAAGTTGTTGAGCCTCTGCTTAGAAGAGCTTTTTTAAGATGAATTTTTAAAATTGTTGAGC
1 TTTTAAAGTTATTGAGCCTCTGCTTAGAGGAGCTTTTTTAAGATGAATTTTTAAAATTGTTGAGC
* * * *
24471738 ATCTGCTTAGATGAGCCTTTTCCAAGATAAATTTTTAAAGTTATTGA-CCTTTTGCTTAGATGAG
66 CTCTGCTTAGA-GAG-CTTTTTCAAGATAAATTTTTAAAGTTGTTGAGCC-TTTGCTTAGA-GAA
24471802 CCTTTCAATGATGAA
127 CCTTTC-ATGATGAA
* * * * *
24471817 TTTTAAAGTTATTGA-CTTTTGCTTAGATGAGCCTTTTTAAGATGAATTTTTATAAAGTTATTGA
1 TTTTAAAGTTATTGAGCCTCTGCTTAGAGGAGCTTTTTTAAGATGAATTTTTA-AAA-TTGTTGA
* * * * *
24471881 GCCTCTACTTAGAGAACTTTTTTAATGATAAA-TTTTAAAATTGTTGAGCCTTTGTTTAGA-AAC
64 GCCTCTGCTTAGAGAGCTTTTTCAA-GATAAATTTTTAAAGTTGTTGAGCCTTTGCTTAGAGAAC
*
24471944 CTTTTTCAAGATGAA
128 C--TTTCATGATGAA
* * ** * * *
24471959 TTTTTAAAGTTATTGAACCTTTGCTTAGAGGAGCCTTTTCCAAGATAAATTTTT-AAAGTATTGA
1 -TTTTAAAGTTATTGAGCCTCTGCTTAGAGGAG-CTTTTTTAAGATGAATTTTTAAAATTGTTGA
24472023 GCCTCT
64 GCCTCT
24472029 TTTTTAAAAT
Statistics
Matches: 301, Mismatches: 40, Indels: 30
0.81 0.11 0.08
Matches are distributed among these distances:
141 3 0.01
142 55 0.18
143 124 0.41
144 85 0.28
145 34 0.11
ACGTcount: A:0.29, C:0.12, G:0.17, T:0.42
Consensus pattern (140 bp):
TTTTAAAGTTATTGAGCCTCTGCTTAGAGGAGCTTTTTTAAGATGAATTTTTAAAATTGTTGAGC
CTCTGCTTAGAGAGCTTTTTCAAGATAAATTTTTAAAGTTGTTGAGCCTTTGCTTAGAGAACCTT
TCATGATGAA
Found at i:24471879 original size:96 final size:94
Alignment explanation
Indices: 24471667--24472024 Score: 320
Period size: 96 Copynumber: 3.7 Consensus size: 94
24471657 ATTTTTTCAT
* * * * *
24471667 GATGAA-TTTTAAAGTTGTTGAGCCTCTGCTTAGAAGAGCTTTTTTAA-GATGAATTTTTAAAAT
1 GATGAATTTTTAAAGTTATTGA-CCTTTGCTTAG-AGAGC-CTTTCAATGATAAATTTTTAAAAT
* * *
24471730 TGTTGAGCATCTGCTTAGATGAGCCTTTTCCAA
63 TATTGAGCATTTGCTTAGATGAGCCTTTT-TAA
* * *
24471763 GATAAATTTTTAAAGTTATTGACCTTTTGCTTAGATGAGCCTTTCAATGATGAA-TTTTAAAGTT
1 GATGAATTTTTAAAGTTATTGACC-TTTGCTTAGA-GAGCCTTTCAATGATAAATTTTTAAAATT
*
24471827 ATTGA-CTTTTGCTTAGATGAGCCTTTTTAA
64 ATTGAGCATTTGCTTAGATGAGCCTTTTTAA
* * * * *
24471857 GATGAATTTTTATAAAGTTATTGAGCCTCTACTTAGAGAACTTTTTTAATGATAAA-TTTTAAAA
1 GATGAA-TTTT-TAAAGTTATTGA-CCTTTGCTTAGAGAGC-CTTTCAATGATAAATTTTTAAAA
* * * *
24471921 TTGTTGAGCCTTTGTTTAGA--AACCTTTTTCAA
62 TTATTGAGCATTTGCTTAGATGAGCCTTTTT-AA
24471953 GATGAATTTTTAAAGTTATTGAACCTTTGCTTAGAGGAGCCTTTTCCAA-GATAAATTTTT-AAA
1 GATGAATTTTTAAAGTTATTG-ACCTTTGCTTAGA-GAGCC-TTT-CAATGATAAATTTTTAAAA
*
24472016 GTATTGAGC
62 TTATTGAGC
24472025 CTCTTTTTTA
Statistics
Matches: 218, Mismatches: 29, Indels: 31
0.78 0.10 0.11
Matches are distributed among these distances:
94 28 0.13
95 62 0.28
96 84 0.39
97 44 0.20
ACGTcount: A:0.30, C:0.11, G:0.17, T:0.42
Consensus pattern (94 bp):
GATGAATTTTTAAAGTTATTGACCTTTGCTTAGAGAGCCTTTCAATGATAAATTTTTAAAATTAT
TGAGCATTTGCTTAGATGAGCCTTTTTAA
Found at i:24472080 original size:82 final size:82
Alignment explanation
Indices: 24471944--24472098 Score: 206
Period size: 82 Copynumber: 1.9 Consensus size: 82
24471934 GTTTAGAAAC
* * * *
24471944 CTTTTTCAAGATGAATTTTTAAAGTTATTGAACCTTTGCTTAGAGGAGCCTTTTCCAAGATAAAT
1 CTTTTTCAAAATGAATTTTTAAAGTTATTGAACCTATGCTGAGAGGAGCCTTTT-CAAAATAAAT
24472009 TTTTAAAGTATTGAGCCT
65 TTTTAAAGTATTGAGCCT
* * * *
24472027 CTTTTTTAAAATGAA-TTTTAAAGTTGTTGAGCCTATGCTGAGA-GAGCTTTTTTCAAAATAAAT
1 CTTTTTCAAAATGAATTTTTAAAGTTATTGAACCTATGCTGAGAGGAGC-CTTTTCAAAATAAAT
24472090 TTTTAAAGT
65 TTTTAAAGT
24472099 TGTTAAGCTT
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
81 22 0.35
82 28 0.44
83 13 0.21
ACGTcount: A:0.32, C:0.11, G:0.15, T:0.42
Consensus pattern (82 bp):
CTTTTTCAAAATGAATTTTTAAAGTTATTGAACCTATGCTGAGAGGAGCCTTTTCAAAATAAATT
TTTAAAGTATTGAGCCT
Found at i:24472127 original size:48 final size:45
Alignment explanation
Indices: 24472029--24472135 Score: 115
Period size: 48 Copynumber: 2.3 Consensus size: 45
24472019 TTGAGCCTCT
* * *
24472029 TTTTTAAAATGAATTTTAAAGTTGTTGAGCCTATGCTGAGAGAGC
1 TTTTTAAAATAAATTTTAAAGTTGTTAAGCCTATGATGAGAGAGC
* * *
24472074 TTTTTTCAAAATAAATTTTTAAAGTTGTTAAGCTTCTGATTAGATGAGC
1 -TTTTT-AAAATAAA-TTTTAAAGTTGTTAAGCCTATGATGAGA-GAGC
*
24472123 TTTTTAAATTAAA
1 TTTTTAAAATAAA
24472136 AAAAAGGGTT
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
46 5 0.10
47 14 0.27
48 28 0.55
49 4 0.08
ACGTcount: A:0.34, C:0.07, G:0.16, T:0.43
Consensus pattern (45 bp):
TTTTTAAAATAAATTTTAAAGTTGTTAAGCCTATGATGAGAGAGC
Found at i:24474758 original size:10 final size:10
Alignment explanation
Indices: 24474735--24474764 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
24474725 CATTTTGTTA
24474735 AATAATAA-T
1 AATAATAATT
24474744 AATAATAATT
1 AATAATAATT
24474754 AATAATAATT
1 AATAATAATT
24474764 A
1 A
24474765 GAGTTTGAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 8 0.40
10 12 0.60
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
AATAATAATT
Found at i:24475193 original size:25 final size:25
Alignment explanation
Indices: 24475165--24475237 Score: 61
Period size: 25 Copynumber: 3.2 Consensus size: 25
24475155 GAGCTGAGTA
24475165 TCGAGTCGCGAGTTGTAAGTCAAGC
1 TCGAGTCGCGAGTTGTAAGTCAAGC
* **
24475190 TCGAG-CTCGAGCCG-AA-T--A--
1 TCGAGTCGCGAGTTGTAAGTCAAGC
*
24475208 TCGAATCGCGAGTTGTAAGTCAAGC
1 TCGAGTCGCGAGTTGTAAGTCAAGC
24475233 TCGAG
1 TCGAG
24475238 CTCGAGCTTG
Statistics
Matches: 33, Mismatches: 8, Indels: 14
0.60 0.15 0.25
Matches are distributed among these distances:
18 4 0.12
19 6 0.18
20 3 0.09
21 1 0.03
22 1 0.03
23 3 0.09
24 6 0.18
25 9 0.27
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.22
Consensus pattern (25 bp):
TCGAGTCGCGAGTTGTAAGTCAAGC
Found at i:24475200 original size:43 final size:43
Alignment explanation
Indices: 24475147--24475245 Score: 162
Period size: 43 Copynumber: 2.3 Consensus size: 43
24475137 TAAAACTCGA
* * *
24475147 TCGAGTTCGAGCTGAGTATCGAGTCGCGAGTTGTAAGTCAAGC
1 TCGAGCTCGAGCTGAATATCGAATCGCGAGTTGTAAGTCAAGC
*
24475190 TCGAGCTCGAGCCGAATATCGAATCGCGAGTTGTAAGTCAAGC
1 TCGAGCTCGAGCTGAATATCGAATCGCGAGTTGTAAGTCAAGC
24475233 TCGAGCTCGAGCT
1 TCGAGCTCGAGCT
24475246 TGAACTTCTC
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.23
Consensus pattern (43 bp):
TCGAGCTCGAGCTGAATATCGAATCGCGAGTTGTAAGTCAAGC
Found at i:24476820 original size:31 final size:29
Alignment explanation
Indices: 24476743--24476834 Score: 87
Period size: 31 Copynumber: 2.9 Consensus size: 29
24476733 TTAATTTTTT
24476743 TAAAAATTACATATCTTTTAAAAAAATTAAG
1 TAAAAATTA-ATATCTTTT-AAAAAATTAAG
*
24476774 TAAAAATGTTTATATCTGTTTAAAAAATTGAA-
1 TAAAAA--TTAATATCT-TTTAAAAAATT-AAG
*
24476806 TAAAAACTTAATATCATTTTAAAATATTA
1 TAAAAA-TTAATATC-TTTTAAAAAATTA
24476835 TGTACGAATT
Statistics
Matches: 52, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
30 1 0.02
31 23 0.44
32 21 0.40
33 7 0.13
ACGTcount: A:0.51, C:0.05, G:0.04, T:0.39
Consensus pattern (29 bp):
TAAAAATTAATATCTTTTAAAAAATTAAG
Found at i:24477001 original size:14 final size:14
Alignment explanation
Indices: 24476982--24477012 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
24476972 ACATCTTTTT
24476982 TTTTATAAAACATA
1 TTTTATAAAACATA
*
24476996 TTTTATAAAATATA
1 TTTTATAAAACATA
24477010 TTT
1 TTT
24477013 AAAAAGGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (14 bp):
TTTTATAAAACATA
Found at i:24477428 original size:18 final size:19
Alignment explanation
Indices: 24477405--24477442 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
24477395 ATTTAGATAA
*
24477405 TTTTTATAAA-TAAAAATT
1 TTTTTAAAAATTAAAAATT
24477423 TTTTTAAAAATTAAAAATT
1 TTTTTAAAAATTAAAAATT
24477442 T
1 T
24477443 AATTATAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TTTTTAAAAATTAAAAATT
Found at i:24478776 original size:25 final size:25
Alignment explanation
Indices: 24478747--24478800 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
24478737 GTTTAAATAA
*
24478747 GAATGCCTAAATTAAATACCCTTAC
1 GAATGCCTAAATTAAATACACTTAC
*
24478772 GAATGCCTAAATTAAATACACTTAT
1 GAATGCCTAAATTAAATACACTTAC
24478797 GAAT
1 GAAT
24478801 ATTGTGGGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.43, C:0.19, G:0.09, T:0.30
Consensus pattern (25 bp):
GAATGCCTAAATTAAATACACTTAC
Found at i:24479657 original size:24 final size:23
Alignment explanation
Indices: 24479625--24479686 Score: 106
Period size: 24 Copynumber: 2.6 Consensus size: 23
24479615 AAATAATCGA
24479625 TTTTTTTTAGTATAAAAATCAAAT
1 TTTTTTTTA-TATAAAAATCAAAT
24479649 TTTTTTTTAATATAAAAATCAAAT
1 TTTTTTTT-ATATAAAAATCAAAT
24479673 TTTTTTTTATATAA
1 TTTTTTTTATATAA
24479687 TCCAACTTGA
Statistics
Matches: 37, Mismatches: 0, Indels: 3
0.93 0.00 0.08
Matches are distributed among these distances:
23 6 0.16
24 30 0.81
25 1 0.03
ACGTcount: A:0.40, C:0.03, G:0.02, T:0.55
Consensus pattern (23 bp):
TTTTTTTTATATAAAAATCAAAT
Found at i:24485667 original size:49 final size:49
Alignment explanation
Indices: 24485533--24486095 Score: 545
Period size: 49 Copynumber: 11.6 Consensus size: 49
24485523 TTGAGAACAT
* * * ** *
24485533 ATGAGATTTTTAAAAGTTGTTGAGCCTCTACTTAGATGA-ATTTTTTCATG
1 ATGA-ATTTTT-AAAGTTATTGAGCCTCTGCTTAGAGGAGCCTTTTTCAAG
* *
24485583 ATGAA-TTTTAAAGTTTAGTTAAAGGCCTCTGCTTAGAGGAGCCTTGTTCAAG
1 ATGAATTTTTAAAG-TTA-TT-GA-GCCTCTGCTTAGAGGAGCCTTTTTCAAG
** * *** *
24485635 ATGAATTTTTTAAAGTT-GCGAGCCTCTACTTAGA-GAAATTTTTTCATG
1 ATGAA-TTTTTAAAGTTATTGAGCCTCTGCTTAGAGGAGCCTTTTTCAAG
* * * * *
24485683 ATGAA-TTTTAAAATTGTTGAGCCTCTGCTTAGAAGAG-CTTTTTTAAA
1 ATGAATTTTTAAAGTTATTGAGCCTCTGCTTAGAGGAGCCTTTTTCAAG
* * * *
24485730 ATGAATTTTTAAAATTGTTGAGCCTCTGATTAGATGAGCCTTTTTCAAG
1 ATGAATTTTTAAAGTTATTGAGCCTCTGCTTAGAGGAGCCTTTTTCAAG
* * * * *
24485779 ATGAATTTTTAAAGTTATTGAACTTTTGCTTAGATGAGCCTTTTTTAAG
1 ATGAATTTTTAAAGTTATTGAGCCTCTGCTTAGAGGAGCCTTTTTCAAG
* * ** *
24485828 ATGAATTTGTAAAGTTATTGAGCCTCTACTTAGA-GAAACTTTTTCATG
1 ATGAATTTTTAAAGTTATTGAGCCTCTGCTTAGAGGAGCCTTTTTCAAG
*
24485876 ATGAA-TTTTAAAGTTATTGAGCCTCTGCTTAGAGGAG-CTTTTTCAAT
1 ATGAATTTTTAAAGTTATTGAGCCTCTGCTTAGAGGAGCCTTTTTCAAG
* * * *
24485923 ATAAATTTTTAAAGTTATTGAGCCTATGCTTAGAGAAG-CTTTTTTAAG
1 ATGAATTTTTAAAGTTATTGAGCCTCTGCTTAGAGGAGCCTTTTTCAAG
* * * * *
24485971 ATAAATTTTTAAAATTGTTGAGCCTCTGCTTAGAGAAACCTTTTTCAAG
1 ATGAATTTTTAAAGTTATTGAGCCTCTGCTTAGAGGAGCCTTTTTCAAG
* * *
24486020 ATGAATTTTTAAAGTTATTGAACATTTGCTTAGAGGAGCC-TTTTCGAAG
1 ATGAATTTTTAAAGTTATTGAGCCTCTGCTTAGAGGAGCCTTTTTC-AAG
*
24486069 ATAAATTTTTAAAGTTATTGAGCCTCT
1 ATGAATTTTTAAAGTTATTGAGCCTCT
24486096 TTTTTAAGAT
Statistics
Matches: 425, Mismatches: 73, Indels: 31
0.80 0.14 0.06
Matches are distributed among these distances:
46 9 0.02
47 67 0.16
48 146 0.34
49 161 0.38
50 6 0.01
51 14 0.03
52 12 0.03
53 2 0.00
54 8 0.02
ACGTcount: A:0.30, C:0.11, G:0.18, T:0.41
Consensus pattern (49 bp):
ATGAATTTTTAAAGTTATTGAGCCTCTGCTTAGAGGAGCCTTTTTCAAG
Found at i:24485873 original size:193 final size:191
Alignment explanation
Indices: 24485533--24486095 Score: 621
Period size: 193 Copynumber: 2.9 Consensus size: 191
24485523 TTGAGAACAT
** *
24485533 ATGAGATTTTTAAAAGTTGTTGAGCCTCT-ACTTAGATGAATTTTTTCATGATGAA-TTTTAAAG
1 ATGA-ATTTTTAAAA-TTGTTGAGCCTCTGA-TTAGATGAGCTTTTTCAAGATGAATTTTTAAAG
* * **
24485596 TTTAGTTAAAGGCCTCTGCTTAGAGGAGCCTTGTTCAAGATGAATTTTTTAAAGTT-GCGAGCCT
63 -TTA-TTGAA--CCTCTGCTTAGA-GAGCCTTTTTCAAGATGAA-TTTTTAAAGTTATTGAGCCT
* *
24485660 CTACTTAGAGAAATTTTTTCATGATGAATTTTAAAATTGTTGAGCCTCTGCTTAGAAGAGCTTTT
122 CTACTTAGAGAAACTTTTTCATGATGAATTTTAAAATTATTGAGCCTCTGCTTAGAAGAGCTTTT
*
24485725 TTAAA
187 TCAAA
24485730 ATGAATTTTTAAAATTGTTGAGCCTCTGATTAGATGAGCCTTTTTCAAGATGAATTTTTAAAGTT
1 ATGAATTTTTAAAATTGTTGAGCCTCTGATTAGATGAG-CTTTTTCAAGATGAATTTTTAAAGTT
* * * *
24485795 ATTGAACTTTTGCTTAGATGAGCCTTTTTTAAGATGAATTTGTAAAGTTATTGAGCCTCTACTTA
65 ATTGAACCTCTGCTTAGA-GAGCCTTTTTCAAGATGAATTTTTAAAGTTATTGAGCCTCTACTTA
* * *
24485860 GAGAAACTTTTTCATGATGAATTTTAAAGTTATTGAGCCTCTGCTTAGAGGAGCTTTTTCAAT
129 GAGAAACTTTTTCATGATGAATTTTAAAATTATTGAGCCTCTGCTTAGAAGAGCTTTTTCAAA
* * * * * * * *
24485923 ATAAATTTTTAAAGTTATTGAGCCTATGCTTAGA-GAAGCTTTTTTAAGATAAATTTTTAAAATT
1 ATGAATTTTTAAAATTGTTGAGCCTCTGATTAGATG-AGCTTTTTCAAGATGAATTTTTAAAGTT
* * * * * * *
24485987 GTTGAGCCTCTGCTTAGAGAAACCTTTTTCAAGATGAATTTTTAAAGTTATTGAACATTTGCTTA
65 ATTGAACCTCTGCTTAGAG-AGCCTTTTTCAAGATGAATTTTTAAAGTTATTGAGCCTCTACTTA
* * * * * *
24486052 GAGGAGCCTTTTCGAAGATAAATTTTTAAAGTTATTGAGCCTCT
129 GAGAAACTTTTTC-ATGATGAA-TTTTAAAATTATTGAGCCTCT
24486096 TTTTTAAGAT
Statistics
Matches: 316, Mismatches: 42, Indels: 19
0.84 0.11 0.05
Matches are distributed among these distances:
191 1 0.00
192 96 0.30
193 134 0.42
194 21 0.07
195 25 0.08
196 27 0.09
197 12 0.04
ACGTcount: A:0.30, C:0.11, G:0.18, T:0.41
Consensus pattern (191 bp):
ATGAATTTTTAAAATTGTTGAGCCTCTGATTAGATGAGCTTTTTCAAGATGAATTTTTAAAGTTA
TTGAACCTCTGCTTAGAGAGCCTTTTTCAAGATGAATTTTTAAAGTTATTGAGCCTCTACTTAGA
GAAACTTTTTCATGATGAATTTTAAAATTATTGAGCCTCTGCTTAGAAGAGCTTTTTCAAA
Found at i:24485965 original size:241 final size:240
Alignment explanation
Indices: 24485654--24486095 Score: 665
Period size: 241 Copynumber: 1.8 Consensus size: 240
24485644 TTAAAGTTGC
* * * *
24485654 GAGCCTCTACTTAGAGAAATTTTTTCATGATGAATTTTAAAATTGTTGAGCCTCTGCTTAGAAGA
1 GAGCCTCTACTTAGAGAAACTTTTTCATGATAAATTTTAAAATTATTGAGCCTATGCTTAGAAGA
* *
24485719 GCTTTTTTAAAATGAATTTTTAAAATTGTTGAGCCTCTGATTAGATG-AGCCTTTTTCAAGATGA
66 GCTTTTTTAAAATAAATTTTTAAAATTGTTGAGCCTCTGATTAGA-GAAACCTTTTTCAAGATGA
* * ** *
24485783 ATTTTTAAAGTTATTGAACTTTTGCTTAGATGAGCCTTTTTTAAGATGAATTTGTAAAGTTATTG
130 ATTTTTAAAGTTATTGAACATTTGCTTAGAGGAGCCTTTTCGAAGATAAATTTGTAAAGTTATTG
24485848 AGCCTCTACTTAGAGAAACTTTTTCATGATGAATTTTAAAGTTATT
195 AGCCTCTACTTAGAGAAACTTTTTCATGATGAATTTTAAAGTTATT
* * * *
24485894 GAGCCTCTGCTTAGAGGAGCTTTTTCAAT-ATAAATTTTTAAAGTTATTGAGCCTATGCTTAG-A
1 GAGCCTCTACTTAGAGAAACTTTTTC-ATGATAAA-TTTTAAAATTATTGAGCCTATGCTTAGAA
* *
24485957 GAAGCTTTTTTAAGATAAATTTTTAAAATTGTTGAGCCTCTGCTTAGAGAAACCTTTTTCAAGAT
64 G-AGCTTTTTTAAAATAAATTTTTAAAATTGTTGAGCCTCTGATTAGAGAAACCTTTTTCAAGAT
*
24486022 GAATTTTTAAAGTTATTGAACATTTGCTTAGAGGAGCCTTTTCGAAGATAAATTTTTAAAGTTAT
128 GAATTTTTAAAGTTATTGAACATTTGCTTAGAGGAGCCTTTTCGAAGATAAATTTGTAAAGTTAT
24486087 TGAGCCTCT
193 TGAGCCTCT
24486096 TTTTTAAGAT
Statistics
Matches: 180, Mismatches: 18, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
240 29 0.16
241 151 0.84
ACGTcount: A:0.31, C:0.12, G:0.17, T:0.41
Consensus pattern (240 bp):
GAGCCTCTACTTAGAGAAACTTTTTCATGATAAATTTTAAAATTATTGAGCCTATGCTTAGAAGA
GCTTTTTTAAAATAAATTTTTAAAATTGTTGAGCCTCTGATTAGAGAAACCTTTTTCAAGATGAA
TTTTTAAAGTTATTGAACATTTGCTTAGAGGAGCCTTTTCGAAGATAAATTTGTAAAGTTATTGA
GCCTCTACTTAGAGAAACTTTTTCATGATGAATTTTAAAGTTATT
Done.