Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr8
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: 70076365
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3341059 characters in sequence are not A, C, G, or T
File 87 of 210
Found at i:30148756 original size:31 final size:30
Alignment explanation
Indices: 30148678--30148757 Score: 83
Period size: 30 Copynumber: 2.6 Consensus size: 30
30148668 TTTTTAATAA
30148678 ATTTTCAATAATTTTT-AATAATATCTTATC
1 ATTTT-AATAATTTTTAAATAATATCTTATC
* * *
30148708 ATTCTTATTAATTTTTAAATAACTTTTTTAT-
1 ATT-TTAATAATTTTTAAATAA-TATCTTATC
30148739 ATTTTAATAATTATTTAAA
1 ATTTTAATAATT-TTTAAA
30148758 AATTTATATG
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
30 20 0.48
31 16 0.38
32 6 0.14
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (30 bp):
ATTTTAATAATTTTTAAATAATATCTTATC
Found at i:30151955 original size:31 final size:29
Alignment explanation
Indices: 30151920--30151980 Score: 68
Period size: 29 Copynumber: 2.0 Consensus size: 29
30151910 ACCATTTTCC
* * *
30151920 CAAGTTGGTGCTGAAACTTTTTTTTCGGTTA
1 CAAG-TGGTACTGAAAC-TATTCTTCGGTTA
*
30151951 CAAGTGGTACTTAAACTATTCTTCGGTTA
1 CAAGTGGTACTGAAACTATTCTTCGGTTA
30151980 C
1 C
30151981 TCATTTTATA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
29 12 0.46
30 10 0.38
31 4 0.15
ACGTcount: A:0.23, C:0.16, G:0.20, T:0.41
Consensus pattern (29 bp):
CAAGTGGTACTGAAACTATTCTTCGGTTA
Found at i:30156967 original size:19 final size:19
Alignment explanation
Indices: 30156943--30156981 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
30156933 GGGTGTTTTA
30156943 TTTTTTTCTTATTTTTTCCT
1 TTTTTTTC-TATTTTTTCCT
*
30156963 TTTTTTTCTCTTTTTTCCT
1 TTTTTTTCTATTTTTTCCT
30156982 CGTGCCCACG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (19 bp):
TTTTTTTCTATTTTTTCCT
Found at i:30171008 original size:119 final size:120
Alignment explanation
Indices: 30170878--30171116 Score: 471
Period size: 119 Copynumber: 2.0 Consensus size: 120
30170868 CTATGTTTGG
30170878 TTAGAGTTTTTTTTTTTTTACATATGTTTCGGTTATTATTTACTTCTAAAATATTTACAATCCCT
1 TTAGAGTTTTTTTTTTTTTACATATGTTTCGGTTATTATTTACTTCTAAAATATTTACAATCCCT
30170943 CACTCTTTTTTTTTGGGGTAAAATAAGAAGAAAAAAAATATTTT-AAACCTTCTT
66 CACTCTTTTTTTTTGGGGTAAAATAAGAAGAAAAAAAATATTTTGAAACCTTCTT
30170997 TTAGAGTTTTTTTTTTTTTACATATGTTTCGGTTATTATTTACTTCTAAAATATTTACAATCCCT
1 TTAGAGTTTTTTTTTTTTTACATATGTTTCGGTTATTATTTACTTCTAAAATATTTACAATCCCT
30171062 CACTCTTTTTTTTTGGGGTAAAATAAGAAGAAAAAAAATATTTTGAAACCTTCTT
66 CACTCTTTTTTTTTGGGGTAAAATAAGAAGAAAAAAAATATTTTGAAACCTTCTT
30171117 ATTTTTTATA
Statistics
Matches: 119, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
119 109 0.92
120 10 0.08
ACGTcount: A:0.31, C:0.12, G:0.10, T:0.48
Consensus pattern (120 bp):
TTAGAGTTTTTTTTTTTTTACATATGTTTCGGTTATTATTTACTTCTAAAATATTTACAATCCCT
CACTCTTTTTTTTTGGGGTAAAATAAGAAGAAAAAAAATATTTTGAAACCTTCTT
Found at i:30172164 original size:66 final size:68
Alignment explanation
Indices: 30172086--30172219 Score: 211
Period size: 66 Copynumber: 2.0 Consensus size: 68
30172076 TAAGTTTTGA
* *
30172086 GGTGTTTTTTGAACTAATTTTTGGGTTCTTTGCATCTTGGAATATGTCGGTA-CTCAATC-TTTT
1 GGTGTTTTTTGAACTAATTTTTAGGTTCTTTGCATCTTGGAATATGTCAGTACCT-AATCTTTTT
30172149 AAGT
65 AAGT
*
30172153 GGTG-TTTTTGAACTAATTTTTAGGTTTTTTGCATCTTGGAATATGTCAGTACCTAATCTTTTTA
1 GGTGTTTTTTGAACTAATTTTTAGGTTCTTTGCATCTTGGAATATGTCAGTACCTAATCTTTTTA
30172217 AGT
66 AGT
30172220 ATCGATATAT
Statistics
Matches: 62, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
66 48 0.77
67 14 0.23
ACGTcount: A:0.21, C:0.11, G:0.19, T:0.49
Consensus pattern (68 bp):
GGTGTTTTTTGAACTAATTTTTAGGTTCTTTGCATCTTGGAATATGTCAGTACCTAATCTTTTTA
AGT
Found at i:30177059 original size:3 final size:3
Alignment explanation
Indices: 30177051--30177080 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
30177041 CAAACAAAAG
30177051 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
30177081 AATAAGCTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:30178016 original size:81 final size:82
Alignment explanation
Indices: 30177861--30178016 Score: 199
Period size: 81 Copynumber: 1.9 Consensus size: 82
30177851 TCTATCTATT
* * * *
30177861 TGATTCTCAAACACGTATAATTAAATATAAATCATATATTATGAAAAAGTACAAAATATAATATT
1 TGATCCTCAAACACATATAATTAAATATAAATCATATATTATGAAAAAGTACAAAATACAAAATT
**
30177926 ATTTATATAACTATATA
66 AAATATATAACTATATA
* * * *
30177943 TGATCCTCAAACACATATAATTGAAT-TAAATTATATATTATGAAAAATTACAAAGTACAAAATA
1 TGATCCTCAAACACATATAATTAAATATAAATCATATATTATGAAAAAGTACAAAATACAAAAT-
30178007 TAAAT-TATAA
65 TAAATATATAA
30178017 ATAATATTAT
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
81 37 0.59
82 26 0.41
ACGTcount: A:0.51, C:0.09, G:0.05, T:0.35
Consensus pattern (82 bp):
TGATCCTCAAACACATATAATTAAATATAAATCATATATTATGAAAAAGTACAAAATACAAAATT
AAATATATAACTATATA
Found at i:30178256 original size:11 final size:11
Alignment explanation
Indices: 30178230--30178271 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
30178220 TATTTTTTAT
**
30178230 AAAAATATTTA
1 AAAAATATAAA
30178241 AAAAAT-TAAA
1 AAAAATATAAA
30178251 AGAAAATATAAA
1 A-AAAATATAAA
30178263 AAAAATATA
1 AAAAATATA
30178272 TAATTTTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 3 0.11
11 19 0.70
12 5 0.19
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (11 bp):
AAAAATATAAA
Found at i:30182194 original size:14 final size:13
Alignment explanation
Indices: 30182171--30182212 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
30182161 TAATCTTTGA
30182171 TTTATTATTTTAT
1 TTTATTATTTTAT
30182184 TTTAGTTA-TTTAT
1 TTTA-TTATTTTAT
*
30182197 TTTAATTGTTTTAT
1 TTT-ATTATTTTAT
30182211 TT
1 TT
30182213 GACTTGGATT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 14 0.56
14 11 0.44
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (13 bp):
TTTATTATTTTAT
Found at i:30182400 original size:25 final size:26
Alignment explanation
Indices: 30182349--30182400 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
30182339 CCTTTATCAG
*
30182349 TTATTAAAATATATTTAATAATAATC
1 TTATTAAAATATATATAATAATAATC
* *
30182375 TTATTAAAATTTA-ATAATAATCATC
1 TTATTAAAATATATATAATAATAATC
30182400 T
1 T
30182401 ACTTAACCAC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 11 0.48
26 12 0.52
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.46
Consensus pattern (26 bp):
TTATTAAAATATATATAATAATAATC
Found at i:30183917 original size:138 final size:139
Alignment explanation
Indices: 30183728--30184006 Score: 551
Period size: 138 Copynumber: 2.0 Consensus size: 139
30183718 CACCAGATGG
30183728 TTCACGGCGCAGTAAAGATTTTGGGAGATTTCAAATTAGGGATTTTGAATTTTGAAGGTTAGGGA
1 TTCACGGCGCAGTAAAGATTTTGGGAGATTTCAAATTAGGGATTTTGAATTTTGAAGGTTAGGGA
30183793 TTTCTCATTTCTGTGTGTGATTTTTAGTTTTAGTTTTAGGATTTTTATTTTTATTTATTAAATT-
66 TTTCTCATTTCTGTGTGTGATTTTTAGTTTTAGTTTTAGGATTTTTATTTTTATTTATTAAATTA
30183857 TTAAATTAT
131 TTAAATTAT
30183866 TTCACGGCGCAGTAAAGATTTTGGGAGATTTCAAATTAGGGATTTTGAATTTTGAAGGTTAGGGA
1 TTCACGGCGCAGTAAAGATTTTGGGAGATTTCAAATTAGGGATTTTGAATTTTGAAGGTTAGGGA
30183931 TTTCTCATTTCTGTGTGTGATTTTTAGTTTTAGTTTTAGGATTTTTATTTTTATTTATTAAATTA
66 TTTCTCATTTCTGTGTGTGATTTTTAGTTTTAGTTTTAGGATTTTTATTTTTATTTATTAAATTA
30183996 TTAAATTAT
131 TTAAATTAT
30184005 TT
1 TT
30184007 TTAGTTTTTA
Statistics
Matches: 140, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
138 129 0.92
139 11 0.08
ACGTcount: A:0.25, C:0.06, G:0.19, T:0.49
Consensus pattern (139 bp):
TTCACGGCGCAGTAAAGATTTTGGGAGATTTCAAATTAGGGATTTTGAATTTTGAAGGTTAGGGA
TTTCTCATTTCTGTGTGTGATTTTTAGTTTTAGTTTTAGGATTTTTATTTTTATTTATTAAATTA
TTAAATTAT
Found at i:30184305 original size:16 final size:16
Alignment explanation
Indices: 30184284--30184330 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
30184274 CCCCTAACAA
30184284 CTCTATTCCATTACAG
1 CTCTATTCCATTACAG
** *
30184300 CTCTATTTAATTATAG
1 CTCTATTCCATTACAG
*
30184316 CCCTATTCCATTACA
1 CTCTATTCCATTACA
30184331 ATCAACCAAA
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.28, C:0.28, G:0.04, T:0.40
Consensus pattern (16 bp):
CTCTATTCCATTACAG
Found at i:30184873 original size:10 final size:10
Alignment explanation
Indices: 30184858--30184883 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
30184848 GTTAGGGAGG
30184858 TAACGGAGCT
1 TAACGGAGCT
30184868 TAACGGAGCT
1 TAACGGAGCT
30184878 TAACGG
1 TAACGG
30184884 TAGAGTGACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.31, C:0.19, G:0.31, T:0.19
Consensus pattern (10 bp):
TAACGGAGCT
Found at i:30185186 original size:18 final size:18
Alignment explanation
Indices: 30185163--30185212 Score: 73
Period size: 20 Copynumber: 2.7 Consensus size: 18
30185153 TCTCTGCTAC
30185163 GCTGGTTCTTTGCCCTCT
1 GCTGGTTCTTTGCCCTCT
*
30185181 GCTGGTTTGTTCTGCCCTCT
1 GCTGG-TTCTT-TGCCCTCT
30185201 GCTGGTTCTTTG
1 GCTGGTTCTTTG
30185213 TTCCTCTGCC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 7 0.25
19 8 0.29
20 13 0.46
ACGTcount: A:0.00, C:0.28, G:0.26, T:0.46
Consensus pattern (18 bp):
GCTGGTTCTTTGCCCTCT
Found at i:30185220 original size:19 final size:19
Alignment explanation
Indices: 30185163--30185221 Score: 68
Period size: 20 Copynumber: 3.1 Consensus size: 19
30185153 TCTCTGCTAC
30185163 GCTGGTTCTTTG-CCCTCT
1 GCTGGTTCTTTGTCCCTCT
*
30185181 GCTGGTT-TGTTCTGCCCTCT
1 GCTGGTTCT-TTGT-CCCTCT
*
30185201 GCTGGTTCTTTGTTCCTCT
1 GCTGGTTCTTTGTCCCTCT
30185220 GC
1 GC
30185222 CCTCTACCGG
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
17 1 0.03
18 9 0.26
19 7 0.21
20 16 0.47
21 1 0.03
ACGTcount: A:0.00, C:0.31, G:0.24, T:0.46
Consensus pattern (19 bp):
GCTGGTTCTTTGTCCCTCT
Found at i:30185223 original size:26 final size:25
Alignment explanation
Indices: 30185120--30185226 Score: 86
Period size: 26 Copynumber: 4.5 Consensus size: 25
30185110 CCTTCTTCGC
*
30185120 TCTCTGCTCTCTGCTGGTTCTTTGTT
1 TCTCTGCCCTCTGCTGGTTCTTTG-T
* * *
30185146 TCTCTGCTCTCTGCTACG--C-TGGT
1 TCTCTGCCCTCTGCT-GGTTCTTTGT
*
30185169 TCTTTGCCCTCTGCTGGTT---TG-
1 TCTCTGCCCTCTGCTGGTTCTTTGT
30185190 T-TCTGCCCTCTGCTGGTTCTTTGT
1 TCTCTGCCCTCTGCTGGTTCTTTGT
30185214 TCCTCTGCCCTCT
1 T-CTCTGCCCTCT
30185227 ACCGGTGAGT
Statistics
Matches: 65, Mismatches: 7, Indels: 18
0.72 0.08 0.20
Matches are distributed among these distances:
20 16 0.25
21 1 0.02
22 2 0.03
23 16 0.25
24 3 0.05
25 1 0.02
26 25 0.38
27 1 0.02
ACGTcount: A:0.01, C:0.33, G:0.20, T:0.47
Consensus pattern (25 bp):
TCTCTGCCCTCTGCTGGTTCTTTGT
Found at i:30185304 original size:17 final size:17
Alignment explanation
Indices: 30185282--30185315 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
30185272 ATTTTTGTTT
30185282 GTCTGGGATTGATTTTC
1 GTCTGGGATTGATTTTC
30185299 GTCTGGGATTGATTTTC
1 GTCTGGGATTGATTTTC
30185316 CTGAGGATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.12, C:0.12, G:0.29, T:0.47
Consensus pattern (17 bp):
GTCTGGGATTGATTTTC
Found at i:30193240 original size:131 final size:131
Alignment explanation
Indices: 30192914--30194199 Score: 2293
Period size: 131 Copynumber: 9.8 Consensus size: 131
30192904 NNNNNNNNNN
* * * * *
30192914 AGCGGAGTAGGTTGAAGATTGTAGATCTTTTCTCCCTAAGCAGTAGTGGAGAAGATTGAAGACGA
1 AGCGGAGTAGGTTGACGATTGTAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACGA
* * * * * *
30192979 AAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCTCTGAGTA
66 CAAATCTTATCTTTCCAAGAGAGTGGGAAGGAGATTTAAG-CACCAAGCCTTGTCTCCCTAAGCA
*
30193044 GG
130 GC
* * * *
30193046 AGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGAAGATTGAAGACGA
1 AGCGGAGTAGGTTGACGATTGTAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACGA
* * *
30193111 AAAATCTTATCTTTCCAAGAGAGTGGGAAGTAGATTTAAGCACCAAGCCTTGTCTCCCTGAGCAG
66 CAAATCTTATCTTTCCAAGAGAGTGGGAAGGAGATTTAAGCACCAAGCCTTGTCTCCCTAAGCAG
30193176 C
131 C
30193177 AGCGGAGTAGGTTGACGATTGTAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACGA
1 AGCGGAGTAGGTTGACGATTGTAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACGA
30193242 CAAATCTTATCTTTCCAAGAGAGTGGGAAGGAGATTTAAGCACCAAGCCTTGTCTCCCTAAGCAG
66 CAAATCTTATCTTTCCAAGAGAGTGGGAAGGAGATTTAAGCACCAAGCCTTGTCTCCCTAAGCAG
30193307 C
131 C
30193308 AGCGGAGTAGGTTGACGATTGTAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACGA
1 AGCGGAGTAGGTTGACGATTGTAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACGA
30193373 CAAATCTTATCTTTCCAAGAGAGTGGGAAGGAGATTTAAGCACCAAGCCTTGTCTCCCTAAGCAG
66 CAAATCTTATCTTTCCAAGAGAGTGGGAAGGAGATTTAAGCACCAAGCCTTGTCTCCCTAAGCAG
30193438 C
131 C
30193439 AGCGGAGTAGGTTGACGATTGTAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACGA
1 AGCGGAGTAGGTTGACGATTGTAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACGA
30193504 CAAATCTTATCTTTCCAAGAGAGTGGGAAGGAGATTTAAGCACCAAGCCTTGTCTCCCTAAGCAG
66 CAAATCTTATCTTTCCAAGAGAGTGGGAAGGAGATTTAAGCACCAAGCCTTGTCTCCCTAAGCAG
30193569 C
131 C
30193570 AGCGGAGTAGGTTGACGATTGTAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACGA
1 AGCGGAGTAGGTTGACGATTGTAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACGA
30193635 CAAATCTTATCTTTCCAAGAGAGTGGGAAGGAGATTTAAGCACCAAGCCTTGTCTCCCTAAGCAG
66 CAAATCTTATCTTTCCAAGAGAGTGGGAAGGAGATTTAAGCACCAAGCCTTGTCTCCCTAAGCAG
30193700 C
131 C
30193701 AGCGGAGTAGGTTGACGATTGTAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACGA
1 AGCGGAGTAGGTTGACGATTGTAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACGA
30193766 CAAATCTTATCTTTCCAAGAGAGTGGGAAGGAGATTTAAGCACCAAGCCTTGTCTCCCTAAGCAG
66 CAAATCTTATCTTTCCAAGAGAGTGGGAAGGAGATTTAAGCACCAAGCCTTGTCTCCCTAAGCAG
30193831 C
131 C
30193832 AGCGGAGTAGGTTGACGATTGTAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACGA
1 AGCGGAGTAGGTTGACGATTGTAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACGA
30193897 CAAATCTTATCTTTCCAAGAGAGTGGGAAGGAGATTTAAGCACCAAGCCTTGTCTCCCTAAGCAG
66 CAAATCTTATCTTTCCAAGAGAGTGGGAAGGAGATTTAAGCACCAAGCCTTGTCTCCCTAAGCAG
30193962 C
131 C
30193963 AGCGGAGTAGGTTGACGATTGTAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACGA
1 AGCGGAGTAGGTTGACGATTGTAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACGA
* * * * * *
30194028 CAAATCTTATCTTTCCAAGATAGTGGGATGCAGATTTAATCCACCAAGCCTTGTCTCCCTGACCA
66 CAAATCTTATCTTTCCAAGAGAGTGGGAAGGAGATTTAA-GCACCAAGCCTTGTCTCCCTAAGCA
30194093 GC
130 GC
* *
30194095 AGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACGA
1 AGCGGAGTAGGTTGACGATTGTAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACGA
* *
30194160 CAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAG
66 CAAATCTTATCTTTCCAAGAGAGTGGGAAGGAGATTTAAG
30194200 AAGTGGCAGT
Statistics
Matches: 1130, Mismatches: 23, Indels: 3
0.98 0.02 0.00
Matches are distributed among these distances:
131 903 0.80
132 227 0.20
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.25
Consensus pattern (131 bp):
AGCGGAGTAGGTTGACGATTGTAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACGA
CAAATCTTATCTTTCCAAGAGAGTGGGAAGGAGATTTAAGCACCAAGCCTTGTCTCCCTAAGCAG
C
Found at i:30194540 original size:24 final size:21
Alignment explanation
Indices: 30194483--30194531 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
30194473 NNNNNNNNNG
*
30194483 ATCTTAGAT-TGATATATGCA
1 ATCTTAGATATGATATATACA
30194503 ATCTTAGATATGATATATACA
1 ATCTTAGATATGATATATACA
30194524 ATCTTAGA
1 ATCTTAGA
30194532 AGATATGATT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
20 9 0.33
21 18 0.67
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
ATCTTAGATATGATATATACA
Found at i:30194567 original size:21 final size:23
Alignment explanation
Indices: 30194523--30194567 Score: 58
Period size: 21 Copynumber: 2.0 Consensus size: 23
30194513 TGATATATAC
*
30194523 AATCTTAGAAGATATGATTTTGT
1 AATCTTAGAAGATATGAATTTGT
*
30194546 AATCTTA-AAGAT-TTAATTTGT
1 AATCTTAGAAGATATGAATTTGT
30194567 A
1 A
30194568 GATACCCTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 8 0.40
22 5 0.25
23 7 0.35
ACGTcount: A:0.38, C:0.04, G:0.13, T:0.44
Consensus pattern (23 bp):
AATCTTAGAAGATATGAATTTGT
Found at i:30194814 original size:19 final size:21
Alignment explanation
Indices: 30194790--30194828 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
30194780 TTGTTTTCTT
*
30194790 TTTTTTTCTT-TTT-CGATTA
1 TTTTTTACTTATTTACGATTA
30194809 TTTTTTACTTATTTACGATT
1 TTTTTTACTTATTTACGATT
30194829 TTAAAAAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.15, C:0.10, G:0.05, T:0.69
Consensus pattern (21 bp):
TTTTTTACTTATTTACGATTA
Found at i:30228146 original size:26 final size:26
Alignment explanation
Indices: 30228116--30228167 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
30228106 AATAAAATAA
* *
30228116 AACATTCAATGTTTCAGTTTAATTAG
1 AACATTCAATATATCAGTTTAATTAG
*
30228142 AACATTCAATATATCAGTTTTATTAG
1 AACATTCAATATATCAGTTTAATTAG
30228168 CATTATTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.42
Consensus pattern (26 bp):
AACATTCAATATATCAGTTTAATTAG
Found at i:30230242 original size:25 final size:26
Alignment explanation
Indices: 30230208--30230258 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
30230198 AATAAAAGAA
*
30230208 AACATTCAAT-ATTTCA-TTTAATTAG
1 AACAATCAATAATTT-AGTTTAATTAG
30230233 AACAATCAATAATTTAGTTTAATTAG
1 AACAATCAATAATTTAGTTTAATTAG
30230259 CATTAATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 10 0.43
26 13 0.57
ACGTcount: A:0.43, C:0.10, G:0.06, T:0.41
Consensus pattern (26 bp):
AACAATCAATAATTTAGTTTAATTAG
Found at i:30236259 original size:26 final size:26
Alignment explanation
Indices: 30236229--30236280 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
30236219 AATAAACGAA
30236229 AACATTCAATATTTCAGTTTAATTAG
1 AACATTCAATATTTCAGTTTAATTAG
30236255 AACATTCAATATTTCAGTTTAATTAG
1 AACATTCAATATTTCAGTTTAATTAG
30236281 CGTTAATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.12, G:0.08, T:0.42
Consensus pattern (26 bp):
AACATTCAATATTTCAGTTTAATTAG
Found at i:30238611 original size:41 final size:41
Alignment explanation
Indices: 30238514--30238694 Score: 240
Period size: 41 Copynumber: 4.4 Consensus size: 41
30238504 ATTGATCCCG
* * * * *
30238514 GTTTCGCACACTTAGTGCCCGTTAT-TAACATTATCT-TTTG
1 GTTTCGCACACTTAGTGCTCGTTATCCAACATCAT-TACTTA
*
30238554 GTTTCGCACACTTAGTGCTCGTTATCCATCATCATTACTTA
1 GTTTCGCACACTTAGTGCTCGTTATCCAACATCATTACTTA
30238595 GTTTCGCACACTTAGTGCTCGTTATCCAACATCATTACTTA
1 GTTTCGCACACTTAGTGCTCGTTATCCAACATCATTACTTA
* * *
30238636 GTTTCGCACACTTAGTGCTCATTATTCAACATCATTATTTA
1 GTTTCGCACACTTAGTGCTCGTTATCCAACATCATTACTTA
* *
30238677 ATTCCGCACACTTAGTGC
1 GTTTCGCACACTTAGTGC
30238695 AAATCATATA
Statistics
Matches: 127, Mismatches: 12, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
40 25 0.20
41 102 0.80
ACGTcount: A:0.23, C:0.25, G:0.13, T:0.39
Consensus pattern (41 bp):
GTTTCGCACACTTAGTGCTCGTTATCCAACATCATTACTTA
Found at i:30244675 original size:20 final size:21
Alignment explanation
Indices: 30244642--30244680 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
30244632 GGTTAAAGGT
*
30244642 GATTAATATTAATTAATTAAG
1 GATTAATATAAATTAATTAAG
30244663 GATTAAT-TAAATTAATTA
1 GATTAATATAAATTAATTA
30244681 TAAATTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.44
Consensus pattern (21 bp):
GATTAATATAAATTAATTAAG
Found at i:30253726 original size:39 final size:39
Alignment explanation
Indices: 30253611--30253746 Score: 146
Period size: 40 Copynumber: 3.4 Consensus size: 39
30253601 CGTTTGGACA
* * *
30253611 AAAAACACCGGTAAAAATTGAGTATTAGCGGCGTTTTATG
1 AAAAACGCCGCTAAAAA-TGAGTATTAGCGGCGTTTTTTG
* * * * *
30253651 GAAATCGCCACTAAAGATCGAGTATTAGCGGTGTTTTTTG
1 AAAAACGCCGCTAAAAAT-GAGTATTAGCGGCGTTTTTTG
* **
30253691 AAAAACGCCGCTAAAAATGAGCATTAGATGCGTTTTTTG
1 AAAAACGCCGCTAAAAATGAGTATTAGCGGCGTTTTTTG
*
30253730 AAAAACGCCGCAAAAAA
1 AAAAACGCCGCTAAAAA
30253747 CCAAATCCGA
Statistics
Matches: 78, Mismatches: 17, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
39 34 0.44
40 44 0.56
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (39 bp):
AAAAACGCCGCTAAAAATGAGTATTAGCGGCGTTTTTTG
Found at i:30253839 original size:41 final size:41
Alignment explanation
Indices: 30253782--30253872 Score: 155
Period size: 41 Copynumber: 2.2 Consensus size: 41
30253772 TACCTTTCGG
*
30253782 GCGCCGCTAATGCTCAGGGCTTTAGTGGCGTTTTTGAAAAA
1 GCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAAAAA
**
30253823 GCGCCGCTAATGCTCAGGTTTTTAGCGGCGTTTTTGAAAAA
1 GCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAAAAA
30253864 GCGCCGCTA
1 GCGCCGCTA
30253873 TATAAAGCGC
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 47 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.29
Consensus pattern (41 bp):
GCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAAAAA
Found at i:30254286 original size:21 final size:20
Alignment explanation
Indices: 30254252--30254313 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 20
30254242 TACGGATTTA
*
30254252 GGGATTATGGTTTAAGGGTT
1 GGGATTAAGGTTTAAGGGTT
*
30254272 GGGATTTAAGGTTTAGGGGTT
1 GGGA-TTAAGGTTTAAGGGTT
* * *
30254293 AAGGATTAGGGGTTAAGGGTT
1 -GGGATTAAGGTTTAAGGGTT
30254314 TAGGGGTTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
20 4 0.12
21 27 0.79
22 3 0.09
ACGTcount: A:0.23, C:0.00, G:0.42, T:0.35
Consensus pattern (20 bp):
GGGATTAAGGTTTAAGGGTT
Found at i:30254292 original size:29 final size:29
Alignment explanation
Indices: 30254245--30254347 Score: 102
Period size: 29 Copynumber: 3.6 Consensus size: 29
30254235 TAAGGAGTAC
* * * *
30254245 GGATTTAGGGATTATGGTTTAAGGGTT-G
1 GGATTTAAGGTTTAGGGGTTAAGGGTTAG
*
30254273 GGATTTAAGGTTTAGGGGTTAAGGATTAG
1 GGATTTAAGGTTTAGGGGTTAAGGGTTAG
* *
30254302 GG-GTTAAGGGTTTAGGGGTTAAGAGTTAG
1 GGATTTAA-GGTTTAGGGGTTAAGGGTTAG
* *
30254331 AGATTTAGGGTTTAGGG
1 GGATTTAAGGTTTAGGG
30254348 ATTCATAGGT
Statistics
Matches: 61, Mismatches: 11, Indels: 5
0.79 0.14 0.06
Matches are distributed among these distances:
28 26 0.43
29 32 0.52
30 3 0.05
ACGTcount: A:0.24, C:0.00, G:0.41, T:0.35
Consensus pattern (29 bp):
GGATTTAAGGTTTAGGGGTTAAGGGTTAG
Found at i:30254294 original size:14 final size:14
Alignment explanation
Indices: 30254277--30254324 Score: 78
Period size: 14 Copynumber: 3.4 Consensus size: 14
30254267 GGGTTGGGAT
30254277 TTAAGGTTTAGGGG
1 TTAAGGTTTAGGGG
*
30254291 TTAAGGATTAGGGG
1 TTAAGGTTTAGGGG
30254305 TTAAGGGTTTAGGGG
1 TTAA-GGTTTAGGGG
30254320 TTAAG
1 TTAAG
30254325 AGTTAGAGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
14 18 0.58
15 13 0.42
ACGTcount: A:0.25, C:0.00, G:0.42, T:0.33
Consensus pattern (14 bp):
TTAAGGTTTAGGGG
Found at i:30254690 original size:28 final size:27
Alignment explanation
Indices: 30254594--30254690 Score: 74
Period size: 28 Copynumber: 3.5 Consensus size: 27
30254584 GATTATATAT
*
30254594 GGATTTAGGGATTCT-GGATTAAGGGTT-G
1 GGATTTAGGG-TT-TAGGGTTAA-GGTTAG
* *
30254622 GGATTTAAGGTTTAGGGGTTATGGTTAG
1 GGATTTAGGGTTTA-GGGTTAAGGTTAG
**
30254650 GG-GCTAGGAGTTTAGGGTTAAGAGTTAG
1 GGATTTAGG-GTTTAGGGTTAAG-GTTAG
30254678 GGATTTAGGGTTT
1 GGATTTAGGGTTT
30254691 CAAGGGTCTG
Statistics
Matches: 54, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
26 1 0.02
27 16 0.30
28 33 0.61
29 4 0.07
ACGTcount: A:0.22, C:0.02, G:0.40, T:0.36
Consensus pattern (27 bp):
GGATTTAGGGTTTAGGGTTAAGGTTAG
Found at i:30254872 original size:15 final size:14
Alignment explanation
Indices: 30254849--30254887 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
30254839 ATTAAATAAT
30254849 GTTTAGGGTTTAGGG
1 GTTTAGGGTTT-GGG
* *
30254864 GTTTGGGGTTTGTG
1 GTTTAGGGTTTGGG
30254878 GTTTAGGGTT
1 GTTTAGGGTT
30254888 AAGAGTTAGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 11 0.52
15 10 0.48
ACGTcount: A:0.08, C:0.00, G:0.46, T:0.46
Consensus pattern (14 bp):
GTTTAGGGTTTGGG
Found at i:30254928 original size:17 final size:19
Alignment explanation
Indices: 30254901--30254940 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
30254891 AGTTAGTGAT
30254901 TTAAGGGTTT-AGATCAGA
1 TTAAGGGTTTAAGATCAGA
*
30254919 TTAA-GGTTTAAGCTCAGA
1 TTAAGGGTTTAAGATCAGA
30254937 TTAA
1 TTAA
30254941 TTAGTTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.35, C:0.07, G:0.23, T:0.35
Consensus pattern (19 bp):
TTAAGGGTTTAAGATCAGA
Found at i:30256601 original size:32 final size:33
Alignment explanation
Indices: 30256542--30256614 Score: 137
Period size: 33 Copynumber: 2.2 Consensus size: 33
30256532 GATTTTATAA
*
30256542 TTTTTGAAAGGATTAAGTATTCTTTTTTTCCAT
1 TTTTTGAAAGGATTAAGTATACTTTTTTTCCAT
30256575 TTTTTGAAAGGATTAAGTATACTTTTTTTCCAT
1 TTTTTGAAAGGATTAAGTATACTTTTTTTCCAT
30256608 TTTTTGA
1 TTTTTGA
30256615 GGGGGCCAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.25, C:0.08, G:0.12, T:0.55
Consensus pattern (33 bp):
TTTTTGAAAGGATTAAGTATACTTTTTTTCCAT
Found at i:30259176 original size:43 final size:43
Alignment explanation
Indices: 30259104--30259369 Score: 376
Period size: 42 Copynumber: 6.3 Consensus size: 43
30259094 ATGGCACTTT
* * * * * *
30259104 TAGCAGCGTTTGTGGGAGAAGCACTGCTAAAAGTCATGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGATCTA
*
30259147 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGAGCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGATCTA
* * *
30259190 TAGCGGCATTTGT-GTAAAAGGGCCGCTAAAGGTCTTGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGATCTA
*
30259232 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGAGCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGATCTA
* *
30259275 TAGCGGCGTTTGT-GTAAAAGCGCCGCTAAAGGTCCTGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGATCTA
*
30259317 TAGCGGCGTTTGTGGG-AAAGCGCCGCTAAAGGTCATGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGATCTA
*
30259359 TAGCAGCGTTT
1 TAGCGGCGTTT
30259370 ATTTCTAAAA
Statistics
Matches: 200, Mismatches: 21, Indels: 5
0.88 0.09 0.02
Matches are distributed among these distances:
42 112 0.56
43 88 0.44
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.26
Consensus pattern (43 bp):
TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGATCTA
Found at i:30259272 original size:85 final size:85
Alignment explanation
Indices: 30259129--30259362 Score: 398
Period size: 85 Copynumber: 2.8 Consensus size: 85
30259119 GAGAAGCACT
*
30259129 GCTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGAGCTATAGC
1 GCTAAAGGTCATGATCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGAGCTATAGC
*
30259194 GGCATTTGTGTAAAAGGGCC
66 GGCATTTGTGTAAAAGCGCC
*
30259214 GCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGAGCTATAGC
1 GCTAAAGGTCATGATCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGAGCTATAGC
*
30259279 GGCGTTTGTGTAAAAGCGCC
66 GGCATTTGTGTAAAAGCGCC
* * *
30259299 GCTAAAGGTCCTGATCTATAGCGGCGTTTGTGGG-AAAGCGCCGCTAAAGGTCATGATCTATAGC
1 GCTAAAGGTCATGATCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGAGCTATAGC
30259363 AGCGTTTATT
Statistics
Matches: 142, Mismatches: 7, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
84 28 0.20
85 114 0.80
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (85 bp):
GCTAAAGGTCATGATCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGAGCTATAGC
GGCATTTGTGTAAAAGCGCC
Found at i:30270782 original size:44 final size:44
Alignment explanation
Indices: 30270732--30270820 Score: 124
Period size: 44 Copynumber: 2.0 Consensus size: 44
30270722 GTATGCATGG
30270732 TATGTTTTGCCAGCCTGTTTATTATAAATTTTATATTTTTAAGA
1 TATGTTTTGCCAGCCTGTTTATTATAAATTTTATATTTTTAAGA
* * * * * *
30270776 TATGTTTTTCTAGCTTGTTTCTTGTAAATTTTATGTTTTTAAGA
1 TATGTTTTGCCAGCCTGTTTATTATAAATTTTATATTTTTAAGA
30270820 T
1 T
30270821 CATTGGAGCT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.24, C:0.08, G:0.12, T:0.56
Consensus pattern (44 bp):
TATGTTTTGCCAGCCTGTTTATTATAAATTTTATATTTTTAAGA
Found at i:30283525 original size:27 final size:27
Alignment explanation
Indices: 30283506--30283923 Score: 525
Period size: 27 Copynumber: 15.6 Consensus size: 27
30283496 GGGTATAACA
* *
30283506 GTCATTTTACCCTATGGGGGTATTTTG
1 GTCATTCTACCCTATGGGGGTATTTCG
* *
30283533 GTAATTTTACCCTATGGGGGTATTTCG
1 GTCATTCTACCCTATGGGGGTATTTCG
* * * *
30283560 ATCATTCTACCCAATAGGGGTATTTCA
1 GTCATTCTACCCTATGGGGGTATTTCG
* * *
30283587 GTCATTTTACCTTATGGGGGTATCTCG
1 GTCATTCTACCCTATGGGGGTATTTCG
* *
30283614 GTCATTTTACCCTATAGGGGTATTTCG
1 GTCATTCTACCCTATGGGGGTATTTCG
* * *
30283641 ATCATTCTACTCTAT-GGAGTATTTCG
1 GTCATTCTACCCTATGGGGGTATTTCG
* * *
30283667 GTCATTTTACCCTATAGGGGTATTTCA
1 GTCATTCTACCCTATGGGGGTATTTCG
*
30283694 GTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTCTACCCTATGGGGGTATTTCG
* *
30283721 ATCATTCTACCCTATAGGGGTATTTCG
1 GTCATTCTACCCTATGGGGGTATTTCG
*
30283748 GTCATTCTACCCTACGGGGGTATTTCG
1 GTCATTCTACCCTATGGGGGTATTTCG
* * *
30283775 GTTATTCTACCCTACGAGGGTATTTCG
1 GTCATTCTACCCTATGGGGGTATTTCG
30283802 GTCATTCTACCCTATGGGGGTATTTCG
1 GTCATTCTACCCTATGGGGGTATTTCG
*
30283829 ATCATTCTACCCTATGGGGGTATTTCG
1 GTCATTCTACCCTATGGGGGTATTTCG
* *
30283856 GTCATTCTACCTTAT-GGGGTATTTAG
1 GTCATTCTACCCTATGGGGGTATTTCG
* *
30283882 GTCATTCTACCCTTTAGGGGTATTTCG
1 GTCATTCTACCCTATGGGGGTATTTCG
* *
30283909 ATCATTTTACCCTAT
1 GTCATTCTACCCTAT
30283924 TTTTGGGTTT
Statistics
Matches: 339, Mismatches: 50, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
26 45 0.13
27 294 0.87
ACGTcount: A:0.19, C:0.20, G:0.22, T:0.39
Consensus pattern (27 bp):
GTCATTCTACCCTATGGGGGTATTTCG
Found at i:30289229 original size:39 final size:38
Alignment explanation
Indices: 30289185--30289390 Score: 225
Period size: 39 Copynumber: 5.3 Consensus size: 38
30289175 GGCATAAAAA
* * *
30289185 TGCGATCAGGTGTACTGAAGTATAGCAGGGGCATGTAAG
1 TGCGATCAGG-GTACTGAAGTACAACAGGGGCACGTAAG
**
30289224 TGCGATCAGGGGTACCAAAGTACAACAGGGGCACGTAAG
1 TGCGATCA-GGGTACTGAAGTACAACAGGGGCACGTAAG
*
30289263 TGCGATCAGGGGTACTGAAGTACAACAGGAGCAC-TAAG
1 TGCGATCA-GGGTACTGAAGTACAACAGGGGCACGTAAG
* * * *
30289301 TGTGATCAGGGTACCGAAGTACAACAGGAGCACATAAG
1 TGCGATCAGGGTACTGAAGTACAACAGGGGCACGTAAG
* * * *
30289339 TGCGATCAGGGCTATTGAAGTACAACATGGGTATGTAAG
1 TGCGATCAGGG-TACTGAAGTACAACAGGGGCACGTAAG
* *
30289378 TGCAACCAGGGTA
1 TGCGATCAGGGTA
30289391 TAATTATATA
Statistics
Matches: 144, Mismatches: 20, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
37 24 0.17
38 27 0.19
39 91 0.63
40 2 0.01
ACGTcount: A:0.33, C:0.17, G:0.32, T:0.18
Consensus pattern (38 bp):
TGCGATCAGGGTACTGAAGTACAACAGGGGCACGTAAG
Found at i:30289235 original size:20 final size:20
Alignment explanation
Indices: 30289210--30289274 Score: 69
Period size: 20 Copynumber: 3.3 Consensus size: 20
30289200 TGAAGTATAG
*
30289210 CAGGGGCATGTAAGTGCGAT
1 CAGGGGCACGTAAGTGCGAT
* ** * *
30289230 CAGGGGTACCAAAGTAC-AA
1 CAGGGGCACGTAAGTGCGAT
30289249 CAGGGGCACGTAAGTGCGAT
1 CAGGGGCACGTAAGTGCGAT
30289269 CAGGGG
1 CAGGGG
30289275 TACTGAAGTA
Statistics
Matches: 33, Mismatches: 11, Indels: 2
0.72 0.24 0.04
Matches are distributed among these distances:
19 14 0.42
20 19 0.58
ACGTcount: A:0.29, C:0.18, G:0.38, T:0.14
Consensus pattern (20 bp):
CAGGGGCACGTAAGTGCGAT
Found at i:30289254 original size:19 final size:19
Alignment explanation
Indices: 30289230--30289291 Score: 52
Period size: 19 Copynumber: 3.2 Consensus size: 19
30289220 TAAGTGCGAT
30289230 CAGGGGTACCAAAGTACAA
1 CAGGGGTACCAAAGTACAA
* ** * *
30289249 CAGGGGCACGTAAGTGCGAT
1 CAGGGGTACCAAAGTAC-AA
**
30289269 CAGGGGTACTGAAGTACAA
1 CAGGGGTACCAAAGTACAA
30289288 CAGG
1 CAGG
30289292 AGCACTAAGT
Statistics
Matches: 32, Mismatches: 10, Indels: 2
0.73 0.23 0.05
Matches are distributed among these distances:
19 18 0.56
20 14 0.44
ACGTcount: A:0.34, C:0.19, G:0.34, T:0.13
Consensus pattern (19 bp):
CAGGGGTACCAAAGTACAA
Found at i:30289283 original size:20 final size:20
Alignment explanation
Indices: 30289185--30289283 Score: 62
Period size: 20 Copynumber: 5.0 Consensus size: 20
30289175 GGCATAAAAA
*
30289185 TGCGATCAGGTGTACTGAAG
1 TGCGATCAGGGGTACTGAAG
** * *
30289205 T-ATAGCAGGGGCA-TGTAAG
1 TGCGATCAGGGGTACTG-AAG
**
30289224 TGCGATCAGGGGTACCAAAG
1 TGCGATCAGGGGTACTGAAG
* * *
30289244 TAC-AACAGGGGCAC-GTAAG
1 TGCGATCAGGGGTACTG-AAG
30289263 TGCGATCAGGGGTACTGAAG
1 TGCGATCAGGGGTACTGAAG
30289283 T
1 T
30289284 ACAACAGGAG
Statistics
Matches: 55, Mismatches: 18, Indels: 12
0.65 0.21 0.14
Matches are distributed among these distances:
18 2 0.04
19 25 0.45
20 27 0.49
21 1 0.02
ACGTcount: A:0.29, C:0.16, G:0.35, T:0.19
Consensus pattern (20 bp):
TGCGATCAGGGGTACTGAAG
Found at i:30289339 original size:76 final size:78
Alignment explanation
Indices: 30289185--30289365 Score: 249
Period size: 76 Copynumber: 2.3 Consensus size: 78
30289175 GGCATAAAAA
* * * * *
30289185 TGCGATCAGGTGTACTGAAGTATAGCAGGGGCATGTAAGTGCGATCAGGGGTACCAAAGTACAAC
1 TGCGATCAGGGGTACTGAAGTACAACAGGAGCATCTAAGTGCGATCAGGGGTACCAAAGTACAAC
* *
30289250 AGGGGCACGTAAG
66 AGGAGCACATAAG
* *
30289263 TGCGATCAGGGGTACTGAAGTACAACAGGAGCA-CTAAGTGTGATCA-GGGTACCGAAGTACAAC
1 TGCGATCAGGGGTACTGAAGTACAACAGGAGCATCTAAGTGCGATCAGGGGTACCAAAGTACAAC
30289326 AGGAGCACATAAG
66 AGGAGCACATAAG
* *
30289339 TGCGATCAGGGCTATTGAAGTACAACA
1 TGCGATCAGGGGTACTGAAGTACAACA
30289366 TGGGTATGTA
Statistics
Matches: 92, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
76 52 0.57
77 11 0.12
78 29 0.32
ACGTcount: A:0.33, C:0.18, G:0.31, T:0.18
Consensus pattern (78 bp):
TGCGATCAGGGGTACTGAAGTACAACAGGAGCATCTAAGTGCGATCAGGGGTACCAAAGTACAAC
AGGAGCACATAAG
Found at i:30303078 original size:51 final size:51
Alignment explanation
Indices: 30302946--30303143 Score: 213
Period size: 51 Copynumber: 3.9 Consensus size: 51
30302936 AGTGAAATTG
* * *
30302946 ATGGTCACGTGTGTAGTACTATTTGCAGGCTACTATGTGTACCGGA-A-TG
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGATAGTA
* * * *
30302995 ATAGGCCGCATGTGTAGTAATATGTGCAGGCTACTATGCGTACCGGATAGT-
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGATAGTA
* * * * * ** *
30303046 TTCGATCACGTGTGTAGTACTATGTGCAGGCTATTACGTGTATTGGATGGTA
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGATAGTA
*
30303098 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGAACCGGA
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGA
30303144 CATCACTGAT
Statistics
Matches: 118, Mismatches: 27, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
49 2 0.02
50 38 0.32
51 76 0.64
52 2 0.02
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.31
Consensus pattern (51 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGATAGTA
Found at i:30303142 original size:102 final size:101
Alignment explanation
Indices: 30302950--30303143 Score: 264
Period size: 102 Copynumber: 1.9 Consensus size: 101
30302940 AAATTGATGG
* * *
30302950 TCACGTGTGTAGTACTATTTGCAGGCTACTATGTGTACCGGAATGATAGGCCGCATGTGTAGTAA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGATAGGCCACATGTGTAGTAA
*
30303015 TATGTGCAGGCTACTATGCGTACCGGATAGTTTCGA
66 TATGTGCAGGCTACTATGCGAACCGGATAGTTTCGA
* ** * *
30303051 TCACGTGTGTAGTACTATGTGCAGGCTATTACGTGTATTGG-ATGGTAATGGTCACATGTGTAGT
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGAT-A-GGCCACATGTGTAGT
* *
30303115 ACTATGTGCAGGCTACTATGTGAACCGGA
64 AATATGTGCAGGCTACTATGCGAACCGGA
30303144 CATCACTGAT
Statistics
Matches: 80, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
100 4 0.05
101 37 0.46
102 39 0.49
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.31
Consensus pattern (101 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGATAGGCCACATGTGTAGTAA
TATGTGCAGGCTACTATGCGAACCGGATAGTTTCGA
Found at i:30319540 original size:17 final size:16
Alignment explanation
Indices: 30319514--30319545 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
30319504 TAAATCCAAG
30319514 ATTTTGATACCCATAT
1 ATTTTGATACCCATAT
30319530 ATTTCTGATACCCATA
1 ATTT-TGATACCCATA
30319546 ACTATGACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.31, C:0.22, G:0.06, T:0.41
Consensus pattern (16 bp):
ATTTTGATACCCATAT
Found at i:30322660 original size:38 final size:38
Alignment explanation
Indices: 30322601--30322681 Score: 117
Period size: 38 Copynumber: 2.1 Consensus size: 38
30322591 TAACCAACTG
* * * *
30322601 TAACATGCCAATTTGCTCATAAGGGTTATTTCATCTGA
1 TAACATGCCAATTTACCCATAAGAGTTATTCCATCTGA
*
30322639 TAACATGCCAGTTTACCCATAAGAGTTATTCCATCTGA
1 TAACATGCCAATTTACCCATAAGAGTTATTCCATCTGA
30322677 TAACA
1 TAACA
30322682 AATTATTTTG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.33
Consensus pattern (38 bp):
TAACATGCCAATTTACCCATAAGAGTTATTCCATCTGA
Found at i:30322698 original size:38 final size:38
Alignment explanation
Indices: 30322612--30322701 Score: 99
Period size: 38 Copynumber: 2.4 Consensus size: 38
30322602 AACATGCCAA
* * **
30322612 TTTGCTCATAAGGGTTATTTCATCTGATAACATGCCAG
1 TTTGCTCATAAGAGTTATTCCATCTGATAACAAACCAG
* * ** *
30322650 TTTACCCATAAGAGTTATTCCATCTGATAACAAATTAT
1 TTTGCTCATAAGAGTTATTCCATCTGATAACAAACCAG
30322688 TTTGCTCATAAGAG
1 TTTGCTCATAAGAG
30322702 CTAAAACTGG
Statistics
Matches: 41, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (38 bp):
TTTGCTCATAAGAGTTATTCCATCTGATAACAAACCAG
Found at i:30324750 original size:30 final size:31
Alignment explanation
Indices: 30324715--30324777 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 31
30324705 AGTCTATATC
30324715 TTTATAATTTTTAA-AGGACTAAA-TGAAATT
1 TTTATAA-TTTTAAGAGGACTAAAGTGAAATT
* *
30324745 TTTATAATTTTAAGGGGACTAAAGTGTAATT
1 TTTATAATTTTAAGAGGACTAAAGTGAAATT
30324776 TT
1 TT
30324778 ACCTTTACTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 6 0.21
30 15 0.52
31 8 0.28
ACGTcount: A:0.38, C:0.03, G:0.14, T:0.44
Consensus pattern (31 bp):
TTTATAATTTTAAGAGGACTAAAGTGAAATT
Found at i:30330077 original size:37 final size:37
Alignment explanation
Indices: 30330036--30330110 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
30330026 CTTGATTAAC
30330036 ATACACAGTCCCTGTGGAGACAATAACTCTTTTACTT
1 ATACACAGTCCCTGTGGAGACAATAACTCTTTTACTT
30330073 ATACACAGTCCCTGTGGAGACAATAACTCTTTTACTT
1 ATACACAGTCCCTGTGGAGACAATAACTCTTTTACTT
30330110 A
1 A
30330111 CTTTATTACT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.32
Consensus pattern (37 bp):
ATACACAGTCCCTGTGGAGACAATAACTCTTTTACTT
Found at i:30340242 original size:22 final size:22
Alignment explanation
Indices: 30340201--30340244 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
30340191 ATTATCAAAA
30340201 ATGTGTTTATGAATATTGTGAT
1 ATGTGTTTATGAATATTGTGAT
30340223 ATGTGCTTATATG-ATA-TGTGAT
1 ATGTG-TT-TATGAATATTGTGAT
30340245 TATTATGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 11 0.55
23 5 0.25
24 4 0.20
ACGTcount: A:0.27, C:0.02, G:0.23, T:0.48
Consensus pattern (22 bp):
ATGTGTTTATGAATATTGTGAT
Found at i:30346749 original size:38 final size:38
Alignment explanation
Indices: 30346688--30346880 Score: 226
Period size: 38 Copynumber: 5.1 Consensus size: 38
30346678 ACTTTTTAAT
** *
30346688 ACACCGGCACTAAGCCTGTTAAGCACAAAGCTTAAATA
1 ACACCGGCACTAAGCCTACTAAGCACAAAGCCTAAATA
* * *
30346726 ACACTGGCAC-AATGCCTACTAAGCACAATGCCTGAATA
1 ACACCGGCACTAA-GCCTACTAAGCACAAAGCCTAAATA
* * * *
30346764 ACACCGGCACGAAGCCTACTAGGCACACAGCCTTAATA
1 ACACCGGCACTAAGCCTACTAAGCACAAAGCCTAAATA
*
30346802 ACACCGGCACTAAGCCTACTAGGCACAAAGCCTAAATA
1 ACACCGGCACTAAGCCTACTAAGCACAAAGCCTAAATA
* * * **
30346840 ATACTGGCACTAAGCCTGCTAAGCACAAAGCCCGAATA
1 ACACCGGCACTAAGCCTACTAAGCACAAAGCCTAAATA
30346878 ACA
1 ACA
30346881 ATACAAGTCC
Statistics
Matches: 132, Mismatches: 21, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
37 2 0.02
38 128 0.97
39 2 0.02
ACGTcount: A:0.38, C:0.30, G:0.17, T:0.16
Consensus pattern (38 bp):
ACACCGGCACTAAGCCTACTAAGCACAAAGCCTAAATA
Found at i:30349075 original size:23 final size:23
Alignment explanation
Indices: 30349045--30349092 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
30349035 GGTTCCAGTC
30349045 TTGGCTTTTGCATAATTTTTAGT
1 TTGGCTTTTGCATAATTTTTAGT
30349068 TTGGCTTTTGCATAATTTTTAGT
1 TTGGCTTTTGCATAATTTTTAGT
30349091 TT
1 TT
30349093 TACTCTTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.17, C:0.08, G:0.17, T:0.58
Consensus pattern (23 bp):
TTGGCTTTTGCATAATTTTTAGT
Found at i:30350110 original size:27 final size:27
Alignment explanation
Indices: 30350045--30350177 Score: 180
Period size: 27 Copynumber: 5.0 Consensus size: 27
30350035 TATCTGGACT
30350045 GAAATACCCCCGA-AGGGTAAAATGACC
1 GAAATACCCCC-ATAGGGTAAAATGACC
*
30350072 -AAATACCCTCATAGGGTAAAATGACC
1 GAAATACCCCCATAGGGTAAAATGACC
* * *
30350098 AAAATACCCTCATAGGGTAAAATGACT
1 GAAATACCCCCATAGGGTAAAATGACC
* *
30350125 GAAATACCCCCATAGGGTAGAATGATC
1 GAAATACCCCCATAGGGTAAAATGACC
*
30350152 GAAATACCCCCATGGGGTAAAATGAC
1 GAAATACCCCCATAGGGTAAAATGAC
30350178 TGGTATACCC
Statistics
Matches: 94, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
25 1 0.01
26 23 0.24
27 70 0.74
ACGTcount: A:0.41, C:0.23, G:0.20, T:0.17
Consensus pattern (27 bp):
GAAATACCCCCATAGGGTAAAATGACC
Found at i:30350605 original size:28 final size:28
Alignment explanation
Indices: 30350565--30350724 Score: 153
Period size: 28 Copynumber: 5.7 Consensus size: 28
30350555 ACTATTATTA
* *
30350565 TATTAGGCTAAAGCCCACACTTATACTA
1 TATTGGGCTAAAGCCCACACTTATACTG
* * * *
30350593 TTTTGGGCTAAAGCCCACACTGATATTA
1 TATTGGGCTAAAGCCCACACTTATACTG
* *
30350621 TTTTGGGCTAAAGCCCACA-TTGATACCG
1 TATTGGGCTAAAGCCCACACTT-ATACTG
* * * * *
30350649 TGTTAGGCTAACGCTCACACTGATACTG
1 TATTGGGCTAAAGCCCACACTTATACTG
*
30350677 TATTGGGCTAAGGCCCACACTGT-TACTG
1 TATTGGGCTAAAGCCCACACT-TATACTG
*
30350705 TATTGGGCTAAGGCCCACAC
1 TATTGGGCTAAAGCCCACAC
30350725 AGTTTTGTTA
Statistics
Matches: 110, Mismatches: 19, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
27 1 0.01
28 108 0.98
29 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (28 bp):
TATTGGGCTAAAGCCCACACTTATACTG
Found at i:30350639 original size:56 final size:56
Alignment explanation
Indices: 30350560--30350724 Score: 181
Period size: 56 Copynumber: 2.9 Consensus size: 56
30350550 ACTGTACTAT
* * *
30350560 TATTATATTAGGCTAAAGCCCACACTTATACTATTTTGGGCTAAAGCCCACACTGA
1 TATTATATTGGGCTAAAGCCCACACTTATACTGTATTGGGCTAAAGCCCACACTGA
* * * * * *
30350616 TATTATTTTGGGCTAAAGCCCACA-TTGATACCGTGTTAGGCTAACGCTCACACTGA
1 TATTATATTGGGCTAAAGCCCACACTT-ATACTGTATTGGGCTAAAGCCCACACTGA
* * * *
30350672 TACTGTATTGGGCTAAGGCCCACACTGT-TACTGTATTGGGCTAAGGCCCACAC
1 TATTATATTGGGCTAAAGCCCACACT-TATACTGTATTGGGCTAAAGCCCACAC
30350725 AGTTTTGTTA
Statistics
Matches: 89, Mismatches: 17, Indels: 6
0.79 0.15 0.05
Matches are distributed among these distances:
55 2 0.02
56 85 0.96
57 1 0.01
58 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.29
Consensus pattern (56 bp):
TATTATATTGGGCTAAAGCCCACACTTATACTGTATTGGGCTAAAGCCCACACTGA
Found at i:30350711 original size:84 final size:84
Alignment explanation
Indices: 30350567--30350723 Score: 215
Period size: 84 Copynumber: 1.9 Consensus size: 84
30350557 TATTATTATA
* * * *
30350567 TTAGGCTAAAGCCCACACTTATACTATTTTGGGCTAAAGCCCACACTGATATTATTTTGGGCTAA
1 TTAGGCTAAAGCCCACACTGATACTATATTGGGCTAAAGCCCACACTGATACTATATTGGGCTAA
30350632 AGCCCACATTGATACCGTG
66 AGCCCACATTGATACCGTG
* * * * * *
30350651 TTAGGCTAACGCTCACACTGATACTGTATTGGGCTAAGGCCCACACTGTTACTGTATTGGGCTAA
1 TTAGGCTAAAGCCCACACTGATACTATATTGGGCTAAAGCCCACACTGATACTATATTGGGCTAA
*
30350716 GGCCCACA
66 AGCCCACA
30350724 CAGTTTTGTT
Statistics
Matches: 62, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
84 62 1.00
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (84 bp):
TTAGGCTAAAGCCCACACTGATACTATATTGGGCTAAAGCCCACACTGATACTATATTGGGCTAA
AGCCCACATTGATACCGTG
Found at i:30355421 original size:18 final size:17
Alignment explanation
Indices: 30355385--30355435 Score: 59
Period size: 18 Copynumber: 3.0 Consensus size: 17
30355375 TGTAATTTAG
* *
30355385 TTTTTGGTTTTCTTTTC
1 TTTTCGGTTTTATTTTC
30355402 TTTTCGGTTTTATATTTC
1 TTTTCGGTTTTAT-TTTC
*
30355420 TTTTCAGTTTT-TTTTC
1 TTTTCGGTTTTATTTTC
30355436 ATCTGTGTTC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
16 4 0.13
17 12 0.40
18 14 0.47
ACGTcount: A:0.06, C:0.12, G:0.10, T:0.73
Consensus pattern (17 bp):
TTTTCGGTTTTATTTTC
Found at i:30356092 original size:24 final size:24
Alignment explanation
Indices: 30356064--30356112 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
30356054 GTAATAGTGT
30356064 TTGTTTTATATCACAAAAAGAGCC
1 TTGTTTTATATCACAAAAAGAGCC
30356088 TTGTTTTATATCACAAAAAGAGCC
1 TTGTTTTATATCACAAAAAGAGCC
30356112 T
1 T
30356113 GTGGTCAAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (24 bp):
TTGTTTTATATCACAAAAAGAGCC
Found at i:30356285 original size:12 final size:12
Alignment explanation
Indices: 30356248--30356289 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
30356238 ACTGGTCATA
*
30356248 GAGAGAATTGAG
1 GAGAGATTTGAG
*
30356260 GAGGGATATT-AG
1 GAGAGAT-TTGAG
30356272 GAGAGATTTGAG
1 GAGAGATTTGAG
30356284 GAGAGA
1 GAGAGA
30356290 GTATTGGGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
11 2 0.08
12 21 0.84
13 2 0.08
ACGTcount: A:0.38, C:0.00, G:0.43, T:0.19
Consensus pattern (12 bp):
GAGAGATTTGAG
Found at i:30357116 original size:27 final size:27
Alignment explanation
Indices: 30356970--30357102 Score: 178
Period size: 27 Copynumber: 5.0 Consensus size: 27
30356960 CTATATCTGC
* * * *
30356970 ACCGAAATACCCTCATAAGGTAGAATG
1 ACCGAAATACCCCCATAGGGTAAAATA
* * *
30356997 ACCGAAATA-CCCTATGGGGTAAAATG
1 ACCGAAATACCCCCATAGGGTAAAATA
*
30357023 ATCGAAATACCCCCATAGGGTAAAATA
1 ACCGAAATACCCCCATAGGGTAAAATA
*
30357050 ACCGAAATACCTCCATAGGGTAAAATA
1 ACCGAAATACCCCCATAGGGTAAAATA
30357077 ACCGAAATACCCCCATAGGGTAAAAT
1 ACCGAAATACCCCCATAGGGTAAAAT
30357103 GACTATTATA
Statistics
Matches: 93, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
26 20 0.22
27 73 0.78
ACGTcount: A:0.42, C:0.23, G:0.17, T:0.18
Consensus pattern (27 bp):
ACCGAAATACCCCCATAGGGTAAAATA
Found at i:30357563 original size:28 final size:28
Alignment explanation
Indices: 30357499--30357565 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 28
30357489 TGTACTGTAA
* *
30357499 TGTTACTGAATTGGGATAAGGTCCACAC
1 TGTTACTGTATTGGGATAAGGCCCACAC
* * *
30357527 TAATT-CTGTATTGGGCTCAGGCCCACAC
1 T-GTTACTGTATTGGGATAAGGCCCACAC
30357555 TGTTACTGTAT
1 TGTTACTGTAT
30357566 ATTGTTTACT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
27 2 0.06
28 27 0.87
29 2 0.06
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.33
Consensus pattern (28 bp):
TGTTACTGTATTGGGATAAGGCCCACAC
Found at i:30360487 original size:22 final size:22
Alignment explanation
Indices: 30360457--30360498 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
30360447 TTCTCACTAG
30360457 TTTTAC-TTTTGCTACTATTACA
1 TTTTACTTTTTGCTAC-ATTACA
*
30360479 TTTTTCTTTTTGCTACATTA
1 TTTTACTTTTTGCTACATTA
30360499 TTTCTCTTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.19, C:0.17, G:0.05, T:0.60
Consensus pattern (22 bp):
TTTTACTTTTTGCTACATTACA
Found at i:30360506 original size:20 final size:22
Alignment explanation
Indices: 30360463--30360506 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
30360453 CTAGTTTTAC
*
30360463 TTTTGCTACTATTACATTTTTCT
1 TTTTGCTACTATTA-ATTTCTCT
30360486 TTTTGCTAC-ATT-ATTTCTCT
1 TTTTGCTACTATTAATTTCTCT
30360506 T
1 T
30360507 CTCTTTGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 8 0.40
22 3 0.15
23 9 0.45
ACGTcount: A:0.16, C:0.18, G:0.05, T:0.61
Consensus pattern (22 bp):
TTTTGCTACTATTAATTTCTCT
Found at i:30363592 original size:39 final size:39
Alignment explanation
Indices: 30363538--30363617 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
30363528 TTGATGACCT
30363538 TAGGAAGTAACTTAGGTAGATGAGGCCAAAAGAATAGTC
1 TAGGAAGTAACTTAGGTAGATGAGGCCAAAAGAATAGTC
30363577 TAGGAAGTAACTTAGGTAGATGAGGCCAAAAGAATAGTC
1 TAGGAAGTAACTTAGGTAGATGAGGCCAAAAGAATAGTC
30363616 TA
1 TA
30363618 TCAAGCATTG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.41, C:0.10, G:0.28, T:0.21
Consensus pattern (39 bp):
TAGGAAGTAACTTAGGTAGATGAGGCCAAAAGAATAGTC
Found at i:30374753 original size:19 final size:19
Alignment explanation
Indices: 30374726--30374763 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
30374716 ACAATTTAAA
30374726 GTTTCTAAT-ATTAATATTT
1 GTTTCTAATAATT-ATATTT
*
30374745 GTTTGTAATAATTATATTT
1 GTTTCTAATAATTATATTT
30374764 AGTTATATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.32, C:0.03, G:0.08, T:0.58
Consensus pattern (19 bp):
GTTTCTAATAATTATATTT
Found at i:30377649 original size:31 final size:31
Alignment explanation
Indices: 30377611--30377672 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
30377601 TTGTATAAAA
30377611 CGATCCCTTCAACACCAATGGAGAGTAGCTC
1 CGATCCCTTCAACACCAATGGAGAGTAGCTC
30377642 CGATCCCTTCAACACCAATGGAGAGTAGCTC
1 CGATCCCTTCAACACCAATGGAGAGTAGCTC
30377673 TTCTTTCTCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.29, C:0.32, G:0.19, T:0.19
Consensus pattern (31 bp):
CGATCCCTTCAACACCAATGGAGAGTAGCTC
Found at i:30384206 original size:32 final size:32
Alignment explanation
Indices: 30384152--30384212 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
30384142 AAATAAACAC
30384152 ATAATTATTCATTTAATATTATAACTATTCAA
1 ATAATTATTCATTTAATATTATAACTATTCAA
*
30384184 ATAA-TATT-ATTTAAATAGTTATAATTATT
1 ATAATTATTCATTT-AATA-TTATAACTATT
30384213 TTTCAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 4 0.15
31 8 0.31
32 14 0.54
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (32 bp):
ATAATTATTCATTTAATATTATAACTATTCAA
Found at i:30394602 original size:42 final size:42
Alignment explanation
Indices: 30394518--30394602 Score: 116
Period size: 42 Copynumber: 2.0 Consensus size: 42
30394508 ACTGGTTTTA
*
30394518 CTTCACCTTCTGGCTTTGGCTTGTAATCAGGGATTGGTTTTG
1 CTTCACCTTCTGGCTTTGGCTTGTAATCAGGGATTGGATTTG
* * * * *
30394560 CTTCTCCTTGTGGCTTTGGCTTGTAATCTGTGCTTGGATTTG
1 CTTCACCTTCTGGCTTTGGCTTGTAATCAGGGATTGGATTTG
30394602 C
1 C
30394603 ATCATATTGG
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.09, C:0.20, G:0.26, T:0.45
Consensus pattern (42 bp):
CTTCACCTTCTGGCTTTGGCTTGTAATCAGGGATTGGATTTG
Found at i:30395499 original size:17 final size:16
Alignment explanation
Indices: 30395443--30395495 Score: 65
Period size: 15 Copynumber: 3.4 Consensus size: 16
30395433 AATATTACTA
30395443 ATATTAATATTTAATT
1 ATATTAATATTTAATT
* * *
30395459 ATAATAGT-TATAATT
1 ATATTAATATTTAATT
30395474 A-ATTAATATTTAATT
1 ATATTAATATTTAATT
30395489 ATATTAA
1 ATATTAA
30395496 ATATATTTAT
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
14 4 0.14
15 14 0.48
16 11 0.38
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
ATATTAATATTTAATT
Found at i:30397227 original size:1 final size:1
Alignment explanation
Indices: 30397216--30397260 Score: 72
Period size: 1 Copynumber: 45.0 Consensus size: 1
30397206 AATGGACTAA
* *
30397216 TTTTCTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTGTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
30397261 CATCTTGAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
1 40 1.00
ACGTcount: A:0.00, C:0.02, G:0.02, T:0.96
Consensus pattern (1 bp):
T
Found at i:30398613 original size:20 final size:20
Alignment explanation
Indices: 30398588--30398641 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 20
30398578 AGAATATCGG
*
30398588 TTTACCAATATTTATAAGGC
1 TTTACCAATATTTATAAGAC
* *
30398608 TTTACCAAAAATTTATAAGAT
1 TTTACC-AATATTTATAAGAC
*
30398629 TTTATCAATATTT
1 TTTACCAATATTT
30398642 TCAAATTTTC
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.39, C:0.11, G:0.06, T:0.44
Consensus pattern (20 bp):
TTTACCAATATTTATAAGAC
Found at i:30398798 original size:20 final size:20
Alignment explanation
Indices: 30398775--30398828 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
30398765 ATTTCTATCG
* *
30398775 TTTTACCAATATTTATGAGA
1 TTTTACCAATATTTATAAAA
* *
30398795 TTTTACCAAAATTTTTAAAA
1 TTTTACCAATATTTATAAAA
30398815 TTTTACCAATATTT
1 TTTTACCAATATTT
30398829 CCTAATTTTC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.37, C:0.11, G:0.04, T:0.48
Consensus pattern (20 bp):
TTTTACCAATATTTATAAAA
Found at i:30398921 original size:20 final size:20
Alignment explanation
Indices: 30398888--30398983 Score: 75
Period size: 20 Copynumber: 4.8 Consensus size: 20
30398878 CTTTATCAAA
**
30398888 ATATCTAATAATTTACCAAT
1 ATATCTAACGATTTACCAAT
30398908 ATATCTAACGATTTACCAAAT
1 ATATCTAACGATTTACC-AAT
* * * ** *
30398929 TTTTTTATTGTTTTACCAAT
1 ATATCTAACGATTTACCAAT
* * *
30398949 ATCTCTAACGTTTTACCAAA
1 ATATCTAACGATTTACCAAT
*
30398969 ATATCTAACAATTTA
1 ATATCTAACGATTTA
30398984 TAAATATTTA
Statistics
Matches: 58, Mismatches: 17, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
20 44 0.76
21 14 0.24
ACGTcount: A:0.38, C:0.17, G:0.03, T:0.43
Consensus pattern (20 bp):
ATATCTAACGATTTACCAAT
Found at i:30401998 original size:20 final size:20
Alignment explanation
Indices: 30401973--30402136 Score: 111
Period size: 20 Copynumber: 8.2 Consensus size: 20
30401963 ATATTATCAA
30401973 TTACCAAAATTTCTAAAGAT
1 TTACCAAAATTTCTAAAGAT
** *
30401993 TTACCATTATTTCTAAGGA-
1 TTACCAAAATTTCTAAAGAT
* * *
30402012 TTCCCTAAAATATCTAACGAT
1 TTACC-AAAATTTCTAAAGAT
* * *
30402033 TTACCGAAATTTTTAAGGAT
1 TTACCAAAATTTCTAAAGAT
*
30402053 TTACCAAAATATT-TAACGAT
1 TTACCAAAAT-TTCTAAAGAT
* * *
30402073 TTACCAAATTTTCTATCA-TT
1 TTACCAAAATTTCTA-AAGAT
* * *
30402093 TTACCAATATATCTAATA-AC
1 TTACCAAAATTTCTAA-AGAT
*
30402113 TTACCAAAATTTCTAATGAT
1 TTACCAAAATTTCTAAAGAT
30402133 TTAC
1 TTAC
30402137 TGTAACATCT
Statistics
Matches: 108, Mismatches: 29, Indels: 14
0.72 0.19 0.09
Matches are distributed among these distances:
19 6 0.06
20 96 0.89
21 6 0.06
ACGTcount: A:0.38, C:0.17, G:0.05, T:0.39
Consensus pattern (20 bp):
TTACCAAAATTTCTAAAGAT
Found at i:30402034 original size:40 final size:39
Alignment explanation
Indices: 30401973--30402136 Score: 143
Period size: 40 Copynumber: 4.1 Consensus size: 39
30401963 ATATTATCAA
* * *
30401973 TTACCAAAATTTCTAAAGATTTACCATTATTTCTAAGGA-
1 TTACCAAAATATCTAACGATTTACCA-AATTTCTAAGGAT
* *
30402012 TTCCCTAAAATATCTAACGATTTACCGAAATTTTTAAGGAT
1 TTACC-AAAATATCTAACGATTTACC-AAATTTCTAAGGAT
* **
30402053 TTACCAAAATATTTAACGATTTACCAAATTTTCT-ATCATT
1 TTACCAAAATATCTAACGATTTACCAAA-TTTCTAAGGA-T
* ** * *
30402093 TTACCAATATATCTAATAACTTACCAAAATTTCTAATGAT
1 TTACCAAAATATCTAACGATTTACC-AAATTTCTAAGGAT
30402133 TTAC
1 TTAC
30402137 TGTAACATCT
Statistics
Matches: 102, Mismatches: 16, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
39 9 0.09
40 82 0.80
41 11 0.11
ACGTcount: A:0.38, C:0.17, G:0.05, T:0.39
Consensus pattern (39 bp):
TTACCAAAATATCTAACGATTTACCAAATTTCTAAGGAT
Found at i:30404549 original size:29 final size:29
Alignment explanation
Indices: 30404498--30404560 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 29
30404488 ACAATATGGT
* * * *
30404498 AGGCCGTGTAAACCACACGGTCGTGTGCC
1 AGGCCGTATAAACCACACAGTCGTATACC
* *
30404527 AGGCCGTATAAACCATATAGTCGTATACC
1 AGGCCGTATAAACCACACAGTCGTATACC
30404556 AGGCC
1 AGGCC
30404561 ATGTGGCATG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.27, C:0.29, G:0.25, T:0.19
Consensus pattern (29 bp):
AGGCCGTATAAACCACACAGTCGTATACC
Found at i:30406911 original size:19 final size:19
Alignment explanation
Indices: 30406867--30406932 Score: 69
Period size: 20 Copynumber: 3.3 Consensus size: 19
30406857 TTGGGGTGTT
* *
30406867 ACATTTACCAAAATATCTA
1 ACATTTACCAAATTTTCTA
30406886 ACAATTTACCAAATTTTCTA
1 AC-ATTTACCAAATTTTCTA
*
30406906 TCATTTTACCAATATTTTCTA
1 ACA-TTTACCAA-ATTTTCTA
*
30406927 AGATTT
1 ACATTT
30406933 TACTAATATT
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
19 3 0.08
20 27 0.69
21 9 0.23
ACGTcount: A:0.38, C:0.18, G:0.02, T:0.42
Consensus pattern (19 bp):
ACATTTACCAAATTTTCTA
Found at i:30406924 original size:21 final size:21
Alignment explanation
Indices: 30406882--30406943 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 21
30406872 TACCAAAATA
*
30406882 TCTAACAATTTACCAA-ATTT
1 TCTAACATTTTACCAATATTT
*
30406902 TCTATCATTTTACCAATATTT
1 TCTAACATTTTACCAATATTT
* *
30406923 TCTAAGATTTTACTAATATTT
1 TCTAACATTTTACCAATATTT
30406944 CCAAATTTTC
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
20 14 0.39
21 22 0.61
ACGTcount: A:0.34, C:0.16, G:0.02, T:0.48
Consensus pattern (21 bp):
TCTAACATTTTACCAATATTT
Found at i:30407465 original size:20 final size:20
Alignment explanation
Indices: 30407118--30407473 Score: 206
Period size: 20 Copynumber: 17.8 Consensus size: 20
30407108 GTCTTAGCAA
*
30407118 TTACCAAAATTTCT-ATGACT
1 TTACCAAAATTTCTAACGA-T
* *
30407138 TTACCAAAATATCTAATGAT
1 TTACCAAAATTTCTAACGAT
* *
30407158 TTACCAAAATTTCTAAGGAC
1 TTACCAAAATTTCTAACGAT
* *
30407178 TTACCAATAA-ATCTAACAAT
1 TTACCAA-AATTTCTAACGAT
* *
30407198 TTACCAATATTTCTGA-GAAT
1 TTACCAAAATTTCTAACG-AT
* *
30407218 TTACCAAAATATCTAACAAT
1 TTACCAAAATTTCTAACGAT
* * * *
30407238 ATATCAAAATTTCCATCGAT
1 TTACCAAAATTTCTAACGAT
* * *
30407258 TTACTAATATTTTTGAA--ACT
1 TTACCAAAATTTCT-AACGA-T
*
30407278 TTACCAATATTTCTAA-GAAT
1 TTACCAAAATTTCTAACG-AT
**
30407298 TTACCAAAATATT-TGGCGAT
1 TTACCAAAAT-TTCTAACGAT
* * *
30407318 TTACCAATATATCTAACGGT
1 TTACCAAAATTTCTAACGAT
* * *
30407338 TTATCAAAATTTATAAGGAT
1 TTACCAAAATTTCTAACGAT
* * * * *
30407358 TTACCGATATGTCTAACAAA
1 TTACCAAAATTTCTAACGAT
* * * *
30407378 TTATCAAAATTTTTAAGGTT
1 TTACCAAAATTTCTAACGAT
** *
30407398 TTACCAAAACATCTAATGAT
1 TTACCAAAATTTCTAACGAT
* *
30407418 TTACCAAAATTTTTAATG-T
1 TTACCAAAATTTCTAACGAT
*
30407437 TTCACCAAAATATCTAACGAT
1 TT-ACCAAAATTTCTAACGAT
30407458 TTACCAAAATTTCTAA
1 TTACCAAAATTTCTAA
30407474 AATTTTACAA
Statistics
Matches: 247, Mismatches: 75, Indels: 28
0.71 0.21 0.08
Matches are distributed among these distances:
19 8 0.03
20 225 0.91
21 14 0.06
ACGTcount: A:0.40, C:0.16, G:0.06, T:0.37
Consensus pattern (20 bp):
TTACCAAAATTTCTAACGAT
Found at i:30407480 original size:20 final size:20
Alignment explanation
Indices: 30407417--30407481 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
30407407 CATCTAATGA
* **
30407417 TTTACCAAAATTTTTAATGT
1 TTTACCAAAATTTCTAAAAT
* * *
30407437 TTCACCAAAATATCTAACGA-
1 TTTACCAAAATTTCTAA-AAT
30407457 TTTACCAAAATTTCTAAAAT
1 TTTACCAAAATTTCTAAAAT
30407477 TTTAC
1 TTTAC
30407482 AAATAGTTCC
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
19 1 0.03
20 34 0.97
ACGTcount: A:0.40, C:0.17, G:0.03, T:0.40
Consensus pattern (20 bp):
TTTACCAAAATTTCTAAAAT
Found at i:30407592 original size:20 final size:20
Alignment explanation
Indices: 30407544--30407626 Score: 67
Period size: 20 Copynumber: 4.2 Consensus size: 20
30407534 TTTCTCTAAC
* * *
30407544 TTTACCAAAATATCCAATGA
1 TTTACCAATATATCTAAAGA
* *
30407564 CTTATCAATATATCTAAAGA
1 TTTACCAATATATCTAAAGA
* *
30407584 TTTACCAATATTTCTAAGGA
1 TTTACCAATATATCTAAAGA
* * * *
30407604 TTTATCAACATATTTGAAGA
1 TTTACCAATATATCTAAAGA
30407624 TTT
1 TTT
30407627 TACTAATATT
Statistics
Matches: 48, Mismatches: 15, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.39
Consensus pattern (20 bp):
TTTACCAATATATCTAAAGA
Found at i:30419584 original size:44 final size:43
Alignment explanation
Indices: 30419460--30419609 Score: 212
Period size: 43 Copynumber: 3.5 Consensus size: 43
30419450 AGGGTAAACC
* * *
30419460 CAACAACCCAAGTTTTTCTTCT-CATTTTTTAAATTCTTTTTT
1 CAACAACCCAAGATTATCTTCTCCTTTTTTTAAATTCTTTTTT
* * *
30419502 CAACAACCCAAGATTATCTTCTCCTCTATTTAAGTTCTTTTTT
1 CAACAACCCAAGATTATCTTCTCCTTTTTTTAAATTCTTTTTT
* *
30419545 CAACAACCTAAGATTATCTTCTCTTTTTTTTTAAATTCTTTTTT
1 CAACAACCCAAGATTATCTTCTC-CTTTTTTTAAATTCTTTTTT
30419589 CAACAACCCAAGATTATCTTC
1 CAACAACCCAAGATTATCTTC
30419610 CCATCCTTTT
Statistics
Matches: 94, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
42 20 0.21
43 38 0.40
44 36 0.38
ACGTcount: A:0.27, C:0.23, G:0.03, T:0.47
Consensus pattern (43 bp):
CAACAACCCAAGATTATCTTCTCCTTTTTTTAAATTCTTTTTT
Found at i:30419620 original size:44 final size:43
Alignment explanation
Indices: 30419460--30419621 Score: 202
Period size: 44 Copynumber: 3.7 Consensus size: 43
30419450 AGGGTAAACC
* * *
30419460 CAACAACCCAAGTTTTTCTTCTCAT-TTTTTAAATTCTTTTTT
1 CAACAACCCAAGATTATCTTCCCATCTTTTTAAATTCTTTTTT
* *
30419502 CAACAACCCAAGATTATCTTCTCC-TCTATTTAAGTTCTTTTTT
1 CAACAACCCAAGATTATCTTC-CCATCTTTTTAAATTCTTTTTT
* ** *
30419545 CAACAACCTAAGATTATCTTCTCTTTTTTTTTAAATTCTTTTTT
1 CAACAACCCAAGATTATCTTC-CCATCTTTTTAAATTCTTTTTT
30419589 CAACAACCCAAGATTATCTTCCCATCCTTTTTA
1 CAACAACCCAAGATTATCTTCCCAT-CTTTTTA
30419622 GGCCGATTTT
Statistics
Matches: 102, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
42 20 0.20
43 40 0.39
44 42 0.41
ACGTcount: A:0.26, C:0.24, G:0.03, T:0.47
Consensus pattern (43 bp):
CAACAACCCAAGATTATCTTCCCATCTTTTTAAATTCTTTTTT
Found at i:30440920 original size:18 final size:17
Alignment explanation
Indices: 30440897--30440954 Score: 53
Period size: 18 Copynumber: 3.3 Consensus size: 17
30440887 TTGGTTTATC
*
30440897 ATTTTTTATCATTTGTTT
1 ATTTTTTAT-ATTTATTT
**
30440915 ATTTTTCGTATTTATTT
1 ATTTTTTATATTTATTT
* *
30440932 ATTTTTTGTTAATTATTT
1 ATTTTTT-ATATTTATTT
30440950 ATTTT
1 ATTTT
30440955 ATCTCAATTA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
17 13 0.39
18 20 0.61
ACGTcount: A:0.19, C:0.03, G:0.05, T:0.72
Consensus pattern (17 bp):
ATTTTTTATATTTATTT
Found at i:30440954 original size:17 final size:17
Alignment explanation
Indices: 30440912--30440972 Score: 61
Period size: 18 Copynumber: 3.5 Consensus size: 17
30440902 TTATCATTTG
*
30440912 TTTATTTTTCGTATTTA
1 TTTATTTTTCGTAATTA
*
30440929 TTTATTTTTTGTTAATTA
1 TTTATTTTTCG-TAATTA
30440947 TTTATTTTATC-TCAATTA
1 TTTATTTT-TCGT-AATTA
*
30440965 TCTATTTT
1 TTTATTTT
30440973 ATGGTTCATC
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
17 11 0.30
18 25 0.68
19 1 0.03
ACGTcount: A:0.21, C:0.07, G:0.03, T:0.69
Consensus pattern (17 bp):
TTTATTTTTCGTAATTA
Found at i:30440963 original size:18 final size:18
Alignment explanation
Indices: 30440926--30440974 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
30440916 TTTTTCGTAT
* * *
30440926 TTATTTATTTTTTGTTAA
1 TTATTTATTTTATCTCAA
30440944 TTATTTATTTTATCTCAA
1 TTATTTATTTTATCTCAA
*
30440962 TTATCTATTTTAT
1 TTATTTATTTTAT
30440975 GGTTCATCAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.24, C:0.06, G:0.02, T:0.67
Consensus pattern (18 bp):
TTATTTATTTTATCTCAA
Found at i:30443043 original size:22 final size:22
Alignment explanation
Indices: 30443015--30443074 Score: 84
Period size: 22 Copynumber: 2.7 Consensus size: 22
30443005 TAGGAATTTG
30443015 CATCTGTATCTGATATATTCTA
1 CATCTGTATCTGATATATTCTA
* *
30443037 CATCTGTATCTGATGTGTTCTA
1 CATCTGTATCTGATATATTCTA
* *
30443059 CAACTGTATTTGATAT
1 CATCTGTATCTGATAT
30443075 CTTGTGTTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.25, C:0.17, G:0.13, T:0.45
Consensus pattern (22 bp):
CATCTGTATCTGATATATTCTA
Found at i:30448154 original size:19 final size:19
Alignment explanation
Indices: 30448114--30448155 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
30448104 TCGTTCCCTC
*
30448114 TTCTCTCTTTTATGTTTAT
1 TTCTCTCTTTTATGGTTAT
*
30448133 TTCTTTCTTTTCATGGTT-T
1 TTCTCTCTTTT-ATGGTTAT
30448152 TTCT
1 TTCT
30448156 ACTATTTTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.07, C:0.17, G:0.07, T:0.69
Consensus pattern (19 bp):
TTCTCTCTTTTATGGTTAT
Found at i:30449350 original size:20 final size:20
Alignment explanation
Indices: 30449312--30449351 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
30449302 TTTTTTGTGC
* **
30449312 ACTAATTTTAATAGTTAATT
1 ACTAATTTTAAAAAATAATT
30449332 ACTAATTTTAAAAAATAATT
1 ACTAATTTTAAAAAATAATT
30449352 TACAGGAGCG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (20 bp):
ACTAATTTTAAAAAATAATT
Found at i:30452211 original size:3 final size:3
Alignment explanation
Indices: 30452205--30452257 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
30452195 AAAAAATAAA
30452205 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
30452253 AAG AA
1 AAG AA
30452258 AGGAGCAACA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:30456217 original size:35 final size:35
Alignment explanation
Indices: 30456171--30456274 Score: 129
Period size: 35 Copynumber: 3.0 Consensus size: 35
30456161 ACGATGTTGC
* *
30456171 CCCGAAGGACTTGTATATCATTTACATAGTGTCGT
1 CCCGAATGACTTGTATACCATTTACATAGTGTCGT
* * * *
30456206 CCCAAATGACTTGTACACCATTTACACAGTGTCAT
1 CCCGAATGACTTGTATACCATTTACATAGTGTCGT
*
30456241 CCTGAATGA-TCTGTATACCATTTACATAGTGTCG
1 CCCGAATGACT-TGTATACCATTTACATAGTGTCG
30456275 CCCTGAAGGA
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
34 1 0.02
35 56 0.98
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.33
Consensus pattern (35 bp):
CCCGAATGACTTGTATACCATTTACATAGTGTCGT
Found at i:30456280 original size:35 final size:35
Alignment explanation
Indices: 30456143--30456281 Score: 122
Period size: 35 Copynumber: 4.0 Consensus size: 35
30456133 CTCCTCACAG
* * * * * *
30456143 GACTTGTATATCATTTTCA-CGATGTTGCCCCGAAG
1 GACTTGTATACCATTTACATAG-TGTCGCCCTGAAT
* *
30456178 GACTTGTATATCATTTACATAGTGTCGTCCC-AAAT
1 GACTTGTATACCATTTACATAGTGTCG-CCCTGAAT
* * **
30456213 GACTTGTACACCATTTACACAGTGTCATCCTGAAT
1 GACTTGTATACCATTTACATAGTGTCGCCCTGAAT
30456248 GA-TCTGTATACCATTTACATAGTGTCGCCCTGAA
1 GACT-TGTATACCATTTACATAGTGTCGCCCTGAA
30456282 GGACCAATAG
Statistics
Matches: 85, Mismatches: 15, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
34 3 0.04
35 78 0.92
36 4 0.05
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.34
Consensus pattern (35 bp):
GACTTGTATACCATTTACATAGTGTCGCCCTGAAT
Found at i:30459545 original size:30 final size:30
Alignment explanation
Indices: 30459511--30459773 Score: 213
Period size: 30 Copynumber: 8.8 Consensus size: 30
30459501 TAACTCGACG
* * *
30459511 ATAATGTTAGCTTGTATGAGCAATTTTATC
1 ATAATGTCAGCTTGTGTGAGCAATCTTATC
* * *
30459541 ATAATG-CAAACTTGTGTGAGCAATCTAATT
1 ATAATGTC-AGCTTGTGTGAGCAATCTTATC
*
30459571 ATAATGTCAGCTTGTGTGAGCAATCCTATC
1 ATAATGTCAGCTTGTGTGAGCAATCTTATC
* **
30459601 ATAATGTCAGCTTGTGTGAGCAACCCGATC
1 ATAATGTCAGCTTGTGTGAGCAATCTTATC
* * * ** *
30459631 ATAATGTCAACTTATGTGAACAATCCAATT
1 ATAATGTCAGCTTGTGTGAGCAATCTTATC
* * * ** *
30459661 ATAATGTCAGGTTATGTGAGAAATCCGATT
1 ATAATGTCAGCTTGTGTGAGCAATCTTATC
* * ** *
30459691 ATAATGTCAACTTGTGTGAACAATCCAATT
1 ATAATGTCAGCTTGTGTGAGCAATCTTATC
* ** *
30459721 ATAATGTCAGGTTGTGTGAGCAATCCGATT
1 ATAATGTCAGCTTGTGTGAGCAATCTTATC
* *
30459751 ATAATGCCAACTTGTGTGAGCAA
1 ATAATGTCAGCTTGTGTGAGCAA
30459774 CCCTAAAATA
Statistics
Matches: 195, Mismatches: 36, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
30 194 0.99
31 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (30 bp):
ATAATGTCAGCTTGTGTGAGCAATCTTATC
Found at i:30459604 original size:60 final size:60
Alignment explanation
Indices: 30459511--30459778 Score: 304
Period size: 60 Copynumber: 4.5 Consensus size: 60
30459501 TAACTCGACG
* * * ** * **
30459511 ATAATGTTAGCTTGTATGAGCAATTTTATCATAATG-CAAACTTGTGTGAGCAATCTAATT
1 ATAATGTCAACTTGTGTGAGCAATCCTATCATAATGTC-AGCTTGTGTGAGCAATCCGATT
* * *
30459571 ATAATGTCAGCTTGTGTGAGCAATCCTATCATAATGTCAGCTTGTGTGAGCAACCCGATC
1 ATAATGTCAACTTGTGTGAGCAATCCTATCATAATGTCAGCTTGTGTGAGCAATCCGATT
* * * * * * *
30459631 ATAATGTCAACTTATGTGAACAATCCAATTATAATGTCAGGTTATGTGAGAAATCCGATT
1 ATAATGTCAACTTGTGTGAGCAATCCTATCATAATGTCAGCTTGTGTGAGCAATCCGATT
* * * *
30459691 ATAATGTCAACTTGTGTGAACAATCCAATTATAATGTCAGGTTGTGTGAGCAATCCGATT
1 ATAATGTCAACTTGTGTGAGCAATCCTATCATAATGTCAGCTTGTGTGAGCAATCCGATT
* *
30459751 ATAATGCCAACTTGTGTGAGCAACCCTA
1 ATAATGTCAACTTGTGTGAGCAATCCTA
30459779 AAATACTGCC
Statistics
Matches: 181, Mismatches: 26, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
60 180 0.99
61 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (60 bp):
ATAATGTCAACTTGTGTGAGCAATCCTATCATAATGTCAGCTTGTGTGAGCAATCCGATT
Found at i:30459664 original size:90 final size:90
Alignment explanation
Indices: 30459511--30459778 Score: 304
Period size: 90 Copynumber: 3.0 Consensus size: 90
30459501 TAACTCGACG
* * *** *
30459511 ATAATGTTAGCTTGTATGAGCAATTTTATCATAATG-CAAACTTGTGTGAGCAATCTAATTATAA
1 ATAATGTCAGCTTGTGTGAGCAATCCAATCATAATGTC-AACTTGTGTGAGCAATCCAATTATAA
30459575 TGTCAGCTTGTGTGAGCAATCCTATC
65 TGTCAGCTTGTGTGAGCAATCCTATC
* * * *
30459601 ATAATGTCAGCTTGTGTGAGCAACCCGATCATAATGTCAACTTATGTGAACAATCCAATTATAAT
1 ATAATGTCAGCTTGTGTGAGCAATCCAATCATAATGTCAACTTGTGTGAGCAATCCAATTATAAT
* * * * *
30459666 GTCAGGTTATGTGAGAAATCCGATT
66 GTCAGCTTGTGTGAGCAATCCTATC
* * * ** *
30459691 ATAATGTCAACTTGTGTGAACAATCCAATTATAATGTCAGGTTGTGTGAGCAATCCGATTATAAT
1 ATAATGTCAGCTTGTGTGAGCAATCCAATCATAATGTCAACTTGTGTGAGCAATCCAATTATAAT
* * *
30459756 GCCAACTTGTGTGAGCAACCCTA
66 GTCAGCTTGTGTGAGCAATCCTA
30459779 AAATACTGCC
Statistics
Matches: 146, Mismatches: 31, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
90 145 0.99
91 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (90 bp):
ATAATGTCAGCTTGTGTGAGCAATCCAATCATAATGTCAACTTGTGTGAGCAATCCAATTATAAT
GTCAGCTTGTGTGAGCAATCCTATC
Found at i:30466404 original size:21 final size:21
Alignment explanation
Indices: 30466379--30466422 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
30466369 TGTTATGTAA
* * *
30466379 AGTAGGATTTTTCTATTAAGG
1 AGTAGGAGTTTGCTACTAAGG
30466400 AGTAGGAGTTTGCTACTAAGG
1 AGTAGGAGTTTGCTACTAAGG
30466421 AG
1 AG
30466423 CAAGAGTGCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.30, C:0.07, G:0.30, T:0.34
Consensus pattern (21 bp):
AGTAGGAGTTTGCTACTAAGG
Found at i:30470189 original size:45 final size:45
Alignment explanation
Indices: 30470122--30470245 Score: 178
Period size: 45 Copynumber: 2.7 Consensus size: 45
30470112 TATCGTAAAC
* * * *
30470122 ATGATTAAAA-ATGAGTAAGACCACAGTTGAAAGACGTTGTGATAAT
1 ATGATTAAAACA--AGTAAGACCATAGTTGAAAGACGCTATGACAAT
*
30470168 ATGATTAAAACAAGTAAGACCATAGTTGAAAGTCGCTATGACAAT
1 ATGATTAAAACAAGTAAGACCATAGTTGAAAGACGCTATGACAAT
30470213 ATGATTAAAACAAGTAAGACCATAGTTGAAAGA
1 ATGATTAAAACAAGTAAGACCATAGTTGAAAGA
30470246 TGTTATGGCA
Statistics
Matches: 71, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
45 60 0.85
46 10 0.14
47 1 0.01
ACGTcount: A:0.46, C:0.10, G:0.19, T:0.24
Consensus pattern (45 bp):
ATGATTAAAACAAGTAAGACCATAGTTGAAAGACGCTATGACAAT
Found at i:30470262 original size:45 final size:44
Alignment explanation
Indices: 30470122--30470262 Score: 160
Period size: 45 Copynumber: 3.1 Consensus size: 44
30470112 TATCGTAAAC
* * * *
30470122 ATGATTAAAA-ATGAGTAAGACCACAGTTGAAAGACGTTGTGATAAT
1 ATGATTAAAACA--AGTAAGACCATAGTTGAAAGATGTTATGA-CAT
*
30470168 ATGATTAAAACAAGTAAGACCATAGTTGAAAG-TCGCTATGACAAT
1 ATGATTAAAACAAGTAAGACCATAGTTGAAAGAT-GTTATGAC-AT
*
30470213 ATGATTAAAACAAGTAAGACCATAGTTGAAAGATGTTATGGCAT
1 ATGATTAAAACAAGTAAGACCATAGTTGAAAGATGTTATGACAT
30470257 CATGAT
1 -ATGAT
30470263 GGAAGTGGGT
Statistics
Matches: 83, Mismatches: 7, Indels: 11
0.82 0.07 0.11
Matches are distributed among these distances:
44 2 0.02
45 69 0.83
46 11 0.13
47 1 0.01
ACGTcount: A:0.43, C:0.11, G:0.20, T:0.26
Consensus pattern (44 bp):
ATGATTAAAACAAGTAAGACCATAGTTGAAAGATGTTATGACAT
Found at i:30476917 original size:31 final size:31
Alignment explanation
Indices: 30476881--30476981 Score: 139
Period size: 31 Copynumber: 3.3 Consensus size: 31
30476871 GGATAATTTC
*
30476881 TTAACCACTCACATCCCACTAAGTCCCATAA
1 TTAACCACCCACATCCCACTAAGTCCCATAA
*
30476912 TTAACCACCCACATCCCACTAAGTTCCATAA
1 TTAACCACCCACATCCCACTAAGTCCCATAA
* ** *
30476943 TTTACCACCCACATCTGACTAAGTCCCACAA
1 TTAACCACCCACATCCCACTAAGTCCCATAA
*
30476974 ATAACCAC
1 TTAACCAC
30476982 TCACCAGATT
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 61 1.00
ACGTcount: A:0.36, C:0.39, G:0.04, T:0.22
Consensus pattern (31 bp):
TTAACCACCCACATCCCACTAAGTCCCATAA
Found at i:30479951 original size:15 final size:15
Alignment explanation
Indices: 30479931--30479959 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
30479921 ACAGTAACTG
30479931 TATCAATTAAAATAC
1 TATCAATTAAAATAC
30479946 TATCAATTAAAATA
1 TATCAATTAAAATA
30479960 ATTTTTCTCT
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:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (15 bp):
TATCAATTAAAATAC
Found at i:30482534 original size:2 final size:2
Alignment explanation
Indices: 30482529--30482567 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
30482519 ATATGCATGC
30482529 AT AT AT 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 AT AT AT A
30482568 CCCTCCCTCC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:30488536 original size:17 final size:17
Alignment explanation
Indices: 30488495--30488539 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
30488485 AAAAACCTCG
*
30488495 ATAAATGAAT-AT-TCA
1 ATAAATTAATAATCTCA
30488510 ATAAATTAATAATCTCA
1 ATAAATTAATAATCTCA
30488527 ATTAAA-TAATAAT
1 A-TAAATTAATAAT
30488540 TTTTTTCAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
15 9 0.35
16 2 0.08
17 11 0.42
18 4 0.15
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.36
Consensus pattern (17 bp):
ATAAATTAATAATCTCA
Found at i:30490433 original size:38 final size:38
Alignment explanation
Indices: 30490386--30490462 Score: 138
Period size: 38 Copynumber: 2.0 Consensus size: 38
30490376 TTTTGAAACC
30490386 ATTAACTA-TTTTTTCTTTTTGGTTACATGAACCAATTA
1 ATTAACTATTTTTTTCTTTTT-GTTACATGAACCAATTA
30490424 ATTAACTATTTTTTTCTTTTTGTTACATGAACCAATTA
1 ATTAACTATTTTTTTCTTTTTGTTACATGAACCAATTA
30490462 A
1 A
30490463 CTTTGATTCA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
38 26 0.68
39 12 0.32
ACGTcount: A:0.30, C:0.13, G:0.06, T:0.51
Consensus pattern (38 bp):
ATTAACTATTTTTTTCTTTTTGTTACATGAACCAATTA
Found at i:30490592 original size:25 final size:26
Alignment explanation
Indices: 30490539--30490600 Score: 83
Period size: 25 Copynumber: 2.4 Consensus size: 26
30490529 AAATATTCTC
*
30490539 TAAATTAAT-AAATATTAATTTATCGA
1 TAAATTAATAAAATATT-ATTTATCAA
30490565 TAAATTAATAAAATATT-TTTATCAA
1 TAAATTAATAAAATATTATTTATCAA
*
30490590 TAAACTAATAA
1 TAAATTAATAA
30490601 CCTCGATAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
25 17 0.52
26 9 0.27
27 7 0.21
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (26 bp):
TAAATTAATAAAATATTATTTATCAA
Found at i:30494705 original size:22 final size:22
Alignment explanation
Indices: 30494679--30494728 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
30494669 TTTAGATAAA
* *
30494679 ATGCAAAACACATC-AGATACAG
1 ATGCAAAACAAATCAAAAT-CAG
30494701 ATGCAAAACAAATCAAAATCAG
1 ATGCAAAACAAATCAAAATCAG
30494723 ATGCAA
1 ATGCAA
30494729 TTTCATACCC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 22 0.88
23 3 0.12
ACGTcount: A:0.54, C:0.20, G:0.12, T:0.14
Consensus pattern (22 bp):
ATGCAAAACAAATCAAAATCAG
Found at i:30495468 original size:63 final size:63
Alignment explanation
Indices: 30495388--30495532 Score: 157
Period size: 63 Copynumber: 2.3 Consensus size: 63
30495378 AAAATATCTC
* * *** *
30495388 TTACATGGCCTAGACACACGCCCGTGTTTATGGCTCATGTGACACC-AATTCACAAACAGTGAG
1 TTACATGGCCTGGACACACGCCCATGCCCATGGCTCATGTGAC-CCTAAATCACAAACAGTGAG
* * * ** *
30495451 TTACATAGCCTGGACACATGCCCATGCCCCTGGCTTGTGTGACCCTAAATCACAAGCAGTGAG
1 TTACATGGCCTGGACACACGCCCATGCCCATGGCTCATGTGACCCTAAATCACAAACAGTGAG
30495514 TTACATGGCCTGGTACACA
1 TTACATGGCCTGG-ACACA
30495533 GTCGTGTGGC
Statistics
Matches: 67, Mismatches: 13, Indels: 3
0.81 0.16 0.04
Matches are distributed among these distances:
62 2 0.03
63 60 0.90
64 5 0.07
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.23
Consensus pattern (63 bp):
TTACATGGCCTGGACACACGCCCATGCCCATGGCTCATGTGACCCTAAATCACAAACAGTGAG
Found at i:30497583 original size:36 final size:36
Alignment explanation
Indices: 30497536--30497608 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
30497526 TACAAAATGT
30497536 CAAATAGAATCAGTTCCTACCCTCATCCGCTACACA
1 CAAATAGAATCAGTTCCTACCCTCATCCGCTACACA
30497572 CAAATAGAATCAGTTCCTACCCTCATCCGCTACACA
1 CAAATAGAATCAGTTCCTACCCTCATCCGCTACACA
30497608 C
1 C
30497609 CAACTTTGTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.33, C:0.37, G:0.08, T:0.22
Consensus pattern (36 bp):
CAAATAGAATCAGTTCCTACCCTCATCCGCTACACA
Found at i:30499962 original size:43 final size:43
Alignment explanation
Indices: 30499893--30500178 Score: 387
Period size: 43 Copynumber: 6.7 Consensus size: 43
30499883 TAGCGGCGTA
* * *
30499893 AAACGCCGCTAAAGACCACGATCTTTAGCGGCGCTTTTTCCAC
1 AAACGCCGCTAAAGACCACAACCTTTAGCGGCGCTTTTCCCAC
**
30499936 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCACAACCTTTAGCGGCGCTTTTCCCAC
* ** *
30499979 AAACGCCGCTAAAGACCACGACCTTTAGCAACGCTTTCCCCAC
1 AAACGCCGCTAAAGACCACAACCTTTAGCGGCGCTTTTCCCAC
* * *
30500022 -AGCGCCGCTAAAGACCACAACCTTTAGCGACGCTTTTTCCAC
1 AAACGCCGCTAAAGACCACAACCTTTAGCGGCGCTTTTCCCAC
*
30500064 AAACGCCACTAAAGACCACAACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCACAACCTTTAGCGGCGCTTTTCCCAC
* * * **
30500107 AAACTCCGCTAAAGACCACTACCTTTAGCAGCGCTTTTTTCAC
1 AAACGCCGCTAAAGACCACAACCTTTAGCGGCGCTTTTCCCAC
*
30500150 AAACGCCGCTAAAGAACA-AACCTTTAGCG
1 AAACGCCGCTAAAGACCACAACCTTTAGCG
30500179 ACGATTCTAG
Statistics
Matches: 216, Mismatches: 26, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
42 46 0.21
43 170 0.79
ACGTcount: A:0.29, C:0.35, G:0.16, T:0.21
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCACAACCTTTAGCGGCGCTTTTCCCAC
Found at i:30500049 original size:128 final size:129
Alignment explanation
Indices: 30499893--30500217 Score: 440
Period size: 128 Copynumber: 2.5 Consensus size: 129
30499883 TAGCGGCGTA
* * * * **
30499893 AAACGCCGCTAAAGACCACGATCTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGACCATGAC
1 AAACGCCGCTAAAGACCACAACCTTTAGCGACGCTTTTTCCACAAACGCCACTAAAGACCACAAC
30499958 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCACGACCTTTAGCAACGCTTTCCCCAC
66 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCACGACCTTTAGCAACGCTTTCCCCAC
*
30500022 -AGCGCCGCTAAAGACCACAACCTTTAGCGACGCTTTTTCCACAAACGCCACTAAAGACCACAAC
1 AAACGCCGCTAAAGACCACAACCTTTAGCGACGCTTTTTCCACAAACGCCACTAAAGACCACAAC
* * * ***
30500086 CTTTAGCGGCGCTTTTCCCACAAACTCCGCTAAAGACCACTACCTTTAGCAGCGCTTTTTTCAC
66 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCACGACCTTTAGCAACGCTTTCCCCAC
* * * ** * * *
30500150 AAACGCCGCTAAAGAACA-AACCTTTAGCGACGATTCTAGCAAAAACGCCACTAAA-AACATAAC
1 AAACGCCGCTAAAGACCACAACCTTTAGCGACGCTTTTTCCACAAACGCCACTAAAGACCACAAC
30500213 CTTTA
66 CTTTA
30500218 AAAAAATTAT
Statistics
Matches: 173, Mismatches: 22, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
127 11 0.06
128 147 0.85
129 15 0.09
ACGTcount: A:0.31, C:0.34, G:0.15, T:0.21
Consensus pattern (129 bp):
AAACGCCGCTAAAGACCACAACCTTTAGCGACGCTTTTTCCACAAACGCCACTAAAGACCACAAC
CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCACGACCTTTAGCAACGCTTTCCCCAC
Found at i:30505326 original size:19 final size:20
Alignment explanation
Indices: 30505307--30505345 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
30505297 TTTAATTAAT
30505307 ATAAATAAACAAATTAAATA
1 ATAAATAAACAAATTAAATA
* * *
30505327 ATAATTAGACAAATAAAAT
1 ATAAATAAACAAATTAAAT
30505346 GTTTTTGCGG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.67, C:0.05, G:0.03, T:0.26
Consensus pattern (20 bp):
ATAAATAAACAAATTAAATA
Found at i:30505409 original size:41 final size:41
Alignment explanation
Indices: 30505352--30505539 Score: 281
Period size: 41 Copynumber: 4.6 Consensus size: 41
30505342 AAATGTTTTT
*
30505352 GCGGCTCTTTTCCAAAAACGCCGCTAAAGACCAGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGACCAGAGCATTA
*
30505393 GCGGCGCTTTTCCAAAAACGCCGCTAAAGACCTGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGACCAGAGCATTA
* *
30505434 CCGGCGC-TTCCCAGAAAACGCCGCTAAAGACCAGAGCATTA
1 GCGGCGCTTTTCCA-AAAACGCCGCTAAAGACCAGAGCATTA
* *
30505475 GCGGCGCTTCTCCAAAAACGCCGCTAAAGCCCTA-AGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGACC-AGAGCATTA
*
30505516 GCGGCGCTTCTCCAAAAACGCCGC
1 GCGGCGCTTTTCCAAAAACGCCGC
30505540 GCTTTTATAA
Statistics
Matches: 135, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
40 5 0.04
41 125 0.93
42 5 0.04
ACGTcount: A:0.29, C:0.33, G:0.21, T:0.16
Consensus pattern (41 bp):
GCGGCGCTTTTCCAAAAACGCCGCTAAAGACCAGAGCATTA
Found at i:30505543 original size:19 final size:19
Alignment explanation
Indices: 30505519--30505558 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
30505509 AGCATTAGCG
*
30505519 GCGCTTCTCCAAAAACGCC
1 GCGCTTCTACAAAAACGCC
* *
30505538 GCGCTTTTATAAAAACGCC
1 GCGCTTCTACAAAAACGCC
30505557 GC
1 GC
30505559 TAAAAATGCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.28, C:0.35, G:0.17, T:0.20
Consensus pattern (19 bp):
GCGCTTCTACAAAAACGCC
Found at i:30507929 original size:26 final size:26
Alignment explanation
Indices: 30507900--30507953 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
30507890 CCAATGGCCA
30507900 GCCACCTATTTGAAGCTTCAAAAAGG
1 GCCACCTATTTGAAGCTTCAAAAAGG
30507926 GCCACCTATTTGAAGCTTCAAAAAGG
1 GCCACCTATTTGAAGCTTCAAAAAGG
30507952 GC
1 GC
30507954 TGTTCGAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.22
Consensus pattern (26 bp):
GCCACCTATTTGAAGCTTCAAAAAGG
Found at i:30511279 original size:20 final size:20
Alignment explanation
Indices: 30511254--30511293 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
30511244 CTTGTGGAAC
30511254 ATTGAGTCAGTTTGGATTGT
1 ATTGAGTCAGTTTGGATTGT
30511274 ATTGAGTCAGTTTGGATTGT
1 ATTGAGTCAGTTTGGATTGT
30511294 GTTACTAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.05, G:0.30, T:0.45
Consensus pattern (20 bp):
ATTGAGTCAGTTTGGATTGT
Found at i:30515143 original size:32 final size:32
Alignment explanation
Indices: 30515107--30515198 Score: 112
Period size: 32 Copynumber: 2.8 Consensus size: 32
30515097 GGCCTAGGCC
** *
30515107 GATTTGGGTGTGTAAGCCACACGGGCAGGGTT
1 GATTTGGGTGTGTAAGCCACACGGGCAACGCT
*
30515139 GATTTGGGTGTGTAAGCCACACAGGCAACGCT
1 GATTTGGGTGTGTAAGCCACACGGGCAACGCT
* **
30515171 GATTTGGATGTGTGGGCCCACACGGGCA
1 GATTTGGGTGTGTAAG-CCACACGGGCA
30515199 TATGGGCCAA
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
32 41 0.80
33 10 0.20
ACGTcount: A:0.21, C:0.20, G:0.37, T:0.23
Consensus pattern (32 bp):
GATTTGGGTGTGTAAGCCACACGGGCAACGCT
Found at i:30523369 original size:3 final size:3
Alignment explanation
Indices: 30523361--30523386 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
30523351 TCTCATCCAT
30523361 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
30523387 GAAAGTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:30524784 original size:3 final size:3
Alignment explanation
Indices: 30524770--30524799 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
30524760 GTGCTTAATG
*
30524770 TAT TAC TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
30524800 AATAAAGAGC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:30526423 original size:18 final size:16
Alignment explanation
Indices: 30526402--30526447 Score: 65
Period size: 18 Copynumber: 2.8 Consensus size: 16
30526392 AAATACAATT
30526402 TTTTTAATATTTTTATA
1 TTTTTAATATTTTTA-A
*
30526419 CTTTTTTATATTTTTAA
1 -TTTTTAATATTTTTAA
30526436 TTTTTAATATTT
1 TTTTTAATATTT
30526448 AAAAAATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
16 11 0.42
17 1 0.04
18 14 0.54
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTTTAATATTTTTAA
Done.