Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007822.1 Hibiscus syriacus cultivar Beakdansim tig00110159_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1828853
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 10
Found at i:615291 original size:63 final size:65
Alignment explanation
Indices: 615163--615324 Score: 249
Period size: 63 Copynumber: 2.5 Consensus size: 65
615153 TTATATGATA
* * *
615163 TAAAATTAAATATCTATAATATAATATTAAAATATTAATATTTAATTTATTTAAAAAATTGATAT
1 TAAAATTAAATATATATAATATAATATTAAAATAATAATATTTAATTTATTTAAAAAATTAATAT
615228 TAAAATT-AATATATATAATATAATATTAAAA-AATAATATTTAATTTATTTAAAAAATTAATAT
1 TAAAATTAAATATATATAATATAATATTAAAATAATAATATTTAATTTATTTAAAAAATTAATAT
*
615291 TAAAATTAAAATCAAATATAATATAATA-TAAAAT
1 TAAAATT-AAAT-ATATATAATATAATATTAAAAT
615325 TAAATATAAA
Statistics
Matches: 89, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
63 37 0.42
64 23 0.26
65 15 0.17
66 14 0.16
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (65 bp):
TAAAATTAAATATATATAATATAATATTAAAATAATAATATTTAATTTATTTAAAAAATTAATAT
Found at i:615440 original size:16 final size:16
Alignment explanation
Indices: 615421--615456 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
615411 AAAATAAACG
615421 GTCTACGAAACCCAAT
1 GTCTACGAAACCCAAT
**
615437 GTCTGTGAAACCCAAT
1 GTCTACGAAACCCAAT
615453 GTCT
1 GTCT
615457 GCACGTGGTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.25
Consensus pattern (16 bp):
GTCTACGAAACCCAAT
Found at i:615457 original size:16 final size:16
Alignment explanation
Indices: 615427--615457 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
615417 AACGGTCTAC
615427 GAAACCCAATGTCTGT
1 GAAACCCAATGTCTGT
615443 GAAACCCAATGTCTG
1 GAAACCCAATGTCTG
615458 CACGTGGTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (16 bp):
GAAACCCAATGTCTGT
Found at i:620839 original size:20 final size:20
Alignment explanation
Indices: 620802--620839 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
620792 TTTCATGGGG
*
620802 GATCGATCTTTTTGAAAAGT
1 GATCGATCTCTTTGAAAAGT
620822 GATCGATC-CTTTGCAAAA
1 GATCGATCTCTTTG-AAAA
620840 TATAAACTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (20 bp):
GATCGATCTCTTTGAAAAGT
Found at i:622204 original size:2 final size:2
Alignment explanation
Indices: 622197--622230 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
622187 TTCACATTCA
622197 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
622231 TCACAAACTG
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:628575 original size:17 final size:18
Alignment explanation
Indices: 628544--628577 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
628534 AAAACATTTA
628544 ATTCACTTAAATTAAATC
1 ATTCACTTAAATTAAATC
*
628562 ATTCA-TTAACTTAAAT
1 ATTCACTTAAATTAAAT
628578 ATAATAACAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (18 bp):
ATTCACTTAAATTAAATC
Found at i:629046 original size:54 final size:54
Alignment explanation
Indices: 628968--629198 Score: 311
Period size: 54 Copynumber: 4.3 Consensus size: 54
628958 TTCGTGATTT
* * * *
628968 CACACATAGTGTCGAAACGGTTATTCATCCACATA-GAATGAGTTCCGTGAAATG
1 CACACTTAGTGCCTAAACGGTTATTCATCCACATATG-ATGAATTCCGTGAAATG
* * ** *
629022 CACATTTAATGCCTAAACGGTTATTCATCCTTATAGGATGAATTCCGTGAAATG
1 CACACTTAGTGCCTAAACGGTTATTCATCCACATATGATGAATTCCGTGAAATG
* * * *
629076 CACACTTAGTACCGAAACGGTTATTCATCCATATATGATGAATTCTGTGAAATG
1 CACACTTAGTGCCTAAACGGTTATTCATCCACATATGATGAATTCCGTGAAATG
* *
629130 CACACTTAGTGCCAAAACGGTTATTCATCCACATATGATGAATTCCTTGAAATG
1 CACACTTAGTGCCTAAACGGTTATTCATCCACATATGATGAATTCCGTGAAATG
629184 CACACTTAGTGCCTA
1 CACACTTAGTGCCTA
629199 TTTGGTAATC
Statistics
Matches: 155, Mismatches: 21, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
54 154 0.99
55 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (54 bp):
CACACTTAGTGCCTAAACGGTTATTCATCCACATATGATGAATTCCGTGAAATG
Found at i:629255 original size:22 final size:23
Alignment explanation
Indices: 629230--629273 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
629220 AATAAACAAT
* *
629230 CATACATATACAA-TTAATGCAA
1 CATACAGAGACAATTTAATGCAA
*
629252 CATATAGAGACAATTTAATGCA
1 CATACAGAGACAATTTAATGCA
629274 CTCACCTGAC
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.48, C:0.16, G:0.09, T:0.27
Consensus pattern (23 bp):
CATACAGAGACAATTTAATGCAA
Found at i:629562 original size:22 final size:22
Alignment explanation
Indices: 629536--629589 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
629526 TACTACCCTA
* *
629536 GTACTGATATTTCTATACTATG
1 GTACTGATACTACTATACTATG
* *
629558 GTACTGCTACTACTCTACTATG
1 GTACTGATACTACTATACTATG
*
629580 GTACCGATAC
1 GTACTGATAC
629590 CCCTACCGGT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (22 bp):
GTACTGATACTACTATACTATG
Found at i:631866 original size:2 final size:2
Alignment explanation
Indices: 631859--631889 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
631849 AAGCTAAATA
631859 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
631890 TAAGTATTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:647670 original size:48 final size:49
Alignment explanation
Indices: 647619--647719 Score: 121
Period size: 55 Copynumber: 1.9 Consensus size: 49
647609 AATTAACAAG
* *
647619 TTAATTATTAACATTATCAATTTATAATAAATTGATCACTGATCGTCGTTAATCT
1 TTAATTATTAAAATTATCAATTTATAATAAATTGATCACTCATCGTCG------T
*
647674 TTAATTATTAAAATTATCAATTTATGATAAATTGATCACTCATCGT
1 TTAATTATTAAAATTATCAATTTATAATAAATTGATCACTCATCGT
647720 TAACCTGAAG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 43 1.00
ACGTcount: A:0.38, C:0.12, G:0.07, T:0.44
Consensus pattern (49 bp):
TTAATTATTAAAATTATCAATTTATAATAAATTGATCACTCATCGTCGT
Found at i:649179 original size:21 final size:19
Alignment explanation
Indices: 649154--649196 Score: 68
Period size: 21 Copynumber: 2.2 Consensus size: 19
649144 ATTACATTTT
649154 TTATTTTTAATAATAAAAATA
1 TTATTTTTAAT-ATAAAAA-A
649175 TTATTTTTAATATAAAAAA
1 TTATTTTTAATATAAAAAA
649194 TTA
1 TTA
649197 AAAAAAAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 4 0.18
20 7 0.32
21 11 0.50
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TTATTTTTAATATAAAAAA
Found at i:649399 original size:14 final size:14
Alignment explanation
Indices: 649364--649393 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
649354 AGGTCCAATT
649364 GATATAAAATTAAA
1 GATATAAAATTAAA
649378 GATATAAAATTAAA
1 GATATAAAATTAAA
649392 GA
1 GA
649394 ATTAAAGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.63, C:0.00, G:0.10, T:0.27
Consensus pattern (14 bp):
GATATAAAATTAAA
Found at i:650061 original size:133 final size:132
Alignment explanation
Indices: 649821--650180 Score: 447
Period size: 133 Copynumber: 2.7 Consensus size: 132
649811 CATTTTGTTA
* * * *
649821 CTCTTCAGGGAAGATTGAACCGAACTTGATTTGATTCACTGCTCTTCAGGAAGACCAAATATAAA
1 CTCTTCAGGGAAGATTGAATCGAA-TTGATTTGCTTCAGTGCTCTTCAGGAAGACCAAATATGAA
* * * * *
649886 AGAAAGAGTATATGCTCCAATACTCTTTAGGGGAGATTAGACTC-ATAGAATTTCGATCCACTTC
65 AG-AAGAGGATATGCTCCACTACTCTTTAGGGGAGATCAGACTCGAGAAAATTTCGATCCACTT-
*
649950 T-CTT
128 TACTG
* * ** * *
649954 CTCTTCAGGGAATATTGAATATGAATTGATTTGCTTCAGTTTTCTTCATGAAGACCAAATTTGAA
1 CTCTTCAGGGAAGATTGAAT-CGAATTGATTTGCTTCAGTGCTCTTCAGGAAGACCAAATATGAA
*
650019 AGAAGAGGAATATGCTCCACTACTCTTTAGGGGAGATCAGACTCGAGAAAATTTTGATCCACTTT
65 AGAAGAGG-ATATGCTCCACTACTCTTTAGGGGAGATCAGACTCGAGAAAATTTCGATCCACTTT
650084 ACTG
129 ACTG
* * *
650088 CTCTTCAGGGAAGATTGAATCGAATTGATTTGCTTC-GCTGCTCTTCAGGAATACTAAATCTGAA
1 CTCTTCAGGGAAGATTGAATCGAATTGATTTGCTTCAG-TGCTCTTCAGGAAGACCAAATATGAA
*
650152 AGAAGAAGGATATGTTCCACTACTCTTTA
65 AGAAG-AGGATATGCTCCACTACTCTTTA
650181 AGGAAAACCA
Statistics
Matches: 195, Mismatches: 26, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
132 6 0.03
133 146 0.75
134 43 0.22
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (132 bp):
CTCTTCAGGGAAGATTGAATCGAATTGATTTGCTTCAGTGCTCTTCAGGAAGACCAAATATGAAA
GAAGAGGATATGCTCCACTACTCTTTAGGGGAGATCAGACTCGAGAAAATTTCGATCCACTTTAC
TG
Found at i:650861 original size:25 final size:23
Alignment explanation
Indices: 650810--650887 Score: 68
Period size: 25 Copynumber: 3.2 Consensus size: 23
650800 AAGGTTTATT
* *
650810 TTTTTATTTATTCTTTCTCTTTCTC
1 TTTTTA-TTATT-TTTCTTTTTTTC
650835 TTTTTATTATTATTTCATTTTTTTC
1 TTTTTATTATT-TTTC-TTTTTTTC
* *
650860 TTTCTATT-TTTTTCTTTTTCTTT
1 TTTTTATTATTTTTCTTTTT-TTC
650883 TTTTT
1 TTTTT
650888 CAAAAAATAT
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
22 5 0.11
23 10 0.22
24 11 0.24
25 19 0.42
ACGTcount: A:0.09, C:0.13, G:0.00, T:0.78
Consensus pattern (23 bp):
TTTTTATTATTTTTCTTTTTTTC
Found at i:650862 original size:31 final size:30
Alignment explanation
Indices: 650808--650888 Score: 87
Period size: 31 Copynumber: 2.7 Consensus size: 30
650798 TGAAGGTTTA
* *
650808 TTTTT-TTATTT-ATTCTTTCTCTTTCTCTT
1 TTTTTATTATTTCATT-TTTTTCTTTCTATT
650837 TTTATTATTATTTCATTTTTTTCTTTCTATT
1 TTT-TTATTATTTCATTTTTTTCTTTCTATT
* *
650868 TTTTTCTT-TTTCTTTTTTTTC
1 TTTTTATTATTTCATTTTTTTC
650889 AAAAAATATT
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
29 15 0.33
30 6 0.13
31 21 0.47
32 3 0.07
ACGTcount: A:0.09, C:0.14, G:0.00, T:0.78
Consensus pattern (30 bp):
TTTTTATTATTTCATTTTTTTCTTTCTATT
Found at i:650871 original size:16 final size:15
Alignment explanation
Indices: 650827--650888 Score: 56
Period size: 16 Copynumber: 4.1 Consensus size: 15
650817 TTATTCTTTC
* *
650827 TCTTTCTCTTTTTAT
1 TCTTTTTCTTTTTTT
* *
650842 TATTATTTCATTTTTT
1 TCTT-TTTCTTTTTTT
650858 TC--TTTCTATTTTTT
1 TCTTTTTCT-TTTTTT
650872 TCTTTTTCTTTTTTT
1 TCTTTTTCTTTTTTT
650887 TC
1 TC
650889 AAAAAATATT
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
13 4 0.11
14 8 0.22
15 11 0.30
16 14 0.38
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.77
Consensus pattern (15 bp):
TCTTTTTCTTTTTTT
Found at i:650872 original size:15 final size:14
Alignment explanation
Indices: 650847--650886 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
650837 TTTATTATTA
650847 TTTC-ATTTTTTTC
1 TTTCTATTTTTTTC
650860 TTTCTATTTTTTTC
1 TTTCTATTTTTTTC
* *
650874 TTTTTCTTTTTTT
1 TTTCTATTTTTTT
650887 TCAAAAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 4 0.17
14 20 0.83
ACGTcount: A:0.05, C:0.12, G:0.00, T:0.82
Consensus pattern (14 bp):
TTTCTATTTTTTTC
Found at i:651568 original size:42 final size:42
Alignment explanation
Indices: 651498--651595 Score: 110
Period size: 42 Copynumber: 2.4 Consensus size: 42
651488 TCTTATAGAC
* *
651498 GGCCCAAAGGACTT-ATCATCTTGCTCGAAAGACTGACAGAT
1 GGCCCAAAGGATTTAATCATATTGCTCGAAAGACTGACAGAT
* * *
651539 GGCCCAAAGGATTTAATCATAATT-CTCGAAAGGCTTACTGAT
1 GGCCCAAAGGATTTAATCAT-ATTGCTCGAAAGACTGACAGAT
* *
651581 GGCTCGAAGGATTTA
1 GGCCCAAAGGATTTA
651596 CAAATTTTGG
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
41 13 0.27
42 33 0.69
43 2 0.04
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (42 bp):
GGCCCAAAGGATTTAATCATATTGCTCGAAAGACTGACAGAT
Found at i:651605 original size:259 final size:258
Alignment explanation
Indices: 650907--652051 Score: 1409
Period size: 260 Copynumber: 4.4 Consensus size: 258
650897 TTTTATATGC
* * * * * * *
650907 GAAACATTGAAAATCG-TCTTCTCATTTTCTTTCAAATACCATATGGAAGCATCTTGCCCGAAGG
1 GAAACTTTGAAAATCGCT-TTCTCATTTT-TTTGAAA-ATCATGTGAAAACATCCTGCCCGAAGG
* * * * ** *
650971 TCTTATGGATGGCCCAAAAGACTTATCATCTTGCTCGAAAGACTAATAGATGACCTGAAGAATTT
63 TCTTATAGATGGCCCAAAGGACTTATCATCTTGCTCGAAAGACTGACAGATGACCCAAAGGATTT
* * * *
651036 AATCATCATGCTTGAAAGACTTACTGATGGGCCGAAATACTTATCAATTTTGGAAATAGTATACT
128 AATCATCATGCTCGAAAGACTTACTGAT-GGCCGAAAGACTTACCAATTTTGGAAATAGTCTACT
* * * * * * *
651101 GGGTAAGAAACTTTGGAAATAGCTTTCTTACTTTTCAAATATTTCATTTTCTAAAAATAGTAAGT
192 GAGTAAGAAACTTTGGAAATCGTTTTCTTACTTTTCAAAAATTTCATTTTCTGAAAATACTAAAT
651166 GA
257 GA
* **
651168 GAAACTTTGGAAATTACTTTCTCATTTTTTTGAAAATCATGT-AAAACATCCTGCCCGAAGGTCT
1 GAAACTTTGAAAATCGCTTTCTCATTTTTTTGAAAATCATGTGAAAACATCCTGCCCGAAGGTCT
* *
651232 TATAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTGACAGATGACCCAGAGGATTTAAT
66 TATAGATGGCCCAAAGGACTTATCATCTTGCTCGAAAGACTGACAGATGACCCAAAGGATTTAAT
* * * * * * *
651297 CATCATGCTCGAAAGGCTTATTAATGGCCTGAAGGACTTACCGATTTTGGAAATTGTCTACTGAT
131 CATCATGCTCGAAAGACTTACTGATGGCC-GAAAGACTTACCAATTTTGGAAATAGTCTACTGAG
*
651362 TAAGAAACTTTGGAAATCGTTTTCTTACTTTTCAAAAATTTCATTTTCTGAAAATAATAAATGA
195 TAAGAAACTTTGGAAATCGTTTTCTTACTTTTCAAAAATTTCATTTTCTGAAAATACTAAATGA
* * * *
651426 GAAACATTGAAAATTGCTTTCTCATTTTTTTGAAAATCATGTGAAAACATCCTACCCAAAGGTCT
1 GAAACTTTGAAAATCGCTTTCTCATTTTTTTGAAAATCATGTGAAAACATCCTGCCCGAAGGTCT
* *
651491 TATAGACGGCCCAAAGGACTTATCATCTTGCTCGAAAGACTGACAGATGGCCCAAAGGATTTAAT
66 TATAGATGGCCCAAAGGACTTATCATCTTGCTCGAAAGACTGACAGATGACCCAAAGGATTTAAT
* * * * * * *
651556 CATAATTCTCGAAAGGCTTACTGATGGCTCGAAGGATTTACAAATTTTGGAAATACTCTACTGAG
131 CATCATGCTCGAAAGACTTACTGATGGC-CGAAAGACTTACCAATTTTGGAAATAGTCTACTGAG
* *
651621 TAGGAAACTTTGGAAATCGTTTTCTTAGTTTTCAAAAATTTCATTTTCTGAAAATACTAAATGA
195 TAAGAAACTTTGGAAATCGTTTTCTTACTTTTCAAAAATTTCATTTTCTGAAAATACTAAATGA
* * *
651685 GAAACTTTGAAAATCACTTTCTCATTTTTTTTTAAATTCATGTGAAAACATCCTGCCCGAAGGTC
1 GAAACTTTGAAAATCGCTTTCTCA-TTTTTTTGAAAATCATGTGAAAACATCCTGCCCGAAGGTC
* * * * * *
651750 TTATAGATGGCCCGAAGGACTTATTATCTTGCTTGAAAAACTGTCAGATGGCCCGAAA-GATTTA
65 TTATAGATGGCCCAAAGGACTTATCATCTTGCTCGAAAGACTGACAGATGACCC-AAAGGATTTA
* *
651814 ATCATCATGCTCGAAAGACTTACTGATGGCCCGAAAGACTTACCAATTTTGGAAACAATCTACT-
129 ATCATCATGCTCGAAAGACTTACTGATGG-CCGAAAGACTTACCAATTTTGGAAATAGTCTACTG
* * * * *
651878 AGGTAAGAAACTTTGGAAATCGTTTTCCTACTTTTCAAAAATTTAATCTTATGAAAGTACTAAAT
193 A-GTAAGAAACTTTGGAAATCGTTTTCTTACTTTTCAAAAATTTCATTTTCTGAAAATACTAAAT
651943 GA
257 GA
* * *
651945 GAAACTTTGAAAATCGCTTTCTCATTTTTTTTTTGAAAATCATGTG-AAACTATCTTGCACGAAA
1 GAAACTTTGAAAATCGCTTTCTCA---TTTTTTTGAAAATCATGTGAAAAC-ATCCTGCCCGAAG
* * * ** * *
652009 GACTGATAGATGACCTGAAGGATTTAATCATCATGCTCGAAAG
62 GTCTTATAGATGGCCCAAAGGACTT-ATCATCTTGCTCGAAAG
652052 GCTTACTGAT
Statistics
Matches: 770, Mismatches: 102, Indels: 22
0.86 0.11 0.02
Matches are distributed among these distances:
257 4 0.01
258 220 0.29
259 222 0.29
260 232 0.30
261 30 0.04
262 49 0.06
263 13 0.02
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.33
Consensus pattern (258 bp):
GAAACTTTGAAAATCGCTTTCTCATTTTTTTGAAAATCATGTGAAAACATCCTGCCCGAAGGTCT
TATAGATGGCCCAAAGGACTTATCATCTTGCTCGAAAGACTGACAGATGACCCAAAGGATTTAAT
CATCATGCTCGAAAGACTTACTGATGGCCGAAAGACTTACCAATTTTGGAAATAGTCTACTGAGT
AAGAAACTTTGGAAATCGTTTTCTTACTTTTCAAAAATTTCATTTTCTGAAAATACTAAATGA
Found at i:651901 original size:519 final size:517
Alignment explanation
Indices: 650907--651993 Score: 1464
Period size: 519 Copynumber: 2.1 Consensus size: 517
650897 TTTTATATGC
* * * * * * * *
650907 GAAACATTGAAAATCG-TCTTCTCATTTTCTTTCAAATACCATATGGAAGCATCTTGCCCGAAGG
1 GAAACATTGAAAATCGCT-TTCTCATTTT-TTTGAAA-ATCATGTGAAAACATCCTACCCAAAGG
* * * **
650971 TCTTATGGATGGCCCAAAAGACTTATCATCTTGCTCGAAAGACTAATAGATGACCTGAAGAATTT
63 TCTTATAGACGGCCCAAAAGACTTATCATCTTGCTCGAAAGACTAACAGATGACCCAAAGAATTT
* * * *
651036 AATCATCATGCTTGAAAGACTTACTGATGGGCCGAAATACTTATCAATTTTGGAAATAGTATACT
128 AATCATAATGCTCGAAAGACTTACTGATGGGCCGAAAGACTTATCAATTTTGGAAATACTATACT
* * * *
651101 GGGTAAGAAACTTTGGAAATAGCTTTCTTACTTTTCAAATATTTCATTTTCTAAAAATAGTAAGT
193 GAGTAAGAAACTTTGGAAATAGCTTTCTTACTTTTCAAAAATTTCATTTTCTAAAAATACTAAAT
* *
651166 GAGAAACTTTGGAAATTACTTTCTCATTTTTTTGAAAATCATGTAAAACATCCTGCCCGAAGGTC
258 GAGAAACTTTGAAAATCACTTTCTCATTTTTTTGAAAATCATGTAAAACATCCTGCCCGAAGGTC
* *
651231 TTATAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTGACAGATGACCCAGAGGATTTAA
323 TTATAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAAACTGACAGATGACCCAGAAGATTTAA
* * * * * ***
651296 TCATCATGCTCGAAAGGCTTATTAATGGCCTGAAGGACTTACCGATTTTGGAAATTGTCTACTGA
388 TCATCATGCTCGAAAGACTTACTAATGGCCCGAAAGACTTACCAATTTTGGAAACAATCTACTGA
* * * * *
651361 TTAAGAAACTTTGGAAATCGTTTTCTTACTTTTCAAAAATTTCATTTTCTGAAAATAATAAATGA
453 GTAAGAAACTTTGGAAATCGTTTTCCTACTTTTCAAAAATTTAATCTTATGAAAATAATAAATGA
*
651426 GAAACATTGAAAATTGCTTTCTCATTTTTTTGAAAATCATGTGAAAACATCCTACCCAAAGGTCT
1 GAAACATTGAAAATCGCTTTCTCATTTTTTTGAAAATCATGTGAAAACATCCTACCCAAAGGTCT
* * * *
651491 TATAGACGGCCCAAAGGACTTATCATCTTGCTCGAAAGACTGACAGATGGCCCAAAGGATTTAAT
66 TATAGACGGCCCAAAAGACTTATCATCTTGCTCGAAAGACTAACAGATGACCCAAAGAATTTAAT
* * * * *
651556 CATAATTCTCGAAAGGCTTACTGAT-GGCTCGAAGGATTTA-CAAATTTTGGAAATACTCTACTG
131 CATAATGCTCGAAAGACTTACTGATGGGC-CGAAAGACTTATC-AATTTTGGAAATACTATACTG
* * * * *
651619 AGTAGGAAACTTTGGAAATCGTTTTCTTAGTTTTCAAAAATTTCATTTTCTGAAAATACTAAATG
194 AGTAAGAAACTTTGGAAATAGCTTTCTTACTTTTCAAAAATTTCATTTTCTAAAAATACTAAATG
* *
651684 AGAAACTTTGAAAATCACTTTCTCATTTTTTTTTAAATTCATGTGAAAACATCCTGCCCGAAGGT
259 AGAAACTTTGAAAATCACTTTCTCA-TTTTTTTGAAAATCATGT-AAAACATCCTGCCCGAAGGT
* * * *
651749 CTTATAGATGGCCCGAAGGACTTATTATCTTGCTTGAAAAACTGTCAGATGGCCC-GAAAGATTT
322 CTTATAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAAACTGACAGATGACCCAG-AAGATTT
*
651813 AATCATCATGCTCGAAAGACTTACTGATGGCCCGAAAGACTTACCAATTTTGGAAACAATCTACT
386 AATCATCATGCTCGAAAGACTTACTAATGGCCCGAAAGACTTACCAATTTTGGAAACAATCTACT
* *
651878 -AGGTAAGAAACTTTGGAAATCGTTTTCCTACTTTTCAAAAATTTAATCTTATGAAAGTACTAAA
451 GA-GTAAGAAACTTTGGAAATCGTTTTCCTACTTTTCAAAAATTTAATCTTATGAAAATAATAAA
651942 TGA
515 TGA
*
651945 GAAACTTTGAAAATCGCTTTCTCATTTTTTTTTTGAAAATCATGTGAAA
1 GAAACATTGAAAATCGCTTTCTCA---TTTTTTTGAAAATCATGTGAAA
651994 CTATCTTGCA
Statistics
Matches: 494, Mismatches: 64, Indels: 17
0.86 0.11 0.03
Matches are distributed among these distances:
516 4 0.01
517 206 0.42
518 24 0.05
519 237 0.48
520 1 0.00
522 22 0.04
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Consensus pattern (517 bp):
GAAACATTGAAAATCGCTTTCTCATTTTTTTGAAAATCATGTGAAAACATCCTACCCAAAGGTCT
TATAGACGGCCCAAAAGACTTATCATCTTGCTCGAAAGACTAACAGATGACCCAAAGAATTTAAT
CATAATGCTCGAAAGACTTACTGATGGGCCGAAAGACTTATCAATTTTGGAAATACTATACTGAG
TAAGAAACTTTGGAAATAGCTTTCTTACTTTTCAAAAATTTCATTTTCTAAAAATACTAAATGAG
AAACTTTGAAAATCACTTTCTCATTTTTTTGAAAATCATGTAAAACATCCTGCCCGAAGGTCTTA
TAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAAACTGACAGATGACCCAGAAGATTTAATCA
TCATGCTCGAAAGACTTACTAATGGCCCGAAAGACTTACCAATTTTGGAAACAATCTACTGAGTA
AGAAACTTTGGAAATCGTTTTCCTACTTTTCAAAAATTTAATCTTATGAAAATAATAAATGA
Found at i:652162 original size:221 final size:219
Alignment explanation
Indices: 651808--652212 Score: 589
Period size: 221 Copynumber: 1.8 Consensus size: 219
651798 TGGCCCGAAA
651808 GATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAAGACTTACCAATTTTGGAAACAAT
1 GATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAAGACTTACCAATTTTGGAAACAAT
* * *
651873 CTACTAGGTAAGAAACTTTGGAAATCGTTTTCCTACTTTTCAAAAATTTAATCTTATGAAAGTAC
66 CTACTAGGTAAGAAAATTTGCAAATCGTTTTCCTACTTTTCAAAAATTTAATCTTATGAAAATAC
* **
651938 TAAATGAGAAACTTTGAAAATCG-CTTTCTCATTTTTTTTTTGAAAATCATGTGAAACTATCTTG
131 TAAATGAGAAACTTTAAAAATCGTC-TTCT--TAATTTTTTTGAAAATCATGTGAAACTATCTTG
652002 CACGAAAGACTGATAGATGACCTGAAG
193 CACGAAAGACTGATAGATGACCTGAAG
* ** * * * * *
652029 GATTTAATCATCATGCTCGAAAGGCTTACTGATGGCTTGAAGGACTTATCAGTTTTGGAAATAGT
1 GATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAAGACTTACCAATTTTGGAAACAAT
* * * * *
652094 CTACT-GAGTAAGAAAATTTGCAAATCGTTTTCTTACTTTTCAATAATTTCATTTTCTGAAAATA
66 CTACTAG-GTAAGAAAATTTGCAAATCGTTTTCCTACTTTTCAAAAATTTAATCTTATGAAAATA
652158 CTAAATGAGAAACTTTAAAAATCGTCTTCTTAATTTTTTTGAAAATCATGTGAAA
130 CTAAATGAGAAACTTTAAAAATCGTCTTCTTAATTTTTTTGAAAATCATGTGAAA
652213 ACATCATGCC
Statistics
Matches: 163, Mismatches: 19, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
219 23 0.14
220 1 0.01
221 138 0.85
222 1 0.01
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (219 bp):
GATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAAGACTTACCAATTTTGGAAACAAT
CTACTAGGTAAGAAAATTTGCAAATCGTTTTCCTACTTTTCAAAAATTTAATCTTATGAAAATAC
TAAATGAGAAACTTTAAAAATCGTCTTCTTAATTTTTTTGAAAATCATGTGAAACTATCTTGCAC
GAAAGACTGATAGATGACCTGAAG
Found at i:652659 original size:24 final size:24
Alignment explanation
Indices: 652632--652688 Score: 114
Period size: 24 Copynumber: 2.4 Consensus size: 24
652622 ACTTTGGAAA
652632 TCATTTTCTTACTTTTCAAAAATT
1 TCATTTTCTTACTTTTCAAAAATT
652656 TCATTTTCTTACTTTTCAAAAATT
1 TCATTTTCTTACTTTTCAAAAATT
652680 TCATTTTCT
1 TCATTTTCT
652689 GAAAATACTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.26, C:0.18, G:0.00, T:0.56
Consensus pattern (24 bp):
TCATTTTCTTACTTTTCAAAAATT
Found at i:652907 original size:286 final size:278
Alignment explanation
Indices: 652378--652948 Score: 867
Period size: 286 Copynumber: 2.0 Consensus size: 278
652368 ACTTTGGAAA
*
652378 TCATTTTCTTACTTTTCAAAAATCATTTTATGAAAATACTAAAAGAGAAACTTTGAAAATCGCTT
1 TCATTTTCTTACTTTTCAAAAATCATTTTATGAAAATACTAAAAGAGAAACTTTGAAAATCACTT
* * *
652443 TCTCATTTTTTGAAAATATGTGAAAACATCTACCCGAAGGTCTTATATATGGCCTGAGGGACTTA
66 TCTCATTTTTTGAAAATATGTGAAAACATCTACCCGAAGGTCTTATAGATGGCCCGAAGGACTTA
*
652508 TCATCTTGCTCGAAAGACTGACAGATGACAGGAAGGATTTAATCATCATGCTCGAAAGGCCTACT
131 TCATCTTGCTCGAAAGACTGACAGATGACAGGAAGGATTTAATCATCATGCTCGAAAGACCTACT
** * *
652573 GATGGCCCGAAGGACTTACGAATTTTAGAAATAATCTACTGAGTAAGAAACTTTGGAAATCATTT
196 GATGGCCCGAAAAACTTACCAATTTTAGAAATAATCTACTGAGTAAGAAACTTTGGAAATAATTT
652638 TCTTACTTTTCAAAAATT
261 TCTTACTTTTCAAAAATT
* *
652656 TCATTTTCTTACTTTTCAAAAATTTCATTTTCTGAAAATACTAAATGAGAAACTTTGAAAATCAC
1 TCATTTTCTTACTTTTCAAAAA--TCATTTTATGAAAATACTAAAAGAGAAACTTTGAAAATCAC
652721 TTTCTCATTTTTTTTTTGAAAATCATGTGAAAACATCCTACCCG-AGTGTCTTATAGATGGCCCG
64 TTTCTCA----TTTTTTGAAAAT-ATGTGAAAACAT-CTACCCGAAG-GTCTTATAGATGGCCCG
* * **
652785 AATGACTTATCATCTTGCTTGAAAGACTGACAGATGACCTGAAGGATTTAATCATCATGCTCGAA
122 AAGGACTTATCATCTTGCTCGAAAGACTGACAGATGACAGGAAGGATTTAATCATCATGCTCGAA
* * * *
652850 AGACTTACTGATGGCCCGAAAAACTTACCAATTTTGGAAATAGTCTA-TTAGGTAAGAAACTTTG
187 AGACCTACTGATGGCCCGAAAAACTTACCAATTTTAGAAATAATCTACTGA-GTAAGAAACTTTG
652914 GAAATAATTTTCTTACTTTTCAAAAATT
251 GAAATAATTTTCTTACTTTTCAAAAATT
652942 TCATTTT
1 TCATTTT
652949 TTGAAAATAC
Statistics
Matches: 264, Mismatches: 19, Indels: 12
0.89 0.06 0.04
Matches are distributed among these distances:
278 22 0.08
280 45 0.17
284 12 0.05
285 16 0.06
286 169 0.64
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.35
Consensus pattern (278 bp):
TCATTTTCTTACTTTTCAAAAATCATTTTATGAAAATACTAAAAGAGAAACTTTGAAAATCACTT
TCTCATTTTTTGAAAATATGTGAAAACATCTACCCGAAGGTCTTATAGATGGCCCGAAGGACTTA
TCATCTTGCTCGAAAGACTGACAGATGACAGGAAGGATTTAATCATCATGCTCGAAAGACCTACT
GATGGCCCGAAAAACTTACCAATTTTAGAAATAATCTACTGAGTAAGAAACTTTGGAAATAATTT
TCTTACTTTTCAAAAATT
Found at i:653860 original size:19 final size:19
Alignment explanation
Indices: 653836--653881 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
653826 CAAATAAGGT
653836 GATTATCTGCTTCTTGACG
1 GATTATCTGCTTCTTGACG
653855 GATTATCTGCTTCTTGACG
1 GATTATCTGCTTCTTGACG
*
653874 GGTTATCT
1 GATTATCT
653882 CCAACGTCAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.15, C:0.20, G:0.22, T:0.43
Consensus pattern (19 bp):
GATTATCTGCTTCTTGACG
Found at i:664206 original size:23 final size:21
Alignment explanation
Indices: 664179--664274 Score: 88
Period size: 21 Copynumber: 4.5 Consensus size: 21
664169 CCCATAGAGA
664179 GGTATCGATACACTTTCAAAGAG
1 GGTATCGATACACTTTC-AAG-G
* *
664202 GGTATCGGTACACATTCAAGG
1 GGTATCGATACACTTTCAAGG
* **
664223 TGTATCGATAC-CTAGCAAGG
1 GGTATCGATACACTTTCAAGG
* *
664243 GGTATCGATAC-CTATTTAGGG
1 GGTATCGATACACT-TTCAAGG
664264 GGTATCGATAC
1 GGTATCGATAC
664275 CTCGTGCACA
Statistics
Matches: 60, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
20 18 0.30
21 24 0.40
22 3 0.05
23 15 0.25
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (21 bp):
GGTATCGATACACTTTCAAGG
Found at i:664229 original size:21 final size:23
Alignment explanation
Indices: 664174--664233 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
664164 CGGTACCCAT
*
664174 AGAGAGGTATCGATACACTTTCAA
1 AGAG-GGTATCGATACACATTCAA
*
664198 AGAGGGTATCGGTACACATTC-A
1 AGAGGGTATCGATACACATTCAA
*
664220 AG-GTGTATCGATAC
1 AGAGGGTATCGATAC
664234 CTAGCAAGGG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
21 10 0.31
22 3 0.09
23 15 0.47
24 4 0.12
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (23 bp):
AGAGGGTATCGATACACATTCAA
Found at i:664267 original size:21 final size:20
Alignment explanation
Indices: 664218--664276 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 20
664208 GGTACACATT
*
664218 CAAGGTGTATCGATACCTAG
1 CAAGGGGTATCGATACCTAG
*
664238 CAAGGGGTATCGATACCTATT
1 CAAGGGGTATCGATACCTA-G
* *
664259 TAGGGGGTATCGATACCT
1 CAAGGGGTATCGATACCT
664277 CGTGCACAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 18 0.53
21 16 0.47
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (20 bp):
CAAGGGGTATCGATACCTAG
Found at i:669947 original size:19 final size:19
Alignment explanation
Indices: 669923--669970 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
669913 AATTTTATTT
*
669923 AAAACCAAATAAGGGATCG
1 AAAACCAAATAAGGGATCA
*
669942 AAAACCAAACAAGGGATCA
1 AAAACCAAATAAGGGATCA
669961 AAAACCAAAT
1 AAAACCAAAT
669971 TAGAACAAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.58, C:0.19, G:0.15, T:0.08
Consensus pattern (19 bp):
AAAACCAAATAAGGGATCA
Found at i:675761 original size:60 final size:60
Alignment explanation
Indices: 675625--675770 Score: 143
Period size: 60 Copynumber: 2.4 Consensus size: 60
675615 ACATAATCAG
* * *
675625 TAGTAGAGTGATCATTTTGTAACTTTTAATAGTCAATGGACTCAACAAAGCAACACTCTA
1 TAGTCGAGGGATCATTTTGTAACTTTTAATAGTCAATGGACTCAACAAAGCAACACCCTA
* * * * * * * * **
675685 TAGTCAAAGGACCATTTTGTAACTTTTAATAGTCGA-GAGAGTTAATAAAGTAGTACCCTA
1 TAGTCGAGGGATCATTTTGTAACTTTTAATAGTCAATG-GACTCAACAAAGCAACACCCTA
675745 TAGTCGAGGGATCA-TTTGTATACTTT
1 TAGTCGAGGGATCATTTTGTA-ACTTT
675771 ATTATTAAAT
Statistics
Matches: 68, Mismatches: 16, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
59 7 0.10
60 61 0.90
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (60 bp):
TAGTCGAGGGATCATTTTGTAACTTTTAATAGTCAATGGACTCAACAAAGCAACACCCTA
Found at i:676746 original size:31 final size:31
Alignment explanation
Indices: 676711--676787 Score: 127
Period size: 31 Copynumber: 2.5 Consensus size: 31
676701 AGCTAAACTA
*
676711 AATAATTTAACTTTTCAAACCAACATGAATG
1 AATAATTTAATTTTTCAAACCAACATGAATG
* *
676742 AATAATTTAGTTTTTCAAACCAATATGAATG
1 AATAATTTAATTTTTCAAACCAACATGAATG
676773 AATAATTTAATTTTT
1 AATAATTTAATTTTT
676788 TTAAGTTCGA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.43, C:0.10, G:0.06, T:0.40
Consensus pattern (31 bp):
AATAATTTAATTTTTCAAACCAACATGAATG
Found at i:677796 original size:31 final size:32
Alignment explanation
Indices: 677729--677788 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
677719 TTCTATAAAA
*
677729 AAAATATAATTAATCATAAAAATGAGAGAAAC
1 AAAATATAATTAACCATAAAAATGAGAGAAAC
*
677761 AAAATATAATTAACCATAACAA-GAGAGA
1 AAAATATAATTAACCATAAAAATGAGAGA
677789 GATAAAATCA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 6 0.23
32 20 0.77
ACGTcount: A:0.62, C:0.08, G:0.10, T:0.20
Consensus pattern (32 bp):
AAAATATAATTAACCATAAAAATGAGAGAAAC
Found at i:689104 original size:113 final size:112
Alignment explanation
Indices: 688965--689714 Score: 1114
Period size: 113 Copynumber: 6.6 Consensus size: 112
688955 AGCATCAAAC
* * *
688965 AAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCATATGAGTTCATCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
689030 ATGAACTTTCTCTGGAAAAGTTAATCCATCAAGTGATGAATTCAGGCA
66 ATGAACTTTCTCTGGAAAAGTTAATCCATCAA-TGATGAATTCAGGCA
* * *
689078 AAAGGTTGAACAAATTCTTCTCATTATGAACTTTTTCTTCCTTCTTCATATGAGTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
689143 ATGAACTTTCTCTGGAAAAGTTAATCCATCAAGTGATGAATTCAGGCA
66 ATGAACTTTCTCTGGAAAAGTTAATCCATCAA-TGATGAATTCAGGCA
* * *
689191 AAAGGTTGAACAAATTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAAATGAGTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
689256 ATGAACTTTCTCTGGAAAAGTTAATCCATCAAATGATGAATTC-GAGCA
66 ATGAACTTTCTCTGGAAAAGTTAATCCATC-AATGATGAATTCAG-GCA
* * *
689304 AAAGGTTGAACAAATTCTTCTCATTATGAACTTTTTCTTCCTTCTTCATATGAGTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * * * * *
689369 ATGAACTTGAC-CTGGCAATGTTGATCCATCGAATAATGAATTCAAGCGA
66 ATGAACTT-TCTCTGGAAAAGTTAATCCATC-AATGATGAATTCAGGC-A
689418 AAA-GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
** *
689482 ATGAACTTTCTCTGGAAAAGTGGATCCATTGAATGATGAATTC-GAGCA
66 ATGAACTTTCTCTGGAAAAGTTAATCCA-TCAATGATGAATTCAG-GCA
* *
689530 AAAGGTTGAATAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * * *
689595 ATGAAC-TTCTTCTGGAAATGCTGATCCATCGAATGATGAATTCAAGCA
66 ATGAACTTTC-TCTGGAAAAGTTAATCCATC-AATGATGAATTCAGGCA
*
689643 AAAGGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
689708 ATGAACT
66 ATGAACT
689715 CTACAGATGA
Statistics
Matches: 591, Mismatches: 33, Indels: 25
0.91 0.05 0.04
Matches are distributed among these distances:
112 10 0.02
113 573 0.97
114 8 0.01
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (112 bp):
AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
ATGAACTTTCTCTGGAAAAGTTAATCCATCAATGATGAATTCAGGCA
Found at i:690499 original size:22 final size:22
Alignment explanation
Indices: 690474--690594 Score: 197
Period size: 22 Copynumber: 5.5 Consensus size: 22
690464 AATAAAGCTT
690474 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
* *
690496 TCATCTTTAAAAAGAGAATTTA
1 TCATCTTTGAAAAGAGAATCTA
* *
690518 TCATCTTTGAAGAGAGAATATA
1 TCATCTTTGAAAAGAGAATCTA
690540 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
*
690562 TCATCTTTAAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
690584 TCATCTTTGAA
1 TCATCTTTGAA
690595 GAATGTAGAT
Statistics
Matches: 90, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 90 1.00
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.34
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:692192 original size:37 final size:39
Alignment explanation
Indices: 692136--692236 Score: 118
Period size: 41 Copynumber: 2.6 Consensus size: 39
692126 TATTTCTGAT
* * *
692136 TGAAATGGGCCTTCAAGATGTCCCACA-GGGA-A-CTGTC
1 TGAAATGGGCTTTCGAGATG-CCCACATGGAACATCTGTC
*
692173 TGAACTGGGCTTTCGAGATGCCCACATGGAACATTTCTGTC
1 TGAAATGGGCTTTCGAGATGCCCACATGGAACA--TCTGTC
692214 TGAAATGGGCTTTCGAGATGCCC
1 TGAAATGGGCTTTCGAGATGCCC
692237 CCATATTTGC
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
36 6 0.11
37 20 0.37
38 1 0.02
41 27 0.50
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.26
Consensus pattern (39 bp):
TGAAATGGGCTTTCGAGATGCCCACATGGAACATCTGTC
Found at i:693238 original size:114 final size:114
Alignment explanation
Indices: 693075--693292 Score: 303
Period size: 114 Copynumber: 1.9 Consensus size: 114
693065 GATCATGCAG
* * * * *
693075 TTCATCTTTCAATTTCAATGATTGGTTATGGGATTCCTACCGAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGATTATGGGATTCATACCAAACCAGATCAGATAACTCAAAGA
* * *
693140 ATACTTCCAGAAAATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
66 ACACTTCCAGAAAATGCTATTGAGCCTCCTTATTTCTACTATGAGCAAA
* * * *
693189 TTCATCTTTCAAATCCAATGATTGATT-TTGGAGTTCATACCAAATCAGATTAGATAATTCAAAG
1 TTCATCTTTCAAATCCAATGATTGATTATGGGA-TTCATACCAAACCAGATCAGATAACTCAAAG
*
693253 AACACTTCCAGAAGATGCTATTGAGCCTCCTTATTTCTAC
65 AACACTTCCAGAAAATGCTATTGAGCCTCCTTATTTCTAC
693293 CACGAGAACG
Statistics
Matches: 90, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
113 4 0.04
114 86 0.96
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.34
Consensus pattern (114 bp):
TTCATCTTTCAAATCCAATGATTGATTATGGGATTCATACCAAACCAGATCAGATAACTCAAAGA
ACACTTCCAGAAAATGCTATTGAGCCTCCTTATTTCTACTATGAGCAAA
Found at i:695860 original size:2 final size:2
Alignment explanation
Indices: 695853--695896 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
695843 ACAACAAAGG
695853 AT AT AT AT 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 AT AT AT AT
695895 AT
1 AT
695897 TAAAGGATAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:697558 original size:27 final size:27
Alignment explanation
Indices: 697528--697583 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
697518 GTAATTATGT
*
697528 AAAAATGAAAATGTAAATACAAACGTA
1 AAAAATGAAAATGCAAATACAAACGTA
* * *
697555 AAAAATGCAAATGCAAATTCAAATGTA
1 AAAAATGAAAATGCAAATACAAACGTA
697582 AA
1 AA
697584 TATGTGAATG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.61, C:0.09, G:0.11, T:0.20
Consensus pattern (27 bp):
AAAAATGAAAATGCAAATACAAACGTA
Found at i:697677 original size:7 final size:7
Alignment explanation
Indices: 697643--697684 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
697633 ATAAAAGTAT
697643 AAATGCA
1 AAATGCA
* *
697650 CAATGAA
1 AAATGCA
697657 AAATGCA
1 AAATGCA
697664 AAGATGCA
1 AA-ATGCA
697672 AAATGC-
1 AAATGCA
697678 AAATGCA
1 AAATGCA
697685 TGTATGAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
6 6 0.21
7 16 0.55
8 7 0.24
ACGTcount: A:0.55, C:0.14, G:0.17, T:0.14
Consensus pattern (7 bp):
AAATGCA
Found at i:699247 original size:30 final size:32
Alignment explanation
Indices: 699194--699252 Score: 77
Period size: 30 Copynumber: 1.9 Consensus size: 32
699184 TGCAAATAAA
*
699194 ATGAAATATTAATAAGAAAATATATAAATACT
1 ATGAAATATTAATAAGAAAATATAAAAATACT
* *
699226 ATGAAA-A-TAATAAGTATATATAAAAAT
1 ATGAAATATTAATAAGAAAATATAAAAAT
699253 TTTGAAAAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 17 0.71
31 1 0.04
32 6 0.25
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.31
Consensus pattern (32 bp):
ATGAAATATTAATAAGAAAATATAAAAATACT
Found at i:711048 original size:2 final size:2
Alignment explanation
Indices: 711033--711070 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
711023 AATATAAAAA
*
711033 AT AT AA AT AT -T 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
711071 ATCGGGGCGG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:712488 original size:30 final size:30
Alignment explanation
Indices: 712454--712530 Score: 109
Period size: 30 Copynumber: 2.6 Consensus size: 30
712444 ACTAAACCCG
* *
712454 TCCCCATCCCCGTTTAACATAAACGGTTTT
1 TCCCCGTCCCCGTTTAACATAAACGATTTT
* *
712484 TCCCCGTTCCCGTTTAGCATAAACGATTTT
1 TCCCCGTCCCCGTTTAACATAAACGATTTT
*
712514 TCCCCGTCCCTGTTTAA
1 TCCCCGTCCCCGTTTAA
712531 TTCGATTTTC
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.19, C:0.34, G:0.12, T:0.35
Consensus pattern (30 bp):
TCCCCGTCCCCGTTTAACATAAACGATTTT
Found at i:713040 original size:9 final size:10
Alignment explanation
Indices: 713028--713066 Score: 50
Period size: 9 Copynumber: 4.3 Consensus size: 10
713018 ACAAGATGGG
713028 GAAGAAG-GA
1 GAAGAAGAGA
713037 GAAG-AGAGA
1 GAAGAAGAGA
713046 GAA-AAGAGA
1 GAAGAAGAGA
713055 GAAGAAGA-A
1 GAAGAAGAGA
713064 GAA
1 GAA
713067 AGAGAACATA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
8 2 0.07
9 21 0.78
10 4 0.15
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (10 bp):
GAAGAAGAGA
Found at i:713107 original size:16 final size:16
Alignment explanation
Indices: 713083--713115 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
713073 CATATTGAGG
713083 ATTGAAACTAAGTTTC
1 ATTGAAACTAAGTTTC
*
713099 ATTGGAACTAAGTTTC
1 ATTGAAACTAAGTTTC
713115 A
1 A
713116 GAAGATTACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.36
Consensus pattern (16 bp):
ATTGAAACTAAGTTTC
Found at i:713633 original size:61 final size:60
Alignment explanation
Indices: 713559--713706 Score: 192
Period size: 60 Copynumber: 2.5 Consensus size: 60
713549 GGCTGAGGTG
*
713559 GTGAAAGGCGCATCCCTGGGGATGCGTTTTACC-TGATTTTACGCTGAGTT-GGATGCCACGT
1 GTGAAAGGCGCATCCCTGGGGATGCGTTTTACCTTGATTTT--GCTGA-TTCAGATGCCACGT
* * * *
713620 GTGAAAGGCGCATCCCCGGGGATGCGCTTTACCTTTATTTTGCTGATTCAGTTGCCACGT
1 GTGAAAGGCGCATCCCTGGGGATGCGTTTTACCTTGATTTTGCTGATTCAGATGCCACGT
* *
713680 GTGAAAGGCGCATCCCTGAGGACGCGT
1 GTGAAAGGCGCATCCCTGGGGATGCGT
713707 CTTTCATTAA
Statistics
Matches: 76, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
59 2 0.03
60 37 0.49
61 31 0.41
62 6 0.08
ACGTcount: A:0.18, C:0.24, G:0.30, T:0.28
Consensus pattern (60 bp):
GTGAAAGGCGCATCCCTGGGGATGCGTTTTACCTTGATTTTGCTGATTCAGATGCCACGT
Found at i:713694 original size:60 final size:60
Alignment explanation
Indices: 713559--713695 Score: 188
Period size: 61 Copynumber: 2.3 Consensus size: 60
713549 GGCTGAGGTG
* * *
713559 GTGAAAGGCGCATCCCTGGGGATGCGTTTTACCTGATTTTACGCTGAGTTGGATGCCACGT
1 GTGAAAGGCGCATCCCCGGGGATGCGCTTTACCTGATTTTA-GCTGAGTTAGATGCCACGT
* *
713620 GTGAAAGGCGCATCCCCGGGGATGCGCTTTACCTTTATTTT-GCTGA-TTCAGTTGCCACGT
1 GTGAAAGGCGCATCCCCGGGGATGCGCTTTACC-TGATTTTAGCTGAGTT-AGATGCCACGT
713680 GTGAAAGGCGCATCCC
1 GTGAAAGGCGCATCCC
713696 TGAGGACGCG
Statistics
Matches: 69, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
59 2 0.03
60 30 0.43
61 31 0.45
62 6 0.09
ACGTcount: A:0.18, C:0.24, G:0.29, T:0.28
Consensus pattern (60 bp):
GTGAAAGGCGCATCCCCGGGGATGCGCTTTACCTGATTTTAGCTGAGTTAGATGCCACGT
Found at i:713960 original size:31 final size:33
Alignment explanation
Indices: 713912--713990 Score: 90
Period size: 34 Copynumber: 2.4 Consensus size: 33
713902 TTTAAATAGT
*
713912 TATTATATTTTATATT-AAT-ATAATTATATAAA
1 TATTAT-TTTTTTATTAAATAATAATTATATAAA
* *
713944 TATTATTTTTTTATTAAAATAATATTTATATAAT
1 TATTATTTTTTTATT-AAATAATAATTATATAAA
*
713978 TATTATTTATTTA
1 TATTATTTTTTTA
713991 AATTTATTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
31 8 0.20
32 6 0.15
33 3 0.08
34 23 0.57
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (33 bp):
TATTATTTTTTTATTAAATAATAATTATATAAA
Found at i:713982 original size:34 final size:31
Alignment explanation
Indices: 713902--713990 Score: 88
Period size: 34 Copynumber: 2.7 Consensus size: 31
713892 CAGTTATTTT
* * *
713902 TTTAAATAGTTATTATATTTTATATTAATATA
1 TTTATATAATTATTAT-TTTTTTATTAATATA
* *
713934 ATTATATAAATATTATTTTTTTATTAAAATAATA
1 TTTATATAATTATTATTTTTTTATT--AAT-ATA
*
713968 TTTATATAATTATTATTTATTTA
1 TTTATATAATTATTATTTTTTTA
713991 AATTTATTAA
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
31 8 0.17
32 12 0.26
33 3 0.07
34 23 0.50
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (31 bp):
TTTATATAATTATTATTTTTTTATTAATATA
Found at i:715790 original size:42 final size:42
Alignment explanation
Indices: 715714--715813 Score: 110
Period size: 42 Copynumber: 2.4 Consensus size: 42
715704 ATGCCACAAT
* * *
715714 GGTACATGCCCAGCCCTCCACTTCAGATGCCATCTCCTCAGG
1 GGTACATGCCAAGCCCACCACTTCAGATGCCATCTCCGCAGG
* * * *
715756 GGTATATGCCAAGCCCACCATTTCATATGTCATCTCCGCAGG
1 GGTACATGCCAAGCCCACCACTTCAGATGCCATCTCCGCAGG
* * *
715798 GTTACATTCCTAGCCC
1 GGTACATGCCAAGCCC
715814 GCATGGTTAT
Statistics
Matches: 47, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.21, C:0.36, G:0.18, T:0.25
Consensus pattern (42 bp):
GGTACATGCCAAGCCCACCACTTCAGATGCCATCTCCGCAGG
Found at i:715857 original size:21 final size:22
Alignment explanation
Indices: 715797--715857 Score: 90
Period size: 21 Copynumber: 2.9 Consensus size: 22
715787 ATCTCCGCAG
715797 GGTTACATTCCTAGCCCG-CAT
1 GGTTACATTCCTAGCCCGTCAT
*
715818 GGTTATATTCCTAGCCCGTCA-
1 GGTTACATTCCTAGCCCGTCAT
*
715839 GGTTACATGCCTAGCCCGT
1 GGTTACATTCCTAGCCCGT
715858 AGGGTTTTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
21 34 0.94
22 2 0.06
ACGTcount: A:0.18, C:0.31, G:0.21, T:0.30
Consensus pattern (22 bp):
GGTTACATTCCTAGCCCGTCAT
Found at i:715863 original size:21 final size:21
Alignment explanation
Indices: 715795--715863 Score: 86
Period size: 21 Copynumber: 3.3 Consensus size: 21
715785 TCATCTCCGC
*
715795 AGGGTTACATTCCTAGCCCGC
1 AGGGTTACATTCCTAGCCCGT
* *
715816 ATGGTTATATTCCTAGCCCGT
1 AGGGTTACATTCCTAGCCCGT
*
715837 CA-GGTTACATGCCTAGCCCGT
1 -AGGGTTACATTCCTAGCCCGT
715858 AGGGTT
1 AGGGTT
715864 TTATACCATA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
20 1 0.02
21 39 0.95
22 1 0.02
ACGTcount: A:0.19, C:0.28, G:0.25, T:0.29
Consensus pattern (21 bp):
AGGGTTACATTCCTAGCCCGT
Found at i:716445 original size:34 final size:34
Alignment explanation
Indices: 716387--716489 Score: 143
Period size: 34 Copynumber: 3.0 Consensus size: 34
716377 AAATGTTTTT
*
716387 AATACAAATTATAGTATTCGAAATTTAAAATTAA
1 AATATAAATTATAGTATTCGAAATTTAAAATTAA
* * * * *
716421 AATATAAATAATATTATTCAAAATTTAGATTTAA
1 AATATAAATTATAGTATTCGAAATTTAAAATTAA
*
716455 AATATAAATTATAGTATTCGAAATTTAACATTAA
1 AATATAAATTATAGTATTCGAAATTTAAAATTAA
716489 A
1 A
716490 TTCAAGTTAA
Statistics
Matches: 57, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 57 1.00
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.38
Consensus pattern (34 bp):
AATATAAATTATAGTATTCGAAATTTAAAATTAA
Found at i:717214 original size:127 final size:127
Alignment explanation
Indices: 716914--717674 Score: 1326
Period size: 127 Copynumber: 6.0 Consensus size: 127
716904 GTGCTTTAAA
*
716914 GTCCCCTAAGGAATAATAGGTATTGACATGAATAGTTCCCGGAGGACATAAGTGACATAATAGGG
1 GTCCCCTAAGGAATAATAGGTATTGACATGAATAGTTCCCGGGGGACATAAGTGACATAATAGGG
*
716979 TAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCG-CCCCGGGAACACGCCTTCACG
66 TAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCACG
* * * *
717040 ATCCCCTAAGGAATGATAGGTATTGACATGAATAGTTCTCGGGGGACATAAGTGACATAATAGGA
1 GTCCCCTAAGGAATAATAGGTATTGACATGAATAGTTCCCGGGGGACATAAGTGACATAATAGGG
717105 TAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCACG
66 TAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCACG
717167 GTCCCCTAAGGAATAATAGGTATTGACATGAATAGTTCCCGGGGGACATAAGTGACATAATAGGG
1 GTCCCCTAAGGAATAATAGGTATTGACATGAATAGTTCCCGGGGGACATAAGTGACATAATAGGG
* * *
717232 TAATGATAACATATTCTCTGACAAAATAATAGAATGCGCGCCCCCGGGAACGCGCCTTCACC
66 TAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCACG
**
717294 GTCCCCTAAGGAATAATAGGTATTGACATGAATAGTTCATGGGGGACATAAGTGACATAATAGGG
1 GTCCCCTAAGGAATAATAGGTATTGACATGAATAGTTCCCGGGGGACATAAGTGACATAATAGGG
* * *
717359 CAATAATAACATATTCTCTGACAAAATAATGGAAGGCGTGCCCCCGGGAACGCGCCTTCACG
66 TAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCACG
**
717421 GTCCCCTAAGGAATAATAGGTATTGACATGAATAGTTATCGGGGGACATAAGTGACATAATAGGG
1 GTCCCCTAAGGAATAATAGGTATTGACATGAATAGTTCCCGGGGGACATAAGTGACATAATAGGG
*
717486 TAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCGCCCCCGGGAACACGCCTTCACG
66 TAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCACG
*
717548 GTCCCCTAAGGAATAATAGGTATTGACATGAATAGTTCCTGGGGGACATAAGTGACATAATAGGG
1 GTCCCCTAAGGAATAATAGGTATTGACATGAATAGTTCCCGGGGGACATAAGTGACATAATAGGG
* * *
717613 CAATAATAACATATTCTCTGACAAAATAATGGAAGGTGCGCCCCCGGGAACGCGCCTTCACG
66 TAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCACG
717675 TGAATAGTAC
Statistics
Matches: 599, Mismatches: 35, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
126 100 0.17
127 499 0.83
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.22
Consensus pattern (127 bp):
GTCCCCTAAGGAATAATAGGTATTGACATGAATAGTTCCCGGGGGACATAAGTGACATAATAGGG
TAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCACG
Found at i:721644 original size:22 final size:21
Alignment explanation
Indices: 721617--721659 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 21
721607 TTGATAAAAA
721617 TTATTTAAAATATTATTATTTT
1 TTATTTAAAATATTATT-TTTT
721639 TTATTTAAAATATTATTTTTT
1 TTATTTAAAATATTATTTTTT
721660 AATATTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (21 bp):
TTATTTAAAATATTATTTTTT
Found at i:721665 original size:22 final size:22
Alignment explanation
Indices: 721618--721666 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 22
721608 TGATAAAAAT
*
721618 TATTTAAAATATTATTATTTTT
1 TATTTAAAATATTATTATTTTA
721640 TATTTAAAATATTATT-TTTTAA
1 TATTTAAAATATTATTATTTT-A
721662 TATTT
1 TATTT
721667 TTAGTAAAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 4 0.16
22 21 0.84
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (22 bp):
TATTTAAAATATTATTATTTTA
Found at i:723840 original size:36 final size:35
Alignment explanation
Indices: 723800--723880 Score: 99
Period size: 35 Copynumber: 2.3 Consensus size: 35
723790 GGGGTTGGGC
* * *
723800 ATGTAATTGAAGTATTTTTGGAATTTGAGGTTTAGA
1 ATGTAATTGAAGCA-TTTTGAAATTGGAGGTTTAGA
* *
723836 ATGTAATTAAAGCATTTTGAAATTGGGGGTTTAGA
1 ATGTAATTGAAGCATTTTGAAATTGGAGGTTTAGA
*
723871 ATATAATTGA
1 ATGTAATTGA
723881 TGAATGTGTT
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
35 26 0.68
36 12 0.32
ACGTcount: A:0.35, C:0.01, G:0.23, T:0.41
Consensus pattern (35 bp):
ATGTAATTGAAGCATTTTGAAATTGGAGGTTTAGA
Found at i:724278 original size:3 final size:3
Alignment explanation
Indices: 724270--724349 Score: 160
Period size: 3 Copynumber: 26.7 Consensus size: 3
724260 TTTTTAAGAT
724270 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
724318 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
724350 GTTTTAGTAC
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 77 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:727488 original size:51 final size:51
Alignment explanation
Indices: 727297--727482 Score: 223
Period size: 51 Copynumber: 3.7 Consensus size: 51
727287 CATATTACAA
* * *
727297 AAAAAAATGTAGCACTTAACACATACTTACATTGGTATAAGTAAATAAAAT
1 AAAAAAGTGTAGCACTTAACACATACTTACATCGGTATAAGTGAATAAAAT
* *** * *
727348 AAACAAGTGTAGTGTTTAACACATACTTTCA-CTGGTATAAGTGAATAAAAC
1 AAAAAAGTGTAGCACTTAACACATACTTACATC-GGTATAAGTGAATAAAAT
* * * *
727399 AAAAAATTGTACCATTTAACACATAC-TACATCGGTGTAAGTGAATAAAAT
1 AAAAAAGTGTAGCACTTAACACATACTTACATCGGTATAAGTGAATAAAAT
*
727449 AAAAAAGTGTAACACTTAACACATACTTACATCG
1 AAAAAAGTGTAGCACTTAACACATACTTACATCG
727483 ATGTAAATAT
Statistics
Matches: 112, Mismatches: 20, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
50 42 0.38
51 70 0.62
ACGTcount: A:0.46, C:0.15, G:0.12, T:0.27
Consensus pattern (51 bp):
AAAAAAGTGTAGCACTTAACACATACTTACATCGGTATAAGTGAATAAAAT
Found at i:727713 original size:62 final size:63
Alignment explanation
Indices: 727585--727714 Score: 149
Period size: 62 Copynumber: 2.1 Consensus size: 63
727575 AAAAAATAAA
* * * * *
727585 AAATAATAAAAATATATATTAAGTTATTTTTATGCAAATTTTATTAAATATATATATAAATTAT
1 AAATAATAAAAATATATATTAAGTTA-TTTTATGCAAAATATAATAAATAGAAATATAAATTAT
* *
727649 AAATAATATAAACT-TATATTAAGTTA-TTTATGTAAAATATAATAAATTAGAAATAT-AATTAT
1 AAATAATA-AAAATATATATTAAGTTATTTTATGCAAAATATAATAAA-TAGAAATATAAATTAT
727711 AAAT
1 AAAT
727715 TTAATTTATT
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
62 26 0.46
63 7 0.12
64 20 0.35
65 4 0.07
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.42
Consensus pattern (63 bp):
AAATAATAAAAATATATATTAAGTTATTTTATGCAAAATATAATAAATAGAAATATAAATTAT
Found at i:728555 original size:2 final size:2
Alignment explanation
Indices: 728550--728596 Score: 78
Period size: 2 Copynumber: 24.0 Consensus size: 2
728540 TTTAGGATGG
*
728550 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
728592 A- AT AT
1 AT AT AT
728597 TAAAAATTTA
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:733764 original size:21 final size:22
Alignment explanation
Indices: 733739--733780 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
733729 GAGAGAAAAT
733739 ATGG-ATGTCGTGGCAAAATGG
1 ATGGAATGTCGTGGCAAAATGG
*
733760 ATGGAAATGTCTTGGCAAAAT
1 ATGG-AATGTCGTGGCAAAAT
733781 CAAATTGAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
23 14 0.78
ACGTcount: A:0.33, C:0.10, G:0.31, T:0.26
Consensus pattern (22 bp):
ATGGAATGTCGTGGCAAAATGG
Found at i:744924 original size:13 final size:13
Alignment explanation
Indices: 744906--744940 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
744896 TTTATTTTAC
744906 GATTCAAATCTTT
1 GATTCAAATCTTT
744919 GATTCAAATCTTT
1 GATTCAAATCTTT
*
744932 GATTTAAAT
1 GATTCAAAT
744941 TGAAAGATGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.34, C:0.11, G:0.09, T:0.46
Consensus pattern (13 bp):
GATTCAAATCTTT
Found at i:750702 original size:30 final size:31
Alignment explanation
Indices: 750668--750726 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
750658 GAAAATTCGA
* *
750668 GGACC-ATTCTATAATTTTTGAAAAGTTGGG
1 GGACCAATTCGATAATTTTGGAAAAGTTGGG
750698 GGACCAATTCGATAATTTTGGAAAAGTTG
1 GGACCAATTCGATAATTTTGGAAAAGTTG
750727 TGAATGATTG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 5 0.19
31 21 0.81
ACGTcount: A:0.32, C:0.10, G:0.24, T:0.34
Consensus pattern (31 bp):
GGACCAATTCGATAATTTTGGAAAAGTTGGG
Found at i:753526 original size:2 final size:2
Alignment explanation
Indices: 753519--753560 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
753509 TACGGTTTTC
753519 AT AT AT AT 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 AT AT AT AT
753561 CGTATGAATA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:754110 original size:22 final size:23
Alignment explanation
Indices: 754082--754127 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
754072 AACGCAAGGA
* *
754082 ATTGGTAATGAT-TTTTTAGAGT
1 ATTGGTAATAATAGTTTTAGAGT
754104 ATTGGTAATAATAGTTTTAGAGT
1 ATTGGTAATAATAGTTTTAGAGT
754127 A
1 A
754128 AACTAAGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 11 0.52
23 10 0.48
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.46
Consensus pattern (23 bp):
ATTGGTAATAATAGTTTTAGAGT
Found at i:757243 original size:18 final size:18
Alignment explanation
Indices: 757207--757244 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
757197 TGAAGCCCGC
*
757207 TATAGAAACCCCTATCAA
1 TATAGAAACCCCTAGCAA
757225 TATAGAAA-CCCTGAGCAA
1 TATAGAAACCCCT-AGCAA
757243 TA
1 TA
757245 CGATACCAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.45, C:0.24, G:0.11, T:0.21
Consensus pattern (18 bp):
TATAGAAACCCCTAGCAA
Found at i:760938 original size:15 final size:15
Alignment explanation
Indices: 760918--760947 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
760908 AGCACTGTTT
760918 TACTGAATCAGTCAG
1 TACTGAATCAGTCAG
*
760933 TACTGAATCATTCAG
1 TACTGAATCAGTCAG
760948 AGGTGCGAAA
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:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (15 bp):
TACTGAATCAGTCAG
Found at i:763148 original size:12 final size:12
Alignment explanation
Indices: 763131--763156 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
763121 AACTTTATTT
763131 ATTTGCCAAGAC
1 ATTTGCCAAGAC
763143 ATTTGCCAAGAC
1 ATTTGCCAAGAC
763155 AT
1 AT
763157 ATTCATATAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (12 bp):
ATTTGCCAAGAC
Found at i:764502 original size:28 final size:28
Alignment explanation
Indices: 764470--764535 Score: 105
Period size: 28 Copynumber: 2.4 Consensus size: 28
764460 TCGGATCGGT
*
764470 CGGTTCAATCGGGAATCGTTGCCTAGTC
1 CGGTTCAATCGGGAACCGTTGCCTAGTC
* *
764498 CGGTTCAACCGGGAACCGTTGCTTAGTC
1 CGGTTCAATCGGGAACCGTTGCCTAGTC
764526 CGGTTCAATC
1 CGGTTCAATC
764536 TAAACCGGTT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.18, C:0.27, G:0.27, T:0.27
Consensus pattern (28 bp):
CGGTTCAATCGGGAACCGTTGCCTAGTC
Found at i:771970 original size:57 final size:57
Alignment explanation
Indices: 771882--771997 Score: 232
Period size: 57 Copynumber: 2.0 Consensus size: 57
771872 ATTACCTGAA
771882 GGATCTTCACAAGATCTTGGACTAGGATCAGATTCTTGGTTTTGCTGCAGAGGTGTT
1 GGATCTTCACAAGATCTTGGACTAGGATCAGATTCTTGGTTTTGCTGCAGAGGTGTT
771939 GGATCTTCACAAGATCTTGGACTAGGATCAGATTCTTGGTTTTGCTGCAGAGGTGTT
1 GGATCTTCACAAGATCTTGGACTAGGATCAGATTCTTGGTTTTGCTGCAGAGGTGTT
771996 GG
1 GG
771998 TGGTTCCATC
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 59 1.00
ACGTcount: A:0.21, C:0.16, G:0.29, T:0.34
Consensus pattern (57 bp):
GGATCTTCACAAGATCTTGGACTAGGATCAGATTCTTGGTTTTGCTGCAGAGGTGTT
Found at i:775031 original size:35 final size:35
Alignment explanation
Indices: 774985--775065 Score: 153
Period size: 35 Copynumber: 2.3 Consensus size: 35
774975 ATAATTCTAC
774985 AGAAATAATGATGTGTTGGTTCGAAACTTTAAGGA
1 AGAAATAATGATGTGTTGGTTCGAAACTTTAAGGA
775020 AGAAATAATGATGTGTTGGTTCGAAACTTTAAGGA
1 AGAAATAATGATGTGTTGGTTCGAAACTTTAAGGA
*
775055 AGAAATGATGA
1 AGAAATAATGA
775066 AAGTATTTGA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 45 1.00
ACGTcount: A:0.40, C:0.05, G:0.26, T:0.30
Consensus pattern (35 bp):
AGAAATAATGATGTGTTGGTTCGAAACTTTAAGGA
Found at i:786789 original size:9 final size:9
Alignment explanation
Indices: 786731--786806 Score: 52
Period size: 9 Copynumber: 8.4 Consensus size: 9
786721 AAGTAACAGG
786731 TAAATAAAA
1 TAAATAAAA
* *
786740 CAAACAAAA
1 TAAATAAAA
786749 TGAAAGT-AAA
1 T-AAA-TAAAA
*
786759 GAAATAAAA
1 TAAATAAAA
786768 TAAAT-AAA
1 TAAATAAAA
786776 TAAAT-AAA
1 TAAATAAAA
786784 TAAAATAAACA
1 T-AAATAAA-A
*
786795 -AAACAAAA
1 TAAATAAAA
786803 TAAA
1 TAAA
786807 ACGAAACGAA
Statistics
Matches: 53, Mismatches: 7, Indels: 14
0.72 0.09 0.19
Matches are distributed among these distances:
8 14 0.26
9 30 0.57
10 8 0.15
11 1 0.02
ACGTcount: A:0.75, C:0.05, G:0.04, T:0.16
Consensus pattern (9 bp):
TAAATAAAA
Found at i:786944 original size:18 final size:19
Alignment explanation
Indices: 786923--786958 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
786913 ATGATGGATG
*
786923 AATAATTAAAATA-TACAA
1 AATAATAAAAATACTACAA
786941 AATAATAAAAATACTACA
1 AATAATAAAAATACTACA
786959 TGTACATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.67, C:0.08, G:0.00, T:0.25
Consensus pattern (19 bp):
AATAATAAAAATACTACAA
Found at i:787039 original size:18 final size:17
Alignment explanation
Indices: 787018--787080 Score: 56
Period size: 18 Copynumber: 3.5 Consensus size: 17
787008 TAATAATAAT
787018 AATAAAAATAGTAATATA
1 AATAAAAA-AGTAATATA
* *
787036 AATAAATAAGTAGATAGA
1 AATAAAAAAGTA-ATATA
*
787054 AAGAACAAAATGT-ATATA
1 AATAA-AAAA-GTAATATA
787072 AATAAAAAA
1 AATAAAAAA
787081 AAATGACATA
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
17 8 0.22
18 23 0.64
19 3 0.08
20 2 0.06
ACGTcount: A:0.67, C:0.02, G:0.10, T:0.22
Consensus pattern (17 bp):
AATAAAAAAGTAATATA
Found at i:788575 original size:36 final size:36
Alignment explanation
Indices: 788518--788805 Score: 128
Period size: 36 Copynumber: 8.4 Consensus size: 36
788508 TCAAAGTTTA
* * * *
788518 TGTTTCAAGAGAAATTGTCTCAAGGGAGAAAAAATT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGAAAAAATT
*
788554 TGTTTCAAGGGAAACTATCTCAAGAGAGATAAAATT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGAAAAAATT
** * * * *
788590 CATTTCAAGGGAAA-TGTTTTC-A-A-TG-----TTT
1 TGTTTCAAGGGAAACT-ATCTCAAGAGAGAAAAAATT
** * * * *
788618 ATGTTTCAATAGAAACTGTCTCAAGGGAGACAAAAGT
1 -TGTTTCAAGGGAAACTATCTCAAGAGAGAAAAAATT
788655 TGTTTCAAGGGAAACTATCTCAAGAGAGATAAAAA-T
1 TGTTTCAAGGGAAACTATCTCAAGAGAGA-AAAAATT
** * * * *
788691 CATTTCAAGGGAAA-TGTTTTC-A-A-TG-----TTT
1 TGTTTCAAGGGAAACT-ATCTCAAGAGAGAAAAAATT
* * * *
788719 ATGTTTCAAGAGAAACTGTCTCAAGGGAGAAAAAAGT
1 -TGTTTCAAGGGAAACTATCTCAAGAGAGAAAAAATT
*
788756 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGAAAAAATT
**
788792 CATTTCAAGGGAAA
1 TGTTTCAAGGGAAA
788806 TGTTTTTAAT
Statistics
Matches: 180, Mismatches: 48, Indels: 48
0.65 0.17 0.17
Matches are distributed among these distances:
28 3 0.02
29 27 0.15
30 4 0.02
32 2 0.01
33 2 0.01
34 2 0.01
35 4 0.02
36 130 0.72
37 6 0.03
ACGTcount: A:0.40, C:0.11, G:0.20, T:0.28
Consensus pattern (36 bp):
TGTTTCAAGGGAAACTATCTCAAGAGAGAAAAAATT
Found at i:788632 original size:101 final size:101
Alignment explanation
Indices: 788490--788900 Score: 624
Period size: 101 Copynumber: 4.1 Consensus size: 101
788480 AAAGATTTTG
* * *
788490 TTTCAAGGGAAACTGTTTTCAAAGTTTATGTTTCAAGAGAAATTGTCTCAAGGGAGAAAAAATTT
1 TTTCAAGGGAAA-TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGAAAAAAGTT
*
788555 GTTTCAAGGGAAACTATCTCAAGAGAGATAAAATTCA
65 GTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCA
* *
788592 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAATAGAAACTGTCTCAAGGGAGACAAAAGTTG
1 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGAAAAAAGTTG
* *
788657 TTTCAAGGGAAACTATCTCAAGAGAGATAAAAATCA
66 TTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCA
788693 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGAAAAAAGTTG
1 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGAAAAAAGTTG
788758 TTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCA
66 TTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCA
* **
788794 TTTCAAGGGAAATGTTTTTAATGTTTATGTTTCAAGAGAAACTGTCTC--------AAAATTTCT
1 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGAAAAAAGT-T
*
788851 GTTTCGAGGGAAACTATCTCAAGAGAGACAAAATGT-A
65 GTTTCAAGGGAAACTATCTCAAGAGAGACAAAAT-TCA
788888 TTTCAAGGGAAAT
1 TTTCAAGGGAAAT
788901 AAATCTTTTT
Statistics
Matches: 293, Mismatches: 14, Indels: 12
0.92 0.04 0.04
Matches are distributed among these distances:
93 5 0.02
94 48 0.16
95 1 0.00
101 227 0.77
102 12 0.04
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (101 bp):
TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGAAAAAAGTTG
TTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCA
Found at i:789185 original size:72 final size:72
Alignment explanation
Indices: 788943--789167 Score: 378
Period size: 72 Copynumber: 3.1 Consensus size: 72
788933 AAACAATCTT
* * * ** *
788943 GTGAGACAAAGCCTATTTTAAGAAAAACAATCTTGAGGGAAATAAATCTTTTTTCAAGTAAAACA
1 GTGAGACAATGTCTGTTTTAAGAATGACAATCTTGAGGGAAATAAATCTTCTTTCAAGTAAAACA
789008 GTCTCAA
66 GTCTCAA
*
789015 GTGAGACAATGTCTGTTTTAAGAATGACAATCTTGAGGGAAATAAATATTCTTTCAAGTAAAACA
1 GTGAGACAATGTCTGTTTTAAGAATGACAATCTTGAGGGAAATAAATCTTCTTTCAAGTAAAACA
789080 GTCTCAA
66 GTCTCAA
*
789087 GTGAGACAATGTCTGTTTTAAGAATGACAATCTTGAGGGAAATAAATCCTCTTTCAAGTAAAACA
1 GTGAGACAATGTCTGTTTTAAGAATGACAATCTTGAGGGAAATAAATCTTCTTTCAAGTAAAACA
789152 GTCTCAA
66 GTCTCAA
789159 GTGAGACAA
1 GTGAGACAA
789168 ATCATCTATA
Statistics
Matches: 144, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
72 144 1.00
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.28
Consensus pattern (72 bp):
GTGAGACAATGTCTGTTTTAAGAATGACAATCTTGAGGGAAATAAATCTTCTTTCAAGTAAAACA
GTCTCAA
Found at i:790603 original size:95 final size:93
Alignment explanation
Indices: 790426--790618 Score: 235
Period size: 95 Copynumber: 2.1 Consensus size: 93
790416 CTCAATATGT
* * * * *
790426 AAATACCTTTATCAGGTTAGCTAAATCTTCTCCATAAAGCTAGGGCGTTTAACCAATTGCCTTAG
1 AAATACCTTTATCAGGCTAGCTAAATATTATCCATAAAGCCAGGGCGTTTAACCAATTGACTTAG
* * *
790491 AGGGACAGCTTACGCTTTATTGTATAGTA
66 AGGGACAACTCAAGCTTTATTGTATA-TA
* *
790520 AAATCACCTTTATCAGGCTAGCTGAATATTATCCATAAAGCCGGGGCGTTTAACCAATTGTAC-T
1 AAAT-ACCTTTATCAGGCTAGCTAAATATTATCCATAAAGCCAGGGCGTTTAACCAATTG-ACTT
* * *
790584 AGATGGATAACTCAAGCTTTATTTTATATA
64 AGAGGGACAACTCAAGCTTTATTGTATATA
790614 AAATA
1 AAATA
790619 ATATTATAAT
Statistics
Matches: 84, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
93 1 0.01
94 10 0.12
95 72 0.86
96 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
Consensus pattern (93 bp):
AAATACCTTTATCAGGCTAGCTAAATATTATCCATAAAGCCAGGGCGTTTAACCAATTGACTTAG
AGGGACAACTCAAGCTTTATTGTATATA
Found at i:794741 original size:9 final size:9
Alignment explanation
Indices: 794687--794744 Score: 57
Period size: 9 Copynumber: 6.4 Consensus size: 9
794677 AGGTAACAGG
794687 TAAATAAAA
1 TAAATAAAA
* *
794696 CAAACAAAA
1 TAAATAAAA
794705 TGAAAGT-AAA
1 T-AAA-TAAAA
*
794715 GAAATAAAA
1 TAAATAAAA
794724 TAAAT-AAA
1 TAAATAAAA
794732 TAAATAAAA
1 TAAATAAAA
794741 TAAA
1 TAAA
794745 CACAACAAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
8 9 0.23
9 24 0.62
10 6 0.15
ACGTcount: A:0.74, C:0.03, G:0.05, T:0.17
Consensus pattern (9 bp):
TAAATAAAA
Found at i:794892 original size:18 final size:19
Alignment explanation
Indices: 794871--794906 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
794861 AATATGGATG
*
794871 AATAATTAAAATA-TACAA
1 AATAATAAAAATACTACAA
794889 AATAATAAAAATACTACA
1 AATAATAAAAATACTACA
794907 TGTACATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.67, C:0.08, G:0.00, T:0.25
Consensus pattern (19 bp):
AATAATAAAAATACTACAA
Found at i:804316 original size:19 final size:20
Alignment explanation
Indices: 804294--804333 Score: 73
Period size: 19 Copynumber: 2.0 Consensus size: 20
804284 TCGGGTCGAG
804294 TCAGACCGGTC-AAACCGGT
1 TCAGACCGGTCAAAACCGGT
804313 TCAGACCGGTCAAAACCGGT
1 TCAGACCGGTCAAAACCGGT
804333 T
1 T
804334 AAACCGGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.28, C:0.30, G:0.25, T:0.17
Consensus pattern (20 bp):
TCAGACCGGTCAAAACCGGT
Found at i:804330 original size:10 final size:9
Alignment explanation
Indices: 804293--804341 Score: 53
Period size: 9 Copynumber: 5.2 Consensus size: 9
804283 GTCGGGTCGA
*
804293 GTCAGACCG
1 GTCAAACCG
804302 GTCAAACCG
1 GTCAAACCG
*
804311 GTTCAGACCG
1 G-TCAAACCG
804321 GTCAAAACCG
1 GTC-AAACCG
*
804331 GTTAAACCG
1 GTCAAACCG
804340 GT
1 GT
804342 TTTCCAGCTT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
9 19 0.56
10 15 0.44
ACGTcount: A:0.29, C:0.29, G:0.27, T:0.16
Consensus pattern (9 bp):
GTCAAACCG
Found at i:804339 original size:19 final size:19
Alignment explanation
Indices: 804298--804341 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
804288 GTCGAGTCAG
*
804298 ACCGGTCAAACCGGTTCAG
1 ACCGGTCAAACCGGTTCAA
804317 ACCGGTCAAAACCGGTT-AA
1 ACCGGTC-AAACCGGTTCAA
804336 ACCGGT
1 ACCGGT
804342 TTTCCAGCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 14 0.61
20 9 0.39
ACGTcount: A:0.30, C:0.30, G:0.25, T:0.16
Consensus pattern (19 bp):
ACCGGTCAAACCGGTTCAA
Found at i:806430 original size:18 final size:18
Alignment explanation
Indices: 806404--806461 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
806394 AATATATTAC
806404 AAATAAACATATAAAATT
1 AAATAAACATATAAAATT
*
806422 AAATCAACA-ACTAAAA-T
1 AAATAAACATA-TAAAATT
*
806439 AAATGAA-AT-TAAAATT
1 AAATAAACATATAAAATT
*
806455 ATATAAA
1 AAATAAA
806462 AATGATTAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
15 5 0.15
16 7 0.21
17 8 0.24
18 13 0.39
ACGTcount: A:0.66, C:0.07, G:0.02, T:0.26
Consensus pattern (18 bp):
AAATAAACATATAAAATT
Found at i:807811 original size:3 final size:3
Alignment explanation
Indices: 807803--807877 Score: 127
Period size: 3 Copynumber: 25.7 Consensus size: 3
807793 ATTAAGTATT
*
807803 TAA TAA TAA T-A TAA -CA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
807849 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
807878 TAAGCAAATA
Statistics
Matches: 68, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
2 3 0.04
3 65 0.96
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:808473 original size:121 final size:122
Alignment explanation
Indices: 808262--808545 Score: 358
Period size: 121 Copynumber: 2.3 Consensus size: 122
808252 AAGTTCTTCC
* * * **
808262 TCTTCAGATGAGTTCTTCTCATTATGAACTTCTTCGGGAAATGCTGATGCTGATTTATCTCCTTC
1 TCTTCAGATAAGTTCTTCTCATTATGAAC--CTTCTGAAAATGCTGATGCTGAACTATCTCCTTC
* *
808327 TGTGATAGAATCATACAAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTATTC-T
64 TGTGATAGAATCATACAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTATTCAT
* * *
808385 TCTTCAGATAAGTTCTTCTCATTATGAACCTTCTGAAAATGTTGATGCTGAACTATCTTCTTTTG
1 TCTTCAGATAAGTTCTTCTCATTATGAACCTTCTGAAAATGCTGATGCTGAACTATCTCCTTCTG
* *** *
808450 TGATAGAATCGA-GCAAGTGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCAT
66 TGATAGAATC-ATACAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTATTCAT
* *
808507 T-TTCAGATAAGTTCTTCTCATCATGAACTTTCTGGAAAA
1 TCTTCAGATAAGTTCTTCTCATTATGAACCTTCT-GAAAA
808546 GTCTATCCAT
Statistics
Matches: 141, Mismatches: 17, Indels: 7
0.85 0.10 0.04
Matches are distributed among these distances:
121 105 0.74
122 8 0.06
123 28 0.20
ACGTcount: A:0.27, C:0.18, G:0.14, T:0.40
Consensus pattern (122 bp):
TCTTCAGATAAGTTCTTCTCATTATGAACCTTCTGAAAATGCTGATGCTGAACTATCTCCTTCTG
TGATAGAATCATACAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTATTCAT
Found at i:810039 original size:20 final size:21
Alignment explanation
Indices: 810005--810070 Score: 98
Period size: 21 Copynumber: 3.2 Consensus size: 21
809995 ATGTTAATCC
*
810005 ATTTAAAAAAGAATAAATTGA
1 ATTTCAAAAAGAATAAATTGA
*
810026 ATTTCAAAAA-AATAAATTAA
1 ATTTCAAAAAGAATAAATTGA
*
810046 ATTTCAAAAATAATAAATTGA
1 ATTTCAAAAAGAATAAATTGA
810067 ATTT
1 ATTT
810071 AGAGAAAATA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
20 19 0.46
21 22 0.54
ACGTcount: A:0.59, C:0.03, G:0.05, T:0.33
Consensus pattern (21 bp):
ATTTCAAAAAGAATAAATTGA
Found at i:810065 original size:41 final size:43
Alignment explanation
Indices: 810005--810093 Score: 121
Period size: 41 Copynumber: 2.1 Consensus size: 43
809995 ATGTTAATCC
810005 ATTTAAAAAAGAATAAATTGAATTTCA-AAAAAATAAA-TTA-A
1 ATTTAAAAAAGAATAAATTGAATTT-AGAAAAAATAAACTTAGA
* * *
810046 ATTTCAAAAATAATAAATTGAATTTAGAGAAAATAAACTTAGA
1 ATTTAAAAAAGAATAAATTGAATTTAGAAAAAATAAACTTAGA
810089 ATTTA
1 ATTTA
810094 TTAATAAATA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
40 1 0.02
41 32 0.78
42 3 0.07
43 5 0.12
ACGTcount: A:0.58, C:0.03, G:0.07, T:0.31
Consensus pattern (43 bp):
ATTTAAAAAAGAATAAATTGAATTTAGAAAAAATAAACTTAGA
Found at i:810082 original size:20 final size:20
Alignment explanation
Indices: 810005--810092 Score: 97
Period size: 21 Copynumber: 4.2 Consensus size: 20
809995 ATGTTAATCC
*
810005 ATTTAAAAAAGAATAAATTGA
1 ATTTCAAAAA-AATAAATTGA
*
810026 ATTTCAAAAAAATAAATTAA
1 ATTTCAAAAAAATAAATTGA
810046 ATTTCAAAAATAATAAATTGA
1 ATTTCAAAAA-AATAAATTGA
*
810067 ATTT-AGAGAAAATAAACTTAGA
1 ATTTCA-AAAAAATAAA-TT-GA
810089 ATTT
1 ATTT
810093 ATTAATAAAT
Statistics
Matches: 59, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
20 26 0.44
21 27 0.46
22 6 0.10
ACGTcount: A:0.58, C:0.03, G:0.07, T:0.32
Consensus pattern (20 bp):
ATTTCAAAAAAATAAATTGA
Found at i:820412 original size:42 final size:45
Alignment explanation
Indices: 820333--820421 Score: 148
Period size: 42 Copynumber: 2.0 Consensus size: 45
820323 TAATAAAGGA
820333 AAAAATAATTTAATAATAATGTCTACCTAAATATCTTTATTTAAAC
1 AAAAATAATTTAATAATAATG-CTACCTAAATATCTTTATTTAAAC
820379 AAAAATAA-TTAATAATAATG-TACCTAAAT-TCTTTATTTAAAC
1 AAAAATAATTTAATAATAATGCTACCTAAATATCTTTATTTAAAC
820421 A
1 A
820422 TGCTTTCTTT
Statistics
Matches: 43, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
42 14 0.33
43 9 0.21
45 12 0.28
46 8 0.19
ACGTcount: A:0.49, C:0.10, G:0.02, T:0.38
Consensus pattern (45 bp):
AAAAATAATTTAATAATAATGCTACCTAAATATCTTTATTTAAAC
Found at i:821874 original size:18 final size:18
Alignment explanation
Indices: 821848--821905 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
821838 TAATATTTAC
821848 AAATAAACATATAAAATT
1 AAATAAACATATAAAATT
*
821866 AAATCAACA-ACTAAAA-T
1 AAATAAACATA-TAAAATT
*
821883 AAATGAA-AT-TAAAATT
1 AAATAAACATATAAAATT
*
821899 ATATAAA
1 AAATAAA
821906 AAATGATTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
15 5 0.15
16 7 0.21
17 8 0.24
18 13 0.39
ACGTcount: A:0.66, C:0.07, G:0.02, T:0.26
Consensus pattern (18 bp):
AAATAAACATATAAAATT
Found at i:825074 original size:2 final size:2
Alignment explanation
Indices: 825057--825096 Score: 57
Period size: 2 Copynumber: 20.5 Consensus size: 2
825047 AATTCTTAAT
825057 TA TA T- TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TGA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA T
825097 TATTAATAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
1 2 0.06
2 31 0.89
3 2 0.06
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (2 bp):
TA
Found at i:825395 original size:42 final size:43
Alignment explanation
Indices: 825316--825397 Score: 123
Period size: 42 Copynumber: 1.9 Consensus size: 43
825306 TCTTCGTCAA
*
825316 ATAATTTTTGAAAATAAAAAAATATATTTTCTTAAAAAATCAT
1 ATAATTTTCGAAAATAAAAAAATATATTTTCTTAAAAAATCAT
*
825359 ATAATTTTACGAAAAT-GAAAAA-ATATTTTCTTAAAAAAT
1 ATAATTTT-CGAAAATAAAAAAATATATTTTCTTAAAAAAT
825398 AAAAATTTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
42 17 0.47
43 13 0.36
44 6 0.17
ACGTcount: A:0.54, C:0.05, G:0.04, T:0.38
Consensus pattern (43 bp):
ATAATTTTCGAAAATAAAAAAATATATTTTCTTAAAAAATCAT
Found at i:830032 original size:29 final size:29
Alignment explanation
Indices: 829990--830045 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
829980 ACGAACCAAC
*
829990 ATAGGTCGCCATGCACGCCCGGCGTCCTT
1 ATAGGTCGCCATGCAAGCCCGGCGTCCTT
830019 ATAGGTCGCCATGCAAGCCCGGCGTCC
1 ATAGGTCGCCATGCAAGCCCGGCGTCC
830046 AACGTTCTCG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.16, C:0.38, G:0.29, T:0.18
Consensus pattern (29 bp):
ATAGGTCGCCATGCAAGCCCGGCGTCCTT
Found at i:830251 original size:11 final size:11
Alignment explanation
Indices: 830194--830275 Score: 85
Period size: 11 Copynumber: 7.2 Consensus size: 11
830184 CGTGAATTCA
830194 GCTGCATTATT
1 GCTGCATTATT
*
830205 GCAGCACTTATT
1 GCTGCA-TTATT
*
830217 ACTGCATTATT
1 GCTGCATTATT
*
830228 GCAGCACTTATT
1 GCTGCA-TTATT
830240 GCTGCATTATT
1 GCTGCATTATT
*
830251 G-TAGCCCTTATT
1 GCT-G-CATTATT
830263 GCTGCATTATT
1 GCTGCATTATT
830274 GC
1 GC
830276 AGTCCTTTAG
Statistics
Matches: 58, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
10 1 0.02
11 29 0.50
12 27 0.47
13 1 0.02
ACGTcount: A:0.21, C:0.22, G:0.17, T:0.40
Consensus pattern (11 bp):
GCTGCATTATT
Found at i:830282 original size:23 final size:23
Alignment explanation
Indices: 830194--830277 Score: 141
Period size: 23 Copynumber: 3.7 Consensus size: 23
830184 CGTGAATTCA
830194 GCTGCATTATTGCAGCACTTATT
1 GCTGCATTATTGCAGCACTTATT
*
830217 ACTGCATTATTGCAGCACTTATT
1 GCTGCATTATTGCAGCACTTATT
* *
830240 GCTGCATTATTGTAGCCCTTATT
1 GCTGCATTATTGCAGCACTTATT
830263 GCTGCATTATTGCAG
1 GCTGCATTATTGCAG
830278 TCCTTTAGCT
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 56 1.00
ACGTcount: A:0.21, C:0.21, G:0.18, T:0.39
Consensus pattern (23 bp):
GCTGCATTATTGCAGCACTTATT
Found at i:830659 original size:68 final size:68
Alignment explanation
Indices: 830573--830734 Score: 306
Period size: 68 Copynumber: 2.4 Consensus size: 68
830563 AAAATTTTAA
* *
830573 TTAAATAGTTTGCTTGATGGTTATATTATTGTTAGTTTAAGTTATATCATACATAAATATAAAAT
1 TTAATTAGTTTGTTTGATGGTTATATTATTGTTAGTTTAAGTTATATCATACATAAATATAAAAT
830638 TAT
66 TAT
830641 TTAATTAGTTTGTTTGATGGTTATATTATTGTTAGTTTAAGTTATATCATACATAAATATAAAAT
1 TTAATTAGTTTGTTTGATGGTTATATTATTGTTAGTTTAAGTTATATCATACATAAATATAAAAT
830706 TAT
66 TAT
830709 TTAATTAGTTTGTTTGATGGTTATAT
1 TTAATTAGTTTGTTTGATGGTTATAT
830735 ATTAAAAACA
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
68 92 1.00
ACGTcount: A:0.34, C:0.03, G:0.13, T:0.50
Consensus pattern (68 bp):
TTAATTAGTTTGTTTGATGGTTATATTATTGTTAGTTTAAGTTATATCATACATAAATATAAAAT
TAT
Found at i:830805 original size:27 final size:28
Alignment explanation
Indices: 830748--830806 Score: 77
Period size: 27 Copynumber: 2.1 Consensus size: 28
830738 AAAAACATAA
*
830748 TTAATTAGTGTGTTAGTTAGTCTAATTT
1 TTAATTAGTGTGTTAGTTAGTCTAATAT
*
830776 TTAATTAGTTTG-TAGTTAGT-TAAATAT
1 TTAATTAGTGTGTTAGTTAGTCT-AATAT
830803 TTAA
1 TTAA
830807 GTTATATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 1 0.04
27 16 0.57
28 11 0.39
ACGTcount: A:0.31, C:0.02, G:0.15, T:0.53
Consensus pattern (28 bp):
TTAATTAGTGTGTTAGTTAGTCTAATAT
Found at i:830909 original size:18 final size:18
Alignment explanation
Indices: 830886--830940 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
830876 AATAATTATT
830886 TAAATTAGTTTATTGTTA
1 TAAATTAGTTTATTGTTA
830904 TAAATTA--TTA--G-T-
1 TAAATTAGTTTATTGTTA
*
830916 T-AATTAGTTTATTATTA
1 TAAATTAGTTTATTGTTA
830933 TAAATTAG
1 TAAATTAG
830941 GTTAAAACAA
Statistics
Matches: 29, Mismatches: 1, Indels: 14
0.66 0.02 0.32
Matches are distributed among these distances:
11 5 0.17
12 1 0.03
13 4 0.14
14 1 0.03
16 4 0.14
17 1 0.03
18 13 0.45
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (18 bp):
TAAATTAGTTTATTGTTA
Found at i:831251 original size:22 final size:22
Alignment explanation
Indices: 831226--831306 Score: 72
Period size: 22 Copynumber: 3.3 Consensus size: 22
831216 AATCATTTAT
*
831226 TAGTTTAAGTTATATTAAAAAA
1 TAGTTTAAGTTATATTAAAGAA
831248 TAGTTTATTAGTTAACATTATATTAAAGAA
1 TAGTTTA--AG-T----T-ATATTAAAGAA
*
831278 TAGTTAAAGTTATATTAAAGAA
1 TAGTTTAAGTTATATTAAAGAA
831300 TAGTTTA
1 TAGTTTA
831307 TTAGTTGTTG
Statistics
Matches: 48, Mismatches: 3, Indels: 16
0.72 0.04 0.24
Matches are distributed among these distances:
22 24 0.50
23 1 0.02
24 2 0.04
25 1 0.02
27 1 0.02
28 2 0.04
29 1 0.02
30 16 0.33
ACGTcount: A:0.46, C:0.01, G:0.11, T:0.42
Consensus pattern (22 bp):
TAGTTTAAGTTATATTAAAGAA
Found at i:831269 original size:30 final size:29
Alignment explanation
Indices: 831187--831282 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 29
831177 ATTAGTTAAT
*
831187 TAGTTTTTTAGTAATAAATTATAATT-AAAAA
1 TAGTTTATTAGT--TAAATTAT-ATTAAAAAA
*
831218 TCA-TTTATTAGTTTAAGTTATATTAAAAAA
1 T-AGTTTATTAG-TTAAATTATATTAAAAAA
*
831248 TAGTTTATTAGTTAACATTATATTAAAGAA
1 TAGTTTATTAGTTAA-ATTATATTAAAAAA
831278 TAGTT
1 TAGTT
831283 AAAGTTATAT
Statistics
Matches: 56, Mismatches: 4, Indels: 11
0.79 0.06 0.15
Matches are distributed among these distances:
29 8 0.14
30 38 0.68
31 8 0.14
32 2 0.04
ACGTcount: A:0.44, C:0.02, G:0.08, T:0.46
Consensus pattern (29 bp):
TAGTTTATTAGTTAAATTATATTAAAAAA
Found at i:832043 original size:21 final size:20
Alignment explanation
Indices: 832019--832094 Score: 82
Period size: 20 Copynumber: 3.6 Consensus size: 20
832009 AAATGCCTGA
*
832019 GGGTATCGGTACCTAAGTAGG
1 GGGTATCGATACCTAA-TAGG
832040 GGGTATCGATACC-ATATCATGG
1 GGGTATCGATACCTA-AT-A-GG
*
832062 GGGTATCGATACCTACTAGG
1 GGGTATCGATACCTAATAGG
*
832082 GGGTATCGGTACC
1 GGGTATCGATACC
832095 ATCCGAGCAT
Statistics
Matches: 48, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
20 16 0.33
21 15 0.31
22 16 0.33
23 1 0.02
ACGTcount: A:0.24, C:0.18, G:0.33, T:0.25
Consensus pattern (20 bp):
GGGTATCGATACCTAATAGG
Found at i:832066 original size:22 final size:21
Alignment explanation
Indices: 832019--832096 Score: 81
Period size: 21 Copynumber: 3.7 Consensus size: 21
832009 AAATGCCTGA
* *
832019 GGGTATCGGTACC-TAAGTAGG
1 GGGTATCGATACCAT-ACTAGG
832040 GGGTATCGATACCATA-TCATGG
1 GGGTATCGATACCATACT-A-GG
832062 GGGTATCGATACC-TACTAGG
1 GGGTATCGATACCATACTAGG
*
832082 GGGTATCGGTACCAT
1 GGGTATCGATACCAT
832097 CCGAGCATTC
Statistics
Matches: 50, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
20 15 0.30
21 18 0.36
22 17 0.34
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.26
Consensus pattern (21 bp):
GGGTATCGATACCATACTAGG
Found at i:832161 original size:20 final size:20
Alignment explanation
Indices: 832136--832189 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
832126 AATGTTCATA
832136 GGGGTATCGGTACCCTATAG
1 GGGGTATCGGTACCCTATAG
*
832156 GGGGTATCGATACCCTATAG
1 GGGGTATCGGTACCCTATAG
832176 GGGGTATCGGTACC
1 GGGGTATCGGTACC
832190 ATCCGAGCAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.20, C:0.20, G:0.35, T:0.24
Consensus pattern (20 bp):
GGGGTATCGGTACCCTATAG
Found at i:832223 original size:95 final size:97
Alignment explanation
Indices: 832039--832270 Score: 400
Period size: 95 Copynumber: 2.4 Consensus size: 97
832029 ACCTAAGTAG
* *
832039 GGGGTATCGATACCATATCATGGGGGTATCGATA-CCTACTAGGGGGTATCGGTACCATCCGAGC
1 GGGGTATCGGTACCCTAT-ATGGGGGTATCGATACCCTACTAGGGGGTATCGGTACCATCCGAGC
832103 ATTCTGTTATTTCTCGGAACCAAAATGTTCATA
65 ATTCTGTTATTTCTCGGAACCAAAATGTTCATA
832136 GGGGTATCGGTACCCTATA-GGGGGTATCGATACCCTA-TAGGGGGTATCGGTACCATCCGAGCA
1 GGGGTATCGGTACCCTATATGGGGGTATCGATACCCTACTAGGGGGTATCGGTACCATCCGAGCA
832199 TTCTGTTATTTCTCGGAACCAAAATGTTCATA
66 TTCTGTTATTTCTCGGAACCAAAATGTTCATA
*
832231 GGGGTATCGGTACCCT-TATGGGGGTATCGATACCATACTA
1 GGGGTATCGGTACCCTATATGGGGGTATCGATACCCTACTA
832271 AATAAAACTT
Statistics
Matches: 129, Mismatches: 3, Indels: 7
0.93 0.02 0.05
Matches are distributed among these distances:
94 2 0.02
95 104 0.81
96 7 0.05
97 16 0.12
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (97 bp):
GGGGTATCGGTACCCTATATGGGGGTATCGATACCCTACTAGGGGGTATCGGTACCATCCGAGCA
TTCTGTTATTTCTCGGAACCAAAATGTTCATA
Found at i:834909 original size:23 final size:23
Alignment explanation
Indices: 834858--834956 Score: 111
Period size: 23 Copynumber: 4.5 Consensus size: 23
834848 ACCCGACAGG
**
834858 GGGTATCGATACC-A-TCAGGGA
1 GGGTATCGATACCTATTCAAAGA
834879 -GGTATCGATA-CTCATTCAAAGA
1 GGGTATCGATACCT-ATTCAAAGA
*
834901 GGGTATCGATACCTATTC-AA-T
1 GGGTATCGATACCTATTCAAAGA
*
834922 GGGTATCGATACCTATTCAAAGG
1 GGGTATCGATACCTATTCAAAGA
834945 GGGTATCGATAC
1 GGGTATCGATAC
834957 ATGTATCAGG
Statistics
Matches: 67, Mismatches: 4, Indels: 12
0.81 0.05 0.14
Matches are distributed among these distances:
19 1 0.01
20 10 0.15
21 19 0.28
22 9 0.13
23 26 0.39
24 2 0.03
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.26
Consensus pattern (23 bp):
GGGTATCGATACCTATTCAAAGA
Found at i:834927 original size:21 final size:21
Alignment explanation
Indices: 834857--834982 Score: 116
Period size: 21 Copynumber: 5.8 Consensus size: 21
834847 AACCCGACAG
*
834857 GGGGTATCGATACC-A-TCAG
1 GGGGTATCGATACCTATTCAA
834876 GGAGGTATCGATA-CTCATTCAAA
1 GG-GGTATCGATACCT-ATTC-AA
834899 GAGGGTATCGATACCTATTCAA
1 G-GGGTATCGATACCTATTCAA
*
834921 TGGGTATCGATACCTATTCAAA
1 GGGGTATCGATACCTATTC-AA
* *
834943 GGGGGTATCGATACATGTATC-A
1 -GGGGTATCGATACCTAT-TCAA
834965 GGGGTATCGATACTCTAT
1 GGGGTATCGATAC-CTAT
834983 GCACATAAAT
Statistics
Matches: 89, Mismatches: 7, Indels: 19
0.77 0.06 0.17
Matches are distributed among these distances:
19 3 0.03
20 10 0.11
21 32 0.36
22 9 0.10
23 30 0.34
24 5 0.06
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.28
Consensus pattern (21 bp):
GGGGTATCGATACCTATTCAA
Found at i:834940 original size:44 final size:44
Alignment explanation
Indices: 834858--834982 Score: 141
Period size: 44 Copynumber: 2.8 Consensus size: 44
834848 ACCCGACAGG
*
834858 GGGTATCGATACC-A-TCAGGGAGGTATCGATA-CTCATTCAAAGA
1 GGGTATCGATACCTATTCAAGG-GGTATCGATACCT-ATTCAAAGA
* *
834901 GGGTATCGATACCTATTCAATGGGTATCGATACCTATTCAAAGG
1 GGGTATCGATACCTATTCAAGGGGTATCGATACCTATTCAAAGA
* *
834945 GGGTATCGATACATGTATC-AGGGGTATCGATACTCTAT
1 GGGTATCGATACCTAT-TCAAGGGGTATCGATAC-CTAT
834983 GCACATAAAT
Statistics
Matches: 71, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
43 13 0.18
44 46 0.65
45 12 0.17
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.28
Consensus pattern (44 bp):
GGGTATCGATACCTATTCAAGGGGTATCGATACCTATTCAAAGA
Found at i:840798 original size:20 final size:21
Alignment explanation
Indices: 840753--840806 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
840743 AAATGCCTGA
*
840753 GGGTATCGGTACCTAAGTAGG
1 GGGTATCGGTACCTAACTAGG
* *
840774 AGGTATCGATACCT-ACTAGG
1 GGGTATCGGTACCTAACTAGG
840794 GGGTATCGGTACC
1 GGGTATCGGTACC
840807 ATCCGAGCAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.24, C:0.19, G:0.33, T:0.24
Consensus pattern (21 bp):
GGGTATCGGTACCTAACTAGG
Found at i:840898 original size:75 final size:75
Alignment explanation
Indices: 840770--840959 Score: 310
Period size: 75 Copynumber: 2.5 Consensus size: 75
840760 GGTACCTAAG
*
840770 TAGGAGGTATCGATA-CCTACTAGGGGGTATCGGTACCATCCGAGCATTCTGTTATTTCTCGGAA
1 TAGG-GGTATCGGTACCCTA-TAGGGGGTATCGGTACCATCCGAGCATTCTGTTATTTCTCGGAA
840834 CCAAAATGTTCA
64 CCAAAATGTTCA
*
840846 TAGGGGTATCGGTACCCTATAGGGGGTATCGGTACCATCTGAGCATTCTGTTATTTCTCGGAACC
1 TAGGGGTATCGGTACCCTATAGGGGGTATCGGTACCATCCGAGCATTCTGTTATTTCTCGGAACC
840911 AAAATGTTCA
66 AAAATGTTCA
* *
840921 TAGGGGTATCAGTACCCTATATGGGGGTATCGATACCAT
1 TAGGGGTATCGGTACCCTATA-GGGGGTATCGGTACCAT
840960 ACTAAATAAA
Statistics
Matches: 108, Mismatches: 4, Indels: 4
0.93 0.03 0.03
Matches are distributed among these distances:
75 84 0.78
76 24 0.22
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.29
Consensus pattern (75 bp):
TAGGGGTATCGGTACCCTATAGGGGGTATCGGTACCATCCGAGCATTCTGTTATTTCTCGGAACC
AAAATGTTCA
Found at i:843803 original size:3 final size:3
Alignment explanation
Indices: 843795--843892 Score: 58
Period size: 3 Copynumber: 33.7 Consensus size: 3
843785 TTACTATTAA
* * * *
843795 ATT ATT ATT ATC ATT ATT ATT ATT A-A ATC ATT ATT ATC ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * * * * *
843842 A-A ATA ATT ATT ATA ATG ATT ATT ACT A-A ATC ATT ATT ATA ATG ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
843888 ATT AT
1 ATT AT
843893 CAAACCATTA
Statistics
Matches: 73, Mismatches: 19, Indels: 6
0.74 0.19 0.06
Matches are distributed among these distances:
2 3 0.04
3 70 0.96
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.52
Consensus pattern (3 bp):
ATT
Found at i:843813 original size:26 final size:26
Alignment explanation
Indices: 843734--844026 Score: 169
Period size: 26 Copynumber: 11.6 Consensus size: 26
843724 ATTAGTAATA
* *
843734 ATTATTAAATCATTAATATTAAATTATT
1 ATTATTAAATCATTATTA-T-CATTATT
* * * *
843762 ATTATAAAATCATTACTA-AATAATT
1 ATTATTAAATCATTATTATCATTATT
* *
843787 ACTATTAAATTATTATTATCATTATT
1 ATTATTAAATCATTATTATCATTATT
843813 ATTATTAAATCATTATTATC---ATT
1 ATTATTAAATCATTATTATCATTATT
* * *
843836 ATTATTAAATAATTATTATAATGATT
1 ATTATTAAATCATTATTATCATTATT
* * *
843862 ATTACTAAATCATTATTATAATGATT
1 ATTATTAAATCATTATTATCATTATT
* * * * *
843888 ATTATCAAACCATTACTAAATCATCA-A
1 ATTATTAAATCATTA-T-TATCATTATT
* **
843915 ATCATTAAAT-A-T-TTA--A--ACA
1 ATTATTAAATCATTATTATCATTATT
* *
843934 ATTATTAAATCATTATTATAATGATT
1 ATTATTAAATCATTATTATCATTATT
* * * *
843960 ATTACTAAATTATTATTATAATGATT
1 ATTATTAAATCATTATTATCATTATT
* * * *
843986 ATTATCAAATCATTACTATAATGATT
1 ATTATTAAATCATTATTATCATTATT
*
844012 ATTATCAAATCATTA
1 ATTATTAAATCATTA
844027 CTAAATCATC
Statistics
Matches: 216, Mismatches: 35, Indels: 30
0.77 0.12 0.11
Matches are distributed among these distances:
18 1 0.00
19 10 0.05
20 2 0.01
21 1 0.00
22 4 0.02
23 22 0.10
24 1 0.00
25 21 0.10
26 125 0.58
27 8 0.04
28 21 0.10
ACGTcount: A:0.45, C:0.08, G:0.02, T:0.45
Consensus pattern (26 bp):
ATTATTAAATCATTATTATCATTATT
Found at i:843815 original size:23 final size:23
Alignment explanation
Indices: 843784--843865 Score: 92
Period size: 23 Copynumber: 3.4 Consensus size: 23
843774 TTACTAAATA
* *
843784 ATTACTATTAAATTATTATTATC
1 ATTATTATTAAATAATTATTATC
*
843807 ATTATTATTATTAAATCATTATTATC
1 ---ATTATTATTAAATAATTATTATC
*
843833 ATTATTATTAAATAATTATTATA
1 ATTATTATTAAATAATTATTATC
*
843856 ATGATTATTA
1 ATTATTATTA
843866 CTAAATCATT
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
23 30 0.59
26 21 0.41
ACGTcount: A:0.41, C:0.05, G:0.01, T:0.52
Consensus pattern (23 bp):
ATTATTATTAAATAATTATTATC
Found at i:843876 original size:23 final size:23
Alignment explanation
Indices: 843751--844094 Score: 116
Period size: 26 Copynumber: 14.1 Consensus size: 23
843741 AATCATTAAT
* *
843751 ATTA-AATTATTATTATAAAATC
1 ATTATAATGATTATTATTAAATC
* * *
843773 ATTACTAAATAATTACTATTAAATT
1 ATTA-T-AATGATTATTATTAAATC
*
843798 ATTATTATCATTATTATTATTAAATC
1 ATTA-TA--ATGATTATTATTAAATC
* * *
843824 ATTATTATCATTATTATTAAATAATT
1 ATTATAATGATTATTATT--A-AATC
*
843850 ATTATAATGATTATTACTAAATC
1 ATTATAATGATTATTATTAAATC
* *
843873 ATTATTATAATGATTATTATCAAACC
1 ---ATTATAATGATTATTATTAAATC
* * *
843899 ATTACTAAATCATCAAATCATTAAAT-
1 ATTA-T-AATGAT--TATTATTAAATC
**
843925 ATT-TAA--ACAATTATTAAATC
1 ATTATAATGATTATTATTAAATC
* *
843945 ATTATTATAATGATTATTACTAAATTATT
1 ---ATTATAATGATTATTA-TTAA--ATC
*
843974 ATTATAATGATTATTATCAAATC
1 ATTATAATGATTATTATTAAATC
*
843997 ATTACTATAATGATTATTATCAAATC
1 A-T--TATAATGATTATTATTAAATC
* * *
844023 ATTACTAAATCATCAAATCATTAAAT-
1 ATTA-T-AATGAT--TATTATTAAATC
*
844049 ATTA-AAT--TCATTATTAAATC
1 ATTATAATGATTATTATTAAATC
844069 ATTATTTAA--ATTATTATTAAATC
1 ATTA--TAATGATTATTATTAAATC
844092 ATT
1 ATT
844095 TTTATGGTTA
Statistics
Matches: 247, Mismatches: 38, Indels: 73
0.69 0.11 0.20
Matches are distributed among these distances:
19 19 0.08
20 4 0.02
21 2 0.01
22 4 0.02
23 48 0.19
24 9 0.04
25 35 0.14
26 106 0.43
27 18 0.07
29 2 0.01
ACGTcount: A:0.45, C:0.09, G:0.01, T:0.45
Consensus pattern (23 bp):
ATTATAATGATTATTATTAAATC
Found at i:843981 original size:124 final size:121
Alignment explanation
Indices: 843813--844099 Score: 422
Period size: 124 Copynumber: 2.4 Consensus size: 121
843803 TATCATTATT
843813 ATTATTAAATCATTA-TT-ATCATTATTATTAAATAATTATTATAATGATTATTA-CTAAATCAT
1 ATTATTAAATCATTATTTAAT-ATTATTATTAAATAATTATTATAATGATTATTATC-AAATCAT
*
843875 TATTATAATGATTATTATCAAACCATTACTAAATCATCAAATCATTAAATATTTAAA-C
64 TACTATAATGATTATTATCAAACCATTACTAAATCATCAAATCATTAAATA-TTAAATC
* *
843933 AATTATTAAATCATTATTATAATGATTATTACTAAATTATTATTATAATGATTATTATCAAATCA
1 -ATTATTAAATCATTATT-TAAT-ATTATTATTAAATAATTATTATAATGATTATTATCAAATCA
*
843998 TTACTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTAAATTC
63 TTACTATAATGATTATTATCAAACCATTACTAAATCATCAAATCATTAAATATTAAA-TC
* *
844058 ATTATTAAATCATTATTTAA-ATTATTATTAAATCATTTTTAT
1 ATTATTAAATCATTATTTAATATTATTATTAAATAATTATTAT
844100 GGTTAATTGA
Statistics
Matches: 152, Mismatches: 8, Indels: 12
0.88 0.05 0.07
Matches are distributed among these distances:
121 34 0.22
122 1 0.01
123 9 0.06
124 106 0.70
125 2 0.01
ACGTcount: A:0.44, C:0.09, G:0.02, T:0.45
Consensus pattern (121 bp):
ATTATTAAATCATTATTTAATATTATTATTAAATAATTATTATAATGATTATTATCAAATCATTA
CTATAATGATTATTATCAAACCATTACTAAATCATCAAATCATTAAATATTAAATC
Found at i:844065 original size:12 final size:11
Alignment explanation
Indices: 844048--844094 Score: 67
Period size: 12 Copynumber: 4.1 Consensus size: 11
844038 AATCATTAAA
844048 TATTAAATTCAT
1 TATTAAA-TCAT
844060 TATTAAATCAT
1 TATTAAATCAT
*
844071 TATTTAAATTAT
1 TA-TTAAATCAT
844083 TATTAAATCAT
1 TATTAAATCAT
844094 T
1 T
844095 TTTATGGTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
11 15 0.47
12 17 0.53
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (11 bp):
TATTAAATCAT
Found at i:844067 original size:98 final size:96
Alignment explanation
Indices: 843842--844094 Score: 250
Period size: 98 Copynumber: 2.6 Consensus size: 96
843832 CATTATTATT
* * *
843842 AAATAATTATTATAATGATTATTACTAAATCATTATTATAATGATTATTATCAAACCATTACTAA
1 AAATCATTAATATAA-GATTATTACTAAATCATTATTATAATGATTATTATCAAATCATTACTAA
* * *
843907 ATCATCAAATCATTAAATATTTAAACAATTATT
65 ATCAT-AAATCATCAAATATTTAAACAATCATC
* *
843940 AAATCATTATTATAATGATTATTACTAAATTATTATTATAATGATTATTATCAAATCATTACTAT
1 AAATCATTAATATAA-GATTATTACTAAATCATTATTATAATGATTATTATCAAATCATTACTA-
* * * *
844005 AATGAT-TATTATCAAATCA-TTACTA-AATCATC
64 AATCATAAATCATCAAAT-ATTTA-AACAATCATC
* *
844037 AAATCATTAAATATTAA-ATTCATTATTAAATCATTATT-TAA--ATTATTATTAAATCATT
1 AAATCATT-AATA-TAAGATT-ATTACTAAATCATTATTATAATGATTATTATCAAATCATT
844095 TTTATGGTTA
Statistics
Matches: 135, Mismatches: 14, Indels: 15
0.82 0.09 0.09
Matches are distributed among these distances:
95 16 0.12
97 30 0.22
98 81 0.60
99 8 0.06
ACGTcount: A:0.45, C:0.09, G:0.02, T:0.43
Consensus pattern (96 bp):
AAATCATTAATATAAGATTATTACTAAATCATTATTATAATGATTATTATCAAATCATTACTAAA
TCATAAATCATCAAATATTTAAACAATCATC
Found at i:844289 original size:17 final size:18
Alignment explanation
Indices: 844269--844343 Score: 91
Period size: 17 Copynumber: 4.0 Consensus size: 18
844259 TATTAGTAAA
844269 TCATTATTATT-ATAATT
1 TCATTATTATTAATAATT
844286 TCATTATTATTAATAATTACT
1 TCATTATTATTAATAA-T--T
844307 AATCATTATTATT-ATAATT
1 --TCATTATTATTAATAATT
844326 TCATTATTATTAATAATT
1 TCATTATTATTAATAATT
844344 ACTAATCATT
Statistics
Matches: 51, Mismatches: 0, Indels: 13
0.80 0.00 0.20
Matches are distributed among these distances:
17 22 0.43
18 10 0.20
19 2 0.04
21 2 0.04
22 4 0.08
23 11 0.22
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.55
Consensus pattern (18 bp):
TCATTATTATTAATAATT
Found at i:844312 original size:23 final size:23
Alignment explanation
Indices: 844286--844368 Score: 97
Period size: 23 Copynumber: 3.8 Consensus size: 23
844276 TATTATAATT
844286 TCATTATTATTAATAATTACTAA
1 TCATTATTATTAATAATTACTAA
844309 TCATTATTATT-ATAA-T--T--
1 TCATTATTATTAATAATTACTAA
844326 TCATTATTATTAATAATTACTAA
1 TCATTATTATTAATAATTACTAA
* *
844349 TCATTACTATCAAATAATTA
1 TCATTATTAT-TAATAATTA
844369 AATATTAATA
Statistics
Matches: 51, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
17 11 0.22
18 4 0.08
19 2 0.04
21 2 0.04
22 4 0.08
23 20 0.39
24 8 0.16
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.48
Consensus pattern (23 bp):
TCATTATTATTAATAATTACTAA
Found at i:844312 original size:40 final size:40
Alignment explanation
Indices: 844267--844354 Score: 176
Period size: 40 Copynumber: 2.2 Consensus size: 40
844257 CCTATTAGTA
844267 AATCATTATTATTATAATTTCATTATTATTAATAATTACT
1 AATCATTATTATTATAATTTCATTATTATTAATAATTACT
844307 AATCATTATTATTATAATTTCATTATTATTAATAATTACT
1 AATCATTATTATTATAATTTCATTATTATTAATAATTACT
844347 AATCATTA
1 AATCATTA
844355 CTATCAAATA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.51
Consensus pattern (40 bp):
AATCATTATTATTATAATTTCATTATTATTAATAATTACT
Done.