Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr8
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 19593398
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1222752 characters in sequence are not A, C, G, or T
File 44 of 50
Found at i:18464586 original size:2 final size:2
Alignment explanation
Indices: 18464581--18464621 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
18464571 TATATATATA
18464581 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
18464622 AATAGTTTTC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:18464824 original size:68 final size:68
Alignment explanation
Indices: 18464710--18464854 Score: 191
Period size: 68 Copynumber: 2.1 Consensus size: 68
18464700 TGTATGGAAA
* * * * * * *
18464710 ATGCTAGGTTGCTATGTATGTGATGTTATTTCCACATACTAAATGAGATACGGATAAGCATATGA
1 ATGCTATGTTGCTATATATGTGATGTTATTTCCACACAATAAATGAGATAAGAATAAGCACATGA
18464775 TGT
66 TGT
* * *
18464778 ATGCTATGTTGCTATATATGTGATGTTGTTTCCACACAATATATGAGATAAGAATGAGCACATGA
1 ATGCTATGTTGCTATATATGTGATGTTATTTCCACACAATAAATGAGATAAGAATAAGCACATGA
18464843 TGT
66 TGT
*
18464846 GTGCTATGT
1 ATGCTATGT
18464855 GTGAAATGTA
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
68 66 1.00
ACGTcount: A:0.30, C:0.12, G:0.22, T:0.36
Consensus pattern (68 bp):
ATGCTATGTTGCTATATATGTGATGTTATTTCCACACAATAAATGAGATAAGAATAAGCACATGA
TGT
Found at i:18467532 original size:68 final size:67
Alignment explanation
Indices: 18467270--18467509 Score: 259
Period size: 68 Copynumber: 3.5 Consensus size: 67
18467260 TGCTTGCTCA
* * * *
18467270 ATCATCTCATGTAGTATACGAAATATACATCATATATATGTTCTCATAGCATTAATCATGCATAC
1 ATCATCTCATATAGTATATGAAATATACATCATATACATATTCTCATAGCATTAATCATGCATAC
18467335 GTT
66 -TT
* * * *
18467338 ATCATCTCATGTAGTATATGGAATATACATCATCTACATATTCTCATTGCATTAATCATGCATAC
1 ATCATCTCATATAGTATATGAAATATACATCATATACATATTCTCATAGCATTAATCATGCATAC
18467403 TT
66 TT
** * * * * *
18467405 AATCGCCTCATATAGTATGTGAAATTTACATCATATACACCATCCT-ATAGTA-TACATCATGCA
1 -ATCATCTCATATAGTATATGAAATATACATCATATACA-TATTCTCATAGCATTA-ATCATGCA
18467468 TACTT
63 TACTT
* * *
18467473 GATCATCTCATATAGTATATGGAATTTACGTCATATA
1 -ATCATCTCATATAGTATATGAAATATACATCATATA
18467510 TATAATTTTA
Statistics
Matches: 146, Mismatches: 23, Indels: 6
0.83 0.13 0.03
Matches are distributed among these distances:
67 4 0.03
68 138 0.95
69 4 0.03
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.37
Consensus pattern (67 bp):
ATCATCTCATATAGTATATGAAATATACATCATATACATATTCTCATAGCATTAATCATGCATAC
TT
Found at i:18468767 original size:16 final size:16
Alignment explanation
Indices: 18468727--18468769 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
18468717 TTTTGGATTC
*
18468727 AATAAAAATATCAAAAA
1 AATAAAAAT-CCAAAAA
* *
18468744 AATCAAAATCCAAAAG
1 AATAAAAATCCAAAAA
18468760 AATAAAAATC
1 AATAAAAATC
18468770 TAAATTTTGC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 14 0.64
17 8 0.36
ACGTcount: A:0.70, C:0.12, G:0.02, T:0.16
Consensus pattern (16 bp):
AATAAAAATCCAAAAA
Found at i:18478653 original size:13 final size:13
Alignment explanation
Indices: 18478635--18478661 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
18478625 AATGAAAAGC
18478635 AAATGTAACAAAA
1 AAATGTAACAAAA
18478648 AAATGTAACAAAA
1 AAATGTAACAAAA
18478661 A
1 A
18478662 GCACTAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.70, C:0.07, G:0.07, T:0.15
Consensus pattern (13 bp):
AAATGTAACAAAA
Found at i:18485560 original size:2 final size:2
Alignment explanation
Indices: 18485547--18485579 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
18485537 ATTCAAAAAA
18485547 AT AT A- AT A- 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 A
18485580 NNNNNNNNNN
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 27 0.93
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:18485663 original size:2 final size:2
Alignment explanation
Indices: 18485658--18485688 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
18485648 AATAATAATA
18485658 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
18485689 TAAAGTAGAC
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:18495984 original size:23 final size:23
Alignment explanation
Indices: 18495936--18496029 Score: 75
Period size: 23 Copynumber: 4.1 Consensus size: 23
18495926 AACTTAGAAT
* * *
18495936 ATAAAAAAATAAAATATAAGAGA
1 ATAAAAAAATAAAAAATATGATA
18495959 ATAAAAAAATAAAAAATATGATA
1 ATAAAAAAATAAAAAATATGATA
** * *
18495982 AT-ATGAAATAAAATGAAGATAATA
1 ATAAAAAAATAAAA--AATATGATA
* *
18496006 ATTAAATAATAAAAAATA-GATA
1 ATAAAAAAATAAAAAATATGATA
18496028 AT
1 AT
18496030 TGCATTAGCA
Statistics
Matches: 56, Mismatches: 12, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
22 14 0.25
23 25 0.45
24 9 0.16
25 8 0.14
ACGTcount: A:0.69, C:0.00, G:0.07, T:0.23
Consensus pattern (23 bp):
ATAAAAAAATAAAAAATATGATA
Found at i:18496013 original size:44 final size:47
Alignment explanation
Indices: 18495942--18496029 Score: 110
Period size: 44 Copynumber: 1.9 Consensus size: 47
18495932 GAATATAAAA
* *
18495942 AAATAAAATATAAGAGAATAAAAAAATAA-AAAATAT-GATAATATG
1 AAATAAAATAGAAGAGAATAAAAAAATAATAAAAAATAGATAATATG
* **
18495987 AAATAAAAT-GAAGATAATAATTAAATAATAAAAAATAGATAAT
1 AAATAAAATAGAAGAGAATAAAAAAATAATAAAAAATAGATAAT
18496030 TGCATTAGCA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
44 15 0.42
45 15 0.42
46 6 0.17
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (47 bp):
AAATAAAATAGAAGAGAATAAAAAAATAATAAAAAATAGATAATATG
Found at i:18496026 original size:25 final size:24
Alignment explanation
Indices: 18495966--18496029 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 24
18495956 AGAATAAAAA
18495966 AATAAAAAATATGATAATATGAAAT
1 AATAAAAAATA-GATAATATGAAAT
*
18495991 AA-AATGAAGATA-ATAAT-T-AAAT
1 AATAA--AAAATAGATAATATGAAAT
18496013 AATAAAAAATAGATAAT
1 AATAAAAAATAGATAAT
18496030 TGCATTAGCA
Statistics
Matches: 33, Mismatches: 2, Indels: 11
0.72 0.04 0.24
Matches are distributed among these distances:
21 5 0.15
22 11 0.33
23 3 0.09
24 7 0.21
25 2 0.06
26 5 0.15
ACGTcount: A:0.66, C:0.00, G:0.08, T:0.27
Consensus pattern (24 bp):
AATAAAAAATAGATAATATGAAAT
Found at i:18503907 original size:15 final size:15
Alignment explanation
Indices: 18503887--18503919 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
18503877 TTGAAGTTTA
*
18503887 TTTTTATTTTATTTT
1 TTTTTATTATATTTT
18503902 TTTTTATTATATTTT
1 TTTTTATTATATTTT
18503917 TTT
1 TTT
18503920 ATTTTTTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (15 bp):
TTTTTATTATATTTT
Found at i:18503907 original size:21 final size:21
Alignment explanation
Indices: 18503883--18503944 Score: 63
Period size: 21 Copynumber: 2.8 Consensus size: 21
18503873 GCTTTTGAAG
18503883 TTTATTTTTATTTTATTTTTT-
1 TTTATTTTT-TTTTATTTTTTC
18503904 TTTATTATATTTTTTTATTTTTTC
1 TTTA-T-T-TTTTTTTATTTTTTC
* *
18503928 ATTATATTTTTTTATTT
1 TTTATTTTTTTTTATTT
18503945 ATTTAAAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
21 15 0.43
22 1 0.03
23 13 0.37
24 6 0.17
ACGTcount: A:0.18, C:0.02, G:0.00, T:0.81
Consensus pattern (21 bp):
TTTATTTTTTTTTATTTTTTC
Found at i:18503938 original size:14 final size:12
Alignment explanation
Indices: 18503883--18503948 Score: 59
Period size: 13 Copynumber: 5.6 Consensus size: 12
18503873 GCTTTTGAAG
*
18503883 TTTATTTTTAT-
1 TTTATTTTTTTA
18503894 TTTA-TTTTTT-
1 TTTATTTTTTTA
18503904 TTTATTATATTTT-
1 TTTATT-T-TTTTA
*
18503917 TTTATTTTTTCA
1 TTTATTTTTTTA
18503929 TTATATTTTTTTA
1 TT-TATTTTTTTA
18503942 TTTATTT
1 TTTATTT
18503949 AAAATTATAA
Statistics
Matches: 47, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
10 9 0.19
11 8 0.17
12 9 0.19
13 21 0.45
ACGTcount: A:0.18, C:0.02, G:0.00, T:0.80
Consensus pattern (12 bp):
TTTATTTTTTTA
Found at i:18503938 original size:20 final size:21
Alignment explanation
Indices: 18503891--18503944 Score: 85
Period size: 21 Copynumber: 2.6 Consensus size: 21
18503881 AGTTTATTTT
18503891 TATTTTATTT-TTTTTT-ATTA
1 TATTTT-TTTATTTTTTCATTA
18503911 TATTTTTTTATTTTTTCATTA
1 TATTTTTTTATTTTTTCATTA
18503932 TATTTTTTTATTT
1 TATTTTTTTATTT
18503945 ATTTAAAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
19 3 0.09
20 12 0.38
21 17 0.53
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.80
Consensus pattern (21 bp):
TATTTTTTTATTTTTTCATTA
Found at i:18504190 original size:14 final size:12
Alignment explanation
Indices: 18504167--18504206 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
18504157 TATATTATTA
18504167 TTATTTTATTTT
1 TTATTTTATTTT
*
18504179 TTATTTACTATTTA
1 TTATTT--TATTTT
18504193 TTATTTTATTTT
1 TTATTTTATTTT
18504205 TT
1 TT
18504207 TATTAAATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
12 13 0.54
14 11 0.46
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.78
Consensus pattern (12 bp):
TTATTTTATTTT
Found at i:18505123 original size:22 final size:21
Alignment explanation
Indices: 18505096--18505140 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
18505086 TACGATTCGA
*
18505096 ACTTCCCCAAAGCCGAATCTG
1 ACTTTCCCAAAGCCGAATCTG
*
18505117 ACTTTCCTAAAGCCGAATCTG
1 ACTTTCCCAAAGCCGAATCTG
18505138 ACT
1 ACT
18505141 CTTACTGTCG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.29, C:0.33, G:0.13, T:0.24
Consensus pattern (21 bp):
ACTTTCCCAAAGCCGAATCTG
Found at i:18505798 original size:12 final size:11
Alignment explanation
Indices: 18505776--18505833 Score: 64
Period size: 12 Copynumber: 5.1 Consensus size: 11
18505766 AGGTTTCTTC
*
18505776 TTTTTTATTGT
1 TTTTTTTTTGT
18505787 TGTTTTTTTTGT
1 T-TTTTTTTTGT
18505799 TTTTTTGTTTGT
1 TTTTTT-TTTGT
18505811 TTTTTTTATT-T
1 TTTTTTT-TTGT
*
18505822 TTTTGTTTTGT
1 TTTTTTTTTGT
18505833 T
1 T
18505834 GTTTAAATGA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
10 2 0.05
11 16 0.39
12 23 0.56
ACGTcount: A:0.03, C:0.00, G:0.12, T:0.84
Consensus pattern (11 bp):
TTTTTTTTTGT
Found at i:18505806 original size:17 final size:18
Alignment explanation
Indices: 18505779--18505833 Score: 62
Period size: 17 Copynumber: 3.1 Consensus size: 18
18505769 TTTCTTCTTT
18505779 TTTATTGTTGTTTTTTTTG
1 TTTATT-TTGTTTTTTTTG
18505798 TTT-TTTTGTTTGTTTTT-
1 TTTATTTTGTTT-TTTTTG
*
18505815 TTTATTTT-TTTGTTTTG
1 TTTATTTTGTTTTTTTTG
18505832 TT
1 TT
18505834 GTTTAAATGA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
16 4 0.12
17 14 0.44
18 11 0.34
19 3 0.09
ACGTcount: A:0.04, C:0.00, G:0.13, T:0.84
Consensus pattern (18 bp):
TTTATTTTGTTTTTTTTG
Found at i:18505810 original size:21 final size:21
Alignment explanation
Indices: 18505777--18505829 Score: 81
Period size: 21 Copynumber: 2.5 Consensus size: 21
18505767 GGTTTCTTCT
*
18505777 TTTTTATTG-TTGTTTTTTTTG
1 TTTTT-TTGTTTGTTTTTTTTA
18505798 TTTTTTTGTTTGTTTTTTTTA
1 TTTTTTTGTTTGTTTTTTTTA
18505819 TTTTTTTGTTT
1 TTTTTTTGTTT
18505830 TGTTGTTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 3 0.10
21 27 0.90
ACGTcount: A:0.04, C:0.00, G:0.11, T:0.85
Consensus pattern (21 bp):
TTTTTTTGTTTGTTTTTTTTA
Found at i:18505946 original size:26 final size:26
Alignment explanation
Indices: 18505908--18505966 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 26
18505898 GAGGCTGTGG
18505908 AAATGTACCCGGAGGTTTAAAGAGAA
1 AAATGTACCCGGAGGTTTAAAGAGAA
* * **
18505934 AAATGTTCTCGGAGGTTTTGAGAGAA
1 AAATGTACCCGGAGGTTTAAAGAGAA
18505960 AAATGTA
1 AAATGTA
18505967 GCTCCTTGAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.39, C:0.08, G:0.27, T:0.25
Consensus pattern (26 bp):
AAATGTACCCGGAGGTTTAAAGAGAA
Found at i:18506229 original size:142 final size:142
Alignment explanation
Indices: 18505974--18506298 Score: 501
Period size: 142 Copynumber: 2.3 Consensus size: 142
18505964 GTAGCTCCTT
* * *
18505974 GAAAACTAAGGCAACGTAAC-TTAAAAAATCTTAACACTAATTACCCGGAGGTTTTAGAAGATGC
1 GAAAACTGAGGCAACGTAACTTTAAAAAATCTTGACACTAATTACCCAGAGGTTTTAGAAGATGC
** * * *
18506038 ACCCGGAGAATTTAAGAGAATAATGTGCCCGAAGGTCTTTAGAATGTACCCGGAGGATTTAGGAA
66 ACCCAAAGAATTTAAGAGAACAATGTGCCCGAAGGTCTTCAGAATGTACCCGAAGGATTTAGGAA
18506103 ATATGGCTCATC
131 ATATGGCTCATC
18506115 GAAAACTGAGGCAACGTAACTTTAAAAAATCTTGACACTAATTACCCAGAGGTTTTAGAAGATGC
1 GAAAACTGAGGCAACGTAACTTTAAAAAATCTTGACACTAATTACCCAGAGGTTTTAGAAGATGC
*
18506180 ACCCCAAAG-ATTTAAGAGAACAATGTGCCCGGAGGTCTTCAGAATGTACCCGAAGGATTTAGGA
66 A-CCCAAAGAATTTAAGAGAACAATGTGCCCGAAGGTCTTCAGAATGTACCCGAAGGATTTAGGA
* *
18506244 AATGTGGCTCCTC
130 AATATGGCTCATC
* * *
18506257 GAAAACTGAGACAACGTAATTTTAAAAAATCTTGACATTAAT
1 GAAAACTGAGGCAACGTAACTTTAAAAAATCTTGACACTAAT
18506299 CATCTGAAAT
Statistics
Matches: 168, Mismatches: 14, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
141 19 0.11
142 144 0.86
143 5 0.03
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.24
Consensus pattern (142 bp):
GAAAACTGAGGCAACGTAACTTTAAAAAATCTTGACACTAATTACCCAGAGGTTTTAGAAGATGC
ACCCAAAGAATTTAAGAGAACAATGTGCCCGAAGGTCTTCAGAATGTACCCGAAGGATTTAGGAA
ATATGGCTCATC
Found at i:18507611 original size:82 final size:81
Alignment explanation
Indices: 18507460--18507619 Score: 205
Period size: 82 Copynumber: 2.0 Consensus size: 81
18507450 TAAATCTCCA
* * **
18507460 TCTTCGCTCTAGACTGCCCTTGCAGATTTTCACCCTAGAGCTTTATCTTTTTCACTCACTTTTTC
1 TCTTCGCTCTAGACTGCCCTTGCAGACTTTCACCCTAGAGCTTCATCTTTCACACTCACTTTTTC
18507525 TTTCTTTCTTTTTTTCG
66 TTTCTTT-TTTTTTTCG
* * * * **
18507542 TCTTTGCTCTAGACTGCCCTTTCGGGCTTTCACCCTAGAGCTTCATCTTTCACACTTGCTTTCTT
1 TCTTCGCTCTAGACTGCCCTTGCAGACTTTCACCCTAGAGCTTCATCTTTCACACTCACTTT-TT
18507607 -TTTCTTTTTTTTT
65 CTTTCTTTTTTTTT
18507620 GATTGATTGT
Statistics
Matches: 67, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
81 6 0.09
82 59 0.88
83 2 0.03
ACGTcount: A:0.11, C:0.28, G:0.11, T:0.50
Consensus pattern (81 bp):
TCTTCGCTCTAGACTGCCCTTGCAGACTTTCACCCTAGAGCTTCATCTTTCACACTCACTTTTTC
TTTCTTTTTTTTTTCG
Found at i:18508037 original size:19 final size:19
Alignment explanation
Indices: 18507986--18508040 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 19
18507976 TCTTCCTTTT
* *
18507986 TTTTTTCAATTTTCATTTTCT
1 TTTTTTCAATCTTCA--TTCA
*
18508007 TTTTTTC-TTCTTCATTCA
1 TTTTTTCAATCTTCATTCA
18508025 TTTTTTCAATCTTCAT
1 TTTTTTCAATCTTCAT
18508041 GTTGATGGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 10 0.34
19 7 0.24
20 5 0.17
21 7 0.24
ACGTcount: A:0.15, C:0.18, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTTTTCAATCTTCATTCA
Found at i:18516218 original size:23 final size:23
Alignment explanation
Indices: 18516167--18516267 Score: 70
Period size: 23 Copynumber: 4.5 Consensus size: 23
18516157 AACTTAGAAT
*
18516167 ATAATAAAAAAATAAAATATAAG
1 ATAATAAAAAAATAAAAAATAAG
* *
18516190 AGAATAAAAAAATAAAAAATATG
1 ATAATAAAAAAATAAAAAATAAG
* **
18516213 TTAAT-ATGAAAT--AAAATGAAG
1 ATAATAAAAAAATAAAAAAT-AAG
18516234 ATAATAATTAAATAATAAAAAAT--G
1 ATAATAA--AAA-AATAAAAAATAAG
18516258 ATAA-AAAAAA
1 ATAATAAAAAA
18516268 TAGATAATTG
Statistics
Matches: 60, Mismatches: 11, Indels: 17
0.68 0.12 0.19
Matches are distributed among these distances:
20 6 0.10
21 9 0.15
22 6 0.10
23 25 0.42
24 6 0.10
25 3 0.05
27 5 0.08
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (23 bp):
ATAATAAAAAAATAAAAAATAAG
Found at i:18516269 original size:44 final size:44
Alignment explanation
Indices: 18516172--18516269 Score: 99
Period size: 44 Copynumber: 2.2 Consensus size: 44
18516162 AGAATATAAT
* * *
18516172 AAAAAAATAAAATATAAGAGAATAAAAAAATAAAAAATATGTTA
1 AAAAAAATAAAATAGAAGAGAATAAAAAAATAAAAAAAATGATA
** * **
18516216 ATATGAAATAAAAT-GAAGATAATAATTAAATAATAAAAAATGATA
1 A-AAAAAATAAAATAGAAGAGAATAAAAAAATAA-AAAAAATGATA
18516261 AAAAAAATA
1 AAAAAAATA
18516270 GATAATTGCA
Statistics
Matches: 42, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
44 22 0.52
45 20 0.48
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.22
Consensus pattern (44 bp):
AAAAAAATAAAATAGAAGAGAATAAAAAAATAAAAAAAATGATA
Found at i:18518762 original size:29 final size:29
Alignment explanation
Indices: 18518716--18518790 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
18518706 TAACACAAGT
* *
18518716 TCAACTTAAAGGTAAATTAAAGATAAAGA
1 TCAACTTAAAAGTAAATTAAAGATAAACA
* * * *
18518745 TCAGCTTAAAAGTCAATTGAAGATAAACT
1 TCAACTTAAAAGTAAATTAAAGATAAACA
18518774 TCAACTTAAAAGTAAAT
1 TCAACTTAAAAGTAAAT
18518791 CTGTTCATGT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.51, C:0.11, G:0.12, T:0.27
Consensus pattern (29 bp):
TCAACTTAAAAGTAAATTAAAGATAAACA
Found at i:18519962 original size:17 final size:17
Alignment explanation
Indices: 18519928--18519962 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
18519918 TTCACCGAAA
**
18519928 AAGAAAATAGGAGGAAG
1 AAGAAAATAGGAAAAAG
18519945 AAGAAAATAGGAAAAAG
1 AAGAAAATAGGAAAAAG
18519962 A
1 A
18519963 GTGAAAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.66, C:0.00, G:0.29, T:0.06
Consensus pattern (17 bp):
AAGAAAATAGGAAAAAG
Found at i:18521370 original size:10 final size:10
Alignment explanation
Indices: 18521355--18521395 Score: 59
Period size: 10 Copynumber: 4.3 Consensus size: 10
18521345 AATTATATTT
18521355 TATTTTTATA
1 TATTTTTATA
*
18521365 TATTTTTTTA
1 TATTTTTATA
18521375 -ATTTTTATA
1 TATTTTTATA
18521384 TATTTTTA-A
1 TATTTTTATA
18521393 TAT
1 TAT
18521396 AATTAATTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
9 12 0.43
10 16 0.57
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (10 bp):
TATTTTTATA
Found at i:18521378 original size:19 final size:18
Alignment explanation
Indices: 18521352--18521390 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 18
18521342 ATTAATTATA
18521352 TTTTATTTTTATATATTT
1 TTTTATTTTTATATATTT
18521370 TTTTAATTTTTATATATTT
1 TTTT-ATTTTTATATATTT
18521389 TT
1 TT
18521391 AATATAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (18 bp):
TTTTATTTTTATATATTT
Found at i:18521383 original size:17 final size:18
Alignment explanation
Indices: 18521348--18521393 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 18
18521338 TTTTATTAAT
*
18521348 TATA-TTTTATTTTTATA
1 TATATTTTTAATTTTATA
*
18521365 TATTTTTTTAATTTT-TA
1 TATATTTTTAATTTTATA
18521382 TATATTTTTAAT
1 TATATTTTTAAT
18521394 ATAATTAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 16 0.64
18 9 0.36
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (18 bp):
TATATTTTTAATTTTATA
Found at i:18521390 original size:11 final size:11
Alignment explanation
Indices: 18521357--18521396 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
18521347 TTATATTTTA
18521357 TTTTTATATAT
1 TTTTTATATAT
18521368 TTTTT-TA-A-
1 TTTTTATATAT
18521376 TTTTTATATAT
1 TTTTTATATAT
*
18521387 TTTTAATATA
1 TTTTTATATA
18521397 ATTAATTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
8 5 0.20
9 3 0.12
10 3 0.12
11 14 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (11 bp):
TTTTTATATAT
Found at i:18521698 original size:95 final size:89
Alignment explanation
Indices: 18521529--18521707 Score: 232
Period size: 95 Copynumber: 1.9 Consensus size: 89
18521519 TATTTGGTTT
* *
18521529 GGAGAGAAAAAATATTTGAATTTAATATAGTTATTTAGTTTGGAGAAAAAAAATATTTGATTGAT
1 GGAGAGAAAAAATATTTGAATTTAATAAAGTTATTTAGTCTGGAGAAAAAAAATATTTGATTGAT
** *
18521594 TCATTGAAAAGGAAAGTAGGAGAA
66 TCACGGAAAAAGAAAGTAGGAGAA
* *
18521618 GGAGTGAAAAAATATTATTAGAATTTAGTAAAGTTATTTAGTCTGGAAAGAAAAAAAATTATTTG
1 GGAGAGAAAAAATA-T-TT-GAATTTAATAAAGTTATTTAGTCTGG--AGAAAAAAAA-TATTTG
*
18521683 ATTGATTCGCGGAAAAAGAAAGTAG
60 ATTGATTCACGGAAAAAGAAAGTAG
18521708 CAGGAAAAAG
Statistics
Matches: 76, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
89 13 0.17
90 1 0.01
91 2 0.03
92 23 0.30
94 10 0.13
95 27 0.36
ACGTcount: A:0.46, C:0.02, G:0.21, T:0.31
Consensus pattern (89 bp):
GGAGAGAAAAAATATTTGAATTTAATAAAGTTATTTAGTCTGGAGAAAAAAAATATTTGATTGAT
TCACGGAAAAAGAAAGTAGGAGAA
Found at i:18523549 original size:21 final size:21
Alignment explanation
Indices: 18523524--18523568 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
18523514 ACGTTAATAA
18523524 AAATAATTAAA-AAATAAAATT
1 AAAT-ATTAAATAAATAAAATT
*
18523545 AAATATTAAATTAATAAAATT
1 AAATATTAAATAAATAAAATT
18523566 AAA
1 AAA
18523569 AGATTATACA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (21 bp):
AAATATTAAATAAATAAAATT
Found at i:18524646 original size:27 final size:27
Alignment explanation
Indices: 18524566--18524655 Score: 67
Period size: 27 Copynumber: 3.2 Consensus size: 27
18524556 TTTAAGTTAT
* *
18524566 TTTTTAAATATTAATAATTTA-TAA-A
1 TTTTAAAATATTAATATTTTATTAATA
*
18524591 TTATTGAAAATATTAATAATGTAGGTATTAATA
1 TT-TT-AAAATATTAAT-AT-T--TTATTAATA
*
18524624 TTTTAAAATATTAATATTTTATTTATA
1 TTTTAAAATATTAATATTTTATTAATA
*
18524651 ATTTA
1 TTTTA
18524656 CATACAATTA
Statistics
Matches: 51, Mismatches: 6, Indels: 14
0.72 0.08 0.20
Matches are distributed among these distances:
25 2 0.04
26 2 0.04
27 21 0.41
28 1 0.02
29 2 0.04
30 2 0.04
31 13 0.25
32 5 0.10
33 3 0.06
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.51
Consensus pattern (27 bp):
TTTTAAAATATTAATATTTTATTAATA
Found at i:18526031 original size:2 final size:2
Alignment explanation
Indices: 18526019--18526051 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
18526009 ATTAATGTCG
*
18526019 AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
18526052 GTGGGGACTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:18535714 original size:12 final size:12
Alignment explanation
Indices: 18535675--18535715 Score: 50
Period size: 11 Copynumber: 3.4 Consensus size: 12
18535665 ACACCCATTT
18535675 AAAAA-AATAAA
1 AAAAATAATAAA
18535686 AAAAAT-ATAAA
1 AAAAATAATAAA
18535697 ATAAAATAATAAGA
1 A-AAAATAATAA-A
18535711 AAAAA
1 AAAAA
18535716 GAGGAATGGC
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 11 0.42
12 5 0.19
13 8 0.31
14 2 0.08
ACGTcount: A:0.83, C:0.00, G:0.02, T:0.15
Consensus pattern (12 bp):
AAAAATAATAAA
Found at i:18536297 original size:19 final size:18
Alignment explanation
Indices: 18536253--18536300 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 18
18536243 AGAGGAAGCC
*
18536253 AAGAGAGATAA-GAGAAA
1 AAGAGAGAAAATGAGAAA
* *
18536270 AAGAAAGAAAATGAGGAAG
1 AAGAGAGAAAATGA-GAAA
18536289 AAGAGAGAAAAT
1 AAGAGAGAAAAT
18536301 AGGGGCCTGC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
17 9 0.36
18 2 0.08
19 14 0.56
ACGTcount: A:0.65, C:0.00, G:0.29, T:0.06
Consensus pattern (18 bp):
AAGAGAGAAAATGAGAAA
Found at i:18536641 original size:60 final size:60
Alignment explanation
Indices: 18536574--18536694 Score: 181
Period size: 60 Copynumber: 2.0 Consensus size: 60
18536564 GCATGCTTAA
* * *
18536574 TCCGATTTAATAAATTAAGAGACCAAATATAATACATACTACATTATTA-CAAATTCACAT
1 TCCGATTTAATAAATTAAGAGACAAAATATAATACATACTACA-CAATAGCAAATTCACAT
* *
18536634 TCCGATTTAATAAATTAAGGGACAAAATATAATATATACTACACAATAGCAAATTCACAT
1 TCCGATTTAATAAATTAAGAGACAAAATATAATACATACTACACAATAGCAAATTCACAT
18536694 T
1 T
18536695 AAAGTTAATT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
59 3 0.05
60 52 0.95
ACGTcount: A:0.47, C:0.16, G:0.07, T:0.31
Consensus pattern (60 bp):
TCCGATTTAATAAATTAAGAGACAAAATATAATACATACTACACAATAGCAAATTCACAT
Found at i:18541389 original size:19 final size:18
Alignment explanation
Indices: 18541353--18541392 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
18541343 AGTAAGACAA
*
18541353 AAAAAAAGAAAGGAAAAG
1 AAAAAAAGAAAGAAAAAG
*
18541371 AAAAAAAGAAATAAGAAAG
1 AAAAAAAGAAAGAA-AAAG
18541390 AAA
1 AAA
18541393 GAGGATAGCG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (18 bp):
AAAAAAAGAAAGAAAAAG
Found at i:18546194 original size:31 final size:31
Alignment explanation
Indices: 18546112--18546195 Score: 89
Period size: 31 Copynumber: 2.7 Consensus size: 31
18546102 AATTTGAGTC
* * *
18546112 TTAAGCCCAATT-TACTTGGTATCCAAAATGT
1 TTAAGCCCAGTTATA-TTGGCATCCAAAACGT
* * *
18546143 TTAAGCCTAGTTATACTGGCATCCAAGACGT
1 TTAAGCCCAGTTATATTGGCATCCAAAACGT
*
18546174 TTAAGCCCAGTTATTTTGGCAT
1 TTAAGCCCAGTTATATTGGCAT
18546196 GAGAAAATTT
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
31 41 0.95
32 2 0.05
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.35
Consensus pattern (31 bp):
TTAAGCCCAGTTATATTGGCATCCAAAACGT
Found at i:18546299 original size:21 final size:20
Alignment explanation
Indices: 18546249--18546304 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 20
18546239 AGTTTTTCTT
*
18546249 CTAAAACCTCTGGGTACATC
1 CTAAAACCTCTGGGCACATC
* * *
18546269 TTCAAGACCTCTGGGCACGTTC
1 CT-AAAACCTCTGGGCAC-ATC
18546291 CTAAAACCTCTGGG
1 CTAAAACCTCTGGG
18546305 TAATTAGTTT
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
20 1 0.04
21 24 0.86
22 3 0.11
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.25
Consensus pattern (20 bp):
CTAAAACCTCTGGGCACATC
Found at i:18546405 original size:21 final size:20
Alignment explanation
Indices: 18546370--18546451 Score: 101
Period size: 21 Copynumber: 4.0 Consensus size: 20
18546360 ACTTTTTCTT
*
18546370 TCAAAACCTCTGGGTACATC
1 TCAAAACCTCCGGGTACATC
*
18546390 TACAAAATCTCCGGGTACATCC
1 T-CAAAACCTCCGGGTACAT-C
*
18546412 TCAAGACCTCCGGGTACATC
1 TCAAAACCTCCGGGTACATC
*
18546432 TGCAAAACCTCCGAGTACAT
1 T-CAAAACCTCCGGGTACAT
18546452 TCCTAAAATC
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
20 3 0.06
21 48 0.91
22 2 0.04
ACGTcount: A:0.30, C:0.32, G:0.16, T:0.22
Consensus pattern (20 bp):
TCAAAACCTCCGGGTACATC
Found at i:18546469 original size:42 final size:42
Alignment explanation
Indices: 18546370--18546469 Score: 121
Period size: 42 Copynumber: 2.4 Consensus size: 42
18546360 ACTTTTTCTT
* *
18546370 TCAAAACCTCTGGGTACATCTACAAAATCTCCGGGTACATCC
1 TCAAAACCTCTGGGTACATCTACAAAACCTCCGAGTACATCC
* * *
18546412 TCAAGACCTCCGGGTACATCTGCAAAACCTCCGAGTACATTCC
1 TCAAAACCTCTGGGTACATCTACAAAACCTCCGAGTACA-TCC
* *
18546455 T-AAAATCTTTGGGTA
1 TCAAAACCTCTGGGTA
18546470 ATTAGTTTTA
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
42 44 0.92
43 4 0.08
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (42 bp):
TCAAAACCTCTGGGTACATCTACAAAACCTCCGAGTACATCC
Found at i:18546477 original size:163 final size:164
Alignment explanation
Indices: 18546254--18546550 Score: 479
Period size: 164 Copynumber: 1.8 Consensus size: 164
18546244 TTCTTCTAAA
* * * * * *
18546254 ACCTCTGGGTACATCTTCAAGACCTCTGGGCACGTTCCTAAAACCTCTGGGTAATTAGTTTTAA-
1 ACCTCCGGGTACATCTGCAAAACCTCCGAGCACATTCCTAAAACCTCTGGGTAATTAGTTTTAAG
* * *
18546318 ATTTTTTCAAAATTACGTGGCCTCATTTTGAGATGAGGAATAACTTTTTCTTTCAAAACCTCTGG
66 ATTTTTTCAAAATTACGTGGCCTCATTTTGAGATGAGGAACAACTTTTTCTTCCAAAACCTCCGG
18546383 GTACATCTACAAAATCTCCGGGTACATCCTCAAG
131 GTACATCTACAAAATCTCCGGGTACATCCTCAAG
* * *
18546417 ACCTCCGGGTACATCTGCAAAACCTCCGAGTACATTCCTAAAATCTTTGGGTAATTAGTTTTAAG
1 ACCTCCGGGTACATCTGCAAAACCTCCGAGCACATTCCTAAAACCTCTGGGTAATTAGTTTTAAG
18546482 ATTTTTTCAAAATTACGTGGCCTCATTTTGAGATGAGGAACAACTTTTTCTTCCAAAACCTCCGG
66 ATTTTTTCAAAATTACGTGGCCTCATTTTGAGATGAGGAACAACTTTTTCTTCCAAAACCTCCGG
18546547 GTAC
131 GTAC
18546551 GTTCCTAAAA
Statistics
Matches: 121, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
163 55 0.45
164 66 0.55
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.33
Consensus pattern (164 bp):
ACCTCCGGGTACATCTGCAAAACCTCCGAGCACATTCCTAAAACCTCTGGGTAATTAGTTTTAAG
ATTTTTTCAAAATTACGTGGCCTCATTTTGAGATGAGGAACAACTTTTTCTTCCAAAACCTCCGG
GTACATCTACAAAATCTCCGGGTACATCCTCAAG
Found at i:18546560 original size:21 final size:20
Alignment explanation
Indices: 18546532--18546570 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
18546522 CAACTTTTTC
18546532 TTCCAAAACCTCCGGGTACG
1 TTCCAAAACCTCCGGGTACG
18546552 TTCCTAAAACCTCCGGGTA
1 TTCC-AAAACCTCCGGGTA
18546571 ATTAGTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.26, C:0.33, G:0.18, T:0.23
Consensus pattern (20 bp):
TTCCAAAACCTCCGGGTACG
Found at i:18546609 original size:101 final size:101
Alignment explanation
Indices: 18546434--18546671 Score: 343
Period size: 101 Copynumber: 2.4 Consensus size: 101
18546424 GGTACATCTG
* * ** *
18546434 CAAAACCTCCGAGTACATTCCTAAAATCTTTGGGTAATTAGTTTTAAGATTTTTTCAAAATTACG
1 CAAAACCTCCGGGTACATTCCTAAAACCTCCGGGTAATTAGTTTTAAGATTTCTTCAAAATTACG
***
18546499 TGGCCTCATTTTGAGATGAGGAACAACTTTTTCTTC
66 CACCCTCATTTTGAGATGAGGAACAACTTTTTCTTC
*
18546535 CAAAACCTCCGGGTACGTTCCTAAAACCTCCGGGTAATTAGTTTTAAGATTTCTTCAAAATTACG
1 CAAAACCTCCGGGTACATTCCTAAAACCTCCGGGTAATTAGTTTTAAGATTTCTTCAAAATTACG
*
18546600 CACCCTCATTTTGAGATGAGGAGCAACTTTTTCTTC
66 CACCCTCATTTTGAGATGAGGAACAACTTTTTCTTC
* * *
18546636 TAAAACCTCCGGGTACA-TCTTCAAAACCTCCAGGTA
1 CAAAACCTCCGGGTACATTCCT-AAAACCTCCGGGTA
18546672 CATCTTCAAG
Statistics
Matches: 122, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
100 3 0.02
101 119 0.98
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.33
Consensus pattern (101 bp):
CAAAACCTCCGGGTACATTCCTAAAACCTCCGGGTAATTAGTTTTAAGATTTCTTCAAAATTACG
CACCCTCATTTTGAGATGAGGAACAACTTTTTCTTC
Found at i:18546662 original size:21 final size:22
Alignment explanation
Indices: 18546631--18546713 Score: 118
Period size: 21 Copynumber: 3.9 Consensus size: 22
18546621 AGCAACTTTT
18546631 TCTTCTAAAACCTCCGGGTACA
1 TCTTCTAAAACCTCCGGGTACA
*
18546653 TCTTC-AAAACCTCCAGGTACA
1 TCTTCTAAAACCTCCGGGTACA
* *
18546674 TCTTC-AAGACCTCCGGGCACA
1 TCTTCTAAAACCTCCGGGTACA
18546695 T-TTCTAAAACCTCCGGGTA
1 TCTTCTAAAACCTCCGGGTA
18546714 ATTAGTTTTA
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
20 3 0.06
21 46 0.85
22 5 0.09
ACGTcount: A:0.28, C:0.33, G:0.14, T:0.25
Consensus pattern (22 bp):
TCTTCTAAAACCTCCGGGTACA
Found at i:18546750 original size:143 final size:143
Alignment explanation
Indices: 18546530--18546958 Score: 603
Period size: 143 Copynumber: 3.0 Consensus size: 143
18546520 AACAACTTTT
* * * *
18546530 TCTTCCAAAACCTCCGGGTACGTTCCTAAAACCTCCGGGTAATTAGTTTTAAGATTTCTTCAAAA
1 TCTT-CAAGACCTCCGGGCACATTTCTAAAACCTCCGGGTAATTAGTTTTAAGATTTCTTCAAAA
* * * * *
18546595 TTACGCACCCTCATTTTGAGATGAGGAGCAACTTTTTCTTCTAAAACCTCCGGGTACATCTTCAA
65 TTACGTAGCCTCATTTTGAGATGAGGAACAACTTTTTCTTCCAAAACCTCCGGGTACATCTGCAA
18546660 AACCTCCAGGTACA
130 AACCTCCAGGTACA
*
18546674 TCTTCAAGACCTCCGGGCACATTTCTAAAACCTCCGGGTAATTAGTTTTAAGATTTCTTCGAAAT
1 TCTTCAAGACCTCCGGGCACATTTCTAAAACCTCCGGGTAATTAGTTTTAAGATTTCTTCAAAAT
* * * * *
18546739 TGCATAGCCTCATTTTGAGATGAGGAATATCCTTTTCTTCCAAAACCGT-CGGGTACATCTGCAA
66 TACGTAGCCTCATTTTGAGATGAGGAACAACTTTTTCTTCCAAAACC-TCCGGGTACATCTGCAA
* *
18546803 AACCTTCGGGTACA
130 AACCTCCAGGTACA
* * *
18546817 TCTTCAAGACCTCCGGACACA-TTCTTAAAATCTCCGGGTAATTAGTTTTAAGATTTTTTCAAAA
1 TCTTCAAGACCTCCGGGCACATTTC-TAAAACCTCCGGGTAATTAGTTTTAAGATTTCTTCAAAA
*
18546881 TTACGT-GACCTTATTTTGAGATGAGGAACAACTTTTTCTTCCAAAACCTCCGGGTACATCTGCA
65 TTACGTAG-CCTCATTTTGAGATGAGGAACAACTTTTTCTTCCAAAACCTCCGGGTACATCTGCA
*
18546945 AAACCTCGAGGTAC
129 AAACCTCCAGGTAC
18546959 GTTCCTAAAA
Statistics
Matches: 251, Mismatches: 30, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
142 5 0.02
143 241 0.96
144 5 0.02
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.31
Consensus pattern (143 bp):
TCTTCAAGACCTCCGGGCACATTTCTAAAACCTCCGGGTAATTAGTTTTAAGATTTCTTCAAAAT
TACGTAGCCTCATTTTGAGATGAGGAACAACTTTTTCTTCCAAAACCTCCGGGTACATCTGCAAA
ACCTCCAGGTACA
Found at i:18546828 original size:21 final size:21
Alignment explanation
Indices: 18546779--18546828 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
18546769 CCTTTTCTTC
*
18546779 CAAAACCGTCGGGTACATCTG
1 CAAAACCTTCGGGTACATCTG
*
18546800 CAAAACCTTCGGGTACATCTT
1 CAAAACCTTCGGGTACATCTG
*
18546821 CAAGACCT
1 CAAAACCT
18546829 CCGGACACAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.22
Consensus pattern (21 bp):
CAAAACCTTCGGGTACATCTG
Found at i:18547019 original size:122 final size:122
Alignment explanation
Indices: 18546800--18547438 Score: 842
Period size: 122 Copynumber: 5.2 Consensus size: 122
18546790 GGTACATCTG
* * * ** * * * *
18546800 CAAAACCTTCGGGTACATCTTCAAGACCTCCG-GACACATTCTTAAAATCTCCGGGTAATTAGTT
1 CAAAACCTCCGGGTACATCTGCAAAACCTCCGAGGTACGTTCCTAAAACCTCC-AGTAATTAGTT
* *
18546864 TTAAGATTTTTTCAAAATTACGTGACCTTATTTTGAGATGAGGAACAACTTTTTCTTC
65 TTAAGATTTCTTCAAAATTACGTGACCTCATTTTGAGATGAGGAACAACTTTTTCTTC
18546922 CAAAACCTCCGGGTACATCTGCAAAACCT-CGAGGTACGTTCCTAAAACCTCCGAGTAATTAGTT
1 CAAAACCTCCGGGTACATCTGCAAAACCTCCGAGGTACGTTCCTAAAACCTCC-AGTAATTAGTT
* *
18546986 TTAAGATTTCTTCAAAATTACGTGACCTCATTTTGAGATGAGGAATAACTTTTTCTTT
65 TTAAGATTTCTTCAAAATTACGTGACCTCATTTTGAGATGAGGAACAACTTTTTCTTC
* * * *
18547044 CAAAACCTCCGGGTACATCTGTAAAACCT-CAAGGTACGTTCCTAAAACCTTCAAGTAATTATTT
1 CAAAACCTCCGGGTACATCTGCAAAACCTCCGAGGTACGTTCCTAAAACC-TCCAGTAATTAGTT
* *
18547108 TTAAGATTTCTTCAAAATTACGTGGCCTTC-TTTTGAGATGAGGAATAACTTTTTCTTC
65 TTAAGATTTCTTCAAAATTACGTGACC-TCATTTTGAGATGAGGAACAACTTTTTCTTC
*
18547166 CAAAACCTCCGGGTACATCTGCAAAACCTCCGA-GTACGTTCCTAAAACCTTCAGATAATTAGTT
1 CAAAACCTCCGGGTACATCTGCAAAACCTCCGAGGTACGTTCCTAAAACCTCCAG-TAATTAGTT
* * *
18547230 TTAAGATTTCTTCAAAATTACGCGACTTCATTTTAAGATGAGGAACAACTTTTTCTTC
65 TTAAGATTTCTTCAAAATTACGTGACCTCATTTTGAGATGAGGAACAACTTTTTCTTC
* * * * * * *
18547288 TAAAACCTCAGGGTACGT-TCCTAAAACTTCCG-GGCACGTTCCTAAAATCTCCAGCTAATTAGT
1 CAAAACCTCCGGGTACATCTGC-AAAACCTCCGAGGTACGTTCCTAAAACCTCCAG-TAATTAGT
* *
18547351 TTTAAGATTTCTTCAAAATTACATGGCCTCATTTTGAGATGAGGAACAACTTTTTCTTC
64 TTTAAGATTTCTTCAAAATTACGTGACCTCATTTTGAGATGAGGAACAACTTTTTCTTC
* * * *
18547410 TAAAACCTCCGAGTACATTTTCAAAACCT
1 CAAAACCTCCGGGTACATCTGCAAAACCT
18547439 TCGGGTAATT
Statistics
Matches: 460, Mismatches: 48, Indels: 18
0.87 0.09 0.03
Matches are distributed among these distances:
121 9 0.02
122 443 0.96
123 8 0.02
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.33
Consensus pattern (122 bp):
CAAAACCTCCGGGTACATCTGCAAAACCTCCGAGGTACGTTCCTAAAACCTCCAGTAATTAGTTT
TAAGATTTCTTCAAAATTACGTGACCTCATTTTGAGATGAGGAACAACTTTTTCTTC
Found at i:18547212 original size:21 final size:20
Alignment explanation
Indices: 18547163--18547215 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
18547153 TAACTTTTTC
*
18547163 TTCCAAAACCTCCGGGTACA
1 TTCCAAAACCTCCGAGTACA
* *
18547183 TCTGCAAAACCTCCGAGTACG
1 T-TCCAAAACCTCCGAGTACA
18547204 TTCCTAAAACCT
1 TTCC-AAAACCT
18547216 TCAGATAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 3 0.11
21 24 0.89
ACGTcount: A:0.30, C:0.34, G:0.13, T:0.23
Consensus pattern (20 bp):
TTCCAAAACCTCCGAGTACA
Found at i:18547313 original size:21 final size:21
Alignment explanation
Indices: 18547287--18547334 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
18547277 ACTTTTTCTT
*
18547287 CTAAAACCTCAGGGTACGTTC
1 CTAAAACCTCAGGGCACGTTC
* *
18547308 CTAAAACTTCCGGGCACGTTC
1 CTAAAACCTCAGGGCACGTTC
18547329 CTAAAA
1 CTAAAA
18547335 TCTCCAGCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (21 bp):
CTAAAACCTCAGGGCACGTTC
Found at i:18547871 original size:17 final size:18
Alignment explanation
Indices: 18547849--18547885 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
18547839 AACCACAATC
18547849 AAAACCA-AACAAAAAAA
1 AAAACCACAACAAAAAAA
18547866 AAAACCACAACAAAAAAA
1 AAAACCACAACAAAAAAA
18547884 AA
1 AA
18547886 GCAAAAAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.81, C:0.19, G:0.00, T:0.00
Consensus pattern (18 bp):
AAAACCACAACAAAAAAA
Found at i:18547881 original size:29 final size:29
Alignment explanation
Indices: 18547839--18547894 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 29
18547829 CAACTATCCT
*
18547839 AACCACAATCAAAACCAAA-CAAAAAAAAA
1 AACCACAATCAAAA-AAAAGCAAAAAAAAA
18547868 AACCACAA-CAAAAAAAAAGCAAAAAAA
1 AACCACAATC-AAAAAAAAGCAAAAAAA
18547895 GCCAAAAGGG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 4 0.17
29 20 0.83
ACGTcount: A:0.75, C:0.21, G:0.02, T:0.02
Consensus pattern (29 bp):
AACCACAATCAAAAAAAAGCAAAAAAAAA
Found at i:18548063 original size:30 final size:27
Alignment explanation
Indices: 18547995--18548066 Score: 78
Period size: 26 Copynumber: 2.6 Consensus size: 27
18547985 AAACTGAGAG
*
18547995 AGAGAGAGAA-AGAAAAAGGGTGGAAGA
1 AGAGAGAGAAGAG-AAAAGGGCGGAAGA
18548022 AGA-AGAG-AGAGAAAAGGGCGAGAAGTCA
1 AGAGAGAGAAGAGAAAAGGGCG-GAAG--A
18548050 AGAGAGAGAAGAGAAAA
1 AGAGAGAGAAGAGAAAA
18548067 AGAAAGAAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
25 9 0.24
26 10 0.26
27 3 0.08
28 4 0.11
29 4 0.11
30 8 0.21
ACGTcount: A:0.56, C:0.03, G:0.39, T:0.03
Consensus pattern (27 bp):
AGAGAGAGAAGAGAAAAGGGCGGAAGA
Found at i:18548136 original size:38 final size:37
Alignment explanation
Indices: 18548071--18548146 Score: 93
Period size: 38 Copynumber: 2.0 Consensus size: 37
18548061 AGAAAAAGAA
18548071 AGAAAAAAAATGAAAAAGAGAAAGAGGAAGCCAAGAGAG
1 AGAAAAAAAATGAAAAAGAGAAAGAGGAAG--AAGAGAG
* *
18548110 AGAAGAAAAA-GAGAAAGA-AAATGAGGAAGAAGAGAG
1 AGAAAAAAAATGAAAAAGAGAAA-GAGGAAGAAGAGAG
18548146 A
1 A
18548147 AAAGGGGGGC
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 8 0.24
37 3 0.09
38 14 0.41
39 9 0.26
ACGTcount: A:0.64, C:0.03, G:0.30, T:0.03
Consensus pattern (37 bp):
AGAAAAAAAATGAAAAAGAGAAAGAGGAAGAAGAGAG
Found at i:18548270 original size:102 final size:107
Alignment explanation
Indices: 18548060--18548292 Score: 264
Period size: 102 Copynumber: 2.2 Consensus size: 107
18548050 AGAGAGAGAA
18548060 GAGAAAAAGAAAGAAAAAAAATGAAAAAGAGAAAGAGGAAGCCAAGAGAGAGAAGAAAAAGAGAA
1 GAGAAAAAGAAAGAAAAAAAATG-AAAAGAGAAAGAGGAAGCCAAGAGAGAGAAGAAAAAGAGAA
* * * ** * * *
18548125 AGAAAATGAGGAAGAAGAGAGAAAAGGGGGGCTTGCGGTTAGG
65 AGAAAAAGAAGAAAAAGAGAGAAAAGGGACGCTGGCAGCTAGG
* *
18548168 GAGAAAAAGAAAGAAAAAGAA-G-GAAG-GAAA-A-GAAGCCAAGAGAGAGAAGATAAAA-AGAA
1 GAGAAAAAGAAAGAAAAAAAATGAAAAGAGAAAGAGGAAGCCAAGAGAGAGAAGA-AAAAGAGAA
*
18548227 AGAAAAAAGAAGAAAAAGAGAGAGAA-GGACGCTGGCAGCTAGG
65 AG-AAAAAGAAGAAAAAGAGAGAAAAGGGACGCTGGCAGCTAGG
*
18548270 GAGAAGAAGAAAAGAAAGAAAAA
1 GAGAAAAAG-AAAGAAA-AAAAA
18548293 AAAATCAGCT
Statistics
Matches: 108, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
102 45 0.42
103 31 0.29
104 8 0.07
105 3 0.03
107 1 0.01
108 20 0.19
ACGTcount: A:0.60, C:0.04, G:0.32, T:0.04
Consensus pattern (107 bp):
GAGAAAAAGAAAGAAAAAAAATGAAAAGAGAAAGAGGAAGCCAAGAGAGAGAAGAAAAAGAGAAA
GAAAAAGAAGAAAAAGAGAGAAAAGGGACGCTGGCAGCTAGG
Found at i:18553006 original size:2 final size:2
Alignment explanation
Indices: 18552999--18553035 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
18552989 GTTTAATTAA
* *
18552999 AT AT AT AT AT AT AT AT AT AT GT AT AT AT AC AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
18553036 GCGATCGTGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (2 bp):
AT
Found at i:18553389 original size:20 final size:20
Alignment explanation
Indices: 18553364--18553430 Score: 65
Period size: 20 Copynumber: 3.5 Consensus size: 20
18553354 AAGTTTCATG
18553364 AATATTAATATTTAATTAAA
1 AATATTAATATTTAATTAAA
*
18553384 AATATTTAA-A---AAAT-AA
1 AATA-TTAATATTTAATTAAA
18553400 AATATTAATATTTAACTTAAA
1 AATATTAATATTTAA-TTAAA
18553421 AA-ATTAATAT
1 AATATTAATAT
18553431 AAAATATTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 14
0.70 0.04 0.26
Matches are distributed among these distances:
15 4 0.11
16 7 0.18
17 3 0.08
19 2 0.05
20 14 0.37
21 8 0.21
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.40
Consensus pattern (20 bp):
AATATTAATATTTAATTAAA
Found at i:18553438 original size:33 final size:35
Alignment explanation
Indices: 18553364--18553447 Score: 120
Period size: 33 Copynumber: 2.4 Consensus size: 35
18553354 AAGTTTCATG
18553364 AATATTAATATTTAATTAAAAATATTTAAAAAATAA
1 AATATTAATATTTAATTAAAAATATTT-AAAAATAA
*
18553400 AATATTAATATTTAACTTAAAAA-A-TT-AATATAA
1 AATATTAATATTTAA-TTAAAAATATTTAAAAATAA
18553433 AATATTAATATTTAA
1 AATATTAATATTTAA
18553448 ATTATACAAT
Statistics
Matches: 46, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
33 21 0.46
35 2 0.04
36 16 0.35
37 7 0.15
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.40
Consensus pattern (35 bp):
AATATTAATATTTAATTAAAAATATTTAAAAATAA
Found at i:18559276 original size:18 final size:18
Alignment explanation
Indices: 18559253--18559289 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
18559243 CTAATTGTTG
*
18559253 ACTAATTGTTATTAATCA
1 ACTAATTGTCATTAATCA
18559271 ACTAATTGTCATTAATCA
1 ACTAATTGTCATTAATCA
18559289 A
1 A
18559290 AATACCACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.41, C:0.14, G:0.05, T:0.41
Consensus pattern (18 bp):
ACTAATTGTCATTAATCA
Found at i:18562466 original size:15 final size:14
Alignment explanation
Indices: 18562438--18562488 Score: 52
Period size: 15 Copynumber: 3.6 Consensus size: 14
18562428 TAATAAAATT
*
18562438 AAAA-AAAATCATA
1 AAAATAAAATAATA
18562451 AACAA-AAAATGAATA
1 AA-AATAAAAT-AATA
18562466 AAAATAAAATAATA
1 AAAATAAAATAATA
18562480 AATAATAAA
1 AA-AATAAA
18562489 GAAAAATATA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
13 2 0.06
14 15 0.45
15 16 0.48
ACGTcount: A:0.76, C:0.04, G:0.02, T:0.18
Consensus pattern (14 bp):
AAAATAAAATAATA
Found at i:18562479 original size:14 final size:14
Alignment explanation
Indices: 18562440--18562481 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
18562430 ATAAAATTAA
*
18562440 AAAAAATCATAAAC
1 AAAAAATAATAAAC
18562454 AAAAAATGAATAAA-
1 AAAAAAT-AATAAAC
18562468 AATAAAATAATAAA
1 AA-AAAATAATAAA
18562482 TAATAAAGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 15 0.60
15 10 0.40
ACGTcount: A:0.76, C:0.05, G:0.02, T:0.17
Consensus pattern (14 bp):
AAAAAATAATAAAC
Found at i:18563106 original size:40 final size:40
Alignment explanation
Indices: 18563048--18563138 Score: 119
Period size: 40 Copynumber: 2.3 Consensus size: 40
18563038 AGGGAGCAAA
* * *
18563048 GCTCGATCGGCGTTAGTAAAAAAAAGAAAGAGAGATAAGG
1 GCTCGATCGGCATCAGTAAAAAAAAGAAAGAAAGATAAGG
** *
18563088 GCTCGATCGGCATCAGTAAAAAAGGGAGAGAAAGATAAGG
1 GCTCGATCGGCATCAGTAAAAAAAAGAAAGAAAGATAAGG
*
18563128 GCCCGATCGGC
1 GCTCGATCGGC
18563139 GTCGACAGTA
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.40, C:0.15, G:0.32, T:0.13
Consensus pattern (40 bp):
GCTCGATCGGCATCAGTAAAAAAAAGAAAGAAAGATAAGG
Found at i:18564484 original size:17 final size:18
Alignment explanation
Indices: 18564458--18564495 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
18564448 AAAATTACTC
*
18564458 AATAAAAATA-ATAAATA
1 AATAAAAATAGATAAAAA
*
18564475 AATAACAATAGATAAAAA
1 AATAAAAATAGATAAAAA
18564493 AAT
1 AAT
18564496 GATAAAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.21
Consensus pattern (18 bp):
AATAAAAATAGATAAAAA
Found at i:18564592 original size:19 final size:20
Alignment explanation
Indices: 18564568--18564610 Score: 70
Period size: 19 Copynumber: 2.2 Consensus size: 20
18564558 ACATGACATT
*
18564568 AAATAAATAGAAA-AATAAA
1 AAATAAATAAAAATAATAAA
18564587 AAATAAATAAAAATAATAAA
1 AAATAAATAAAAATAATAAA
18564607 AAAT
1 AAAT
18564611 CTAAAACAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (20 bp):
AAATAAATAAAAATAATAAA
Found at i:18564600 original size:17 final size:19
Alignment explanation
Indices: 18564568--18564607 Score: 57
Period size: 17 Copynumber: 2.2 Consensus size: 19
18564558 ACATGACATT
18564568 AAATAAATAGAAAAATAA-A
1 AAATAAATA-AAAAATAATA
18564587 AAATAAAT-AAAAATAATA
1 AAATAAATAAAAAATAATA
18564605 AAA
1 AAA
18564608 AATCTAAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 8 0.40
18 4 0.20
19 8 0.40
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (19 bp):
AAATAAATAAAAAATAATA
Found at i:18564796 original size:17 final size:16
Alignment explanation
Indices: 18564776--18564828 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 16
18564766 TTGCTTACGA
18564776 AAAAATATAATAATAAT
1 AAAAATATAA-AATAAT
*
18564793 AAAAATATAAAAATATT
1 AAAAATAT-AAAATAAT
18564810 AATAAA-ATAAAATAA-
1 AA-AAATATAAAATAAT
18564825 AAAA
1 AAAA
18564829 GAATCATCAA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
14 2 0.06
15 2 0.06
16 6 0.19
17 17 0.53
18 5 0.16
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (16 bp):
AAAAATATAAAATAAT
Found at i:18564818 original size:25 final size:23
Alignment explanation
Indices: 18564775--18564828 Score: 74
Period size: 25 Copynumber: 2.3 Consensus size: 23
18564765 ATTGCTTACG
18564775 AAAAAATATAATAATAATAAAAAT
1 AAAAAATATAATAATAAT-AAAAT
18564799 ATAAAAATATTAATAA-AATAAAAT
1 A-AAAAATA-TAATAATAATAAAAT
18564823 AAAAAA
1 AAAAAA
18564829 GAATCATCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
23 5 0.18
24 7 0.25
25 10 0.36
26 6 0.21
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (23 bp):
AAAAAATATAATAATAATAAAAT
Found at i:18564984 original size:15 final size:15
Alignment explanation
Indices: 18564962--18565012 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
18564952 ATAATAAGGA
18564962 ATAA-AATAGAAAAT
1 ATAATAATAGAAAAT
* *
18564976 ATGATAATAAAAAAT
1 ATAATAATAGAAAAT
*
18564991 ATAATAAAATGAAAAT
1 ATAATAATA-GAAAAT
18565007 AATAAT
1 -ATAAT
18565013 TAAATAATAA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
14 3 0.10
15 16 0.55
16 5 0.17
17 5 0.17
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.25
Consensus pattern (15 bp):
ATAATAATAGAAAAT
Found at i:18565011 original size:17 final size:16
Alignment explanation
Indices: 18564961--18565017 Score: 55
Period size: 17 Copynumber: 3.5 Consensus size: 16
18564951 AATAATAAGG
18564961 AATAAAATAGAAAATAT
1 AATAAAAT-GAAAATAT
*
18564978 GATAATAA--AAAATAT
1 AATAA-AATGAAAATAT
18564993 AATAAAATGAAAATAAT
1 AATAAAATGAAAAT-AT
*
18565010 AATTAAAT
1 AATAAAAT
18565018 AATAAAAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
14 2 0.06
15 11 0.33
16 5 0.15
17 13 0.39
18 2 0.06
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.26
Consensus pattern (16 bp):
AATAAAATGAAAATAT
Found at i:18573606 original size:55 final size:55
Alignment explanation
Indices: 18573519--18573624 Score: 185
Period size: 55 Copynumber: 1.9 Consensus size: 55
18573509 TTACTTGTTT
* * *
18573519 GATAATCTGAACGAATACTAATAATATTGAGTAAGCATTTGACATATTAGTACAA
1 GATAACCTAAACGAATACTAATAATATGGAGTAAGCATTTGACATATTAGTACAA
18573574 GATAACCTAAACGAATACTAATAATATGGAGTAAGCATTTGACATATTAGT
1 GATAACCTAAACGAATACTAATAATATGGAGTAAGCATTTGACATATTAGT
18573625 GCAACAAAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 48 1.00
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.30
Consensus pattern (55 bp):
GATAACCTAAACGAATACTAATAATATGGAGTAAGCATTTGACATATTAGTACAA
Found at i:18587173 original size:29 final size:30
Alignment explanation
Indices: 18587141--18587197 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
18587131 ATCCTTACTC
* *
18587141 TTTTATTTT-ATTCAATTAAATTTTTATAT
1 TTTTATTTTGAGTCAAATAAATTTTTATAT
18587170 TTTTATTTTGAGTCAAATAAATTTTTAT
1 TTTTATTTTGAGTCAAATAAATTTTTAT
18587198 GATTAATAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 9 0.36
30 16 0.64
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.61
Consensus pattern (30 bp):
TTTTATTTTGAGTCAAATAAATTTTTATAT
Found at i:18588202 original size:31 final size:31
Alignment explanation
Indices: 18588126--18588216 Score: 92
Period size: 31 Copynumber: 2.9 Consensus size: 31
18588116 AAGGAAAGAA
* *
18588126 TGGCTGGTTGGGGGAAGAAAGGAAGAATGAG
1 TGGCTAGTTGGGGGAAGAAAGAAAGAATGAG
*** * *
18588157 CAACTCGCTGGGGGAAGAAAGAAAGAATGAG
1 TGGCTAGTTGGGGGAAGAAAGAAAGAATGAG
*
18588188 TGGCTAGTTAGGGGAAGAAAAGAAGAGAA
1 TGGCTAGTTGGGGGAAG-AAAGAA-AGAA
18588217 GAAAGAAAGA
Statistics
Matches: 46, Mismatches: 12, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
31 36 0.78
32 6 0.13
33 4 0.09
ACGTcount: A:0.40, C:0.07, G:0.41, T:0.13
Consensus pattern (31 bp):
TGGCTAGTTGGGGGAAGAAAGAAAGAATGAG
Found at i:18588452 original size:15 final size:15
Alignment explanation
Indices: 18588434--18588471 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
18588424 TATATATATA
18588434 TTATAATTAATAA-TT
1 TTATAATT-ATAATTT
18588449 TTATAAGTTATAATTT
1 TTATAA-TTATAATTT
18588465 TTATAAT
1 TTATAAT
18588472 GTTAACACGA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 11 0.52
16 10 0.48
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (15 bp):
TTATAATTATAATTT
Found at i:18589440 original size:339 final size:330
Alignment explanation
Indices: 18588789--18589746 Score: 994
Period size: 339 Copynumber: 2.8 Consensus size: 330
18588779 AAGATATATA
* * *
18588789 TATATATTATAATTAATAGTTTTATAAATTATAATTTTTGCAATGTTAATACAAAATAGAAAGTA
1 TATATATTATAATTAATAATTTTATAAATTATAATTTTTGCAATGTTAACACAAAATAAAAAGTA
* * *
18588854 AATTTGTTTATATTTAAAGTGTGTATATATATACACACACTAAAAGTATTTTAGTATATATATAA
66 AATATGTTTATATTTAAAGTGTATATATATATACAAACACTAAAAGTATTTTAGTATATATATAA
* *
18588919 TGGAAAGTATATTCTTTATAAATGAATCCAATATATATAAAGTAAATATATTAAAAGACATTACA
131 TAGAAAGTATATTCTTTATAAATGAACCCAATATATATAAAGTAAATATATTAAAAGACATTACA
* *
18588984 AGGTAATTAATAATAATAGTTTTATGAATTAATTTAATTAATTATATGAATTTGTCTTTAATTAC
196 AGGTAATTAATAATAATAGTTTCATGAATTAATTTAATTAATTATATGAATTTGTCCTTAATTAC
* ** * *
18589049 ATGAAATTAAAAAAATAGCTAAGTTTTAAAGCTATTCTAATCTCATAACTTCTTTTTAGATAATT
261 ATGAAATTAAAAAAATAACTAAGTTACAAAACTATTCTAATCTCACAACTTCTTTTTAGATAATT
18589114 AAATT
326 AAATT
* *
18589119 TATATATTATAATTAATAATTTTATAAGTTATAA-TTTTGTAATGTTAACACAAAATAAAAAGTA
1 TATATATTATAATTAATAATTTTATAAATTATAATTTTTGCAATGTTAACACAAAATAAAAAGTA
18589183 AATATGTTTATATTTAAAGTGTATATATATATATATATATATACAAACACTAAAAGTATTTTAGT
66 AATATGTTTATATTTAAAGTG----------TATATATATATACAAACACTAAAAGTATTTTAGT
* *
18589248 ATATATATAATAGTAAGTATGTTCTTTATAAATGAACCCAATATATATAAAGTAAATATATT-AA
121 ATATATATAATAGAAAGTATATTCTTTATAAATGAACCCAATATATATAAAGTAAATATATTAAA
* * **
18589312 AGACATTACAAGGTAGTTAATAATTATAGTTTCATGAATTAATTTAATTAATTATATGGGTTTGT
186 AGACATTACAAGGTAATTAATAATAATAGTTTCATGAATTAATTTAATTAATTATATGAATTTGT
* * *
18589377 CCTTAATTACATGAAATTAAAAGAAATAACTAGGTTACAAAACTATTTTATTCTCACAACTTCTC
251 CCTTAATTACATGAAATTAAAA-AAATAACTAAGTTACAAAACTATTCTAATCTCACAACTTCT-
*
18589442 TTAAGGTTTG-TATATTATAAGTTTACAT
314 TT----TTAGATA-ATTA-AA---T---T
* * * * *
18589470 AAATAAAGGTGCATATACTATAATTAATAATTTTACAAGTTATAATTTTGGTAATGTTAACATAA
1 ---T--A--T--ATAT--TATAATTAATAATTTTATAAATTATAATTTTTGCAATGTTAACACAA
* *
18589535 AATAGAAAGTAAATATATTTATATTTAAA--G--TATATATAT------ACTAAAAGTA--TTAG
55 AATAAAAAGTAAATATGTTTATATTTAAAGTGTATATATATATACAAACACTAAAAGTATTTTAG
* * * * * * *
18589588 TATATATATAATATAGTAATTATATT-TCTTGTAAATGAACCTAATATTTATAATGTATATATAT
120 TATATATAT-A-ATAGAAAGTATATTCT-TTATAAATGAACCCAATATATATAAAGTAAATATAT
* * * * * ** **
18589652 TAAAAAATATTACAAGTTAATTAATAATAATAATTTTCATGAATTAATTAAATTAACAATATGTG
182 TAAAAGACATTACAAGGTAATTAATAATAAT-AGTTTCATGAATTAATTTAATTAATTATATGAA
*
18589717 TTTGTCTTTAATTACATGAAATTAAAAAAA
246 TTTGTCCTTAATTACATGAAATTAAAAAAA
18589747 ATAGTTAGAT
Statistics
Matches: 537, Mismatches: 50, Indels: 68
0.82 0.08 0.10
Matches are distributed among these distances:
329 47 0.09
330 32 0.06
338 83 0.15
339 123 0.23
340 2 0.00
341 13 0.02
342 2 0.00
343 56 0.10
344 34 0.06
345 56 0.10
348 1 0.00
349 9 0.02
351 1 0.00
354 1 0.00
356 1 0.00
358 1 0.00
360 4 0.01
361 1 0.00
362 26 0.05
363 44 0.08
ACGTcount: A:0.44, C:0.06, G:0.09, T:0.41
Consensus pattern (330 bp):
TATATATTATAATTAATAATTTTATAAATTATAATTTTTGCAATGTTAACACAAAATAAAAAGTA
AATATGTTTATATTTAAAGTGTATATATATATACAAACACTAAAAGTATTTTAGTATATATATAA
TAGAAAGTATATTCTTTATAAATGAACCCAATATATATAAAGTAAATATATTAAAAGACATTACA
AGGTAATTAATAATAATAGTTTCATGAATTAATTTAATTAATTATATGAATTTGTCCTTAATTAC
ATGAAATTAAAAAAATAACTAAGTTACAAAACTATTCTAATCTCACAACTTCTTTTTAGATAATT
AAATT
Found at i:18589574 original size:17 final size:17
Alignment explanation
Indices: 18589544--18589594 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
18589534 AAATAGAAAG
*
18589544 TAAA-TATATTTATATT
1 TAAAGTATATATATATT
*
18589560 TAAAGTATATATATACT
1 TAAAGTATATATATATT
*
18589577 AAAAGTATTAGTATATAT
1 TAAAGTA-TA-TATATAT
18589595 ATAATATAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
16 4 0.14
17 16 0.57
18 2 0.07
19 6 0.21
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (17 bp):
TAAAGTATATATATATT
Found at i:18590323 original size:51 final size:48
Alignment explanation
Indices: 18590193--18590326 Score: 126
Period size: 51 Copynumber: 2.6 Consensus size: 48
18590183 ATTTCTTAAA
* *
18590193 AAAAAAAAACGTTTAAGCATTTTAAGTATTTTGAAGTAGTTTTTGATAT
1 AAAAAAAAGC-TTTAAGCATTTTAAGCATTTTGAAGTAGTTTTTGATAT
* * * *
18590242 ACGAATAAAGACTTTGAGCATTTTAAAGCATTTTGCAGT-GATTTTTGATACAT
1 A-AAAAAAAG-CTTTAAGCATTTT-AAGCATTTTGAAGTAG-TTTTTGAT--AT
*
18590295 AAAAAAAAGCTTTTAAGCATTTTGAGCATTTT
1 AAAAAAAAGC-TTTAAGCATTTTAAGCATTTT
18590327 TCGTCAAGTA
Statistics
Matches: 68, Mismatches: 10, Indels: 12
0.76 0.11 0.13
Matches are distributed among these distances:
49 1 0.01
50 17 0.25
51 30 0.44
52 17 0.25
53 3 0.04
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.39
Consensus pattern (48 bp):
AAAAAAAAGCTTTAAGCATTTTAAGCATTTTGAAGTAGTTTTTGATAT
Found at i:18590458 original size:22 final size:22
Alignment explanation
Indices: 18590427--18590548 Score: 82
Period size: 22 Copynumber: 5.5 Consensus size: 22
18590417 GTTTTTGTGA
*
18590427 TTTTTAGGCATTGCATAATTAG
1 TTTTTAGGCATTGCATAACTAG
* **
18590449 TTTTTGGGCATTGTGTAACTAG
1 TTTTTAGGCATTGCATAACTAG
* * * * *
18590471 TTTTTAAGTATTGCGTCACTAA
1 TTTTTAGGCATTGCATAACTAG
* * * * *
18590493 TTTTTAAGTATTGCGTGACTAA
1 TTTTTAGGCATTGCATAACTAG
* * *
18590515 TTTTTAGGTATTGCGTGACTAG
1 TTTTTAGGCATTGCATAACTAG
*
18590537 TTTTTAAGCATT
1 TTTTTAGGCATT
18590549 ACGTGACTAA
Statistics
Matches: 85, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 85 1.00
ACGTcount: A:0.24, C:0.10, G:0.20, T:0.47
Consensus pattern (22 bp):
TTTTTAGGCATTGCATAACTAG
Found at i:18590536 original size:66 final size:65
Alignment explanation
Indices: 18590466--18590599 Score: 196
Period size: 66 Copynumber: 2.0 Consensus size: 65
18590456 GCATTGTGTA
* * * *
18590466 ACTAGTTTTTAAGTATTGCGTCACTAATTTTTAAGTATTGCGTGACTAATTTTTAGGTATTGCGT
1 ACTAGTTTTTAAGCATTACGTCACTAATTTTTAAGCATTACGTGACTAA-TTTTAGGTATTGCGT
18590531 G
65 G
* * *
18590532 ACTAGTTTTTAAGCATTACGTGACTAATTTTTAAGCATTACGTGACTGATTTTAGGTGTTGCGTG
1 ACTAGTTTTTAAGCATTACGTCACTAATTTTTAAGCATTACGTGACTAATTTTAGGTATTGCGTG
18590597 ACT
1 ACT
18590600 GGTTGATATG
Statistics
Matches: 61, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
65 18 0.30
66 43 0.70
ACGTcount: A:0.25, C:0.12, G:0.20, T:0.43
Consensus pattern (65 bp):
ACTAGTTTTTAAGCATTACGTCACTAATTTTTAAGCATTACGTGACTAATTTTAGGTATTGCGTG
Found at i:18590553 original size:22 final size:22
Alignment explanation
Indices: 18590466--18590599 Score: 162
Period size: 22 Copynumber: 6.1 Consensus size: 22
18590456 GCATTGTGTA
* *
18590466 ACTAGTTTTTAAGTATTGCGTC
1 ACTAATTTTTAAGTATTGCGTG
18590488 ACTAATTTTTAAGTATTGCGTG
1 ACTAATTTTTAAGTATTGCGTG
*
18590510 ACTAATTTTTAGGTATTGCGTG
1 ACTAATTTTTAAGTATTGCGTG
* * *
18590532 ACTAGTTTTTAAGCATTACGTG
1 ACTAATTTTTAAGTATTGCGTG
* *
18590554 ACTAATTTTTAAGCATTACGTG
1 ACTAATTTTTAAGTATTGCGTG
* * *
18590576 ACTGA-TTTTAGGTGTTGCGTG
1 ACTAATTTTTAAGTATTGCGTG
18590597 ACT
1 ACT
18590600 GGTTGATATG
Statistics
Matches: 99, Mismatches: 13, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
21 15 0.15
22 84 0.85
ACGTcount: A:0.25, C:0.12, G:0.20, T:0.43
Consensus pattern (22 bp):
ACTAATTTTTAAGTATTGCGTG
Found at i:18590615 original size:66 final size:66
Alignment explanation
Indices: 18590488--18590623 Score: 184
Period size: 66 Copynumber: 2.1 Consensus size: 66
18590478 GTATTGCGTC
* * **
18590488 ACTAATTTTTAAGTATTGCGTGACTAATTTTTAGGTATTGCGTGACTAGTTTTTAAGCATTACGT
1 ACTAATTTTTAAGCATTACGTGACTAATTTTTAGGTATTGCGTGACTAGTTGATAAGCATTACGT
18590553 G
66 G
* * * *
18590554 ACTAATTTTTAAGCATTACGTGACTGA-TTTTAGGTGTTGCGTGACTGGTTGATATGACATTACG
1 ACTAATTTTTAAGCATTACGTGACTAATTTTTAGGTATTGCGTGACTAGTTGATAAG-CATTACG
18590618 TG
65 TG
18590620 ACTA
1 ACTA
18590624 GTTAATAGGC
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
65 24 0.39
66 37 0.61
ACGTcount: A:0.26, C:0.12, G:0.21, T:0.41
Consensus pattern (66 bp):
ACTAATTTTTAAGCATTACGTGACTAATTTTTAGGTATTGCGTGACTAGTTGATAAGCATTACGT
G
Found at i:18590636 original size:66 final size:66
Alignment explanation
Indices: 18590488--18590645 Score: 156
Period size: 66 Copynumber: 2.4 Consensus size: 66
18590478 GTATTGCGTC
** * * **
18590488 ACTAATTTTTAAGTATTGCGTGACTAATTTTTAGGTATTGCGTGACTAGTTTTTAAGCATTACGT
1 ACTAATTAATAAGCATTACGTGACTAATTTTTAGGTATTGCGTGACTAGTTGATAAGCATTACGT
18590553 G
66 G
** * * * *
18590554 ACTAATTTTTAAGCATTACGTGACTGA-TTTTAGGTGTTGCGTGACTGGTTGATATGACATTACG
1 ACTAATTAATAAGCATTACGTGACTAATTTTTAGGTATTGCGTGACTAGTTGATAAG-CATTACG
18590618 TG
65 TG
* * **
18590620 ACTAGTTAATAGGCATTGTGTGACTA
1 ACTAATTAATAAGCATTACGTGACTA
18590646 GTTAGTAAGG
Statistics
Matches: 76, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
65 24 0.32
66 52 0.68
ACGTcount: A:0.26, C:0.11, G:0.22, T:0.41
Consensus pattern (66 bp):
ACTAATTAATAAGCATTACGTGACTAATTTTTAGGTATTGCGTGACTAGTTGATAAGCATTACGT
G
Found at i:18590660 original size:23 final size:23
Alignment explanation
Indices: 18590611--18590746 Score: 166
Period size: 23 Copynumber: 6.0 Consensus size: 23
18590601 GTTGATATGA
* *
18590611 CATTACGTGACTAGTTAAT-AGG
1 CATTGCGTGACTAGTTAGTAAGG
*
18590633 CATTGTGTGACTAGTTAGTAAGG
1 CATTGCGTGACTAGTTAGTAAGG
* * * *
18590656 CATTGCATGATTGGTTAGTAAAG
1 CATTGCGTGACTAGTTAGTAAGG
* * *
18590679 CATTGCGTGATTGGTTAGTAAAG
1 CATTGCGTGACTAGTTAGTAAGG
*
18590702 CATTGCGTGACTAGTTAATAAGG
1 CATTGCGTGACTAGTTAGTAAGG
18590725 CATTGCGTGACTAGTTAGTAAG
1 CATTGCGTGACTAGTTAGTAAG
18590747 ACATCGTGTG
Statistics
Matches: 99, Mismatches: 14, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
22 16 0.16
23 83 0.84
ACGTcount: A:0.29, C:0.11, G:0.27, T:0.33
Consensus pattern (23 bp):
CATTGCGTGACTAGTTAGTAAGG
Found at i:18590757 original size:23 final size:23
Alignment explanation
Indices: 18590590--18590759 Score: 141
Period size: 23 Copynumber: 7.4 Consensus size: 23
18590580 ATTTTAGGTG
* *
18590590 TTGCGTGACTGGTT-GATATGACA
1 TTGCGTGACTAGTTAG-TAAGACA
* * *
18590613 TTACGTGACTAGTTAAT-AGGCA
1 TTGCGTGACTAGTTAGTAAGACA
* *
18590635 TTGTGTGACTAGTTAGTAAGGCA
1 TTGCGTGACTAGTTAGTAAGACA
* * *
18590658 TTGCATGATTGGTTAGTAA-AGCA
1 TTGCGTGACTAGTTAGTAAGA-CA
* *
18590681 TTGCGTGATTGGTTAGTAA-AGCA
1 TTGCGTGACTAGTTAGTAAGA-CA
* *
18590704 TTGCGTGACTAGTTAATAAGGCA
1 TTGCGTGACTAGTTAGTAAGACA
18590727 TTGCGTGACTAGTTAGTAAGACA
1 TTGCGTGACTAGTTAGTAAGACA
* *
18590750 TCGTGTGACT
1 TTGCGTGACT
18590760 TAAGTATTAC
Statistics
Matches: 121, Mismatches: 22, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
22 17 0.14
23 104 0.86
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.34
Consensus pattern (23 bp):
TTGCGTGACTAGTTAGTAAGACA
Found at i:18590758 original size:46 final size:46
Alignment explanation
Indices: 18590590--18590759 Score: 175
Period size: 46 Copynumber: 3.7 Consensus size: 46
18590580 ATTTTAGGTG
* * *
18590590 TTGCGTGACTGGTT-GATATGACATTACGTGACTAGTTAAT-AGGCA
1 TTGCGTGACTAGTTAG-TAAGACATTGCGTGACTAGTTAATAAGGCA
* * * * * * *
18590635 TTGTGTGACTAGTTAGTAAGGCATTGCATGATTGGTTAGTAAAGCA
1 TTGCGTGACTAGTTAGTAAGACATTGCGTGACTAGTTAATAAGGCA
* *
18590681 TTGCGTGATTGGTTAGTAA-AGCATTGCGTGACTAGTTAATAAGGCA
1 TTGCGTGACTAGTTAGTAAGA-CATTGCGTGACTAGTTAATAAGGCA
* *
18590727 TTGCGTGACTAGTTAGTAAGACATCGTGTGACT
1 TTGCGTGACTAGTTAGTAAGACATTGCGTGACT
18590760 TAAGTATTAC
Statistics
Matches: 98, Mismatches: 23, Indels: 7
0.77 0.18 0.05
Matches are distributed among these distances:
45 29 0.30
46 68 0.69
47 1 0.01
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.34
Consensus pattern (46 bp):
TTGCGTGACTAGTTAGTAAGACATTGCGTGACTAGTTAATAAGGCA
Found at i:18590827 original size:21 final size:21
Alignment explanation
Indices: 18590773--18590876 Score: 100
Period size: 21 Copynumber: 4.9 Consensus size: 21
18590763 GTATTACTTA
*
18590773 AAAATCAGTCACGCAATGTCT
1 AAAATCAGTCACGCAATGCCT
*
18590794 AAAAACTAGTCACGCAATGCCT
1 AAAATC-AGTCACGCAATGCCT
* *
18590816 ACAATCAGTCACGTAATGCCT
1 AAAATCAGTCACGCAATGCCT
* * * **
18590837 ACAACCAGTCACGTAATATCT
1 AAAATCAGTCACGCAATGCCT
*
18590858 AAAAATTAGTCACGCAATG
1 -AAAATCAGTCACGCAATG
18590877 ATTAAGTCAC
Statistics
Matches: 68, Mismatches: 13, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
21 37 0.54
22 31 0.46
ACGTcount: A:0.39, C:0.25, G:0.13, T:0.22
Consensus pattern (21 bp):
AAAATCAGTCACGCAATGCCT
Found at i:18592160 original size:87 final size:87
Alignment explanation
Indices: 18592024--18592201 Score: 286
Period size: 87 Copynumber: 2.1 Consensus size: 87
18592014 ATTTTTAATT
* * *
18592024 TAAT-TATTTAAACAACAATAAAATATATATAAACGGGTATTGAAATCGGGTTTGGGGTGAGTAT
1 TAATCTATTTAAACAACAATAAAATATATATAAACGAGTATTGAAATCGGGTCTGGGATGAGTAT
18592088 CCATGAAACTCGAATATTAACA
66 CCATGAAACTCGAATATTAACA
* *
18592110 TAATCTATTTAAACAACAATAAAATATATATAAATGAGTATTGGAATCGGGTCTGGGATGAGTAT
1 TAATCTATTTAAACAACAATAAAATATATATAAACGAGTATTGAAATCGGGTCTGGGATGAGTAT
* *
18592175 CCGTGAAATTCGAATATTAACA
66 CCATGAAACTCGAATATTAACA
18592197 TAATC
1 TAATC
18592202 GGATTTGAGT
Statistics
Matches: 84, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
86 4 0.05
87 80 0.95
ACGTcount: A:0.42, C:0.11, G:0.17, T:0.31
Consensus pattern (87 bp):
TAATCTATTTAAACAACAATAAAATATATATAAACGAGTATTGAAATCGGGTCTGGGATGAGTAT
CCATGAAACTCGAATATTAACA
Found at i:18592389 original size:15 final size:17
Alignment explanation
Indices: 18592369--18592408 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
18592359 ATTTAGTATT
18592369 AAAATATT-A-AAATTA
1 AAAATATTAATAAATTA
18592384 AAAATATTAATAAATTA
1 AAAATATTAATAAATTA
*
18592401 ATAATATT
1 AAAATATT
18592409 TTGGAGTCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.36
16 1 0.05
17 13 0.59
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
AAAATATTAATAAATTA
Found at i:18601296 original size:12 final size:12
Alignment explanation
Indices: 18601279--18601303 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
18601269 GCCAGCCTCT
18601279 TTCTTCTTTTTC
1 TTCTTCTTTTTC
18601291 TTCTTCTTTTTC
1 TTCTTCTTTTTC
18601303 T
1 T
18601304 CCCCCAAAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (12 bp):
TTCTTCTTTTTC
Found at i:18604506 original size:20 final size:21
Alignment explanation
Indices: 18604455--18604506 Score: 54
Period size: 19 Copynumber: 2.6 Consensus size: 21
18604445 AAGGAAAAAA
* *
18604455 TAAAATATTTAAAATAAAATT
1 TAAATTATTTTAAATAAAATT
18604476 TAAATTA-TTTAAAT-AAATT
1 TAAATTATTTTAAATAAAATT
**
18604495 TTTATTATTTTA
1 TAAATTATTTTA
18604507 TTATGTTTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 10 0.38
20 10 0.38
21 6 0.23
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
TAAATTATTTTAAATAAAATT
Found at i:18605869 original size:2 final size:2
Alignment explanation
Indices: 18605862--18605896 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
18605852 TATGTATACG
18605862 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
18605897 GTATTTCAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:18607714 original size:2 final size:2
Alignment explanation
Indices: 18607709--18607742 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
18607699 ATATGAATTA
18607709 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
18607743 TAGAATATTC
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:18610196 original size:6 final size:6
Alignment explanation
Indices: 18610185--18610210 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
18610175 CCTCTTTTTA
18610185 TTATTT TTATTT TTATTT TTATTT TT
1 TTATTT TTATTT TTATTT TTATTT TT
18610211 TTGACGGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTATTT
Found at i:18610953 original size:11 final size:10
Alignment explanation
Indices: 18610932--18610977 Score: 58
Period size: 10 Copynumber: 4.5 Consensus size: 10
18610922 CAACTTGAAA
18610932 TTTTTTCTTT
1 TTTTTTCTTT
*
18610942 TCTTTTCTTT
1 TTTTTTCTTT
18610952 TTTTTCTCTTT
1 TTTTT-TCTTT
18610963 TTTTTT-TATT
1 TTTTTTCT-TT
18610973 TTTTT
1 TTTTT
18610978 ACATAAAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
9 1 0.03
10 21 0.66
11 10 0.31
ACGTcount: A:0.02, C:0.11, G:0.00, T:0.87
Consensus pattern (10 bp):
TTTTTTCTTT
Found at i:18625167 original size:37 final size:37
Alignment explanation
Indices: 18625111--18625205 Score: 122
Period size: 37 Copynumber: 2.5 Consensus size: 37
18625101 TGCAATTATC
18625111 TATTTT-TTTTATTTTTTATTATC-TAATTATTATTT
1 TATTTTATTTTATTTTTTATTATCATAATTATTATTT
* *
18625146 TCATTTTATTTTATTTTTTATTATCATATTTTTTATTT
1 T-ATTTTATTTTATTTTTTATTATCATAATTATTATTT
18625184 TATTTCTAATTATTATTTTTTA
1 TATTT-T-ATT-TTATTTTTTA
18625206 ATACTTTATG
Statistics
Matches: 52, Mismatches: 2, Indels: 7
0.85 0.03 0.11
Matches are distributed among these distances:
35 1 0.02
36 5 0.10
37 21 0.40
38 12 0.23
39 3 0.06
40 10 0.19
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.73
Consensus pattern (37 bp):
TATTTTATTTTATTTTTTATTATCATAATTATTATTT
Found at i:18625172 original size:23 final size:22
Alignment explanation
Indices: 18625140--18625184 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
18625130 TATCTAATTA
* *
18625140 TTATTTTCATTTTATTTTATTTT
1 TTATTATCATATT-TTTTATTTT
18625163 TTATTATCATATTTTTTATTTT
1 TTATTATCATATTTTTTATTTT
18625185 ATTTCTAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (22 bp):
TTATTATCATATTTTTTATTTT
Found at i:18625204 original size:27 final size:27
Alignment explanation
Indices: 18625104--18625204 Score: 112
Period size: 27 Copynumber: 3.5 Consensus size: 27
18625094 ATGCTAATGC
18625104 AATTATCTATTTTTTTTATTTTTTATTATCT
1 AATTAT-TATTTTTTTTA--TTTTATT-TCT
*
18625135 AATTATTATTTTCATTTTATTTTATTTTT
1 AATTATTATTTT--TTTTATTTTATTTCT
* * *
18625164 TATTATCATATTTTTTATTTTATTTCT
1 AATTATTATTTTTTTTATTTTATTTCT
18625191 AATTATTATTTTTT
1 AATTATTATTTTTT
18625205 AATACTTTAT
Statistics
Matches: 60, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
27 25 0.42
29 11 0.18
30 13 0.22
31 6 0.10
32 5 0.08
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (27 bp):
AATTATTATTTTTTTTATTTTATTTCT
Found at i:18625220 original size:56 final size:58
Alignment explanation
Indices: 18625105--18625220 Score: 141
Period size: 56 Copynumber: 2.0 Consensus size: 58
18625095 TGCTAATGCA
* * *
18625105 ATTATCTATTTTTTTTATTTTTTATTATCTAATTATTATTTTCATTTTATTTTATTTTTT
1 ATTATCTATATTTTTTA-TTTTTATTATCTAATTATTATTTT-ATTATACTTTATTTTTT
18625165 ATTATC-ATATTTTTTA-TTTTATT-TCTAATTATTATTTT-TTAATACTTTATGTTTTT
1 ATTATCTATATTTTTTATTTTTATTATCTAATTATTATTTTATT-ATACTTTAT-TTTTT
18625221 TATTCGNAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
54 2 0.04
55 7 0.14
56 20 0.39
57 7 0.14
59 9 0.18
60 6 0.12
ACGTcount: A:0.23, C:0.05, G:0.01, T:0.71
Consensus pattern (58 bp):
ATTATCTATATTTTTTATTTTTATTATCTAATTATTATTTTATTATACTTTATTTTTT
Found at i:18625323 original size:14 final size:13
Alignment explanation
Indices: 18625304--18625349 Score: 55
Period size: 14 Copynumber: 3.8 Consensus size: 13
18625294 TTTTTTTGTC
18625304 ATTTATTATTAGTT
1 ATTTATTATTA-TT
18625318 ATTTATTATTATT
1 ATTTATTATTATT
18625331 A-TT-TTATT-TT
1 ATTTATTATTATT
18625341 -TTTATTATT
1 ATTTATTATT
18625350 TTTTTTTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
10 4 0.13
11 10 0.33
12 2 0.07
13 3 0.10
14 11 0.37
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (13 bp):
ATTTATTATTATT
Found at i:18625343 original size:1 final size:1
Alignment explanation
Indices: 18625332--18625429 Score: 160
Period size: 1 Copynumber: 98.0 Consensus size: 1
18625322 ATTATTATTA
* * *
18625332 TTTTATTTTTTTATTATTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
18625397 TTTTTTTTTTTTTTTTTTTTTTTTTTATTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
18625430 ATTTGTTATT
Statistics
Matches: 89, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
1 89 1.00
ACGTcount: A:0.04, C:0.00, G:0.00, T:0.96
Consensus pattern (1 bp):
T
Found at i:18626051 original size:26 final size:25
Alignment explanation
Indices: 18626022--18626078 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
18626012 TTAGTCATTG
* *
18626022 TTATTTTTATTCATTATTTATTTTTT
1 TTATTTTTATACATT-TTTATATTTT
**
18626048 TTATACTTATACATTTTTATATTTT
1 TTATTTTTATACATTTTTATATTTT
*
18626073 CTATTT
1 TTATTT
18626079 CCAATAATTT
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
25 12 0.50
26 12 0.50
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (25 bp):
TTATTTTTATACATTTTTATATTTT
Found at i:18626697 original size:141 final size:141
Alignment explanation
Indices: 18626522--18626815 Score: 428
Period size: 141 Copynumber: 2.1 Consensus size: 141
18626512 TTCACTTTTC
* * *
18626522 TTCTCT-CCTCTCTCTCTCACTGAAGTCGGGTTCCTCAACCTTCTCTCTCTCTTCTTCCTTTGTC
1 TTCTCTCCCTCTCTCTCTCACTGAAGTCGAGTTCCTCAACCCTCTCTCTCTCTTCTTCCTTTGCC
* ** * * *
18626586 AACCCTTATACTCTTTCACTGGTCTCTTTCTATTGCCGGCAGCTAAAAATAGATCTCCCTCTTCT
66 AACCCTTATACTCTTTCACCGGTCTCTTTCTACCGCCAGCAGCTAAAAACAGATCTCCCTATTCT
18626651 TGCCCAATCAG
131 TGCCCAATCAG
* ** *
18626662 TTCTCTCCCTTTCTCTCTCACTGGTGTCGAGTTCCTCAACCCTCTCTCTCTCTTCTTCTTTTGCC
1 TTCTCTCCCTCTCTCTCTCACTGAAGTCGAGTTCCTCAACCCTCTCTCTCTCTTCTTCCTTTGCC
**
18626727 GGCCCTTATACTCTTTCACCGGTCTCTTTCTACCGCCAGCAGCTAAAAACAGATCTCCCTATTCT
66 AACCCTTATACTCTTTCACCGGTCTCTTTCTACCGCCAGCAGCTAAAAACAGATCTCCCTATTCT
**
18626792 TGCCCAATTGG
131 TGCCCAATCAG
18626803 TTCTCTCCCTCTC
1 TTCTCTCCCTCTC
18626816 CCCCAATGAC
Statistics
Matches: 135, Mismatches: 18, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
140 6 0.04
141 129 0.96
ACGTcount: A:0.14, C:0.37, G:0.11, T:0.38
Consensus pattern (141 bp):
TTCTCTCCCTCTCTCTCTCACTGAAGTCGAGTTCCTCAACCCTCTCTCTCTCTTCTTCCTTTGCC
AACCCTTATACTCTTTCACCGGTCTCTTTCTACCGCCAGCAGCTAAAAACAGATCTCCCTATTCT
TGCCCAATCAG
Found at i:18628985 original size:20 final size:20
Alignment explanation
Indices: 18628960--18629049 Score: 64
Period size: 20 Copynumber: 4.7 Consensus size: 20
18628950 GTTTAACACG
18628960 ATTAAATAAAAATATTTATA
1 ATTAAATAAAAATATTTATA
*
18628980 ATTAAAT-ATAAT-TTTATTA
1 ATTAAATAAAAATATTTA-TA
* ** *
18628999 TTTAAATTCAAA-ATCTATA
1 ATTAAATAAAAATATTTATA
*
18629018 ATT--ATAAAAATAATTATA
1 ATTAAATAAAAATATTTATA
* *
18629036 ATAAAACAAAAATA
1 ATTAAATAAAAATA
18629050 ATAATAACAT
Statistics
Matches: 52, Mismatches: 12, Indels: 12
0.68 0.16 0.16
Matches are distributed among these distances:
17 5 0.10
18 11 0.21
19 16 0.31
20 20 0.38
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (20 bp):
ATTAAATAAAAATATTTATA
Found at i:18629248 original size:18 final size:18
Alignment explanation
Indices: 18629227--18629272 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
18629217 TGTCACGTAT
*
18629227 ACACGTTTAAACACGATA
1 ACACGATTAAACACGATA
18629245 ACACGATTAAACACGATA
1 ACACGATTAAACACGATA
*
18629263 ATACGATTAA
1 ACACGATTAA
18629273 GTAAACGTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.48, C:0.20, G:0.11, T:0.22
Consensus pattern (18 bp):
ACACGATTAAACACGATA
Found at i:18630708 original size:20 final size:20
Alignment explanation
Indices: 18630680--18630718 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
18630670 GTCAGTGTTC
*
18630680 TCTTCTTAAATATCTATTTT
1 TCTTCTTAAATATCCATTTT
*
18630700 TCTTTTTAAATATCCATTT
1 TCTTCTTAAATATCCATTT
18630719 ATTAGGTTGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.15, G:0.00, T:0.59
Consensus pattern (20 bp):
TCTTCTTAAATATCCATTTT
Found at i:18643144 original size:2 final size:2
Alignment explanation
Indices: 18643137--18643189 Score: 97
Period size: 2 Copynumber: 26.5 Consensus size: 2
18643127 NNNNNNNNNN
18643137 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
18643179 TA TA AA TA TA T
1 TA TA TA TA TA T
18643190 GGATAGATAG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:18646108 original size:30 final size:28
Alignment explanation
Indices: 18646040--18646111 Score: 83
Period size: 31 Copynumber: 2.5 Consensus size: 28
18646030 TTTAAAAAAT
*
18646040 TTAAATAAATTTTTATTTTTTTATTACA
1 TTAAATAAATTTTTATTTTTTTATTAAA
*
18646068 TTCAATTAAATTCTTTAATTTTTATT-TTAAA
1 TT-AAATAAATT-TTT-ATTTTT-TTATTAAA
18646099 TTAAATAAATTTT
1 TTAAATAAATTTT
18646112 CATAATTAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
28 2 0.05
29 10 0.27
30 11 0.30
31 12 0.32
32 2 0.05
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (28 bp):
TTAAATAAATTTTTATTTTTTTATTAAA
Found at i:18650901 original size:15 final size:15
Alignment explanation
Indices: 18650878--18650911 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
18650868 CCCAAAATGT
*
18650878 AAAATAAAAAATAAA
1 AAAACAAAAAATAAA
18650893 AAAACAAAAAATAAA
1 AAAACAAAAAATAAA
18650908 AAAA
1 AAAA
18650912 AGTACTAGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.88, C:0.03, G:0.00, T:0.09
Consensus pattern (15 bp):
AAAACAAAAAATAAA
Found at i:18654914 original size:18 final size:18
Alignment explanation
Indices: 18654891--18654926 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
18654881 TCAAAAGCTA
18654891 AAGCAGTCTGACTCCTTT
1 AAGCAGTCTGACTCCTTT
*
18654909 AAGCAGTGTGACTCCTTT
1 AAGCAGTCTGACTCCTTT
18654927 CATATAGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.25, G:0.19, T:0.33
Consensus pattern (18 bp):
AAGCAGTCTGACTCCTTT
Found at i:18664546 original size:116 final size:116
Alignment explanation
Indices: 18664392--18664625 Score: 398
Period size: 116 Copynumber: 2.0 Consensus size: 116
18664382 CTAGCAAGGC
* * *
18664392 TGTTGGGCCATAGTTTTTCTGATGCACTGTGTAGGGTTTGTAGGAAAATCATAGTGCATTG-ATA
1 TGTTGGGCCATAGGTCTTCTGATGCACTGTGTAGGGTTTGCAGGAAAATCATAGTGCA-TGAATA
18664456 AACATATTCCTCTCCTTTCATACATCCAACATGCTTGTGATTCTAGCATGAT
65 AACATATTCCTCTCCTTTCATACATCCAACATGCTTGTGATTCTAGCATGAT
*
18664508 TGTTGGGCTATAGGTCTTCTGATGCACTGTGTAGGGTTTGCAGGAAAATCATAGTGCATGAATAA
1 TGTTGGGCCATAGGTCTTCTGATGCACTGTGTAGGGTTTGCAGGAAAATCATAGTGCATGAATAA
* *
18664573 ACATATTCCTCTCCTTTCATGCATCCTACATGCTTGTGATTCTAGCATGAT
66 ACATATTCCTCTCCTTTCATACATCCAACATGCTTGTGATTCTAGCATGAT
18664624 TG
1 TG
18664626 GAGTCATTCT
Statistics
Matches: 111, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
115 2 0.02
116 109 0.98
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.36
Consensus pattern (116 bp):
TGTTGGGCCATAGGTCTTCTGATGCACTGTGTAGGGTTTGCAGGAAAATCATAGTGCATGAATAA
ACATATTCCTCTCCTTTCATACATCCAACATGCTTGTGATTCTAGCATGAT
Found at i:18685060 original size:28 final size:27
Alignment explanation
Indices: 18685024--18685076 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
18685014 ATATCCTGGT
*
18685024 GGTGGAAAATTACAATTTTGCCCCTGA
1 GGTGGAAAATTACAATTTTACCCCTGA
*
18685051 GGTGGTAAAATTACCATTTTACCCCT
1 GGTGG-AAAATTACAATTTTACCCCT
18685077 ATACTCTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (27 bp):
GGTGGAAAATTACAATTTTACCCCTGA
Found at i:18685144 original size:20 final size:20
Alignment explanation
Indices: 18685121--18685166 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
18685111 CTTCTAAACC
18685121 TCAAATCATACT-TCAATAAG
1 TCAAATCATACTCT-AATAAG
*
18685141 TCAAATTATACTCTAATAAG
1 TCAAATCATACTCTAATAAG
18685161 TCAAAT
1 TCAAAT
18685167 GGGGCCAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.46, C:0.17, G:0.04, T:0.33
Consensus pattern (20 bp):
TCAAATCATACTCTAATAAG
Found at i:18685839 original size:19 final size:19
Alignment explanation
Indices: 18685815--18685852 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
18685805 CCATTTGATT
18685815 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
18685834 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
18685853 GTTTAGAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.32, T:0.42
Consensus pattern (19 bp):
TATTGGAGTATGATTTGAG
Found at i:18687094 original size:13 final size:13
Alignment explanation
Indices: 18687076--18687100 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18687066 GGACAAATTG
18687076 TGATTTTATAAAA
1 TGATTTTATAAAA
18687089 TGATTTTATAAA
1 TGATTTTATAAA
18687101 TTTTTTGGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:18693093 original size:14 final size:15
Alignment explanation
Indices: 18693074--18693102 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
18693064 TTTACGTAGC
18693074 GTTTTAT-AAAAATT
1 GTTTTATGAAAAATT
18693088 GTTTTATGAAAAATT
1 GTTTTATGAAAAATT
18693103 AGAATATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.48
Consensus pattern (15 bp):
GTTTTATGAAAAATT
Found at i:18693512 original size:23 final size:23
Alignment explanation
Indices: 18693480--18693616 Score: 124
Period size: 23 Copynumber: 6.1 Consensus size: 23
18693470 GGTCGTGACA
*
18693480 GAGAATATGTGACACGACTTGGT
1 GAGAATATGTGACACGACATGGT
* * *
18693503 GGGAATATGTGAGACAACATGGT
1 GAGAATATGTGACACGACATGGT
*
18693526 GAGAATATGTGACACGCCAAT-GT
1 GAGAATATGTGACACGAC-ATGGT
*
18693549 GAG-A-ATGTGACACGTCAAT-GT
1 GAGAATATGTGACACGAC-ATGGT
* *
18693570 G-GGA-ATGTGACACGCCATGGT
1 GAGAATATGTGACACGACATGGT
* *
18693591 GAGAATATGTGAGACGGCATGGT
1 GAGAATATGTGACACGACATGGT
18693614 GAG
1 GAG
18693617 CATACATGAC
Statistics
Matches: 96, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
20 3 0.03
21 32 0.33
22 3 0.03
23 56 0.58
24 2 0.02
ACGTcount: A:0.31, C:0.13, G:0.34, T:0.22
Consensus pattern (23 bp):
GAGAATATGTGACACGACATGGT
Found at i:18693556 original size:21 final size:21
Alignment explanation
Indices: 18693532--18693596 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
18693522 TGGTGAGAAT
18693532 ATGTGACACGCCAATGTGAGA
1 ATGTGACACGCCAATGTGAGA
* *
18693553 ATGTGACACGTCAATGTGGGA
1 ATGTGACACGCCAATGTGAGA
18693574 ATGTGACACGCC-ATGGTGAGA
1 ATGTGACACGCCAAT-GTGAGA
18693595 AT
1 AT
18693597 ATGTGAGACG
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
20 2 0.05
21 37 0.95
ACGTcount: A:0.31, C:0.17, G:0.31, T:0.22
Consensus pattern (21 bp):
ATGTGACACGCCAATGTGAGA
Found at i:18693700 original size:23 final size:23
Alignment explanation
Indices: 18693674--18693739 Score: 78
Period size: 23 Copynumber: 2.9 Consensus size: 23
18693664 ACCGTGGAGG
*
18693674 GAATCTGTGACACGGCAGGGTGA
1 GAATGTGTGACACGGCAGGGTGA
* * **
18693697 GAATGTGTGAGACGACATTGTGA
1 GAATGTGTGACACGGCAGGGTGA
*
18693720 GAATGTGTGACACGGTAGGG
1 GAATGTGTGACACGGCAGGG
18693740 CTTAGACTTT
Statistics
Matches: 33, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.27, C:0.12, G:0.39, T:0.21
Consensus pattern (23 bp):
GAATGTGTGACACGGCAGGGTGA
Found at i:18693776 original size:47 final size:46
Alignment explanation
Indices: 18693632--18693801 Score: 153
Period size: 47 Copynumber: 3.7 Consensus size: 46
18693622 ATGACTCGGT
* * * * *
18693632 TGTGACACGGTAGGGTTTAGAGTTCGTGACACACCGTGGAGGGAATC
1 TGTGACACGGTAGGG-TTAGAATTTGTGACACACCATGGTGGGAATA
* * * * * * *
18693679 TGTGACACGGCAGGGTGAGAATGTGTGAGACGA-CATTGTGAGAATG
1 TGTGACACGGTAGGGTTAGAATTTGTGACAC-ACCATGGTGGGAATA
*
18693725 TGTGACACGGTAGGGCTTAGACTTTGTGACACACCATGGTGGGAATA
1 TGTGACACGGTAGGG-TTAGAATTTGTGACACACCATGGTGGGAATA
* * * *
18693772 TGTGACAAGATATGGTGAGAATTTGTGACA
1 TGTGACACGGTAGGGTTAGAATTTGTGACA
18693802 TGGCATGTTG
Statistics
Matches: 96, Mismatches: 24, Indels: 7
0.76 0.19 0.06
Matches are distributed among these distances:
46 47 0.49
47 49 0.51
ACGTcount: A:0.27, C:0.14, G:0.35, T:0.25
Consensus pattern (46 bp):
TGTGACACGGTAGGGTTAGAATTTGTGACACACCATGGTGGGAATA
Done.