Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 61 of 279
Found at i:20391801 original size:18 final size:19
Alignment explanation
Indices: 20391761--20391801 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
20391751 ATTATGTTGT
*
20391761 TATTGTATAATTCTTGTTT
1 TATTGTATAATTCTTGTTC
20391780 TATTGT-TAATT-TTGTTAC
1 TATTGTATAATTCTTGTT-C
20391798 TATT
1 TATT
20391802 TTAGAGGCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 5 0.25
18 9 0.45
19 6 0.30
ACGTcount: A:0.22, C:0.05, G:0.10, T:0.63
Consensus pattern (19 bp):
TATTGTATAATTCTTGTTC
Found at i:20404015 original size:24 final size:24
Alignment explanation
Indices: 20403964--20404021 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
20403954 TCCTTCATTT
* * *
20403964 TCACCCTCACCCTCAGCCTCTCCA
1 TCACCCTCATCCTCAGCATCACCA
* *
20403988 TCACCCTCATCTTCAGCATCACCC
1 TCACCCTCATCCTCAGCATCACCA
*
20404012 TCACTCTCAT
1 TCACCCTCAT
20404022 TTTGACCATC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.19, C:0.52, G:0.03, T:0.26
Consensus pattern (24 bp):
TCACCCTCATCCTCAGCATCACCA
Found at i:20408171 original size:22 final size:23
Alignment explanation
Indices: 20408145--20408188 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
20408135 ATACTTATAA
20408145 TTTAAAT-AATAA-AATTGGAATT
1 TTTAAATCAA-AATAATTGGAATT
20408167 TTTAAATCAAAATAATTGGAAT
1 TTTAAATCAAAATAATTGGAAT
20408189 AATTGATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.50, C:0.02, G:0.09, T:0.39
Consensus pattern (23 bp):
TTTAAATCAAAATAATTGGAATT
Found at i:20409080 original size:47 final size:47
Alignment explanation
Indices: 20409027--20409294 Score: 304
Period size: 47 Copynumber: 5.7 Consensus size: 47
20409017 TATTGGCTTT
* * * *
20409027 GTGGCATATTTTGTATGTTGCCTTTATGGCATACCCTGATAACCTAA
1 GTGGCATATTTTGTATGTTGCCTTTGTGGCATACTCTGATAGCCTTA
*
20409074 GTGGCATATTTTGTATGTTGCCTTTGTGGCGTACTCTGATAGCCTTA
1 GTGGCATATTTTGTATGTTGCCTTTGTGGCATACTCTGATAGCCTTA
* * *
20409121 GTGGCATATTTTGTTTGTTGCTTTTGTGGTATACTCTGATAGCCTTA
1 GTGGCATATTTTGTATGTTGCCTTTGTGGCATACTCTGATAGCCTTA
* * * * * *
20409168 GCT-ACGTATTATGTATATTTCCTTTGTGGCGTACTCTGATAGCCTTA
1 G-TGGCATATTTTGTATGTTGCCTTTGTGGCATACTCTGATAGCCTTA
*** * * * *
20409215 GTGGCATATTCAATATGTTGCTTTTGTAGCGTACTCTGATAGCCTTT
1 GTGGCATATTTTGTATGTTGCCTTTGTGGCATACTCTGATAGCCTTA
* * *
20409262 GTGGCGTATTCTGTATATTGCCTTTGTGGCATA
1 GTGGCATATTTTGTATGTTGCCTTTGTGGCATA
20409295 TTTTGTATGG
Statistics
Matches: 184, Mismatches: 35, Indels: 4
0.83 0.16 0.02
Matches are distributed among these distances:
46 1 0.01
47 182 0.99
48 1 0.01
ACGTcount: A:0.18, C:0.17, G:0.22, T:0.43
Consensus pattern (47 bp):
GTGGCATATTTTGTATGTTGCCTTTGTGGCATACTCTGATAGCCTTA
Found at i:20409192 original size:94 final size:94
Alignment explanation
Indices: 20409027--20409291 Score: 343
Period size: 94 Copynumber: 2.8 Consensus size: 94
20409017 TATTGGCTTT
* * * * * * * *
20409027 GTGGCATATTTTGTATGTTGCCTTTATGGCATACCCTGATAACCTAAGTGGCATATTTTGTATGT
1 GTGGCATATTTTGTATGTTGCTTTTGTGGCATACTCTGATAGCCTTAGTGGCGTATTATGTATAT
20409092 TGCCTTTGTGGCGTACTCTGATAGCCTTA
66 TGCCTTTGTGGCGTACTCTGATAGCCTTA
* * *
20409121 GTGGCATATTTTGTTTGTTGCTTTTGTGGTATACTCTGATAGCCTTAGCT-ACGTATTATGTATA
1 GTGGCATATTTTGTATGTTGCTTTTGTGGCATACTCTGATAGCCTTAG-TGGCGTATTATGTATA
*
20409185 TTTCCTTTGTGGCGTACTCTGATAGCCTTA
65 TTGCCTTTGTGGCGTACTCTGATAGCCTTA
*** * * * *
20409215 GTGGCATATTCAATATGTTGCTTTTGTAGCGTACTCTGATAGCCTTTGTGGCGTATTCTGTATAT
1 GTGGCATATTTTGTATGTTGCTTTTGTGGCATACTCTGATAGCCTTAGTGGCGTATTATGTATAT
20409280 TGCCTTTGTGGC
66 TGCCTTTGTGGC
20409292 ATATTTTGTA
Statistics
Matches: 146, Mismatches: 23, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
93 1 0.01
94 144 0.99
95 1 0.01
ACGTcount: A:0.17, C:0.17, G:0.23, T:0.43
Consensus pattern (94 bp):
GTGGCATATTTTGTATGTTGCTTTTGTGGCATACTCTGATAGCCTTAGTGGCGTATTATGTATAT
TGCCTTTGTGGCGTACTCTGATAGCCTTA
Found at i:20409268 original size:22 final size:22
Alignment explanation
Indices: 20409188--20409291 Score: 75
Period size: 22 Copynumber: 4.5 Consensus size: 22
20409178 ATGTATATTT
20409188 CCTTTGTGGCGTACTCTGATAG
1 CCTTTGTGGCGTACTCTGATAG
* * * *
20409210 CCTTAGTGGCATATTCAAT-ATGTTG
1 CCTTTGTGGCGTACTC--TGA--TAG
* *
20409235 CTTTTGTAGCGTACTCTGATAG
1 CCTTTGTGGCGTACTCTGATAG
*
20409257 CCTTTGTGGCGTATTCTGTATATTG
1 CCTTTGTGGCGTACTCTG-ATA--G
20409282 CCTTTGTGGC
1 CCTTTGTGGC
20409292 ATATTTTGTA
Statistics
Matches: 61, Mismatches: 13, Indels: 13
0.70 0.15 0.15
Matches are distributed among these distances:
22 30 0.49
23 5 0.08
24 2 0.03
25 24 0.39
ACGTcount: A:0.15, C:0.19, G:0.24, T:0.41
Consensus pattern (22 bp):
CCTTTGTGGCGTACTCTGATAG
Found at i:20414566 original size:42 final size:42
Alignment explanation
Indices: 20414456--20414610 Score: 116
Period size: 43 Copynumber: 3.6 Consensus size: 42
20414446 CCGTATAATG
* * * *
20414456 CCAATGTCCCAGACATGGTCTTACATGTAA-TCAAATATCGCTG
1 CCAATGTCCCAGACATGGTCTTACACGAAACTC-AA-ATCGATA
* * * * *
20414499 CCACTATTCCAGATAAGGTCTTACACGAAA-TCAAATACGATA
1 CCAATGTCCCAGACATGGTCTTACACGAAACTCAAAT-CGATA
* * * *
20414541 CCGATGTCCCATACATGGTCTTACACCTAAATCTCAAATCGATG
1 CCAATGTCCCAGACATGGTCTTACA-CGAAA-CTCAAATCGATA
* *
20414585 CCAATGTTCCAGACATGGTCTCACAC
1 CCAATGTCCCAGACATGGTCTTACAC
20414611 AATAACACAC
Statistics
Matches: 86, Mismatches: 22, Indels: 8
0.74 0.19 0.07
Matches are distributed among these distances:
41 2 0.02
42 23 0.27
43 30 0.35
44 25 0.29
45 6 0.07
ACGTcount: A:0.32, C:0.28, G:0.14, T:0.26
Consensus pattern (42 bp):
CCAATGTCCCAGACATGGTCTTACACGAAACTCAAATCGATA
Found at i:20429181 original size:39 final size:39
Alignment explanation
Indices: 20429102--20429184 Score: 114
Period size: 39 Copynumber: 2.1 Consensus size: 39
20429092 ATTAAAAATA
* *
20429102 ATATATATGTTTTATTTATAGCTGAAAGTTTGAAATTTT
1 ATATATATGTTTTATTTATAGCTAAAAGTATGAAATTTT
* *
20429141 ATATATTTGTTTTATTTATAGCTAAAAGTAT-AATTATTT
1 ATATATATGTTTTATTTATAGCTAAAAGTATGAAAT-TTT
20429180 ATATA
1 ATATA
20429185 ATAAAAAATT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
38 3 0.08
39 36 0.92
ACGTcount: A:0.36, C:0.02, G:0.10, T:0.52
Consensus pattern (39 bp):
ATATATATGTTTTATTTATAGCTAAAAGTATGAAATTTT
Found at i:20436935 original size:3 final size:3
Alignment explanation
Indices: 20436927--20437217 Score: 98
Period size: 3 Copynumber: 97.3 Consensus size: 3
20436917 TTTTAATACC
* * * *
20436927 ATT ATT ATT ACT ACTT CT- ATT ATT -TT -TT ACT ATT ATT ATT TTT
1 ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * *
20436970 CATAT ATAT ATT ATT -TAT ATT ATT GTT ATC ATT ACT ATT ATT AAT ATT
1 -AT-T AT-T ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* ** * * * *
20437018 CTT ATT ATT GCT ATT ATT ATT TTT ACT ATT ATT ACT ATT TTT ATTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT
* * *
20437064 ACTT -TT ATT ATT ATT AAT ATT ATT ATT ATC A-T CTT ATT -TT ATT
1 A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * * * * * * * *
20437107 ACT ATT ATC ATT TTT GTA ATT ACT ATT ACT ATT TTT TTT A-A ACT ACT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * *
20437154 ACT ACT ACT ATT ATT ATT ATT ATT ATT A-T ATT -TT TTT GTT TTT ACTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT
*
20437201 ATAC ATT ATT ATT ATT A
1 AT-T ATT ATT ATT ATT A
20437218 AATTAATTAA
Statistics
Matches: 212, Mismatches: 60, Indels: 32
0.70 0.20 0.11
Matches are distributed among these distances:
2 15 0.07
3 177 0.83
4 19 0.09
5 1 0.00
ACGTcount: A:0.29, C:0.09, G:0.01, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:20436968 original size:15 final size:15
Alignment explanation
Indices: 20436869--20437114 Score: 104
Period size: 15 Copynumber: 16.4 Consensus size: 15
20436859 TTTGTTGTTT
20436869 TATTA-TATTATTAC
1 TATTATTATTATTAC
*
20436883 TATTTTTATTA-TAC
1 TATTATTATTATTAC
20436897 T-TGTATT-TATATTTA-
1 TAT-TATTAT-TA-TTAC
* *
20436912 TTTTATT-TTAATAC
1 TATTATTATTATTAC
* *
20436926 CATTATTATTACTAC
1 TATTATTATTATTAC
*
20436941 T-TCTATTATTTTTTAC
1 TAT-TATTA-TTATTAC
* *
20436957 TATTATTATTTTTCATA
1 TATTATTATTATT-A-C
*
20436974 TATATATTATT-TATAT
1 TAT-TATTATTAT-TAC
* *
20436990 TATTGTTATCATTAC
1 TATTATTATTATTAC
*
20437005 TATTATTAATATT-C
1 TATTATTATTATTAC
*
20437019 TTATTATTGCTATTATTAT
1 -TATTA-T--TATTATTAC
* *
20437038 TTTTACTATTATTAC
1 TATTATTATTATTAC
*
20437053 TATTTTTA-T-TTAC
1 TATTATTATTATTAC
* *
20437066 TTTTATTATTATTAA
1 TATTATTATTATTAC
*
20437081 TATTATTATTATCA-
1 TATTATTATTATTAC
*
20437095 TCTTATT-TTATTAC
1 TATTATTATTATTAC
20437109 TATTAT
1 TATTAT
20437115 CATTTTTGTA
Statistics
Matches: 175, Mismatches: 33, Indels: 48
0.68 0.13 0.19
Matches are distributed among these distances:
13 19 0.11
14 35 0.20
15 77 0.44
16 20 0.11
17 6 0.03
18 18 0.10
ACGTcount: A:0.29, C:0.08, G:0.01, T:0.62
Consensus pattern (15 bp):
TATTATTATTATTAC
Found at i:20449716 original size:79 final size:84
Alignment explanation
Indices: 20449538--20449699 Score: 235
Period size: 79 Copynumber: 2.0 Consensus size: 84
20449528 AATGTAAAAT
*
20449538 AAATAAATTATTATTTATAAAATAAAACTAAAAGAGAGAGAGAGAAAAGTTTAAATATGGTTTAA
1 AAATAAATTATTATTTATAAAATAAAACTAAAAGAGAGAGAGAGAAAAGTTTAAATATGATTTAA
*
20449603 GTCTTGTTTGTGGGTTTTA
66 ATCTTGTTTGTGGGTTTTA
* * *
20449622 AAATAAATTATTATTTATAAAATTAAATTAAAA-A-A-A-A-AGAAAAGTTTGAATATGATTTAA
1 AAATAAATTATTATTTATAAAATAAAACTAAAAGAGAGAGAGAGAAAAGTTTAAATATGATTTAA
*
20449682 ATCTTGTTTGTGGATTTT
66 ATCTTGTTTGTGGGTTTT
20449700 TTAAAAATAT
Statistics
Matches: 72, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
79 37 0.51
80 1 0.01
81 1 0.01
82 1 0.01
83 1 0.01
84 31 0.43
ACGTcount: A:0.46, C:0.02, G:0.14, T:0.38
Consensus pattern (84 bp):
AAATAAATTATTATTTATAAAATAAAACTAAAAGAGAGAGAGAGAAAAGTTTAAATATGATTTAA
ATCTTGTTTGTGGGTTTTA
Found at i:20458257 original size:18 final size:18
Alignment explanation
Indices: 20458234--20458279 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
20458224 TATAAATTTA
*
20458234 AAAAATATATAATACATC
1 AAAAATATATAAAACATC
20458252 AAAAATACTA-AAAACATC
1 AAAAATA-TATAAAACATC
*
20458270 AAAAAAATAT
1 AAAAATATAT
20458280 TTCCCAACCA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 2 0.08
18 20 0.83
19 2 0.08
ACGTcount: A:0.67, C:0.11, G:0.00, T:0.22
Consensus pattern (18 bp):
AAAAATATATAAAACATC
Found at i:20459699 original size:22 final size:22
Alignment explanation
Indices: 20459673--20459777 Score: 87
Period size: 22 Copynumber: 5.0 Consensus size: 22
20459663 TCGATTATTG
*
20459673 GCACATTAATGCTCTCTGTTTA
1 GCACATTAGTGCTCTCTGTTTA
* *
20459695 GCACATTTGTGCTCTCTGTATA
1 GCACATTAGTGCTCTCTGTTTA
* *
20459717 --ACA--A-TGCTTTCCGTTTA
1 GCACATTAGTGCTCTCTGTTTA
* *
20459734 GCACATTTGTGCTCTCTGTAT-
1 GCACATTAGTGCTCTCTGTTTA
*
20459755 GACACTTTAGTGCTCTCTGTTTA
1 G-CACATTAGTGCTCTCTGTTTA
20459778 ATAGTGCATA
Statistics
Matches: 62, Mismatches: 14, Indels: 13
0.70 0.16 0.15
Matches are distributed among these distances:
17 10 0.16
19 3 0.05
20 3 0.05
21 1 0.02
22 45 0.73
ACGTcount: A:0.19, C:0.23, G:0.16, T:0.42
Consensus pattern (22 bp):
GCACATTAGTGCTCTCTGTTTA
Found at i:20459724 original size:39 final size:39
Alignment explanation
Indices: 20459680--20459754 Score: 132
Period size: 39 Copynumber: 1.9 Consensus size: 39
20459670 TTGGCACATT
*
20459680 AATGCTCTCTGTTTAGCACATTTGTGCTCTCTGTATAAC
1 AATGCTCTCCGTTTAGCACATTTGTGCTCTCTGTATAAC
*
20459719 AATGCTTTCCGTTTAGCACATTTGTGCTCTCTGTAT
1 AATGCTCTCCGTTTAGCACATTTGTGCTCTCTGTAT
20459755 GACACTTTAG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.19, C:0.23, G:0.16, T:0.43
Consensus pattern (39 bp):
AATGCTCTCCGTTTAGCACATTTGTGCTCTCTGTATAAC
Found at i:20461980 original size:17 final size:17
Alignment explanation
Indices: 20461958--20461996 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
20461948 AAAATCCCTA
20461958 TTTCTCCCTTTT-CTTTC
1 TTTCT-CCTTTTCCTTTC
*
20461975 TTTCTCTTTTTCCTTTC
1 TTTCTCCTTTTCCTTTC
20461992 TTTCT
1 TTTCT
20461997 TTCTCCCCTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTCTCCTTTTCCTTTC
Found at i:20462061 original size:2 final size:2
Alignment explanation
Indices: 20462054--20462101 Score: 69
Period size: 2 Copynumber: 24.0 Consensus size: 2
20462044 TTGTTTCTTT
* * *
20462054 TA TA TA TA TA TA TG TA TA TA TA TA TG TA TA TA TA TA TG TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
20462096 TA TA TA
1 TA TA TA
20462102 CTAATTAATA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (2 bp):
TA
Found at i:20462073 original size:12 final size:12
Alignment explanation
Indices: 20462056--20462101 Score: 92
Period size: 12 Copynumber: 3.8 Consensus size: 12
20462046 GTTTCTTTTA
20462056 TATATATATATG
1 TATATATATATG
20462068 TATATATATATG
1 TATATATATATG
20462080 TATATATATATG
1 TATATATATATG
20462092 TATATATATA
1 TATATATATA
20462102 CTAATTAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 34 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (12 bp):
TATATATATATG
Found at i:20462371 original size:3 final size:3
Alignment explanation
Indices: 20462363--20462388 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
20462353 ACTTTATTTG
20462363 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
20462389 TTAATAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:20462648 original size:24 final size:24
Alignment explanation
Indices: 20462592--20462648 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 24
20462582 TCTATTTTTG
* *
20462592 TACATTTGAACAATATTAATACCA
1 TACATTTGTACAATATCAATACCA
20462616 TACATTTGTACAATATCAATACCA
1 TACATTTGTACAATATCAATACCA
*
20462640 TACAATTGT
1 TACATTTGT
20462649 CATAGATTCA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.42, C:0.18, G:0.05, T:0.35
Consensus pattern (24 bp):
TACATTTGTACAATATCAATACCA
Found at i:20462947 original size:3 final size:3
Alignment explanation
Indices: 20462939--20462990 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
20462929 TTAACTTATT
20462939 TAA TAA TAA TAA TAA TAA 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
20462987 TAA T
1 TAA T
20462991 CTAAATTAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:20470333 original size:20 final size:20
Alignment explanation
Indices: 20470290--20470356 Score: 71
Period size: 20 Copynumber: 3.4 Consensus size: 20
20470280 GACCAAGGGT
* **
20470290 AAAGTATTGATACTTTGAAA
1 AAAGTATAGATACTTTGAGC
* *
20470310 AAAGTATAGATGCTTTTAGC
1 AAAGTATAGATACTTTGAGC
* *
20470330 AAAGTGTAGATACTTTGAGT
1 AAAGTATAGATACTTTGAGC
20470350 AAAGTAT
1 AAAGTAT
20470357 CAGTACTTAA
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.40, C:0.06, G:0.19, T:0.34
Consensus pattern (20 bp):
AAAGTATAGATACTTTGAGC
Found at i:20475802 original size:79 final size:82
Alignment explanation
Indices: 20475691--20475875 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
20475681 GCTACTCGTT
* *
20475691 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
20475754 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
20475771 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
20475834 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
20475851 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
20475876 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:20475875 original size:40 final size:40
Alignment explanation
Indices: 20475672--20475875 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
20475662 CGGAATTTAA
** *
20475672 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
20475712 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
20475752 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
20475791 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
20475831 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
20475871 CCGGA
1 CCGGA
20475876 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:20478401 original size:17 final size:18
Alignment explanation
Indices: 20478371--20478404 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
20478361 AATTTTTATT
*
20478371 CAATTTATTCCCTAATTC
1 CAATTTAATCCCTAATTC
20478389 CAATTTAAT-CCTAATT
1 CAATTTAATCCCTAATT
20478405 AACTCTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.32, C:0.24, G:0.00, T:0.44
Consensus pattern (18 bp):
CAATTTAATCCCTAATTC
Found at i:20478850 original size:17 final size:17
Alignment explanation
Indices: 20478828--20478862 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
20478818 TGTTCTCTGC
20478828 TTCTTTT-CTGTTCTTTT
1 TTCTTTTACT-TTCTTTT
20478845 TTCTTTTACTTTCTTTT
1 TTCTTTTACTTTCTTTT
20478862 T
1 T
20478863 ATTCTATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 15 0.88
18 2 0.12
ACGTcount: A:0.03, C:0.17, G:0.03, T:0.77
Consensus pattern (17 bp):
TTCTTTTACTTTCTTTT
Found at i:20484038 original size:21 final size:21
Alignment explanation
Indices: 20484014--20484055 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
20484004 TAAGCCTAAG
20484014 CTAAATAAAAAAGAAGTTATC
1 CTAAATAAAAAAGAAGTTATC
20484035 CTAAATAAAAAAGAAGTTATC
1 CTAAATAAAAAAGAAGTTATC
20484056 TATTAAGTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.57, C:0.10, G:0.10, T:0.24
Consensus pattern (21 bp):
CTAAATAAAAAAGAAGTTATC
Found at i:20486046 original size:18 final size:17
Alignment explanation
Indices: 20486014--20486047 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
20486004 TTTAGTTATT
20486014 TGTTTTTTAATTTAATC
1 TGTTTTTTAATTTAATC
*
20486031 TGTTTGTTTTATTTAAT
1 TGTTT-TTTAATTTAAT
20486048 TTTATCATCC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.21, C:0.03, G:0.09, T:0.68
Consensus pattern (17 bp):
TGTTTTTTAATTTAATC
Found at i:20487855 original size:17 final size:18
Alignment explanation
Indices: 20487833--20487867 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
20487823 ATGTTTAGTT
20487833 ATTTGTTT-TTTAATTTA
1 ATTTGTTTGTTTAATTTA
*
20487850 ATTTGTTTGTTTTATTTA
1 ATTTGTTTGTTTAATTTA
20487868 GTTTTTCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.20, C:0.00, G:0.09, T:0.71
Consensus pattern (18 bp):
ATTTGTTTGTTTAATTTA
Found at i:20489670 original size:15 final size:15
Alignment explanation
Indices: 20489650--20489679 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
20489640 ATCGTGGTTT
*
20489650 TTTTTTAGTTTTTAA
1 TTTTTTAGTTCTTAA
20489665 TTTTTTAGTTCTTAA
1 TTTTTTAGTTCTTAA
20489680 ATTTATATTA
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:0.20, C:0.03, G:0.07, T:0.70
Consensus pattern (15 bp):
TTTTTTAGTTCTTAA
Found at i:20489999 original size:21 final size:21
Alignment explanation
Indices: 20489975--20490018 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
20489965 GCACTAAAAA
20489975 AAGTTAAAATAAAAGTTTTCT
1 AAGTTAAAATAAAAGTTTTCT
*
20489996 AAGTTAAAATAAAGGTTTTCT
1 AAGTTAAAATAAAAGTTTTCT
20490017 AA
1 AA
20490019 CACATTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.48, C:0.05, G:0.11, T:0.36
Consensus pattern (21 bp):
AAGTTAAAATAAAAGTTTTCT
Found at i:20490149 original size:19 final size:20
Alignment explanation
Indices: 20490108--20490149 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
20490098 ACACAAATAA
20490108 ATATAATAAATATTTTATTAT
1 ATATAATAAATATTTTA-TAT
20490129 ATATAA-AAATTATTTTA-AT
1 ATATAATAAA-TATTTTATAT
20490148 AT
1 AT
20490150 TTTTATATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
19 4 0.20
20 3 0.15
21 13 0.65
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
ATATAATAAATATTTTATAT
Found at i:20490888 original size:36 final size:36
Alignment explanation
Indices: 20490847--20490919 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
20490837 TGGTACGAAC
20490847 TATGCCGCACAAGTAGAATCCATATTAGTGAATTTT
1 TATGCCGCACAAGTAGAATCCATATTAGTGAATTTT
20490883 TATGCCGCACAAGTAGAATCCATATTAGTGAATTTT
1 TATGCCGCACAAGTAGAATCCATATTAGTGAATTTT
20490919 T
1 T
20490920 CTTTTCTACT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.34
Consensus pattern (36 bp):
TATGCCGCACAAGTAGAATCCATATTAGTGAATTTT
Found at i:20491355 original size:3 final size:3
Alignment explanation
Indices: 20491347--20491374 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
20491337 AACTCATCTC
20491347 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
20491375 GGGGAAAGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:20492514 original size:14 final size:14
Alignment explanation
Indices: 20492495--20492537 Score: 77
Period size: 14 Copynumber: 3.1 Consensus size: 14
20492485 ATATATTGCA
*
20492495 GTTTATCTACAAGC
1 GTTTATCAACAAGC
20492509 GTTTATCAACAAGC
1 GTTTATCAACAAGC
20492523 GTTTATCAACAAGC
1 GTTTATCAACAAGC
20492537 G
1 G
20492538 ATATGAACAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (14 bp):
GTTTATCAACAAGC
Found at i:20498428 original size:10 final size:10
Alignment explanation
Indices: 20498409--20498450 Score: 68
Period size: 10 Copynumber: 4.3 Consensus size: 10
20498399 AGGCAAAATG
*
20498409 AAAATAAAAA
1 AAAATGAAAA
20498419 AAAATGAAAA
1 AAAATGAAAA
20498429 AAAATGAAAA
1 AAAATGAAAA
20498439 AAAAT-AAAA
1 AAAATGAAAA
20498448 AAA
1 AAA
20498451 TAAATAGATT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
9 7 0.23
10 24 0.77
ACGTcount: A:0.86, C:0.00, G:0.05, T:0.10
Consensus pattern (10 bp):
AAAATGAAAA
Found at i:20499569 original size:16 final size:16
Alignment explanation
Indices: 20499548--20499580 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
20499538 TATGAACAAC
*
20499548 ATGAAAATCATCATAT
1 ATGAAAATCAACATAT
20499564 ATGAAAATCAACATAT
1 ATGAAAATCAACATAT
20499580 A
1 A
20499581 CTAAGTTCAT
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:0.55, C:0.12, G:0.06, T:0.27
Consensus pattern (16 bp):
ATGAAAATCAACATAT
Found at i:20504404 original size:28 final size:28
Alignment explanation
Indices: 20504362--20504418 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
20504352 TTCAAAGAAA
*
20504362 TGAGAAAGAATTGAATGGAGAATACTAT
1 TGAGAAAGAACTGAATGGAGAATACTAT
20504390 TGAGAAAGAACTGAATGGAGAATACTAT
1 TGAGAAAGAACTGAATGGAGAATACTAT
20504418 T
1 T
20504419 CCTAGGCTAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.46, C:0.05, G:0.25, T:0.25
Consensus pattern (28 bp):
TGAGAAAGAACTGAATGGAGAATACTAT
Found at i:20508200 original size:73 final size:73
Alignment explanation
Indices: 20508110--20508255 Score: 256
Period size: 73 Copynumber: 2.0 Consensus size: 73
20508100 TTTTATAAAC
20508110 AAATTAAAGCTTAAATTTCATTCTATTTCATCATAAAATTACAGTACTCAACAATGGTGACTTTC
1 AAATTAAAGCTTAAATTTCATTCTATTTCATCATAAAATTACAGTACTCAACAATGGTGACTTTC
20508175 AATTTCAT
66 AATTTCAT
* * * *
20508183 AAATTAAAGCTTTAATTTCATTCTATTTCATCATAAAATTACATTTCTCAACCATGGTGACTTTC
1 AAATTAAAGCTTAAATTTCATTCTATTTCATCATAAAATTACAGTACTCAACAATGGTGACTTTC
20508248 AATTTCAT
66 AATTTCAT
20508256 CCATGAAATC
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
73 69 1.00
ACGTcount: A:0.36, C:0.17, G:0.06, T:0.40
Consensus pattern (73 bp):
AAATTAAAGCTTAAATTTCATTCTATTTCATCATAAAATTACAGTACTCAACAATGGTGACTTTC
AATTTCAT
Found at i:20515457 original size:25 final size:24
Alignment explanation
Indices: 20515426--20515497 Score: 85
Period size: 24 Copynumber: 3.0 Consensus size: 24
20515416 GGTACACTCT
*
20515426 TATTGAGCAGATAAATAGTAAGCTC
1 TATTGAGCAGA-AAACAGTAAGCTC
* *
20515451 TATTGAGCTGAAAACGGTAAGCTC
1 TATTGAGCAGAAAACAGTAAGCTC
*
20515475 TATTGAGCTG--AACAGTAAGCTC
1 TATTGAGCAGAAAACAGTAAGCTC
20515497 T
1 T
20515498 TTCGAGATGA
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
22 12 0.28
24 21 0.49
25 10 0.23
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (24 bp):
TATTGAGCAGAAAACAGTAAGCTC
Found at i:20515551 original size:23 final size:22
Alignment explanation
Indices: 20515438--20515543 Score: 83
Period size: 23 Copynumber: 4.6 Consensus size: 22
20515428 TTGAGCAGAT
20515438 AAATAGTAAGCTCTATTGAGCTG
1 AAATAGTAAGCTCTA-TGAGCTG
20515461 AAA-ACGGTAAGCTCTATTGAGCTG
1 AAATA--GTAAGCTCTA-TGAGCTG
* * *
20515485 -AACAGTAAGCTCTTTCGAGATG
1 AAATAGTAAGCTCTAT-GAGCTG
* *
20515507 -AATCAGTATGCTACAATGAGCTG
1 AAAT-AGTAAGCT-CTATGAGCTG
20515530 AAATAGTAAGCTCT
1 AAATAGTAAGCTCT
20515544 TACGAGCTAT
Statistics
Matches: 67, Mismatches: 9, Indels: 15
0.74 0.10 0.16
Matches are distributed among these distances:
21 1 0.01
22 18 0.27
23 24 0.36
24 24 0.36
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (22 bp):
AAATAGTAAGCTCTATGAGCTG
Found at i:20536035 original size:46 final size:46
Alignment explanation
Indices: 20535968--20536142 Score: 341
Period size: 46 Copynumber: 3.8 Consensus size: 46
20535958 ATAACTGGAG
20535968 ATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGTTTGCC
1 ATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGTTTGCC
20536014 ATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGTTTGCC
1 ATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGTTTGCC
*
20536060 ATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCC
1 ATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGTTTGCC
20536106 ATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 ATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
20536143 TAGAGAGCCC
Statistics
Matches: 128, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
46 128 1.00
ACGTcount: A:0.25, C:0.23, G:0.13, T:0.39
Consensus pattern (46 bp):
ATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGTTTGCC
Found at i:20539514 original size:46 final size:46
Alignment explanation
Indices: 20539447--20539663 Score: 310
Period size: 46 Copynumber: 4.7 Consensus size: 46
20539437 TGGCAACCTG
*
20539447 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
* *
20539493 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
*
20539539 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
* ** *
20539585 AGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATG-AAA
* * * *
20539631 TGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCA
20539664 TCACGTCAAA
Statistics
Matches: 157, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 1 0.01
46 156 0.99
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
Found at i:20539642 original size:138 final size:130
Alignment explanation
Indices: 20539398--20539663 Score: 363
Period size: 138 Copynumber: 2.0 Consensus size: 130
20539388 AGTGTGCTCT
*
20539398 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGAGTAAGACCATGGT
* * * * *
20539463 TGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAACATGACATGAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAAC
* *
20539528 CTGATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG---TG---AG--TAAG
20539593 ACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACAC
58 ACCATGGTTGAAAGATACCATGGCAACATGACATG-AAATGAGTAAGACCATAGTTGAAAGACAC
*
20539657 TATGGCA
122 CATGGCA
20539664 TCACGTCAAA
Statistics
Matches: 118, Mismatches: 9, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
130 47 0.40
133 2 0.02
136 1 0.01
137 1 0.01
138 67 0.57
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.22
Consensus pattern (130 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGAGTAAGACCATGGT
TGAAAGATACCATGGCAACATGACATGAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAAC
Found at i:20539969 original size:23 final size:25
Alignment explanation
Indices: 20539924--20539970 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
20539914 AATAAATATA
*
20539924 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
20539949 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
20539971 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:20545406 original size:28 final size:29
Alignment explanation
Indices: 20545352--20545406 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
20545342 ACAGGGGTTT
*
20545352 TCACATGGCCTGACACACGCTCGTGTCTC
1 TCACATGGCCTGACACACGCCCGTGTCTC
20545381 TCACATGGCCATGA-A-ACGCCCGTGTC
1 TCACATGGCC-TGACACACGCCCGTGTC
20545407 CTAGCCCGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 10 0.42
29 11 0.46
30 3 0.12
ACGTcount: A:0.20, C:0.36, G:0.22, T:0.22
Consensus pattern (29 bp):
TCACATGGCCTGACACACGCCCGTGTCTC
Found at i:20546575 original size:46 final size:46
Alignment explanation
Indices: 20546525--20546691 Score: 146
Period size: 46 Copynumber: 3.6 Consensus size: 46
20546515 ATCTCATAAT
20546525 CGATGCATGTCTCAGACATGTCTTACACTGGCTTACATCTCGAGGC
1 CGATGCATGTCTCAGACATGTCTTACACTGGCTTACATCTCGAGGC
* * * * ** * *
20546571 CGATGCATATCCCAGACATATCTTACACTAGC-TATTGTCTCAATGC
1 CGATGCATGTCTCAGACATGTCTTACACTGGCTTA-CATCTCGAGGC
* *
20546617 CGATGCCATGT-TCCAGACATGGTCTTACACTGGCTCT-CATAAT-GTGGC
1 CGATG-CATGTCT-CAGACAT-GTCTTACACTGGCT-TACAT-CTCGAGGC
20546665 CGATGCATGTC-CTAGACATGTCTTACA
1 CGATGCATGTCTC-AGACATGTCTTACA
20546692 ATTCTGAATG
Statistics
Matches: 94, Mismatches: 18, Indels: 18
0.72 0.14 0.14
Matches are distributed among these distances:
45 2 0.02
46 49 0.52
47 22 0.23
48 19 0.20
49 1 0.01
50 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (46 bp):
CGATGCATGTCTCAGACATGTCTTACACTGGCTTACATCTCGAGGC
Found at i:20546667 original size:48 final size:48
Alignment explanation
Indices: 20546330--20546691 Score: 188
Period size: 48 Copynumber: 7.6 Consensus size: 48
20546320 AGGGTATAAT
* * * * * *
20546330 GCCGATGCCATGTCCCAGACATGGTCCTACATTGACTATCAAAATCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTG
* * * *
20546379 GCTGATGCCATGTCCCAGACATGGTCTTACACTAGCTTTTACAT-ATCTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-TCT-CATAATGTG
* * * *
20546428 TGCCGATGCCATGTCCCAGACATGGCCTTACACTGACACCTC-TATACGT-
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-TCTCATA-ATGTG
* ** * **
20546477 GTCGATGCCATGTCTTAGACATGGTTTTACACTGAAATATCTCATAA--T-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTG---GCTCTCATAATGTG
* * *
20546525 --CGATG-CATGTCTCAGACAT-GTCTTACACTGGCT-TACAT-CTCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAAT-GTG
* * * *
20546569 GCCGATG-CATATCCCAGACAT-ATCTTACACTAGCTATTGTC-TCAA--T-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC---TCTCAT-AATGTG
*
20546615 GCCGATGCCATGTTCCAGACATGGTCTTACACTGGCTCTCATAATGTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTG
*
20546663 GCCGATG-CATGTCCTAGACAT-GTCTTACA
1 GCCGATGCCATGTCCCAGACATGGTCTTACA
20546692 ATTCTGAATG
Statistics
Matches: 240, Mismatches: 45, Indels: 59
0.70 0.13 0.17
Matches are distributed among these distances:
40 1 0.00
41 4 0.02
44 10 0.04
45 18 0.08
46 49 0.20
47 25 0.10
48 50 0.21
49 35 0.15
50 44 0.18
51 4 0.02
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTG
Found at i:20550432 original size:40 final size:40
Alignment explanation
Indices: 20550311--20550425 Score: 169
Period size: 40 Copynumber: 2.9 Consensus size: 40
20550301 TGATACTTGA
*
20550311 GGAATGTTATCCAGGCTTAAAGACCCGCAGGCTTCATGCT
1 GGAATGTTATCCAGGCTTAAAGACCCGCAGGCTACATGCT
* *
20550351 GGAAT-TGTATCCGGGCTTAAAGACCCGCAGGCTATATGCT
1 GGAATGT-TATCCAGGCTTAAAGACCCGCAGGCTACATGCT
* *
20550391 GGAATGTTATCCAGGCTTAAAGATCTGCAGGCTAC
1 GGAATGTTATCCAGGCTTAAAGACCCGCAGGCTAC
20550426 GAGCTGGTAT
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.02
40 64 0.97
41 1 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
GGAATGTTATCCAGGCTTAAAGACCCGCAGGCTACATGCT
Found at i:20563383 original size:40 final size:40
Alignment explanation
Indices: 20563339--20563460 Score: 160
Period size: 40 Copynumber: 3.0 Consensus size: 40
20563329 TGATACTTGA
*
20563339 GGAATGTTATCTGGGAC-TAAAGACCCGCAGGCTTCGTGCT
1 GGAATGTTATCCGGG-CTTAAAGACCCGCAGGCTTCGTGCT
*
20563379 GGAAT-TGTATCCGGGCTTAAAGACCCGCAGGCTAT-ATGCT
1 GGAATGT-TATCCGGGCTTAAAGACCCGCAGGCT-TCGTGCT
* *
20563419 GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTACGAGCT
1 GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCT
20563459 GG
1 GG
20563461 TATTATACCG
Statistics
Matches: 72, Mismatches: 5, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
39 2 0.03
40 68 0.94
41 2 0.03
ACGTcount: A:0.24, C:0.23, G:0.30, T:0.23
Consensus pattern (40 bp):
GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCT
Found at i:20576656 original size:13 final size:13
Alignment explanation
Indices: 20576619--20576650 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
20576609 CCTCTCTCAT
20576619 TCTCTCCT-AAAA
1 TCTCTCCTCAAAA
20576631 TCTCTCCTCAAAA
1 TCTCTCCTCAAAA
20576644 TC-CTCCT
1 TCTCTCCT
20576651 TGAAAACGGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 13 0.68
13 6 0.32
ACGTcount: A:0.25, C:0.41, G:0.00, T:0.34
Consensus pattern (13 bp):
TCTCTCCTCAAAA
Found at i:20578133 original size:46 final size:46
Alignment explanation
Indices: 20578083--20578295 Score: 363
Period size: 46 Copynumber: 4.6 Consensus size: 46
20578073 TGGTTGAGCA
*
20578083 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
*
20578129 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
20578175 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
20578221 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
20578267 CCCGAGCTCGTTGAGTTGAGTCCGAGTTC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC
20578296 NNNNNNNNNN
Statistics
Matches: 163, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 163 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:20586907 original size:53 final size:53
Alignment explanation
Indices: 20586827--20586931 Score: 140
Period size: 53 Copynumber: 2.0 Consensus size: 53
20586817 ATCCTTTTAA
* * * *
20586827 AACTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCC-TTGCCTTATG
1 AACTCACCAATGCCATGCCTCGACATGGTCTTACATGGGA-CCTTTGCCTTATG
* *
20586880 AACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTAT
1 AACTCACCAATGCCATGCCTCGACATGGTCTTACATGGGACCTTTGCCTTAT
20586932 AGTAACTTAT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
52 2 0.04
53 43 0.96
ACGTcount: A:0.21, C:0.28, G:0.18, T:0.33
Consensus pattern (53 bp):
AACTCACCAATGCCATGCCTCGACATGGTCTTACATGGGACCTTTGCCTTATG
Found at i:20595929 original size:48 final size:48
Alignment explanation
Indices: 20595808--20596216 Score: 223
Period size: 48 Copynumber: 8.7 Consensus size: 48
20595798 TAGGGTATAA
* * * * *
20595808 TGCCGATGCCATGTCCCAAACATGGTCTTACACT-AGCTCTTACATATCCA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGA-CACCT-C-TATACG
* ** *
20595858 TGTCGATGCCATGTCTTAAACATGGTCTTACACTGACACCTCTATACG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTATACG
* *
20595906 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGAGACCTCTACACG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTATACG
* * * * * *
20595954 TGCCAATACCATATCCCAGAGATGGTCTTACACTAACACATCT-T--G
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTATACG
* * * *
20595999 TAGCTGATG-CATGTCCCAGACATAGTCTTACACTAACACATC--T-CG
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTATACG
* * * * * * **
20596044 TAGCTGATG-CATGTCCTAGATAT-GTTTTACACTGGCTTACTTCTCGA-G
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACTGAC--ACCTCTATACG
*
20596092 -GCCGATG-CATGTCCCAGACAT-GTCTTACACT-AGCTCTCGTCTCA-A--
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGA-CAC-C-TCT-ATACG
* * * * * *
20596137 TGCCAACGCGATGTCCCAAACATGGTCTTACACTGGC-TCTC-ATAACG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTAT-ACG
20596184 TGGCCGATG-CATGTCCCAGACAT-GTCTTACACT
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACT
20596217 AGCACACAAT
Statistics
Matches: 286, Mismatches: 52, Indels: 46
0.74 0.14 0.12
Matches are distributed among these distances:
43 1 0.00
44 12 0.04
45 57 0.20
46 56 0.20
47 25 0.09
48 99 0.35
49 1 0.00
50 34 0.12
51 1 0.00
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.28
Consensus pattern (48 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTATACG
Found at i:20596028 original size:45 final size:44
Alignment explanation
Indices: 20595967--20596123 Score: 181
Period size: 45 Copynumber: 3.5 Consensus size: 44
20595957 CAATACCATA
* *
20595967 TCCCAGAGATGGTCTTACACTAACACATCTTGTAGCTGATGCATG
1 TCCCAGACAT-GTCTTACACTAACACATCTCGTAGCTGATGCATG
20596012 TCCCAGACATAGTCTTACACTAACACATCTCGTAGCTGATGCATG
1 TCCCAGACAT-GTCTTACACTAACACATCTCGTAGCTGATGCATG
* * * ** * *
20596057 TCCTAGATATGTTTTACACTGGCTTACTTCTCG-AGGCCGATGCATG
1 TCCCAGACATGTCTTACACTAAC--ACATCTCGTA-GCTGATGCATG
20596103 TCCCAGACATGTCTTACACTA
1 TCCCAGACATGTCTTACACTA
20596124 GCTCTCGTCT
Statistics
Matches: 95, Mismatches: 14, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
44 10 0.11
45 51 0.54
46 34 0.36
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (44 bp):
TCCCAGACATGTCTTACACTAACACATCTCGTAGCTGATGCATG
Found at i:20596153 original size:47 final size:46
Alignment explanation
Indices: 20596098--20596219 Score: 138
Period size: 47 Copynumber: 2.6 Consensus size: 46
20596088 CGAGGCCGAT
* **
20596098 GCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAAT-GCCAAC
1 GCATGTCCCAGACATGTCTTACACTAGCTCTCATAAC-ATGGCCAAC
* * * * *
20596144 GCGATGTCCCAAACATGGTCTTACACTGGCTCTCATAACGTGGCCGAT
1 GC-ATGTCCCAGACAT-GTCTTACACTAGCTCTCATAACATGGCCAAC
20596192 GCATGTCCCAGACATGTCTTACACTAGC
1 GCATGTCCCAGACATGTCTTACACTAGC
20596220 ACACAATATC
Statistics
Matches: 63, Mismatches: 10, Indels: 6
0.80 0.13 0.08
Matches are distributed among these distances:
46 14 0.22
47 25 0.40
48 24 0.38
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.25
Consensus pattern (46 bp):
GCATGTCCCAGACATGTCTTACACTAGCTCTCATAACATGGCCAAC
Found at i:20597744 original size:22 final size:22
Alignment explanation
Indices: 20597719--20597799 Score: 76
Period size: 23 Copynumber: 3.6 Consensus size: 22
20597709 TGAGTTGATA
*
20597719 AACATTAAGCTCTATTGAGCTG
1 AACAGTAAGCTCTATTGAGCTG
*
20597741 AACAGTAAACTCT-TTCGAGCTG
1 AACAGTAAGCTCTATT-GAGCTG
* *
20597763 AATCGGTAAGCTAC-AATGAGCTG
1 AA-CAGTAAGCT-CTATTGAGCTG
20597786 AAACAGTAAGCTCT
1 -AACAGTAAGCTCT
20597800 TACGTGCTAT
Statistics
Matches: 47, Mismatches: 6, Indels: 11
0.73 0.09 0.17
Matches are distributed among these distances:
21 2 0.04
22 20 0.43
23 21 0.45
24 4 0.09
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.26
Consensus pattern (22 bp):
AACAGTAAGCTCTATTGAGCTG
Found at i:20605139 original size:48 final size:47
Alignment explanation
Indices: 20605082--20605411 Score: 240
Period size: 48 Copynumber: 6.9 Consensus size: 47
20605072 GGTGAATTGT
* * *
20605082 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATGTCGAGGT
1 CGATGCCATGTTCCAGACATGGTCTTACACTGGCTCACATATC-AGGC
* * * ** * * * *
20605130 TGATGCCATGTCCCAGACATGGTCCTACACCAGCTCTCATCTCAATGT
1 CGATGCCATGTTCCAGACATGGTCTTACACTGGCTCACATATC-AGGC
* * * * **
20605178 CGTTGTCATG-TCCTAGACATGGTCTTACACTAG--CGCATATCAATAC
1 CGATGCCATGTTCC-AGACATGGTCTTACACTGGCTCACATATC-AGGC
* * * * * *
20605224 TGATGCCATG-TCTCAGACATGGTCTTACATTGGCTCTCACAACATCGC
1 CGATGCCATGTTC-CAGACATGGTCTTACACTGGCTCACATATCA-GGC
* *
20605272 CGATGCCATGTTCTAAACATGGTCTTACACTGGCTCTCACAATATC--GC
1 CGATGCCATGTTCCAGACATGGTCTTACACTGG--CTCAC-ATATCAGGC
* * *
20605320 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCGTGGC
1 CGATGCCATGTTCCAGACATGGTCTTACACTGGCTCACATATC-AGGC
* * *
20605368 CGATGCCATGTCCCAGACATAGTCTTACACTGGCACACATATCA
1 CGATGCCATGTTCCAGACATGGTCTTACACTGGCTCACATATCA
20605412 CTTAAATGTC
Statistics
Matches: 225, Mismatches: 45, Indels: 25
0.76 0.15 0.08
Matches are distributed among these distances:
45 5 0.02
46 39 0.17
47 4 0.02
48 168 0.75
49 2 0.01
50 4 0.02
51 3 0.01
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.28
Consensus pattern (47 bp):
CGATGCCATGTTCCAGACATGGTCTTACACTGGCTCACATATCAGGC
Found at i:20605242 original size:46 final size:45
Alignment explanation
Indices: 20605130--20605252 Score: 122
Period size: 46 Copynumber: 2.6 Consensus size: 45
20605120 ATGTCGAGGT
* * * *
20605130 TGATGCCATGTCCCAGACATGGTCCTACACCAGCTCTCATCTCAATG
1 TGATGCCATGT-CCAGACATGGTCTTACACCAGC-CGCATATCAATC
* * *
20605177 TCGTTGTCATGTCCTAGACATGGTCTTACACTAG-CGCATATCAATAC
1 T-GATGCCATGTCC-AGACATGGTCTTACACCAGCCGCATATCAAT-C
20605224 TGATGCCATGTCTCAGACATGGTCTTACA
1 TGATGCCATGTC-CAGACATGGTCTTACA
20605253 TTGGCTCTCA
Statistics
Matches: 63, Mismatches: 9, Indels: 9
0.78 0.11 0.11
Matches are distributed among these distances:
46 33 0.52
47 5 0.08
48 25 0.40
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.29
Consensus pattern (45 bp):
TGATGCCATGTCCAGACATGGTCTTACACCAGCCGCATATCAATC
Found at i:20612993 original size:23 final size:23
Alignment explanation
Indices: 20612966--20613041 Score: 68
Period size: 23 Copynumber: 3.2 Consensus size: 23
20612956 TGGCTCTCAC
20612966 AACATTGCTGATGCCATGTTCCA
1 AACATTGCTGATGCCATGTTCCA
* *
20612989 AACATGGTCT--T-CCACTGGCTCTCA
1 AACATTG-CTGATGCCA-T-GTTC-CA
20613013 CAACATTGCTGATGCCATGTTCCA
1 -AACATTGCTGATGCCATGTTCCA
20613037 AACAT
1 AACAT
20613042 GGTCTTACAC
Statistics
Matches: 41, Mismatches: 4, Indels: 16
0.67 0.07 0.26
Matches are distributed among these distances:
21 3 0.07
22 2 0.05
23 14 0.34
24 8 0.20
25 9 0.22
26 2 0.05
27 3 0.07
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.29
Consensus pattern (23 bp):
AACATTGCTGATGCCATGTTCCA
Found at i:20613113 original size:25 final size:24
Alignment explanation
Indices: 20613037--20613114 Score: 63
Period size: 25 Copynumber: 3.2 Consensus size: 24
20613027 CCATGTTCCA
*
20613037 AACATGGTCTTACACTGGCTCTTAC
1 AACATGGTCTTACA-TGGCTCTCAC
* * *
20613062 AACATCGCCTATGCCAT-GCTC-CA-
1 AACATGGTCT-T-ACATGGCTCTCAC
20613085 AACATGGTCTTACATTGGCTCTCAC
1 AACATGGTCTTACA-TGGCTCTCAC
20613110 AACAT
1 AACAT
20613115 CACTGATGCC
Statistics
Matches: 40, Mismatches: 7, Indels: 12
0.68 0.12 0.20
Matches are distributed among these distances:
21 2 0.05
22 2 0.05
23 12 0.30
24 3 0.08
25 17 0.43
26 2 0.05
27 2 0.05
ACGTcount: A:0.27, C:0.31, G:0.14, T:0.28
Consensus pattern (24 bp):
AACATGGTCTTACATGGCTCTCAC
Found at i:20613197 original size:48 final size:48
Alignment explanation
Indices: 20612738--20613199 Score: 481
Period size: 48 Copynumber: 9.7 Consensus size: 48
20612728 GTCGAGGCCA
* * * * * *
20612738 ATGCCATGTCACAGACATGGTCTTACACTAGCTCTCGTC-TCAAT-ACCG
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTC-ACAAC-ATCGCCG
* * ** *
20612786 ATGCCATGTACCAAACATGGTCTTACACTGGCTCTCATAATGTGGCCG
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCACAACATCGCCG
* * * *
20612834 ATGCCATGTCCCATACATGGTCTTACACTAGCGCAT-ATCAATAT---CG
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTC-TCA-CAACATCGCCG
* ** *
20612880 ATGCCATGTCCCAGACATGGTCCCACATTGGCTCTCACAACATCGCCG
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCACAACATCGCCG
* * * *
20612928 ATGCCATGTTCCAAACATGGTCTTCCACTGGCTCTCACAACATTGCTG
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCACAACATCGCCG
* * * *
20612976 ATGCCATGTTCCAAACATGGTCTTCCACTGGCTCTCACAACATTGCTG
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCACAACATCGCCG
* * *
20613024 ATGCCATGTTCCAAACATGGTCTTACACTGGCTCTTACAACATCGCCT
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCACAACATCGCCG
* * *
20613072 ATGCCATG-CTCCAAACATGGTCTTACATTGGCTCTCACAACATCACTG
1 ATGCCATGTC-CCAAACATGGTCTTACACTGGCTCTCACAACATCGCCG
* * *
20613120 ATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCA-AATCGTGGCCG
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCACAA-CATCGCCG
*
20613168 ATGCCATGTCCCAAACATAGTCTTACACTGGC
1 ATGCCATGTCCCAAACATGGTCTTACACTGGC
20613200 ACACATATCA
Statistics
Matches: 353, Mismatches: 50, Indels: 22
0.83 0.12 0.05
Matches are distributed among these distances:
45 6 0.02
46 31 0.09
47 3 0.01
48 308 0.87
49 5 0.01
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.27
Consensus pattern (48 bp):
ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCACAACATCGCCG
Found at i:20624516 original size:34 final size:34
Alignment explanation
Indices: 20624468--20624540 Score: 94
Period size: 34 Copynumber: 2.1 Consensus size: 34
20624458 CATTTCTATT
* * *
20624468 ACTGTTATTGAAATGGGCTAAGGCCC-ACACTGAC
1 ACTGATATTGAAATGGGATAAGGCCCTA-ACTGAA
*
20624502 ACTGATATTGAAATGGGATATGGCCCTAACTGAA
1 ACTGATATTGAAATGGGATAAGGCCCTAACTGAA
20624536 ACTGA
1 ACTGA
20624541 ACTATCACTA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
34 33 0.97
35 1 0.03
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (34 bp):
ACTGATATTGAAATGGGATAAGGCCCTAACTGAA
Found at i:20626889 original size:13 final size:14
Alignment explanation
Indices: 20626871--20626899 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
20626861 TCTATTTAAT
20626871 AATTTTT-TTCTAG
1 AATTTTTGTTCTAG
20626884 AATTTTTGTTCTAG
1 AATTTTTGTTCTAG
20626898 AA
1 AA
20626900 AATTAGTACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.28, C:0.07, G:0.10, T:0.55
Consensus pattern (14 bp):
AATTTTTGTTCTAG
Found at i:20628060 original size:46 final size:45
Alignment explanation
Indices: 20627956--20628088 Score: 155
Period size: 46 Copynumber: 2.9 Consensus size: 45
20627946 TGTAACCCGC
*
20627956 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG-ATGCCAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAATGCCAG-T
* *** *
20628001 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCA-T
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGGA-ATGC-CAGT
20628048 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG-ATGCC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAATGCC
20628089 CAAATATCCT
Statistics
Matches: 73, Mismatches: 11, Indels: 10
0.78 0.12 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.04
45 4 0.05
46 55 0.75
47 5 0.07
48 3 0.04
49 2 0.03
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAATGCCAGT
Found at i:20628103 original size:46 final size:44
Alignment explanation
Indices: 20627961--20628103 Score: 116
Period size: 46 Copynumber: 3.1 Consensus size: 44
20627951 CCCGCCCATA
*
20627961 AGTGAACTCGGACTCAACTCAACGAGCTCGGATG-CCAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---A-ATC-CT
* * *
20628009 --CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC--ATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCAAATCC-T
20628052 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AA-ATCCT
20628099 AGTGA
1 AGTGA
20628104 CATGTCACTT
Statistics
Matches: 77, Mismatches: 7, Indels: 24
0.71 0.06 0.22
Matches are distributed among these distances:
42 1 0.01
43 4 0.05
44 4 0.05
46 60 0.78
47 1 0.01
48 6 0.08
49 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATCCT
Found at i:20630515 original size:30 final size:30
Alignment explanation
Indices: 20630471--20630559 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
20630461 CAAAGATAAC
20630471 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
20630500 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
20630530 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
20630560 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:20630519 original size:15 final size:15
Alignment explanation
Indices: 20630471--20630550 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
20630461 CAAAGATAAC
*
20630471 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
20630485 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
20630500 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
20630515 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
20630530 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
20630545 AAGAAA
1 AAGAAA
20630551 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:20630559 original size:15 final size:15
Alignment explanation
Indices: 20630482--20630559 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
20630472 AGAAAACCGA
20630482 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
20630497 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
20630511 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
20630526 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
20630542 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
20630557 ATA
1 ATA
20630560 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:20633611 original size:93 final size:93
Alignment explanation
Indices: 20633499--20633669 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
20633489 GCCCATAAGT
* *
20633499 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
20633564 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
20633592 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
20633657 CGAGTTCGGATGC
66 CGAGCTCGGATGC
20633670 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:20633666 original size:46 final size:46
Alignment explanation
Indices: 20633491--20633666 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
20633481 TGTAACCCGC
* *
20633491 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
20633537 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
20633583 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
20633630 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
20633667 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 70 0.63
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:20645956 original size:43 final size:43
Alignment explanation
Indices: 20645903--20646082 Score: 209
Period size: 43 Copynumber: 4.2 Consensus size: 43
20645893 AAAACTCCAC
** * ** *
20645903 AAAAGATCATGACTTTTAGCAACGTTTGTTGGAAAAGCGCCGCT
1 AAAAG-TCATGACTTTTAGCGGCGTTTGTGGGGGAAGCGCTGCT
* * **
20645947 AAAAGTCATGGA-TTTTAGCGGTGTTTTTGGGGGAAGTTCTGCT
1 AAAAGTCAT-GACTTTTAGCGGCGTTTGTGGGGGAAGCGCTGCT
* * *
20645990 AAAAGTCATGGCTTTTAGCGGCGTTTGTGGGGGAAGCACTGGT
1 AAAAGTCATGACTTTTAGCGGCGTTTGTGGGGGAAGCGCTGCT
*
20646033 AAAAGTCATGGCTTTTAGCGGCGTTTGTGGGGGAAGCGCTGCT
1 AAAAGTCATGACTTTTAGCGGCGTTTGTGGGGGAAGCGCTGCT
20646076 AAAAGTC
1 AAAAGTC
20646083 TTTTGTTACA
Statistics
Matches: 116, Mismatches: 18, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
42 1 0.01
43 108 0.93
44 7 0.06
ACGTcount: A:0.24, C:0.14, G:0.32, T:0.29
Consensus pattern (43 bp):
AAAAGTCATGACTTTTAGCGGCGTTTGTGGGGGAAGCGCTGCT
Found at i:20646495 original size:21 final size:21
Alignment explanation
Indices: 20646471--20646520 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
20646461 TCTGCTACAA
*
20646471 TCGCTACTACCTCTACCTCCC
1 TCGCTACTACCGCTACCTCCC
* ** *
20646492 TCGCTGCCGCCGCTGCCTCCC
1 TCGCTACTACCGCTACCTCCC
20646513 TCGCTACT
1 TCGCTACT
20646521 GCATCCGCTC
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.08, C:0.52, G:0.14, T:0.26
Consensus pattern (21 bp):
TCGCTACTACCGCTACCTCCC
Found at i:20652040 original size:13 final size:13
Alignment explanation
Indices: 20652022--20652051 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
20652012 TATGTTATGA
20652022 TATGATATATATT
1 TATGATATATATT
20652035 TATGATATATATT
1 TATGATATATATT
20652048 TATG
1 TATG
20652052 TATTATGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (13 bp):
TATGATATATATT
Found at i:20652301 original size:16 final size:17
Alignment explanation
Indices: 20652280--20652311 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
20652270 GACAATGTGG
20652280 AAAATCACAT-GAAAAA
1 AAAATCACATGGAAAAA
20652296 AAAATCACATGGAAAA
1 AAAATCACATGGAAAA
20652312 TCACATGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.66, C:0.12, G:0.09, T:0.12
Consensus pattern (17 bp):
AAAATCACATGGAAAAA
Found at i:20653137 original size:12 final size:12
Alignment explanation
Indices: 20653116--20653156 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
20653106 CTTAGAAATT
20653116 GTAAATTGGATG
1 GTAAATTGGATG
*
20653128 GTAAAGTGGAT-
1 GTAAATTGGATG
20653139 -TAAATTGGATG
1 GTAAATTGGATG
*
20653150 GCAAATT
1 GTAAATT
20653157 AAATTACACC
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
10 9 0.38
12 15 0.62
ACGTcount: A:0.37, C:0.02, G:0.29, T:0.32
Consensus pattern (12 bp):
GTAAATTGGATG
Found at i:20653162 original size:22 final size:22
Alignment explanation
Indices: 20653117--20653162 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
20653107 TTAGAAATTG
* **
20653117 TAAATTGGATGGTAAAGTGGAT
1 TAAATTGGATGGCAAAGTAAAT
*
20653139 TAAATTGGATGGCAAATTAAAT
1 TAAATTGGATGGCAAAGTAAAT
20653161 TA
1 TA
20653163 CACCTGCAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.41, C:0.02, G:0.24, T:0.33
Consensus pattern (22 bp):
TAAATTGGATGGCAAAGTAAAT
Found at i:20655297 original size:29 final size:28
Alignment explanation
Indices: 20655252--20655312 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 28
20655242 CATATGAAAC
* *
20655252 TTATTTTTTAAAATTTAGGGTTTATGGT
1 TTATTTTTTAAAATTTAAGATTTATGGT
*
20655280 TTATTTTTTAAGATTTTAAGATTTATGGT
1 TTATTTTTTAA-AATTTAAGATTTATGGT
20655309 TTAT
1 TTAT
20655313 AGTTTAGGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 11 0.38
29 18 0.62
ACGTcount: A:0.26, C:0.00, G:0.15, T:0.59
Consensus pattern (28 bp):
TTATTTTTTAAAATTTAAGATTTATGGT
Found at i:20655371 original size:20 final size:19
Alignment explanation
Indices: 20655339--20655378 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
20655329 TTAAGGTCTA
20655339 TAGTTTATGGGTTTAGAGGT
1 TAGTTTATGGGTTTA-AGGT
20655359 TAGTGTTAT-GGTTTAAGGT
1 TAGT-TTATGGGTTTAAGGT
20655378 T
1 T
20655379 TAGGGGGTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.26
20 10 0.53
21 4 0.21
ACGTcount: A:0.20, C:0.00, G:0.33, T:0.47
Consensus pattern (19 bp):
TAGTTTATGGGTTTAAGGT
Found at i:20656461 original size:111 final size:111
Alignment explanation
Indices: 20656263--20656602 Score: 331
Period size: 111 Copynumber: 3.0 Consensus size: 111
20656253 GACCTATAGC
** * * * ** * **
20656263 GGCGCTTT-CTGAAAAATGCCGCTAATACTCTATCTTTTGTGGCATTTTTAAGGCAGCACCGCTA
1 GGCGCTTTCCT-AAAAACACCGCTAATGCTCGATCTATTGCAGCATTATTAAGAAAGCACCGCTA
* *
20656327 ATGCCACTGAAGCTCAAAATAAACGACGTCGTTCGGCTTAATCTTTT
65 ATGCCACAGAAGCTCAATATAAACGACGTCGTTCGGCTTAATCTTTT
* * * * *
20656374 GGCGCTTTCCTAGAAACACTGTTAATGCTCGATCTATTGCAGCATTATTAGGAAAGCGCCGCTAA
1 GGCGCTTTCCTAAAAACACCGCTAATGCTCGATCTATTGCAGCATTATTAAGAAAGCACCGCTAA
* * * *
20656439 TTCCACAGAAGCTCAATTTAAACGACGTCGTTCAGCTTAATATTTT
66 TGCCACAGAAGCTCAATATAAACGACGTCGTTCGGCTTAATCTTTT
* * * ** *
20656485 AGCAGCGCTTTCTTAAAAACACCGCTATTGCTCGATCTATTGCGGTGTTTTTAAGAAAGCACCGC
1 -G--GCGCTTTCCTAAAAACACCGCTAATGCTCGATCTATTGCAGCATTATTAAGAAAGCACCGC
* * * * * * *
20656550 TAATGCCACGGAAGCTCAATGTAAAAGATGTTGTTTGGCTGAATCTTTT
63 TAATGCCACAGAAGCTCAATATAAACGACGTCGTTCGGCTTAATCTTTT
20656599 GGCG
1 GGCG
20656603 GCGTTTTTTG
Statistics
Matches: 183, Mismatches: 42, Indels: 8
0.79 0.18 0.03
Matches are distributed among these distances:
111 90 0.49
112 3 0.02
113 1 0.01
114 89 0.49
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (111 bp):
GGCGCTTTCCTAAAAACACCGCTAATGCTCGATCTATTGCAGCATTATTAAGAAAGCACCGCTAA
TGCCACAGAAGCTCAATATAAACGACGTCGTTCGGCTTAATCTTTT
Found at i:20669099 original size:43 final size:42
Alignment explanation
Indices: 20669007--20669146 Score: 133
Period size: 43 Copynumber: 3.3 Consensus size: 42
20668997 TGTGATTACA
20669007 TGTAAGACCATGTCTGGGACATTGGCATTGTATTGAGATTATG
1 TGTAAGACCATGTCTGGGACATTGGCATTGTATT-AGATTATG
* *
20669050 TCTAAGACCAAGTCTGGGACATTGGCATCAT-TAATT-GATT-TCG
1 TGTAAGACCATGTCTGGGACATTGGCAT--TGT-ATTAGATTAT-G
* * * * **
20669093 TGTAAGACCCTGTCTGGGACAGTGGCATTGATAGTAGATAACA
1 TGTAAGACCATGTCTGGGACATTGGCATTG-TATTAGATTATG
20669136 TGTAAGACCAT
1 TGTAAGACCAT
20669147 ATATGGAATA
Statistics
Matches: 78, Mismatches: 11, Indels: 16
0.74 0.10 0.15
Matches are distributed among these distances:
41 1 0.01
42 3 0.04
43 69 0.88
44 1 0.01
45 4 0.05
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.31
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATTGGCATTGTATTAGATTATG
Found at i:20671343 original size:22 final size:23
Alignment explanation
Indices: 20671299--20671343 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
20671289 ACTTGTACAA
* * *
20671299 CTTTTTTTTATATTTTCGTAATT
1 CTTTTTTTAATAGTTCCGTAATT
20671322 CTTTTTTTAATAGTTCCG-AATT
1 CTTTTTTTAATAGTTCCGTAATT
20671344 TTTGAACTTC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.20, C:0.11, G:0.07, T:0.62
Consensus pattern (23 bp):
CTTTTTTTAATAGTTCCGTAATT
Found at i:20684234 original size:93 final size:93
Alignment explanation
Indices: 20684126--20684300 Score: 316
Period size: 93 Copynumber: 1.9 Consensus size: 93
20684116 CGCCCATAAG
*
20684126 CGAACTCAGACTCAACTCAATGAGCTCA-AGCATTCGCATCCATAAGTGAACTCGGACTCAACTT
1 CGAACTCAGACTCAACTCAACGAGCTCAGA-CATTCGCATCCATAAGTGAACTCGGACTCAACTT
20684190 AACGAGTTCGGATGCCTAGTTACATTTCA
65 AACGAGTTCGGATGCCTAGTTACATTTCA
*
20684219 CGAACTCAGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTTA
1 CGAACTCAGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTTA
20684284 ACGAGTTCGGATGCCTA
66 ACGAGTTCGGATGCCTA
20684301 AATATCCCAG
Statistics
Matches: 79, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
93 78 0.99
94 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.23
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTTA
ACGAGTTCGGATGCCTAGTTACATTTCA
Found at i:20684287 original size:46 final size:46
Alignment explanation
Indices: 20684119--20684291 Score: 149
Period size: 46 Copynumber: 3.7 Consensus size: 46
20684109 TGTAACCCGC
* *
20684119 CCATAAGCGAACTCAGACTCAACTCAATGAGCTCA-AGCATTCGCAT
1 CCATAAGCGAACTCAGACTCAACTCAACGAGTTCAGA-CATTCGCAT
* * * * *
20684165 CCATAAGTGAACTCGGACTCAACTTAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCAGACTCAACTCAACGAGTTC--A-GAC-A-TTCGCAT
* *
20684215 --TTCA-CGAACTCAGACTCAACTCAACGAGTTCAGACATTCGCAT
1 CCATAAGCGAACTCAGACTCAACTCAACGAGTTCAGACATTCGCAT
* * *
20684258 CCATAAGTGAACTCGGACTCAACTTAACGAGTTC
1 CCATAAGCGAACTCAGACTCAACTCAACGAGTTC
20684292 GGATGCCTAA
Statistics
Matches: 98, Mismatches: 19, Indels: 20
0.72 0.14 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 3 0.03
46 53 0.54
47 24 0.24
48 3 0.03
49 1 0.01
50 4 0.04
51 2 0.02
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (46 bp):
CCATAAGCGAACTCAGACTCAACTCAACGAGTTCAGACATTCGCAT
Found at i:20684313 original size:46 final size:46
Alignment explanation
Indices: 20684170--20684313 Score: 114
Period size: 46 Copynumber: 3.1 Consensus size: 46
20684160 CGCATCCATA
* **
20684170 AGTGAACTCGGACTCAACTTAACGAGTTCGGATGCCTAGTTACATTTC
1 AGTGAACTCGGACTCAACTTAACGAGTTCGGATGCCTA--AACATCCC
* * * * * *** *
20684218 A-CGAACTCAGACTCAACTCAACGAGTTCAGA--CATTCGCATCCATA
1 AGTGAACTCGGACTCAACTTAACGAGTTCGGATGCCTAAACATCC--C
*
20684263 AGTGAACTCGGACTCAACTTAACGAGTTCGGATGCCTAAATATCCC
1 AGTGAACTCGGACTCAACTTAACGAGTTCGGATGCCTAAACATCCC
20684309 AGTGA
1 AGTGA
20684314 CATGTCACTT
Statistics
Matches: 70, Mismatches: 21, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
43 3 0.04
45 3 0.04
46 31 0.44
47 26 0.37
48 7 0.10
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTTAACGAGTTCGGATGCCTAAACATCCC
Found at i:20687205 original size:99 final size:99
Alignment explanation
Indices: 20687070--20687259 Score: 353
Period size: 99 Copynumber: 1.9 Consensus size: 99
20687060 TCTAAGAATG
*
20687070 GGTAAACACATAGAACATCTCAAAAGAGACTGCTAAATCTGTCCAGTCATAACTGTCACACTCAG
1 GGTAAACACATAGAACATCTCAAAAGAGACTACTAAATCTGTCCAGTCATAACTGTCACACTCAG
20687135 ATAGTTCACATTTCAAATATCATTTCTGAGAACA
66 ATAGTTCACATTTCAAATATCATTTCTGAGAACA
*
20687169 GGTAAACACATAGAACATCTCAAAAGAGACTACTAAATCTGTCCAGTCATAACTGTCGCACTCAG
1 GGTAAACACATAGAACATCTCAAAAGAGACTACTAAATCTGTCCAGTCATAACTGTCACACTCAG
*
20687234 ATAGTTCACATTTCAATTATCATTTC
66 ATAGTTCACATTTCAAATATCATTTC
20687260 CCCAACTAGT
Statistics
Matches: 88, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
99 88 1.00
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.27
Consensus pattern (99 bp):
GGTAAACACATAGAACATCTCAAAAGAGACTACTAAATCTGTCCAGTCATAACTGTCACACTCAG
ATAGTTCACATTTCAAATATCATTTCTGAGAACA
Found at i:20689491 original size:39 final size:39
Alignment explanation
Indices: 20689448--20689526 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
20689438 TTCGGATACA
20689448 TGGAAAGTTTGCACATAAGTGCCACATATGTAGCCAAGC
1 TGGAAAGTTTGCACATAAGTGCCACATATGTAGCCAAGC
*
20689487 TGGAATGTTTGCACATAAGTGCCACATATGTAGCCAAGC
1 TGGAAAGTTTGCACATAAGTGCCACATATGTAGCCAAGC
20689526 T
1 T
20689527 ACCATGTAAC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (39 bp):
TGGAAAGTTTGCACATAAGTGCCACATATGTAGCCAAGC
Found at i:20697670 original size:16 final size:16
Alignment explanation
Indices: 20697651--20697687 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
20697641 TGTGAGTTCT
20697651 TCAGTCTGCAAGCTCA
1 TCAGTCTGCAAGCTCA
* *
20697667 TCAGCCTGTAAGCTCA
1 TCAGTCTGCAAGCTCA
20697683 TCAGT
1 TCAGT
20697688 TGCCTTAACA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (16 bp):
TCAGTCTGCAAGCTCA
Found at i:20698268 original size:13 final size:13
Alignment explanation
Indices: 20698250--20698275 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
20698240 TAAACTCTAC
20698250 TTTCAAGTTATGT
1 TTTCAAGTTATGT
20698263 TTTCAAGTTATGT
1 TTTCAAGTTATGT
20698276 ATTACACGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.15, T:0.54
Consensus pattern (13 bp):
TTTCAAGTTATGT
Found at i:20700476 original size:26 final size:27
Alignment explanation
Indices: 20700432--20700490 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
20700422 AAATGGTAAA
* *
20700432 ATGAAATGTTTAGAAG-AAATTGTTAT
1 ATGAAATGTTTAGAAGAAAATAGATAT
** *
20700458 ATGAAATGTTTTTATGAAAATAGATAT
1 ATGAAATGTTTAGAAGAAAATAGATAT
20700485 ATGAAA
1 ATGAAA
20700491 CTGATATATG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 13 0.48
27 14 0.52
ACGTcount: A:0.46, C:0.00, G:0.17, T:0.37
Consensus pattern (27 bp):
ATGAAATGTTTAGAAGAAAATAGATAT
Found at i:20701761 original size:17 final size:17
Alignment explanation
Indices: 20701739--20701773 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
20701729 AAGAAGTATG
20701739 AAATGCTAAGTAGTTAC
1 AAATGCTAAGTAGTTAC
20701756 AAATGCTAAGTAGTTAC
1 AAATGCTAAGTAGTTAC
20701773 A
1 A
20701774 CTTTGATGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.43, C:0.11, G:0.17, T:0.29
Consensus pattern (17 bp):
AAATGCTAAGTAGTTAC
Found at i:20705456 original size:16 final size:16
Alignment explanation
Indices: 20705435--20705469 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
20705425 AGAGAGGGAG
20705435 TAAACATAAAGCTTAA
1 TAAACATAAAGCTTAA
20705451 TAAACATAAAGCTTAA
1 TAAACATAAAGCTTAA
20705467 TAA
1 TAA
20705470 GCTTGCATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.06, T:0.26
Consensus pattern (16 bp):
TAAACATAAAGCTTAA
Found at i:20705877 original size:48 final size:49
Alignment explanation
Indices: 20705825--20705942 Score: 143
Period size: 50 Copynumber: 2.4 Consensus size: 49
20705815 TATCCCAAGT
*
20705825 ATGGTCTTAC-TCGGGAT-TAC-AACTCGATGCCAATGCCATGTCCCAGAC
1 ATGGTCTTACAT-GGGATCT-CTAACTCGATGCCAATGCCATGTCCCAAAC
** * *
20705873 ATGGTCTTACATGGGATCTCTTATGTTGATGCCAATGTCATGTCCCAAAC
1 ATGGTCTTACATGGGATCTC-TAACTCGATGCCAATGCCATGTCCCAAAC
20705923 ATGGTCTTACATGGGATCTC
1 ATGGTCTTACATGGGATCTC
20705943 ATATCAACGC
Statistics
Matches: 61, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
48 16 0.26
49 2 0.03
50 43 0.70
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.31
Consensus pattern (49 bp):
ATGGTCTTACATGGGATCTCTAACTCGATGCCAATGCCATGTCCCAAAC
Found at i:20708055 original size:46 final size:47
Alignment explanation
Indices: 20707950--20708176 Score: 191
Period size: 46 Copynumber: 4.9 Consensus size: 47
20707940 GGGTCATTAT
* *
20707950 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGAG
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAG-G
* * *
20707998 GAGGGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTGGAGG
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGG
* *
20708043 CGTA-AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCCG-CTACGAGAT
1 -G-AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-CGAG-G
* * * * * *
20708090 GATAGTCAGTGTAAGATCATGTCTGGGACATGGCATC-GACTTGAGA
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGG
* * *
20708136 TATGAGCCAGTGTAAGACCGTGTCTAGG-CAATGGCATCGGC
1 GA-GAGCCAGTGTAAGACCATGTCTGGGAC-ATGGCATCGGC
20708177 ACCTTACCCT
Statistics
Matches: 149, Mismatches: 19, Indels: 22
0.78 0.10 0.12
Matches are distributed among these distances:
45 4 0.03
46 62 0.42
47 61 0.41
48 22 0.15
ACGTcount: A:0.26, C:0.19, G:0.33, T:0.22
Consensus pattern (47 bp):
GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGG
Found at i:20708144 original size:93 final size:93
Alignment explanation
Indices: 20707952--20708153 Score: 232
Period size: 93 Copynumber: 2.2 Consensus size: 93
20707942 GTCATTATGA
* * *
20707952 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGAGGAGGGCTAGTGTAAGACAT
1 GAGCCAGTGTAAGA-CATGTCTGGGACATGGCATCCGCATCGAGAGGAAGGCTAGTGTAAGACAT
* * *
20708017 GTCTGGGACATGCATCGGCCTGGAGGCGT
65 GTCTGGGACATGCATCGGACTGGAGACAT
* * *
20708046 AAGCCAGTGTAAGACATGTCTGGGACAT-GCATCCGC-TACGAGATGATAGTC-AGTGTAAGATC
1 GAGCCAGTGTAAGACATGTCTGGGACATGGCATCCGCAT-CGAGAGGA-AGGCTAGTGTAAGA-C
* *
20708108 ATGTCTGGGACATGGCATC-GACTTGAGATAT
63 ATGTCTGGGACAT-GCATCGGACTGGAGACAT
20708139 GAGCCAGTGTAAGAC
1 GAGCCAGTGTAAGAC
20708154 CGTGTCTAGG
Statistics
Matches: 92, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
91 1 0.01
92 22 0.24
93 51 0.55
94 18 0.20
ACGTcount: A:0.27, C:0.19, G:0.33, T:0.22
Consensus pattern (93 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGGCATCCGCATCGAGAGGAAGGCTAGTGTAAGACATG
TCTGGGACATGCATCGGACTGGAGACAT
Found at i:20751562 original size:27 final size:27
Alignment explanation
Indices: 20751532--20751595 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 27
20751522 AGGGCAAAAT
*
20751532 GGTAATTTTACCCCACAACGGTATCTC
1 GGTAATTCTACCCCACAACGGTATCTC
* * ** *
20751559 GGTAGTTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCCACAACGGTATCTC
20751586 GGTAATTCTA
1 GGTAATTCTA
20751596 TCCTATAGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.33
Consensus pattern (27 bp):
GGTAATTCTACCCCACAACGGTATCTC
Found at i:20751600 original size:27 final size:27
Alignment explanation
Indices: 20751551--20751730 Score: 218
Period size: 27 Copynumber: 6.7 Consensus size: 27
20751541 ACCCCACAAC
* * *
20751551 GGTATCTCGGTAGTTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTATAGG
*
20751578 GGTATTTCGGTAATTCTATCCTATAGG
1 GGTATTTCGGTAATTCTACCCTATAGG
* * * * *
20751605 GATATTTCAGTATTTCTACCCTAAAAG
1 GGTATTTCGGTAATTCTACCCTATAGG
* * *
20751632 GGTATTTCGGTAATTCTATCCAACAGG
1 GGTATTTCGGTAATTCTACCCTATAGG
20751659 GGTATTTCGGTAA-TCTACCCTATAGG
1 GGTATTTCGGTAATTCTACCCTATAGG
**
20751685 GGTATTTCAATAATTCTACCCTATAGG
1 GGTATTTCGGTAATTCTACCCTATAGG
*
20751712 GGTATTTCGATAATTCTAC
1 GGTATTTCGGTAATTCTAC
20751731 AACTTATGCA
Statistics
Matches: 129, Mismatches: 23, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
26 21 0.16
27 108 0.84
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTATTTCGGTAATTCTACCCTATAGG
Found at i:20751717 original size:80 final size:81
Alignment explanation
Indices: 20751551--20751730 Score: 254
Period size: 80 Copynumber: 2.2 Consensus size: 81
20751541 ACCCCACAAC
* * * * *
20751551 GGTATCTCGGTAGTTCTACCCTACAGGGGTATTTCGGTAATTCTATCCTATAGGGATATTTCAGT
1 GGTATTTCGGTAATTCTACCCAACAGGGGTATTTCGGTAATTCTACCCTATAGGGATATTTCAAT
*
20751616 ATTTCTACCCTAAAAG
66 AATTCTACCCTAAAAG
* *
20751632 GGTATTTCGGTAATTCTATCCAACAGGGGTATTTCGGTAA-TCTACCCTATAGGGGTATTTCAAT
1 GGTATTTCGGTAATTCTACCCAACAGGGGTATTTCGGTAATTCTACCCTATAGGGATATTTCAAT
* *
20751696 AATTCTACCCTATAGG
66 AATTCTACCCTAAAAG
*
20751712 GGTATTTCGATAATTCTAC
1 GGTATTTCGGTAATTCTAC
20751731 AACTTATGCA
Statistics
Matches: 87, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
80 51 0.59
81 36 0.41
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (81 bp):
GGTATTTCGGTAATTCTACCCAACAGGGGTATTTCGGTAATTCTACCCTATAGGGATATTTCAAT
AATTCTACCCTAAAAG
Found at i:20752789 original size:24 final size:24
Alignment explanation
Indices: 20752757--20752802 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
20752747 CATGTCTTAC
*
20752757 GGCCGTGGCATTTTATTGTAGCAT
1 GGCCATGGCATTTTATTGTAGCAT
20752781 GGCCATGGCATTTTATTGTAGC
1 GGCCATGGCATTTTATTGTAGC
20752803 CCGTGTTGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.17, C:0.17, G:0.28, T:0.37
Consensus pattern (24 bp):
GGCCATGGCATTTTATTGTAGCAT
Found at i:20753073 original size:17 final size:17
Alignment explanation
Indices: 20753051--20753084 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
20753041 ATACTCCTCA
*
20753051 TTCCTGGTATCAATCTC
1 TTCCTGCTATCAATCTC
20753068 TTCCTGCTATCAATCTC
1 TTCCTGCTATCAATCTC
20753085 ATCAAAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.32, G:0.09, T:0.41
Consensus pattern (17 bp):
TTCCTGCTATCAATCTC
Found at i:20755206 original size:220 final size:220
Alignment explanation
Indices: 20754824--20755263 Score: 880
Period size: 220 Copynumber: 2.0 Consensus size: 220
20754814 AAACACCGGC
20754824 CGTTTTTGTTGGCTTAGTCCTCATGACTTGCCACTGATAGCTATTCAGTGACATCTCCTCTATGA
1 CGTTTTTGTTGGCTTAGTCCTCATGACTTGCCACTGATAGCTATTCAGTGACATCTCCTCTATGA
20754889 ACTCATAAGCATCTTCAGGTGTTTTATTATTGATGGTTCCGCCAGCAGCTGCGTCAACCATTTGC
66 ACTCATAAGCATCTTCAGGTGTTTTATTATTGATGGTTCCGCCAGCAGCTGCGTCAACCATTTGC
20754954 CGAGTCGAAGGATTTGGACCATTATGGAACGTTTTAACCTGAAGCCAAAACGGTAACCCATGGTG
131 CGAGTCGAAGGATTTGGACCATTATGGAACGTTTTAACCTGAAGCCAAAACGGTAACCCATGGTG
20755019 AGGGCACCTTCTCAAAAGGTCCTTG
196 AGGGCACCTTCTCAAAAGGTCCTTG
20755044 CGTTTTTGTTGGCTTAGTCCTCATGACTTGCCACTGATAGCTATTCAGTGACATCTCCTCTATGA
1 CGTTTTTGTTGGCTTAGTCCTCATGACTTGCCACTGATAGCTATTCAGTGACATCTCCTCTATGA
20755109 ACTCATAAGCATCTTCAGGTGTTTTATTATTGATGGTTCCGCCAGCAGCTGCGTCAACCATTTGC
66 ACTCATAAGCATCTTCAGGTGTTTTATTATTGATGGTTCCGCCAGCAGCTGCGTCAACCATTTGC
20755174 CGAGTCGAAGGATTTGGACCATTATGGAACGTTTTAACCTGAAGCCAAAACGGTAACCCATGGTG
131 CGAGTCGAAGGATTTGGACCATTATGGAACGTTTTAACCTGAAGCCAAAACGGTAACCCATGGTG
20755239 AGGGCACCTTCTCAAAAGGTCCTTG
196 AGGGCACCTTCTCAAAAGGTCCTTG
20755264 TATCTCTCCC
Statistics
Matches: 220, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
220 220 1.00
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.31
Consensus pattern (220 bp):
CGTTTTTGTTGGCTTAGTCCTCATGACTTGCCACTGATAGCTATTCAGTGACATCTCCTCTATGA
ACTCATAAGCATCTTCAGGTGTTTTATTATTGATGGTTCCGCCAGCAGCTGCGTCAACCATTTGC
CGAGTCGAAGGATTTGGACCATTATGGAACGTTTTAACCTGAAGCCAAAACGGTAACCCATGGTG
AGGGCACCTTCTCAAAAGGTCCTTG
Found at i:20759957 original size:13 final size:13
Alignment explanation
Indices: 20759939--20759969 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
20759929 TTATTTTCAA
20759939 GTTTTCAAGTCAT
1 GTTTTCAAGTCAT
*
20759952 GTTTTCAAGTTAT
1 GTTTTCAAGTCAT
20759965 GTTTT
1 GTTTT
20759970 ATACGTGCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.19, C:0.10, G:0.16, T:0.55
Consensus pattern (13 bp):
GTTTTCAAGTCAT
Found at i:20771009 original size:12 final size:12
Alignment explanation
Indices: 20770992--20771047 Score: 69
Period size: 12 Copynumber: 4.7 Consensus size: 12
20770982 TTCTCTCAAA
20770992 CTCTTTTTCATT
1 CTCTTTTTCATT
20771004 CTCTTTTTCAATT
1 CTCTTTTTC-ATT
*
20771017 -TCTTTTTCAAT
1 CTCTTTTTCATT
* *
20771028 CTCATTTTCACT
1 CTCTTTTTCATT
20771040 CTCTTTTT
1 CTCTTTTT
20771048 GTTCTTTTTC
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
11 2 0.05
12 33 0.87
13 3 0.08
ACGTcount: A:0.12, C:0.25, G:0.00, T:0.62
Consensus pattern (12 bp):
CTCTTTTTCATT
Found at i:20771020 original size:24 final size:24
Alignment explanation
Indices: 20770987--20771047 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
20770977 TTTTTTTCTC
* * *
20770987 TCAAACTCTTTTTCATTCTCTTTT
1 TCAATCTCTTTTTCAATCTCATTT
*
20771011 TCAATTTCTTTTTCAATCTCATTT
1 TCAATCTCTTTTTCAATCTCATTT
*
20771035 TCACTCTCTTTTT
1 TCAATCTCTTTTT
20771048 GTTCTTTTTC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.16, C:0.25, G:0.00, T:0.59
Consensus pattern (24 bp):
TCAATCTCTTTTTCAATCTCATTT
Found at i:20771157 original size:15 final size:15
Alignment explanation
Indices: 20771145--20771186 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
20771135 TCTCTTTTAT
20771145 TTCTTTTTCTTTTTC
1 TTCTTTTTCTTTTTC
*
20771160 TTCTTTTGC-TTTTC
1 TTCTTTTTCTTTTTC
*
20771174 -TCGTTTTCTTTTT
1 TTCTTTTTCTTTTT
20771187 ACAAGAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
13 6 0.26
14 9 0.39
15 8 0.35
ACGTcount: A:0.00, C:0.19, G:0.05, T:0.76
Consensus pattern (15 bp):
TTCTTTTTCTTTTTC
Found at i:20772092 original size:11 final size:11
Alignment explanation
Indices: 20772076--20772107 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
20772066 AATTTAACAC
20772076 AATTTTTTTTG
1 AATTTTTTTTG
*
20772087 AATTTTTTTCG
1 AATTTTTTTTG
20772098 AATTTTTTTT
1 AATTTTTTTT
20772108 TGTTTTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.19, C:0.03, G:0.06, T:0.72
Consensus pattern (11 bp):
AATTTTTTTTG
Found at i:20773472 original size:40 final size:39
Alignment explanation
Indices: 20773420--20773495 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 39
20773410 CATTTTGGTT
* * *
20773420 CCAAAACTAATTCTTTCTTTTCACATCTTACTATTTTGAA
1 CCAAAACTAATTCCTTCTTTTC-CACCTTACCATTTTGAA
20773460 CCAAAA-TAAATTCCTTCTTTTCCACCTTACCATTTT
1 CCAAAACT-AATTCCTTCTTTTCCACCTTACCATTTT
20773496 CATACCATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
39 13 0.41
40 19 0.59
ACGTcount: A:0.29, C:0.26, G:0.01, T:0.43
Consensus pattern (39 bp):
CCAAAACTAATTCCTTCTTTTCCACCTTACCATTTTGAA
Found at i:20779909 original size:40 final size:40
Alignment explanation
Indices: 20779850--20780017 Score: 212
Period size: 40 Copynumber: 4.2 Consensus size: 40
20779840 TAGATGATAA
* * *
20779850 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGCT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTAGAT
* * * * *
20779890 CTGAGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTAGAT
*
20779930 CCGGGCTAAGTCCCGAAGGCATTTGTG-TGAGTTACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGTTACTAGAT
* * *
20779970 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTAGAT
20780010 CCGGGCTA
1 CCGGGCTA
20780018 NNNNNNNNNN
Statistics
Matches: 108, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
40 108 1.00
ACGTcount: A:0.21, C:0.24, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTAGAT
Found at i:20779983 original size:80 final size:80
Alignment explanation
Indices: 20779850--20780017 Score: 257
Period size: 80 Copynumber: 2.1 Consensus size: 80
20779840 TAGATGATAA
* *
20779850 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGCTCTGAGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGCTCCGAGCTAAGTCCCGAAGGCATTGG
20779915 TGCGAGTTACCATAT
66 TGCGAGTTACCATAT
* * * *
20779930 CCGGGCTAAGTCCCGAAGGCATTTGTG-TGAGTTACTAGTTCCGGGCTAAGTCCCGAAGGCATTG
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCT-AGTGACTAGCTCCGAGCTAAGTCCCGAAGGCATTG
*
20779994 GTGCGAGTTACTATAT
65 GTGCGAGTTACCATAT
20780010 CCGGGCTA
1 CCGGGCTA
20780018 NNNNNNNNNN
Statistics
Matches: 80, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
79 1 0.01
80 79 0.99
ACGTcount: A:0.21, C:0.24, G:0.29, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGCTCCGAGCTAAGTCCCGAAGGCATTGG
TGCGAGTTACCATAT
Found at i:20797832 original size:34 final size:34
Alignment explanation
Indices: 20797785--20797852 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 34
20797775 TCAAACAATC
* *
20797785 TTGGGCCTAAGCCCTTTTCAGTATCAGTAACAGT
1 TTGGGCCTAAGCCCATCTCAGTATCAGTAACAGT
* *
20797819 TTGGGCCTTAGCCCATCTCAGTATCAGTATCAGT
1 TTGGGCCTAAGCCCATCTCAGTATCAGTAACAGT
20797853 CATACAGTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.22, C:0.25, G:0.21, T:0.32
Consensus pattern (34 bp):
TTGGGCCTAAGCCCATCTCAGTATCAGTAACAGT
Found at i:20800818 original size:34 final size:34
Alignment explanation
Indices: 20800780--20800844 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
20800770 AGATAATGTC
*
20800780 GCTAAATTTTGCGGCGGTTATGTG-AAAAAGCGCT
1 GCTAAATTTTGCAGCGGTTA-GTGAAAAAAGCGCT
*
20800814 GCTAAATTTTGCAGCGGTTAGTGNAAAAAGC
1 GCTAAATTTTGCAGCGGTTAGTGAAAAAAGC
20800845 CACTAAAGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 3 0.10
34 26 0.90
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.28
Consensus pattern (34 bp):
GCTAAATTTTGCAGCGGTTAGTGAAAAAAGCGCT
Found at i:20800925 original size:42 final size:42
Alignment explanation
Indices: 20800838--20801021 Score: 199
Period size: 43 Copynumber: 4.4 Consensus size: 42
20800828 CGGTTAGTGN
* *
20800838 AAAAA-GCCACTAAAGAACGTGACCTTTAGCGGCGCTTTCCCC
1 AAAAACGCCGCTAAAGAACGTGACCTTTAGCGGCACTTT-CCC
* *
20800880 AAAAACGCCGCTAAAGAATGTGACCTTTAGCGGCACTTTTCC
1 AAAAACGCCGCTAAAGAACGTGACCTTTAGCGGCACTTTCCC
* * * * *
20800922 AAAAATGCTGCTAAATAACATGACCTTTAGCGGCACTCTCTCC
1 AAAAACGCCGCTAAAGAACGTGACCTTTAGCGGCACTTTC-CC
* * * * * *
20800965 AGAAACGCCGCTAAAGAACCTGACTTTTAACGACGCTTTCCC
1 AAAAACGCCGCTAAAGAACGTGACCTTTAGCGGCACTTTCCC
*
20801007 AAAAACGCCACTAAA
1 AAAAACGCCGCTAAA
20801022 AGTCATGTTC
Statistics
Matches: 117, Mismatches: 23, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
42 55 0.47
43 62 0.53
ACGTcount: A:0.34, C:0.29, G:0.16, T:0.21
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGAACGTGACCTTTAGCGGCACTTTCCC
Found at i:20801035 original size:85 final size:85
Alignment explanation
Indices: 20800838--20801021 Score: 217
Period size: 85 Copynumber: 2.2 Consensus size: 85
20800828 CGGTTAGTGN
* * * * **
20800838 AAAAA-GCCACTAAAGAACGTGACCTTTAGCGGCGCTTTCCCCAAAAACGCCGCTAAAGAATGTG
1 AAAAACGCCACTAAATAACATGACCTTTAGCGGCACTCTCCCCAAAAACGCCGCTAAAGAACCTG
* * *
20800902 ACCTTTAGCGGCACTTTTCC
66 ACCTTTAACGACACTTTCCC
* ** * *
20800922 AAAAATGCTGCTAAATAACATGACCTTTAGCGGCACTCTCTCCAGAAACGCCGCTAAAGAACCTG
1 AAAAACGCCACTAAATAACATGACCTTTAGCGGCACTCTCCCCAAAAACGCCGCTAAAGAACCTG
* *
20800987 ACTTTTAACGACGCTTTCCC
66 ACCTTTAACGACACTTTCCC
20801007 AAAAACGCCACTAAA
1 AAAAACGCCACTAAA
20801022 AGTCATGTTC
Statistics
Matches: 81, Mismatches: 18, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
84 5 0.06
85 76 0.94
ACGTcount: A:0.34, C:0.29, G:0.16, T:0.21
Consensus pattern (85 bp):
AAAAACGCCACTAAATAACATGACCTTTAGCGGCACTCTCCCCAAAAACGCCGCTAAAGAACCTG
ACCTTTAACGACACTTTCCC
Found at i:20801738 original size:23 final size:23
Alignment explanation
Indices: 20801707--20802269 Score: 358
Period size: 23 Copynumber: 24.4 Consensus size: 23
20801697 TCAACAACTA
* *
20801707 AACAATTCAATTTGCAGCACTTT
1 AACACTTCAATTTACAGCACTTT
*
20801730 AACACTTCAATTTGCAGCACTTTT
1 AACACTTCAATTTACAGCAC-TTT
*
20801754 AACACTTCAATTTATAGCA-TTT
1 AACACTTCAATTTACAGCACTTT
*
20801776 AAACACTTCAATTTGCAGCACTTT
1 -AACACTTCAATTTACAGCACTTT
* *
20801800 AACA-TCTCAATTAACAACA-TTT
1 AACACT-TCAATTTACAGCACTTT
* * * *
20801822 ATACTCCTCAA-TTATAGCGA--TA
1 A-ACACTTCAATTTACAGC-ACTTT
* * *
20801844 AAAAATCTCAATTT-CTAGCAAC-TA
1 AACACT-TCAATTTAC-AGC-ACTTT
* * * *
20801868 AACTCTTCAATTTGCAGTACTTA
1 AACACTTCAATTTACAGCACTTT
** *
20801891 AACACTTCAATTTACAAAAATTT
1 AACACTTCAATTTACAGCACTTT
* * *
20801914 AAACACTTTAATTTACAACA-TTCA
1 -AACACTTCAATTTACAGCACTT-T
* *
20801938 AACACTTCAATTTGCAGCATTTT
1 AACACTTCAATTTACAGCACTTT
*
20801961 AACACTTCAATTTACAACA-TTT
1 AACACTTCAATTTACAGCACTTT
**
20801983 AAACACTTCAATTTGTAGCACTTT
1 -AACACTTCAATTTACAGCACTTT
*
20802007 AACACTTCAATTTGCAGCACTTT
1 AACACTTCAATTTACAGCACTTT
* *
20802030 AAACACTTCAATTTGCCGCACTTT
1 -AACACTTCAATTTACAGCACTTT
* *
20802054 AACACTTCAATTAACAACA-TTT
1 AACACTTCAATTTACAGCACTTT
**
20802076 ATACACCTT-AA-TTACAGCGA-TAA
1 A-ACA-CTTCAATTTACAGC-ACTTT
* *
20802099 AACA-TCTCAATTTCCAGCAAC-TA
1 AACACT-TCAATTTACAGC-ACTTT
* * *
20802122 AACACTTCAATTTGCAGTACTTA
1 AACACTTCAATTTACAGCACTTT
*
20802145 AACACTTCAATTTACAACA-TTT
1 AACACTTCAATTTACAGCACTTT
*
20802167 AAGCACTTCAATTTACAACA-TTT
1 AA-CACTTCAATTTACAGCACTTT
*
20802190 AAACACTTCAATTTACAACA-TTT
1 -AACACTTCAATTTACAGCACTTT
*
20802213 AAACACTTCAATTTGCAGCACTTT
1 -AACACTTCAATTTACAGCACTTT
* *
20802237 AACA-TCTCAATTAACAACA-TTT
1 AACACT-TCAATTTACAGCACTTT
20802259 GAACACTTCAA
1 -AACACTTCAA
20802270 GTTGTATTCA
Statistics
Matches: 440, Mismatches: 66, Indels: 68
0.77 0.11 0.12
Matches are distributed among these distances:
20 1 0.00
21 2 0.00
22 47 0.11
23 307 0.70
24 83 0.19
ACGTcount: A:0.38, C:0.23, G:0.05, T:0.34
Consensus pattern (23 bp):
AACACTTCAATTTACAGCACTTT
Found at i:20801980 original size:161 final size:160
Alignment explanation
Indices: 20801693--20801983 Score: 413
Period size: 161 Copynumber: 1.8 Consensus size: 160
20801683 ACATAAACTA
* * ** * *
20801693 AATTTCAACAACTAAACAATTCAATTTGCAGCACTTTAACACTTCAATTTGCAGCACTTTTAACA
1 AATTTCAACAACTAAACAATTCAATTTGCAGCACTTAAACACTTCAATTTACAAAAATTTAAACA
* * *
20801758 CTTCAATTTATAGCATTTAAACACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTA
66 CTTCAATTTACAACATTCAAACACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTA
20801823 TACTCCTCAATTATAGCGATAAAAAATCTC
131 TACTCCTCAATTATAGCGATAAAAAATCTC
* ** *
20801853 AATTTCTAGCAACTAAACTCTTCAATTTGCAGTACTTAAACACTTCAATTTACAAAAATTTAAAC
1 AATTTC-AACAACTAAACAATTCAATTTGCAGCACTTAAACACTTCAATTTACAAAAATTTAAAC
* * *
20801918 ACTTTAATTTACAACATTCAAACACTTCAATTTGCAGCATTTTAACA-CTTCAATTTACAACATT
65 ACTTCAATTTACAACATTCAAACACTTCAATTTGCAGCACTTTAACATC-TCAATTAACAACATT
20801982 TA
129 TA
20801984 AACACTTCAA
Statistics
Matches: 113, Mismatches: 16, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
160 7 0.06
161 106 0.94
ACGTcount: A:0.39, C:0.22, G:0.05, T:0.35
Consensus pattern (160 bp):
AATTTCAACAACTAAACAATTCAATTTGCAGCACTTAAACACTTCAATTTACAAAAATTTAAACA
CTTCAATTTACAACATTCAAACACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTA
TACTCCTCAATTATAGCGATAAAAAATCTC
Found at i:20802161 original size:254 final size:253
Alignment explanation
Indices: 20801705--20802248 Score: 817
Period size: 254 Copynumber: 2.1 Consensus size: 253
20801695 TTTCAACAAC
* * * *
20801705 TAAACAATTCAATTTGCAGCACTTTAACACTTCAATTTGCAGCACTTTTAACACTTCAATTTATA
1 TAAACACTTCAATTTACAACACTTTAACACTTCAATTTGCAGCACTTTTAACACTTCAATTTACA
*
20801770 GCATTTAAACACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACTCCTCAATT
66 GCATTTAAACACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATT
* * *
20801835 ATAGCGATAAAAAATCTCAATTTCTAGCAACTAAACTCTTCAATTTGCAGTACTTAAACACTTCA
131 ACAGCGATAAAAAATCTCAATTTCCAGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTCA
* * *
20801900 ATTTACAAAAATTTAAACACTTTAATTTACAACATTCAAACACTTCAATTTGCAGCATT
196 ATTTAC-AAAATTTAAACACTTCAATTTACAACATTCAAACACTTCAATTTACAACATT
* * *
20801959 TTAACACTTCAATTTACAACA-TTTAAACACTTCAATTTGTAGCAC-TTTAACACTTCAATTTGC
1 TAAACACTTCAATTTACAACACTTT-AACACTTCAATTTGCAGCACTTTTAACACTTCAATTTAC
* *
20802022 AGCACTTTAAACACTTCAATTTGCCGCACTTTAACA-CTTCAATTAACAACATTTATACACCTTA
65 AGCA-TTTAAACACTTCAATTTGCAGCACTTTAACATC-TCAATTAACAACATTTATACACCTCA
*
20802086 ATTACAGCGATAAAACATCTCAATTTCCAGCAACTAAACACTTCAATTTGCAGTACTTAAACACT
128 ATTACAGCGATAAAAAATCTCAATTTCCAGCAACTAAACACTTCAATTTGCAGTACTTAAACACT
* * *
20802151 TCAATTTACAACATTTAAGCACTTCAATTTACAACATTTAAACACTTCAATTTACAACATT
193 TCAATTTACAAAATTTAAACACTTCAATTTACAACATTCAAACACTTCAATTTACAACATT
* *
20802212 TAAACACTTCAATTTGCAGCACTTTAACA-TCTCAATT
1 TAAACACTTCAATTTACAACACTTTAACACT-TCAATT
20802249 AACAACATTT
Statistics
Matches: 262, Mismatches: 23, Indels: 11
0.89 0.08 0.04
Matches are distributed among these distances:
252 1 0.00
253 98 0.37
254 163 0.62
ACGTcount: A:0.38, C:0.23, G:0.05, T:0.34
Consensus pattern (253 bp):
TAAACACTTCAATTTACAACACTTTAACACTTCAATTTGCAGCACTTTTAACACTTCAATTTACA
GCATTTAAACACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATT
ACAGCGATAAAAAATCTCAATTTCCAGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTCA
ATTTACAAAATTTAAACACTTCAATTTACAACATTCAAACACTTCAATTTACAACATT
Found at i:20802204 original size:46 final size:46
Alignment explanation
Indices: 20801705--20802269 Score: 431
Period size: 46 Copynumber: 12.3 Consensus size: 46
20801695 TTTCAACAAC
* * *
20801705 TAAACAATTCAATTTGCAGCACTTT-AACACTTCAATTTGCAGCACTT
1 TAAACACTTCAATTTGCAGCA-TTTAAACACTTCAATTTACAACA-TT
* ** * *
20801752 TTAACACTTCAATTTATAGCATTTAAACACTTCAATTTGCAGCACTT
1 TAAACACTTCAATTTGCAGCATTTAAACACTTCAATTTACAACA-TT
** * * * * * *
20801799 T-AACA-TCTCAATTAACAACATTTATACTCCTCAA-TTATAGCGA--
1 TAAACACT-TCAATTTGCAGCATTTAAACACTTCAATTTACAAC-ATT
* * ** * * ** *
20801842 TAAAAAATCTCAATTT-CTAGCAACTAAACTCTTCAATTTGCAGTACT
1 TAAACACT-TCAATTTGC-AGCATTTAAACACTTCAATTTACAACATT
* ** *
20801889 TAAACACTTCAATTTACAAAAATTTAAACACTTTAATTTACAACATT
1 TAAACACTTCAATTTGC-AGCATTTAAACACTTCAATTTACAACATT
* *
20801936 CAAACACTTCAATTTGCAGCATTTTAACACTTCAATTTACAACATT
1 TAAACACTTCAATTTGCAGCATTTAAACACTTCAATTTACAACATT
* * *
20801982 TAAACACTTCAATTTGTAGCACTTT-AACACTTCAATTTGCAGCACTT
1 TAAACACTTCAATTTGCAGCA-TTTAAACACTTCAATTTACAACA-TT
* *
20802029 TAAACACTTCAATTTGCCGCACTTT-AACACTTCAATTAACAACATT
1 TAAACACTTCAATTTGCAGCA-TTTAAACACTTCAATTTACAACATT
* * * * * **
20802075 TATACACCTT-AA-TTACAGCGA-TAAAACA-TCTCAATTTCCAGCAAC
1 TAAACA-CTTCAATTTGCAGC-ATTTAAACACT-TCAATTTACAACATT
* *
20802120 TAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTACAACATT
1 TAAACACTTCAATTTGCAGCATTTAAACACTTCAATTTACAACATT
* * *
20802166 TAAGCACTTCAATTTACAACATTTAAACACTTCAATTTACAACATT
1 TAAACACTTCAATTTGCAGCATTTAAACACTTCAATTTACAACATT
*
20802212 TAAACACTTCAATTTGCAGCACTTT-AACA-TCTCAATTAACAACATT
1 TAAACACTTCAATTTGCAGCA-TTTAAACACT-TCAATTTACAACATT
*
20802258 TGAACACTTCAA
1 TAAACACTTCAA
20802270 GTTGTATTCA
Statistics
Matches: 419, Mismatches: 77, Indels: 45
0.77 0.14 0.08
Matches are distributed among these distances:
43 1 0.00
44 9 0.02
45 56 0.13
46 221 0.53
47 132 0.32
ACGTcount: A:0.38, C:0.23, G:0.05, T:0.34
Consensus pattern (46 bp):
TAAACACTTCAATTTGCAGCATTTAAACACTTCAATTTACAACATT
Found at i:20804900 original size:20 final size:19
Alignment explanation
Indices: 20804860--20804899 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
20804850 GGAAAAAAAA
20804860 TTAGGGATTTGGGGAAATT
1 TTAGGGATTTGGGGAAATT
* *
20804879 TTAGGTATTTGGGGGAATT
1 TTAGGGATTTGGGGAAATT
20804898 TT
1 TT
20804900 TTAGGAGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.35, T:0.42
Consensus pattern (19 bp):
TTAGGGATTTGGGGAAATT
Found at i:20805364 original size:21 final size:21
Alignment explanation
Indices: 20805340--20805381 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
20805330 AAACAATAAC
*
20805340 AAAATATGAAAAAATGAAAAA
1 AAAATATCAAAAAATGAAAAA
* *
20805361 AAAATTTCAAAATATGAAAAA
1 AAAATATCAAAAAATGAAAAA
20805382 TAGTTATAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.71, C:0.02, G:0.07, T:0.19
Consensus pattern (21 bp):
AAAATATCAAAAAATGAAAAA
Found at i:20805738 original size:7 final size:7
Alignment explanation
Indices: 20805726--20805951 Score: 57
Period size: 7 Copynumber: 31.9 Consensus size: 7
20805716 ACTGATTAAT
20805726 CTAAACC
1 CTAAACC
20805733 CTAAACC
1 CTAAACC
* *
20805740 CTTAACT
1 CTAAACC
* * *
20805747 GTTATCC
1 CTAAACC
20805754 CTTAAACC
1 C-TAAACC
*
20805762 CTAAATC
1 CTAAACC
* **
20805769 ATAAAAT
1 CTAAACC
* *
20805776 ATAAACT
1 CTAAACC
20805783 CTAAACC
1 CTAAACC
*
20805790 CTTAACC
1 CTAAACC
*
20805797 CTTAACC
1 CTAAACC
*
20805804 CTTAACCC
1 C-TAAACC
20805812 CT-AACAC
1 CTAAAC-C
20805819 CTAAA-C
1 CTAAACC
**
20805825 CTTCACC
1 CTAAACC
*
20805832 C-CAACC
1 CTAAACC
20805838 CTTAAACC
1 C-TAAACC
* *
20805846 ATAAATC
1 CTAAACC
*
20805853 ATAAACC
1 CTAAACC
* *
20805860 ATAACCC
1 CTAAACC
20805867 CTAAACC
1 CTAAACC
* *
20805874 CATAATCT
1 C-TAAACC
*
20805882 ATAAACC
1 CTAAACC
*
20805889 TTAAA--
1 CTAAACC
20805894 CTAGTAACTC
1 CTA--AAC-C
20805904 CTAAACC
1 CTAAACC
*
20805911 TTAAACC
1 CTAAACC
*
20805918 CCAAACC
1 CTAAACC
* * *
20805925 ATATACT
1 CTAAACC
20805932 CTAAACC
1 CTAAACC
*
20805939 ATAAACC
1 CTAAACC
20805946 CTAAAC
1 CTAAAC
20805952 TATAATGATA
Statistics
Matches: 157, Mismatches: 49, Indels: 26
0.68 0.21 0.11
Matches are distributed among these distances:
5 2 0.01
6 10 0.06
7 119 0.76
8 23 0.15
10 3 0.02
ACGTcount: A:0.42, C:0.35, G:0.01, T:0.23
Consensus pattern (7 bp):
CTAAACC
Found at i:20805816 original size:21 final size:21
Alignment explanation
Indices: 20805777--20805845 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 21
20805767 TCATAAAATA
* *
20805777 TAAACTCTAAACCCTTAACCCT
1 TAAAC-CTTAACCCCTAACCCT
*
20805799 TAACCCTTAACCCCTAACACC-
1 TAAACCTTAACCCCTAAC-CCT
*
20805820 TAAACCTTCACCCC-AACCCT
1 TAAACCTTAACCCCTAACCCT
20805840 TAAACC
1 TAAACC
20805846 ATAAATCATA
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
19 2 0.05
20 9 0.22
21 23 0.57
22 6 0.15
ACGTcount: A:0.35, C:0.43, G:0.00, T:0.22
Consensus pattern (21 bp):
TAAACCTTAACCCCTAACCCT
Done.