Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167960.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_22, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 19587844
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 68000 characters in sequence are not A, C, G, or T
File 24 of 105
Found at i:4850638 original size:9 final size:9
Alignment explanation
Indices: 4850609--4850637 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
4850599 ATATTTTAAG
4850609 AAATTATAA
1 AAATTATAA
4850618 AAATTATAA
1 AAATTATAA
4850627 AAATT-TAA
1 AAATTATAA
4850635 AAA
1 AAA
4850638 ACTAACAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 6 0.30
9 14 0.70
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (9 bp):
AAATTATAA
Found at i:4850657 original size:39 final size:39
Alignment explanation
Indices: 4850614--4850751 Score: 120
Period size: 39 Copynumber: 3.5 Consensus size: 39
4850604 TTAAGAAATT
*
4850614 ATAAAAATTATAAAAATTTAAAAAACTAACAAAATTTTA
1 ATAAAAATTATAAAAATTTAAAAAACTAAAAAAATTTTA
* * * **
4850653 ATAAAAATAAAAAAAATTCAAAAAAC-ATGAAAATTTTA
1 ATAAAAATTATAAAAATTTAAAAAACTAAAAAAATTTTA
* * * *
4850691 ATAAAAAATTTCTTAAAATTAAAAAAAATCACAAAAACATTTTA
1 AT-AAAAA-TTATAAAAATTTAAAAAACT-A-AAAAA-ATTTTA
4850735 A-AAAAA-TATAAAAATTT
1 ATAAAAATTATAAAAATTT
4850752 TGAAAAATTT
Statistics
Matches: 77, Mismatches: 16, Indels: 11
0.74 0.15 0.11
Matches are distributed among these distances:
38 12 0.16
39 28 0.36
40 21 0.27
42 6 0.08
43 3 0.04
44 7 0.09
ACGTcount: A:0.65, C:0.06, G:0.01, T:0.28
Consensus pattern (39 bp):
ATAAAAATTATAAAAATTTAAAAAACTAAAAAAATTTTA
Found at i:4850810 original size:20 final size:20
Alignment explanation
Indices: 4850782--4850823 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
4850772 AAAATCTATT
*
4850782 TTTTTAAAA-TTTCTTTAAAA
1 TTTTCAAAATTTTC-TTAAAA
4850802 TTTTCAAAATTTTCTTAAAA
1 TTTTCAAAATTTTCTTAAAA
4850822 TT
1 TT
4850824 AAAAAATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (20 bp):
TTTTCAAAATTTTCTTAAAA
Found at i:4850821 original size:11 final size:11
Alignment explanation
Indices: 4850779--4850823 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
4850769 TAAAAAATCT
*
4850779 ATTTTTTTAAA
1 ATTTTCTTAAA
4850790 A-TTTCTTTAAA
1 ATTTTC-TTAAA
4850801 ATTTTC--AAA
1 ATTTTCTTAAA
4850810 ATTTTCTTAAA
1 ATTTTCTTAAA
4850821 ATT
1 ATT
4850824 AAAAAATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
9 9 0.31
10 3 0.10
11 13 0.45
12 4 0.14
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.56
Consensus pattern (11 bp):
ATTTTCTTAAA
Found at i:4851049 original size:17 final size:17
Alignment explanation
Indices: 4851029--4851070 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
4851019 TAATTTGAAG
4851029 AAAATTTTACTTTTAT-T
1 AAAATTTTA-TTTTATAT
*
4851046 AAAATTTTATTTTTTAT
1 AAAATTTTATTTTATAT
4851063 AAAATTTT
1 AAAATTTT
4851071 CAAAAGTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 5 0.22
17 18 0.78
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (17 bp):
AAAATTTTATTTTATAT
Found at i:4851207 original size:10 final size:10
Alignment explanation
Indices: 4851194--4851257 Score: 58
Period size: 10 Copynumber: 6.3 Consensus size: 10
4851184 TTTCAAAATA
4851194 TTTAAATTTT
1 TTTAAATTTT
*
4851204 TTTAAA-ATT
1 TTTAAATTTT
4851213 TTTAAATTTTTT
1 TTTAAA--TTTT
4851225 TTTAAATTTT
1 TTTAAATTTT
* *
4851235 TGTGAATTTT
1 TTTAAATTTT
**
4851245 TAGAAATTTT
1 TTTAAATTTT
4851255 TTT
1 TTT
4851258 TAATGCTTAT
Statistics
Matches: 42, Mismatches: 9, Indels: 6
0.74 0.16 0.11
Matches are distributed among these distances:
9 8 0.19
10 26 0.62
12 8 0.19
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.66
Consensus pattern (10 bp):
TTTAAATTTT
Found at i:4851225 original size:20 final size:19
Alignment explanation
Indices: 4851146--4851235 Score: 76
Period size: 19 Copynumber: 4.8 Consensus size: 19
4851136 TTTGTATATA
*
4851146 TTTTTTAAAATATTT-AA-
1 TTTTTTAAAATTTTTAAAT
* * * *
4851163 TTTTTGATAATTTTAAAAA
1 TTTTTTAAAATTTTTAAAT
* * *
4851182 TATTTCAAAATATTTAAAT
1 TTTTTTAAAATTTTTAAAT
4851201 TTTTTTAAAATTTTTAAATT
1 TTTTTTAAAATTTTTAAA-T
*
4851221 TTTTTTTAAATTTTT
1 TTTTTTAAAATTTTT
4851236 GTGAATTTTT
Statistics
Matches: 56, Mismatches: 14, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
17 11 0.20
18 2 0.04
19 28 0.50
20 15 0.27
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.60
Consensus pattern (19 bp):
TTTTTTAAAATTTTTAAAT
Found at i:4851226 original size:12 final size:12
Alignment explanation
Indices: 4851211--4851235 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4851201 TTTTTTAAAA
4851211 TTTTTAAATTTT
1 TTTTTAAATTTT
4851223 TTTTTAAATTTT
1 TTTTTAAATTTT
4851235 T
1 T
4851236 GTGAATTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTTAAATTTT
Found at i:4851232 original size:31 final size:31
Alignment explanation
Indices: 4851194--4851260 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
4851184 TTTCAAAATA
* *
4851194 TTTAAATTTTTTTAAAATTTTTA-AATTTTTT
1 TTTAAATTTTTGT-AAATTTTTAGAAATTTTT
*
4851225 TTTAAATTTTTGTGAATTTTTAGAAATTTTT
1 TTTAAATTTTTGTAAATTTTTAGAAATTTTT
4851256 TTTAA
1 TTTAA
4851261 TGCTTATATG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
30 8 0.25
31 24 0.75
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.64
Consensus pattern (31 bp):
TTTAAATTTTTGTAAATTTTTAGAAATTTTT
Found at i:4851235 original size:8 final size:9
Alignment explanation
Indices: 4851147--4851223 Score: 52
Period size: 10 Copynumber: 8.6 Consensus size: 9
4851137 TTGTATATAT
4851147 TTTTTAAAA
1 TTTTTAAAA
*
4851156 TATTT--AA
1 TTTTTAAAA
*
4851163 TTTTTGATAA
1 TTTTT-AAAA
*
4851173 TTTTAAAAA
1 TTTTTAAAA
*
4851182 TATTTCAAAA
1 T-TTTTAAAA
* *
4851192 TATTTAAATT
1 TTTTTAAA-A
4851202 TTTTTAAAA
1 TTTTTAAAA
4851211 TTTTT-AAA
1 TTTTTAAAA
4851219 TTTTT
1 TTTTT
4851224 TTTTAAATTT
Statistics
Matches: 53, Mismatches: 10, Indels: 11
0.72 0.14 0.15
Matches are distributed among these distances:
7 6 0.11
8 8 0.15
9 18 0.34
10 21 0.40
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.57
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:4851244 original size:20 final size:19
Alignment explanation
Indices: 4851194--4851256 Score: 63
Period size: 21 Copynumber: 3.2 Consensus size: 19
4851184 TTTCAAAATA
*
4851194 TTTAAATTTTTTTAAAATT
1 TTTAAATTTTTTTAAATTT
4851213 TTTAAATTTTTTTTTAAATTT
1 TTTAAA--TTTTTTTAAATTT
* **
4851234 TTGTGAATTTTTAGAAATTT
1 TT-TAAATTTTTTTAAATTT
4851254 TTT
1 TTT
4851257 TTAATGCTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
19 7 0.19
20 13 0.35
21 14 0.38
22 3 0.08
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (19 bp):
TTTAAATTTTTTTAAATTT
Found at i:4852760 original size:17 final size:17
Alignment explanation
Indices: 4852730--4852777 Score: 57
Period size: 16 Copynumber: 2.9 Consensus size: 17
4852720 ATTTAATCAT
4852730 AGTAA-TTTAGTTATTGA-
1 AGTAATTTTA-TTATT-AC
4852747 AGTAATTTTATTATTAC
1 AGTAATTTTATTATTAC
4852764 A-TAATTTTATTATT
1 AGTAATTTTATTATT
4852778 CGTGATTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
16 14 0.48
17 11 0.38
18 4 0.14
ACGTcount: A:0.35, C:0.02, G:0.08, T:0.54
Consensus pattern (17 bp):
AGTAATTTTATTATTAC
Found at i:4852828 original size:23 final size:23
Alignment explanation
Indices: 4852789--4852836 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
4852779 GTGATTTAAA
* *
4852789 ATTATTTTATATGATTAATAATT
1 ATTAATTTATATGATTAAAAATT
4852812 ATTAATTT-TATGAATTAAAAATT
1 ATTAATTTATATG-ATTAAAAATT
4852835 AT
1 AT
4852837 AACGTTGGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 4 0.18
23 18 0.82
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (23 bp):
ATTAATTTATATGATTAAAAATT
Found at i:4854974 original size:20 final size:20
Alignment explanation
Indices: 4854946--4854983 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4854936 GCTTAAGAAA
* *
4854946 AATGTTGAAATTTCTCTACC
1 AATGCTGAAATCTCTCTACC
4854966 AATGCTGAAATCTCTCTA
1 AATGCTGAAATCTCTCTA
4854984 GCACTAATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.37
Consensus pattern (20 bp):
AATGCTGAAATCTCTCTACC
Found at i:4871940 original size:16 final size:15
Alignment explanation
Indices: 4871865--4871945 Score: 62
Period size: 15 Copynumber: 5.4 Consensus size: 15
4871855 AATGGTTTAT
*
4871865 TTATTTTAATTT-TCA
1 TTATTTT-ATTTATTA
* *
4871880 TTATTTAATATA-TA
1 TTATTTTATTTATTA
4871894 TT-TTTTAATTTATTA
1 TTATTTT-ATTTATTA
*
4871909 ATATTTTA-TTATTTA
1 TTATTTTATTTA-TTA
4871924 TCTATTTTATTTATTA
1 T-TATTTTATTTATTA
4871940 TTATTT
1 TTATTT
4871946 ATCTATTCTT
Statistics
Matches: 52, Mismatches: 7, Indels: 14
0.71 0.10 0.19
Matches are distributed among these distances:
13 3 0.06
14 13 0.25
15 18 0.35
16 15 0.29
17 3 0.06
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (15 bp):
TTATTTTATTTATTA
Found at i:4871941 original size:34 final size:35
Alignment explanation
Indices: 4871860--4871942 Score: 93
Period size: 36 Copynumber: 2.4 Consensus size: 35
4871850 GGCCCAATGG
4871860 TTTATTTATT-TTAATTTTCATTATTTAATATATA
1 TTTATTTATTATTAATTTTCATTATTTAATATATA
* *
4871894 TTT-TTTAATTTATTAATATTTTATTATTT-ATCTAT-
1 TTTATTT-A-TTATTAAT-TTTCATTATTTAATATATA
4871929 TTTATTTATTATTA
1 TTTATTTATTATTA
4871943 TTTATCTATT
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
33 3 0.07
34 10 0.24
35 6 0.14
36 13 0.31
37 10 0.24
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (35 bp):
TTTATTTATTATTAATTTTCATTATTTAATATATA
Found at i:4871963 original size:23 final size:24
Alignment explanation
Indices: 4871913--4871963 Score: 79
Period size: 23 Copynumber: 2.2 Consensus size: 24
4871903 TTATTAATAT
*
4871913 TTTATTATTTATCTATTTTATTTA
1 TTTATTATTTATCTATTCTATTTA
4871937 -TTATTATTTATCTATTCT-TTTA
1 TTTATTATTTATCTATTCTATTTA
4871959 TTTAT
1 TTTAT
4871964 CTAATATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 4 0.16
23 21 0.84
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.71
Consensus pattern (24 bp):
TTTATTATTTATCTATTCTATTTA
Found at i:4871973 original size:16 final size:16
Alignment explanation
Indices: 4871935--4871973 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
4871925 CTATTTTATT
*
4871935 TATTATTATTTATCTAT
1 TATT-TTATTTATCTAA
*
4871952 TCTTTTATTTATCTAA
1 TATTTTATTTATCTAA
4871968 TATTTT
1 TATTTT
4871974 TGTTATCTGG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 16 0.84
17 3 0.16
ACGTcount: A:0.26, C:0.08, G:0.00, T:0.67
Consensus pattern (16 bp):
TATTTTATTTATCTAA
Found at i:4872439 original size:27 final size:26
Alignment explanation
Indices: 4872387--4872459 Score: 71
Period size: 27 Copynumber: 2.8 Consensus size: 26
4872377 AATTGTTTAA
* *
4872387 TATTCTTTTATTTTTATCTTT--GTTT
1 TATTTTTTTATTTTTAT-TTTCATTTT
4872412 TACTTTTCTTTATTTTTATTTTCATTTT
1 TA-TTTT-TTTATTTTTATTTTCATTTT
*
4872440 TATTTTATTA-TTTTATTTTC
1 TATTTTTTTATTTTTATTTTC
4872460 TTTAAATTAA
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
25 12 0.29
26 9 0.22
27 15 0.37
28 5 0.12
ACGTcount: A:0.15, C:0.08, G:0.01, T:0.75
Consensus pattern (26 bp):
TATTTTTTTATTTTTATTTTCATTTT
Found at i:4872553 original size:58 final size:57
Alignment explanation
Indices: 4872454--4872644 Score: 237
Period size: 58 Copynumber: 3.3 Consensus size: 57
4872444 TTATTATTTT
* ***
4872454 ATTTTCTT-TAAATTAAATTCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCA
1 ATTTTCTTCGAAATTAAATTTTCAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCA
4872510 ATTTTCTTCGAAATTAAAGTTTTCAAAAAATATTTTT-AGGGAAAAGTTGAAAGTATCA
1 ATTTTCTTCGAAATTAAA-TTTTCAAAAAATATTTTTGA-GGAAAAGTTGAAAGTATCA
* * *
4872568 ATTTTTCTT-AAAAATAAATTTTCAAAAAATATTTTTTTGAGAAAAAGTTGAAAGTATCA
1 A-TTTTCTTCGAAATTAAATTTTCAAAAAATA--TTTTTGAGGAAAAGTTGAAAGTATCA
4872627 ATTTT-TCTCGAAATTAAA
1 ATTTTCT-TCGAAATTAAA
4872645 AGTTGAAAGT
Statistics
Matches: 117, Mismatches: 9, Indels: 15
0.83 0.06 0.11
Matches are distributed among these distances:
56 8 0.07
57 23 0.20
58 47 0.40
59 38 0.32
60 1 0.01
ACGTcount: A:0.44, C:0.06, G:0.10, T:0.39
Consensus pattern (57 bp):
ATTTTCTTCGAAATTAAATTTTCAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCA
Found at i:4872616 original size:59 final size:59
Alignment explanation
Indices: 4872455--4872644 Score: 246
Period size: 59 Copynumber: 3.3 Consensus size: 59
4872445 TATTATTTTA
* * *
4872455 TTTTCTTTAAATTAAA--TTCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAA-
1 TTTTCTTAAAATTAAATTTTCAAAAAATATTTTTTTGAGGAAAAGTTGAAAGTATCAAT
* *
4872511 TTTTCTTCGAAATTAAAGTTTTCAAAAAATA-TTTTTAG-GGAAAAGTTGAAAGTATCAAT
1 TTTTCTT-AAAATTAAA-TTTTCAAAAAATATTTTTTTGAGGAAAAGTTGAAAGTATCAAT
* *
4872570 TTTTCTTAAAAATAAATTTTCAAAAAATATTTTTTTGAGAAAAAGTTGAAAGTATCAAT
1 TTTTCTTAAAATTAAATTTTCAAAAAATATTTTTTTGAGGAAAAGTTGAAAGTATCAAT
**
4872629 TTTTCTCGAAATTAAA
1 TTTTCTTAAAATTAAA
4872645 AGTTGAAAGT
Statistics
Matches: 116, Mismatches: 11, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
56 7 0.06
57 21 0.18
58 33 0.28
59 45 0.39
60 10 0.09
ACGTcount: A:0.44, C:0.06, G:0.11, T:0.39
Consensus pattern (59 bp):
TTTTCTTAAAATTAAATTTTCAAAAAATATTTTTTTGAGGAAAAGTTGAAAGTATCAAT
Found at i:4872653 original size:91 final size:91
Alignment explanation
Indices: 4872551--4872722 Score: 317
Period size: 91 Copynumber: 1.9 Consensus size: 91
4872541 ATTTTTAGGG
*
4872551 AAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAATATTTTTTTGAGAAAAAGT
1 AAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAGATTTTTTTGAGAAAAAGT
4872616 TGAAAGTATCAATTTTTCTCGAAATT
66 TGAAAGTATCAATTTTTCTCGAAATT
* *
4872642 AAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAGGTTTTTTTGAGGAAAAGT
1 AAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAGATTTTTTTGAGAAAAAGT
4872707 TGAAAGTATCAATTTT
66 TGAAAGTATCAATTTT
4872723 CCTTAAAAAT
Statistics
Matches: 78, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
91 78 1.00
ACGTcount: A:0.44, C:0.06, G:0.12, T:0.39
Consensus pattern (91 bp):
AAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAGATTTTTTTGAGAAAAAGT
TGAAAGTATCAATTTTTCTCGAAATT
Found at i:4872705 original size:59 final size:60
Alignment explanation
Indices: 4872642--4873071 Score: 462
Period size: 59 Copynumber: 7.4 Consensus size: 60
4872632 TCTCGAAATT
4872642 AAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAA-TTTTCAAAAAAGGTTTTTTTGAGG
1 AAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAGTTTTCAAAAAAGGTTTTTTTGAGG
*
4872701 AAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA-TTTTCAAAAAAGG---TTTTGAGG
1 AAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAGTTTTCAAAAAAGGTTTTTTTGAGG
* * * *
4872757 AAAAGTTGAAAGTATCAATTTTTCTTGAAACTAAAGTATTCAAAAAA-ATATTTTTTGA-G
1 AAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAGTTTTCAAAAAAGGT-TTTTTTGAGG
* *
4872816 AAAAGTTAAAAGTATCAATTTTTTTTAAAAATAAA-TTTTCAAAAAAGG---TTTTGAGG
1 AAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAGTTTTCAAAAAAGGTTTTTTTGAGG
* * ** * ** *
4872872 AAAAGTTGAAAGTATCAATTGTCCTCGAAATTAAAGTTTTCAAAAAA--TACTTTTAAGG
1 AAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAGTTTTCAAAAAAGGTTTTTTTGAGG
* * * *
4872930 AAAAGTTGAAAGTATCAA-TTTTCTTTAAGAATAAATTTTTTAAAAAAAAGGTTTTTTTTAGG
1 AAAAGTTGAAAGTATCAATTTTTC-TTAAAAATAAA-GTTTT-CAAAAAAGGTTTTTTTGAGG
* ** * * * *
4872992 AAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTTTAAAAAA---TATTTTGGGG
1 AAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAGTTTTCAAAAAAGGTTTTTTTGAGG
*
4873049 AGAAGTTGAAAGTATCAATTTTT
1 AAAAGTTGAAAGTATCAATTTTT
4873072 TTTGTACAAA
Statistics
Matches: 311, Mismatches: 43, Indels: 36
0.80 0.11 0.09
Matches are distributed among these distances:
55 6 0.02
56 69 0.22
57 52 0.17
58 42 0.14
59 83 0.27
60 18 0.06
61 4 0.01
62 33 0.11
63 4 0.01
ACGTcount: A:0.43, C:0.06, G:0.14, T:0.37
Consensus pattern (60 bp):
AAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAGTTTTCAAAAAAGGTTTTTTTGAGG
Found at i:4872719 original size:150 final size:146
Alignment explanation
Indices: 4872493--4872791 Score: 433
Period size: 150 Copynumber: 2.0 Consensus size: 146
4872483 ATTTTTGAGG
* *
4872493 AAAAGTTGAAAGTATCAATTTTCTTCGAAATTAAAGTTTTCAAAAAATATTTTTAGGGAAAAGTT
1 AAAAGTTGAAAGTATCAATTTTCTTCAAAAATAAAGTTTTCAAAAAATATTTTTAGGGAAAAGTT
* **
4872558 GAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAATATTTTTTTGAGAAAAAGTTGAAAGT
66 GAAAGTATCAATTTTCCTTAAAAATAAATTTTC-AAAAA-A-GGTTTTGAGAAAAAGTTGAAAGT
*
4872623 ATCAATTTTTCTCGAAATT
128 ATCAATTTTTCTCGAAACT
*
4872642 AAAAGTTGAAAGTATCAATTTTTCTT-AAAAATAAA-TTTTCAAAAAAGGT-TTTTTTGAGGAAA
1 AAAAGTTGAAAGTATCAA-TTTTCTTCAAAAATAAAGTTTTCAAAAAA--TATTTTTAG-GGAAA
*
4872704 AGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAGGTTTTGAGGAAAAGTTGAAAG
62 AGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAGGTTTTGAGAAAAAGTTGAAAG
*
4872769 TATCAATTTTTCTTGAAACT
127 TATCAATTTTTCTCGAAACT
4872789 AAA
1 AAA
4872792 GTATTCAAAA
Statistics
Matches: 137, Mismatches: 9, Indels: 10
0.88 0.06 0.06
Matches are distributed among these distances:
147 40 0.29
148 12 0.09
149 36 0.26
150 49 0.36
ACGTcount: A:0.43, C:0.07, G:0.12, T:0.37
Consensus pattern (146 bp):
AAAAGTTGAAAGTATCAATTTTCTTCAAAAATAAAGTTTTCAAAAAATATTTTTAGGGAAAAGTT
GAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAGGTTTTGAGAAAAAGTTGAAAGTATC
AATTTTTCTCGAAACT
Found at i:4872773 original size:115 final size:114
Alignment explanation
Indices: 4872642--4873070 Score: 549
Period size: 115 Copynumber: 3.7 Consensus size: 114
4872632 TCTCGAAATT
* ** *
4872642 AAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAA-TTTTCAAAAAAGGTTTTTTTGAGGAAAAG
1 AAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTTCAAAAAA--TTTTTTTGAGGAAAAG
*
4872706 TTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAGGTTTTGAGG
64 TTGAAAGTATCAATTTTCTTTAAAAATAAATTTTCAAAAAAGGTTTTGAGG
* * * *
4872757 AAAAGTTGAAAGTATCAATTTTTCTTGAAACTAAAGTATTCAAAAAAATATTTTTTGA-GAAAAG
1 AAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTTC-AAAAAAT-TTTTTTGAGGAAAAG
* *
4872821 TTAAAAGTATCAATTTTTTTTAAAAATAAATTTTCAAAAAAGGTTTTGAGG
64 TTGAAAGTATCAATTTTCTTTAAAAATAAATTTTCAAAAAAGGTTTTGAGG
* ** *
4872872 AAAAGTTGAAAGTATCAATTGTCCTCGAAATTAAAGTTTTCAAAAAATACTTTTAAGGAAAAGTT
1 AAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTTCAAAAAATTTTTTTGAGGAAAAGTT
* * *
4872937 GAAAGTATCAATTTTCTTTAAGAATAAATTTTTTAAAAAAAAGGTTTTTTTTAGG
66 GAAAGTATCAATTTTCTTTAAAAATAAA--TTTT-CAAAAAAGG---TTTTGAGG
* * * *
4872992 AAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTTTAAAAAA-TATTTTGGGGAGAAGTT
1 AAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTTCAAAAAATTTTTTTGAGGAAAAGTT
4873056 GAAAGTATCAATTTT
66 GAAAGTATCAATTTT
4873071 TTTTGTACAA
Statistics
Matches: 278, Mismatches: 26, Indels: 16
0.87 0.08 0.05
Matches are distributed among these distances:
113 5 0.02
114 40 0.14
115 124 0.45
116 16 0.06
117 14 0.05
119 27 0.10
120 52 0.19
ACGTcount: A:0.43, C:0.06, G:0.14, T:0.37
Consensus pattern (114 bp):
AAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTTCAAAAAATTTTTTTGAGGAAAAGTT
GAAAGTATCAATTTTCTTTAAAAATAAATTTTCAAAAAAGGTTTTGAGG
Found at i:4876960 original size:26 final size:26
Alignment explanation
Indices: 4876925--4876983 Score: 84
Period size: 26 Copynumber: 2.2 Consensus size: 26
4876915 GAAAAATGAG
*
4876925 AAAAAAGAAAAAAAGATGATGAAAA-A
1 AAAAAAGAAAAAAAAATGA-GAAAAGA
4876951 AAAAAAGAAAAAAAAATGAGAAAATGA
1 AAAAAAGAAAAAAAAATGAGAAAA-GA
4876978 AAAAAA
1 AAAAAA
4876984 TAGATTCAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
25 5 0.17
26 18 0.60
27 7 0.23
ACGTcount: A:0.80, C:0.00, G:0.14, T:0.07
Consensus pattern (26 bp):
AAAAAAGAAAAAAAAATGAGAAAAGA
Found at i:4876972 original size:13 final size:13
Alignment explanation
Indices: 4876930--4876974 Score: 56
Period size: 12 Copynumber: 3.5 Consensus size: 13
4876920 ATGAGAAAAA
*
4876930 AGAAAAAAAGATG
1 AGAAAAAAAAATG
*
4876943 ATGAAAAAAAAA-A
1 A-GAAAAAAAAATG
4876956 AGAAAAAAAAATG
1 AGAAAAAAAAATG
4876969 AGAAAA
1 AGAAAA
4876975 TGAAAAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
12 10 0.37
13 8 0.30
14 9 0.33
ACGTcount: A:0.78, C:0.00, G:0.16, T:0.07
Consensus pattern (13 bp):
AGAAAAAAAAATG
Found at i:4878738 original size:42 final size:42
Alignment explanation
Indices: 4878684--4879160 Score: 585
Period size: 42 Copynumber: 11.4 Consensus size: 42
4878674 AAGTTGTGGT
* * * *
4878684 GCCTCT-ATTTAGAGGAGCAATTTATTTTTCCAAAGTTGTTAA
1 GCCTCTGA-TTAGAGGAGCCATTTATTTTTTCAAAGTCGTTGA
* *
4878726 GCCTCTGATTAGATGAGCCATTTATTTTTTTAAAGTCGTTGA
1 GCCTCTGATTAGAGGAGCCATTTATTTTTTCAAAGTCGTTGA
* * * *
4878768 G-CTCTAATTAGAGGAGCCATTTA-CTTTTCAAAGTTGTTAA
1 GCCTCTGATTAGAGGAGCCATTTATTTTTTCAAAGTCGTTGA
4878808 GCCTCTGATTAGAGGAGCCATTTATTTTTTCAAAGTCGTTGA
1 GCCTCTGATTAGAGGAGCCATTTATTTTTTCAAAGTCGTTGA
* * **
4878850 GCCTCTGATTGGAGGAGCCATTTA-CTTTTCAAAGTTATTGA
1 GCCTCTGATTAGAGGAGCCATTTATTTTTTCAAAGTCGTTGA
*
4878891 GCCTCTGATTAGAGGAGCCATTTATTTTTTCAAAGTTGTTGA
1 GCCTCTGATTAGAGGAGCCATTTATTTTTTCAAAGTCGTTGA
* * * *
4878933 GCCTTTGACTAGAGGAGCCATTTA-CTTTTCAAAGTTGTTGA
1 GCCTCTGATTAGAGGAGCCATTTATTTTTTCAAAGTCGTTGA
*
4878974 GCCTCTGATTAGAGGAGCCGTTTATTTTTTCAAAGTCGTTGA
1 GCCTCTGATTAGAGGAGCCATTTATTTTTTCAAAGTCGTTGA
* *
4879016 G--TCTGATTAGGGGAGCCGTTTATTTTTTCAAAGTCGTTGA
1 GCCTCTGATTAGAGGAGCCATTTATTTTTTCAAAGTCGTTGA
*
4879056 GCCTCTGATTAGAGGAGCCGTTTA-TTTTTCAAAAGTCGTTGA
1 GCCTCTGATTAGAGGAGCCATTTATTTTTTC-AAAGTCGTTGA
* ** *
4879098 GCCTTTGATTAGAGGAGCTTTGTTTATGTTTCTT-AAAGTCGTTAA
1 GCCTCTGATTAGAGGAGC--CATTTAT-TTT-TTCAAAGTCGTTGA
*
4879143 GCCTCTGCTTAGAGGAGC
1 GCCTCTGATTAGAGGAGC
4879161 TTTGATCAAA
Statistics
Matches: 384, Mismatches: 38, Indels: 23
0.86 0.09 0.05
Matches are distributed among these distances:
40 53 0.14
41 121 0.32
42 173 0.45
43 1 0.00
44 5 0.01
45 26 0.07
46 3 0.01
47 2 0.01
ACGTcount: A:0.24, C:0.16, G:0.22, T:0.39
Consensus pattern (42 bp):
GCCTCTGATTAGAGGAGCCATTTATTTTTTCAAAGTCGTTGA
Found at i:4878796 original size:83 final size:83
Alignment explanation
Indices: 4878684--4879115 Score: 622
Period size: 83 Copynumber: 5.2 Consensus size: 83
4878674 AAGTTGTGGT
* * * *
4878684 GCCTCT-ATTTAGAGGAGCAATTTATTTTTCCAAAGTTGTTAAGCCTCTGATTAGATGAGCCATT
1 GCCTCTGA-TTAGAGGAGCCATTTACTTTT-CAAAGTTGTTGAGCCTCTGATTAGAGGAGCCATT
*
4878748 TATTTTTTTAAAGTCGTTGA
64 TATTTTTTCAAAGTCGTTGA
* *
4878768 G-CTCTAATTAGAGGAGCCATTTACTTTTCAAAGTTGTTAAGCCTCTGATTAGAGGAGCCATTTA
1 GCCTCTGATTAGAGGAGCCATTTACTTTTCAAAGTTGTTGAGCCTCTGATTAGAGGAGCCATTTA
4878832 TTTTTTCAAAGTCGTTGA
66 TTTTTTCAAAGTCGTTGA
* *
4878850 GCCTCTGATTGGAGGAGCCATTTACTTTTCAAAGTTATTGAGCCTCTGATTAGAGGAGCCATTTA
1 GCCTCTGATTAGAGGAGCCATTTACTTTTCAAAGTTGTTGAGCCTCTGATTAGAGGAGCCATTTA
*
4878915 TTTTTTCAAAGTTGTTGA
66 TTTTTTCAAAGTCGTTGA
* * *
4878933 GCCTTTGACTAGAGGAGCCATTTACTTTTCAAAGTTGTTGAGCCTCTGATTAGAGGAGCCGTTTA
1 GCCTCTGATTAGAGGAGCCATTTACTTTTCAAAGTTGTTGAGCCTCTGATTAGAGGAGCCATTTA
4878998 TTTTTTCAAAGTCGTTGA
66 TTTTTTCAAAGTCGTTGA
* * * * *
4879016 G--TCTGATTAGGGGAGCCGTTTATTTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCCGTTT
1 GCCTCTGATTAGAGGAGCCATTTA-CTTTTCAAAGTTGTTGAGCCTCTGATTAGAGGAGCCATTT
4879079 A-TTTTTCAAAAGTCGTTGA
65 ATTTTTTC-AAAGTCGTTGA
*
4879098 GCCTTTGATTAGAGGAGC
1 GCCTCTGATTAGAGGAGC
4879116 TTTGTTTATG
Statistics
Matches: 319, Mismatches: 23, Indels: 12
0.90 0.06 0.03
Matches are distributed among these distances:
81 23 0.07
82 104 0.33
83 177 0.55
84 15 0.05
ACGTcount: A:0.24, C:0.16, G:0.22, T:0.38
Consensus pattern (83 bp):
GCCTCTGATTAGAGGAGCCATTTACTTTTCAAAGTTGTTGAGCCTCTGATTAGAGGAGCCATTTA
TTTTTTCAAAGTCGTTGA
Found at i:4878902 original size:124 final size:124
Alignment explanation
Indices: 4878657--4879160 Score: 597
Period size: 124 Copynumber: 4.0 Consensus size: 124
4878647 GATTGTCAAT
* * * * *
4878657 GAGCAATTTA-CTTTTCTAAGTTGTGGTGCCTCT-ATTTAGAGGAGCAATTTATTTTTCCAAAGT
1 GAGCCATTTATCTTTTCAAAGTTGTTGAGCCTCTGA-TTAGAGGAGCCATTTATTTTT-CAAAGT
* * * * *
4878720 TGTTAAGCCTCTGATTAGATGAGCCATTTATTTTTTTAAAGTCGTTGAGCTCTAATTAGAG
64 CGTTGAGCCTCTGATTAGAGGAGCCATTTATTTTTTCAAAGTCGTTGAGCTCTGATTAGAG
*
4878781 GAGCCATTTA-CTTTTCAAAGTTGTTAAGCCTCTGATTAGAGGAGCCATTTATTTTTTCAAAGTC
1 GAGCCATTTATCTTTTCAAAGTTGTTGAGCCTCTGATTAGAGGAGCCATTTA-TTTTTCAAAGTC
* * **
4878845 GTTGAGCCTCTGATTGGAGGAGCCATTTA-CTTTTCAAAGTTATTGAGCCTCTGATTAGAG
65 GTTGAGCCTCTGATTAGAGGAGCCATTTATTTTTTCAAAGTCGTTGAG-CTCTGATTAGAG
* * * * *
4878905 GAGCCATTTATTTTTTCAAAGTTGTTGAGCCTTTGACTAGAGGAGCCATTTACTTTTCAAAGTTG
1 GAGCCATTTATCTTTTCAAAGTTGTTGAGCCTCTGATTAGAGGAGCCATTTATTTTTCAAAGTCG
* *
4878970 TTGAGCCTCTGATTAGAGGAGCCGTTTATTTTTTCAAAGTCGTTGAG-TCTGATTAGGG
66 TTGAGCCTCTGATTAGAGGAGCCATTTATTTTTTCAAAGTCGTTGAGCTCTGATTAGAG
* * * *
4879028 GAGCCGTTTATTTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCCGTTTATTTTTCAAAAGTC
1 GAGCCATTTATCTTTTCAAAGTTGTTGAGCCTCTGATTAGAGGAGCCATTTATTTTTC-AAAGTC
* ** * *
4879093 GTTGAGCCTTTGATTAGAGGAGCTTTGTTTATGTTTCTT-AAAGTCGTTAAGCCTCTGCTTAGAG
65 GTTGAGCCTCTGATTAGAGGAGC--CATTTAT-TTT-TTCAAAGTCGTTGAG-CTCTGATTAGAG
4879157 GAGC
1 GAGC
4879161 TTTGATCAAA
Statistics
Matches: 329, Mismatches: 39, Indels: 19
0.85 0.10 0.05
Matches are distributed among these distances:
123 76 0.23
124 160 0.49
125 58 0.18
126 6 0.02
127 14 0.04
128 2 0.01
129 13 0.04
ACGTcount: A:0.24, C:0.15, G:0.22, T:0.39
Consensus pattern (124 bp):
GAGCCATTTATCTTTTCAAAGTTGTTGAGCCTCTGATTAGAGGAGCCATTTATTTTTCAAAGTCG
TTGAGCCTCTGATTAGAGGAGCCATTTATTTTTTCAAAGTCGTTGAGCTCTGATTAGAG
Found at i:4879466 original size:23 final size:24
Alignment explanation
Indices: 4879437--4879485 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 24
4879427 TTTTATTGTT
*
4879437 TTTATCTGTTAATATT-TTTATTA
1 TTTATCTATTAATATTATTTATTA
**
4879460 TTTATCTATTTTTATTATTTATTA
1 TTTATCTATTAATATTATTTATTA
4879484 TT
1 TT
4879486 ATTTATCTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 13 0.59
24 9 0.41
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.69
Consensus pattern (24 bp):
TTTATCTATTAATATTATTTATTA
Found at i:4879469 original size:17 final size:16
Alignment explanation
Indices: 4879392--4879533 Score: 82
Period size: 17 Copynumber: 8.9 Consensus size: 16
4879382 CCCCAATGGG
4879392 TTTT-TTATTT-TTAT
1 TTTTATTATTTATTAT
* *
4879406 TTTCATTATTTAATAT
1 TTTTATTATTTATTAT
* * *
4879422 ATATA-T-TTTATTGT
1 TTTTATTATTTATTAT
* *
4879436 TTTTATCT-GTTAATAT
1 TTTTAT-TATTTATTAT
4879452 TTTTATTATTTATCTAT
1 TTTTATTATTTAT-TAT
4879469 TTTTATTATTTATTAT
1 TTTTATTATTTATTAT
*
4879485 TATTTATCTATTTCTT-T
1 T-TTTAT-TATTTATTAT
*
4879502 TATTTATCTAATTATT-T
1 T-TTTAT-TATTTATTAT
* *
4879519 TTTTGTTATCTATTA
1 TTTTATTATTTATTA
4879534 ATATATTTAT
Statistics
Matches: 99, Mismatches: 20, Indels: 16
0.73 0.15 0.12
Matches are distributed among these distances:
14 12 0.12
15 14 0.14
16 28 0.28
17 38 0.38
18 7 0.07
ACGTcount: A:0.24, C:0.05, G:0.02, T:0.69
Consensus pattern (16 bp):
TTTTATTATTTATTAT
Found at i:4879503 original size:30 final size:26
Alignment explanation
Indices: 4879449--4879506 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 26
4879439 TATCTGTTAA
4879449 TATTTTTATTATTTATCTATTTTTAT
1 TATTTTTATTATTTATCTATTTTTAT
4879475 TATTTATTATTATTTATCTATTTCTT-T
1 TATTT-TTATTATTTATCTATTT-TTAT
4879502 TATTT
1 TATTT
4879507 ATCTAATTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
26 5 0.17
27 23 0.77
28 2 0.07
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.72
Consensus pattern (26 bp):
TATTTTTATTATTTATCTATTTTTAT
Found at i:4879908 original size:3 final size:3
Alignment explanation
Indices: 4879895--4879930 Score: 56
Period size: 3 Copynumber: 12.0 Consensus size: 3
4879885 CGTTATTTAT
4879895 TTA TCTA TTA TTA TTA TTA TTA TTA TTA TTA -TA TTA
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
4879931 GAATTGTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.06
3 26 0.84
4 3 0.10
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:4879958 original size:6 final size:6
Alignment explanation
Indices: 4879947--4879999 Score: 54
Period size: 6 Copynumber: 8.5 Consensus size: 6
4879937 TTTAATATTC
* *
4879947 TTTTAT TTTTAT CTTTAT TTTACTTT TCTTTAT TTTTAT TTTTA- TTTTAT
1 TTTTAT TTTTAT TTTTAT TTT--TAT T-TTTAT TTTTAT TTTTAT TTTTAT
4879997 TTT
1 TTT
4880000 ATTATTTTCT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
5 5 0.13
6 26 0.67
7 3 0.08
8 3 0.08
9 2 0.05
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTTAT
Found at i:4879990 original size:27 final size:25
Alignment explanation
Indices: 4879942--4880007 Score: 87
Period size: 27 Copynumber: 2.6 Consensus size: 25
4879932 AATTGTTTAA
*
4879942 TATTCTTTTATTTTTATCTTTATTT
1 TATTTTTTTATTTTTATCTTTATTT
*
4879967 TACTTTTCTTTATTTTTATTTTTATTT
1 TA-TTTT-TTTATTTTTATCTTTATTT
*
4879994 TATTTTATTATTTT
1 TATTTTTTTATTTT
4880008 CTTTAAATAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
25 9 0.25
26 7 0.19
27 20 0.56
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.77
Consensus pattern (25 bp):
TATTTTTTTATTTTTATCTTTATTT
Found at i:4880104 original size:58 final size:58
Alignment explanation
Indices: 4880025--4880355 Score: 384
Period size: 58 Copynumber: 5.7 Consensus size: 58
4880015 TAAAATTCAA
* * *
4880025 AAAAATATATTTTTGAA-GAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTTC
1 AAAAA-ATATTTTT-AAGGAAAAGTTGAAAGTATCAATTTTTCTCAAAAATAAAGTTTTC
* *
4880084 AAAAAATATTTTTAAGGAAAAGTTGAAAGTATTAATTTTTCTTAAAAATAAA-TTTTC
1 AAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTCAAAAATAAAGTTTTC
* * *
4880141 AAAAAAGGTTTTTTTGAAGGAAAAGTTGAAAGTATCAATTTTTCTCAAAACTAAAGTTTCC
1 AAAAAA--TATTTTT-AAGGAAAAGTTGAAAGTATCAATTTTTCTCAAAAATAAAGTTTTC
* * * *
4880202 AAAAAAATATTTTT-TGAGAAAAGTTGAAAGCATCAATTTTTTTAAAAAATAAA-TTTTC
1 -AAAAAATATTTTTAAG-GAAAAGTTGAAAGTATCAATTTTTCTCAAAAATAAAGTTTTC
* * * * * * *
4880260 AAAAAA-AGTTTTGAGGAAAAGTTAAAAATATCAATTTTTCTCGAAATTAAAGTTTCC
1 AAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTCAAAAATAAAGTTTTC
*
4880317 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTT
1 AAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTT
4880356 CTTTAAAAAT
Statistics
Matches: 230, Mismatches: 32, Indels: 21
0.81 0.11 0.07
Matches are distributed among these distances:
56 34 0.15
57 30 0.13
58 71 0.31
59 43 0.19
60 42 0.18
61 4 0.02
62 6 0.03
ACGTcount: A:0.45, C:0.07, G:0.12, T:0.37
Consensus pattern (58 bp):
AAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTCAAAAATAAAGTTTTC
Found at i:4883323 original size:22 final size:22
Alignment explanation
Indices: 4883297--4883353 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 22
4883287 GAAAAATGAG
*
4883297 TATTATCGATGGAAATGTTAAC
1 TATTATCGATGGAAATATTAAC
* ***
4883319 TATTATCAACATAAATATTAAC
1 TATTATCGATGGAAATATTAAC
4883341 TATTATCGATGGA
1 TATTATCGATGGA
4883354 TTTTATCAAC
Statistics
Matches: 26, Mismatches: 9, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.37
Consensus pattern (22 bp):
TATTATCGATGGAAATATTAAC
Found at i:4884106 original size:2 final size:2
Alignment explanation
Indices: 4884095--4884130 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
4884085 AGAGCAAGAA
4884095 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4884131 GAGAGAGAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4884135 original size:2 final size:2
Alignment explanation
Indices: 4884130--4884158 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4884120 ATATATATAT
4884130 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
4884159 ATTTTAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4891332 original size:21 final size:20
Alignment explanation
Indices: 4891294--4891337 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
4891284 AACAACATAT
4891294 ATAAAAAATTCAAATATTGAA
1 ATAAAAAATTCAAATATT-AA
*
4891315 ATAAAAAATAT-AATTATTAA
1 ATAAAAAAT-TCAAATATTAA
4891335 ATA
1 ATA
4891338 CGAAGGAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 5 0.24
21 15 0.71
22 1 0.05
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (20 bp):
ATAAAAAATTCAAATATTAA
Found at i:4891748 original size:15 final size:15
Alignment explanation
Indices: 4891722--4891760 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
4891712 AATTTTTTTT
* *
4891722 TAAAAAAATTATAAG
1 TAAAAAATTTATAAA
*
4891737 TTAAAAATTTATAAA
1 TAAAAAATTTATAAA
4891752 TAAAAAATT
1 TAAAAAATT
4891761 AATTAAAATA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (15 bp):
TAAAAAATTTATAAA
Found at i:4891773 original size:13 final size:13
Alignment explanation
Indices: 4891724--4891779 Score: 51
Period size: 14 Copynumber: 4.1 Consensus size: 13
4891714 TTTTTTTTTA
4891724 AAAAAATTATAAGTT
1 AAAAAATTAT-A-TT
* *
4891739 AAAAATTTATAAAT
1 AAAAAATTAT-ATT
4891753 AAAAAATTA-ATT
1 AAAAAATTATATT
4891765 AAAATAATTATATT
1 AAAA-AATTATATT
4891779 A
1 A
4891780 TCTTGAGATG
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
12 6 0.17
13 5 0.14
14 13 0.37
15 11 0.31
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (13 bp):
AAAAAATTATATT
Found at i:4894677 original size:27 final size:27
Alignment explanation
Indices: 4894633--4894686 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
4894623 TCCCTTCAAT
* *
4894633 TTTCAGCTCGACTCCTTTCTGTTTTGG
1 TTTCAGCTCAACTCCTTTCGGTTTTGG
*
4894660 TTTCAGCTCAACTTCTTTCGGTTTTGG
1 TTTCAGCTCAACTCCTTTCGGTTTTGG
4894687 CTCATATCTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.09, C:0.24, G:0.19, T:0.48
Consensus pattern (27 bp):
TTTCAGCTCAACTCCTTTCGGTTTTGG
Found at i:4896880 original size:18 final size:20
Alignment explanation
Indices: 4896859--4896904 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 20
4896849 ATTTTTTAAA
4896859 TTTTAAAAAT-TTTA-ATTT
1 TTTTAAAAATATTTAGATTT
*
4896877 TTTT-TAAATATTTAGATTT
1 TTTTAAAAATATTTAGATTT
4896896 TTTTAAAAA
1 TTTTAAAAA
4896905 AATAAATTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
17 4 0.17
18 8 0.35
19 8 0.35
20 3 0.13
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (20 bp):
TTTTAAAAATATTTAGATTT
Found at i:4896986 original size:17 final size:17
Alignment explanation
Indices: 4896966--4897004 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
4896956 AGCTTGAGAG
*
4896966 ATTTTTACTTTTTATAA
1 ATTTTTAATTTTTATAA
*
4896983 ATTTTTAATTTTTATAT
1 ATTTTTAATTTTTATAA
4897000 ATTTT
1 ATTTT
4897005 AGAAAATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTTTAATTTTTATAA
Found at i:4897151 original size:21 final size:20
Alignment explanation
Indices: 4897116--4897171 Score: 62
Period size: 19 Copynumber: 2.8 Consensus size: 20
4897106 TTTTTATTAA
4897116 AATTTTCAAAAAATTTTTTT
1 AATTTTCAAAAAATTTTTTT
*
4897136 AATTTTCCATAAAA--TTTTT
1 AATTTT-CAAAAAATTTTTTT
*
4897155 AATTTTTACAAAAATTT
1 AATTTTCA-AAAAATTT
4897172 AAAAAATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
18 1 0.03
19 15 0.52
20 6 0.21
21 7 0.24
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (20 bp):
AATTTTCAAAAAATTTTTTT
Found at i:4897395 original size:19 final size:20
Alignment explanation
Indices: 4897373--4897428 Score: 64
Period size: 19 Copynumber: 3.0 Consensus size: 20
4897363 AAGATTTTTC
4897373 ATTTTTAATAATATTTCAT-
1 ATTTTTAATAATATTTCATA
* * *
4897392 ATTTTT-TTAATCTTTTATA
1 ATTTTTAATAATATTTCATA
4897411 ATTTTTAA-AATATTTCAT
1 ATTTTTAATAATATTTCAT
4897429 TTTAAAAAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
18 9 0.31
19 20 0.69
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (20 bp):
ATTTTTAATAATATTTCATA
Found at i:4898142 original size:20 final size:20
Alignment explanation
Indices: 4898099--4898201 Score: 72
Period size: 19 Copynumber: 5.2 Consensus size: 20
4898089 TTAGTATTAA
4898099 AAAAAATTTTTAAAAATTCT
1 AAAAAATTTTTAAAAATTCT
*
4898119 -AAAATTTTTTGAAAAA-TCT
1 AAAAAATTTTT-AAAAATTCT
*** *
4898138 AAAAAAAAATT-AAAATTTT
1 AAAAAATTTTTAAAAATTCT
* *
4898157 AAAAAA-TTCTAAACAATTTTT
1 AAAAAATTTTTAAA-AA-TTCT
*
4898178 AAAAAACTTTTAAAAATTC-
1 AAAAAATTTTTAAAAATTCT
4898197 AAAAA
1 AAAAA
4898202 TATTCCAAGA
Statistics
Matches: 65, Mismatches: 11, Indels: 15
0.71 0.12 0.16
Matches are distributed among these distances:
18 5 0.08
19 27 0.42
20 15 0.23
21 12 0.18
22 6 0.09
ACGTcount: A:0.58, C:0.06, G:0.01, T:0.35
Consensus pattern (20 bp):
AAAAAATTTTTAAAAATTCT
Found at i:4898188 original size:11 final size:10
Alignment explanation
Indices: 4898099--4898307 Score: 91
Period size: 10 Copynumber: 21.7 Consensus size: 10
4898089 TTAGTATTAA
4898099 AAAAAATTTT
1 AAAAAATTTT
* *
4898109 TAAAAATTCT
1 AAAAAATTTT
**
4898119 AAAATTTTTT
1 AAAAAATTTT
* * *
4898129 GAAAAATCTA
1 AAAAAATTTT
**
4898139 AAAAAAAATT
1 AAAAAATTTT
4898149 --AAAATTTT
1 AAAAAATTTT
*
4898157 AAAAAATTCT
1 AAAAAATTTT
*
4898167 AAACAATTTTT
1 AAA-AAATTTT
4898178 AAAAAACTTTT
1 AAAAAA-TTTT
*
4898189 -AAAAA-TTC
1 AAAAAATTTT
**
4898197 AAAAATATTCC
1 AAAAA-ATTTT
*
4898208 AAGAAATTTT
1 AAAAAATTTT
*
4898218 -AAAAATTAT
1 AAAAAATTTT
4898227 AAAAAA--TT
1 AAAAAATTTT
*
4898235 AAGAAAA-ATT
1 AA-AAAATTTT
4898245 -AAAAATTTT
1 AAAAAATTTT
* *
4898254 AAAAAAATCT
1 AAAAAATTTT
*
4898264 -CAAAATTTT
1 AAAAAATTTT
4898273 AAAAAA--TT
1 AAAAAATTTT
*
4898281 CAAAAATTTT
1 AAAAAATTTT
* *
4898291 AAAAAAATTA
1 AAAAAATTTT
4898301 AAAAAAT
1 AAAAAAT
4898308 AAAGATTTAA
Statistics
Matches: 143, Mismatches: 41, Indels: 30
0.67 0.19 0.14
Matches are distributed among these distances:
8 22 0.15
9 24 0.17
10 79 0.55
11 18 0.13
ACGTcount: A:0.60, C:0.05, G:0.01, T:0.33
Consensus pattern (10 bp):
AAAAAATTTT
Found at i:4898196 original size:31 final size:29
Alignment explanation
Indices: 4898149--4898299 Score: 91
Period size: 29 Copynumber: 5.2 Consensus size: 29
4898139 AAAAAAAATT
**
4898149 AAAATTTTAAAAAATTCTAAACAATTTTTAA
1 AAAATTTT-AAAAATTCTAAA-AATTTCCAA
4898180 AAAACTTTTAAAAATTC-AAAAATATTCCAA
1 AAAA-TTTTAAAAATTCTAAAAAT-TTCCAA
* * *
4898210 GAAATTTTAAAAATTATAAAAAATT--AA
1 AAAATTTTAAAAATTCTAAAAATTTCCAA
* * **
4898237 GAAAA-ATTAAAAATTTTAAAAAAATCTC--
1 -AAAATTTTAAAAATTCTAAAAATTTC-CAA
**
4898265 AAAATTTTAAAAAATTC-AAAAATTTTAAA
1 AAAATTTT-AAAAATTCTAAAAATTTCCAA
4898294 AAAATT
1 AAAATT
4898300 AAAAAAATAA
Statistics
Matches: 94, Mismatches: 15, Indels: 24
0.71 0.11 0.18
Matches are distributed among these distances:
27 23 0.24
28 11 0.12
29 29 0.31
30 15 0.16
31 12 0.13
32 4 0.04
ACGTcount: A:0.60, C:0.06, G:0.01, T:0.33
Consensus pattern (29 bp):
AAAATTTTAAAAATTCTAAAAATTTCCAA
Found at i:4898206 original size:10 final size:9
Alignment explanation
Indices: 4898187--4898304 Score: 64
Period size: 9 Copynumber: 12.8 Consensus size: 9
4898177 TAAAAAACTT
4898187 TTAAAAAT-
1 TTAAAAATA
*
4898195 TCAAAAATA
1 TTAAAAATA
*
4898204 TTCCAAGAAATT
1 TT--AA-AAATA
4898216 TTAAAAAT-
1 TTAAAAATA
4898224 TATAAAAA-A
1 T-TAAAAATA
*
4898233 TTAAGAAAAA
1 TTAA-AAATA
*
4898243 TTAAAAATT
1 TTAAAAATA
*
4898252 TTAAAAAAA
1 TTAAAAATA
* *
4898261 TCTCAAAATT
1 T-TAAAAATA
4898271 TTAAAAA-A
1 TTAAAAATA
*
4898279 TTCAAAAATT
1 TT-AAAAATA
*
4898289 TTAAAAAAA
1 TTAAAAATA
4898298 TTAAAAA
1 TTAAAAA
4898305 AATAAAGATT
Statistics
Matches: 84, Mismatches: 15, Indels: 21
0.70 0.12 0.17
Matches are distributed among these distances:
8 13 0.15
9 48 0.57
10 15 0.18
11 2 0.02
12 6 0.07
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.31
Consensus pattern (9 bp):
TTAAAAATA
Found at i:4898230 original size:29 final size:27
Alignment explanation
Indices: 4898208--4898277 Score: 79
Period size: 28 Copynumber: 2.6 Consensus size: 27
4898198 AAAATATTCC
4898208 AAGAAATTTTAAAAATTATAAAAAATT
1 AAGAAATTTTAAAAATTATAAAAAATT
** *
4898235 AAGAAAAATTAAAAATTTTAAAAAAATCT
1 AAGAAATTTTAAAAATTAT-AAAAAAT-T
*
4898264 CA-AAATTTTAAAAA
1 AAGAAATTTTAAAAA
4898278 ATTCAAAAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
27 16 0.46
28 17 0.49
29 2 0.06
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (27 bp):
AAGAAATTTTAAAAATTATAAAAAATT
Found at i:4898249 original size:19 final size:18
Alignment explanation
Indices: 4898140--4898305 Score: 95
Period size: 19 Copynumber: 8.8 Consensus size: 18
4898130 AAAAATCTAA
*
4898140 AAAAAAATT-AAAATTTT
1 AAAAAAATTAAAAAATTT
* *
4898157 AAAAAATTCTAAACAATTTTT
1 AAAAAAAT-TAAA-AA-ATTT
* * *
4898178 AAAAAACTTTTAAAAATTC
1 AAAAAA-ATTAAAAAATTT
* *
4898197 AAAAATATTCCAAGAAATTT
1 AAAAAAATT--AAAAAATTT
* *
4898217 -TAAAAATTATAAAAAATT
1 AAAAAAATTA-AAAAATTT
*
4898235 AAGAAAAATTAAAAATTTT
1 AA-AAAAATTAAAAAATTT
*
4898254 AAAAAAATCT-CAAAATTT
1 AAAAAAAT-TAAAAAATTT
* *
4898272 TAAAAAATTCAAAAATTTT
1 AAAAAAATT-AAAAAATTT
4898291 AAAAAAATTAAAAAA
1 AAAAAAATTAAAAAA
4898306 ATAAAGATTT
Statistics
Matches: 113, Mismatches: 23, Indels: 25
0.70 0.14 0.16
Matches are distributed among these distances:
17 9 0.08
18 33 0.29
19 38 0.34
20 18 0.16
21 13 0.12
22 2 0.02
ACGTcount: A:0.62, C:0.05, G:0.01, T:0.31
Consensus pattern (18 bp):
AAAAAAATTAAAAAATTT
Found at i:4898305 original size:10 final size:9
Alignment explanation
Indices: 4898218--4898307 Score: 74
Period size: 9 Copynumber: 9.7 Consensus size: 9
4898208 AAGAAATTTT
4898218 AAAAATTATA
1 AAAAATTA-A
4898228 AAAAATTAA
1 AAAAATTAA
4898237 GAAAAATTAA
1 -AAAAATTAA
**
4898247 AAATTTTAA
1 AAAAATTAA
*
4898256 AAAAATCT-C
1 AAAAAT-TAA
* *
4898265 AAAATTTTA
1 AAAAATTAA
4898274 AAAAATTCAA
1 AAAAATT-AA
**
4898284 AAATTTTAA
1 AAAAATTAA
4898293 AAAAATTAA
1 AAAAATTAA
4898302 AAAAAT
1 AAAAAT
4898308 AAAGATTTAA
Statistics
Matches: 63, Mismatches: 13, Indels: 9
0.74 0.15 0.11
Matches are distributed among these distances:
8 1 0.02
9 38 0.60
10 24 0.38
ACGTcount: A:0.67, C:0.03, G:0.01, T:0.29
Consensus pattern (9 bp):
AAAAATTAA
Found at i:4899069 original size:1 final size:1
Alignment explanation
Indices: 4899063--4899087 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
4899053 GTTGGCTTGG
4899063 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
4899088 GGTGAGGATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:4899474 original size:20 final size:20
Alignment explanation
Indices: 4899418--4899490 Score: 76
Period size: 20 Copynumber: 3.6 Consensus size: 20
4899408 AATGTTTGGC
* * *
4899418 TTTTAT-ATGTTTTGAATCT
1 TTTTATAATTTTTTAAATTT
* *
4899437 TTTTAGAATCTTTGTAAATTT
1 TTTTATAAT-TTTTTAAATTT
4899458 TTTTATAATTTTTTAAATTT
1 TTTTATAATTTTTTAAATTT
*
4899478 TTATATAATTTTT
1 TTTTATAATTTTT
4899491 CAAACTATTT
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
19 5 0.11
20 24 0.55
21 15 0.34
ACGTcount: A:0.27, C:0.03, G:0.05, T:0.64
Consensus pattern (20 bp):
TTTTATAATTTTTTAAATTT
Found at i:4899487 original size:11 final size:10
Alignment explanation
Indices: 4899456--4899490 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
4899446 CTTTGTAAAT
4899456 TTTTTTATAA
1 TTTTTTATAA
4899466 TTTTTTA-AA
1 TTTTTTATAA
4899475 TTTTTATATAA
1 TTTTT-TATAA
4899486 TTTTT
1 TTTTT
4899491 CAAACTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 7 0.30
10 9 0.39
11 7 0.30
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (10 bp):
TTTTTTATAA
Found at i:4907442 original size:22 final size:22
Alignment explanation
Indices: 4907414--4907457 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
4907404 CTAAATCTTC
*
4907414 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
4907436 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
4907458 TAAATATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:4910926 original size:18 final size:18
Alignment explanation
Indices: 4910900--4910934 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4910890 TAATCCATGA
*
4910900 GAACCAGAAGCTTTACCT
1 GAACCAGAAACTTTACCT
*
4910918 GAACTAGAAACTTTACC
1 GAACCAGAAACTTTACC
4910935 CAAAGAACAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.26, G:0.14, T:0.23
Consensus pattern (18 bp):
GAACCAGAAACTTTACCT
Found at i:4911164 original size:23 final size:25
Alignment explanation
Indices: 4911109--4911167 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
4911099 AAAGGGTTCG
* * *
4911109 GCAATGAAGGCCTAAACAGGATTCG
1 GCAATGAAGGCCTAAACAGAAGTCA
4911134 GCAATGAAGGCCTAAA-A-AAGTCA
1 GCAATGAAGGCCTAAACAGAAGTCA
4911157 GCAATGAAGGC
1 GCAATGAAGGC
4911168 TGAAAATTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
23 14 0.45
24 1 0.03
25 16 0.52
ACGTcount: A:0.41, C:0.19, G:0.27, T:0.14
Consensus pattern (25 bp):
GCAATGAAGGCCTAAACAGAAGTCA
Found at i:4911342 original size:22 final size:22
Alignment explanation
Indices: 4911314--4911357 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
4911304 CTAAATCTTC
*
4911314 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
4911336 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
4911358 TAAATATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:4911800 original size:23 final size:24
Alignment explanation
Indices: 4911774--4911833 Score: 86
Period size: 25 Copynumber: 2.5 Consensus size: 24
4911764 CAAAATAAAT
*
4911774 TAGGA-AATCAAGCTGCACTAATG
1 TAGGAGAATCAAGCTACACTAATG
*
4911797 TAGGAGAATCAGATCTACACTAATG
1 TAGGAGAATCA-AGCTACACTAATG
4911822 TAGGAGAATCAA
1 TAGGAGAATCAA
4911834 ATTTCTACAC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
23 5 0.15
24 6 0.18
25 22 0.67
ACGTcount: A:0.42, C:0.15, G:0.22, T:0.22
Consensus pattern (24 bp):
TAGGAGAATCAAGCTACACTAATG
Found at i:4917737 original size:34 final size:34
Alignment explanation
Indices: 4917699--4917771 Score: 94
Period size: 34 Copynumber: 2.1 Consensus size: 34
4917689 TACTATACCA
* **
4917699 AAAAAGATATTTTTGAAAAATGTTAC-AATTATCT
1 AAAAAGACATTTTTGAAAAACATT-CTAATTATCT
*
4917733 AAAAATACATTTTTGAAAAACATTCTAATTATCT
1 AAAAAGACATTTTTGAAAAACATTCTAATTATCT
4917767 AAAAA
1 AAAAA
4917772 TGCATTTCAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
33 1 0.03
34 33 0.97
ACGTcount: A:0.51, C:0.08, G:0.05, T:0.36
Consensus pattern (34 bp):
AAAAAGACATTTTTGAAAAACATTCTAATTATCT
Found at i:4917772 original size:34 final size:34
Alignment explanation
Indices: 4917707--4917778 Score: 101
Period size: 34 Copynumber: 2.1 Consensus size: 34
4917697 CAAAAAAGAT
**
4917707 ATTTTTGAAAAATGTTACAATTATCTAAAAATAC
1 ATTTTTGAAAAACATTACAATTATCTAAAAATAC
*
4917741 ATTTTTGAAAAACATT-CTAATTATCTAAAAATGC
1 ATTTTTGAAAAACATTAC-AATTATCTAAAAATAC
4917775 ATTT
1 ATTT
4917779 CAAAAGGTGT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
33 1 0.03
34 33 0.97
ACGTcount: A:0.44, C:0.10, G:0.06, T:0.40
Consensus pattern (34 bp):
ATTTTTGAAAAACATTACAATTATCTAAAAATAC
Found at i:4922286 original size:11 final size:11
Alignment explanation
Indices: 4922272--4922296 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
4922262 TTTATTTTTT
4922272 TTATATTAAAC
1 TTATATTAAAC
4922283 TTATATTAAAC
1 TTATATTAAAC
4922294 TTA
1 TTA
4922297 AAAACATGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (11 bp):
TTATATTAAAC
Found at i:4930148 original size:3 final size:3
Alignment explanation
Indices: 4930140--4930185 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
4930130 AAATTTTTTA
4930140 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
4930186 TGCATGAAAC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:4936952 original size:2 final size:2
Alignment explanation
Indices: 4936947--4936977 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
4936937 GATGTCCATT
*
4936947 TA TA TA TA TA TA TA TA TA TA TA TA GA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4936978 TTGTTCACAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
TA
Found at i:4937482 original size:23 final size:24
Alignment explanation
Indices: 4937456--4937501 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
4937446 TTTTTTACAA
*
4937456 TTAT-ATATCATAAATAAAAATTT
1 TTATGATATCAAAAATAAAAATTT
*
4937479 TTATGATATCAAAAATCAAAATT
1 TTATGATATCAAAAATAAAAATT
4937502 AAAGATATAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.52, C:0.07, G:0.02, T:0.39
Consensus pattern (24 bp):
TTATGATATCAAAAATAAAAATTT
Found at i:4941315 original size:24 final size:24
Alignment explanation
Indices: 4941263--4941315 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
4941253 AAATAATAAT
* * *
4941263 GAAATTTATTATAATTATAATTTA
1 GAAAATTATGATAATTATAATTGA
* *
4941287 AAAAATTATGATAATTATGATTGA
1 GAAAATTATGATAATTATAATTGA
4941311 GAAAA
1 GAAAA
4941316 AAATTAATAA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.51, C:0.00, G:0.09, T:0.40
Consensus pattern (24 bp):
GAAAATTATGATAATTATAATTGA
Found at i:4941364 original size:22 final size:24
Alignment explanation
Indices: 4941338--4941384 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
4941328 ATTTATGTTA
*
4941338 ATTT-AATTTTATTAAAAT-TAAT
1 ATTTAAATTTAATTAAAATATAAT
4941360 ATTTAAATTTAATTAAAATATAAT
1 ATTTAAATTTAATTAAAATATAAT
4941384 A
1 A
4941385 AATTTAATCG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 4 0.18
23 13 0.59
24 5 0.23
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (24 bp):
ATTTAAATTTAATTAAAATATAAT
Found at i:4941684 original size:25 final size:26
Alignment explanation
Indices: 4941656--4941707 Score: 72
Period size: 25 Copynumber: 2.0 Consensus size: 26
4941646 TTTTTTTGAA
4941656 TATTTTTA-AAATAAAATTTAA-AAAT
1 TATTTTTATAAATAAAA-TTAATAAAT
*
4941681 TATTTTTATCAATAAAATTAATAAAT
1 TATTTTTATAAATAAAATTAATAAAT
4941707 T
1 T
4941708 TATCAATAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 12 0.50
26 12 0.50
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (26 bp):
TATTTTTATAAATAAAATTAATAAAT
Found at i:4942604 original size:2 final size:2
Alignment explanation
Indices: 4942597--4942624 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4942587 GGCAAAGAGC
4942597 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4942625 ATTTTACCTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4943294 original size:2 final size:2
Alignment explanation
Indices: 4943287--4943312 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4943277 CTCCTTTTAG
4943287 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
4943313 GAGTTTCTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4943338 original size:13 final size:13
Alignment explanation
Indices: 4943320--4943344 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4943310 TATGAGTTTC
4943320 TAGAATATTAGAG
1 TAGAATATTAGAG
4943333 TAGAATATTAGA
1 TAGAATATTAGA
4943345 ATTGTAGATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.20, T:0.32
Consensus pattern (13 bp):
TAGAATATTAGAG
Found at i:4949558 original size:30 final size:30
Alignment explanation
Indices: 4949524--4949608 Score: 102
Period size: 30 Copynumber: 2.8 Consensus size: 30
4949514 TATTGTACTC
*
4949524 AATTAAAAT-TTTAAACTATTATTTTTATT-T
1 AATT-AAATCTTTAAAATATTATTTTT-TTCT
*
4949554 AATTAAATCCTTAAAATATTATTTTTTTCT
1 AATTAAATCTTTAAAATATTATTTTTTTCT
* *
4949584 AATTAAATCTTTAAAGTAATATTTT
1 AATTAAATCTTTAAAATATTATTTT
4949609 AGTTTAAGAA
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
29 6 0.12
30 42 0.88
ACGTcount: A:0.40, C:0.06, G:0.01, T:0.53
Consensus pattern (30 bp):
AATTAAATCTTTAAAATATTATTTTTTTCT
Found at i:4949756 original size:31 final size:29
Alignment explanation
Indices: 4949708--4949769 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 29
4949698 TTAATTACAA
4949708 TAAAAAAATAAAGAGCTTATTTGAAA-ATTT
1 TAAAAAAATAAAGAGCTT-TTT-AAATATTT
4949738 TAAAAAAGTATAAA-AGCTTTTTAAATATTT
1 TAAAAAA--ATAAAGAGCTTTTTAAATATTT
4949768 TA
1 TA
4949770 GTCTAAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
29 3 0.10
30 16 0.55
31 5 0.17
32 5 0.17
ACGTcount: A:0.52, C:0.03, G:0.08, T:0.37
Consensus pattern (29 bp):
TAAAAAAATAAAGAGCTTTTTAAATATTT
Found at i:4950812 original size:18 final size:19
Alignment explanation
Indices: 4950791--4950836 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
4950781 AAAAATCAAC
*
4950791 AAAATATAATAAATAA-TA
1 AAAATATAATAAAAAACTA
*
4950809 AAAATGA-AATAAAAAACTT
1 AAAAT-ATAATAAAAAACTA
4950828 AAAATATAA
1 AAAATATAA
4950837 AATGATAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
18 14 0.61
19 9 0.39
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.24
Consensus pattern (19 bp):
AAAATATAATAAAAAACTA
Found at i:4950852 original size:14 final size:13
Alignment explanation
Indices: 4950843--4950879 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
4950833 ATAAAATGAT
4950843 AAAATCAAAATCA
1 AAAATCAAAATCA
4950856 AAAATCAAAATCAA
1 AAAATCAAAATC-A
4950870 AAAATCAAAA
1 AAAATCAAAA
4950880 AATAAAAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.73, C:0.14, G:0.00, T:0.14
Consensus pattern (13 bp):
AAAATCAAAATCA
Found at i:4950861 original size:7 final size:7
Alignment explanation
Indices: 4950843--4950893 Score: 54
Period size: 6 Copynumber: 7.4 Consensus size: 7
4950833 ATAAAATGAT
4950843 AAAATC-
1 AAAATCA
4950849 AAAATCA
1 AAAATCA
4950856 AAAATC-
1 AAAATCA
4950862 AAAATCAA
1 AAAATC-A
4950870 AAAATCAA
1 AAAATC-A
4950878 AAAAT-A
1 AAAATCA
*
4950884 AAAATGA
1 AAAATCA
4950891 AAA
1 AAA
4950894 TGAAAAAAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
6 18 0.44
7 10 0.24
8 13 0.32
ACGTcount: A:0.75, C:0.10, G:0.02, T:0.14
Consensus pattern (7 bp):
AAAATCA
Found at i:4950861 original size:13 final size:14
Alignment explanation
Indices: 4950843--4950901 Score: 68
Period size: 14 Copynumber: 4.3 Consensus size: 14
4950833 ATAAAATGAT
4950843 AAAATCAAAATC-A
1 AAAATCAAAATCAA
4950856 AAAATCAAAATCAA
1 AAAATCAAAATCAA
*
4950870 AAAATCAAAA-AATA
1 AAAATCAAAATCA-A
* *
4950884 AAAATGAAAATGAA
1 AAAATCAAAATCAA
4950898 AAAA
1 AAAA
4950902 AAAATCTGTG
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
13 13 0.32
14 26 0.65
15 1 0.03
ACGTcount: A:0.75, C:0.08, G:0.03, T:0.14
Consensus pattern (14 bp):
AAAATCAAAATCAA
Found at i:4950886 original size:6 final size:6
Alignment explanation
Indices: 4950798--4950906 Score: 51
Period size: 6 Copynumber: 16.5 Consensus size: 6
4950788 AACAAAATAT
* *
4950798 AATAAA TAATAAA AATGAAA TAA-AAA ACTTAA AATATAA AATGATAA
1 AATAAA -AATAAA AAT-AAA -AATAAA AATAAA AATA-AA AAT-A-AA
* * *
4950845 AATCAA AATCAAA AATCAA AATCAAAA AATCAAAA AATAAA AATGAA AATGAAA
1 AATAAA AAT-AAA AATAAA AAT--AAA AAT--AAA AATAAA AATAAA AAT-AAA
4950899 AA-AAA AAT
1 AATAAA AAT
4950907 CTGTGATTGG
Statistics
Matches: 82, Mismatches: 10, Indels: 21
0.73 0.09 0.19
Matches are distributed among these distances:
5 6 0.07
6 31 0.38
7 23 0.28
8 22 0.27
ACGTcount: A:0.72, C:0.06, G:0.04, T:0.18
Consensus pattern (6 bp):
AATAAA
Found at i:4950886 original size:14 final size:14
Alignment explanation
Indices: 4950781--4950905 Score: 50
Period size: 13 Copynumber: 9.3 Consensus size: 14
4950771 AATTGCTAAA
4950781 AAAAATCAACAAAAT
1 AAAAATCAA-AAAAT
* *
4950796 -ATAAT-AAATAAT
1 AAAAATCAAAAAAT
* *
4950808 AAAAATGAAATAA-
1 AAAAATCAAAAAAT
* * *
4950821 AAAACTTAAAATAT
1 AAAAATCAAAAAAT
* *
4950835 -AAAATGATAAAAT
1 AAAAATCAAAAAAT
*
4950848 CAAAATC-AAAAAT
1 AAAAATCAAAAAAT
*
4950861 CAAAATCAAAAAAT
1 AAAAATCAAAAAAT
4950875 CAAAAA--ATAAAAAT
1 -AAAAATCA-AAAAAT
* *
4950889 GAAAATGAAAAAA-
1 AAAAATCAAAAAAT
4950902 AAAA
1 AAAA
4950906 TCTGTGATTG
Statistics
Matches: 85, Mismatches: 16, Indels: 20
0.70 0.13 0.17
Matches are distributed among these distances:
12 4 0.05
13 44 0.52
14 32 0.38
15 5 0.06
ACGTcount: A:0.73, C:0.06, G:0.03, T:0.18
Consensus pattern (14 bp):
AAAAATCAAAAAAT
Found at i:4950901 original size:8 final size:8
Alignment explanation
Indices: 4950849--4950887 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
4950839 TGATAAAATC
4950849 AAAATC-A
1 AAAATCAA
4950856 AAAATC--
1 AAAATCAA
4950862 AAAATCAA
1 AAAATCAA
4950870 AAAATCAA
1 AAAATCAA
4950878 AAAAT-AA
1 AAAATCAA
4950885 AAA
1 AAA
4950888 TGAAAATGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 6 0.20
7 11 0.37
8 13 0.43
ACGTcount: A:0.77, C:0.10, G:0.00, T:0.13
Consensus pattern (8 bp):
AAAATCAA
Found at i:4951985 original size:33 final size:33
Alignment explanation
Indices: 4951948--4952016 Score: 84
Period size: 33 Copynumber: 2.1 Consensus size: 33
4951938 TCGCAAAAGT
* * *
4951948 TTTCAAATTCACAAGAATGAAAGATTCATAATA
1 TTTCAAATTCACAAAAAAGAAAGATTCATAAGA
* * *
4951981 TTTCAAGTTCGCAAAAAAGAAAGATTCGTAAGA
1 TTTCAAATTCACAAAAAAGAAAGATTCATAAGA
4952014 TTT
1 TTT
4952017 TAAGTTTCGC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.45, C:0.12, G:0.13, T:0.30
Consensus pattern (33 bp):
TTTCAAATTCACAAAAAAGAAAGATTCATAAGA
Found at i:4952022 original size:33 final size:34
Alignment explanation
Indices: 4951966--4952029 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 34
4951956 TCACAAGAAT
*
4951966 GAAAGATTCATAATATTTCAAG-TTCGCAAAAAA
1 GAAAGATTCATAAGATTTCAAGTTTCGCAAAAAA
* *
4951999 GAAAGATTCGTAAGATTTTAAGTTTCGCAAA
1 GAAAGATTCATAAGATTTCAAGTTTCGCAAA
4952030 GGTTCTAGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
33 19 0.70
34 8 0.30
ACGTcount: A:0.44, C:0.11, G:0.16, T:0.30
Consensus pattern (34 bp):
GAAAGATTCATAAGATTTCAAGTTTCGCAAAAAA
Found at i:4952371 original size:54 final size:54
Alignment explanation
Indices: 4952280--4952410 Score: 131
Period size: 54 Copynumber: 2.4 Consensus size: 54
4952270 CAATAAAGTA
** *
4952280 ATCTAGACTAAGCCAAGATCAAAGACAAGGATGGAGTCATAAATCAAG-AAAATG
1 ATCTAGACTAAGCCAAGATCAAAGACAAGGACAGAGTCACAAAT-AAGAAAAATG
* ** * *
4952334 ATCTAGACTAAGCCAAGATCGATA-ACTTGGACAGAGTCCCAAATTAGAAAAATG
1 ATCTAGACTAAGCCAAGATC-AAAGACAAGGACAGAGTCACAAATAAGAAAAATG
* **
4952388 ATCTGGACTAAGTTAAGATCAAA
1 ATCTAGACTAAGCCAAGATCAAA
4952411 TGATAGGGAT
Statistics
Matches: 63, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
53 4 0.06
54 57 0.90
55 2 0.03
ACGTcount: A:0.45, C:0.16, G:0.19, T:0.20
Consensus pattern (54 bp):
ATCTAGACTAAGCCAAGATCAAAGACAAGGACAGAGTCACAAATAAGAAAAATG
Found at i:4956354 original size:15 final size:15
Alignment explanation
Indices: 4956334--4956364 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4956324 ATGAATATGC
*
4956334 ATAAAAAGAAAAGAA
1 ATAAAAAAAAAAGAA
4956349 ATAAAAAAAAAAGAA
1 ATAAAAAAAAAAGAA
4956364 A
1 A
4956365 ATCGATTTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.84, C:0.00, G:0.10, T:0.06
Consensus pattern (15 bp):
ATAAAAAAAAAAGAA
Found at i:4959749 original size:51 final size:48
Alignment explanation
Indices: 4959691--4959829 Score: 143
Period size: 51 Copynumber: 2.8 Consensus size: 48
4959681 TATTTGATTT
* *
4959691 TCATTTTAATGAAAATTGATTATGAAATTAAATCTCAAAAATCTCTCCCTA
1 TCATTTTAATGAAAATTGATTATAAAATTAAATCTAAAAAATCTCT--C-A
** * * *
4959742 TCATTTTAATGCCAGTTGATTCTTAAATTAAATCTAAAAAATCTCTCA
1 TCATTTTAATGAAAATTGATTATAAAATTAAATCTAAAAAATCTCTCA
* ** * *
4959790 ACATTTTAATGTGAATTGATTTTAAAATTAAATCTTAAAA
1 TCATTTTAATGAAAATTGATTATAAAATTAAATCTAAAAA
4959830 TTCTTTCAAT
Statistics
Matches: 75, Mismatches: 13, Indels: 3
0.82 0.14 0.03
Matches are distributed among these distances:
48 34 0.45
49 1 0.01
51 40 0.53
ACGTcount: A:0.41, C:0.13, G:0.06, T:0.40
Consensus pattern (48 bp):
TCATTTTAATGAAAATTGATTATAAAATTAAATCTAAAAAATCTCTCA
Found at i:4959818 original size:48 final size:47
Alignment explanation
Indices: 4959692--4959838 Score: 141
Period size: 48 Copynumber: 3.0 Consensus size: 47
4959682 ATTTGATTTT
* * *
4959692 CATTTTAATGAAAATTGATTATGAAATTAAATCTCAAAAATCTCTCCCTAT
1 CATTTTAATGAAAATTGATT-TTAAATTAAATCTAAAAAATCTCT--C-AA
** *
4959743 CATTTTAATGCCAGTTGATTCTTAAATTAAATCTAAAAAATCTCTCAA
1 CATTTTAATGAAAATTGATT-TTAAATTAAATCTAAAAAATCTCTCAA
** * * *
4959791 CATTTTAATGTGAATTGATTTTAAAATTAAATCTTAAAATTCTTTCAA
1 CATTTTAATGAAAATTGATTTT-AAATTAAATCTAAAAAATCTCTCAA
4959839 TTACGGTTAA
Statistics
Matches: 82, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
47 2 0.02
48 40 0.49
49 1 0.01
51 39 0.48
ACGTcount: A:0.40, C:0.14, G:0.06, T:0.40
Consensus pattern (47 bp):
CATTTTAATGAAAATTGATTTTAAATTAAATCTAAAAAATCTCTCAA
Found at i:4968994 original size:4 final size:4
Alignment explanation
Indices: 4968972--4969022 Score: 56
Period size: 4 Copynumber: 13.5 Consensus size: 4
4968962 ATTTTGTATT
*
4968972 TTTA TTT- TATA TCTTA TTTA TTTA TTTA TTTA -TTA TTTA -TTA -TTA
1 TTTA TTTA TTTA T-TTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
4969017 TTTA TT
1 TTTA TT
4969023 AATATAAATA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
3 11 0.27
4 27 0.66
5 3 0.07
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (4 bp):
TTTA
Found at i:4969007 original size:7 final size:7
Alignment explanation
Indices: 4968968--4969146 Score: 61
Period size: 7 Copynumber: 25.0 Consensus size: 7
4968958 ATCAATTTTG
4968968 TATTT-T
1 TATTTAT
4968974 TATTT-T
1 TATTTAT
4968980 ATATCTTATT
1 -TAT-TTA-T
4968990 TATTTATT
1 TATTTA-T
4968998 TATTTAT
1 TATTTAT
4969005 TATTTAT
1 TATTTAT
4969012 TA-TTAT
1 TATTTAT
*
4969018 T-TATTAA
1 TAT-TTAT
**
4969025 TATAAAT
1 TATTTAT
4969032 ATATTTAT
1 -TATTTAT
*
4969040 CTATTAAT
1 -TATTTAT
4969048 ATATATTAT
1 -TAT-TTAT
*
4969057 TATTTAAC
1 TATTT-AT
*
4969065 TATTAAT
1 TATTTAT
*
4969072 GTATATA-
1 -TATTTAT
*
4969079 AATTT-T
1 TATTTAT
4969085 TA-TTAT
1 TATTTAT
**
4969091 TAACTAT
1 TATTTAT
*
4969098 TATCTAT
1 TATTTAT
4969105 TATTTAT
1 TATTTAT
*
4969112 CTA-TTAG
1 -TATTTAT
*
4969119 TATATA-
1 TATTTAT
4969125 TATTTATT
1 TATTTA-T
4969133 TATTTAT
1 TATTTAT
4969140 TATTTAT
1 TATTTAT
4969147 CTTTTTTTTT
Statistics
Matches: 131, Mismatches: 24, Indels: 35
0.69 0.13 0.18
Matches are distributed among these distances:
5 2 0.02
6 25 0.19
7 49 0.37
8 48 0.37
9 6 0.05
10 1 0.01
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.61
Consensus pattern (7 bp):
TATTTAT
Found at i:4969016 original size:10 final size:10
Alignment explanation
Indices: 4968985--4969146 Score: 73
Period size: 10 Copynumber: 15.8 Consensus size: 10
4968975 ATTTTATATC
4968985 TTATTTA-T-
1 TTATTTATTA
4968993 TTATTTATTTA
1 TTATTTA-TTA
4969004 TTATTTATTA
1 TTATTTATTA
4969014 TTATTTATTA
1 TTATTTATTA
* **
4969024 ATATAAATATA
1 TTATTTAT-TA
*
4969035 TTTATCTATTA
1 -TTATTTATTA
* *
4969046 ATATATATTA
1 TTATTTATTA
*
4969056 TTATTTAACTA
1 TTATTT-ATTA
*
4969067 TTAATGTA-TA
1 TT-ATTTATTA
*
4969077 TAAATTT-TTA
1 T-TATTTATTA
* *
4969087 TTATTAACTA
1 TTATTTATTA
*
4969097 TTATCTATTA
1 TTATTTATTA
*
4969107 TTTATCTATTA
1 -TTATTTATTA
* *
4969118 GTATATA-TA
1 TTATTTATTA
4969127 TTTATTTATTTA
1 -TTATTTA-TTA
4969139 TTATTTAT
1 TTATTTAT
4969147 CTTTTTTTTT
Statistics
Matches: 116, Mismatches: 24, Indels: 26
0.70 0.14 0.16
Matches are distributed among these distances:
8 7 0.06
9 5 0.04
10 60 0.52
11 34 0.29
12 10 0.09
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.60
Consensus pattern (10 bp):
TTATTTATTA
Found at i:4969051 original size:24 final size:25
Alignment explanation
Indices: 4969024--4969141 Score: 79
Period size: 24 Copynumber: 4.9 Consensus size: 25
4969014 TTATTTATTA
4969024 ATATAAATATATTTATCTATTAA-T
1 ATATAAATATATTTATCTATTAACT
* * *
4969048 ATAT-ATTATTATTTAACTATTAATGT
1 ATATAAATA-TATTTATCTATTAA-CT
4969074 ATATAAAT-T-TTTAT-TATTAACT
1 ATATAAATATATTTATCTATTAACT
** *
4969096 AT-TATCTATTATTTATCTATT-AGT
1 ATATAAATA-TATTTATCTATTAACT
* * *
4969120 ATATATATTTATTTATTTATTA
1 ATATAAATATATTTATCTATTA
4969142 TTTATCTTTT
Statistics
Matches: 73, Mismatches: 11, Indels: 19
0.71 0.11 0.18
Matches are distributed among these distances:
21 3 0.04
22 3 0.04
23 10 0.14
24 41 0.56
25 9 0.12
26 5 0.07
27 2 0.03
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (25 bp):
ATATAAATATATTTATCTATTAACT
Found at i:4969087 original size:48 final size:46
Alignment explanation
Indices: 4969024--4969129 Score: 126
Period size: 48 Copynumber: 2.2 Consensus size: 46
4969014 TTATTTATTA
4969024 ATATAAATATATTTATCTATTAA-TATATAT-TATTATTTAACTATTAATGT
1 ATATAAAT-T-TTTAT-TATTAACTAT-TATCTATTATTTAACTATT-A-GT
*
4969074 ATATAAATTTTTATTATTAACTATTATCTATTATTTATCTATTAGT
1 ATATAAATTTTTATTATTAACTATTATCTATTATTTAACTATTAGT
*
4969120 ATATATATTT
1 ATATAAATTT
4969130 ATTTATTTAT
Statistics
Matches: 52, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
46 11 0.21
47 10 0.19
48 22 0.42
49 1 0.02
50 8 0.15
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.55
Consensus pattern (46 bp):
ATATAAATTTTTATTATTAACTATTATCTATTATTTAACTATTAGT
Found at i:4969892 original size:3 final size:3
Alignment explanation
Indices: 4969886--4969929 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
4969876 TTTTTTTTTC
4969886 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
4969930 GTTGTTGTTG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:4969985 original size:5 final size:5
Alignment explanation
Indices: 4969975--4970001 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
4969965 TTTAGTATTC
4969975 TTTAT TTTAT TTTAT TTTAT TTTAT TT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TT
4970002 ATTATTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:4970115 original size:59 final size:57
Alignment explanation
Indices: 4970048--4970207 Score: 216
Period size: 59 Copynumber: 2.8 Consensus size: 57
4970038 TAAAAAAAAG
*
4970048 AAAAAATATTGTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAAT-AAGTTTTTCT
1 AAAAAATATT-TTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAG--TTTCA
* * *
4970107 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTAGAAATTAAAGTTTCA
1 AAAAAATA-TTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAGTTTCA
*
4970165 AAAAAATATTTTG-GAGAAAAGTTGAAAGTATCAATTTTCCTTG
1 AAAAAATATTTTGAGA-AAAAGTTGAAAGTATCAATTTTTCTTG
4970208 TATAAAAGCA
Statistics
Matches: 91, Mismatches: 7, Indels: 8
0.86 0.07 0.08
Matches are distributed among these distances:
56 1 0.01
57 30 0.33
58 12 0.13
59 43 0.47
60 5 0.05
ACGTcount: A:0.43, C:0.06, G:0.14, T:0.37
Consensus pattern (57 bp):
AAAAAATATTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAGTTTCA
Found at i:4980055 original size:13 final size:13
Alignment explanation
Indices: 4980039--4980063 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4980029 TTTATTATTA
4980039 AATATTTAATTTC
1 AATATTTAATTTC
4980052 AATATTTAATTT
1 AATATTTAATTT
4980064 AAAGTAATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (13 bp):
AATATTTAATTTC
Found at i:4980371 original size:12 final size:12
Alignment explanation
Indices: 4980351--4980382 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
4980341 TTAATTTTAA
*
4980351 AATACCTTAAAT
1 AATATCTTAAAT
4980363 AATATCTTAAAT
1 AATATCTTAAAT
4980375 AATATCTT
1 AATATCTT
4980383 TTAATTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (12 bp):
AATATCTTAAAT
Found at i:4980563 original size:29 final size:29
Alignment explanation
Indices: 4980530--4980589 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
4980520 AAATTGTACG
4980530 ATTTTACTTTATTATAAAATATATATTAT
1 ATTTTACTTTATTATAAAATATATATTAT
* *
4980559 ATTTTACTTTATTTTAAAATTTATATTAT
1 ATTTTACTTTATTATAAAATATATATTAT
4980588 AT
1 AT
4980590 AGGATTTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.58
Consensus pattern (29 bp):
ATTTTACTTTATTATAAAATATATATTAT
Found at i:4984292 original size:3 final size:3
Alignment explanation
Indices: 4984284--4984330 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
4984274 ATAAAGCACA
4984284 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
4984331 ATATATGCTA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:4984882 original size:2 final size:2
Alignment explanation
Indices: 4984875--4984899 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4984865 ATGCCTTACA
4984875 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
4984900 AAAGTTGTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4988121 original size:2 final size:2
Alignment explanation
Indices: 4988114--4988145 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
4988104 TGTTTATCAA
4988114 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
4988146 TAAGCTCCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:4990105 original size:39 final size:38
Alignment explanation
Indices: 4990051--4990168 Score: 173
Period size: 39 Copynumber: 3.0 Consensus size: 38
4990041 GAATAATAAA
4990051 CCTTCTGAGATGTTTTTTCCACTGTCTCCTCTCTTTCAT
1 CCTTCTGAGATGTTTTTT-CACTGTCTCCTCTCTTTCAT
* * *
4990090 CCTTCTGAGATGTTTTTTTCACCGTCTCCTCCCTTTCTT
1 CCTTCTGAGATG-TTTTTTCACTGTCTCCTCTCTTTCAT
*
4990129 CCTTCTGAGATGGCTTTTTCACTGTCTCCTCTCTTTCAT
1 CCTTCTGAGAT-GTTTTTTCACTGTCTCCTCTCTTTCAT
4990168 C
1 C
4990169 GATATAAGCA
Statistics
Matches: 70, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
39 63 0.90
40 7 0.10
ACGTcount: A:0.09, C:0.32, G:0.11, T:0.47
Consensus pattern (38 bp):
CCTTCTGAGATGTTTTTTCACTGTCTCCTCTCTTTCAT
Found at i:4990428 original size:30 final size:30
Alignment explanation
Indices: 4990392--4990448 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
4990382 TGAACTTCAT
* * *
4990392 ATTGGCCAATGCTTGTGCTTGCTCTCTTGC
1 ATTGGCCAATGCTGGTACTTGCCCTCTTGC
4990422 ATTGGCCAATGCTGGTACTTGCCCTCT
1 ATTGGCCAATGCTGGTACTTGCCCTCT
4990449 GTAATATCCC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.12, C:0.28, G:0.23, T:0.37
Consensus pattern (30 bp):
ATTGGCCAATGCTGGTACTTGCCCTCTTGC
Found at i:4995843 original size:22 final size:22
Alignment explanation
Indices: 4995817--4995860 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
4995807 TGTATATTTA
*
4995817 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
4995839 TATTTGTATCCCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
4995861 GATAAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (22 bp):
TATTTGTATCCCTAGAATTAAG
Found at i:4996335 original size:22 final size:22
Alignment explanation
Indices: 4996295--4996336 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
4996285 TGTATATTTA
*
4996295 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCTCTAAAATTAAG
4996317 TATTTGTATCGT-TAAAATTA
1 TATTTGTATC-TCTAAAATTA
4996337 GGATAGACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.33, C:0.07, G:0.12, T:0.48
Consensus pattern (22 bp):
TATTTGTATCTCTAAAATTAAG
Found at i:4996946 original size:23 final size:24
Alignment explanation
Indices: 4996920--4996982 Score: 74
Period size: 25 Copynumber: 2.6 Consensus size: 24
4996910 AAAATTTTCA
* *
4996920 GCCTTCATCGCTGAAT-TTTTTAG
1 GCCTTCATCGCCGAATCTGTTTAG
*
4996943 GCCTTCATTGCCGAATCCTGTTTAG
1 GCCTTCATCGCCGAAT-CTGTTTAG
*
4996968 GCCTTCATTGCCGAA
1 GCCTTCATCGCCGAA
4996983 CCCTTTCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
23 14 0.40
25 21 0.60
ACGTcount: A:0.17, C:0.27, G:0.19, T:0.37
Consensus pattern (24 bp):
GCCTTCATCGCCGAATCTGTTTAG
Found at i:5000065 original size:22 final size:22
Alignment explanation
Indices: 5000039--5000082 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
5000029 CTGTATATTT
5000039 ATATTTGTA-TCTCTAGAATTAA
1 ATATTTGTATTC-CTAGAATTAA
5000061 ATATTTGTATTCCTAGAATTAA
1 ATATTTGTATTCCTAGAATTAA
5000083 GGACAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 19 0.90
23 2 0.10
ACGTcount: A:0.36, C:0.09, G:0.09, T:0.45
Consensus pattern (22 bp):
ATATTTGTATTCCTAGAATTAA
Found at i:5012609 original size:3 final size:3
Alignment explanation
Indices: 5012601--5012667 Score: 134
Period size: 3 Copynumber: 22.3 Consensus size: 3
5012591 ATAAAAGGTG
5012601 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
5012649 TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT T
5012668 GCTACAGCAT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 64 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:5014753 original size:18 final size:18
Alignment explanation
Indices: 5014727--5014761 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
5014717 TAGTTGTTCA
*
5014727 TTTATTATAAATAATTTT
1 TTTAGTATAAATAATTTT
*
5014745 TTTAGTATAACTAATTT
1 TTTAGTATAAATAATTT
5014762 CATTATTTTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.57
Consensus pattern (18 bp):
TTTAGTATAAATAATTTT
Found at i:5022690 original size:47 final size:46
Alignment explanation
Indices: 5022595--5022893 Score: 183
Period size: 48 Copynumber: 6.2 Consensus size: 46
5022585 TTGTGTTTTC
* * * *
5022595 AAAAAA-AAG-AATGAGAGTGTTTTTCTTTAAAAAATAAAAAAATCATCA
1 AAAAAACAAGTAATGAGAGTG--TTTC-TCAAAAAA-AAGAAAATTATTA
* * * *
5022643 AAAGAAACAAGTAATGAGAGTGTTTCCCGAAAAAAGGAAAATTATCA
1 AAA-AAACAAGTAATGAGAGTGTTTCTCAAAAAAAAGAAAATTATTA
* * * * *
5022690 AAATGAATATA-TAATGATAATGTTTCTCTAAAAAATAGAAAAGTTATTA
1 AAA-AAACA-AGTAATGAGAGTGTTTCTC-AAAAAAAAGAAAA-TTATTA
* * * *
5022739 AAAAGATAAGTAATGAGAATGTTTCT-AAAAAAATAGGAAAAGTATTA
1 AAAAAACAAGTAATGAGAGTGTTTCTCAAAAAAA-A-GAAAATTATTA
* * * *
5022786 AAATAAATAAGTAATGGGAGTATTTCCTTTAAAAAATAAGAAAATTATTA
1 AAA-AAACAAGTAATGAGAGTGTTT-C-TCAAAAAA-AAGAAAATTATTA
* * * *
5022836 AAAAGAACAAGTAATGAAAGTATTTCTCTAAAAAAAATAAAATTATAA
1 AAAA-AACAAGTAATGAGAGTGTTTCTC-AAAAAAAAGAAAATTATTA
5022884 AAAATAACAA
1 AAAA-AACAA
5022894 ACAGTGAAGT
Statistics
Matches: 202, Mismatches: 33, Indels: 32
0.76 0.12 0.12
Matches are distributed among these distances:
46 6 0.03
47 40 0.20
48 80 0.40
49 24 0.12
50 34 0.17
51 17 0.08
52 1 0.00
ACGTcount: A:0.55, C:0.06, G:0.12, T:0.27
Consensus pattern (46 bp):
AAAAAACAAGTAATGAGAGTGTTTCTCAAAAAAAAGAAAATTATTA
Found at i:5022753 original size:48 final size:47
Alignment explanation
Indices: 5022651--5022890 Score: 186
Period size: 48 Copynumber: 5.0 Consensus size: 47
5022641 CAAAAGAAAC
* * * * * * *
5022651 AAGTAATGAGAGTGTTTCCCGAAAAAA-GGAAAATTATCAAAATGAAT
1 AAGTAATGAGAATATTTCTCTAAAAAATAGAAAATTATTAAAAAG-AT
* *
5022698 ATA-TAATGATAATGTTTCTCTAAAAAATAGAAAAGTTATTAAAAAGAT
1 A-AGTAATGAGAATATTTCTCTAAAAAATAGAAAA-TTATTAAAAAGAT
* * * *
5022746 AAGTAATGAGAATGTTTCT-AAAAAAATAGGAAAAGTATTAAAATAAAT
1 AAGTAATGAGAATATTTCTCTAAAAAATA-GAAAATTATTAAAA-AGAT
* * * *
5022794 AAGTAATGGGAGTATTTCCTTTAAAAAATAAGAAAATTATTAAAAAGAAC
1 AAGTAATGAGAATATTT-CTCTAAAAAAT-AGAAAATTATTAAAAAG-AT
* *
5022844 AAGTAATGA-AAGTATTTCTCTAAAAAAAATAAAATTA-TAAAAA-AT
1 AAGTAATGAGAA-TATTTCTCTAAAAAATAGAAAATTATTAAAAAGAT
5022889 AA
1 AA
5022891 CAAACAGTGA
Statistics
Matches: 158, Mismatches: 24, Indels: 24
0.77 0.12 0.12
Matches are distributed among these distances:
45 3 0.02
47 44 0.28
48 54 0.34
49 22 0.14
50 34 0.22
51 1 0.01
ACGTcount: A:0.54, C:0.05, G:0.13, T:0.28
Consensus pattern (47 bp):
AAGTAATGAGAATATTTCTCTAAAAAATAGAAAATTATTAAAAAGAT
Found at i:5033070 original size:12 final size:12
Alignment explanation
Indices: 5033043--5033094 Score: 59
Period size: 12 Copynumber: 4.2 Consensus size: 12
5033033 TCGTTCCTAT
**
5033043 AACAATAACAAG
1 AACAATAACATC
5033055 AACAATAACATC
1 AACAATAACATC
*
5033067 AACAATATCATC
1 AACAATAACATC
*
5033079 AACAACAACTATC
1 AACAATAAC-ATC
5033092 AAC
1 AAC
5033095 CAATTCACTC
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
12 28 0.82
13 6 0.18
ACGTcount: A:0.58, C:0.25, G:0.02, T:0.15
Consensus pattern (12 bp):
AACAATAACATC
Found at i:5033922 original size:17 final size:17
Alignment explanation
Indices: 5033893--5033927 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
5033883 TAGATTTTTA
5033893 ATTTATAAGTGAGGTGT
1 ATTTATAAGTGAGGTGT
5033910 ATTTAGTAA-TGAGGTGT
1 ATTTA-TAAGTGAGGTGT
5033927 A
1 A
5033928 AAGGAATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 14 0.82
18 3 0.18
ACGTcount: A:0.31, C:0.00, G:0.29, T:0.40
Consensus pattern (17 bp):
ATTTATAAGTGAGGTGT
Found at i:5034061 original size:40 final size:40
Alignment explanation
Indices: 5034016--5034095 Score: 133
Period size: 40 Copynumber: 2.0 Consensus size: 40
5034006 TTCATATCCC
* *
5034016 AAATTCAAAATTCAAAATATATTTTTCACTCATTACACCA
1 AAATTCAAAATTCAAAATAAAATTTTCACTCATTACACCA
*
5034056 AAATTCAAAATTTAAAATAAAATTTTCACTCATTACACCA
1 AAATTCAAAATTCAAAATAAAATTTTCACTCATTACACCA
5034096 TTAACCCCAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.47, C:0.19, G:0.00, T:0.34
Consensus pattern (40 bp):
AAATTCAAAATTCAAAATAAAATTTTCACTCATTACACCA
Found at i:5034548 original size:27 final size:27
Alignment explanation
Indices: 5034518--5034573 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
5034508 TTCAAAAATG
5034518 TATGTCCAAAAAACTTAAAAACTTTTT
1 TATGTCCAAAAAACTTAAAAACTTTTT
* *
5034545 TATGTCTAAAAAATTTAAAAACTTTTT
1 TATGTCCAAAAAACTTAAAAACTTTTT
5034572 TA
1 TA
5034574 ATATACATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.45, C:0.11, G:0.04, T:0.41
Consensus pattern (27 bp):
TATGTCCAAAAAACTTAAAAACTTTTT
Found at i:5035115 original size:10 final size:10
Alignment explanation
Indices: 5035100--5035125 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
5035090 TAATTTGAAA
5035100 AATTTTTTAG
1 AATTTTTTAG
5035110 AATTTTTTAG
1 AATTTTTTAG
5035120 AATTTT
1 AATTTT
5035126 ATATTTCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (10 bp):
AATTTTTTAG
Found at i:5035143 original size:18 final size:17
Alignment explanation
Indices: 5035048--5035159 Score: 73
Period size: 18 Copynumber: 6.2 Consensus size: 17
5035038 CTATCATAAT
5035048 TTTTTTAATTTATAAAAA
1 TTTTTTAATTT-TAAAAA
* * *
5035066 TATTTCATTTTTCAAAAA
1 TTTTTTAATTTT-AAAAA
*
5035084 TTTTTCTAATTTGAAAAA
1 TTTTT-TAATTTTAAAAA
* *
5035102 TTTTTTAGAATTTTTTAGAA
1 TTTTTT--AA-TTTTAAAAA
* *
5035122 TTTTAT-ATTTCAAAAA
1 TTTTTTAATTTTAAAAA
*
5035138 TTTTTTAAATTTTTAAAA
1 TTTTTT-AATTTTAAAAA
5035156 TTTT
1 TTTT
5035160 ATAAAAATTA
Statistics
Matches: 70, Mismatches: 17, Indels: 14
0.69 0.17 0.14
Matches are distributed among these distances:
16 11 0.16
17 3 0.04
18 39 0.56
19 6 0.09
20 11 0.16
ACGTcount: A:0.38, C:0.04, G:0.03, T:0.56
Consensus pattern (17 bp):
TTTTTTAATTTTAAAAA
Done.