Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168049.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_30, 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: 11202444
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 44000 characters in sequence are not A, C, G, or T
File 41 of 64
Found at i:6494161 original size:37 final size:38
Alignment explanation
Indices: 6494085--6494166 Score: 94
Period size: 37 Copynumber: 2.2 Consensus size: 38
6494075 TTTGTTATTA
** *
6494085 ATAATATAATAATATTTACTAATAGATTATTTTTTAAT
1 ATAATATAATAATATTTACTAATAGATTATTGATAAAT
* * *
6494123 ATAATATAAT-TTATTTATTAATATATTATTGATAAAT
1 ATAATATAATAATATTTACTAATAGATTATTGATAAAT
*
6494160 ATTATAT
1 ATAATAT
6494167 TACTAAACAA
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
37 27 0.73
38 10 0.27
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.51
Consensus pattern (38 bp):
ATAATATAATAATATTTACTAATAGATTATTGATAAAT
Found at i:6494201 original size:11 final size:11
Alignment explanation
Indices: 6494185--6494485 Score: 89
Period size: 11 Copynumber: 27.1 Consensus size: 11
6494175 AATATATTAT
6494185 TTATTAATATA
1 TTATTAATATA
6494196 TTATTAATATAA
1 TTATTAATAT-A
*
6494208 CATATTAATA-A
1 -TTATTAATATA
6494219 -TA-TAATA-A
1 TTATTAATATA
6494227 CTTATTAATATGA
1 -TTATTAATAT-A
6494240 TATATTAAT-TA
1 T-TATTAATATA
*
6494251 --ATAAATATA
1 TTATTAATATA
* *
6494260 -TAATATTATA
1 TTATTAATATA
* *
6494270 TGATAAATAT-
1 TTATTAATATA
6494280 TATATTAATA-A
1 T-TATTAATATA
*
6494291 TATATAAATATA
1 T-TATTAATATA
*
6494303 TTAATAATATA
1 TTATTAATATA
* *
6494314 TTAATAATACA
1 TTATTAATATA
*
6494325 TTAAT-ATATTA
1 TTATTAATA-TA
* *
6494336 ATAATAATATA
1 TTATTAATATA
6494347 TTATATTAATATA
1 -T-TATTAATATA
* *
6494360 --AATAATATG
1 TTATTAATATA
* * *
6494369 TTAATAAAATTT
1 TTATTAATA-TA
6494381 TATATTAATAT-
1 T-TATTAATATA
*
6494392 TAATTAATAAATA
1 TTATTAAT--ATA
6494405 TTATAAATAATATA
1 TTAT---TAATATA
6494419 TGATATTAATATGA
1 T--TATTAATAT-A
*
6494433 -TATAAATA-A
1 TTATTAATATA
*
6494442 TATATTAATAGA
1 T-TATTAATATA
6494454 -TATT-ATATA
1 TTATTAATATA
*
6494463 TTAATAATATA
1 TTATTAATATA
6494474 TTATTAATATA
1 TTATTAATATA
6494485 T
1 T
6494486 AATATCTTTG
Statistics
Matches: 222, Mismatches: 32, Indels: 72
0.68 0.10 0.22
Matches are distributed among these distances:
8 11 0.05
9 16 0.07
10 25 0.11
11 104 0.47
12 14 0.06
13 40 0.18
14 5 0.02
16 7 0.03
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.45
Consensus pattern (11 bp):
TTATTAATATA
Found at i:6494214 original size:16 final size:16
Alignment explanation
Indices: 6494080--6494484 Score: 147
Period size: 15 Copynumber: 25.8 Consensus size: 16
6494070 CTCAATTTGT
*
6494080 TATTAATAATATAATAA
1 TATTATTAATATAAT-A
* * *
6494097 TATTTACTAATAGATTA
1 TA-TTATTAATATAATA
*
6494114 T-TTTTTAATATAATA
1 TATTATTAATATAATA
*
6494129 TAATTTATTTAT-TAATA
1 T-A-TTATTAATATAATA
* *
6494146 TATTATTGATAAATATTA
1 TATTATT-A-ATATAATA
* *
6494164 TATTACTAA-ACAATA
1 TATTATTAATATAATA
*
6494179 TATTATTTAT-TAATA
1 TATTATTAATATAATA
*
6494194 TATTATTAATATAACA
1 TATTATTAATATAATA
*
6494210 TATTAATAATATAATA
1 TATTATTAATATAATA
*
6494226 -ACTTATTAATATGATA
1 TA-TTATTAATATAATA
6494242 TATTAATTAATA-AATA
1 TATT-ATTAATATAATA
6494258 TATAATATTATATGATAA-A
1 TAT--TATTA-AT-ATAATA
6494277 TATTATATTAATAATATATA
1 TA-T-TATTAAT-ATA-ATA
*
6494297 AATATATT-A-ATAATA
1 TAT-TATTAATATAATA
* * *
6494312 TATTAATAATACATTA
1 TATTATTAATATAATA
6494328 -ATATATTAATAATAATA
1 TAT-TATTAAT-ATAATA
6494345 TATTATATTAATATAA-A
1 TA-T-TATTAATATAATA
* *
6494362 TAATATGTTA-ATAA-A
1 TATTAT-TAATATAATA
6494377 -ATT-TT-ATATTAATA
1 TATTATTAATA-TAATA
*
6494391 T-TAATT-A-ATAA-A
1 TATTATTAATATAATA
6494403 TATTA-TAA-ATAATA
1 TATTATTAATATAATA
*
6494417 TATGA-T-AT-TAATA
1 TATTATTAATATAATA
6494430 TGA-TA-TAA-ATAATA
1 T-ATTATTAATATAATA
*
6494444 TATTAATAGATAT--TA
1 TATTATTA-ATATAATA
6494459 TA-TATT-A-ATAATA
1 TATTATTAATATAATA
6494472 TATTATTAATATA
1 TATTATTAATATA
6494485 TAATATCTTT
Statistics
Matches: 298, Mismatches: 42, Indels: 97
0.68 0.10 0.22
Matches are distributed among these distances:
11 3 0.01
12 6 0.02
13 28 0.09
14 31 0.10
15 67 0.22
16 59 0.20
17 33 0.11
18 40 0.13
19 26 0.09
20 5 0.02
ACGTcount: A:0.50, C:0.01, G:0.02, T:0.46
Consensus pattern (16 bp):
TATTATTAATATAATA
Found at i:6494232 original size:19 final size:18
Alignment explanation
Indices: 6494189--6494473 Score: 85
Period size: 19 Copynumber: 15.9 Consensus size: 18
6494179 TATTATTTAT
*
6494189 TAATATATTATTAATATAA
1 TAAT-TATTAATAATATAA
*
6494208 -CA-TATTAATAATATAA
1 TAATTATTAATAATATAA
6494224 TAACTTATTAAT-ATGAT-A
1 TAA-TTATTAATAAT-ATAA
6494242 T-ATTAATTAATAA-ATATA
1 TAATT-ATTAATAATATA-A
*
6494260 TAA-TATTATATGATA-AA
1 TAATTATTA-ATAATATAA
*
6494277 TATTATATTAATAATAT-A
1 TAAT-TATTAATAATATAA
6494295 TAA--A-T-AT-AT-TAA
1 TAATTATTAATAATATAA
* *
6494307 TAATATATTAATAATACAT
1 TAAT-TATTAATAATATAA
6494326 TAATATATTAAT-A-ATAA
1 TAAT-TATTAATAATATAA
*
6494343 TATATTA-TATTAATATAAA
1 TA-ATTATTAATAATAT-AA
* * **
6494362 TAATATGTTAATAAAATTT
1 TAAT-TATTAATAATATAA
* *
6494381 TATATTAATATTAAT-TAA
1 TA-ATTATTAATAATATAA
*
6494399 TAAATATT-ATAA-ATAA
1 TAATTATTAATAATATAA
6494415 TATATGATATTAATATGATATAAA
1 TA-AT--TATTAATA--ATAT-AA
*
6494439 TAATATATTAATAGATATTA
1 TAAT-TATTAATA-ATATAA
6494459 T-A-TATTAATAATATA
1 TAATTATTAATAATATA
6494474 TTATTAATAT
Statistics
Matches: 199, Mismatches: 29, Indels: 79
0.65 0.09 0.26
Matches are distributed among these distances:
11 1 0.01
12 6 0.03
13 2 0.01
14 1 0.01
15 2 0.01
16 33 0.17
17 37 0.19
18 33 0.17
19 47 0.24
20 14 0.07
21 5 0.03
22 10 0.05
23 4 0.02
24 4 0.02
ACGTcount: A:0.53, C:0.01, G:0.02, T:0.44
Consensus pattern (18 bp):
TAATTATTAATAATATAA
Found at i:6494271 original size:33 final size:33
Alignment explanation
Indices: 6494211--6494424 Score: 112
Period size: 36 Copynumber: 5.9 Consensus size: 33
6494201 AATATAACAT
6494211 ATTAAT-AATATAATAACTTATTAATATGATATATTA
1 ATTAATAAATAT-ATAA--TATT-ATATGATATATTA
6494247 ATTAATAAATATATAATATTATATGATAAATATTA
1 ATTAATAAATATATAATATTATATGAT--ATATTA
* *
6494282 TATTAATAATATATAAATATATTA-ATAATATATTA
1 -ATTAATAA-ATATATA-ATATTATATGATATATTA
* *
6494317 ATAATACATTAATATATTAATAATAATAT-ATTATATTA
1 AT--TA-ATAAATATA-TAAT-ATTATATGA-TATATTA
* * *
6494355 ATATAAATAATATGTTAATAAAATTTTAT-ATTAATATTA
1 AT-T-AATAA-AT-AT-ATAATATTATATGA-T-ATATTA
*
6494394 ATTAATAAATATTATAAATAATATATGATAT
1 ATTAATAAATA-TAT-AATATTATATGATAT
6494425 TAATATGATA
Statistics
Matches: 143, Mismatches: 14, Indels: 43
0.71 0.07 0.22
Matches are distributed among these distances:
33 7 0.05
34 6 0.04
35 16 0.11
36 38 0.27
37 34 0.24
38 29 0.20
39 12 0.08
40 1 0.01
ACGTcount: A:0.53, C:0.01, G:0.02, T:0.44
Consensus pattern (33 bp):
ATTAATAAATATATAATATTATATGATATATTA
Found at i:6494344 original size:55 final size:52
Alignment explanation
Indices: 6494276--6494486 Score: 152
Period size: 55 Copynumber: 4.0 Consensus size: 52
6494266 TATATGATAA
*
6494276 ATATT-ATATTAATAATATATAAATATATTAATAATATATTAATAATACATTAAT
1 ATATTAATAATAATAATATATAAATATATTAATAATATATTAATAATA-A-T-AT
* * *
6494330 ATATTAATAATAATATATTATATTAATATA--AATAATATGTTAATAA-AATTTT
1 ATATTAATAATAATA-A-TATATAAATATATTAATAATATATTAATAATAA-TAT
* * * *
6494382 ATATTAATATTAAT--TA-ATAAATATTATAAATAATATA-TGATATTAATAT
1 ATATTAATAATAATAATATATAAATA-TATTAATAATATATTAATAATAATAT
* * * *
6494431 GATATAAATAATATATTAATAGATATTATATATTAATAATATATTATTAAT-ATAT
1 -ATATTAATAATA-A-TAATATATA-AATATATTAATAATATATTAATAATAATAT
6494486 A
1 A
6494487 ATATCTTTGT
Statistics
Matches: 125, Mismatches: 17, Indels: 30
0.73 0.10 0.17
Matches are distributed among these distances:
47 6 0.05
48 4 0.03
49 6 0.05
50 20 0.16
51 1 0.01
52 15 0.12
53 3 0.02
54 9 0.07
55 42 0.34
56 8 0.06
57 11 0.09
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (52 bp):
ATATTAATAATAATAATATATAAATATATTAATAATATATTAATAATAATAT
Found at i:6494588 original size:22 final size:22
Alignment explanation
Indices: 6494548--6494635 Score: 113
Period size: 22 Copynumber: 3.9 Consensus size: 22
6494538 TTATTAATAC
*
6494548 ATTATGTTATTTATAAATATAAT
1 ATTAT-TTATTAATAAATATAAT
*
6494571 ATTATTTATTAATTAATATAAT
1 ATTATTTATTAATAAATATAAT
*
6494593 ATTATTTATATAATAAATATAAC
1 ATTATTTAT-TAATAAATATAAT
*
6494616 AATATTTATTAATATAATAT
1 ATTATTTATTAATA-AATAT
6494636 TTATACAATA
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
22 29 0.50
23 29 0.50
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (22 bp):
ATTATTTATTAATAAATATAAT
Found at i:6494607 original size:61 final size:56
Alignment explanation
Indices: 6494448--6494607 Score: 139
Period size: 61 Copynumber: 2.8 Consensus size: 56
6494438 ATAATATATT
* * *
6494448 AATAGATATTATATATTAATAATATATTATTA-ATATATAATATCTTTGTATTAATA
1 AATA-ATATTATTTATTAATAATATAATATTATTTATATAATATCTTTGTATTAATA
* * * *
6494504 AATAATATTATATAAATAAATAA-ATAATATTGTTT-TATTAATA-CATTATGTTATTTATAA
1 AATAATATTAT-T-TATTAATAATATAATATTATTTATA-TAATATC-TT-TG-TATTAAT-A
6494564 ATATAATATTATTTATTAATTAATATAATATTATTTATATAATA
1 A-ATAATATTATTTATTAA-TAATATAATATTATTTATATAATA
6494608 AATATAACAA
Statistics
Matches: 82, Mismatches: 10, Indels: 19
0.74 0.09 0.17
Matches are distributed among these distances:
55 7 0.09
56 14 0.17
57 15 0.18
58 2 0.02
59 10 0.12
60 6 0.07
61 26 0.32
62 2 0.02
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (56 bp):
AATAATATTATTTATTAATAATATAATATTATTTATATAATATCTTTGTATTAATA
Found at i:6494640 original size:27 final size:25
Alignment explanation
Indices: 6494560--6494651 Score: 77
Period size: 22 Copynumber: 3.8 Consensus size: 25
6494550 TATGTTATTT
*
6494560 ATAAATAT--AATATTATTTAT-TA
1 ATAAATATACAATATTATTAATATA
* *
6494582 ATTAATAT--AATATTATTTATATA
1 ATAAATATACAATATTATTAATATA
6494605 ATAAATATAACAATATTTATTAATATA
1 ATAAATAT-ACAATA-TTATTAATATA
** *
6494632 ATATTTATACAATAATATTA
1 ATAAATATACAATATTATTA
6494652 TTTTATTAAT
Statistics
Matches: 59, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
22 19 0.32
23 9 0.15
25 5 0.08
26 10 0.17
27 16 0.27
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (25 bp):
ATAAATATACAATATTATTAATATA
Found at i:6494643 original size:26 final size:26
Alignment explanation
Indices: 6494590--6494651 Score: 72
Period size: 27 Copynumber: 2.4 Consensus size: 26
6494580 TAATTAATAT
*
6494590 AATATTATTTATATAATAAATATAAC
1 AATATTATTAATATAATAAATATAAC
**
6494616 AATATTTATTAATATAATATTTAT-AC
1 AATA-TTATTAATATAATAAATATAAC
*
6494642 AATAATATTA
1 AATATTATTA
6494652 TTTTATTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
25 5 0.16
26 10 0.32
27 16 0.52
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (26 bp):
AATATTATTAATATAATAAATATAAC
Found at i:6496257 original size:27 final size:27
Alignment explanation
Indices: 6496227--6496298 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 27
6496217 AAATAATAAT
**
6496227 AAAATTTATTGTAAATACGATTGAAAA
1 AAAATTTATAATAAATACGATTGAAAA
* * *
6496254 AAAAATTATAATAATTATGATTGAAAA
1 AAAATTTATAATAAATACGATTGAAAA
*
6496281 ATAAATTTAATAAAAAAT
1 A-AAATTT-ATAATAAAT
6496299 TTATACTGAT
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
27 23 0.66
28 5 0.14
29 7 0.20
ACGTcount: A:0.58, C:0.01, G:0.07, T:0.33
Consensus pattern (27 bp):
AAAATTTATAATAAATACGATTGAAAA
Found at i:6500429 original size:14 final size:13
Alignment explanation
Indices: 6500403--6500442 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
6500393 TTCAATCAAT
6500403 ATTTTTATCAAAA
1 ATTTTTATCAAAA
6500416 ATTTTTATCTAAAA
1 ATTTTTATC-AAAA
* *
6500430 ATATATATCAAAA
1 ATTTTTATCAAAA
6500443 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 13 0.54
14 11 0.46
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.42
Consensus pattern (13 bp):
ATTTTTATCAAAA
Found at i:6503143 original size:7 final size:7
Alignment explanation
Indices: 6503131--6503162 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
6503121 TTAATAAATA
6503131 AAATTTT
1 AAATTTT
6503138 AAATTTT
1 AAATTTT
6503145 AAATTTT
1 AAATTTT
6503152 AAATTCTT
1 AAATT-TT
6503160 AAA
1 AAA
6503163 AATAAATATT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 19 0.79
8 5 0.21
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (7 bp):
AAATTTT
Found at i:6505072 original size:19 final size:19
Alignment explanation
Indices: 6505046--6505102 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 19
6505036 AAAATGATAC
6505046 TGAA-TTTTAAAAAAATTT
1 TGAATTTTTAAAAAAATTT
***
6505064 TGAATTTTTAACTTAATTT
1 TGAATTTTTAAAAAAATTT
6505083 T-AATTTTTAAAAAATATTT
1 TGAATTTTTAAAAAA-ATTT
6505102 T
1 T
6505103 TTATTAAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
18 14 0.45
19 17 0.55
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.53
Consensus pattern (19 bp):
TGAATTTTTAAAAAAATTT
Found at i:6509839 original size:12 final size:12
Alignment explanation
Indices: 6509807--6509862 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 12
6509797 TAATATAATA
6509807 TTAAATTTGATT
1 TTAAATTTGATT
* *
6509819 TTGAGTTTGATT
1 TTAAATTTGATT
6509831 TTAAATTTGAGATT
1 TTAAATTT--GATT
*
6509845 TGAAATTTG-TT
1 TTAAATTTGATT
*
6509856 TTGAATT
1 TTAAATT
6509863 CGTTTAAATA
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
11 7 0.20
12 17 0.49
14 11 0.31
ACGTcount: A:0.29, C:0.00, G:0.16, T:0.55
Consensus pattern (12 bp):
TTAAATTTGATT
Found at i:6510586 original size:29 final size:28
Alignment explanation
Indices: 6510519--6510587 Score: 66
Period size: 30 Copynumber: 2.4 Consensus size: 28
6510509 CTTTATTATT
6510519 TATTTAGATAAAATTTAAAATTTAATTTA
1 TATTTA-ATAAAATTTAAAATTTAATTTA
** * * *
6510548 TATCCAAATAAATTGTTAAATTTTAATTTG
1 TAT-TTAATAAAAT-TTAAAATTTAATTTA
6510578 TATTTAATAA
1 TATTTAATAA
6510588 GTAATAAAAT
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
29 14 0.45
30 17 0.55
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.48
Consensus pattern (28 bp):
TATTTAATAAAATTTAAAATTTAATTTA
Found at i:6510689 original size:29 final size:28
Alignment explanation
Indices: 6510614--6510703 Score: 94
Period size: 29 Copynumber: 3.2 Consensus size: 28
6510604 ATTTTTATTT
* * *
6510614 AAAATAAGAGTTTACTTAAATATAA-ATA
1 AAAATAAAAATTTATTTAAATATAATA-A
*
6510642 AAAATAAAAA-TGATTTAAATATAATAA
1 AAAATAAAAATTTATTTAAATATAATAA
*
6510669 AAATATAAAAATTTATTTAAATAAAATAA
1 AAA-ATAAAAATTTATTTAAATATAATAA
6510698 TAAAAT
1 -AAAAT
6510704 TTAAAGCTTC
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
27 16 0.31
28 16 0.31
29 17 0.33
30 3 0.06
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.32
Consensus pattern (28 bp):
AAAATAAAAATTTATTTAAATATAATAA
Found at i:6511849 original size:20 final size:18
Alignment explanation
Indices: 6511821--6511859 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
6511811 ATAAAATTTA
6511821 ATAACTTTTAAATTTTTTTT
1 ATAACTTTT--ATTTTTTTT
*
6511841 ATAATTTTTATTTTTTTT
1 ATAACTTTTATTTTTTTT
6511859 A
1 A
6511860 ATACTTCAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 10 0.56
20 8 0.44
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (18 bp):
ATAACTTTTATTTTTTTT
Found at i:6511918 original size:19 final size:19
Alignment explanation
Indices: 6511896--6511932 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
6511886 AAAAAAAGTT
*
6511896 AAAAATT-TTATTTTTATA
1 AAAAATTATTATATTTATA
6511914 AAAAATTATTATATTTATA
1 AAAAATTATTATATTTATA
6511933 TTTTTATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
AAAAATTATTATATTTATA
Found at i:6512121 original size:17 final size:16
Alignment explanation
Indices: 6512075--6512134 Score: 52
Period size: 17 Copynumber: 3.7 Consensus size: 16
6512065 TTATTGTCAG
*
6512075 AATAAATTAAAAATTA
1 AATAAATTAATAATTA
*
6512091 AATTAAA-CATATAATTA
1 AA-TAAATTA-ATAATTA
*
6512108 AAGTAAATTAATAACTA
1 AA-TAAATTAATAATTA
6512125 AAT-AATTAAT
1 AATAAATTAAT
6512135 CTTATCGTAT
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
15 7 0.19
16 4 0.11
17 24 0.67
18 1 0.03
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (16 bp):
AATAAATTAATAATTA
Found at i:6519212 original size:142 final size:142
Alignment explanation
Indices: 6518954--6519214 Score: 312
Period size: 142 Copynumber: 1.8 Consensus size: 142
6518944 GACCCTTTAC
* * * * *
6518954 AATATTTTTTACTTTACTCAAATAGAGAAGTTGATTTGGATCAAATATTAAATAGTAAATTAGAA
1 AATATTGTTTACTTTACTCAAATAGAGAAGTTAATTTAGATCAAATATAAAAAAGTAAATTAGAA
* * *
6519019 TAATGGTAATAAGAATTAAGTAACAATTAAAATACACCATCTTTTCCTTTAGTATAAATTTTTTA
66 TAATAGTAATAAGAATGAAGTAACAATTAAAATACACCATCTTTTCATTTAGTATAAATTTTTTA
6519084 TAGAAAATGTGA
131 TAGAAAATGTGA
* * * * * *
6519096 AATATTGTTTACTATT-TTCAAATGGAGAAGTTAATTTATATCAAATATCAAAAAAGTTATTTTG
1 AATATTGTTTACT-TTACTCAAATAGAGAAGTTAATTTAGATCAAATAT-AAAAAAGTAAATTAG
* * **
6519160 AATGATAGTAATAA-AATGAAGTAACAATTAAAAATATATTATC-TTTCATTTAGTA
64 AATAATAGTAATAAGAATGAAGTAACAATT-AAAATACACCATCTTTTCATTTAGTA
6519215 AAGGAAATTT
Statistics
Matches: 98, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
142 64 0.65
143 34 0.35
ACGTcount: A:0.44, C:0.07, G:0.11, T:0.39
Consensus pattern (142 bp):
AATATTGTTTACTTTACTCAAATAGAGAAGTTAATTTAGATCAAATATAAAAAAGTAAATTAGAA
TAATAGTAATAAGAATGAAGTAACAATTAAAATACACCATCTTTTCATTTAGTATAAATTTTTTA
TAGAAAATGTGA
Found at i:6520087 original size:20 final size:20
Alignment explanation
Indices: 6520055--6520096 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
6520045 TAATATTTAC
*
6520055 TAATAGATTATTTTTTAATA
1 TAATAGATTATTTATTAATA
6520075 TAATA-ATTAATTTATTAATA
1 TAATAGATT-ATTTATTAATA
6520095 TA
1 TA
6520097 TTATTGATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 3 0.15
20 17 0.85
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (20 bp):
TAATAGATTATTTATTAATA
Found at i:6520139 original size:22 final size:22
Alignment explanation
Indices: 6520111--6520220 Score: 110
Period size: 22 Copynumber: 5.3 Consensus size: 22
6520101 TGATAAATAT
6520111 TATATTACTAAACAATATATTA
1 TATATTACTAAACAATATATTA
**
6520133 TATATTA-T--ATTATATATTA
1 TATATTACTAAACAATATATTA
* *
6520152 CTA-A--AC--AATATTATATTA
1 -TATATTACTAAACAATATATTA
6520170 TATATTACTAAACAATATATTA
1 TATATTACTAAACAATATATTA
*
6520192 TATATTAATAAACAATATATTA
1 TATATTACTAAACAATATATTA
6520214 TATATTA
1 TATATTA
6520221 ATAATATAAT
Statistics
Matches: 73, Mismatches: 7, Indels: 16
0.76 0.07 0.17
Matches are distributed among these distances:
17 3 0.04
18 10 0.14
19 10 0.14
20 4 0.05
21 1 0.01
22 45 0.62
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (22 bp):
TATATTACTAAACAATATATTA
Found at i:6520168 original size:25 final size:22
Alignment explanation
Indices: 6520138--6520220 Score: 130
Period size: 22 Copynumber: 3.6 Consensus size: 22
6520128 TATTATATAT
6520138 TATATTATATATTACTAAACAATA
1 TATATTATATATTACTAAAC-A-A
6520162 TTATATTATATATTACTAAACAA
1 -TATATTATATATTACTAAACAA
*
6520185 TATATTATATATTAATAAACAA
1 TATATTATATATTACTAAACAA
6520207 TATATTATATATTA
1 TATATTATATATTA
6520221 ATAATATAAT
Statistics
Matches: 57, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
22 35 0.61
23 1 0.02
24 1 0.02
25 20 0.35
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (22 bp):
TATATTATATATTACTAAACAA
Found at i:6520216 original size:29 final size:29
Alignment explanation
Indices: 6520184--6520277 Score: 85
Period size: 29 Copynumber: 3.4 Consensus size: 29
6520174 TTACTAAACA
6520184 ATATATTATATATTAATAAACAATATATT
1 ATATATTATATATTAATAAACAATATATT
6520213 ATATATTA-ATAATATAAT-AAC--T-TATT
1 ATATATTATAT-AT-TAATAAACAATATATT
* * *
6520239 A-ATATAATATATTAATAATAAAATATATA
1 ATATATTATATATTAATAA-ACAATATATT
6520268 ATA-ATTATAT
1 ATATATTATAT
6520278 GATAAATATT
Statistics
Matches: 52, Mismatches: 4, Indels: 18
0.70 0.05 0.24
Matches are distributed among these distances:
24 4 0.08
25 8 0.15
26 8 0.15
27 1 0.02
28 3 0.06
29 23 0.44
30 5 0.10
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (29 bp):
ATATATTATATATTAATAAACAATATATT
Found at i:6520257 original size:11 final size:11
Alignment explanation
Indices: 6520191--6520482 Score: 125
Period size: 11 Copynumber: 28.0 Consensus size: 11
6520181 ACAATATATT
6520191 ATATATTAATA
1 ATATATTAATA
* * *
6520202 A-ACAATATATT
1 ATATATTA-ATA
6520213 ATATATTAATA
1 ATATATTAATA
* *
6520224 ATATAATAACTT
1 ATATATTAA-TA
*
6520236 AT-TAAT-ATA
1 ATATATTAATA
6520245 ATATATTAATA
1 ATATATTAATA
6520256 ATA-A--AAT-
1 ATATATTAATA
* *
6520263 ATATAATAATT
1 ATATATTAATA
*
6520274 ATATGATAAATA
1 ATAT-ATTAATA
*
6520286 TTATATTAATA
1 ATATATTAATA
6520297 ATATA-T-A-A
1 ATATATTAATA
6520305 ATATATTAATA
1 ATATATTAATA
*
6520316 ATACATTAAT-
1 ATATATTAATA
*
6520326 ATATTAATAATA
1 ATA-TATTAATA
6520338 ATATATT-ATA
1 ATATATTAATA
*
6520348 TTA-ATATAATA
1 ATATAT-TAATA
*
6520359 ATATGTTAATA
1 ATATATTAATA
*
6520370 A-ATTTTATATTA
1 ATATATTA-A-TA
6520382 ATATTAATT-ATA
1 ATA-T-ATTAATA
6520394 A-ATATT-ATA
1 ATATATTAATA
*
6520403 A-ATAAT-AT-
1 ATATATTAATA
6520411 ATGATATTAAT-
1 AT-ATATTAATA
*
6520422 ATGATATAAATA
1 AT-ATATTAATA
6520434 ATATATTAAT-
1 ATATATTAATA
*
6520444 AGATATT-AT-
1 ATATATTAATA
6520453 -T-TATTAATA
1 ATATATTAATA
*
6520462 ATATATTATTA
1 ATATATTAATA
6520473 ATATA-TAATA
1 ATATATTAATA
6520483 TCTTTGTATT
Statistics
Matches: 217, Mismatches: 33, Indels: 63
0.69 0.11 0.20
Matches are distributed among these distances:
7 7 0.03
8 13 0.06
9 22 0.10
10 44 0.20
11 100 0.46
12 26 0.12
13 2 0.01
14 1 0.00
15 2 0.01
ACGTcount: A:0.53, C:0.01, G:0.02, T:0.45
Consensus pattern (11 bp):
ATATATTAATA
Found at i:6520318 original size:22 final size:21
Alignment explanation
Indices: 6520184--6520358 Score: 138
Period size: 19 Copynumber: 9.1 Consensus size: 21
6520174 TTACTAAACA
* *
6520184 ATATATTATATATTAATAAACA
1 ATATATAATATATTAAT-AATA
*
6520206 ATATATTATATATTAATAAT-
1 ATATATAATATATTAATAATA
6520226 ATA-ATAACT-TATTAAT-ATA
1 ATATATAA-TATATTAATAATA
6520245 ATATAT--TA-A-TAATAA-A
1 ATATATAATATATTAATAATA
*
6520261 ATATATAATA-ATTATATGATA
1 ATATATAATATATTA-ATAATA
6520282 A-ATAT--TATATTAATAAT-
1 ATATATAATATATTAATAATA
6520299 ATATA-AATATATTAATAAT-
1 ATATATAATATATTAATAATA
*
6520318 ACAT-TAATATATTAATAATA
1 ATATATAATATATTAATAATA
6520338 ATATAT--TATATTAAT-ATA
1 ATATATAATATATTAATAATA
6520356 ATA
1 ATA
6520359 ATATGTTAAT
Statistics
Matches: 130, Mismatches: 6, Indels: 38
0.75 0.03 0.22
Matches are distributed among these distances:
16 11 0.08
17 4 0.03
18 20 0.15
19 57 0.44
20 16 0.12
21 5 0.04
22 17 0.13
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.43
Consensus pattern (21 bp):
ATATATAATATATTAATAATA
Found at i:6520327 original size:41 final size:43
Alignment explanation
Indices: 6520214--6520483 Score: 65
Period size: 39 Copynumber: 6.5 Consensus size: 43
6520204 CAATATATTA
6520214 TATATTAATAATATAATAACT-TATTAAT-ATAATAT-ATTAATA-
1 TATATTAATAATAT-ATAA-TATA-TAATAATAATATCATTAATAT
* *
6520256 -ATA-AAAT-ATATAATAAT-TAT-ATGATAA-AT-ATT-ATAT
1 TATATTAATAATAT-ATAATATATAATAATAATATCATTAATAT
6520292 TA-A-TAAT-ATATA-AATATAT--TAATAATA-CATTAATA-
1 TATATTAATAATATATAATATATAATAATAATATCATTAATAT
* * *
6520327 TATTAATAATAATATATTATAT-TAATATAATAATAT-GTTAATAAATTT
1 TA-TATTAATAATATATAATATAT-A-ATAATAATATCATTAAT--A--T
*
6520375 TATATTAATATTAATTATAAATATTATAAATAATATATGAT-ATTAATAT
1 TATATTAATAAT-A-TAT-AATA-TAT-AATAATA-AT-ATCATTAATAT
* * * * *
6520424 GATATAAATAATATAT--TA-ATAGAT-ATTAT-TTATTAATAA
1 TATATTAATAATATATAATATATA-ATAATAATATCATTAATAT
*
6520463 TATATTATTAATATATAATAT
1 TATATTAATAATATATAATAT
6520484 CTTTGTATTA
Statistics
Matches: 177, Mismatches: 17, Indels: 68
0.68 0.06 0.26
Matches are distributed among these distances:
34 8 0.05
35 13 0.07
36 18 0.10
37 7 0.04
38 8 0.05
39 35 0.20
40 9 0.05
41 8 0.05
42 4 0.02
43 13 0.07
44 2 0.01
45 1 0.01
47 11 0.06
48 4 0.02
49 13 0.07
50 3 0.02
51 8 0.05
52 5 0.03
53 7 0.04
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.45
Consensus pattern (43 bp):
TATATTAATAATATATAATATATAATAATAATATCATTAATAT
Found at i:6520422 original size:25 final size:24
Alignment explanation
Indices: 6520132--6520480 Score: 117
Period size: 25 Copynumber: 13.9 Consensus size: 24
6520122 ACAATATATT
*
6520132 ATATATTATATTATATATTACTAAACA
1 ATATA-TATATTA-ATATTA-TAAATA
*
6520159 ATAT-TATATTATATATTACTAAACA
1 ATATATATATTA-ATATTA-TAAATA
*
6520184 ATATAT-TA-T-ATATTAATAAACA
1 ATATATATATTAATATT-ATAAATA
6520206 ATATAT-TA-T-ATATTAATAATATA
1 ATATATATATTAATATT-ATAA-ATA
6520229 ATA-ACT-TATTAATATAATATATTAATA
1 ATATA-TATATTAATAT--TATA--AATA
* *
6520256 ATA-AAATATATAATAATTATATGATA
1 ATATATATAT-TAAT-ATTATA-AATA
6520282 A-ATATTATATTAATAATATATAAATA
1 ATATA-TATATTAAT-AT-TATAAATA
* *
6520308 TATTAATAATACATTAATA-TATTAATA
1 -A-T-AT-ATATATTAATATTATAAATA
*
6520335 ATA-ATATATT-ATATTA-ATATA
1 ATATATATATTAATATTATAAATA
* * *
6520356 ATA-ATATGTTAATAAATTTTATATTA
1 ATATATATATTAAT--ATTATA-AATA
*
6520382 ATAT-TAATTATAAATATTATAAATA
1 ATATAT-A-TATTAATATTATAAATA
6520407 ATATATGATATTAATATGATATAAATA
1 ATATAT-ATATTAATAT--TATAAATA
*
6520434 ATATAT-TAATAGATATTATTTATTAATA
1 ATATATATATTA-ATATTA--TA--AATA
6520462 ATATAT-TATTAATA-TATAA
1 ATATATATATTAATATTATAA
6520481 TATCTTTGTA
Statistics
Matches: 262, Mismatches: 22, Indels: 81
0.72 0.06 0.22
Matches are distributed among these distances:
21 15 0.06
22 42 0.16
23 9 0.03
24 10 0.04
25 53 0.20
26 42 0.16
27 53 0.20
28 24 0.09
29 3 0.01
30 10 0.04
31 1 0.00
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.45
Consensus pattern (24 bp):
ATATATATATTAATATTATAAATA
Found at i:6520459 original size:17 final size:14
Alignment explanation
Indices: 6520212--6520479 Score: 98
Period size: 14 Copynumber: 19.3 Consensus size: 14
6520202 AACAATATAT
6520212 TATA-TATTAATAA
1 TATATTATTAATAA
* *
6520225 TATAATAACTTATTAA
1 TAT-ATTA-TTAATAA
6520241 TATAATATATTAATAA
1 TAT-AT-TATTAATAA
* *
6520257 TAAAATATATAATAA
1 TATATTAT-TAATAA
* * *
6520272 TTATATGATAAATAT
1 -TATATTATTAATAA
*
6520287 TATATTAATAATATA
1 TATATTATTAATA-A
*
6520302 TAAATATATTAATAA
1 TATAT-TATTAATAA
* *
6520317 TACATTAATATATTAA
1 TATATT-AT-TAATAA
* *
6520333 TA-A-TAAT-ATAT
1 TATATTATTAATAA
*
6520344 TATATTAAT-ATAA
1 TATATTATTAATAA
*
6520357 TA-ATATGTTAATAA
1 TATAT-TATTAATAA
* *
6520371 -ATTTTA-TATTAA
1 TATATTATTAATAA
*
6520383 TAT-TAATT-ATAA
1 TATATTATTAATAA
*
6520395 -ATATTATAAATAA
1 TATATTATTAATAA
* *
6520408 TATATGA-TATTAA
1 TATATTATTAATAA
*
6520421 TATGA-TATAAATAA
1 TAT-ATTATTAATAA
* *
6520435 TATATTAATAGATAT
1 TATATTATTA-ATAA
6520450 TAT-TTATTAATAA
1 TATATTATTAATAA
6520463 TATATTATTAAT-A
1 TATATTATTAATAA
6520476 TATA
1 TATA
6520480 ATATCTTTGT
Statistics
Matches: 187, Mismatches: 43, Indels: 50
0.67 0.15 0.18
Matches are distributed among these distances:
11 6 0.03
12 17 0.09
13 44 0.24
14 50 0.27
15 30 0.16
16 39 0.21
17 1 0.01
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.45
Consensus pattern (14 bp):
TATATTATTAATAA
Found at i:6520461 original size:135 final size:133
Alignment explanation
Indices: 6520183--6520447 Score: 310
Period size: 135 Copynumber: 2.0 Consensus size: 133
6520173 ATTACTAAAC
* *
6520183 AATATATT-ATATATTAATAAACAATATATTATA-TATTAATAATATAATAACTTATTAATATAA
1 AATATATTAATATATTAAT-AATAATATATTATATTATTAATAATATAATAAATTATTAATATAA
* * *
6520246 TATATTAATAATAAAATATATAATAATTATATGATAAATATTATATTAATAATATATAAATATAT
65 TATATTAATAATAAAATATATAATAATTATATGATAAATATGATATAAATAATATATAAATAGAT
6520311 TAAT
130 TAAT
*
6520315 AATACATTAATATATTAATAATAATATATTATATTAATATAATAATATGTTAATAAATT-TT-AT
1 AATATATTAATATATTAATAATAATATATTATATT-AT-TAATAATA---TAATAAATTATTAAT
* *
6520378 ATTA-ATATTAATTAT-AAATATTATAAATAA-TATATGATATTAATATGATATAAATAATATAT
61 ATAATATATTAATAATAAAATA-TAT-AATAATTATATGATA--AATATGATATAAATAATATAT
*
6520440 TAATAGAT
122 AAATAGAT
6520448 ATTATTTATT
Statistics
Matches: 113, Mismatches: 9, Indels: 17
0.81 0.06 0.12
Matches are distributed among these distances:
132 20 0.18
133 11 0.10
134 7 0.06
135 30 0.27
136 10 0.09
137 27 0.24
138 8 0.07
ACGTcount: A:0.53, C:0.01, G:0.02, T:0.44
Consensus pattern (133 bp):
AATATATTAATATATTAATAATAATATATTATATTATTAATAATATAATAAATTATTAATATAAT
ATATTAATAATAAAATATATAATAATTATATGATAAATATGATATAAATAATATATAAATAGATT
AAT
Found at i:6520482 original size:60 final size:62
Alignment explanation
Indices: 6520242--6520483 Score: 173
Period size: 60 Copynumber: 3.9 Consensus size: 62
6520232 ACTTATTAAT
* * * * *
6520242 ATAATATATTAATAATAA-AAT-ATA-TAATAATTATATGA-TAA-ATATTATATTAATAATAT
1 ATAATATATTAATAATAATTATAATATTAATAA-TATATTATTAATATATAATA-TGATAATAA
* *
6520301 ATAAATATATTAATAATACATTAATATATTAATAATAATATATTATATTAATATAATAATATGTT
1 AT-AATATATTAATAATA-ATT-ATA-A-TATTAATAATATA-T-TATTAATAT-ATAATATGAT
6520366 AATAA
58 AATAA
** * * *
6520371 ATTTTATATTAATATTAATTATAAATATT-ATAA-ATAATATATGATAT-TAATATGAT-ATAA
1 ATAATATATTAATAATAATTAT-AATATTAATAATATATTAT-TAATATATAATATGATAATAA
*
6520431 ATAATATATTAATAGAT-ATTAT-TTATTAATAATATATTATTAATATATAATAT
1 ATAATATATTAATA-ATAATTATAATATTAATAATATATTATTAATATATAATAT
6520484 CTTTGTATTA
Statistics
Matches: 145, Mismatches: 19, Indels: 37
0.72 0.09 0.18
Matches are distributed among these distances:
58 4 0.03
59 11 0.08
60 48 0.33
61 10 0.07
62 3 0.02
63 7 0.05
64 3 0.02
65 5 0.03
66 9 0.06
67 10 0.07
68 5 0.03
69 15 0.10
70 10 0.07
71 5 0.03
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (62 bp):
ATAATATATTAATAATAATTATAATATTAATAATATATTATTAATATATAATATGATAATAA
Found at i:6520496 original size:135 final size:134
Alignment explanation
Indices: 6520197--6520483 Score: 300
Period size: 137 Copynumber: 2.1 Consensus size: 134
6520187 TATTATATAT
* * * * *
6520197 TAATAA-ACAATATATTATATATTAATAAT-ATAATAACTTATTAATATAATATATTAATAATAA
1 TAATAATATAATATATTATATAATAAT-ATGTTAATAAATT-TT-ATATTA-ATATTAATAATAA
* * *
6520260 AATATATAATAATTATATGATAAATATTATATTAATAATATATAAATATATTAATAATACATTAA
62 AATATATAATAATTATATGATAAATATGATATAAATAATATATAAAGATATTAATAATACATTAA
6520325 TATATTAA
127 TATATTAA
* *
6520333 TAATAATATATTATATTAATATAATAATATGTTAATAAATTTTATATTAATATTAATTAT-AAAT
1 TAATAATATAATATATT-ATATAATAATATGTTAATAAATTTTATATTAATATTAATAATAAAAT
* *
6520397 ATTATAAATAA-TATATGATATTAATATGATATAAATAATATATTAATAGATATTATTTATTA-A
65 A-TAT-AATAATTATATGATA--AATATGATATAAATAATATA-TAA-AGATATTA-ATAATACA
*
6520460 -TAATATATTAT
123 TTAATATATTAA
6520471 TAAT-ATATAATAT
1 TAATAATATAATAT
6520484 CTTTGTATTA
Statistics
Matches: 127, Mismatches: 14, Indels: 19
0.79 0.09 0.12
Matches are distributed among these distances:
134 5 0.04
135 22 0.17
136 16 0.13
137 38 0.30
138 34 0.27
139 8 0.06
140 4 0.03
ACGTcount: A:0.53, C:0.01, G:0.02, T:0.45
Consensus pattern (134 bp):
TAATAATATAATATATTATATAATAATATGTTAATAAATTTTATATTAATATTAATAATAAAATA
TATAATAATTATATGATAAATATGATATAAATAATATATAAAGATATTAATAATACATTAATATA
TTAA
Found at i:6520513 original size:38 final size:37
Alignment explanation
Indices: 6520186--6520650 Score: 171
Period size: 38 Copynumber: 12.4 Consensus size: 37
6520176 ACTAAACAAT
* * *
6520186 ATATTATATATTAATAAACAATATATTATATATTA-ATA
1 ATATTATTTATTAATAAA-TA-ATATTATATAATATATA
* *
6520224 ATATAATAACTTATTAATATAAT-ATATTA-ATAATAAAATA
1 ATAT--T-ATTTATTAATA-AATAATATTATATAAT-ATATA
* * *
6520264 TATAATAATTATATGATAAATATTATATTA-ATAATATATA
1 -ATATTATTTAT-TAATAAATA--ATATTATATAATATATA
* *
6520304 A-A-TATATTAATAATACATTAATA-TAT-TAATA-ATA
1 ATATTAT-TTATTAATA-AATAATATTATATAATATATA
* *
6520338 ATA-TATTATATTAATATAATAATATGT-TAATAA-ATTTT
1 ATATTATT-TATTAATA-AATAATAT-TAT-ATAATATATA
* * *
6520376 ATATTAATATTAATT-ATAAATATTA-TAAATAATATATG
1 ATATT-AT-TT-ATTAATAAATAATATTATATAATATATA
* * *
6520414 ATATTA-ATATGATATAAATAATA-TAT-T-A-ATA-G
1 ATATTATTTATTA-ATAAATAATATTATATAATATATA
6520446 ATATTATTTATTAAT-AAT-ATATTAT-TAATATATA
1 ATATTATTTATTAATAAATAATATTATATAATATATA
*
6520480 ATATCT-TTGTATTAATAAATAATATTATATAATAAATA
1 ATAT-TATT-TATTAATAAATAATATTATATAATATATA
* * * *
6520518 ATATTGTTTTATTAATACATTATGTTATTTATAA-ATATA
1 ATATT-ATTTATTAATAAATAATATTA--TATAATATATA
6520557 ATATTATTTATTAATTAATATAATATTATTTATATAATAAATATA
1 ATATTATTTATTAA-TAA-AT-A-A-TA-TTATATAAT--ATATA
* * *
6520602 ACAATATTTATTAAT--ATAATATT-TAT-ACA-ATA
1 ATATTATTTATTAATAAATAATATTATATAATATATA
6520634 ATATTATTTTATTAATA
1 ATATTA-TTTATTAATA
6520651 TATTATCAAT
Statistics
Matches: 331, Mismatches: 42, Indels: 112
0.68 0.09 0.23
Matches are distributed among these distances:
30 3 0.01
31 7 0.02
32 17 0.05
33 20 0.06
34 14 0.04
35 35 0.11
36 21 0.06
37 24 0.07
38 75 0.23
39 34 0.10
40 22 0.07
41 29 0.09
42 8 0.02
43 1 0.00
44 4 0.01
45 17 0.05
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (37 bp):
ATATTATTTATTAATAAATAATATTATATAATATATA
Found at i:6520576 original size:22 final size:22
Alignment explanation
Indices: 6520536--6520623 Score: 113
Period size: 22 Copynumber: 3.9 Consensus size: 22
6520526 TTATTAATAC
*
6520536 ATTATGTTATTTATAAATATAAT
1 ATTAT-TTATTAATAAATATAAT
*
6520559 ATTATTTATTAATTAATATAAT
1 ATTATTTATTAATAAATATAAT
*
6520581 ATTATTTATATAATAAATATAAC
1 ATTATTTAT-TAATAAATATAAT
*
6520604 AATATTTATTAATATAATAT
1 ATTATTTATTAATA-AATAT
6520624 TTATACAATA
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
22 29 0.50
23 29 0.50
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (22 bp):
ATTATTTATTAATAAATATAAT
Found at i:6520599 original size:18 final size:18
Alignment explanation
Indices: 6520435--6520600 Score: 94
Period size: 18 Copynumber: 8.8 Consensus size: 18
6520425 ATATAAATAA
*
6520435 TATATTAATAGATATTATT
1 TATA-TAATAAATATTATT
6520454 TAT-TAATAATATATTATT
1 TATATAATAA-ATATTATT
*
6520472 AATAT-AT-AATATCT-TT
1 TATATAATAAATAT-TATT
*
6520488 GTAT-TAATAAATAATA-T
1 -TATATAATAAATATTATT
*
6520505 TATATAATAAATAATATTGT
1 TATATAATAAATATTA-T-T
* *
6520525 TTTATTAATACATTATGTTATT
1 TATA-TAATA-A--ATATTATT
6520547 TATA-AATATAATATTATT
1 TATATAATA-AATATTATT
6520565 TATTAATTAATATAATATTATT
1 TA-T-A-TAATA-AATATTATT
6520587 TATATAATAAATAT
1 TATATAATAAATAT
6520601 AACAATATTT
Statistics
Matches: 118, Mismatches: 10, Indels: 39
0.71 0.06 0.23
Matches are distributed among these distances:
16 10 0.08
17 25 0.21
18 30 0.25
19 10 0.08
20 11 0.09
21 6 0.05
22 21 0.18
23 1 0.01
24 4 0.03
ACGTcount: A:0.46, C:0.01, G:0.02, T:0.51
Consensus pattern (18 bp):
TATATAATAAATATTATT
Found at i:6520628 original size:27 final size:25
Alignment explanation
Indices: 6520548--6520639 Score: 77
Period size: 22 Copynumber: 3.8 Consensus size: 25
6520538 TATGTTATTT
*
6520548 ATAAATAT--AATATTATTTAT-TA
1 ATAAATATACAATATTATTAATATA
* *
6520570 ATTAATAT--AATATTATTTATATA
1 ATAAATATACAATATTATTAATATA
6520593 ATAAATATAACAATATTTATTAATATA
1 ATAAATAT-ACAATA-TTATTAATATA
** *
6520620 ATATTTATACAATAATATTA
1 ATAAATATACAATATTATTA
6520640 TTTTATTAAT
Statistics
Matches: 59, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
22 19 0.32
23 9 0.15
25 5 0.08
26 10 0.17
27 16 0.27
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (25 bp):
ATAAATATACAATATTATTAATATA
Found at i:6520631 original size:26 final size:26
Alignment explanation
Indices: 6520578--6520639 Score: 72
Period size: 27 Copynumber: 2.4 Consensus size: 26
6520568 TAATTAATAT
*
6520578 AATATTATTTATATAATAAATATAAC
1 AATATTATTAATATAATAAATATAAC
**
6520604 AATATTTATTAATATAATATTTAT-AC
1 AATA-TTATTAATATAATAAATATAAC
*
6520630 AATAATATTA
1 AATATTATTA
6520640 TTTTATTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
25 5 0.16
26 10 0.32
27 16 0.52
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (26 bp):
AATATTATTAATATAATAAATATAAC
Found at i:6520745 original size:21 final size:22
Alignment explanation
Indices: 6520698--6520770 Score: 89
Period size: 21 Copynumber: 3.4 Consensus size: 22
6520688 TAAAAGGTTA
*
6520698 ATTATTAAAATTATATCAAGAG
1 ATTATCAAAATTATATCAAGAG
* *
6520720 ATTATCAAAATTTTATCAA-TG
1 ATTATCAAAATTATATCAAGAG
6520741 ATTATCAAAATTATATCATA-AG
1 ATTATCAAAATTATATCA-AGAG
6520763 -TTATCAAA
1 ATTATCAAA
6520771 CCAATATTGA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
21 26 0.58
22 19 0.42
ACGTcount: A:0.48, C:0.08, G:0.05, T:0.38
Consensus pattern (22 bp):
ATTATCAAAATTATATCAAGAG
Found at i:6520856 original size:47 final size:48
Alignment explanation
Indices: 6520787--6520890 Score: 140
Period size: 47 Copynumber: 2.2 Consensus size: 48
6520777 TTGAAAGTTC
* * *
6520787 TCAAAATTGTATCGAAAGTTATCAAATTTTATTTAAAGTTAT-T-AAAA
1 TCAAAATTATATCAAAAGTTATCAAATTTTACTTAAA-TTATATCAAAA
* *
6520834 TCAAAATTATGTCAAAAGTTATCAAATTTTACTTATATTATATCAAAA
1 TCAAAATTATATCAAAAGTTATCAAATTTTACTTAAATTATATCAAAA
6520882 TCAAAATTA
1 TCAAAATTA
6520891 AATTATTAGT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
46 4 0.08
47 33 0.66
48 13 0.26
ACGTcount: A:0.46, C:0.09, G:0.06, T:0.39
Consensus pattern (48 bp):
TCAAAATTATATCAAAAGTTATCAAATTTTACTTAAATTATATCAAAA
Found at i:6522293 original size:28 final size:28
Alignment explanation
Indices: 6522262--6522333 Score: 83
Period size: 27 Copynumber: 2.6 Consensus size: 28
6522252 AAATAATAAT
* *
6522262 AAAATTTATTATAAATGCGATTGAAAAA
1 AAAATTTATAATAAATACGATTGAAAAA
*
6522290 AAAA-TTATAATAATTACGATTGAAAAA
1 AAAATTTATAATAAATACGATTGAAAAA
* *
6522317 TAAATTTAATAAAAAAT
1 AAAATTT-ATAATAAAT
6522334 TTATATTGAT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
27 23 0.64
28 6 0.17
29 7 0.19
ACGTcount: A:0.58, C:0.03, G:0.07, T:0.32
Consensus pattern (28 bp):
AAAATTTATAATAAATACGATTGAAAAA
Found at i:6526463 original size:14 final size:13
Alignment explanation
Indices: 6526437--6526476 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
6526427 TTCAATCAAT
6526437 ATTTTTATCAAAA
1 ATTTTTATCAAAA
6526450 ATTTTTATCTAAAA
1 ATTTTTATC-AAAA
* *
6526464 ATATATATCAAAA
1 ATTTTTATCAAAA
6526477 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 13 0.54
14 11 0.46
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.42
Consensus pattern (13 bp):
ATTTTTATCAAAA
Found at i:6531024 original size:21 final size:21
Alignment explanation
Indices: 6530998--6531045 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
6530988 AAAATAAAAG
6530998 ATATTTAATAT-TT-TAAAATA
1 ATATTTAAT-TGTTATAAAATA
*
6531018 TATATTTCATTGTTATAAAATA
1 -ATATTTAATTGTTATAAAATA
6531040 ATATTT
1 ATATTT
6531046 TTATTATGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 1 0.04
21 16 0.67
22 7 0.29
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (21 bp):
ATATTTAATTGTTATAAAATA
Found at i:6535908 original size:12 final size:12
Alignment explanation
Indices: 6535888--6535919 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
6535878 TAATACAGAA
6535888 TTAAATTTGATT
1 TTAAATTTGATT
*
6535900 TTGAATTTGATT
1 TTAAATTTGATT
6535912 TTAAATTT
1 TTAAATTT
6535920 AAAATTTGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.09, T:0.59
Consensus pattern (12 bp):
TTAAATTTGATT
Found at i:6536095 original size:9 final size:9
Alignment explanation
Indices: 6536083--6536112 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
6536073 TATATTTTAT
6536083 TAATTAAAA
1 TAATTAAAA
6536092 TAATTAAAA
1 TAATTAAAA
6536101 TATATTAAAA
1 TA-ATTAAAA
6536111 TA
1 TA
6536113 TAAAAATTCG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (9 bp):
TAATTAAAA
Found at i:6536098 original size:26 final size:29
Alignment explanation
Indices: 6536036--6536103 Score: 69
Period size: 26 Copynumber: 2.6 Consensus size: 29
6536026 TTATATTTGA
6536036 TAAAA-AATTAAT-TATTTATATTTAAAT
1 TAAAATAATTAATATATTTATATTTAAAT
*
6536063 TTAAAT--TTAATATATTT-TA-TT-AAT
1 TAAAATAATTAATATATTTATATTTAAAT
*
6536087 TAAAATAATTAAAATAT
1 TAAAATAATTAATATAT
6536104 ATTAAAATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
24 8 0.24
25 2 0.06
26 15 0.44
27 9 0.26
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (29 bp):
TAAAATAATTAATATATTTATATTTAAAT
Found at i:6536109 original size:10 final size:10
Alignment explanation
Indices: 6536085--6536114 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
6536075 TATTTTATTA
6536085 ATTAAAATA-
1 ATTAAAATAT
6536094 ATTAAAATAT
1 ATTAAAATAT
6536104 ATTAAAATAT
1 ATTAAAATAT
6536114 A
1 A
6536115 AAAATTCGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
ATTAAAATAT
Found at i:6536638 original size:30 final size:29
Alignment explanation
Indices: 6536570--6536639 Score: 95
Period size: 30 Copynumber: 2.4 Consensus size: 29
6536560 CTTTATTATT
*
6536570 TATTTAGATAAATTTTAAATTTTAATTTA
1 TATTTAAATAAATTTTAAATTTTAATTTA
** *
6536599 TATCCAAATAAATTGTTAAATTTTAATTTG
1 TATTTAAATAAATT-TTAAATTTTAATTTA
6536629 TATTTAAATAA
1 TATTTAAATAA
6536640 GTAATAAAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
29 11 0.32
30 23 0.68
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.50
Consensus pattern (29 bp):
TATTTAAATAAATTTTAAATTTTAATTTA
Found at i:6537444 original size:16 final size:18
Alignment explanation
Indices: 6537404--6537446 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
6537394 TTAAAAAAGT
6537404 TTATTTATTATTAAGTAA
1 TTATTTATTATTAAGTAA
*
6537422 TTAATTTATTA-TAATTAA
1 TT-ATTTATTATTAAGTAA
6537440 -TATTTAT
1 TTATTTAT
6537447 CATTTAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 6 0.26
17 1 0.04
18 8 0.35
19 8 0.35
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (18 bp):
TTATTTATTATTAAGTAA
Found at i:6537876 original size:20 final size:20
Alignment explanation
Indices: 6537848--6537885 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
6537838 TAAAAATTTA
6537848 ATAACTTTTAATTTTTTTTT
1 ATAACTTTTAATTTTTTTTT
*
6537868 ATAATTTTTAATTTTTTT
1 ATAACTTTTAATTTTTTT
6537886 AATACTTCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (20 bp):
ATAACTTTTAATTTTTTTTT
Found at i:6537947 original size:20 final size:20
Alignment explanation
Indices: 6537924--6537962 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
6537914 AAAAAAAGTT
*
6537924 AAAAAATT-TTATTTTTATA
1 AAAAAATTATTATATTTATA
6537943 AAAAAATTATTATATTTATA
1 AAAAAATTATTATATTTATA
6537963 TTTTTATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
AAAAAATTATTATATTTATA
Found at i:6553465 original size:24 final size:25
Alignment explanation
Indices: 6553420--6553466 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
6553410 TAACACAAAG
*
6553420 TTTAATACATTAACATTCAAATTGT
1 TTTAATACATTAACATACAAATTGT
* *
6553445 TTTAGTACATTAAC-TAGAAATT
1 TTTAATACATTAACATACAAATT
6553467 TAAAATGTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 6 0.32
25 13 0.68
ACGTcount: A:0.40, C:0.11, G:0.06, T:0.43
Consensus pattern (25 bp):
TTTAATACATTAACATACAAATTGT
Found at i:6555000 original size:323 final size:325
Alignment explanation
Indices: 6554423--6555189 Score: 860
Period size: 324 Copynumber: 2.4 Consensus size: 325
6554413 TTAACATTAC
* * *
6554423 AAAAAGTCTAAAACAAACATAAATCA-TAACTTATTCATACATATCAAATCGTGAAAAAT-AAAT
1 AAAAAGTCT-AAACAAACATAAA-CAGTAATTTTTTCATACATATC-AATCGTG-AAAATCAAGT
* * * * * *
6554486 TCCATCATTTGGACATGTTTAATATCATGTATTGAAGTTATCTAAACTATTAAAACATAATATAA
62 TCAATCATTTGAAAAAGTTTAATATCATGTATTGAAGCTATCTAAACTATTAAAACATAAAATAA
* * * * * * *
6554551 CTGTAAAATTATATTTTTACTCTTTAACGGCTTAACAAAGTTCTAAAAAGATATAAGCGATAATA
127 CTGCAAAATGATATTTTTACCCTTTAACAGCATAACAAAGTCCTAAAAAGATATAAGAGATAATA
* * ***
6554616 TTTTCATACATATCAGCTGTGAAAACCAAGTTCAATCATTTGAACAAGTTTAATATTATGTATTG
192 TTTTCACACATATCAGCTATGAAAACCAAGTTCAATCATCCAAACAAGTTTAATATTATGTATTG
* * * * ****
6554681 AAGCTATCTAAAATGTTAAAACAAAATAATAAAGACAAATTTGCA-TTTTGGCCTTTTAATGGTA
257 AAACTATCTAAAATATTAAAACAAAATAATAAAGACAAATTTACATTTTTGACCTTTTAACAACA
6554745 -AAA
322 CAAA
* *
6554748 AAAAAGTGCTAAACAAACATAAACAGTAATTTTTTCATATATATCAATCGTGGAAATCAAGTTCA
1 AAAAAGT-CTAAACAAACATAAACAGTAATTTTTTCATACATATCAATCGTGAAAATCAAGTTCA
* * **
6554813 ATCATTTGAAAAAGTTTAATATAATGTATCT-AAGCTATCTAAACTGTTAAAATGTAAAAATAAC
65 ATCATTTGAAAAAGTTTAATATCATGTAT-TGAAGCTATCTAAACTATTAAAACAT-AAAATAAC
*
6554877 TGCAAAATGATATTTTTACCCTTTAACAGCATAACAAAGTCCTAAAAAGATA-AATAG-TAACT-
128 TGCAAAATGATATTTTTACCCTTTAACAGCATAACAAAGTCCTAAAAAGATATAAGAGATAA-TA
* * * *
6554939 TTTTCGCACTTATCA-ATCATGAAAACCAAGTTCAATTATCCAAACAAGTTTAATATTATGTATT
192 TTTTCACACATATCAGCT-ATGAAAACCAAGTTCAATCATCCAAACAAGTTTAATATTATGTATT
* *
6555003 GAAACTATCTAAACTATTAAAACAAAATAATAAATACAAATTTACATTTTTGACCTTTTAACAAC
256 GAAACTATCTAAAATATTAAAACAAAATAATAAAGACAAATTTACATTTTTGACCTTTTAACAAC
6555068 ACAAA
321 ACAAA
* * * * *
6555073 AAAAA-TCTTAAATAAACATAAAC-GATAACTTTTTT-ACACATATCAACCATGCAAA-CTAAGT
1 AAAAAGTC-TAAACAAACATAAACAG-TAA-TTTTTTCATACATATCAATCGTGAAAATC-AAGT
* * *
6555134 TCAATCA-TTCAAACAAATTTAATATCATTTATTGAAGCTATCTAAACTATTAAAAC
62 TCAATCATTTGAAA-AAGTTTAATATCATGTATTGAAGCTATCTAAACTATTAAAAC
6555190 GAAATAATAA
Statistics
Matches: 373, Mismatches: 54, Indels: 31
0.81 0.12 0.07
Matches are distributed among these distances:
322 1 0.00
323 110 0.29
324 156 0.42
325 104 0.28
326 2 0.01
ACGTcount: A:0.45, C:0.14, G:0.08, T:0.33
Consensus pattern (325 bp):
AAAAAGTCTAAACAAACATAAACAGTAATTTTTTCATACATATCAATCGTGAAAATCAAGTTCAA
TCATTTGAAAAAGTTTAATATCATGTATTGAAGCTATCTAAACTATTAAAACATAAAATAACTGC
AAAATGATATTTTTACCCTTTAACAGCATAACAAAGTCCTAAAAAGATATAAGAGATAATATTTT
CACACATATCAGCTATGAAAACCAAGTTCAATCATCCAAACAAGTTTAATATTATGTATTGAAAC
TATCTAAAATATTAAAACAAAATAATAAAGACAAATTTACATTTTTGACCTTTTAACAACACAAA
Found at i:6555149 original size:164 final size:162
Alignment explanation
Indices: 6554340--6555302 Score: 656
Period size: 163 Copynumber: 6.0 Consensus size: 162
6554330 ATTGGACACA
* * * * * * ** **
6554340 TTTAATATAATGTAATAAGAGCTATCTAAACTATTAAAACTAAACAATAATTGTAAATTTGTATT
1 TTTAATATTATGTATTGA-AGCTATCTAAACTATTAAAACAAAATAATAAATACAAATTTACA-T
** * * * * *
6554405 TTTG-CCTTTTAAC-ATTACAAAAAGT-CTAAAACAAACATAAATCA-TAACTTATTCATACATA
64 TTTGACCTTTTAACAACAAAAAAAAATGCT-AAATAAACATAAA-CAGTAACTTTTTCACACATA
* ** * * *** *
6554466 TCAAATCGTGAAAAATAAATTCCATCATTTGGACATG
127 TC-AATCATGAAAACCAAGTTCAATCATTCAAACAAG
* * * * ** * *
6554503 TTTAATATCATGTATTGAAGTTATCTAAACTATTAAAACATAAT-ATAACTGTAAAATTATATTT
1 TTTAATATTATGTATTGAAGCTATCTAAACTATTAAAACAAAATAATAAATACAAATTTACATTT
* ** ** * * * * * *
6554567 TTA-CTCTTTAACGGCTTAACAAAGTTCTAAA-AAGATATAAGC-GATAA-TATTTTCATACATA
66 TGACCT-TTTAACAACAAAAAAAAATGCTAAATAA-ACATAAACAG-TAACT-TTTTCACACATA
* * **
6554628 TC-AGCTGTGAAAACCAAGTTCAATCATTTGAACAAG
127 TCAATC-ATGAAAACCAAGTTCAATCATTCAAACAAG
* * * *
6554664 TTTAATATTATGTATTGAAGCTATCTAAAATGTTAAAACAAAATAATAAAGACAAATTTGCATTT
1 TTTAATATTATGTATTGAAGCTATCTAAACTATTAAAACAAAATAATAAATACAAATTTACATTT
* **** * * * *
6554729 TGGCCTTTTAATGGTAAAAAAAAAGTGCTAAACAAACATAAACAGTAATTTTTTCATATATATCA
66 TGACCTTTTAACAACAAAAAAAAA-TGCTAAATAAACATAAACAGTAACTTTTTCACACATATCA
* * * *
6554794 ATCGTGGAAATCAAGTTCAATCATTTGAAA-AAG
130 ATCATGAAAACCAAGTTCAATCA-TTCAAACAAG
* * ** * * * * *
6554827 TTTAATATAATGTATCT-AAGCTATCTAAACTGTTAAAATGTAAA-AATAACTGCAAAATGATAT
1 TTTAATATTATGTAT-TGAAGCTATCTAAACTATTAAAA-CAAAATAATAAATACAAATTTACAT
* * * * * * * * * * *
6554890 TTTTACCCTTTAACAGCATAACAAAGTCCT-AA-AAAGATAAATAGTAACTTTTTCGCACTTATC
64 TTTGACCTTTTAACAACAAAAAAAAATGCTAAATAAACATAAACAGTAACTTTTTCACACATATC
* *
6554953 AATCATGAAAACCAAGTTCAATTATCCAAACAAG
129 AATCATGAAAACCAAGTTCAATCATTCAAACAAG
*
6554987 TTTAATATTATGTATTGAAACTATCTAAACTATTAAAACAAAATAATAAATACAAATTTACATTT
1 TTTAATATTATGTATTGAAGCTATCTAAACTATTAAAACAAAATAATAAATACAAATTTACA-TT
*
6555052 TTGACCTTTTAACAACACAAAAAAAAT-CTTAAATAAACATAAAC-GATAACTTTTTTACACATA
65 TTGACCTTTTAACAACA-AAAAAAAATGC-TAAATAAACATAAACAG-TAACTTTTTCACACATA
* * * *
6555115 TCAACCATGCAAACTAAGTTCAATCATTCAAACAAA
127 TCAATCATGAAAACCAAGTTCAATCATTCAAACAAG
* * * *
6555151 TTTAATATCATTTATTGAAGCTATCTAAACTATTAAAACGAAATAATAAA-AGCAAATTTGCATT
1 TTTAATATTATGTATTGAAGCTATCTAAACTATTAAAACAAAATAATAAATA-CAAATTTACATT
* * * * *
6555215 TTGGCCTTTTAACAGC-AAAAAAAGTGCTAAATAGACATAAACAATAACTTTTTCACAC--ATCA
65 TTGACCTTTTAACAACAAAAAAAAATGCTAAATAAACATAAACAGTAACTTTTTCACACATATCA
*
6555277 ATTATCG-AAACCAAGTTCAATCATTC
130 ATCAT-GAAAACCAAGTTCAATCATTC
6555303 CGACAAACTA
Statistics
Matches: 638, Mismatches: 130, Indels: 68
0.76 0.16 0.08
Matches are distributed among these distances:
159 33 0.05
160 102 0.16
161 141 0.22
162 90 0.14
163 151 0.24
164 121 0.19
ACGTcount: A:0.45, C:0.14, G:0.08, T:0.33
Consensus pattern (162 bp):
TTTAATATTATGTATTGAAGCTATCTAAACTATTAAAACAAAATAATAAATACAAATTTACATTT
TGACCTTTTAACAACAAAAAAAAATGCTAAATAAACATAAACAGTAACTTTTTCACACATATCAA
TCATGAAAACCAAGTTCAATCATTCAAACAAG
Found at i:6555231 original size:324 final size:322
Alignment explanation
Indices: 6554635--6555300 Score: 762
Period size: 323 Copynumber: 2.1 Consensus size: 322
6554625 ATATCAGCTG
*** * *
6554635 TGAAAACCAAGTTCAATCATTTGAACAAGTTTAATATTATGTATTGAAGCTATCTAAAATGTTAA
1 TGAAAACCAAGTTCAATCATCCAAACAAGTTTAATATTATGTATTGAAACTATCTAAAATATTAA
* * ****
6554700 AACAAAATAATAAAGACAAATTTGCATTTTGGCCTTTTAATGGTAAAAAAAAAGTGCTAAACAAA
66 AACAAAATAATAAAGACAAATTTACATTTTGACCTTTTAACAACAAAAAAAAAGTGCTAAACAAA
* * * * * * *
6554765 CATAAACAGTAATTTTTTCATATATATCAATCGTGGAAATCAAGTTCAATCATTTGAAAAAGTTT
131 CATAAACAGTAATTTTTTCACACATATCAACCATGCAAATCAAGTTCAATCATTTCAAAAAATTT
* * ** * *
6554830 AATATAATGTATCTAAGCTATCTAAACTGTTAAAATGTAAAAATAACTGCAAAATGATATTTTTA
196 AATATAATGTATCTAAGCTATCTAAACTATTAAAACGTAAAAATAAAAGCAAAATGACATTTTGA
* * * * *
6554895 CCCTTTAACAGCATAACAAAGTCCTAAA-A-AGATAAATAGTAACTTTTTCGCACTTATCAATCA
261 CCCTTTAACAGCA-AAAAAAGTCCTAAATAGACATAAACAATAACTTTTTCACAC--ATCAATCA
* *
6554958 TGAAAACCAAGTTCAATTATCCAAACAAGTTTAATATTATGTATTGAAACTATCTAAACTATTAA
1 TGAAAACCAAGTTCAATCATCCAAACAAGTTTAATATTATGTATTGAAACTATCTAAAATATTAA
* *
6555023 AACAAAATAATAAATACAAATTTACATTTTTGACCTTTTAACAACACAAAAAAAA-T-CTTAAAT
66 AACAAAATAATAAAGACAAATTTACA-TTTTGACCTTTTAACAACA-AAAAAAAAGTGC-TAAAC
6555086 AAACATAAAC-GATAACTTTTTT-ACACATATCAACCATGCAAA-CTAAGTTCAATCA-TTCAAA
128 AAACATAAACAG-TAA-TTTTTTCACACATATCAACCATGCAAATC-AAGTTCAATCATTTCAAA
* * *
6555147 CAAATTTAATATCATTTAT-TGAAGCTATCTAAACTATTAAAACG-AAATAATAAAAGCAAATTT
190 -AAATTTAATATAATGTATCT-AAGCTATCTAAACTATTAAAACGTAAA-AATAAAAGCAAA-AT
* * *
6555210 G-CATTTTGGCCTTTTAACAGCAAAAAAAGTGCTAAATAGACATAAACAATAACTTTTTCACACA
251 GACATTTTGACCCTTTAACAGCAAAAAAAGTCCTAAATAGACATAAACAATAACTTTTTCACACA
*
6555274 TCAATTA
316 TCAATCA
6555281 TCG-AAACCAAGTTCAATCAT
1 T-GAAAACCAAGTTCAATCAT
6555301 TCCGACAAAC
Statistics
Matches: 289, Mismatches: 41, Indels: 26
0.81 0.12 0.07
Matches are distributed among these distances:
323 130 0.45
324 123 0.43
325 36 0.12
ACGTcount: A:0.45, C:0.15, G:0.08, T:0.32
Consensus pattern (322 bp):
TGAAAACCAAGTTCAATCATCCAAACAAGTTTAATATTATGTATTGAAACTATCTAAAATATTAA
AACAAAATAATAAAGACAAATTTACATTTTGACCTTTTAACAACAAAAAAAAAGTGCTAAACAAA
CATAAACAGTAATTTTTTCACACATATCAACCATGCAAATCAAGTTCAATCATTTCAAAAAATTT
AATATAATGTATCTAAGCTATCTAAACTATTAAAACGTAAAAATAAAAGCAAAATGACATTTTGA
CCCTTTAACAGCAAAAAAAGTCCTAAATAGACATAAACAATAACTTTTTCACACATCAATCA
Found at i:6555290 original size:323 final size:322
Alignment explanation
Indices: 6554503--6555300 Score: 764
Period size: 324 Copynumber: 2.5 Consensus size: 322
6554493 TTTGGACATG
* * * * ** * * *
6554503 TTTAATATCATGTAT-TGAAGTTATCTAAACTATTAAAACAT-AATATAACTGTAAAATTATATT
1 TTTAATATAATGTATCT-AAGCTATCTAAACTATTAAAACGTAAAAATAAAAGCAAAATGACATT
* * * * * * * * *
6554566 TTTACTCTTTAACGGCTTAACAAAGTTCTAAAAAGATATAAGCGATAA-TATTTTCATACATATC
65 TTGACCCTTTAACAGCATAAAAAAGTCCTAAAAACATA-AA-CAATAACT-TTTTCACAC-TATC
* * *** *
6554630 -AGCTGTGAAAACCAAGTTCAATCATTTGAACAAGTTTAATATTATGTATTGAAGCTATCTAAAA
126 AATC-ATGAAAACCAAGTTCAATCATCCAAACAAGTTTAATATTATGTATTGAAACTATCTAAAA
* * * ****
6554694 TGTTAAAACAAAATAATAAAGACAAATTTGCATTTTGGCCTTTTAATGGTAAAAAAAAAGTGCTA
190 TATTAAAACAAAATAATAAAGACAAATTTACATTTTGACCTTTTAACAACAAAAAAAAAGTGCTA
* * * * * *
6554759 AACAAACATAAACAGTAATTTTTTCATATATATCAATCGTGGAAATCAAGTTCAATCATTTGAAA
255 AACAAACATAAACAGTAATTTTTTCACACATATCAACCATGCAAATCAAGTTCAATCATTTCAAA
*
6554824 AAG
320 AAA
* * ** *
6554827 TTTAATATAATGTATCTAAGCTATCTAAACTGTTAAAATGTAAAAATAACTGCAAAATGATATTT
1 TTTAATATAATGTATCTAAGCTATCTAAACTATTAAAACGTAAAAATAAAAGCAAAATGACATTT
* * * * * *
6554892 TTACCCTTTAACAGCATAACAAAGTCCTAAAAAGATAAATAGTAACTTTTTCGCACTTATCAATC
66 TGACCCTTTAACAGCATAAAAAAGTCCTAAAAACATAAACAATAACTTTTTCACAC-TATCAATC
* *
6554957 ATGAAAACCAAGTTCAATTATCCAAACAAGTTTAATATTATGTATTGAAACTATCTAAACTATTA
130 ATGAAAACCAAGTTCAATCATCCAAACAAGTTTAATATTATGTATTGAAACTATCTAAAATATTA
*
6555022 AAACAAAATAATAAATACAAATTTACATTTTTGACCTTTTAACAACACAAAAAAAA-T-CTTAAA
195 AAACAAAATAATAAAGACAAATTTACA-TTTTGACCTTTTAACAACA-AAAAAAAAGTGC-TAAA
*
6555085 TAAACATAAAC-GATAACTTTTTT-ACACATATCAACCATGCAAA-CTAAGTTCAATCA-TTCAA
257 CAAACATAAACAG-TAA-TTTTTTCACACATATCAACCATGCAAATC-AAGTTCAATCATTTCAA
6555146 ACAAA
319 A-AAA
* * *
6555151 TTTAATATCATTTAT-TGAAGCTATCTAAACTATTAAAACG-AAATAATAAAAGCAAATTTG-CA
1 TTTAATATAATGTATCT-AAGCTATCTAAACTATTAAAACGTAAA-AATAAAAGCAAA-ATGACA
* * *
6555213 TTTTGGCCTTTTAACAGCA-AAAAAAGTGCTAAATAGACATAAACAATAACTTTTTCACAC-ATC
63 TTTTGACCCTTTAACAGCATAAAAAAGTCCTAAA-A-ACATAAACAATAACTTTTTCACACTATC
*
6555276 AATTATCG-AAACCAAGTTCAATCAT
126 AATCAT-GAAAACCAAGTTCAATCAT
6555301 TCCGACAAAC
Statistics
Matches: 396, Mismatches: 61, Indels: 35
0.80 0.12 0.07
Matches are distributed among these distances:
323 144 0.36
324 162 0.41
325 90 0.23
ACGTcount: A:0.45, C:0.14, G:0.09, T:0.33
Consensus pattern (322 bp):
TTTAATATAATGTATCTAAGCTATCTAAACTATTAAAACGTAAAAATAAAAGCAAAATGACATTT
TGACCCTTTAACAGCATAAAAAAGTCCTAAAAACATAAACAATAACTTTTTCACACTATCAATCA
TGAAAACCAAGTTCAATCATCCAAACAAGTTTAATATTATGTATTGAAACTATCTAAAATATTAA
AACAAAATAATAAAGACAAATTTACATTTTGACCTTTTAACAACAAAAAAAAAGTGCTAAACAAA
CATAAACAGTAATTTTTTCACACATATCAACCATGCAAATCAAGTTCAATCATTTCAAAAAA
Found at i:6556497 original size:18 final size:18
Alignment explanation
Indices: 6556474--6556508 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
6556464 ATTTTAACTA
6556474 GTGATAGTCAAGTATTCT
1 GTGATAGTCAAGTATTCT
*
6556492 GTGATATTCAAGTATTC
1 GTGATAGTCAAGTATTC
6556509 CATTGAACTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.40
Consensus pattern (18 bp):
GTGATAGTCAAGTATTCT
Found at i:6557030 original size:25 final size:25
Alignment explanation
Indices: 6556980--6557041 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 25
6556970 CAACCAATAT
**
6556980 GAGATAAAGATTTAATTTGGGAAAA
1 GAGATAAAGATTTAATTTAAGAAAA
*
6557005 GAGATAGAGATTTAATTTAA-AGAAA
1 GAGATAAAGATTTAATTTAAGA-AAA
*
6557030 GAGACAAAGATT
1 GAGATAAAGATT
6557042 CAAGACATAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
24 1 0.03
25 30 0.97
ACGTcount: A:0.50, C:0.02, G:0.23, T:0.26
Consensus pattern (25 bp):
GAGATAAAGATTTAATTTAAGAAAA
Found at i:6559541 original size:5 final size:5
Alignment explanation
Indices: 6559521--6559578 Score: 53
Period size: 5 Copynumber: 11.2 Consensus size: 5
6559511 TCAAAGAGAA
* * * * *
6559521 ATAAA ATAAT AATAAT ATAAT ATACT ATAAT ATGAT ATACT ATAGT ATAAT
1 ATAAT ATAAT -ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
6559572 AATAAT A
1 -ATAAT A
6559579 ATATGATATA
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
5 33 0.77
6 10 0.23
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.36
Consensus pattern (5 bp):
ATAAT
Found at i:6559551 original size:10 final size:9
Alignment explanation
Indices: 6559529--6559595 Score: 57
Period size: 10 Copynumber: 7.1 Consensus size: 9
6559519 AAATAAAATA
6559529 ATAATA-AT
1 ATAATATAT
6559537 ATAATATACT
1 ATAATATA-T
6559547 ATAATATGAT
1 ATAATAT-AT
*
6559557 ATACTATAGT
1 ATAATATA-T
6559567 ATAATA-AT
1 ATAATATAT
6559575 AATAATATGAT
1 -ATAATAT-AT
*
6559586 ATAACATAT
1 ATAATATAT
6559595 A
1 A
6559596 AATCAATAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
8 7 0.14
9 12 0.24
10 27 0.55
11 3 0.06
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.37
Consensus pattern (9 bp):
ATAATATAT
Found at i:6559552 original size:15 final size:15
Alignment explanation
Indices: 6559532--6559572 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
6559522 TAAAATAATA
6559532 ATAATATAATATACT
1 ATAATATAATATACT
*
6559547 ATAATATGATATACT
1 ATAATATAATATACT
*
6559562 ATAGTATAATA
1 ATAATATAATA
6559573 ATAATAATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.39
Consensus pattern (15 bp):
ATAATATAATATACT
Found at i:6559607 original size:31 final size:29
Alignment explanation
Indices: 6559547--6559612 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 29
6559537 ATAATATACT
*
6559547 ATAATATGATATACTATAGTATAATAATA
1 ATAATATGATATACTATAGAATAATAATA
6559576 ATAATATGATATAACATATA-AATCAATAATA
1 ATAATATGATAT-AC-TATAGAAT-AATAATA
6559607 ATAATA
1 ATAATA
6559613 AAATAACAGT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
29 12 0.36
30 4 0.12
31 17 0.52
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.35
Consensus pattern (29 bp):
ATAATATGATATACTATAGAATAATAATA
Found at i:6562180 original size:16 final size:17
Alignment explanation
Indices: 6562147--6562184 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
6562137 ATCATCAAAA
*
6562147 TTTAATATTTTTAAATT
1 TTTAATATTTTGAAATT
*
6562164 TTTAAT-TTTTGACATT
1 TTTAATATTTTGAAATT
6562180 TTTAA
1 TTTAA
6562185 GCTCATTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.63
Consensus pattern (17 bp):
TTTAATATTTTGAAATT
Found at i:6567970 original size:37 final size:38
Alignment explanation
Indices: 6567890--6567975 Score: 93
Period size: 37 Copynumber: 2.3 Consensus size: 38
6567880 ATAATATAAT
** *
6567890 AATATTAATATAATAATATTTACTAATAGATTATTTTTT
1 AATA-TAATATAATAATATTTACTAATAGATTATTGATA
* * *
6567929 AATATAATATAAT-TTATTTATTAATATATTATTGATA
1 AATATAATATAATAATATTTACTAATAGATTATTGATA
*
6567966 AATATTATAT
1 AATATAATAT
6567976 TACTAAACAA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
37 27 0.68
38 9 0.22
39 4 0.10
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.51
Consensus pattern (38 bp):
AATATAATATAATAATATTTACTAATAGATTATTGATA
Found at i:6568010 original size:11 final size:11
Alignment explanation
Indices: 6567994--6568295 Score: 91
Period size: 11 Copynumber: 27.1 Consensus size: 11
6567984 AATATATTAT
6567994 TTATTAATATA
1 TTATTAATATA
6568005 TTATTAATATAA
1 TTATTAATAT-A
*
6568017 CATATTAATA-A
1 -TTATTAATATA
6568028 -TA-TAATA-A
1 TTATTAATATA
6568036 CTTATTAATATGA
1 -TTATTAATAT-A
6568049 TATATTAATA-A
1 T-TATTAATATA
*
6568060 -TA-AAATATA
1 TTATTAATATA
*
6568069 -TAATAATTATA
1 TTATTAA-TATA
* *
6568080 TGATAAATAT-
1 TTATTAATATA
6568090 TATATTAATA-A
1 T-TATTAATATA
*
6568101 TATATAAATATA
1 T-TATTAATATA
*
6568113 TTAATAATATA
1 TTATTAATATA
* *
6568124 TTAATAATACA
1 TTATTAATATA
*
6568135 TTAAT-ATATTA
1 TTATTAATA-TA
* *
6568146 ATAATAATATA
1 TTATTAATATA
6568157 TTATATTAATATA
1 -T-TATTAATATA
* *
6568170 --AATAATATG
1 TTATTAATATA
* * *
6568179 TTAATAAAATTT
1 TTATTAATA-TA
6568191 TATATTAATAT-
1 T-TATTAATATA
*
6568202 TAATTAATAAATA
1 TTATTAAT--ATA
6568215 TTATAAATAATATA
1 TTAT---TAATATA
6568229 TGATATTAATATGA
1 T--TATTAATAT-A
*
6568243 -TATAAATA-A
1 TTATTAATATA
*
6568252 TATATTAATAGA
1 T-TATTAATATA
6568264 -TATT-ATATA
1 TTATTAATATA
*
6568273 TTAATAATATA
1 TTATTAATATA
6568284 TTATTAATATA
1 TTATTAATATA
6568295 T
1 T
6568296 AATATCTTTG
Statistics
Matches: 225, Mismatches: 29, Indels: 74
0.69 0.09 0.23
Matches are distributed among these distances:
8 10 0.04
9 19 0.08
10 21 0.09
11 106 0.47
12 16 0.07
13 41 0.18
14 5 0.02
16 7 0.03
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.45
Consensus pattern (11 bp):
TTATTAATATA
Found at i:6568023 original size:16 final size:16
Alignment explanation
Indices: 6567875--6568294 Score: 157
Period size: 15 Copynumber: 27.8 Consensus size: 16
6567865 CTCAATTTGT
*
6567875 TATTAATAATATAATA
1 TATTATTAATATAATA
6567891 -A-TATTAATATAATAA
1 TATTATTAATATAAT-A
* * *
6567906 TATTTACTAATAGATTA
1 TA-TTATTAATATAATA
*
6567923 T-TTTTTAATATAATA
1 TATTATTAATATAATA
*
6567938 TAATTTATTTAT-TAATA
1 T-A-TTATTAATATAATA
* *
6567955 TATTATTGATAAATATTA
1 TATTATT-A-ATATAATA
* *
6567973 TATTACTAA-ACAATA
1 TATTATTAATATAATA
*
6567988 TATTATTTAT-TAATA
1 TATTATTAATATAATA
*
6568003 TATTATTAATATAACA
1 TATTATTAATATAATA
*
6568019 TATTAATAATATAATA
1 TATTATTAATATAATA
*
6568035 -ACTTATTAATATGATA
1 TA-TTATTAATATAATA
*
6568051 TATTAATAATA-AA-A
1 TATTATTAATATAATA
*
6568065 TA-TA-TAATA-ATTA
1 TATTATTAATATAATA
* *
6568078 TATGA-TAA-ATATTA
1 TATTATTAATATAATA
*
6568092 TATTAATAATAT-ATA
1 TATTATTAATATAATA
*
6568107 AATATATT-A-ATAATA
1 TAT-TATTAATATAATA
* * *
6568122 TATTAATAATACATTA
1 TATTATTAATATAATA
6568138 -ATATATTAATAATAATA
1 TAT-TATTAAT-ATAATA
6568155 TATTATATTAATATAA-A
1 TA-T-TATTAATATAATA
* *
6568172 TAATATGTTA-ATAA-A
1 TATTAT-TAATATAATA
6568187 -ATT-TT-ATATTAATA
1 TATTATTAATA-TAATA
*
6568201 T-TAATT-A-ATAA-A
1 TATTATTAATATAATA
6568213 TATTA-TAA-ATAATA
1 TATTATTAATATAATA
*
6568227 TATGA-T-AT-TAATA
1 TATTATTAATATAATA
6568240 TGA-TA-TAA-ATAATA
1 T-ATTATTAATATAATA
*
6568254 TATTAATAGATAT--TA
1 TATTATTA-ATATAATA
6568269 TA-TATT-A-ATAATA
1 TATTATTAATATAATA
6568282 TATTATTAATATA
1 TATTATTAATATA
6568295 TAATATCTTT
Statistics
Matches: 307, Mismatches: 48, Indels: 98
0.68 0.11 0.22
Matches are distributed among these distances:
11 3 0.01
12 12 0.04
13 34 0.11
14 59 0.19
15 78 0.25
16 62 0.20
17 20 0.07
18 30 0.10
19 9 0.03
ACGTcount: A:0.51, C:0.01, G:0.02, T:0.46
Consensus pattern (16 bp):
TATTATTAATATAATA
Found at i:6568041 original size:32 final size:32
Alignment explanation
Indices: 6568005--6568066 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
6567995 TATTAATATA
*
6568005 TTATTAATATAACATATTAATAATATAATAAC
1 TTATTAATATAACATATTAATAATAAAATAAC
* *
6568037 TTATTAATATGATATATTAATAATAAAATA
1 TTATTAATATAACATATTAATAATAAAATA
6568067 TATAATAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (32 bp):
TTATTAATATAACATATTAATAATAAAATAAC
Found at i:6568140 original size:38 final size:37
Alignment explanation
Indices: 6568022--6568343 Score: 151
Period size: 38 Copynumber: 8.7 Consensus size: 37
6568012 TATAACATAT
*
6568022 TAATAATATAATAACT-TATTAATATGATATATTAATAA
1 TAATAATATAATAAATATA-TAATAT-ATATATTAATAA
* * * *
6568060 TAAAATATATAATAATTATATGATA-A-ATATT-ATAT
1 TAATA-ATATAATAAATATATAATATATATATTAATAA
6568095 TAATAATAT-ATAAATATATTAATA-ATATATTAATAA
1 TAATAATATAATAAATATA-TAATATATATATTAATAA
*
6568131 TACATTAATAT-ATTAATA-ATAATATATTATATTAAT-A
1 TA-A-TAATATAATAAATATATAATATA-TATATTAATAA
* * * *
6568168 TAAATAATAT-GTTAATA-A-AAT-TTTATATTAATAT
1 T-AATAATATAATAAATATATAATATATATATTAATAA
* *
6568202 TAATTAATA-AATATTATAAATAATATATGATATTAAT-A
1 TAA-TAATATAATA-AATATATAATATAT-ATATTAATAA
* * *
6568240 TGAT-ATA-AAT-AATATATTAATAGATATTATATATTAA
1 TAATAATATAATAAATATA-TAATATATA-TAT-TAATAA
* * * *
6568277 TAAT-ATATTATTAATATATAATATCTTTGTATTAATAAA
1 TAATAATATAATAAATATATAATA--TATATATTAAT-AA
*
6568316 TAATATTATATAAATAAATAAATAATAT
1 TAATA--ATAT-AATAAATATATAATAT
6568344 TGTTTTATTA
Statistics
Matches: 222, Mismatches: 31, Indels: 59
0.71 0.10 0.19
Matches are distributed among these distances:
33 19 0.09
34 22 0.10
35 28 0.13
36 38 0.17
37 18 0.08
38 40 0.18
39 37 0.17
40 3 0.01
41 1 0.00
42 4 0.02
43 12 0.05
ACGTcount: A:0.53, C:0.01, G:0.02, T:0.44
Consensus pattern (37 bp):
TAATAATATAATAAATATATAATATATATATTAATAA
Found at i:6568176 original size:22 final size:22
Alignment explanation
Indices: 6567991--6568295 Score: 93
Period size: 19 Copynumber: 14.1 Consensus size: 22
6567981 AACAATATAT
* *
6567991 TATTTATTAATATATTATTAATA
1 TATTAATTAATATA-TAATAATA
**
6568014 TAACATATTAATAATATAATAACT-
1 TATTA-ATTAAT-ATATAATAA-TA
*
6568038 TATTAA-T-ATGATATATTAATA
1 TATTAATTAAT-ATATAATAATA
6568059 -A-TAA--AATATATAATAATTA
1 TATTAATTAATATATAATAA-TA
* *
6568078 TATGATAAATATTATATTAATAATA
1 TAT--TAATTAATATA-TAATAATA
*
6568103 TA-TAAAT-ATAT-TAATAATA
1 TATTAATTAATATATAATAATA
*
6568122 TATTAA-TAATACAT--TAATA
1 TATTAATTAATATATAATAATA
6568141 TATTAA-TAATA-AT-AT-AT-
1 TATTAATTAATATATAATAATA
6568158 TA-T-ATTAATATA-AATAATA
1 TATTAATTAATATATAATAATA
* * * *
6568177 TGTTAATAAAATTTTATATTAATA
1 TATTAAT-TAA-TATATAATAATA
*
6568201 TTAATTAATAAATATTATAAATAATA
1 -T-ATTAATTAATA-TAT-AATAATA
*
6568227 TATGATATTAATATGAT-ATAA-A
1 TATTA-ATTAATAT-ATAATAATA
* * *
6568249 TAATATATTAATAGAT-ATTATA
1 TATTA-ATTAATATATAATAATA
*
6568271 TATTAA-TAATATATTATTAATA
1 TATTAATTAATATA-TAATAATA
6568293 TAT
1 TAT
6568296 AATATCTTTG
Statistics
Matches: 217, Mismatches: 29, Indels: 73
0.68 0.09 0.23
Matches are distributed among these distances:
15 1 0.00
16 6 0.03
17 5 0.02
18 14 0.06
19 36 0.17
20 16 0.07
21 23 0.11
22 32 0.15
23 13 0.06
24 25 0.12
25 29 0.13
26 17 0.08
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.45
Consensus pattern (22 bp):
TATTAATTAATATATAATAATA
Found at i:6568398 original size:22 final size:22
Alignment explanation
Indices: 6568358--6568445 Score: 113
Period size: 22 Copynumber: 3.9 Consensus size: 22
6568348 TTATTAATAC
*
6568358 ATTATGTTATTTATAAATATAAT
1 ATTAT-TTATTAATAAATATAAT
*
6568381 ATTATTTATTAATTAATATAAT
1 ATTATTTATTAATAAATATAAT
*
6568403 ATTATTTATATAATAAATATAAC
1 ATTATTTAT-TAATAAATATAAT
*
6568426 AATATTTATTAATATAATAT
1 ATTATTTATTAATA-AATAT
6568446 TTATACAATA
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
22 29 0.50
23 29 0.50
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (22 bp):
ATTATTTATTAATAAATATAAT
Found at i:6568417 original size:61 final size:56
Alignment explanation
Indices: 6568258--6568417 Score: 139
Period size: 61 Copynumber: 2.8 Consensus size: 56
6568248 ATAATATATT
* * *
6568258 AATAGATATTATATATTAATAATATATTATTA-ATATATAATATCTTTGTATTAATA
1 AATA-ATATTATTTATTAATAATATAATATTATTTATATAATATCTTTGTATTAATA
* * * *
6568314 AATAATATTATATAAATAAATAA-ATAATATTGTTT-TATTAATA-CATTATGTTATTTATAA
1 AATAATATTAT-T-TATTAATAATATAATATTATTTATA-TAATATC-TT-TG-TATTAAT-A
6568374 ATATAATATTATTTATTAATTAATATAATATTATTTATATAATA
1 A-ATAATATTATTTATTAA-TAATATAATATTATTTATATAATA
6568418 AATATAACAA
Statistics
Matches: 82, Mismatches: 10, Indels: 19
0.74 0.09 0.17
Matches are distributed among these distances:
55 7 0.09
56 14 0.17
57 15 0.18
58 2 0.02
59 10 0.12
60 6 0.07
61 26 0.32
62 2 0.02
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (56 bp):
AATAATATTATTTATTAATAATATAATATTATTTATATAATATCTTTGTATTAATA
Found at i:6568450 original size:27 final size:25
Alignment explanation
Indices: 6568370--6568461 Score: 77
Period size: 22 Copynumber: 3.8 Consensus size: 25
6568360 TATGTTATTT
*
6568370 ATAAATAT--AATATTATTTAT-TA
1 ATAAATATACAATATTATTAATATA
* *
6568392 ATTAATAT--AATATTATTTATATA
1 ATAAATATACAATATTATTAATATA
6568415 ATAAATATAACAATATTTATTAATATA
1 ATAAATAT-ACAATA-TTATTAATATA
** *
6568442 ATATTTATACAATAATATTA
1 ATAAATATACAATATTATTA
6568462 TTTTATTAAT
Statistics
Matches: 59, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
22 19 0.32
23 9 0.15
25 5 0.08
26 10 0.17
27 16 0.27
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (25 bp):
ATAAATATACAATATTATTAATATA
Found at i:6568453 original size:26 final size:26
Alignment explanation
Indices: 6568400--6568461 Score: 72
Period size: 27 Copynumber: 2.4 Consensus size: 26
6568390 TAATTAATAT
*
6568400 AATATTATTTATATAATAAATATAAC
1 AATATTATTAATATAATAAATATAAC
**
6568426 AATATTTATTAATATAATATTTAT-AC
1 AATA-TTATTAATATAATAAATATAAC
*
6568452 AATAATATTA
1 AATATTATTA
6568462 TTTTATTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
25 5 0.16
26 10 0.32
27 16 0.52
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (26 bp):
AATATTATTAATATAATAAATATAAC
Found at i:6568567 original size:21 final size:22
Alignment explanation
Indices: 6568520--6568592 Score: 89
Period size: 21 Copynumber: 3.4 Consensus size: 22
6568510 TAAAAGGTTA
*
6568520 ATTATTAAAATTATATCAAGAG
1 ATTATCAAAATTATATCAAGAG
* *
6568542 ATTATCAAAATTTTATCAA-TG
1 ATTATCAAAATTATATCAAGAG
6568563 ATTATCAAAATTATATCATA-AG
1 ATTATCAAAATTATATCA-AGAG
6568585 -TTATCAAA
1 ATTATCAAA
6568593 CCAATATTGA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
21 26 0.58
22 19 0.42
ACGTcount: A:0.48, C:0.08, G:0.05, T:0.38
Consensus pattern (22 bp):
ATTATCAAAATTATATCAAGAG
Found at i:6568606 original size:21 final size:21
Alignment explanation
Indices: 6568564--6568634 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 21
6568554 TTATCAATGA
**
6568564 TTATCAAAATTATATC-ATAAG
1 TTATCAAAACAATATCGA-AAG
* *
6568585 TTATCAAACCAATATTGAAAG
1 TTATCAAAACAATATCGAAAG
* **
6568606 TTCTCAAAATTATATCGAAAG
1 TTATCAAAACAATATCGAAAG
6568627 TTATCAAA
1 TTATCAAA
6568635 TTTTACTTAT
Statistics
Matches: 39, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
21 38 0.97
22 1 0.03
ACGTcount: A:0.46, C:0.13, G:0.07, T:0.34
Consensus pattern (21 bp):
TTATCAAAACAATATCGAAAG
Found at i:6570115 original size:27 final size:27
Alignment explanation
Indices: 6570085--6570156 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 27
6570075 AAATAATAAT
**
6570085 AAAATTTATTGTAAATACGATTGAAAA
1 AAAATTTATAATAAATACGATTGAAAA
* * *
6570112 AAAAATTATAATAATTATGATTGAAAA
1 AAAATTTATAATAAATACGATTGAAAA
*
6570139 ATAAATTTAATAAAAAAT
1 A-AAATTT-ATAATAAAT
6570157 TTATACTGAT
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
27 23 0.66
28 5 0.14
29 7 0.20
ACGTcount: A:0.58, C:0.01, G:0.07, T:0.33
Consensus pattern (27 bp):
AAAATTTATAATAAATACGATTGAAAA
Found at i:6574287 original size:14 final size:13
Alignment explanation
Indices: 6574261--6574300 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
6574251 TTCAATCAAT
6574261 ATTTTTATCAAAA
1 ATTTTTATCAAAA
6574274 ATTTTTATCTAAAA
1 ATTTTTATC-AAAA
* *
6574288 ATATATATCAAAA
1 ATTTTTATCAAAA
6574301 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 13 0.54
14 11 0.46
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.42
Consensus pattern (13 bp):
ATTTTTATCAAAA
Found at i:6577005 original size:7 final size:7
Alignment explanation
Indices: 6576993--6577024 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
6576983 TTAATAAATA
6576993 AAATTTT
1 AAATTTT
6577000 AAATTTT
1 AAATTTT
6577007 AAATTTT
1 AAATTTT
6577014 AAATTCTT
1 AAATT-TT
6577022 AAA
1 AAA
6577025 AATAAATATT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 19 0.79
8 5 0.21
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (7 bp):
AAATTTT
Found at i:6582934 original size:16 final size:17
Alignment explanation
Indices: 6582913--6582945 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
6582903 AAACGTTATC
6582913 AATATCC-TAAAATTTA
1 AATATCCATAAAATTTA
*
6582929 AATATCCATAAATTTTA
1 AATATCCATAAAATTTA
6582946 TTTTTTAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (17 bp):
AATATCCATAAAATTTA
Found at i:6583766 original size:12 final size:12
Alignment explanation
Indices: 6583746--6583777 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
6583736 TAATACAGAA
6583746 TTAAATTTGATT
1 TTAAATTTGATT
*
6583758 TTGAATTTGATT
1 TTAAATTTGATT
6583770 TTAAATTT
1 TTAAATTT
6583778 AAAATTTGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.09, T:0.59
Consensus pattern (12 bp):
TTAAATTTGATT
Found at i:6583953 original size:9 final size:9
Alignment explanation
Indices: 6583941--6583970 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
6583931 TATATTTTAT
6583941 TAATTAAAA
1 TAATTAAAA
6583950 TAATTAAAA
1 TAATTAAAA
6583959 TATATTAAAA
1 TA-ATTAAAA
6583969 TA
1 TA
6583971 TAAAAATTCG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (9 bp):
TAATTAAAA
Found at i:6583956 original size:26 final size:29
Alignment explanation
Indices: 6583894--6583961 Score: 69
Period size: 26 Copynumber: 2.6 Consensus size: 29
6583884 TTATATTTGA
6583894 TAAAA-AATTAAT-TATTTATATTTAAAT
1 TAAAATAATTAATATATTTATATTTAAAT
*
6583921 TTAAAT--TTAATATATTT-TA-TT-AAT
1 TAAAATAATTAATATATTTATATTTAAAT
*
6583945 TAAAATAATTAAAATAT
1 TAAAATAATTAATATAT
6583962 ATTAAAATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
24 8 0.24
25 2 0.06
26 15 0.44
27 9 0.26
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (29 bp):
TAAAATAATTAATATATTTATATTTAAAT
Found at i:6583967 original size:10 final size:10
Alignment explanation
Indices: 6583943--6583972 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
6583933 TATTTTATTA
6583943 ATTAAAATA-
1 ATTAAAATAT
6583952 ATTAAAATAT
1 ATTAAAATAT
6583962 ATTAAAATAT
1 ATTAAAATAT
6583972 A
1 A
6583973 AAAATTCGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
ATTAAAATAT
Found at i:6584496 original size:30 final size:29
Alignment explanation
Indices: 6584427--6584497 Score: 79
Period size: 30 Copynumber: 2.4 Consensus size: 29
6584417 CTTTATTATT
*
6584427 TATTTAGATAAAATTTTAAAATTTAATTTA
1 TATTTAAAT-AAATTTTAAAATTTAATTTA
** * *
6584457 TATCCAAATAAATTGTTAAATTTTAATTTG
1 TATTTAAATAAATT-TTAAAATTTAATTTA
6584487 TATTTAAATAA
1 TATTTAAATAA
6584498 GTAATAAAAT
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
29 5 0.15
30 28 0.85
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.48
Consensus pattern (29 bp):
TATTTAAATAAATTTTAAAATTTAATTTA
Found at i:6584573 original size:29 final size:29
Alignment explanation
Indices: 6584541--6584616 Score: 102
Period size: 29 Copynumber: 2.6 Consensus size: 29
6584531 AAGAGTTTAC
6584541 TTAAATATAAATAAAAAATAAAAAATGAT
1 TTAAATATAAATAAAAAATAAAAAATGAT
* *
6584570 TTAAATAT-AATAAAAATATAAAAATTTAT
1 TTAAATATAAATAAAAA-ATAAAAAATGAT
6584599 TTAAATA-AAATAATAAAA
1 TTAAATATAAATAA-AAAA
6584617 ATTTAAAGCT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
28 8 0.19
29 31 0.74
30 3 0.07
ACGTcount: A:0.67, C:0.00, G:0.01, T:0.32
Consensus pattern (29 bp):
TTAAATATAAATAAAAAATAAAAAATGAT
Found at i:6585748 original size:19 final size:19
Alignment explanation
Indices: 6585721--6585757 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
6585711 TAAATATTCA
*
6585721 ATAACTTTTAGTTTTTTTT
1 ATAACTTTTAATTTTTTTT
*
6585740 ATAATTTTTAATTTTTTT
1 ATAACTTTTAATTTTTTT
6585758 AATACTTCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.70
Consensus pattern (19 bp):
ATAACTTTTAATTTTTTTT
Found at i:6585814 original size:19 final size:19
Alignment explanation
Indices: 6585792--6585830 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
6585782 CAAAAAAAAG
* *
6585792 TTAAAAAATTTTATTTTTA
1 TTAAAAAATATTATATTTA
6585811 TTAAAAAATATTATATTTA
1 TTAAAAAATATTATATTTA
6585830 T
1 T
6585831 ATTTTTATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
TTAAAAAATATTATATTTA
Found at i:6602708 original size:163 final size:160
Alignment explanation
Indices: 6602215--6603145 Score: 493
Period size: 163 Copynumber: 5.7 Consensus size: 160
6602205 ATTGGACACA
* * * * * * *
6602215 TTTAATATAATGTAATAAGAGCTATCTAAACTATTAAAACTAAACAATAATTGTA-AATTTTGCA
1 TTTAATATAATGTATTGA-AGCTATCTAAAAT-TTAAAACAAAATAATAA-AG-ACAAATTTGCA
* * * * * *
6602279 TTTTTGCCTTTTAATATTACAA-AAAGT-TCAAAACAAACATAAATC-GTAACTTATTCATACAT
62 TTTTGGCCTTTTAATAGTAAAACAAAGTCT-AAAA-AGACATAAA-CGGTAACTTTTTCACACAT
** * * * *
6602341 ATCAAATCGTGAAAAATAAATTTC-ATTATTTTGACAAG
124 ATC-AATCGTG-AAAACCAAGTTCAATCATTTCGAAAAG
* * * * ** * * **
6602379 TTTAATATCATGTATTGAAGTTATCTAAACTATTAAAACATAAT-ATAACTATAAAATTATATTT
1 TTTAATATAATGTATTGAAGCTATCTAAAAT-TTAAAACAAAATAATAAAGACAAATTTGCATTT
** * * * * *
6602443 T-TACTCTTTAATGGCT-TAACAAAGTCTTAAAAAGATATAAACGATAA-TATTTTCATACATAT
65 TGGCCT-TTTAATAG-TAAAACAAAGTC-TAAAAAGACATAAACGGTAACT-TTTTCACACATAT
*
6602505 C-AGCAGTGAAAACCAAGTTCAATCA-TTCGAACAAG
126 CAATC-GTGAAAACCAAGTTCAATCATTTCGAA-AAG
*
6602540 TTTAATATTATGTATTGAAGCTATCTAAAATGTTAAAACAAAATAATAAAGACAAATTTGCATTT
1 TTTAATATAATGTATTGAAGCTATCTAAAAT-TTAAAACAAAATAATAAAGACAAATTTGCATTT
* * * * *
6602605 TGGCCTTTTAATGGTAAAAGAAAATGCTAAAACAAACATAAACGGTAACTTTTTCACATATATCA
65 TGGCCTTTTAATAGTAAAACAAAGT-CTAAAA-AGACATAAACGGTAACTTTTTCACACATATCA
* * *
6602670 ATCGTGAAAATCAAGTTCAATAATTTGGAAAAG
128 ATCGTGAAAACCAAGTTCAATCATTTCGAAAAG
* * * * * * *
6602703 TTTAATATAATATATCT-AAGCTATCCAAACTGTTAAAACGTAAA-AATAATTG-CAAA-ATGAT
1 TTTAATATAATGTAT-TGAAGCTATCTAAAAT-TTAAAAC-AAAATAATAA-AGACAAATTTG-C
** * * * * * * *
6602764 ATTTTTACCCTTTAACAGCATAACAAAGTCCTAAAAAGACATAAACAGTAACTTTTTCGCACTTA
61 ATTTTGGCCTTTTAATAGTAAAACAAAGT-CTAAAAAGACATAAACGGTAACTTTTTCACACATA
* * * * *
6602829 TCAATCATGGAAACCAAGTTCAATTA-TCCAGACAAG
125 TCAATCGTGAAAACCAAGTTCAATCATTTC-GAAAAG
* * * * * *
6602865 TTTAATATTATGTATTAAAACTATCTAAACTATTTAAAACAAAATACTAAATACAAATTTACATT
1 TTTAATATAATGTATTGAAGCTATCTAAA--ATTTAAAACAAAATAATAAAGACAAATTTGCATT
* * * * * * * * * * *
6602930 TTGACTTTTTAACAGCACAAAAAAAATCT---TAGACATAAACGATAATTTTTTTACACATATTA
64 TTGGCCTTTTAATAGTA-AAACAAAGTCTAAAAAGACATAAACGGTAACTTTTTCACACATATCA
* * * * * *
6602992 ACCGTGCAAACTAAGTTGAATCA-TTCAAACAAA
128 ATCGTGAAAACCAAGTTCAATCATTTCGAA-AAG
* *
6603025 TTTAATATCATTTATTGAAGCTATCTAAACTATTTAAAACAAAATAATAAA-AGCAAATTTGCAT
1 TTTAATATAATGTATTGAAGCTATCTAAA--ATTTAAAACAAAATAATAAAGA-CAAATTTGCAT
* * * * * * ** *
6603089 TTTGGCATTTTAACAGCACAA-AAAGTGTTAAATAGACATAAACAATAACTTTGTCAC
63 TTTGGCCTTTTAATAGTAAAACAAAGT-CTAAAAAGACATAAACGGTAACTTTTTCAC
6603146 GCATCAATTA
Statistics
Matches: 595, Mismatches: 135, Indels: 76
0.74 0.17 0.09
Matches are distributed among these distances:
158 4 0.01
159 5 0.01
160 136 0.23
161 70 0.12
162 167 0.28
163 176 0.30
164 37 0.06
ACGTcount: A:0.44, C:0.14, G:0.09, T:0.33
Consensus pattern (160 bp):
TTTAATATAATGTATTGAAGCTATCTAAAATTTAAAACAAAATAATAAAGACAAATTTGCATTTT
GGCCTTTTAATAGTAAAACAAAGTCTAAAAAGACATAAACGGTAACTTTTTCACACATATCAATC
GTGAAAACCAAGTTCAATCATTTCGAAAAG
Found at i:6602845 original size:325 final size:322
Alignment explanation
Indices: 6602215--6602941 Score: 770
Period size: 325 Copynumber: 2.2 Consensus size: 322
6602205 ATTGGACACA
* * * * * * *
6602215 TTTAATATAATGTAATAAGAGCTATCTAAACTATTAAAACTAAACAATAATTGTA-AATTTTGCA
1 TTTAATATTATGTATTAA-AGCTATCTAAAAT-TTAAAACAAAATAATAA-AG-ACAAATTTGCA
* * * * * *
6602279 TTTTTGCCTTTTAATATTACAAAAAGTTCAAAACAAACATAAATCGTAACTTATTCATACATATC
62 TTTTGGCCTTTTAATAGTAAAAAAAATGCAAAACAAACATAAATCGTAACTTATTCACACATATC
* * * * * * * *
6602344 AAATCGTGAAAAATAAATTTCATTATTTTGACAAGTTTAATATCATGTATTGAAGTTATCTAAAC
127 AAATCGTGAAAAATAAAGTTCATAATTTGGAAAAGTTTAATATAATATATTGAAGCTATCCAAAC
* * * * ** * *
6602409 TATTAAAACATAATATAACTATAAAATTATATTTTTACTCTTTAATGGCTTAACAAAGTCTTAAA
192 TATTAAAACATAAAATAACTACAAAATGATATTTTTACCCTTTAACAGCATAACAAAGTCCTAAA
* * *
6602474 AAGATATAAACGATAATATTTTCATACATATCAGCAGTGAAAACCAAGTTCAATCATTC-GAACA
257 AAGACATAAACGATAATATTTTCACACATATCAGCAGTGAAAACCAAGTTCAATCATCCAG-ACA
6602538 AG
321 AG
*
6602540 TTTAATATTATGTATTGAAGCTATCTAAAATGTTAAAACAAAATAATAAAGACAAATTTGCATTT
1 TTTAATATTATGTATTAAAGCTATCTAAAAT-TTAAAACAAAATAATAAAGACAAATTTGCATTT
* * *
6602605 TGGCCTTTTAATGGTAAAAGAAAATGCTAAAACAAACATAAA-CGGTAACTTTTTCACATATATC
65 TGGCCTTTTAATAGTAAAA-AAAATGC-AAAACAAACATAAATC-GTAACTTATTCACACATATC
*
6602669 -AATCGTG-AAAATCAAGTTCAATAATTTGGAAAAGTTTAATATAATATATCT-AAGCTATCCAA
127 AAATCGTGAAAAATAAAGTTC-ATAATTTGGAAAAGTTTAATATAATATAT-TGAAGCTATCCAA
* * * *
6602731 ACTGTTAAAACGTAAAAATAATTGCAAAATGATATTTTTACCCTTTAACAGCATAACAAAGTCCT
190 ACTATTAAAACAT-AAAATAACTACAAAATGATATTTTTACCCTTTAACAGCATAACAAAGTCCT
* * * * *
6602796 AAAAAGACATAAAC-AGTAACT-TTTTCGCACTTATCAATCA-TGGAAACCAAGTTCAATTATCC
254 AAAAAGACATAAACGA-TAA-TATTTTCACACATATC-AGCAGTGAAAACCAAGTTCAATCATCC
6602858 AGACAAG
316 AGACAAG
* * * *
6602865 TTTAATATTATGTATTAAAACTATCTAAACTATTTAAAACAAAATACTAAATACAAATTTACATT
1 TTTAATATTATGTATTAAAGCTATCTAAA--ATTTAAAACAAAATAATAAAGACAAATTTGCATT
* *
6602930 TTGACTTTTTAA
64 TTGGCCTTTTAA
6602942 CAGCACAAAA
Statistics
Matches: 335, Mismatches: 54, Indels: 25
0.81 0.13 0.06
Matches are distributed among these distances:
322 1 0.00
323 37 0.11
324 85 0.25
325 166 0.50
326 44 0.13
327 2 0.01
ACGTcount: A:0.44, C:0.13, G:0.09, T:0.34
Consensus pattern (322 bp):
TTTAATATTATGTATTAAAGCTATCTAAAATTTAAAACAAAATAATAAAGACAAATTTGCATTTT
GGCCTTTTAATAGTAAAAAAAATGCAAAACAAACATAAATCGTAACTTATTCACACATATCAAAT
CGTGAAAAATAAAGTTCATAATTTGGAAAAGTTTAATATAATATATTGAAGCTATCCAAACTATT
AAAACATAAAATAACTACAAAATGATATTTTTACCCTTTAACAGCATAACAAAGTCCTAAAAAGA
CATAAACGATAATATTTTCACACATATCAGCAGTGAAAACCAAGTTCAATCATCCAGACAAG
Found at i:6606299 original size:231 final size:231
Alignment explanation
Indices: 6605882--6606335 Score: 874
Period size: 231 Copynumber: 2.0 Consensus size: 231
6605872 AAACTTCTGT
6605882 TTCCCAAATTATATGATCTTAATGCGTATTTTGATTATCATTATGGAAACCCGAGCCATTTTATA
1 TTCCCAAATTATATGATCTTAATGCGTATTTTGATTATCATTATGGAAACCCGAGCCATTTTATA
6605947 AAAAACTACACTACTTTAAAGCGTAAAATGCAAGGTTTAATCAATAAAAAGGTGTTAAACTTTGA
66 AAAAACTACACTACTTTAAAGCGTAAAATGCAAGGTTTAATCAATAAAAAGGTGTTAAACTTTGA
*
6606012 TACCAGCCAATGAGAGAATTCAAATGTTAATGAAAACCCTCTAACCAAATCATACTAGATCATTA
131 TACCAGCCAATGAGAGAATTCAAATGTTAATGAAAACCCTCTAACCAAACCATACTAGATCATTA
6606077 ATAAATGCTTTAATTAATGGGCAAGCAAATTATATG
196 ATAAATGCTTTAATTAATGGGCAAGCAAATTATATG
6606113 TTCCCAAATTATATGATCTTAATGCGTATTTTGATTATCATTATGGAAACCCGAGCCATTTTAAT
1 TTCCCAAATTATATGATCTTAATGCGTATTTTGATTATCATTATGGAAACCCGAGCCATTTT-AT
6606178 AAAAAACTACACTACTTTAAAGCGTAAAATGCAAGGTTTAATCAATAAAAAGGTGTTAAACTTTG
65 AAAAAACTACACTACTTTAAAGCGTAAAATGCAAGGTTTAATCAATAAAAAGGTGTTAAACTTTG
*
6606243 ATACCAGCCAATGAGAGAATTCAAATGTTAATGAAAACCCTCT-ATCAAACCATACTAGATCATT
130 ATACCAGCCAATGAGAGAATTCAAATGTTAATGAAAACCCTCTAACCAAACCATACTAGATCATT
6606307 AATAAATGCTTTAATTAATGGGCAAGCAA
195 AATAAATGCTTTAATTAATGGGCAAGCAA
6606336 GCTACGTGAA
Statistics
Matches: 220, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
231 110 0.50
232 110 0.50
ACGTcount: A:0.40, C:0.16, G:0.13, T:0.31
Consensus pattern (231 bp):
TTCCCAAATTATATGATCTTAATGCGTATTTTGATTATCATTATGGAAACCCGAGCCATTTTATA
AAAAACTACACTACTTTAAAGCGTAAAATGCAAGGTTTAATCAATAAAAAGGTGTTAAACTTTGA
TACCAGCCAATGAGAGAATTCAAATGTTAATGAAAACCCTCTAACCAAACCATACTAGATCATTA
ATAAATGCTTTAATTAATGGGCAAGCAAATTATATG
Found at i:6615181 original size:53 final size:53
Alignment explanation
Indices: 6615108--6615574 Score: 351
Period size: 52 Copynumber: 8.6 Consensus size: 53
6615098 AAAAGATAAA
* * * * * *
6615108 AAAAATTTTT-AAGTTGTTGAGCTTTTACTTAG-ATGAGTCTTTTTTAAGATG
1 AAAATTTTTTAAAGTTATTGAGCTTCTACCTAGAATGAGCCTTTTTCAAGATG
* ** *
6615159 AAGAATTTTTTAAAGTTATTGAGCCTCTACCTAGAGAGAAATGAGTATTTTTCAAGAAG
1 AA-AATTTTTTAAAGTTATTGAGCTTCTACCT----AG-AATGAGCCTTTTTCAAGATG
* * *
6615218 AAATTTTTTTAAAGTTATTGAGCGTCTACCTAGAAT-AGCCTTTTTCAATATG
1 AAAATTTTTTAAAGTTATTGAGCTTCTACCTAGAATGAGCCTTTTTCAAGATG
* * *
6615270 AAAATTTTTTAAAGTTTTTGAGCTTCTACCTAG-ATAAACCTTTTTCAAGATG
1 AAAATTTTTTAAAGTTATTGAGCTTCTACCTAGAATGAGCCTTTTTCAAGATG
* * * * *
6615322 AAAAATTTTTTAAAATTGTTGAGCCTCTGCCTAGAGACAGATGAGCCTTTTTCAAAATG
1 -AAAATTTTTTAAAGTTATTGAGCTTCTACCT--AG--A-ATGAGCCTTTTTCAAGATG
* * *
6615381 -AGATTTGTTTAAAGTTATTGTTGAGCCTCTACCTAG-ATAAGCCTTTTTCAAGAT-
1 AAAATTT-TTTAAAGTTA---TTGAGCTTCTACCTAGAATGAGCCTTTTTCAAGATG
* * * * * *
6615435 AAAATTTGTTTAAAGTTATTAAGCCTCTACCCAG-ATGAGCTTTTTTCAAGCTA
1 AAAATTT-TTTAAAGTTATTGAGCTTCTACCTAGAATGAGCCTTTTTCAAGATG
* *** * * *
6615488 AAAAATTTTTAAAGTCGCTAAGTCTT-TACCTA-AATGAGCATTTTTCAAGATA
1 AAAATTTTTTAAAGTTATTGAG-CTTCTACCTAGAATGAGCCTTTTTCAAGATG
*
6615540 AAAATTTTGTTAAAGTTGTTGAGCTTCTACCTAGA
1 AAAATTTT-TTAAAGTTATTGAGCTTCTACCTAGA
6615575 GCAGGTTTTT
Statistics
Matches: 339, Mismatches: 50, Indels: 51
0.77 0.11 0.12
Matches are distributed among these distances:
51 4 0.01
52 136 0.40
53 71 0.21
54 3 0.01
55 34 0.10
57 7 0.02
58 35 0.10
59 36 0.11
61 13 0.04
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.39
Consensus pattern (53 bp):
AAAATTTTTTAAAGTTATTGAGCTTCTACCTAGAATGAGCCTTTTTCAAGATG
Found at i:6615322 original size:163 final size:163
Alignment explanation
Indices: 6615108--6615502 Score: 458
Period size: 163 Copynumber: 2.4 Consensus size: 163
6615098 AAAAGATAAA
* * * * * * *
6615108 AAAAATTTTT-AAGTTGTTGAGCTTTTACTTAGATGAGTCTTTTTTAAGATGAAGAATTTTTTAA
1 AAAATTTTTTAAAGTTATTGAGCTTCTACCTAGATGAGCCTTTTTCAAGATGAAAAATTTTTTAA
* * *
6615172 AGTTATTGAGCCTCTACCTAGAGAGAAATGAGTATTTTTCAAGAA-GAAATTTTTTTAAAGTTA-
66 AGTTATTGAGCCTCTACCTAGAGACAAATGAGCATTTTTCAA-AATGAAATTTGTTTAAAGTTAT
* *
6615235 TTGAGCGTCTACCTAGA-ATAGCCTTTTTCAATAT
130 TTGAGCCTCTACCTAGATA-AGCCTTTTTCAAGAT
* * *
6615269 GAAAATTTTTTAAAGTTTTTGAGCTTCTACCTAGATAAACCTTTTTCAAGATGAAAAATTTTTTA
1 -AAAATTTTTTAAAGTTATTGAGCTTCTACCTAGATGAGCCTTTTTCAAGATGAAAAATTTTTTA
* * * * * *
6615334 AAATTGTTGAGCCTCTGCCTAGAGACAGATGAGCCTTTTTCAAAATGAGATTTGTTTAAAGTTAT
65 AAGTTATTGAGCCTCTACCTAGAGACAAATGAGCATTTTTCAAAATGAAATTTGTTTAAAGTTA-
6615399 TGTTGAGCCTCTACCTAGATAAGCCTTTTTCAAGAT
129 T-TTGAGCCTCTACCTAGATAAGCCTTTTTCAAGAT
* * * * * *
6615435 AAAATTTGTTTAAAGTTATTAAGCCTCTACCCAGATGAGCTTTTTTCAAGCT-AAAAAATTTTTA
1 AAAATTT-TTTAAAGTTATTGAGCTTCTACCTAGATGAGCCTTTTTCAAGATGAAAAATTTTTTA
6615499 AAGT
65 AAGT
6615503 CGCTAAGTCT
Statistics
Matches: 196, Mismatches: 30, Indels: 11
0.83 0.13 0.05
Matches are distributed among these distances:
162 11 0.06
163 97 0.49
165 21 0.11
166 66 0.34
167 1 0.01
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.39
Consensus pattern (163 bp):
AAAATTTTTTAAAGTTATTGAGCTTCTACCTAGATGAGCCTTTTTCAAGATGAAAAATTTTTTAA
AGTTATTGAGCCTCTACCTAGAGACAAATGAGCATTTTTCAAAATGAAATTTGTTTAAAGTTATT
TGAGCCTCTACCTAGATAAGCCTTTTTCAAGAT
Found at i:6615497 original size:166 final size:163
Alignment explanation
Indices: 6615138--6615497 Score: 440
Period size: 166 Copynumber: 2.2 Consensus size: 163
6615128 GCTTTTACTT
* * *
6615138 AGATGAGTCTTTTTT-AAGATGAAGAATTTTTTAAAGTTATTGAGCCTCTACCTAGAGAGAAATG
1 AGATGAG-CTTTTTTCAAGATGAAAAATTTTTTAAAATTATTGAGCCTCTACCTAGAGACAAATG
* * * *
6615202 AGTATTTTTCAAGAAGAAATTTTTTTAAAGTTATTGAGCGTCTACCTAGAATAGCCTTTTTCAAT
65 AGCATTTTTCAAGAAGAAATTTGTTTAAAGTTATTGAGCCTCTACCTAGAATAGCCTTTTTCAAG
* * * *
6615267 ATGAAAATTTTTTAAAGTTTTTGAGCTTCTACCT
130 ATGAAAATTTTTTAAAGTTATTAAGCCTCTACCC
* * * * * *
6615301 AGATAAACCTTTTTCAAGATGAAAAATTTTTTAAAATTGTTGAGCCTCTGCCTAGAGACAGATGA
1 AGATGAGCTTTTTTCAAGATGAAAAATTTTTTAAAATTATTGAGCCTCTACCTAGAGACAAATGA
* *
6615366 GCCTTTTTCAA-AATGAGATTTGTTTAAAGTTATTGTTGAGCCTCTACCTAG-ATAAGCCTTTTT
66 GCATTTTTCAAGAA-GAAATTTGTTTAAAGTTA---TTGAGCCTCTACCTAGAAT-AGCCTTTTT
6615429 CAAGAT-AAAATTTGTTTAAAGTTATTAAGCCTCTACCC
126 CAAGATGAAAATTT-TTTAAAGTTATTAAGCCTCTACCC
* *
6615467 AGATGAGCTTTTTTCAAGCTAAAAAATTTTT
1 AGATGAGCTTTTTTCAAGATGAAAAATTTTT
6615498 AAAGTCGCTA
Statistics
Matches: 166, Mismatches: 24, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
162 8 0.05
163 74 0.45
165 9 0.05
166 75 0.45
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.39
Consensus pattern (163 bp):
AGATGAGCTTTTTTCAAGATGAAAAATTTTTTAAAATTATTGAGCCTCTACCTAGAGACAAATGA
GCATTTTTCAAGAAGAAATTTGTTTAAAGTTATTGAGCCTCTACCTAGAATAGCCTTTTTCAAGA
TGAAAATTTTTTAAAGTTATTAAGCCTCTACCC
Found at i:6615584 original size:52 final size:51
Alignment explanation
Indices: 6615398--6615619 Score: 152
Period size: 52 Copynumber: 4.3 Consensus size: 51
6615388 TTTAAAGTTA
* **
6615398 TTGTTGAGCCTCTACCTAGATAAGCCTTTTTCAAGAT-AAAATTTGTTTAAAG
1 TTGTTAAGCCTCTACCTAGAGCAG-CTTTTTCAAGATAAAAATTTG-TTAAAG
* * *
6615450 TTATTAAGCCTCTACCCAGATG-AGCTTTTTTCAAGCTAAAAAATTT-TTAAAG
1 TTGTTAAGCCTCTACCTAGA-GCAGC-TTTTTCAAGAT-AAAAATTTGTTAAAG
* * * * *
6615502 TCGCTAAGTCTTTACCTAAATG-AGCATTTTTCAAGATAAAAATTTTGTTAAAG
1 TTGTTAAGCCTCTACCTAGA-GCAGC-TTTTTCAAGATAAAAA-TTTGTTAAAG
* * * * *
6615555 TTGTTGAGCTTCTACCTAGAGCAGGTTTTTTTC-ATATAAGAA-TT-TTAAAG
1 TTGTTAAGCCTCTACCTAGAGCA-G-CTTTTTCAAGATAAAAATTTGTTAAAG
*
6615605 TTGTTGAGCCTCTAC
1 TTGTTAAGCCTCTAC
6615620 TTAAATTAGC
Statistics
Matches: 136, Mismatches: 25, Indels: 20
0.75 0.14 0.11
Matches are distributed among these distances:
50 20 0.15
51 8 0.06
52 67 0.49
53 27 0.20
54 14 0.10
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.39
Consensus pattern (51 bp):
TTGTTAAGCCTCTACCTAGAGCAGCTTTTTCAAGATAAAAATTTGTTAAAG
Found at i:6616004 original size:3 final size:3
Alignment explanation
Indices: 6615974--6616039 Score: 55
Period size: 3 Copynumber: 21.7 Consensus size: 3
6615964 ATAAGAATAC
* * *
6615974 AAT AACT AAT AATT AAT TA- AAT ATT AAT AAT AAT -AT ACAA AAT AAT
1 AAT AA-T AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT
*
6616020 AAT AAT AAT AAT AAA AAT AA
1 AAT AAT AAT AAT AAT AAT AA
6616040 AAAATGAAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 10
0.74 0.12 0.15
Matches are distributed among these distances:
2 3 0.06
3 39 0.78
4 8 0.16
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:6616006 original size:21 final size:21
Alignment explanation
Indices: 6615992--6616039 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
6615982 ATAATTAATT
*
6615992 AAATATTAATAATAATATACA
1 AAATAATAATAATAATATACA
6616013 AAATAATAATAATAATAATA-A
1 AAATAATAATAATAAT-ATACA
6616034 AAATAA
1 AAATAA
6616040 AAAATGAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 22 0.88
22 3 0.12
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (21 bp):
AAATAATAATAATAATATACA
Found at i:6616007 original size:24 final size:23
Alignment explanation
Indices: 6615993--6616039 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 23
6615983 TAATTAATTA
*
6615993 AATATTAATAATAATATACAAAAT
1 AATAATAATAATAAT-TACAAAAT
6616017 AATAATAATAATAA-TA-AAAAT
1 AATAATAATAATAATTACAAAAT
6616038 AA
1 AA
6616040 AAAATGAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 7 0.32
22 2 0.09
24 13 0.59
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (23 bp):
AATAATAATAATAATTACAAAAT
Found at i:6616914 original size:17 final size:15
Alignment explanation
Indices: 6616879--6616926 Score: 53
Period size: 17 Copynumber: 3.1 Consensus size: 15
6616869 AGTATCATCA
6616879 AAAAAT-AAAAAAAT
1 AAAAATAAAAAAAAT
*
6616893 CAAAATCAACAAAAAAT
1 AAAAAT-AA-AAAAAAT
6616910 AAAAAATAAAAAAAAT
1 -AAAAATAAAAAAAAT
6616926 A
1 A
6616927 TAAGCTATGA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
14 5 0.18
15 1 0.04
16 8 0.29
17 9 0.32
18 5 0.18
ACGTcount: A:0.81, C:0.06, G:0.00, T:0.12
Consensus pattern (15 bp):
AAAAATAAAAAAAAT
Found at i:6616922 original size:25 final size:25
Alignment explanation
Indices: 6616872--6616921 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
6616862 AGAAGTTAGT
* *
6616872 ATCATCAAAAAATAAAAAAATCAAA
1 ATCAACAAAAAATAAAAAAATAAAA
6616897 ATCAACAAAAAAT-AAAAAATAAAA
1 ATCAACAAAAAATAAAAAAATAAAA
6616921 A
1 A
6616922 AAATATAAGC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 11 0.48
25 12 0.52
ACGTcount: A:0.76, C:0.10, G:0.00, T:0.14
Consensus pattern (25 bp):
ATCAACAAAAAATAAAAAAATAAAA
Found at i:6617247 original size:13 final size:12
Alignment explanation
Indices: 6617221--6617267 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
6617211 CCTGTTTAGG
*
6617221 TTTTTT-TTAAT
1 TTTTTTATTTAT
*
6617232 TTTTTAATTTAT
1 TTTTTTATTTAT
6617244 TTTTTTATATTAT
1 TTTTTTAT-TTAT
6617257 TTTTGTTATTT
1 TTTT-TTATTT
6617268 TAAATTTTGT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 5 0.17
12 11 0.37
13 10 0.33
14 4 0.13
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (12 bp):
TTTTTTATTTAT
Found at i:6617502 original size:3 final size:3
Alignment explanation
Indices: 6617433--6617478 Score: 67
Period size: 3 Copynumber: 15.7 Consensus size: 3
6617423 GATAAATCTT
* *
6617433 ATA A-A ATA ATA ATA AAA ATA ATA ATA ATA ACA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
6617479 TAATGATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:6617582 original size:9 final size:9
Alignment explanation
Indices: 6617574--6617619 Score: 65
Period size: 9 Copynumber: 5.1 Consensus size: 9
6617564 AAAATTAAAT
*
6617574 TAATAAAAT
1 TAATAAAAA
6617583 TAATAAAAA
1 TAATAAAAA
*
6617592 TAGTAAAAA
1 TAATAAAAA
6617601 TAATAAAAA
1 TAATAAAAA
*
6617610 TAACAAAAA
1 TAATAAAAA
6617619 T
1 T
6617620 TAGTAAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.24
Consensus pattern (9 bp):
TAATAAAAA
Found at i:6617604 original size:18 final size:18
Alignment explanation
Indices: 6617577--6617633 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
6617567 ATTAAATTAA
*
6617577 TAAAATTAATAAAAATAG
1 TAAAAATAATAAAAATAG
*
6617595 TAAAAATAATAAAAATAA
1 TAAAAATAATAAAAATAG
* *
6617613 CAAAAATTAGTAAAAA-AG
1 TAAAAA-TAATAAAAATAG
6617631 TAA
1 TAA
6617634 GAAAAGGAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
18 24 0.75
19 8 0.25
ACGTcount: A:0.70, C:0.02, G:0.05, T:0.23
Consensus pattern (18 bp):
TAAAAATAATAAAAATAG
Found at i:6617627 original size:9 final size:9
Alignment explanation
Indices: 6617570--6617627 Score: 53
Period size: 9 Copynumber: 6.3 Consensus size: 9
6617560 ACCAAAAATT
6617570 AAATTAATA
1 AAATTAATA
6617579 AAATTAATA
1 AAATTAATA
* *
6617588 AAAATAGTA
1 AAATTAATA
*
6617597 AAAATAATA
1 AAATTAATA
* *
6617606 AAAATAACAA
1 AAATTAA-TA
*
6617616 AAATTAGTA
1 AAATTAATA
6617625 AAA
1 AAA
6617628 AAGTAAGAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
9 35 0.85
10 6 0.15
ACGTcount: A:0.71, C:0.02, G:0.03, T:0.24
Consensus pattern (9 bp):
AAATTAATA
Found at i:6618806 original size:17 final size:17
Alignment explanation
Indices: 6618784--6618821 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 17
6618774 ATTATTTATA
6618784 ATTTAAA-TTTGATCAAT
1 ATTTAAATTTTG-TCAAT
6618801 ATTTAAATTTTGTCAAT
1 ATTTAAATTTTGTCAAT
6618818 ATTT
1 ATTT
6618822 TTATTAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.53
Consensus pattern (17 bp):
ATTTAAATTTTGTCAAT
Found at i:6618916 original size:36 final size:34
Alignment explanation
Indices: 6618876--6618943 Score: 84
Period size: 34 Copynumber: 1.9 Consensus size: 34
6618866 TTTTACATAC
6618876 TTAATTTATATAATAAAATT-TTTTTATTTATAAATT
1 TTAATTT-T-TAAT-AAATTATTTTTATTTATAAATT
* *
6618912 TTAATTTTTAATTAATTATTTTTATTTTTAAA
1 TTAATTTTTAATAAATTATTTTTATTTATAAA
6618944 AAAAAAACCT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
33 4 0.14
34 17 0.59
35 1 0.03
36 7 0.24
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (34 bp):
TTAATTTTTAATAAATTATTTTTATTTATAAATT
Found at i:6622790 original size:25 final size:26
Alignment explanation
Indices: 6622735--6622792 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 26
6622725 TGTAGTTTTT
6622735 TTTTTTTCTTAAAAAAAAAGTCATAG
1 TTTTTTTCTTAAAAAAAAAGTCATAG
* * * **
6622761 GTTTTTT-TTATAAATAAAGTTGTAG
1 TTTTTTTCTTAAAAAAAAAGTCATAG
6622786 TTTTTTT
1 TTTTTTT
6622793 AATTAAAAGT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
25 20 0.77
26 6 0.23
ACGTcount: A:0.33, C:0.03, G:0.10, T:0.53
Consensus pattern (26 bp):
TTTTTTTCTTAAAAAAAAAGTCATAG
Found at i:6624661 original size:19 final size:19
Alignment explanation
Indices: 6624637--6624676 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
6624627 AAATAAATTT
6624637 TTTATAATA-ATATTTATAA
1 TTTATAATATATA-TTATAA
*
6624656 TTTATAATTTATATTATAA
1 TTTATAATATATATTATAA
6624675 TT
1 TT
6624677 AATTTAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 16 0.84
20 3 0.16
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TTTATAATATATATTATAA
Found at i:6625116 original size:29 final size:30
Alignment explanation
Indices: 6625069--6625126 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
6625059 TCTAATCAAA
* *
6625069 GTTTAATTGAGATAAAAATATATAGTTAAG
1 GTTTAATTGAAATAAAAATACATAGTTAAG
*
6625099 GTTTAATT-AAATAAAAATACATATTTAA
1 GTTTAATTGAAATAAAAATACATAGTTAA
6625127 AAATTTAATC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 17 0.68
30 8 0.32
ACGTcount: A:0.50, C:0.02, G:0.10, T:0.38
Consensus pattern (30 bp):
GTTTAATTGAAATAAAAATACATAGTTAAG
Found at i:6625134 original size:30 final size:29
Alignment explanation
Indices: 6625100--6625167 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
6625090 ATAGTTAAGG
* *
6625100 TTTAATTAAATAAAAATACATATTTAAAAA
1 TTTAATCAAATAAAAATA-AAATTTAAAAA
* * *
6625130 TTTAATCAATTCAAAATAAAATTTTAAAA
1 TTTAATCAAATAAAAATAAAATTTAAAAA
6625159 TTTAATCAA
1 TTTAATCAA
6625168 TTATAATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
29 18 0.55
30 15 0.45
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (29 bp):
TTTAATCAAATAAAAATAAAATTTAAAAA
Found at i:6625163 original size:29 final size:28
Alignment explanation
Indices: 6625112--6625187 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 28
6625102 TAATTAAATA
*
6625112 AAAATACATATTTAAAAATTTAATCAATT
1 AAAATA-AAATTTAAAAATTTAATCAATT
*
6625141 CAAAATAAAATTTTAAAATTTAATCAATT
1 -AAAATAAAATTTAAAAATTTAATCAATT
* *
6625170 ATAATAAAAATATAAAAA
1 AAAAT-AAAATTTAAAAA
6625188 ATATCGTATA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
28 4 0.10
29 30 0.75
30 6 0.15
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (28 bp):
AAAATAAAATTTAAAAATTTAATCAATT
Found at i:6637719 original size:16 final size:17
Alignment explanation
Indices: 6637700--6637732 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
6637690 TGTTTTTGAA
*
6637700 ATTTTTGTTT-TATTTT
1 ATTTTCGTTTGTATTTT
6637716 ATTTTCGTTTGTATTTT
1 ATTTTCGTTTGTATTTT
6637733 TAATTTATTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.12, C:0.03, G:0.09, T:0.76
Consensus pattern (17 bp):
ATTTTCGTTTGTATTTT
Found at i:6637897 original size:18 final size:17
Alignment explanation
Indices: 6637846--6638251 Score: 140
Period size: 18 Copynumber: 24.6 Consensus size: 17
6637836 TTGTTATTAA
*
6637846 TAATATAATAATATTTAC
1 TAATATAAT-ATATTTAT
*
6637864 TAATAT-AT-TATGTAT
1 TAATATAATATATTTAT
6637879 TAATATAATATCATTTAT
1 TAATATAATAT-ATTTAT
* *
6637897 TTAT-TAATATATTCTTTT
1 TAATATAATATA-T-TTAT
*
6637915 TAATATATTATAATGTTA-
1 TAATATAATAT-AT-TTAT
* *
6637933 TAAT-TATTATATTAAT
1 TAATATAATATATTTAT
* *
6637949 AAATA-ATATATTATTTCT
1 TAATATA-ATA-TATTTAT
* *
6637967 TAATGTAATATTATTAAT
1 TAATATAATA-TATTTAT
* * *
6637985 AGAATATTATTTATTTATT
1 -TAATATAATATATTTA-T
*
6638004 TAATATAATATA-TTAA
1 TAATATAATATATTTAT
6638020 TAA-ATAATATATTATAT
1 TAATATAATATATT-TAT
6638037 T-A-ATAATATCA--TAT
1 TAATATAATAT-ATTTAT
*
6638051 TAATATCATATATTATAT
1 TAATATAATATATT-TAT
6638069 T-A-ATAATATA---A-
1 TAATATAATATATTTAT
* * *
6638080 -AACAT-GTTTATTTAT
1 TAATATAATATATTTAT
*
6638095 TAATATAATATTATTTAGA
1 TAATATAATA-TATTTA-T
* *
6638114 CAATA-AATATAATAATATT
1 TAATATAATAT-AT-TTA-T
*
6638133 TAATA-AACCATATTTAT
1 TAATATAA-TATATTTAT
6638150 TAATAT-AT-TA--TAT
1 TAATATAATATATTTAT
*
6638163 T-AT-TAACATA-TTAT
1 TAATATAATATATTTAT
6638177 TAATATAATATTATTTAT
1 TAATATAATA-TATTTAT
6638195 TAATAT-AT-TATTTAT
1 TAATATAATATATTTAT
*
6638210 TAATATAATATA-TAAT
1 TAATATAATATATTTAT
* * *
6638226 AAAAATATTAT-TTTAT
1 TAATATAATATATTTAT
6638242 TAATATAATA
1 TAATATAATA
6638252 ATTGTAGCGT
Statistics
Matches: 288, Mismatches: 54, Indels: 94
0.66 0.12 0.22
Matches are distributed among these distances:
11 5 0.02
12 6 0.02
13 6 0.02
14 9 0.03
15 40 0.14
16 65 0.23
17 41 0.14
18 83 0.29
19 30 0.10
20 3 0.01
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.50
Consensus pattern (17 bp):
TAATATAATATATTTAT
Found at i:6637901 original size:22 final size:20
Alignment explanation
Indices: 6637864--6637907 Score: 61
Period size: 22 Copynumber: 2.1 Consensus size: 20
6637854 TAATATTTAC
6637864 TAATATATTATGTATTAATA
1 TAATATATTATGTATTAATA
*
6637884 TAATATCATTTATTTATTAATA
1 TAATAT-A-TTATGTATTAATA
6637906 TA
1 TA
6637908 TTCTTTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 6 0.29
21 1 0.05
22 14 0.67
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (20 bp):
TAATATATTATGTATTAATA
Found at i:6637960 original size:20 final size:20
Alignment explanation
Indices: 6637932--6638042 Score: 73
Period size: 20 Copynumber: 6.0 Consensus size: 20
6637922 TTATAATGTT
6637932 ATAAT-TATTATATTAATAA
1 ATAATATATTATATTAATAA
*
6637951 ATAATATATTAT-TT-CT--
1 ATAATATATTATATTAATAA
* *
6637967 -TAATGTAATATTATTAATAGA
1 ATAATATATTA-TATTAATA-A
*
6637988 AT-AT-TATT-TATT--TAT
1 ATAATATATTATATTAATAA
* *
6638003 TTAATATAATATATTAATAA
1 ATAATATATTATATTAATAA
6638023 ATAATATATTATATTAATAA
1 ATAATATATTATATTAATAA
6638043 TATCATATTA
Statistics
Matches: 68, Mismatches: 11, Indels: 25
0.65 0.11 0.24
Matches are distributed among these distances:
15 9 0.13
16 5 0.07
17 5 0.07
18 10 0.15
19 7 0.10
20 29 0.43
21 2 0.03
22 1 0.01
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.50
Consensus pattern (20 bp):
ATAATATATTATATTAATAA
Found at i:6638022 original size:11 final size:11
Alignment explanation
Indices: 6638008--6638078 Score: 53
Period size: 11 Copynumber: 6.7 Consensus size: 11
6637998 TTTATTTAAT
6638008 ATAATATATTA
1 ATAATATATTA
*
6638019 ATAA-ATAAT-
1 ATAATATATTA
*
6638028 ATATTATATTA
1 ATAATATATTA
6638039 ATAATATCA-TA
1 ATAATAT-ATTA
*
6638050 TTAATATCA-T-
1 ATAATAT-ATTA
*
6638060 ATATTATATTA
1 ATAATATATTA
6638071 ATAATATA
1 ATAATATA
6638079 AAACATGTTT
Statistics
Matches: 47, Mismatches: 8, Indels: 10
0.72 0.12 0.15
Matches are distributed among these distances:
9 4 0.09
10 14 0.30
11 28 0.60
12 1 0.02
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (11 bp):
ATAATATATTA
Found at i:6638205 original size:11 final size:11
Alignment explanation
Indices: 6638158--6638237 Score: 55
Period size: 11 Copynumber: 7.8 Consensus size: 11
6638148 ATTAATATAT
6638158 TATATTATTAA
1 TATATTATTAA
*
6638169 CATATTATTAA
1 TATATTATTAA
*
6638180 TATA--A-TAT
1 TATATTATTAA
6638188 TAT-TTATTAA
1 TATATTATTAA
*
6638198 TATATTATTTA
1 TATATTATTAA
*
6638209 T-TAATA-TAA
1 TATATTATTAA
* *
6638218 TATATAATAAA
1 TATATTATTAA
*
6638229 AATATTATT
1 TATATTATT
6638238 TTATTAATAT
Statistics
Matches: 50, Mismatches: 13, Indels: 12
0.67 0.17 0.16
Matches are distributed among these distances:
8 5 0.10
9 5 0.10
10 12 0.24
11 28 0.56
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (11 bp):
TATATTATTAA
Found at i:6638212 original size:60 final size:59
Alignment explanation
Indices: 6638003--6638237 Score: 156
Period size: 60 Copynumber: 4.0 Consensus size: 59
6637993 ATTTATTTAT
** * *
6638003 TTAATATAAT-ATA-TTAATAAATAATATATTATATTAATAATATCATATTAATATCATA-TA
1 TTAATATAATAATATTTAATAAACCAT-TATT-TATTAAT-ATAT-ATATTATTAACATATTA
***
6638063 TT-ATATTAATAATA--TAA-AACATGTTTATTTATTAATATA-ATATTATTTAGACA-A-TA
1 TTAATA-TAATAATATTTAATAA-ACCATTATTTATTAATATATATATTA-TTA-ACATATTA
6638119 --AATATAATAATATTTAATAAACCA-TATTTATTAATATATTATATTATTAACATATTA
1 TTAATATAATAATATTTAATAAACCATTATTTATTAATATA-TATATTATTAACATATTA
* * * * * *
6638176 TTAATATAATATTATTTATTAATA-TATTATTTATTAATATAATATATAATAAAAATATTA
1 TTAATATAATAATATTTAATAA-ACCATTATTTATTAATAT-ATATATTATTAACATATTA
6638236 TT
1 TT
6638238 TTATTAATAT
Statistics
Matches: 144, Mismatches: 13, Indels: 36
0.75 0.07 0.19
Matches are distributed among these distances:
54 8 0.06
55 26 0.18
56 13 0.09
57 15 0.10
58 7 0.05
59 28 0.19
60 43 0.30
61 4 0.03
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (59 bp):
TTAATATAATAATATTTAATAAACCATTATTTATTAATATATATATTATTAACATATTA
Found at i:6642295 original size:21 final size:21
Alignment explanation
Indices: 6642254--6642316 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
6642244 TTTTTATTTG
*
6642254 AATTCATAATT-TCTCTTTAAA
1 AATTCAT-ATTCTCTCTCTAAA
*
6642275 AATTCATATTCTTTCTCTAAA
1 AATTCATATTCTCTCTCTAAA
* *
6642296 AATCCATTTTCTCTCTCTAAA
1 AATTCATATTCTCTCTCTAAA
6642317 CCCAAATAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
20 3 0.08
21 33 0.92
ACGTcount: A:0.33, C:0.21, G:0.00, T:0.46
Consensus pattern (21 bp):
AATTCATATTCTCTCTCTAAA
Found at i:6642401 original size:235 final size:235
Alignment explanation
Indices: 6641990--6642457 Score: 873
Period size: 235 Copynumber: 2.0 Consensus size: 235
6641980 TCTTTTTAAT
6641990 TTTTTTTAATTTTTTCCTTTTTTTATTTGAATTCATAATTTCTCTTTAAAAATTCATACTCTATC
1 TTTTTTTAATTTTTTCCTTTTTTTATTTGAATTCATAATTTCTCTTTAAAAATTCATACTCTATC
* *
6642055 TCTAAAAATCTATTTTCTCTCTCTAAACCCAAATAAATGCTCAAAGAACAACCTTCAAATCACCA
66 TCTAAAAATCCATTTTCTCTCTCTAAACCCAAATAAATCCTCAAAGAACAACCTTCAAATCACCA
6642120 AAACTTTCACACCACTACCACCATTACAAGTTCACATCACCACCATACTTAACTAAATTCATACT
131 AAACTTTCACACCACTACCACCATTACAAGTTCACATCACCACCATACTTAACTAAATTCATACT
*
6642185 TTCTCTTTCTAAAAACTCATTATCTCTCTCTAAAAATTTA
196 TTCTCTTTCCAAAAACTCATTATCTCTCTCTAAAAATTTA
* *
6642225 TTTTTTTAATTTTTTCCTTTTTTTATTTGAATTCATAATTTCTCTTTAAAAATTCATATTCTTTC
1 TTTTTTTAATTTTTTCCTTTTTTTATTTGAATTCATAATTTCTCTTTAAAAATTCATACTCTATC
*
6642290 TCTAAAAATCCATTTTCTCTCTCTAAACCCAAATAAATCCTTAAAGAACAACCTTCAAATCACCA
66 TCTAAAAATCCATTTTCTCTCTCTAAACCCAAATAAATCCTCAAAGAACAACCTTCAAATCACCA
*
6642355 AAACTTTCACACCACTACCACCATTACATGTTCACATCACCACCATACTTAACTAAATTCATACT
131 AAACTTTCACACCACTACCACCATTACAAGTTCACATCACCACCATACTTAACTAAATTCATACT
6642420 TTCTCTTTCCAAAAACTCATTATCTCTCTCTAAAAATT
196 TTCTCTTTCCAAAAACTCATTATCTCTCTCTAAAAATT
6642458 CATATTCTTT
Statistics
Matches: 226, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
235 226 1.00
ACGTcount: A:0.34, C:0.25, G:0.01, T:0.40
Consensus pattern (235 bp):
TTTTTTTAATTTTTTCCTTTTTTTATTTGAATTCATAATTTCTCTTTAAAAATTCATACTCTATC
TCTAAAAATCCATTTTCTCTCTCTAAACCCAAATAAATCCTCAAAGAACAACCTTCAAATCACCA
AAACTTTCACACCACTACCACCATTACAAGTTCACATCACCACCATACTTAACTAAATTCATACT
TTCTCTTTCCAAAAACTCATTATCTCTCTCTAAAAATTTA
Done.