Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168037.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_29, 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: 14313602
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 50000 characters in sequence are not A, C, G, or T
File 10 of 74
Found at i:2815860 original size:18 final size:18
Alignment explanation
Indices: 2815817--2815906 Score: 64
Period size: 18 Copynumber: 4.9 Consensus size: 18
2815807 TTATAATAAA
*
2815817 AATAAATAATATTATATT
1 AATAAATAATAATATATT
*
2815835 --TATA-AATAATATATT
1 AATAAATAATAATATATT
2815850 AATAAATAAT-ATACTATT
1 AATAAATAATAATA-TATT
2815868 AATATAATATACTAATAAATATT
1 AATA-AATA-A-TAAT--ATATT
2815891 AAT-AATAAATAATATA
1 AATAAAT-AATAATATA
2815907 AAGAATAACA
Statistics
Matches: 58, Mismatches: 3, Indels: 22
0.70 0.04 0.27
Matches are distributed among these distances:
15 10 0.17
16 3 0.05
17 6 0.10
18 14 0.24
19 4 0.07
20 5 0.09
21 5 0.09
22 3 0.05
23 7 0.12
24 1 0.02
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (18 bp):
AATAAATAATAATATATT
Found at i:2815871 original size:44 final size:43
Alignment explanation
Indices: 2815810--2815906 Score: 109
Period size: 44 Copynumber: 2.4 Consensus size: 43
2815800 AATATTATTA
* *
2815810 TAATAA-AAATAA-ATAATATT-ATATTTATA--AAT-AATA-
1 TAATAATAAATAATATACTATTAATATATATACTAATAAATAT
*
2815846 TATTAATAAATAATATACTATTAATATAATATACTAATAAATAT
1 TAATAATAAATAATATACTATTAATAT-ATATACTAATAAATAT
2815890 TAATAATAAATAATATA
1 TAATAATAAATAATATA
2815907 AAGAATAACA
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
36 5 0.10
37 6 0.12
38 7 0.14
39 4 0.08
40 4 0.08
42 3 0.06
43 4 0.08
44 16 0.33
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (43 bp):
TAATAATAAATAATATACTATTAATATATATACTAATAAATAT
Found at i:2816037 original size:26 final size:25
Alignment explanation
Indices: 2816008--2816065 Score: 89
Period size: 26 Copynumber: 2.3 Consensus size: 25
2815998 TATTAATAAA
2816008 TTTAATAATAAATAATTTCAATATAT
1 TTTAATAATAAATAATTTCAA-ATAT
**
2816034 TTTAATAATAAATAATTTTTAATAT
1 TTTAATAATAAATAATTTCAAATAT
2816059 TTTAATA
1 TTTAATA
2816066 GTTATATTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 11 0.37
26 19 0.63
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (25 bp):
TTTAATAATAAATAATTTCAAATAT
Found at i:2822229 original size:32 final size:33
Alignment explanation
Indices: 2822141--2822358 Score: 139
Period size: 32 Copynumber: 6.5 Consensus size: 33
2822131 AAATCACACA
2822141 AATAA-TCATGCAAACATGTAATTAAATATATTAT
1 AATAATTCATGCAAACATGTAATTAAATATA-T-T
* ** * *
2822175 AATAAGAT-ATAAAATAATCATGCAAGTAAATATATT
1 AATAA-TTCAT-GCA-AA-CATGTAATTAAATATATT
*
2822211 AAT-ATTCATGCAAACATGCAATTGTGCAAA-ATATGT
1 AATAATTCATGCAAACATGTAA-T-T--AAATATAT-T
* * *
2822247 AATTAAAT-AT-AAAATATGTAATTAAATATATT
1 AA-TAATTCATGCAAACATGTAATTAAATATATT
2822279 AATAA-TCATGCAAACATGTAATTAAATATATT
1 AATAATTCATGCAAACATGTAATTAAATATATT
* *** *
2822311 -ATCATTCAAATAAATATGTAATTAAATATATT
1 AATAATTCATGCAAACATGTAATTAAATATATT
2822343 AATAATT-ATGCAAACA
1 AATAATTCATGCAAACA
2822359 ACTAAATTAA
Statistics
Matches: 142, Mismatches: 24, Indels: 38
0.70 0.12 0.19
Matches are distributed among these distances:
30 1 0.01
31 8 0.06
32 61 0.43
33 11 0.08
34 9 0.06
35 10 0.07
36 20 0.14
37 6 0.04
38 16 0.11
ACGTcount: A:0.51, C:0.08, G:0.07, T:0.34
Consensus pattern (33 bp):
AATAATTCATGCAAACATGTAATTAAATATATT
Found at i:2822262 original size:19 final size:19
Alignment explanation
Indices: 2822238--2822276 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
2822228 GCAATTGTGC
2822238 AAAATATGTAATTAAATAT
1 AAAATATGTAATTAAATAT
2822257 AAAATATGTAATTAAATAT
1 AAAATATGTAATTAAATAT
2822276 A
1 A
2822277 TTAATAATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (19 bp):
AAAATATGTAATTAAATAT
Found at i:2822281 original size:68 final size:63
Alignment explanation
Indices: 2822184--2822358 Score: 187
Period size: 64 Copynumber: 2.7 Consensus size: 63
2822174 TAATAAGATA
* *
2822184 TAAAAT-AATCATGCAAGTAAATATATTAATATTCATGCAAACATGCAATTGTGCAAA-ATATGT
1 TAAAATAAAT-ATGTAATTAAATATATTAATATTCATGCAAACATGCAA-T-T--AAATATAT-T
2822247 A-AT
60 ACAT
* *
2822250 TAAATATAAAATATGTAATTAAATATATTAATAATCATGCAAACATGTAATTAAATATATTATCA
1 TAAA-AT-AAATATGTAATTAAATATATTAATATTCATGCAAACATGCAATTAAATATATTA-CA
2822315 T
63 T
*
2822316 TCAAATAAATATGTAATTAAATATATTAATAATT-ATGCAAACA
1 TAAAATAAATATGTAATTAAATATATTAAT-ATTCATGCAAACA
2822359 ACTAAATTAA
Statistics
Matches: 96, Mismatches: 6, Indels: 16
0.81 0.05 0.14
Matches are distributed among these distances:
64 38 0.40
65 8 0.08
66 10 0.10
67 3 0.03
68 34 0.35
69 3 0.03
ACGTcount: A:0.50, C:0.08, G:0.07, T:0.35
Consensus pattern (63 bp):
TAAAATAAATATGTAATTAAATATATTAATATTCATGCAAACATGCAATTAAATATATTACAT
Found at i:2822425 original size:16 final size:17
Alignment explanation
Indices: 2822401--2822434 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
2822391 TATTAATCAT
2822401 AATAGCATGC-AAATAA
1 AATAGCATGCAAAATAA
*
2822417 AATATCATGCAAAATAA
1 AATAGCATGCAAAATAA
2822434 A
1 A
2822435 TGTAAAAATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.59, C:0.12, G:0.09, T:0.21
Consensus pattern (17 bp):
AATAGCATGCAAAATAA
Found at i:2822538 original size:23 final size:23
Alignment explanation
Indices: 2822512--2822605 Score: 104
Period size: 23 Copynumber: 4.2 Consensus size: 23
2822502 AATTAACAGC
* *
2822512 AAAATAAAACCAAATAGAAAAAT
1 AAAATAAAATCAAACAGAAAAAT
**
2822535 AAAATCGAATCAAACAGAAAAAT
1 AAAATAAAATCAAACAGAAAAAT
*
2822558 AAAATAAAATCAAACA-AAAAAA
1 AAAATAAAATCAAACAGAAAAAT
*
2822580 AAAATAAAA-CAAAACA-AAGAAT
1 AAAATAAAATC-AAACAGAAAAAT
2822602 AAAA
1 AAAA
2822606 AAACAAAAAA
Statistics
Matches: 61, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
21 1 0.02
22 27 0.44
23 33 0.54
ACGTcount: A:0.76, C:0.10, G:0.04, T:0.11
Consensus pattern (23 bp):
AAAATAAAATCAAACAGAAAAAT
Found at i:2822561 original size:28 final size:27
Alignment explanation
Indices: 2822530--2822608 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
2822520 ACCAAATAGA
* * *
2822530 AAAATAAAATCGAATCAAACAGAAAAAT
1 AAAATAAAATC-AAACAAAAAAAAAAAT
2822558 AAAATAAAATCAAACAAAAAAAAAAAT
1 AAAATAAAATCAAACAAAAAAAAAAAT
* * *
2822585 AAAACAAAA-CAAAGAATAAAAAAA
1 AAAATAAAATCAAACAAAAAAAAAA
2822609 CAAAAAAAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
26 13 0.29
27 21 0.47
28 11 0.24
ACGTcount: A:0.77, C:0.09, G:0.04, T:0.10
Consensus pattern (27 bp):
AAAATAAAATCAAACAAAAAAAAAAAT
Found at i:2822579 original size:1 final size:1
Alignment explanation
Indices: 2822573--2822624 Score: 50
Period size: 1 Copynumber: 52.0 Consensus size: 1
2822563 AAAATCAAAC
* * * * * *
2822573 AAAAAAAAAAATAAAACAAAACAAAGAATAAAAAAACAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
2822625 CCTGCAATCT
Statistics
Matches: 39, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 39 1.00
ACGTcount: A:0.88, C:0.06, G:0.02, T:0.04
Consensus pattern (1 bp):
A
Found at i:2822583 original size:17 final size:17
Alignment explanation
Indices: 2822558--2822625 Score: 75
Period size: 17 Copynumber: 3.9 Consensus size: 17
2822548 ACAGAAAAAT
* *
2822558 AAAATAAAATCAAACAA
1 AAAAAAAAATAAAACAA
2822575 AAAAAAAAATAAAACAA
1 AAAAAAAAATAAAACAA
*
2822592 AACAAAGAATAAAAAAACAA
1 AA-AAA-AA-AATAAAACAA
2822612 AAAAAAAAA-AAAAC
1 AAAAAAAAATAAAAC
2822626 CTGCAATCTA
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
16 5 0.11
17 19 0.42
18 5 0.11
19 5 0.11
20 11 0.24
ACGTcount: A:0.84, C:0.09, G:0.01, T:0.06
Consensus pattern (17 bp):
AAAAAAAAATAAAACAA
Found at i:2829041 original size:24 final size:23
Alignment explanation
Indices: 2828983--2829049 Score: 66
Period size: 24 Copynumber: 2.9 Consensus size: 23
2828973 TTTTTTGAAA
*
2828983 TAACAATTAAAACAAAT-AAAATT
1 TAACAATT-AAACAAATAAAAAAT
* *
2829006 TACATAACTAAACTAAATAAAAAAT
1 TA-ACAATTAAAC-AAATAAAAAAT
2829031 TAACAATTAAA-AAATAAAA
1 TAACAATTAAACAAATAAAA
2829050 TATAAATATA
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
22 8 0.22
23 6 0.17
24 15 0.42
25 7 0.19
ACGTcount: A:0.67, C:0.09, G:0.00, T:0.24
Consensus pattern (23 bp):
TAACAATTAAACAAATAAAAAAT
Found at i:2830432 original size:20 final size:20
Alignment explanation
Indices: 2830400--2830438 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
2830390 TAAATCAATT
2830400 ATAAATATTAATATATAAATC
1 ATAAATATTAATATA-AAATC
2830421 ATAAAT-TTAATATAAAAT
1 ATAAATATTAATATAAAAT
2830439 TGAAACAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.22
20 8 0.44
21 6 0.33
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (20 bp):
ATAAATATTAATATAAAATC
Found at i:2831159 original size:3 final size:3
Alignment explanation
Indices: 2831151--2831179 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
2831141 AAGCCATACA
2831151 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
2831180 AGGATAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:2835964 original size:25 final size:23
Alignment explanation
Indices: 2835936--2836008 Score: 67
Period size: 25 Copynumber: 3.0 Consensus size: 23
2835926 AAATAATGTC
2835936 TAATTTTTAATAATATAAAATATAA
1 TAATTTTTAATAATA-AAAAT-TAA
* *
2835961 TAATTTTTACTTACTAAAAATTAA
1 TAATTTTTA-ATAATAAAAATTAA
* *
2835985 TGATTTTTAACTAA-ACAAATTAA
1 TAATTTTTAA-TAATAAAAATTAA
2836008 T
1 T
2836009 TTCATATTAC
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
23 9 0.22
24 13 0.32
25 14 0.35
26 4 0.10
ACGTcount: A:0.49, C:0.05, G:0.01, T:0.44
Consensus pattern (23 bp):
TAATTTTTAATAATAAAAATTAA
Found at i:2842717 original size:16 final size:17
Alignment explanation
Indices: 2842696--2842728 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
2842686 ATAACTTATA
2842696 TTATTTAATAAA-AAAT
1 TTATTTAATAAATAAAT
*
2842712 TTATTTACTAAATAAAT
1 TTATTTAATAAATAAAT
2842729 ATATATATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (17 bp):
TTATTTAATAAATAAAT
Found at i:2844767 original size:32 final size:32
Alignment explanation
Indices: 2844731--2844841 Score: 91
Period size: 32 Copynumber: 3.3 Consensus size: 32
2844721 CCAGTGTGTT
*
2844731 TTTTTTATTTTCAT-TAATTAATATTTTTTTTA
1 TTTTTTATTTTCATCT-ATTAATATTTTTATTA
* *
2844763 TTTTTTCTTTTTATCTATTAATATTTTTATTA
1 TTTTTTATTTTCATCTATTAATATTTTTATTA
* * *
2844795 TTTATCTACTTTT-ATTTATTATTATTATTTATCTA
1 TTT-TTTA-TTTTCATCTATTAATATT-TTTAT-TA
2844830 TTTCTTTTATTT
1 -TT-TTTTATTT
2844842 ATCTAATTAT
Statistics
Matches: 64, Mismatches: 8, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
32 30 0.47
33 14 0.22
34 9 0.14
35 5 0.08
36 5 0.08
37 1 0.02
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (32 bp):
TTTTTTATTTTCATCTATTAATATTTTTATTA
Found at i:2844790 original size:17 final size:17
Alignment explanation
Indices: 2844770--2844871 Score: 59
Period size: 17 Copynumber: 6.0 Consensus size: 17
2844760 TTATTTTTTC
2844770 TTTTTATCTATTAATA-
1 TTTTTATCTATTAATAT
* *
2844786 TTTTTAT-TATTTATCT
1 TTTTTATCTATTAATAT
* * *
2844802 ACTTTTATTTATTATTAT
1 -TTTTTATCTATTAATAT
* **
2844820 TATTTATCTATTTCT-T
1 TTTTTATCTATTAATAT
*
2844836 TTATTTATCTAATT-ATTT
1 TT-TTTATCT-ATTAATAT
2844854 TTTGTTATCTATTAATAT
1 TTT-TTATCTATTAATAT
2844872 ATTTATTTTT
Statistics
Matches: 64, Mismatches: 14, Indels: 14
0.70 0.15 0.15
Matches are distributed among these distances:
15 6 0.09
16 9 0.14
17 28 0.44
18 21 0.33
ACGTcount: A:0.25, C:0.07, G:0.01, T:0.67
Consensus pattern (17 bp):
TTTTTATCTATTAATAT
Found at i:2844822 original size:27 final size:28
Alignment explanation
Indices: 2844784--2844852 Score: 86
Period size: 27 Copynumber: 2.4 Consensus size: 28
2844774 TATCTATTAA
*
2844784 TATTTTTATTATTTATCTA-CTTTTATT
1 TATTATTATTATTTATCTATCTTTTATT
2844811 TATTATTATTATTTATCTATTTCTTTTATT
1 TATTATTATTATTTATCTA--TCTTTTATT
2844841 TATCTAATTATT
1 TAT-T-ATTATT
2844853 TTTTGTTATC
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
27 18 0.50
30 11 0.31
31 1 0.03
32 6 0.17
ACGTcount: A:0.25, C:0.07, G:0.00, T:0.68
Consensus pattern (28 bp):
TATTATTATTATTTATCTATCTTTTATT
Found at i:2845203 original size:4 final size:4
Alignment explanation
Indices: 2845196--2845221 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
2845186 GTTCCCAAGC
2845196 TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT
2845222 AGATTAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:2845258 original size:5 final size:6
Alignment explanation
Indices: 2845244--2845281 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
2845234 TTTAATATTC
* *
2845244 TTTTAT TTTTAT TTTTAT TTTCAC TTTTA- TTTTAT TTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT
2845282 CTTTAAATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
5 5 0.18
6 23 0.82
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTTAT
Found at i:2845348 original size:58 final size:55
Alignment explanation
Indices: 2845277--2845454 Score: 189
Period size: 58 Copynumber: 3.1 Consensus size: 55
2845267 CTTTTATTTT
*
2845277 ATTTTCTTT--AAATAAAATCCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCA
1 ATTTTCTTTGAAAATAAATTCC--AAAAAATATTTTT-AGGAAAAGTTGAAAGTATCA
*
2845333 ATTTTCTTTGAAAATAAGCTTTCCAAAAAATATTTTTAGGAAAAAGTTGAAAGTATCA
1 ATTTTCTTTGAAAATAA--ATTCCAAAAAATATTTTTAGG-AAAAGTTGAAAGTATCA
* * * **
2845391 ATTTTCCTCGAAATTAAAGTTTTTTAAAAAATATTTTTAGAGAAAAGTTGAAAGTATCA
1 ATTTTCTTTGAAAATAAA---TTCCAAAAAATATTTTTAG-GAAAAGTTGAAAGTATCA
2845450 ATTTT
1 ATTTT
2845455 TTCTGATAAA
Statistics
Matches: 105, Mismatches: 8, Indels: 15
0.82 0.06 0.12
Matches are distributed among these distances:
56 9 0.09
57 3 0.03
58 50 0.48
59 39 0.37
60 4 0.04
ACGTcount: A:0.44, C:0.07, G:0.11, T:0.38
Consensus pattern (55 bp):
ATTTTCTTTGAAAATAAATTCCAAAAAATATTTTTAGGAAAAGTTGAAAGTATCA
Found at i:2845445 original size:59 final size:58
Alignment explanation
Indices: 2845299--2845454 Score: 217
Period size: 59 Copynumber: 2.7 Consensus size: 58
2845289 TAAAATCCAA
* *
2845299 AAAAAATATTTTT-GAGGAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAAGCTTTCC
1 AAAAAATATTTTTAGA-GAAAAGTTGAAAGTATCAATTTTCCTCGAAAATAAGCTTTCC
* * **
2845357 AAAAAATATTTTTAG-GAAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTTTT
1 AAAAAATATTTTTAGAG-AAAAGTTGAAAGTATCAATTTTCCTCGAAAAT-AAGCTTTCC
2845416 AAAAAATATTTTTAGAGAAAAGTTGAAAGTATCAATTTT
1 AAAAAATATTTTTAGAGAAAAGTTGAAAGTATCAATTTT
2845455 TTCTGATAAA
Statistics
Matches: 88, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
57 1 0.01
58 42 0.48
59 44 0.50
60 1 0.01
ACGTcount: A:0.44, C:0.06, G:0.13, T:0.37
Consensus pattern (58 bp):
AAAAAATATTTTTAGAGAAAAGTTGAAAGTATCAATTTTCCTCGAAAATAAGCTTTCC
Found at i:2846957 original size:52 final size:52
Alignment explanation
Indices: 2846901--2847007 Score: 115
Period size: 52 Copynumber: 2.1 Consensus size: 52
2846891 TTGATTTTCA
* * * **
2846901 TTTTAATGAGAATTGATTCTAAAATTAAATCTAAAAAATCTCTCTCCATCAT
1 TTTTAATGACAATTCATTCTAAAATTAAATCCAAAAAATCTCTCAACATCAT
* * * ** *
2846953 TTTTAGTGCCAATTCATTTTGGAATTAAATCCCAAAAATCTCTCAACATCAT
1 TTTTAATGACAATTCATTCTAAAATTAAATCCAAAAAATCTCTCAACATCAT
2847005 TTT
1 TTT
2847008 GATATGAATT
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
52 44 1.00
ACGTcount: A:0.36, C:0.18, G:0.07, T:0.39
Consensus pattern (52 bp):
TTTTAATGACAATTCATTCTAAAATTAAATCCAAAAAATCTCTCAACATCAT
Found at i:2847505 original size:28 final size:30
Alignment explanation
Indices: 2847474--2847536 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 30
2847464 TTTTTAATCT
* * *
2847474 TATATATTTAGATA-ATTTTT-TTTATAAA
1 TATATATTAAGATATATTTTTCATTAAAAA
*
2847502 TATATATTAATATATATTTTTCATTAAAAA
1 TATATATTAAGATATATTTTTCATTAAAAA
2847532 TATAT
1 TATAT
2847537 TAATTCTAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 12 0.41
29 6 0.21
30 11 0.38
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (30 bp):
TATATATTAAGATATATTTTTCATTAAAAA
Found at i:2861304 original size:2 final size:2
Alignment explanation
Indices: 2861297--2861337 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
2861287 TTGACTCCCC
2861297 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
2861338 ATTTTCAAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:2866526 original size:3 final size:3
Alignment explanation
Indices: 2866518--2866545 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
2866508 AAGGAAACAA
2866518 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
2866546 GAGGATACCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:2867594 original size:29 final size:28
Alignment explanation
Indices: 2867549--2867604 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 28
2867539 CAACCCTAAT
2867549 TATTGATCCTTAAATTTTGAACAAAATTC
1 TATTGATCCTTAAATTTTGAA-AAAATTC
*
2867578 TATTAGATCCTT-AATTTTTAAAAAATT
1 TATT-GATCCTTAAATTTTGAAAAAATT
2867605 TAATTGAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 6 0.24
29 12 0.48
30 7 0.28
ACGTcount: A:0.39, C:0.11, G:0.05, T:0.45
Consensus pattern (28 bp):
TATTGATCCTTAAATTTTGAAAAAATTC
Found at i:2871257 original size:41 final size:43
Alignment explanation
Indices: 2871176--2871266 Score: 150
Period size: 41 Copynumber: 2.2 Consensus size: 43
2871166 GGCGCCCATC
2871176 TGACATGTTGAACCCACTTATTATTTATCCGTACCGTGGCCAG
1 TGACATGTTGAACCCACTTATTATTTATCCGTACCGTGGCCAG
* *
2871219 TTACATGTTGAACCCACTTA-TA-TTATCCGTGCCGTGGCCAG
1 TGACATGTTGAACCCACTTATTATTTATCCGTACCGTGGCCAG
2871260 TGACATG
1 TGACATG
2871267 ATATATTTAT
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
41 24 0.53
42 2 0.04
43 19 0.42
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (43 bp):
TGACATGTTGAACCCACTTATTATTTATCCGTACCGTGGCCAG
Found at i:2875473 original size:25 final size:25
Alignment explanation
Indices: 2875392--2875466 Score: 141
Period size: 25 Copynumber: 3.0 Consensus size: 25
2875382 TGTGTTCTAC
2875392 ATGAAAAGTTGTAATTTTCAAAAAT
1 ATGAAAAGTTGTAATTTTCAAAAAT
2875417 ATGAAAAGTTGTAATTTTCAAAAAT
1 ATGAAAAGTTGTAATTTTCAAAAAT
*
2875442 ATGAAAAGTTATAATTTTCAAAAAT
1 ATGAAAAGTTGTAATTTTCAAAAAT
2875467 GTTAAAAATG
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 49 1.00
ACGTcount: A:0.49, C:0.04, G:0.11, T:0.36
Consensus pattern (25 bp):
ATGAAAAGTTGTAATTTTCAAAAAT
Found at i:2876479 original size:14 final size:13
Alignment explanation
Indices: 2876437--2876475 Score: 62
Period size: 13 Copynumber: 3.0 Consensus size: 13
2876427 TATTATTGAA
2876437 AAAAATTA-AATT
1 AAAAATTATAATT
2876449 AATAAATTATAATT
1 AA-AAATTATAATT
2876463 AAAAATTATAATT
1 AAAAATTATAATT
2876476 TAAATATTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 2 0.08
13 17 0.68
14 6 0.24
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
AAAAATTATAATT
Found at i:2876993 original size:14 final size:15
Alignment explanation
Indices: 2876976--2877006 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
2876966 TATATTTATA
2876976 TAATTATA-ATATTT
1 TAATTATATATATTT
2876990 TAATTATATATATTT
1 TAATTATATATATTT
2877005 TA
1 TA
2877007 TTCATACAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TAATTATATATATTT
Found at i:2886711 original size:2 final size:2
Alignment explanation
Indices: 2886704--2886748 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
2886694 TATCTCCCTC
2886704 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
2886746 CT C
1 CT C
2886749 AAGTCAGATG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:2889582 original size:76 final size:75
Alignment explanation
Indices: 2889477--2889629 Score: 243
Period size: 76 Copynumber: 2.0 Consensus size: 75
2889467 TTTAATTCTA
* *
2889477 TACCATAATAAAAAATATTAATCACACATCCTTCAAAAAAGGCAATGGAATGTCACCATCTATAT
1 TACCATAAAAAAAAATATTAATCACACATCCTTCAAAAAAGGCAATGGAAGGTCACCATCTATAT
2889542 CTACATTAAT
66 CTACATTAAT
* *
2889552 TACCATATAAAAAAAATATTAATCATACATCCTTCAAAAAAGGCAATGGAAGGTCACCTTCTATA
1 TACCATA-AAAAAAAATATTAATCACACATCCTTCAAAAAAGGCAATGGAAGGTCACCATCTATA
* *
2889617 TTTACATTGAT
65 TCTACATTAAT
2889628 TA
1 TA
2889630 ATCCCTAAAA
Statistics
Matches: 71, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
75 7 0.10
76 64 0.90
ACGTcount: A:0.44, C:0.18, G:0.08, T:0.29
Consensus pattern (75 bp):
TACCATAAAAAAAAATATTAATCACACATCCTTCAAAAAAGGCAATGGAAGGTCACCATCTATAT
CTACATTAAT
Found at i:2892979 original size:3 final size:3
Alignment explanation
Indices: 2892971--2893039 Score: 95
Period size: 3 Copynumber: 23.3 Consensus size: 3
2892961 GGCTAAGCTA
* *
2892971 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA- TAT CAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
2893018 TAT TGT TAT TGT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT T
2893040 GTTGTTGTTG
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
2 2 0.04
3 55 0.96
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:2895132 original size:3 final size:3
Alignment explanation
Indices: 2895124--2895149 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
2895114 AATTTCCACG
2895124 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
2895150 AACTTCTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:2898426 original size:2 final size:2
Alignment explanation
Indices: 2898419--2898445 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2898409 AATCATTATC
2898419 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
2898446 GTGCACGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2901948 original size:20 final size:20
Alignment explanation
Indices: 2901925--2901969 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
2901915 CCCAAAATTA
2901925 ATAAAATATTATTTTTAAAT
1 ATAAAATATTATTTTTAAAT
2901945 ATAAAATATTATTTTTAAAT
1 ATAAAATATTATTTTTAAAT
2901965 ATAAA
1 ATAAA
2901970 TATAAAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
ATAAAATATTATTTTTAAAT
Found at i:2903791 original size:13 final size:13
Alignment explanation
Indices: 2903773--2903819 Score: 55
Period size: 14 Copynumber: 3.8 Consensus size: 13
2903763 TATCAATATT
2903773 TTTATTAAAAATA
1 TTTATTAAAAATA
2903786 TTTATTTAAAAATA
1 TTTA-TTAAAAATA
*
2903800 TATATT--AAAT-
1 TTTATTAAAAATA
2903810 TTTATTAAAA
1 TTTATTAAAA
2903820 TTTTTAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
10 5 0.17
11 4 0.14
12 2 0.07
13 6 0.21
14 12 0.41
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (13 bp):
TTTATTAAAAATA
Found at i:2903796 original size:14 final size:14
Alignment explanation
Indices: 2903767--2903805 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
2903757 TAAAAATATC
*
2903767 AATATTTTTATTAAA
1 AATATTTAT-TTAAA
2903782 AATATTTATTTAAA
1 AATATTTATTTAAA
*
2903796 AATATATATT
1 AATATTTATT
2903806 AAATTTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 14 0.64
15 8 0.36
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
AATATTTATTTAAA
Found at i:2904494 original size:14 final size:14
Alignment explanation
Indices: 2904470--2904506 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
2904460 TATTAATATT
2904470 TTTAT-TAAAAATA
1 TTTATCTAAAAATA
2904483 TTTATCTAAAAATA
1 TTTATCTAAAAATA
*
2904497 TATATC-AAAA
1 TTTATCTAAAA
2904507 TTTATTATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 9 0.41
14 13 0.59
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (14 bp):
TTTATCTAAAAATA
Found at i:2904579 original size:15 final size:15
Alignment explanation
Indices: 2904559--2904595 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
2904549 ACTTTTTAAT
2904559 TTTTTAATTT-ATCAA
1 TTTTTAATTTAATC-A
2904574 TTTTT-ATTTAATCA
1 TTTTTAATTTAATCA
2904588 TTTTTAAT
1 TTTTTAAT
2904596 AAAACATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 10 0.50
15 10 0.50
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (15 bp):
TTTTTAATTTAATCA
Found at i:2907540 original size:7 final size:7
Alignment explanation
Indices: 2907528--2907568 Score: 82
Period size: 7 Copynumber: 5.9 Consensus size: 7
2907518 GGTTTTAGGG
2907528 TCTTGGC
1 TCTTGGC
2907535 TCTTGGC
1 TCTTGGC
2907542 TCTTGGC
1 TCTTGGC
2907549 TCTTGGC
1 TCTTGGC
2907556 TCTTGGC
1 TCTTGGC
2907563 TCTTGG
1 TCTTGG
2907569 GATGTGGTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.00, C:0.27, G:0.29, T:0.44
Consensus pattern (7 bp):
TCTTGGC
Found at i:2910368 original size:2 final size:2
Alignment explanation
Indices: 2910357--2910387 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
2910347 AAGAAAGGTT
2910357 TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2910388 GAGAGAGAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:2910392 original size:2 final size:2
Alignment explanation
Indices: 2910387--2910437 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
2910377 ATATATATAT
2910387 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
2910429 AG AG AG AG A
1 AG AG AG AG A
2910438 ACGGTAGATA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:2915163 original size:20 final size:21
Alignment explanation
Indices: 2915138--2915181 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
2915128 TATAGATATG
*
2915138 TTAAATATAAA-ATATTTTTA
1 TTAAATATAAATAAATTTTTA
*
2915158 TTAAATTTAAATAAATTTTTA
1 TTAAATATAAATAAATTTTTA
2915179 TTA
1 TTA
2915182 TAAATTTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
TTAAATATAAATAAATTTTTA
Found at i:2915185 original size:23 final size:21
Alignment explanation
Indices: 2915138--2915192 Score: 67
Period size: 23 Copynumber: 2.6 Consensus size: 21
2915128 TATAGATATG
* *
2915138 TTAAATATAAA-ATATTTTTA
1 TTAAATTTAAATAAATTTTTA
2915158 TTAAATTTAAATAAATTTTTA
1 TTAAATTTAAATAAATTTTTA
2915179 TTATAAATTTAAAT
1 -T-TAAATTTAAAT
2915193 TGTATTATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
20 10 0.33
21 8 0.27
22 1 0.03
23 11 0.37
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TTAAATTTAAATAAATTTTTA
Found at i:2915205 original size:23 final size:22
Alignment explanation
Indices: 2915144--2915206 Score: 54
Period size: 23 Copynumber: 2.7 Consensus size: 22
2915134 TATGTTAAAT
*
2915144 ATAAAATATTTTTATTAAATTTAA
1 ATAAATTA-TTTTA-TAAATTTAA
*
2915168 ATAAATTTTTATTATAAATTTAA
1 ATAAATTATT-TTATAAATTTAA
**
2915191 ATTGTATTATTTTATA
1 A-TAAATTATTTTATA
2915207 TTATTTATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
23 17 0.53
24 15 0.47
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (22 bp):
ATAAATTATTTTATAAATTTAA
Found at i:2922202 original size:19 final size:20
Alignment explanation
Indices: 2922170--2922207 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
2922160 TATAATTTAC
2922170 AAATTTATATATTT-TAAAA
1 AAATTTATATATTTATAAAA
2922189 AAATTTATGA-ATTTATAAA
1 AAATTTAT-ATATTTATAAA
2922208 TTTTATCTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (20 bp):
AAATTTATATATTTATAAAA
Found at i:2924201 original size:548 final size:546
Alignment explanation
Indices: 2923165--2924811 Score: 2352
Period size: 548 Copynumber: 3.0 Consensus size: 546
2923155 TTTCGGTTCT
* * * * * *
2923165 GCGTGTTGTGTGTTTGTATTGTGTAAGTTAGATCATAGTTGAGGAGATGGCATTCCAGAGTGACG
1 GCGTGTTGCGTGTTTGTATTATGTAAGTTAGATCACAGTCGAAGAGATGGCATCCCAGAGTGACG
* * * * *
2923230 TTGCTAGCCAACAACCAAAGGCCTAATAGTAGGAGTATGGAAGAGGCAAGAAGGCCAATTCGAGA
66 TTGCTAGCCAACAACCAAAGGCCTAAGAGCAGGGGTATGGAAGAGGCAAGAAGGTCAGTTCGAGA
* * *
2923295 GATATTTGGTCTACTATAGATGAGAGGTTGGCCAAGATAGAGGTGACCGT-AAGCGACATGAGGG
131 GATATTTGGTCTACCATGGATGAGAGGCTGGCCAAGATAGAGGTGACCGTGAA-CGACATGAGGG
* * * *
2923359 AGAATCTTGATAAAGTGAAGACTCACGTTGAAGCACTAGACTCCATAAGGGAGGAGCTCCAAGGT
195 AAAAGCTTGATGAAGTGAAGACTCACGTTGAAGCACTAGACTCCATAAGGGAAGAGCTCCAAGGT
* *
2923424 GAGCTACAAGCTACTCTCAAT-AAAGACATGGACGCGATCACCCAAAGGAACGAGGCCTTGGAGG
260 GAGCTACAAGCTGCTCTCAATAAAAG-CATGGACGAGATCACCCAAAGGAACGAGGCCTTGGAGG
* *
2923488 CTAAAGTGGAGACCATGCGCGATGGCATGGAGGTCATGCACAAGAGGATAAAGAAGTTCACCAGG
324 CTAAAGTGGAGACCATGCGCGATGGCATGGAGGTCATGCACAAGAGGATAAAGAAGCTCACCAAG
* * * * *
2923553 GAATTCGTTGTATGTAAGACTGTCATTGGGAATGGCATGTTTGTT-GAAGTGTCTAAGTCCAGGA
389 GAACTCGTTGCATGCAAGACTGTTATTGGGAAT-GCATGTTTGTTGGAA-CGTCTAAGTCCAGGA
* * * *
2923617 TGGATATGCCCAAGCCTAAAGAGTTCAAGGGGACTAAGGTGGCCAAGGAAGTAGACAACTACCTA
452 TGGATGTCCCCAAGCCTAAAGAGTTTAAGGGGACTAAGG-GGCCAAAGAAGTAGACAACTACCTA
2923682 TGGGGTATGGAGCAGTACTTCCAGGTCATGG
516 TGGGGTATGGAGCAGTACTTCCAGGTCATGG
* ** *
2923713 GCGTGTTACGTGTTTGTATTATGTAAGTTAGATCACAGTCGAAGAGATAACATCCCAGAGTGATG
1 GCGTGTTGCGTGTTTGTATTATGTAAGTTAGATCACAGTCGAAGAGATGGCATCCCAGAGTGACG
* * *
2923778 TTGCTAGCCAACAAACAAAGGCCCAAGAGCAGGGGTGTGGAAGAGGCAAGAAGGTCAGTTCGAGA
66 TTGCTAGCCAACAACCAAAGGCCTAAGAGCAGGGGTATGGAAGAGGCAAGAAGGTCAGTTCGAGA
*
2923843 GATATTTGGTCTACCATGGATGAGAGGCTGGCCAAGATAGAGGTGATCGTGAACGACATGAGGGA
131 GATATTTGGTCTACCATGGATGAGAGGCTGGCCAAGATAGAGGTGACCGTGAACGACATGAGGGA
*
2923908 AAAGCTTGATGAAGTGAAGACTCACGTTGAAGCACTAGACTTCATAAGGGAAGAGCTCCAAGGTG
196 AAAGCTTGATGAAGTGAAGACTCACGTTGAAGCACTAGACTCCATAAGGGAAGAGCTCCAAGGTG
** *
2923973 AGCTACAAGCTGCTCTCAATAAAAGCATGGATAAGATCACCCAAAGGAACGAGGCTTTGGAGGCT
261 AGCTACAAGCTGCTCTCAATAAAAGCATGGACGAGATCACCCAAAGGAACGAGGCCTTGGAGGCT
* * *
2924038 AAAGTGGAGACCATGCACGATGGCATGGAGATCATGCACAAGAGGATAAAGAAGCTCACCATGGA
326 AAAGTGGAGACCATGCGCGATGGCATGGAGGTCATGCACAAGAGGATAAAGAAGCTCACCAAGGA
* * *
2924103 GCTCATTGCATGCAAGACTATTATTGGGAATAGCATGTTTGTTGGAACGTCTAAGTCCAGGATGG
391 ACTCGTTGCATGCAAGACTGTTATTGGGAAT-GCATGTTTGTTGGAACGTCTAAGTCCAGGATGG
** *
2924168 ATGTTTCCAAGCCTAAAGAGTTTAAGGGGACTAAGGGAGCCAAAGAAGTAGACAACTACCTATAG
455 ATGTCCCCAAGCCTAAAGAGTTTAAGGGGACTAAGGG-GCCAAAGAAGTAGACAACTACCTATGG
* *
2924233 GGTATGGAGTAGTACTTTCAGGTCATGG
519 GGTATGGAGCAGTACTTCCAGGTCATGG
* *
2924261 GCGTGTTGCATGTTTGTATTATGTAAGTTAGATCACAGTCGATGAGATGGCATCCCAGAGTGACG
1 GCGTGTTGCGTGTTTGTATTATGTAAGTTAGATCACAGTCGAAGAGATGGCATCCCAGAGTGACG
* * *
2924326 TTGCTAGCCAACAACCAAAAGCCTAAGAGCAGAGGTATGGAAGAGACAAGAAGGTCAGTTCGAGA
66 TTGCTAGCCAACAACCAAAGGCCTAAGAGCAGGGGTATGGAAGAGGCAAGAAGGTCAGTTCGAGA
* * ** *
2924391 GATATTTGGTCTACCATGGATGTGAGGCTGGCCAAGATAGAAGTGACCGTGGGCGACATGA-GAA
131 GATATTTGGTCTACCATGGATGAGAGGCTGGCCAAGATAGAGGTGACCGTGAACGACATGAGGGA
* * *
2924455 AGAAGCTTGATGAAGTGGAGACTCACGTTGAAGCGCTAGACTCCATAAGGGAAGAGCTTCAAGGT
196 A-AAGCTTGATGAAGTGAAGACTCACGTTGAAGCACTAGACTCCATAAGGGAAGAGCTCCAAGGT
* * * *
2924520 GAGCTACAAGCTGCTCTCAATAAAGGTATGGACGTGATCACCCAAAGGAACGAAGCCTTGGAGGC
260 GAGCTACAAGCTGCTCTCAATAAAAGCATGGACGAGATCACCCAAAGGAACGAGGCCTTGGAGGC
* * * * * * *
2924585 TGAAA-TAGAGACCATGCGCGATGGCATGAAGGCCATGCGCAAGAGGATGAAGGAGCTCACCAAC
325 T-AAAGTGGAGACCATGCGCGATGGCATGGAGGTCATGCACAAGAGGATAAAGAAGCTCACCAAG
* * * *
2924649 GAACTCGTTGCATGCGAGACTGTTATTGGGAATGTCATGTTTGCTGGAACGTCTAAGTCTAAGAT
389 GAACTCGTTGCATGCAAGACTGTTATTGGGAATG-CATGTTTGTTGGAACGTCTAAGTCCAGGAT
* *
2924714 GGATGTCCCCAAGCCTAAAGAGTTTAAGGGGACT-AGGGCAGCCAACGAGGTAGACAACTCTACC
453 GGATGTCCCCAAGCCTAAAGAGTTTAAGGGGACTAAGGG--GCCAAAGAAGTAGACAA--CTACC
* *
2924778 TATGAGGTATGGCGCAGTACTTCCAGGTCATGG
514 TATGGGGTATGGAGCAGTACTTCCAGGTCATGG
2924811 G
1 G
2924812 TATGCAAGAT
Statistics
Matches: 981, Mismatches: 108, Indels: 18
0.89 0.10 0.02
Matches are distributed among these distances:
547 9 0.01
548 926 0.94
549 12 0.01
550 34 0.03
ACGTcount: A:0.31, C:0.17, G:0.30, T:0.21
Consensus pattern (546 bp):
GCGTGTTGCGTGTTTGTATTATGTAAGTTAGATCACAGTCGAAGAGATGGCATCCCAGAGTGACG
TTGCTAGCCAACAACCAAAGGCCTAAGAGCAGGGGTATGGAAGAGGCAAGAAGGTCAGTTCGAGA
GATATTTGGTCTACCATGGATGAGAGGCTGGCCAAGATAGAGGTGACCGTGAACGACATGAGGGA
AAAGCTTGATGAAGTGAAGACTCACGTTGAAGCACTAGACTCCATAAGGGAAGAGCTCCAAGGTG
AGCTACAAGCTGCTCTCAATAAAAGCATGGACGAGATCACCCAAAGGAACGAGGCCTTGGAGGCT
AAAGTGGAGACCATGCGCGATGGCATGGAGGTCATGCACAAGAGGATAAAGAAGCTCACCAAGGA
ACTCGTTGCATGCAAGACTGTTATTGGGAATGCATGTTTGTTGGAACGTCTAAGTCCAGGATGGA
TGTCCCCAAGCCTAAAGAGTTTAAGGGGACTAAGGGGCCAAAGAAGTAGACAACTACCTATGGGG
TATGGAGCAGTACTTCCAGGTCATGG
Found at i:2927014 original size:1 final size:1
Alignment explanation
Indices: 2927008--2927032 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
2926998 GAACCAAGTT
2927008 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
2927033 GAGGGAATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:2932940 original size:30 final size:30
Alignment explanation
Indices: 2932904--2932983 Score: 97
Period size: 34 Copynumber: 2.5 Consensus size: 30
2932894 ACTGCATGAT
* **
2932904 TTAAGAACTAAAATTGCGTGCATGACTTAC
1 TTAAGAACTAAAATTGCGTACATGACCCAC
2932934 TTAAGAACTAAAATAAATTGCGTACATGACCCAC
1 TTAAGAACT---A-AAATTGCGTACATGACCCAC
2932968 TTAAGAACTAAAATTG
1 TTAAGAACTAAAATTG
2932984 AATTAAAATT
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
30 15 0.35
31 1 0.02
33 1 0.02
34 26 0.60
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (30 bp):
TTAAGAACTAAAATTGCGTACATGACCCAC
Found at i:2932962 original size:34 final size:34
Alignment explanation
Indices: 2932914--2932981 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
2932904 TTAAGAACTA
* **
2932914 AAATTGCGTGCATGACTTACTTAAGAACTAAAAT
1 AAATTGCGTACATGACCCACTTAAGAACTAAAAT
2932948 AAATTGCGTACATGACCCACTTAAGAACTAAAAT
1 AAATTGCGTACATGACCCACTTAAGAACTAAAAT
2932982 TGAATTAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.43, C:0.18, G:0.13, T:0.26
Consensus pattern (34 bp):
AAATTGCGTACATGACCCACTTAAGAACTAAAAT
Found at i:2936990 original size:2 final size:2
Alignment explanation
Indices: 2936983--2937007 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2936973 CTACAGATGC
2936983 CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT C
2937008 CCCCTGTGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:2939126 original size:14 final size:14
Alignment explanation
Indices: 2939107--2939137 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
2939097 AGTATGTATG
2939107 TATGTATATATATA
1 TATGTATATATATA
2939121 TATGTATATATATA
1 TATGTATATATATA
2939135 TAT
1 TAT
2939138 ATGGCATCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (14 bp):
TATGTATATATATA
Found at i:2940384 original size:58 final size:58
Alignment explanation
Indices: 2940294--2940412 Score: 184
Period size: 58 Copynumber: 2.1 Consensus size: 58
2940284 AGGTCTTGTG
* * * * *
2940294 AATTTGAAAACTTTTATAGTATAAAAAAGAATGCTATTTGATCCATTTGGGTGATGGA
1 AATTTGAAAACTTTTATAATAGAAAAAAGAATGCTATTTGATCCACTTGGATAATGGA
*
2940352 AATTTGAAAACTTTTATAATAGCAAAAAGAATGCTATTTGATCCACTTGGATAATGGA
1 AATTTGAAAACTTTTATAATAGAAAAAAGAATGCTATTTGATCCACTTGGATAATGGA
2940410 AAT
1 AAT
2940413 GGTTTTGTTC
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
58 55 1.00
ACGTcount: A:0.40, C:0.08, G:0.17, T:0.34
Consensus pattern (58 bp):
AATTTGAAAACTTTTATAATAGAAAAAAGAATGCTATTTGATCCACTTGGATAATGGA
Found at i:2943443 original size:7 final size:7
Alignment explanation
Indices: 2943428--2943461 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
2943418 GGTCAGTTGA
2943428 TCTAGAG
1 TCTAGAG
*
2943435 TCCAGAG
1 TCTAGAG
2943442 TCTAGAG
1 TCTAGAG
2943449 TCTAGAG
1 TCTAGAG
2943456 TCTAGA
1 TCTAGA
2943462 TAAAGTAGCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.26
Consensus pattern (7 bp):
TCTAGAG
Found at i:2954720 original size:18 final size:18
Alignment explanation
Indices: 2954697--2954731 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2954687 AATTGACAAA
2954697 TTACTAACAAATGATATT
1 TTACTAACAAATGATATT
* *
2954715 TTACTAATAGATGATAT
1 TTACTAACAAATGATAT
2954732 AAATATTAAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.09, G:0.09, T:0.40
Consensus pattern (18 bp):
TTACTAACAAATGATATT
Found at i:2958354 original size:42 final size:42
Alignment explanation
Indices: 2958295--2958377 Score: 157
Period size: 42 Copynumber: 2.0 Consensus size: 42
2958285 ACTACCACTG
2958295 CTATTAGATTAAAATTAAAGCAAACTTAAATGCATAATGGAA
1 CTATTAGATTAAAATTAAAGCAAACTTAAATGCATAATGGAA
*
2958337 CTATTAGATTAAAATTAAAGCAAACTTAAATGCATATTGGA
1 CTATTAGATTAAAATTAAAGCAAACTTAAATGCATAATGGA
2958378 CATATGGAAG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.48, C:0.10, G:0.12, T:0.30
Consensus pattern (42 bp):
CTATTAGATTAAAATTAAAGCAAACTTAAATGCATAATGGAA
Found at i:2961219 original size:6 final size:6
Alignment explanation
Indices: 2961210--2961239 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
2961200 AGAAGGAGAC
*
2961210 GATGGT GATGGT GATGGT GATGGT GGTGGT
1 GATGGT GATGGT GATGGT GATGGT GATGGT
2961240 ATGAGGGAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.13, C:0.00, G:0.53, T:0.33
Consensus pattern (6 bp):
GATGGT
Found at i:2964761 original size:27 final size:26
Alignment explanation
Indices: 2964727--2964777 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
2964717 AATCTTAAAT
*
2964727 TTATTAAATATTATTT-TTTAAGTTGA
1 TTATTAAAT-TAATTTATTTAAGTTGA
2964753 TTATATAAATTAATTTATTTAAGTT
1 TTAT-TAAATTAATTTATTTAAGTT
2964778 TTAGATTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 9 0.41
27 13 0.59
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (26 bp):
TTATTAAATTAATTTATTTAAGTTGA
Found at i:2966641 original size:21 final size:21
Alignment explanation
Indices: 2966617--2966661 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
2966607 TTGTTGAAGT
2966617 ATTAAAATTTTAA-TTTAAATA
1 ATTAAAA-TTTAATTTTAAATA
*
2966638 ATTAAAATTTAATTTTTAATA
1 ATTAAAATTTAATTTTAAATA
2966659 ATT
1 ATT
2966662 TTAAATATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 5 0.23
21 17 0.77
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
ATTAAAATTTAATTTTAAATA
Found at i:2968300 original size:2 final size:2
Alignment explanation
Indices: 2968293--2968321 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2968283 TAAATAAATC
2968293 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2968322 ATCTCTTATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2970691 original size:63 final size:62
Alignment explanation
Indices: 2970656--2970781 Score: 207
Period size: 63 Copynumber: 2.0 Consensus size: 62
2970646 TATATATTAT
*
2970656 TATTTGCATGATTATATATTTAATCACATGTTTATTTGCATGATTTACATTGTTAATAACATG
1 TATTTACATGATTATATATTTAATCACATGTTTATTTGCATGA-TTACATTGTTAATAACATG
* *
2970719 TATTTACATGATTATATATTTAATCACATGTTTATTTGCATGATTTACGTTGTTAATAGCATG
1 TATTTACATGATTATATATTTAATCACATGTTTATTTGCATGA-TTACATTGTTAATAACATG
2970782 ATTATTAATT
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 60 1.00
ACGTcount: A:0.31, C:0.10, G:0.12, T:0.48
Consensus pattern (62 bp):
TATTTACATGATTATATATTTAATCACATGTTTATTTGCATGATTACATTGTTAATAACATG
Found at i:2970693 original size:32 final size:32
Alignment explanation
Indices: 2970655--2970763 Score: 152
Period size: 32 Copynumber: 3.4 Consensus size: 32
2970645 TTATATATTA
2970655 TTATTTGCATGATTATATATTTAATCACATGT
1 TTATTTGCATGATTATATATTTAATCACATGT
* *
2970687 TTATTTGCATGATT-TACATTGTTAATAACATG-
1 TTATTTGCATGATTATATA-T-TTAATCACATGT
*
2970719 -TATTTACATGATTATATATTTAATCACATGT
1 TTATTTGCATGATTATATATTTAATCACATGT
2970750 TTATTTGCATGATT
1 TTATTTGCATGATT
2970764 TACGTTGTTA
Statistics
Matches: 66, Mismatches: 6, Indels: 10
0.80 0.07 0.12
Matches are distributed among these distances:
30 10 0.15
31 16 0.24
32 30 0.45
33 10 0.15
ACGTcount: A:0.31, C:0.09, G:0.10, T:0.50
Consensus pattern (32 bp):
TTATTTGCATGATTATATATTTAATCACATGT
Found at i:2970873 original size:26 final size:24
Alignment explanation
Indices: 2970814--2970877 Score: 67
Period size: 26 Copynumber: 2.6 Consensus size: 24
2970804 TGATTGTATG
* *
2970814 ATTATTAATATATTTATTTGCATA
1 ATTATTTATTTATTTATTTGCATA
*
2970838 GTTATTTATTTATTTATTATTGCATA
1 ATTATTTATTTATTTA-T-TTGCATA
2970864 ATT-TTATATTTATT
1 ATTATT-TATTTATT
2970878 GCATAATATG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
24 13 0.39
25 3 0.09
26 17 0.52
ACGTcount: A:0.31, C:0.03, G:0.05, T:0.61
Consensus pattern (24 bp):
ATTATTTATTTATTTATTTGCATA
Found at i:2970891 original size:19 final size:19
Alignment explanation
Indices: 2970854--2970897 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
2970844 TATTTATTTA
* *
2970854 TTATTGCATAATTTTATAT
1 TTATTGCATAATATGATAT
2970873 TTATTGCATAATATGATAT
1 TTATTGCATAATATGATAT
2970892 TATATT
1 T-TATT
2970898 ATTGCATGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.34, C:0.05, G:0.07, T:0.55
Consensus pattern (19 bp):
TTATTGCATAATATGATAT
Found at i:2971133 original size:20 final size:18
Alignment explanation
Indices: 2971042--2971133 Score: 89
Period size: 20 Copynumber: 4.9 Consensus size: 18
2971032 CAAAAATAGT
*
2971042 TATTAATATATTTGCATGG
1 TATT-ATATATTTGCATGA
*
2971061 TATTTTATATTATTGCATGA
1 TATTATATA-T-TTGCATGA
*
2971081 TATTATATATTTACATGA
1 TATTATATATTTGCATGA
2971099 TTATTAT-TA-TTGCATGA
1 -TATTATATATTTGCATGA
2971116 TACTTAATATATTTGCAT
1 TA-TT-ATATATTTGCAT
2971134 AACATTCTTG
Statistics
Matches: 61, Mismatches: 5, Indels: 13
0.77 0.06 0.16
Matches are distributed among these distances:
16 2 0.03
17 9 0.15
18 15 0.25
19 14 0.23
20 21 0.34
ACGTcount: A:0.33, C:0.07, G:0.10, T:0.51
Consensus pattern (18 bp):
TATTATATATTTGCATGA
Found at i:2978667 original size:37 final size:36
Alignment explanation
Indices: 2978606--2978727 Score: 120
Period size: 37 Copynumber: 3.2 Consensus size: 36
2978596 GAAACTTCAG
2978606 TGGAGGAGTTTTTTTATTTTTTCAAAGTTAAAGGCTCGA
1 TGGAGGAG-TTTTTTA--TTTTCAAAGTTAAAGGCTCGA
*
2978645 TGGAGGAGTTTTTTATTATTCAAAGTTGAAGGCTC-A
1 TGGAGGAGTTTTTTATT-TTCAAAGTTAAAGGCTCGA
* ** * **
2978681 GTGGACGAGTACTTTATTTCTTAAAGTTAAACCCTCGA
1 -TGGAGGAGTTTTTTATTT-TCAAAGTTAAAGGCTCGA
2978719 TGGAGGAGT
1 TGGAGGAGT
2978728 ACTTTTTTTT
Statistics
Matches: 70, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
36 4 0.06
37 50 0.71
38 8 0.11
39 8 0.11
ACGTcount: A:0.27, C:0.11, G:0.25, T:0.38
Consensus pattern (36 bp):
TGGAGGAGTTTTTTATTTTCAAAGTTAAAGGCTCGA
Found at i:2979660 original size:30 final size:30
Alignment explanation
Indices: 2979626--2979689 Score: 103
Period size: 30 Copynumber: 2.1 Consensus size: 30
2979616 TTTTTCATGG
*
2979626 TTTATATATTA-TATTTACATGATTGTATGA
1 TTTATATATTATTATTTACATGATTATAT-A
2979656 TTTATATATTATTATTTACATGATTATATA
1 TTTATATATTATTATTTACATGATTATATA
2979686 TTTA
1 TTTA
2979690 ATTGCATGTT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 16 0.50
31 16 0.50
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.56
Consensus pattern (30 bp):
TTTATATATTATTATTTACATGATTATATA
Found at i:2979684 original size:52 final size:52
Alignment explanation
Indices: 2979627--2979853 Score: 190
Period size: 52 Copynumber: 4.3 Consensus size: 52
2979617 TTTTCATGGT
* * *
2979627 TTATATATTATATTTACATG-ATTGTATGATTTATATATTATTATTTACATGA
1 TTATATATT-TAATTACATGTATTGCATGATTTATATATTATTAGTTACATGA
* * *
2979679 TTATATATTTAATTGCATGTTTTGCATGATTTATGTATTATTAGTTACATGA
1 TTATATATTTAATTACATGTATTGCATGATTTATATATTATTAGTTACATGA
* * * * * *
2979731 TTATATATTTAATTGCATATTTATTTGCATGGTTTTATATATTTTTATTTACATAA
1 TTATATATTTAATT--ACATGTA-TTGCAT-GATTTATATATTATTAGTTACATGA
* ** * * * *
2979787 TTATATACTTAATCGCATGTTTATTTGCATGA-TT-TACATTGTTAATTGCATGA
1 TTATATATTTAATTACATG--TA-TTGCATGATTTATATATTATTAGTTACATGA
2979840 TTATATATTTAATT
1 TTATATATTTAATT
2979854 GTATGATTAT
Statistics
Matches: 140, Mismatches: 28, Indels: 13
0.77 0.15 0.07
Matches are distributed among these distances:
51 8 0.06
52 51 0.36
53 26 0.19
54 7 0.05
55 7 0.05
56 41 0.29
ACGTcount: A:0.31, C:0.06, G:0.10, T:0.53
Consensus pattern (52 bp):
TTATATATTTAATTACATGTATTGCATGATTTATATATTATTAGTTACATGA
Found at i:2979799 original size:56 final size:56
Alignment explanation
Indices: 2979654--2979854 Score: 236
Period size: 56 Copynumber: 3.7 Consensus size: 56
2979644 ATGATTGTAT
*
2979654 GATTTATATATTATTATTTACATGATTATATATTTAATTGC--ATGT-TTTGCAT-
1 GATTTATATATTATTATTTACATGATTATATATTTAATTGCATATTTATTTGCATG
* *
2979706 GATTTATGTATTATTAGTTACATGATTATATATTTAATTGCATATTTATTTGCATG
1 GATTTATATATTATTATTTACATGATTATATATTTAATTGCATATTTATTTGCATG
* * * * * *
2979762 GTTTTATATATTTTTATTTACATAATTATATACTTAATCGCATGTTTATTTGCAT-
1 GATTTATATATTATTATTTACATGATTATATATTTAATTGCATATTTATTTGCATG
* * * *
2979817 GA-TT-TACATTGTTAATTGCATGATTATATATTTAATTG
1 GATTTATATATTATTATTTACATGATTATATATTTAATTG
2979855 TATGATTATT
Statistics
Matches: 126, Mismatches: 19, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
52 39 0.31
53 27 0.21
54 5 0.04
55 8 0.06
56 47 0.37
ACGTcount: A:0.30, C:0.06, G:0.10, T:0.53
Consensus pattern (56 bp):
GATTTATATATTATTATTTACATGATTATATATTTAATTGCATATTTATTTGCATG
Found at i:2979853 original size:20 final size:21
Alignment explanation
Indices: 2979806--2979863 Score: 66
Period size: 20 Copynumber: 2.8 Consensus size: 21
2979796 TAATCGCATG
*
2979806 TTTATTTGCATGATT-TACAT
1 TTTAATTGCATGATTATACAT
*
2979826 TGTTAATTGCATGATTATATA-
1 T-TTAATTGCATGATTATACAT
*
2979847 TTTAATTGTATGATTAT
1 TTTAATTGCATGATTAT
2979864 TAATTTATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 16 0.48
21 14 0.42
22 3 0.09
ACGTcount: A:0.29, C:0.05, G:0.12, T:0.53
Consensus pattern (21 bp):
TTTAATTGCATGATTATACAT
Found at i:2979873 original size:24 final size:25
Alignment explanation
Indices: 2979845--2979893 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
2979835 CATGATTATA
2979845 TATTTAATTGTATGATTAT-TAATT
1 TATTTAATTGTATGATTATATAATT
* *
2979869 TATTTATTTGTGTGATTATATAATT
1 TATTTAATTGTATGATTATATAATT
2979894 ATTAATATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 17 0.77
25 5 0.23
ACGTcount: A:0.31, C:0.00, G:0.10, T:0.59
Consensus pattern (25 bp):
TATTTAATTGTATGATTATATAATT
Found at i:2979955 original size:19 final size:20
Alignment explanation
Indices: 2979933--2980006 Score: 53
Period size: 19 Copynumber: 3.6 Consensus size: 20
2979923 TTTATTATTA
*
2979933 TTATTGCATGATT-TTATAT
1 TTATTGCATGATTAATATAT
* * *
2979952 TTATTACATAATATGATATTAT
1 TTATTGCATGAT-TAATA-TAT
*
2979974 ATTATTGCATGATTAGTAT-T
1 -TTATTGCATGATTAATATAT
2979994 TTATTTGCATGAT
1 TTA-TTGCATGAT
2980007 ATCGAATTTC
Statistics
Matches: 43, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
19 13 0.30
20 11 0.26
21 3 0.07
22 6 0.14
23 10 0.23
ACGTcount: A:0.31, C:0.05, G:0.11, T:0.53
Consensus pattern (20 bp):
TTATTGCATGATTAATATAT
Found at i:2980343 original size:20 final size:20
Alignment explanation
Indices: 2980310--2980348 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
2980300 TGTGTGATTT
*
2980310 TATTTGATTTCATGATTATA
1 TATTTGATTGCATGATTATA
* *
2980330 TATTTGCTTGCATGGTTAT
1 TATTTGATTGCATGATTAT
2980349 TAATATATTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.23, C:0.08, G:0.15, T:0.54
Consensus pattern (20 bp):
TATTTGATTGCATGATTATA
Found at i:2980407 original size:58 final size:57
Alignment explanation
Indices: 2980286--2980408 Score: 128
Period size: 58 Copynumber: 2.1 Consensus size: 57
2980276 ACTTATTGGT
* * *
2980286 ATTATTAATATATTTGTGTGATTTTATTTGATTTCATGATTATATATTTGCTTGCATG
1 ATTATTAATATATTTGTGTGATTTTATTTGATTGCATGATTATATATAT-CTTACATG
*
2980344 GTTATTAATATATTTGCATG-GTATTTTATATT-ATTGCATGA-TATTATATAT-TTACATG
1 ATTATTAATATATTTG--TGTG-ATTTTAT-TTGATTGCATGATTA-TATATATCTTACATG
2980402 ATTATTA
1 ATTATTA
2980409 TTATTGTATG
Statistics
Matches: 55, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
58 27 0.49
59 3 0.05
60 23 0.42
61 2 0.04
ACGTcount: A:0.29, C:0.05, G:0.12, T:0.54
Consensus pattern (57 bp):
ATTATTAATATATTTGTGTGATTTTATTTGATTGCATGATTATATATATCTTACATG
Found at i:2980439 original size:20 final size:19
Alignment explanation
Indices: 2980337--2980439 Score: 79
Period size: 20 Copynumber: 5.4 Consensus size: 19
2980327 ATATATTTGC
* *
2980337 TTGCATGGTTATTAATATAT
1 TTGCATGATAATT-ATATAT
* *
2980357 TTGCATGGT-ATTTTATATT
1 TTGCATGATAATTATATA-T
2980376 ATTGCATGAT-ATTATATAT
1 -TTGCATGATAATTATATAT
* *
2980395 TTACATGATTATTAT-TA-
1 TTGCATGATAATTATATAT
*
2980412 TTGTATGATAATTAATATAT
1 TTGCATGATAATT-ATATAT
2980432 TTGCATGA
1 TTGCATGA
2980440 CATTCATGCA
Statistics
Matches: 69, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
17 10 0.14
18 16 0.23
19 12 0.17
20 31 0.45
ACGTcount: A:0.32, C:0.05, G:0.13, T:0.50
Consensus pattern (19 bp):
TTGCATGATAATTATATAT
Found at i:2984003 original size:24 final size:24
Alignment explanation
Indices: 2983976--2984028 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
2983966 AATAATAATT
2983976 ATTATTATAATTATAATTAAAAAA
1 ATTATTATAATTATAATTAAAAAA
*
2984000 ATTATTGTAATTATAATTAAAAAA
1 ATTATTATAATTATAATTAAAAAA
*
2984024 TTTAT
1 ATTAT
2984029 ATTAAATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (24 bp):
ATTATTATAATTATAATTAAAAAA
Found at i:2984050 original size:15 final size:15
Alignment explanation
Indices: 2984010--2984048 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
2984000 ATTATTGTAA
2984010 TTATAATTAAA-AAAT
1 TTAT-ATTAAATAAAT
2984025 TTATATTAAATAAAT
1 TTATATTAAATAAAT
2984040 TT-TATTAAA
1 TTATATTAAA
2984049 ATTAATATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 13 0.57
15 10 0.43
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
TTATATTAAATAAAT
Found at i:2988928 original size:15 final size:15
Alignment explanation
Indices: 2988908--2988945 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
2988898 TTAAAATTAG
* *
2988908 TTAATTATACTATAA
1 TTAATTATACGACAA
2988923 TTAATTATACGACAA
1 TTAATTATACGACAA
2988938 -TAATTATA
1 TTAATTATA
2988946 AATAATATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.42
Consensus pattern (15 bp):
TTAATTATACGACAA
Found at i:2990197 original size:30 final size:30
Alignment explanation
Indices: 2990163--2990236 Score: 85
Period size: 30 Copynumber: 2.5 Consensus size: 30
2990153 CTTTGGACTC
*
2990163 AAATAAGTTTTTAAAGGTTAATTTATATAT
1 AAATAAGTTTTTAAACGTTAATTTATATAT
* * ** * *
2990193 AAATAAATTATTAGTCTTTAATTTGTATAT
1 AAATAAGTTTTTAAACGTTAATTTATATAT
2990223 AAATAAGTTTTTAA
1 AAATAAGTTTTTAA
2990237 CATAAATTAA
Statistics
Matches: 34, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.43, C:0.01, G:0.08, T:0.47
Consensus pattern (30 bp):
AAATAAGTTTTTAAACGTTAATTTATATAT
Found at i:2990243 original size:17 final size:18
Alignment explanation
Indices: 2990221--2990254 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2990211 TAATTTGTAT
2990221 ATAAA-TAAGTTTTTAAC
1 ATAAATTAAGTTTTTAAC
*
2990238 ATAAATTAATTTTTTAA
1 ATAAATTAAGTTTTTAA
2990255 TTTAAAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (18 bp):
ATAAATTAAGTTTTTAAC
Found at i:2991217 original size:14 final size:15
Alignment explanation
Indices: 2991187--2991256 Score: 58
Period size: 15 Copynumber: 4.9 Consensus size: 15
2991177 AATTTTTAAT
2991187 ATATTTATTAAATAA
1 ATATTTATTAAATAA
2991202 ATATTT-TT-AATAA
1 ATATTTATTAAATAA
* *
2991215 A-A-TTATTGATTGAA
1 ATATTTATTAAAT-AA
* *
2991229 ATTTTTATTGAATAA
1 ATATTTATTAAATAA
*
2991244 ATATTGATTAAAT
1 ATATTTATTAAAT
2991257 TTAAATTATA
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
11 2 0.05
12 3 0.07
13 8 0.18
14 5 0.11
15 18 0.41
16 8 0.18
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.49
Consensus pattern (15 bp):
ATATTTATTAAATAA
Found at i:2991230 original size:27 final size:26
Alignment explanation
Indices: 2991173--2991256 Score: 75
Period size: 26 Copynumber: 3.2 Consensus size: 26
2991163 CATAAAATTT
* * *
2991173 TTAAA-ATTTTTAATATATTTATTAA
1 TTAAATATTTTTAATAAAATTATTGA
*
2991198 ATAAATATTTTTAATAAAATTATTGA
1 TTAAATATTTTTAATAAAATTATTGA
*
2991224 TTGAAATTTTTATTGAAT-AAA-TATTGA
1 TT-AAATATTT-TT-AATAAAATTATTGA
2991251 TTAAAT
1 TTAAAT
2991257 TTAAATTATA
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
25 4 0.08
26 22 0.45
27 15 0.31
28 5 0.10
29 3 0.06
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (26 bp):
TTAAATATTTTTAATAAAATTATTGA
Found at i:2991369 original size:26 final size:27
Alignment explanation
Indices: 2991339--2991396 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 27
2991329 TCAATTTAAA
* ** *
2991339 TATTTTTATTAAATTTTTTATATACTC
1 TATTTTTAATAAAAATTTCATATACTC
2991366 -ATTTTTAATAAAAATTTCATATACTC
1 TATTTTTAATAAAAATTTCATATACTC
2991392 TATTT
1 TATTT
2991397 ATAAAACTTC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 22 0.85
27 4 0.15
ACGTcount: A:0.34, C:0.09, G:0.00, T:0.57
Consensus pattern (27 bp):
TATTTTTAATAAAAATTTCATATACTC
Found at i:2991407 original size:23 final size:26
Alignment explanation
Indices: 2991358--2991411 Score: 69
Period size: 23 Copynumber: 2.2 Consensus size: 26
2991348 TAAATTTTTT
* *
2991358 ATATACTCATTTTTAATAAAAATTTC
1 ATATACTCATATTTAATAAAAACTTC
2991384 ATATACTC-TATTT-AT-AAAACTTC
1 ATATACTCATATTTAATAAAAACTTC
2991407 ATATA
1 ATATA
2991412 AATTTTATAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 12 0.46
24 2 0.08
25 4 0.15
26 8 0.31
ACGTcount: A:0.43, C:0.13, G:0.00, T:0.44
Consensus pattern (26 bp):
ATATACTCATATTTAATAAAAACTTC
Found at i:2991990 original size:19 final size:21
Alignment explanation
Indices: 2991947--2991992 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
2991937 TTTTAAATTA
*
2991947 AAATTAAAATTATGATTCATTT
1 AAATTAAAATAATGATT-ATTT
2991969 AAATTAAAATAAT-ATT-TTT
1 AAATTAAAATAATGATTATTT
2991988 AAATT
1 AAATT
2991993 TAATAAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 8 0.35
21 3 0.13
22 12 0.52
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (21 bp):
AAATTAAAATAATGATTATTT
Found at i:2992180 original size:23 final size:23
Alignment explanation
Indices: 2992134--2992182 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
2992124 AAATTTTTTT
* **
2992134 AATTTATATATATTTATTTTTAA
1 AATTAATATATATTTATTAATAA
*
2992157 AATTAATATTTATTTATTAATAA
1 AATTAATATATATTTATTAATAA
2992180 AAT
1 AAT
2992183 ATTATCATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
AATTAATATATATTTATTAATAA
Found at i:2992183 original size:19 final size:18
Alignment explanation
Indices: 2992143--2992185 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
2992133 TAATTTATAT
2992143 ATATTTATTTTTAAAATTA
1 ATATTTATTTTTAAAA-TA
2992162 ATATTTATTTATTAATAA-A
1 ATATTTATTT-TTAA-AATA
2992181 ATATT
1 ATATT
2992186 ATCATTTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 16 0.73
20 4 0.18
21 2 0.09
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
ATATTTATTTTTAAAATA
Found at i:2992280 original size:2 final size:2
Alignment explanation
Indices: 2992273--2992305 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2992263 ATTTTTGTGG
2992273 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2992306 GTAAGCGTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3005248 original size:26 final size:27
Alignment explanation
Indices: 3005212--3005287 Score: 91
Period size: 32 Copynumber: 2.7 Consensus size: 27
3005202 TGAACAATTG
*
3005212 ATAATTTTACTAGACTTA-CGGTAAAA
1 ATAATTTTACTAGACTTATCAGTAAAA
3005238 ATAATTTTACTAGACTTATTTTATCAGTAAAA
1 ATAATTTTACTAGAC-----TTATCAGTAAAA
3005270 ATAATTTTACTAGACTTA
1 ATAATTTTACTAGACTTA
3005288 AAATTAGTGG
Statistics
Matches: 43, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
26 15 0.35
27 3 0.07
31 3 0.07
32 22 0.51
ACGTcount: A:0.41, C:0.11, G:0.08, T:0.41
Consensus pattern (27 bp):
ATAATTTTACTAGACTTATCAGTAAAA
Found at i:3005860 original size:20 final size:20
Alignment explanation
Indices: 3005835--3005873 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
3005825 TTTTTAAAAT
3005835 ATGAAATTTAATATTTTAAG
1 ATGAAATTTAATATTTTAAG
*
3005855 ATGAAATTTCATATTTTAA
1 ATGAAATTTAATATTTTAA
3005874 CTGGTGTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.46
Consensus pattern (20 bp):
ATGAAATTTAATATTTTAAG
Found at i:3005962 original size:2 final size:2
Alignment explanation
Indices: 3005955--3005984 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
3005945 TGCACTGGTA
3005955 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3005985 GATCGAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3008665 original size:14 final size:14
Alignment explanation
Indices: 3008633--3008674 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
3008623 AATGACAAAT
3008633 ATCTATTTATT-T-
1 ATCTATTTATTGTC
3008645 A-CTATTTATTGTC
1 ATCTATTTATTGTC
*
3008658 ATCTATTTATTGCC
1 ATCTATTTATTGTC
3008672 ATC
1 ATC
3008675 CTTAATTGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
11 9 0.35
12 2 0.08
13 1 0.04
14 14 0.54
ACGTcount: A:0.24, C:0.17, G:0.05, T:0.55
Consensus pattern (14 bp):
ATCTATTTATTGTC
Found at i:3010006 original size:19 final size:19
Alignment explanation
Indices: 3009984--3010020 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
3009974 CACTACATGC
3009984 ACAAATAAACATGAATAAT
1 ACAAATAAACATGAATAAT
* *
3010003 ACAAATATATATGAATAA
1 ACAAATAAACATGAATAA
3010021 ACACGACTAA
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:0.62, C:0.08, G:0.05, T:0.24
Consensus pattern (19 bp):
ACAAATAAACATGAATAAT
Found at i:3010065 original size:28 final size:29
Alignment explanation
Indices: 3009987--3010073 Score: 104
Period size: 29 Copynumber: 3.0 Consensus size: 29
3009977 TACATGCACA
* * * *
3009987 AATAAACATGAATAATACAAATATATATG
1 AATAAACACGACTAACACGAATATATATG
*
3010016 AATAAACACGACTAACACGAATATACATG
1 AATAAACACGACTAACACGAATATATATG
* *
3010045 AATAGATA-GACTAACACGAATATATATG
1 AATAAACACGACTAACACGAATATATATG
3010073 A
1 A
3010074 GTATTATAAT
Statistics
Matches: 50, Mismatches: 8, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
28 20 0.40
29 30 0.60
ACGTcount: A:0.54, C:0.13, G:0.10, T:0.23
Consensus pattern (29 bp):
AATAAACACGACTAACACGAATATATATG
Found at i:3020006 original size:165 final size:165
Alignment explanation
Indices: 3019735--3020062 Score: 629
Period size: 165 Copynumber: 2.0 Consensus size: 165
3019725 CAAAACCAGA
*
3019735 ATATATATATATATAACAGCCGAACATGTTTCCAAGCCGACGTTATCACTGTTGTAGTTGAGTGC
1 ATATATATATATAAAACAGCCGAACATGTTTCCAAGCCGACGTTATCACTGTTGTAGTTGAGTGC
*
3019800 CATGGATGACACGGTTGGATACCAACTTGCCAATGAAAGGAAAAATGAGAAACAGATAGCTAATG
66 CATGGATGACACGGTTGCATACCAACTTGCCAATGAAAGGAAAAATGAGAAACAGATAGCTAATG
*
3019865 ACCATGTAGTCTCAACACTATCAATTCTTCACCCT
131 ACCATGTAGTCACAACACTATCAATTCTTCACCCT
3019900 ATATATATATATAAAACAGCCGAACATGTTTCCAAGCCGACGTTATCACTGTTGTAGTTGAGTGC
1 ATATATATATATAAAACAGCCGAACATGTTTCCAAGCCGACGTTATCACTGTTGTAGTTGAGTGC
3019965 CATGGATGACACGGTTGCATACCAACTTGCCAATGAAAGGAAAAATGAGAAACAGATAGCTAATG
66 CATGGATGACACGGTTGCATACCAACTTGCCAATGAAAGGAAAAATGAGAAACAGATAGCTAATG
3020030 ACCATGTAGTCACAACACTATCAATTCTTCACC
131 ACCATGTAGTCACAACACTATCAATTCTTCACC
3020063 AAAATGGACC
Statistics
Matches: 160, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
165 160 1.00
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (165 bp):
ATATATATATATAAAACAGCCGAACATGTTTCCAAGCCGACGTTATCACTGTTGTAGTTGAGTGC
CATGGATGACACGGTTGCATACCAACTTGCCAATGAAAGGAAAAATGAGAAACAGATAGCTAATG
ACCATGTAGTCACAACACTATCAATTCTTCACCCT
Found at i:3021191 original size:74 final size:72
Alignment explanation
Indices: 3021037--3021202 Score: 215
Period size: 74 Copynumber: 2.3 Consensus size: 72
3021027 TTAAAAACAC
* * * *
3021037 AATTTTTGTTAAAAAGATGAAAAATTATTTTTCATAATTCAACAAAAATAACCTTTTTAAAATAA
1 AATTTTTGTTAAAAAAATAAAAAATTATTTTTCAAAATTCAACAAAAATAACCTTTTAAAAATAA
3021102 AAAAGGT
66 AAAAGGT
* * * * *
3021109 AATTTTTGTTAAAAATATAATAAAATTATTTTTTAAAATTTAACAAAGATGAACGTTTTAAAAAT
1 AATTTTTGTTAAAAAAATAA-AAAATTATTTTTCAAAATTCAACAAAAAT-AACCTTTTAAAAAT
* *
3021174 TAAAAATGT
64 AAAAAAGGT
3021183 AATTTTTGTTAAAAAAATAA
1 AATTTTTGTTAAAAAAATAA
3021203 CATTTCTAAG
Statistics
Matches: 81, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
72 18 0.22
73 25 0.31
74 38 0.47
ACGTcount: A:0.51, C:0.04, G:0.07, T:0.39
Consensus pattern (72 bp):
AATTTTTGTTAAAAAAATAAAAAATTATTTTTCAAAATTCAACAAAAATAACCTTTTAAAAATAA
AAAAGGT
Found at i:3025232 original size:18 final size:18
Alignment explanation
Indices: 3025209--3025245 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
3025199 GCTCAATGAA
3025209 CTCATTTTTGAATTTGAT
1 CTCATTTTTGAATTTGAT
3025227 CTCATTTTTGAATTTGAT
1 CTCATTTTTGAATTTGAT
3025245 C
1 C
3025246 AACACAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.22, C:0.14, G:0.11, T:0.54
Consensus pattern (18 bp):
CTCATTTTTGAATTTGAT
Found at i:3025852 original size:48 final size:48
Alignment explanation
Indices: 3025781--3025877 Score: 149
Period size: 48 Copynumber: 2.0 Consensus size: 48
3025771 AACAAAGATA
*
3025781 GAAGAAAAGTCCTATCCACAAGTCCTCATTGACATATACAATGTTCAT
1 GAAGAAAAGACCTATCCACAAGTCCTCATTGACATATACAATGTTCAT
* ** *
3025829 GAAGAAAAGAGCTATCCACAAGTCCTTGTTGACATGTACAATGTTCAT
1 GAAGAAAAGACCTATCCACAAGTCCTCATTGACATATACAATGTTCAT
3025877 G
1 G
3025878 GTTGGAAGCA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.27
Consensus pattern (48 bp):
GAAGAAAAGACCTATCCACAAGTCCTCATTGACATATACAATGTTCAT
Found at i:3033385 original size:155 final size:155
Alignment explanation
Indices: 3033099--3033410 Score: 493
Period size: 155 Copynumber: 2.0 Consensus size: 155
3033089 ATGAATTTTT
* *
3033099 TTTTGGGCATTTTAGTTAAGTTAATTGTTCTAGTTTTTTATTAGTCAGGATACCAAACATGATTT
1 TTTTGGGCATTTTAGTTAAGTTAATTGTTCTAGTTTTTGATTAATCAGGATACCAAACATGATTT
** *
3033164 GACTTTGTAATTTTCAATTTTTTAACAGTTTCTTATTTTTATTAATTTTTGTAGGTTTTGACTCT
66 GACTTTGTAATTTTCAAAATTTTAACAGTTTCTTATTTTTATTAATTTTTGTAGGCTTTGACTCT
3033229 CATTTCTCTGTTTCTTATGACTCAA
131 CATTTCTCTGTTTCTTATGACTCAA
* * * *
3033254 TTTTGGGTC-TTTTAGTTAAGTTAATTGTTGTTGTTTTTGATTAATCAGGATGCTAAACATGATT
1 TTTTGGG-CATTTTAGTTAAGTTAATTGTTCTAGTTTTTGATTAATCAGGATACCAAACATGATT
*
3033318 TGACTTTGTAATTTTCAAAATTTTAACAGTTTCTTATTTTTATTAATTGTTT-TAGGCTTTGATT
65 TGACTTTGTAATTTTCAAAATTTTAACAGTTTCTTATTTTTATTAATT-TTTGTAGGCTTTGACT
*
3033382 CTCATTTCTTTGTTTCTTATGACTCAA
129 CTCATTTCTCTGTTTCTTATGACTCAA
3033409 TT
1 TT
3033411 AAGAATTGTG
Statistics
Matches: 144, Mismatches: 11, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
155 140 0.97
156 4 0.03
ACGTcount: A:0.23, C:0.11, G:0.13, T:0.53
Consensus pattern (155 bp):
TTTTGGGCATTTTAGTTAAGTTAATTGTTCTAGTTTTTGATTAATCAGGATACCAAACATGATTT
GACTTTGTAATTTTCAAAATTTTAACAGTTTCTTATTTTTATTAATTTTTGTAGGCTTTGACTCT
CATTTCTCTGTTTCTTATGACTCAA
Found at i:3045361 original size:131 final size:131
Alignment explanation
Indices: 3044971--3045364 Score: 450
Period size: 131 Copynumber: 3.0 Consensus size: 131
3044961 AATCGTTAGC
* * * ** **
3044971 TTTCAATGGCAACTCCTGTAGTTTGGTTTGATATTGCTTTCATTGTGCCTGCTGAAGCAGTTGAA
1 TTTCAATGGTAACCCCTGTAGTTTGGTTTGAAATTGCTTTCATTCAGCCTGCTGAAGCAGTAAAA
* * * * * * *
3045036 TTTAAATATTCTCGGGGTCACAAAGG-TTTGTGTCTTCTGTACTGGAATTAATTCAATCTACCTC
66 ATTAGATATTCTCAGGATCA-TAAGGATTTGTGTCTTCTGTACTGGAATTAATTCAATCTATCTG
3045100 GG
130 GG
** * * * *
3045102 TTTCTTTGGTAACCCATCTAGTTTGGTTTGAAATTGCTTTCATTCAGCCTTCTGAAGAAGTAAAA
1 TTTCAATGGTAACCCCTGTAGTTTGGTTTGAAATTGCTTTCATTCAGCCTGCTGAAGCAGTAAAA
* * * * * * *
3045167 AATAGGTATTCTGAGGATCATAAAGATTTGTGTCTTCTGTGCTGGAACTT-TTTCTATCTATCTG
66 ATTAGATATTCTCAGGATCATAAGGATTTGTGTCTTCTGTACTGGAA-TTAATTCAATCTATCTG
3045231 GG
130 GG
* * *
3045233 TTTCAATGGTAACCCCTGTAGTTTGGTTTGAAATTTCTATGATTCAGCCTGCTGAAGCAGTAAAA
1 TTTCAATGGTAACCCCTGTAGTTTGGTTTGAAATTGCTTTCATTCAGCCTGCTGAAGCAGTAAAA
* * * *
3045298 ATTAGCTATTCTCAGGATCATAAGGATTTGTGTCTTCTGTTCTGGAATTAATTGAATCCATCTGG
66 ATTAGATATTCTCAGGATCATAAGGATTTGTGTCTTCTGTACTGGAATTAATTCAATCTATCTGG
3045363 G
131 G
3045364 T
1 T
3045365 CATGTTCTCG
Statistics
Matches: 215, Mismatches: 45, Indels: 6
0.81 0.17 0.02
Matches are distributed among these distances:
130 5 0.02
131 208 0.97
132 2 0.01
ACGTcount: A:0.24, C:0.16, G:0.21, T:0.39
Consensus pattern (131 bp):
TTTCAATGGTAACCCCTGTAGTTTGGTTTGAAATTGCTTTCATTCAGCCTGCTGAAGCAGTAAAA
ATTAGATATTCTCAGGATCATAAGGATTTGTGTCTTCTGTACTGGAATTAATTCAATCTATCTGG
G
Found at i:3047004 original size:2 final size:2
Alignment explanation
Indices: 3046999--3047027 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
3046989 TGTGTGTATT
3046999 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3047028 CCTACATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3062740 original size:90 final size:90
Alignment explanation
Indices: 3062586--3062765 Score: 297
Period size: 90 Copynumber: 2.0 Consensus size: 90
3062576 TAAATGATAG
* ** * *
3062586 TTTCTGGGCTAAGACAGTGCACTAGTATTATCAGATTATGTTGAATTGCTGTATTTATATTTAGT
1 TTTCTGGGCTAAGACAGTGCACTAGAATTATCAGATTATGTTGAATTGCAATATCTATAGTTAGT
3062651 TATAACCTGCAAATTGCTTTTACTA
66 TATAACCTGCAAATTGCTTTTACTA
* *
3062676 TTTCTGGGCTAAGACAGTGTACTAGAATTATCGGATTATGTTGAATTGCAATATCTATAGTTAGT
1 TTTCTGGGCTAAGACAGTGCACTAGAATTATCAGATTATGTTGAATTGCAATATCTATAGTTAGT
3062741 TATAACCTGCAAATTGCTTTTACTA
66 TATAACCTGCAAATTGCTTTTACTA
3062766 CCCAGAGTTA
Statistics
Matches: 83, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
90 83 1.00
ACGTcount: A:0.29, C:0.13, G:0.17, T:0.41
Consensus pattern (90 bp):
TTTCTGGGCTAAGACAGTGCACTAGAATTATCAGATTATGTTGAATTGCAATATCTATAGTTAGT
TATAACCTGCAAATTGCTTTTACTA
Found at i:3063784 original size:12 final size:12
Alignment explanation
Indices: 3063767--3063801 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
3063757 TGTGTGTGTG
3063767 TGTGTATGTATT
1 TGTGTATGTATT
3063779 TGTGTATGTATT
1 TGTGTATGTATT
*
3063791 TATGTATGTAT
1 TGTGTATGTAT
3063802 ATAGTAGATG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.20, C:0.00, G:0.23, T:0.57
Consensus pattern (12 bp):
TGTGTATGTATT
Found at i:3065010 original size:21 final size:23
Alignment explanation
Indices: 3064963--3065012 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 23
3064953 GTGCTTTTGT
*
3064963 TTAAATCTATTATTAATATTTAT
1 TTAAATCTATTATTAATATTTAA
* *
3064986 TTAAATC-ATT-TTTATTTTTAA
1 TTAAATCTATTATTAATATTTAA
3065007 TTAAAT
1 TTAAAT
3065013 TTTATTTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 14 0.58
22 3 0.12
23 7 0.29
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (23 bp):
TTAAATCTATTATTAATATTTAA
Found at i:3066352 original size:13 final size:13
Alignment explanation
Indices: 3066320--3066356 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
3066310 ATATGTTAAC
*
3066320 TTTTTTCCTTTTT
1 TTTTTTTCTTTTT
3066333 TTTTTTTCTTTTT
1 TTTTTTTCTTTTT
3066346 TTTTTTT-TTTT
1 TTTTTTTCTTTT
3066357 GTTGTGTTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 4 0.17
13 19 0.83
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (13 bp):
TTTTTTTCTTTTT
Found at i:3075499 original size:25 final size:25
Alignment explanation
Indices: 3075479--3075525 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
3075469 TTTTATCCTA
*
3075479 ATAGGGATGGAGATGGGTTATGAGT
1 ATAGGGATGGAGATGGGTTATGACT
*
3075504 ATAGGGATGGGGATGGG-TATGA
1 ATAGGGATGGAGATGGGTTATGA
3075526 TTTTAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 5 0.24
25 16 0.76
ACGTcount: A:0.28, C:0.00, G:0.47, T:0.26
Consensus pattern (25 bp):
ATAGGGATGGAGATGGGTTATGACT
Found at i:3078377 original size:18 final size:19
Alignment explanation
Indices: 3078338--3078379 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
3078328 AGATGTTTAT
*
3078338 TTAATAGAAAATTGATTAA
1 TTAATAGAAAAGTGATTAA
3078357 TTAATA-AAAAGTGACTT-A
1 TTAATAGAAAAGTGA-TTAA
3078375 TTAAT
1 TTAAT
3078380 CAATGAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.50, C:0.02, G:0.10, T:0.38
Consensus pattern (19 bp):
TTAATAGAAAAGTGATTAA
Found at i:3078521 original size:15 final size:15
Alignment explanation
Indices: 3078503--3078667 Score: 62
Period size: 15 Copynumber: 10.7 Consensus size: 15
3078493 ATTTATAAAT
3078503 AATATTATAATAATA
1 AATATTATAATAATA
*
3078518 AATATTATTATATTATTA
1 AATATTA-TA-A-TAATA
*
3078536 TATATTGATATATTAATA
1 AATATT-ATA-A-TAATA
* *
3078554 AATAATATAATTATAA
1 AATATTATAATAAT-A
3078570 ATATTATTGATTTAATTAATA
1 A-A-TATT-A--TAA-TAATA
3078591 AATATTATAATAATA
1 AATATTATAATAATA
* *
3078606 TATGAATA-AATAATA
1 AAT-ATTATAATAATA
3078621 AACTA-T-TAAT-AT-
1 AA-TATTATAATAATA
3078633 AATA-TAT--TAATA
1 AATATTATAATAATA
3078645 AATATTAT--TAATA
1 AATATTATAATAATA
*
3078658 AATAATATAA
1 AATATTATAA
3078668 AGAATAATAA
Statistics
Matches: 118, Mismatches: 12, Indels: 40
0.69 0.07 0.24
Matches are distributed among these distances:
10 1 0.01
11 5 0.04
12 7 0.06
13 17 0.14
14 4 0.03
15 26 0.22
16 12 0.10
17 5 0.04
18 26 0.22
19 6 0.05
20 1 0.01
21 5 0.04
22 3 0.03
ACGTcount: A:0.54, C:0.01, G:0.02, T:0.44
Consensus pattern (15 bp):
AATATTATAATAATA
Found at i:3078526 original size:31 final size:31
Alignment explanation
Indices: 3078491--3078680 Score: 87
Period size: 32 Copynumber: 6.0 Consensus size: 31
3078481 GAGTATAATT
3078491 TTATTTATAAATAATATTATAATAATAAATA
1 TTATTTATAAATAATATTATAATAATAAATA
* *
3078522 TTATTATATTATTATATATTGATATATTAATAAATAA
1 TTATT-TATAAATA-ATATT-ATA-A-TAATAAAT-A
* *
3078559 TATAATTATAAATATTATTGATTTAATTAATAAATA
1 T-TATTTATAAATAATATT-A--TAA-TAATAAATA
* *
3078595 TTA-TAAT-AAT-ATATGAATAAATAATAAACTA
1 TTATTTATAAATAATAT-TAT-AATAATAAA-TA
3078626 TTA---AT--ATAATA-TAT--TAATAAATA
1 TTATTTATAAATAATATTATAATAATAAATA
* * *
3078649 TTATTAATAAATAATATAAAGAATAATAAATA
1 TTATTTATAAATAATAT-TATAATAATAAATA
3078681 GTTTTATTTT
Statistics
Matches: 125, Mismatches: 12, Indels: 43
0.69 0.07 0.24
Matches are distributed among these distances:
23 5 0.04
24 7 0.06
26 2 0.02
27 2 0.02
28 8 0.06
29 5 0.04
30 9 0.07
31 12 0.10
32 19 0.15
33 8 0.06
34 6 0.05
35 3 0.02
36 16 0.13
37 18 0.14
38 5 0.04
ACGTcount: A:0.54, C:0.01, G:0.02, T:0.43
Consensus pattern (31 bp):
TTATTTATAAATAATATTATAATAATAAATA
Found at i:3078553 original size:36 final size:37
Alignment explanation
Indices: 3078495--3078598 Score: 112
Period size: 36 Copynumber: 2.9 Consensus size: 37
3078485 ATAATTTTAT
*
3078495 TTATAAATAATATT-ATA-A-TAATAAATATTATTATA
1 TTATAAATATTATTGATATATTAATAAATATTATTA-A
* *
3078530 TTAT-TATA-TATTGATATATTAATAAATAATA-TAA
1 TTATAAATATTATTGATATATTAATAAATATTATTAA
*
3078564 TTATAAATATTATTGATTTAATTAATAAATATTAT
1 TTATAAATATTATTGATAT-ATTAATAAATATTAT
3078599 AATAATATAT
Statistics
Matches: 57, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
33 4 0.07
34 11 0.19
35 10 0.18
36 19 0.33
37 13 0.23
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (37 bp):
TTATAAATATTATTGATATATTAATAAATATTATTAA
Found at i:3078640 original size:13 final size:13
Alignment explanation
Indices: 3078624--3078661 Score: 60
Period size: 13 Copynumber: 2.9 Consensus size: 13
3078614 AATAATAAAC
3078624 TATTAATATAATA-
1 TATTAATA-AATAT
3078637 TATTAATAAATAT
1 TATTAATAAATAT
3078650 TATTAATAAATA
1 TATTAATAAATA
3078662 ATATAAAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 4 0.17
13 20 0.83
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
TATTAATAAATAT
Found at i:3078667 original size:9 final size:10
Alignment explanation
Indices: 3078586--3078680 Score: 52
Period size: 13 Copynumber: 8.9 Consensus size: 10
3078576 TTGATTTAAT
3078586 TAATAAAT-A
1 TAATAAATAA
*
3078595 TTAT-AATAA
1 TAATAAATAA
*
3078604 TATATGAATAAA
1 TA-ATAAAT-AA
*
3078616 TAATAAACTAT
1 TAATAAA-TAA
3078627 TAATATAATATA
1 TAATA-AATA-A
3078639 TTAATAAATATTA
1 -TAATAAATA--A
3078652 TTAATAAATAA
1 -TAATAAATAA
*
3078663 T-ATAAAGAA
1 TAATAAATAA
3078672 TAATAAATA
1 TAATAAATA
3078681 GTTTTATTTT
Statistics
Matches: 69, Mismatches: 7, Indels: 19
0.73 0.07 0.20
Matches are distributed among these distances:
8 3 0.04
9 13 0.19
10 9 0.13
11 16 0.23
12 11 0.16
13 17 0.25
ACGTcount: A:0.60, C:0.01, G:0.02, T:0.37
Consensus pattern (10 bp):
TAATAAATAA
Found at i:3102122 original size:2 final size:2
Alignment explanation
Indices: 3102115--3102150 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
3102105 CTTGATCATA
*
3102115 AC AC AC AC AC AC AC AC CC AC AC AC AC AC AC A- AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
3102151 AAACCCACAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:3103581 original size:14 final size:15
Alignment explanation
Indices: 3103547--3103576 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
3103537 TAGAAATCTC
3103547 TACTGGTTTTTAAGG
1 TACTGGTTTTTAAGG
3103562 TACTGGTTTTTAAGG
1 TACTGGTTTTTAAGG
3103577 GCTGGGGCTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.07, G:0.27, T:0.47
Consensus pattern (15 bp):
TACTGGTTTTTAAGG
Found at i:3106247 original size:16 final size:15
Alignment explanation
Indices: 3106184--3106269 Score: 54
Period size: 16 Copynumber: 5.7 Consensus size: 15
3106174 TATAAAATCG
3106184 TAATTAATATAATATA
1 TAATTAATA-AATATA
*
3106200 AAATTAATAAAATATTA
1 TAATTAAT-AAATA-TA
** *
3106217 TTTTTAA-ATATATA
1 TAATTAATAAATATA
3106231 TAATTAAATAAATATA
1 TAATT-AATAAATATA
*
3106247 TAAAT-ATAAA-AT-
1 TAATTAATAAATATA
3106259 TAATTTAATAA
1 TAA-TTAATAA
3106270 TAAAAAATAT
Statistics
Matches: 54, Mismatches: 10, Indels: 14
0.69 0.13 0.18
Matches are distributed among these distances:
12 3 0.06
13 3 0.06
14 14 0.26
15 6 0.11
16 21 0.39
17 7 0.13
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
TAATTAATAAATATA
Found at i:3126963 original size:13 final size:13
Alignment explanation
Indices: 3126945--3126972 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
3126935 TAATAATATA
3126945 AATGCATTATAAG
1 AATGCATTATAAG
3126958 AATGCATTATAAG
1 AATGCATTATAAG
3126971 AA
1 AA
3126973 ATAATATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.50, C:0.07, G:0.14, T:0.29
Consensus pattern (13 bp):
AATGCATTATAAG
Found at i:3127409 original size:25 final size:22
Alignment explanation
Indices: 3127348--3127409 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 22
3127338 TGAAAATATA
*
3127348 AAATATATTTTTTATTAAATTT
1 AAATATAATTTTTATTAAATTT
* *
3127370 ATATATAATTATTATTAAAATTTT
1 AAATATAATTTTTATT-AAA-TTT
3127394 AAATTATAATTTTTAT
1 AAA-TATAATTTTTAT
3127410 ATTTTTTTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
22 13 0.41
23 3 0.09
24 5 0.16
25 11 0.34
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
AAATATAATTTTTATTAAATTT
Done.