Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167849.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_12, 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: 22966848
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 129000 characters in sequence are not A, C, G, or T
File 99 of 129
Found at i:16423198 original size:14 final size:14
Alignment explanation
Indices: 16423150--16423207 Score: 55
Period size: 16 Copynumber: 3.9 Consensus size: 14
16423140 GAAATAGAAT
*
16423150 AAAAATAAATAAAA
1 AAAAATAAAGAAAA
16423164 TTAAAAATAAAATGAAAA
1 --AAAAAT-AAA-GAAAA
16423182 AAAAATAAAGAAGAA
1 AAAAATAAAGAA-AA
16423197 AAAAA-AAAGAA
1 AAAAATAAAGAA
16423208 CATAGACTTA
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
14 9 0.24
15 10 0.26
16 12 0.32
17 3 0.08
18 4 0.11
ACGTcount: A:0.81, C:0.00, G:0.07, T:0.12
Consensus pattern (14 bp):
AAAAATAAAGAAAA
Found at i:16423361 original size:1 final size:1
Alignment explanation
Indices: 16423357--16423406 Score: 55
Period size: 1 Copynumber: 50.0 Consensus size: 1
16423347 ACCTTTTTAC
* * * * *
16423357 TTTTTGTTTTTTTTGTTTTTTTTTTATTTTTTTTGTTTTTTTTTGTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
16423407 GATCAAAGCT
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 39 1.00
ACGTcount: A:0.02, C:0.00, G:0.08, T:0.90
Consensus pattern (1 bp):
T
Found at i:16423371 original size:9 final size:9
Alignment explanation
Indices: 16423357--16423406 Score: 64
Period size: 9 Copynumber: 5.2 Consensus size: 9
16423347 ACCTTTTTAC
16423357 TTTTTGTTT
1 TTTTTGTTT
16423366 TTTTTGTTTTT
1 TTTTTG--TTT
*
16423377 TTTTTATTT
1 TTTTTGTTT
16423386 TTTTTGTTTT
1 TTTTTG-TTT
16423396 TTTTTGTTT
1 TTTTTGTTT
16423405 TT
1 TT
16423407 GATCAAAGCT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
9 19 0.53
10 9 0.25
11 8 0.22
ACGTcount: A:0.02, C:0.00, G:0.08, T:0.90
Consensus pattern (9 bp):
TTTTTGTTT
Found at i:16423376 original size:10 final size:10
Alignment explanation
Indices: 16423357--16423406 Score: 77
Period size: 10 Copynumber: 5.1 Consensus size: 10
16423347 ACCTTTTTAC
16423357 TTTTTG-TTT
1 TTTTTGTTTT
16423366 TTTTTGTTTT
1 TTTTTGTTTT
16423376 TTTTT-TATTT
1 TTTTTGT-TTT
16423386 TTTTTGTTTT
1 TTTTTGTTTT
16423396 TTTTTGTTTT
1 TTTTTGTTTT
16423406 T
1 T
16423407 GATCAAAGCT
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
9 7 0.18
10 30 0.79
11 1 0.03
ACGTcount: A:0.02, C:0.00, G:0.08, T:0.90
Consensus pattern (10 bp):
TTTTTGTTTT
Found at i:16423515 original size:42 final size:42
Alignment explanation
Indices: 16423414--16423767 Score: 518
Period size: 42 Copynumber: 8.5 Consensus size: 42
16423404 TTTGATCAAA
* *
16423414 GCTCCTCTAAACAGAGGCTCAACGACTTTGAGAAACA-TAAATG
1 GCTCCTCTAAACAGAGGCACAACGACTTTG-GAAA-AGTAAATT
* * *
16423457 GCTCCTCTAATCAGAGGCTCAACGACTTTGGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACAACGACTTTGGAAAAGTAAATT
* * *
16423499 GCTCCTCTAAATAGAGGCACCACGACTTTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACAACGAC-TTTGGAAAAGTAAATT
*
16423542 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACAACGACTTTGGAAAAGTAAATT
* *
16423584 GCTCCTCTAAACAGAGGCACCACGACTTTGG-AAATTAAATT
1 GCTCCTCTAAACAGAGGCACAACGACTTTGGAAAAGTAAATT
*
16423625 GCTCCTCTAAACAGAGGCACAACGACTTTGGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACAACGACTTTGGAAAAGTAAATT
*
16423667 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACAACGACTTTGGAAAAGTAAATT
* *
16423708 GCTCCTCTAAACAGAGGCACTACGACTTT-GAAAAGTAAACT
1 GCTCCTCTAAACAGAGGCACAACGACTTTGGAAAAGTAAATT
16423749 GCTCCTCTAAACAGAGGCA
1 GCTCCTCTAAACAGAGGCA
16423768 ACGAAACTTT
Statistics
Matches: 291, Mismatches: 17, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
41 109 0.37
42 114 0.39
43 68 0.23
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.23
Consensus pattern (42 bp):
GCTCCTCTAAACAGAGGCACAACGACTTTGGAAAAGTAAATT
Found at i:16423635 original size:41 final size:41
Alignment explanation
Indices: 16423414--16423767 Score: 501
Period size: 41 Copynumber: 8.5 Consensus size: 41
16423404 TTTGATCAAA
* * * *
16423414 GCTCCTCTAAACAGAGGCTCAACGACTTTGAGAAACATAAATG
1 GCTCCTCTAAACAGAGGCACCACGACTTTG-GAAA-GTAAATT
* * * *
16423457 GCTCCTCTAATCAGAGGCTCAACGACTTTGGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGG-AAAGTAAATT
* *
16423499 GCTCCTCTAAATAGAGGCACCACGACTTTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGAC--TTTGGAAAGTAAATT
16423542 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGG-AAAGTAAATT
*
16423584 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAATTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
*
16423625 GCTCCTCTAAACAGAGGCACAACGACTTTGGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GGAAAGTAAATT
*
16423667 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
* * *
16423708 GCTCCTCTAAACAGAGGCACTACGACTTTGAAAAGTAAACT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
16423749 GCTCCTCTAAACAGAGGCA
1 GCTCCTCTAAACAGAGGCA
16423768 ACGAAACTTT
Statistics
Matches: 289, Mismatches: 17, Indels: 12
0.91 0.05 0.04
Matches are distributed among these distances:
41 110 0.38
42 109 0.38
43 66 0.23
44 4 0.01
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.23
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
Found at i:16423661 original size:83 final size:83
Alignment explanation
Indices: 16423414--16423795 Score: 545
Period size: 83 Copynumber: 4.6 Consensus size: 83
16423404 TTTGATCAAA
* * * * * *
16423414 GCTCCTCTAAACAGAGGCTCAACGACTTTGAGAAACATAAATGGCTCCTCTAATCAGAGGCTCAA
1 GCTCCTCTAAACAGAGGCACCACGACTTTGA-AAA-GTAAATTGCTCCTCTAAACAGAGGCACAA
*
16423479 CGACTTTGGAAAAATAAATT
64 CGACTTTGGAAAAGTAAATT
* *
16423499 GCTCCTCTAAATAGAGGCACCACGACTTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCA
1 GCTCCTCTAAACAGAGGCACCACGAC--TTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACAA
16423564 CGACTTTGGAAAAGTAAATT
64 CGACTTTGGAAAAGTAAATT
* *
16423584 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAATTAAATTGCTCCTCTAAACAGAGGCACAACG
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACAACG
*
16423649 ACTTTGGGAAAGTAAATT
66 ACTTTGGAAAAGTAAATT
*
16423667 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACTACG
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACAACG
*
16423732 ACTTT-GAAAAGTAAACT
66 ACTTTGGAAAAGTAAATT
* *
16423749 GCTCCTCTAAACAGAGGCA--ACGAAACTTTGAAAAATAAATGGCTCCT
1 GCTCCTCTAAACAGAGGCACCACG--ACTTTGAAAAGTAAATTGCTCCT
16423796 TGACAATCAT
Statistics
Matches: 272, Mismatches: 21, Indels: 11
0.89 0.07 0.04
Matches are distributed among these distances:
80 3 0.01
82 50 0.18
83 120 0.44
85 91 0.33
86 3 0.01
87 5 0.02
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.23
Consensus pattern (83 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACAACG
ACTTTGGAAAAGTAAATT
Found at i:16425474 original size:19 final size:18
Alignment explanation
Indices: 16425452--16425536 Score: 64
Period size: 20 Copynumber: 4.4 Consensus size: 18
16425442 TTTAAATCTC
*
16425452 TTTTTTTCATTTTCTCATT
1 TTTTTTTCATTTTTTC-TT
16425471 TTTTTCCTTC-TTTCTTTCTT
1 TTTTT--TTCATTT-TTTCTT
*
16425491 TTTTTTTCTTTTTTTTCTTT
1 TTTTTTTC-ATTTTTTC-TT
* *
16425511 TTTTTTTCATCATCTTCTT
1 TTTTTTTCAT-TTTTTCTT
16425530 TTTTTTT
1 TTTTTTT
16425537 TGCTCATTTT
Statistics
Matches: 55, Mismatches: 4, Indels: 14
0.75 0.05 0.19
Matches are distributed among these distances:
18 3 0.05
19 19 0.35
20 27 0.49
21 6 0.11
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTTTTTCATTTTTTCTT
Found at i:16425489 original size:23 final size:19
Alignment explanation
Indices: 16425469--16425515 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
16425459 CATTTTCTCA
16425469 TTTTTTTCCTTCTTTCTTTCT
1 TTTTTTTCCTT-TTT-TTTCT
*
16425490 TTTTTTTTCTTTTTTTTCT
1 TTTTTTTCCTTTTTTTTCT
16425509 TTTTTTT
1 TTTTTTT
16425516 TTCATCATCT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 12 0.48
20 3 0.12
21 10 0.40
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (19 bp):
TTTTTTTCCTTTTTTTTCT
Found at i:16425502 original size:8 final size:8
Alignment explanation
Indices: 16425450--16425514 Score: 53
Period size: 8 Copynumber: 8.1 Consensus size: 8
16425440 AATTTAAATC
16425450 TCTTTTTT
1 TCTTTTTT
* *
16425458 TCATTTTC
1 TCTTTTTT
16425466 TCATTTTTT
1 TC-TTTTTT
* *
16425475 TCCTTCTT
1 TCTTTTTT
*
16425483 TC-TTTCT
1 TCTTTTTT
16425490 T-TTTTTT
1 TCTTTTTT
16425497 TCTTTTTTT
1 TC-TTTTTT
16425506 TCTTTTTT
1 TCTTTTTT
16425514 T
1 T
16425515 TTTCATCATC
Statistics
Matches: 44, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
7 9 0.20
8 21 0.48
9 14 0.32
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (8 bp):
TCTTTTTT
Found at i:16425504 original size:9 final size:9
Alignment explanation
Indices: 16425469--16425515 Score: 58
Period size: 9 Copynumber: 4.9 Consensus size: 9
16425459 CATTTTCTCA
*
16425469 TTTTTTTCC
1 TTTTTTTTC
16425478 TTCTTTCTTTC
1 TT-TTT-TTTC
16425489 TTTTTTTTTC
1 -TTTTTTTTC
16425499 TTTTTTTTC
1 TTTTTTTTC
16425508 TTTTTTTT
1 TTTTTTTT
16425516 TTCATCATCT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
9 19 0.56
10 7 0.21
11 6 0.18
12 2 0.06
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:16425515 original size:20 final size:20
Alignment explanation
Indices: 16425469--16425537 Score: 68
Period size: 20 Copynumber: 3.4 Consensus size: 20
16425459 CATTTTCTCA
*
16425469 TTTTTTTCCTTCTTTCTTTC-T
1 TTTTTTTTCTT-TTT-TTTCTT
16425490 TTTTTTTTCTTTTTTTTCTT
1 TTTTTTTTCTTTTTTTTCTT
* ** *
16425510 TTTTTTTTCATCATCTTCTT
1 TTTTTTTTCTTTTTTTTCTT
16425530 TTTTTTTT
1 TTTTTTTT
16425538 GCTCATTTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
19 4 0.10
20 28 0.67
21 10 0.24
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (20 bp):
TTTTTTTTCTTTTTTTTCTT
Found at i:16429936 original size:59 final size:58
Alignment explanation
Indices: 16429803--16430332 Score: 656
Period size: 59 Copynumber: 9.0 Consensus size: 58
16429793 TTTTGTGCAG
* * * * *
16429803 GAAAAATTGATACTTTCAACCTTTCCTCAAAAATATTCTTTTGAAACTTTAATTTTGA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTTATTTTTAA
*
16429861 GGAAAATTGATACTTTCAACTTTT-CTCCAAAAATATTTTTTCTGAAAATTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCT-CAAAAATATTTTTT-TGAAAATTTATTTTTAA
* * * *
16429920 GGAAAATTGATACTTTCAACTTTTTCC-CAAAAATATTCTTTTGAAACTTTAATTTTGAA
1 GAAAAATTGATACTTTCAAC-TTTTCCTCAAAAATATTTTTTTGAAAATTT-ATTTTTAA
* *
16429979 G-AAAATTGATACTTTCAACTTTTTCTCAAAAATTGATTTCTTTGAAAATTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAA-T-ATTTTTTTGAAAATTTATTTTTAA
* * * * *
16430038 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATACTTCTTTGGAAACTTTTATTTTCAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTTTGAAA-ATTTATTTTTAA
* * *
16430098 GAAAAATTGATACTTTCAACTTTTCCTCAAAAACTTTTTTTTTTGAAATTTTATTTCTAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAA--TATTTTTTTGAAAATTTATTTTTAA
* * *
16430158 GAAAAATTGATACTTTCAATTTTTCCTCAAAAACTTTTTTTTTGAAATTTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAA-TATTTTTTTGAAAATTTATTTTTAA
* *
16430217 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTTGAAAACTTTGATTTTCAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAA-TTT-ATTTTTAA
*
16430276 GAAAAATTGATACATTCAACTTTTCCTCAAAAAT-TGATTTTTTGAAAATTTATTTTT
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATAT--TTTTTTGAAAATTTATTTTT
16430333 TTTGGATTTT
Statistics
Matches: 416, Mismatches: 38, Indels: 35
0.85 0.08 0.07
Matches are distributed among these distances:
57 17 0.04
58 72 0.17
59 172 0.41
60 133 0.32
61 21 0.05
62 1 0.00
ACGTcount: A:0.35, C:0.13, G:0.07, T:0.45
Consensus pattern (58 bp):
GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTTATTTTTAA
Found at i:16429952 original size:27 final size:27
Alignment explanation
Indices: 16429922--16430015 Score: 66
Period size: 27 Copynumber: 3.3 Consensus size: 27
16429912 ATTTTTAAGG
16429922 AAAATTGATACTTTCAACTTTTTCCCA
1 AAAATTGATACTTTCAACTTTTTCCCA
* * ***
16429949 AAAA-T-ATTCTTTTGAAACTTTAATTTTGAA
1 AAAATTGATAC-TTT-CAAC-TT--TTTCCCA
*
16429979 GAAAATTGATACTTTCAACTTTTTCTCA
1 -AAAATTGATACTTTCAACTTTTTCCCA
16430007 AAAATTGAT
1 AAAATTGAT
16430016 TTCTTTGAAA
Statistics
Matches: 49, Mismatches: 10, Indels: 16
0.65 0.13 0.21
Matches are distributed among these distances:
25 3 0.06
26 4 0.08
27 16 0.33
28 6 0.12
30 6 0.12
31 7 0.14
32 4 0.08
33 3 0.06
ACGTcount: A:0.37, C:0.14, G:0.06, T:0.43
Consensus pattern (27 bp):
AAAATTGATACTTTCAACTTTTTCCCA
Found at i:16430190 original size:28 final size:28
Alignment explanation
Indices: 16430099--16430190 Score: 67
Period size: 28 Copynumber: 3.1 Consensus size: 28
16430089 TATTTTCAAG
*
16430099 AAAAATTGATACTTTCAACTTTTCCTCA
1 AAAAATTGATACTTTCAATTTTTCCTCA
* ** ** * * *
16430127 AAAACTTTTTTTTTTGAAATTTTATTTCTAA
1 AAAAATTGATACTTT-CAA-TTT-TTCCTCA
16430158 GAAAAATTGATACTTTCAATTTTTCCTCA
1 -AAAAATTGATACTTTCAATTTTTCCTCA
16430187 AAAA
1 AAAA
16430191 CTTTTTTTTT
Statistics
Matches: 43, Mismatches: 17, Indels: 8
0.63 0.25 0.12
Matches are distributed among these distances:
28 14 0.33
29 7 0.16
30 5 0.12
31 7 0.16
32 10 0.23
ACGTcount: A:0.37, C:0.14, G:0.04, T:0.45
Consensus pattern (28 bp):
AAAAATTGATACTTTCAATTTTTCCTCA
Found at i:16430358 original size:5 final size:5
Alignment explanation
Indices: 16430350--16430421 Score: 60
Period size: 5 Copynumber: 13.8 Consensus size: 5
16430340 TTTATTTAAA
*
16430350 AAAAT AAAAT -AAA- AAAAT AAAAGT GAAAAT AAAA- AAAAGT AAAACA
1 AAAAT AAAAT AAAAT AAAAT AAAA-T -AAAAT AAAAT AAAA-T AAAA-T
16430396 AAAAT AAAAGT AAAAT AAAGAT AAAA
1 AAAAT AAAA-T AAAAT AAA-AT AAAA
16430422 ACATTAAATA
Statistics
Matches: 56, Mismatches: 3, Indels: 16
0.75 0.04 0.21
Matches are distributed among these distances:
4 10 0.18
5 22 0.39
6 20 0.36
7 4 0.07
ACGTcount: A:0.78, C:0.01, G:0.07, T:0.14
Consensus pattern (5 bp):
AAAAT
Found at i:16430383 original size:33 final size:31
Alignment explanation
Indices: 16430346--16430414 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 31
16430336 GGATTTTATT
16430346 TAAAAAAATA-AAATAAAAAAATAAAAGTGAAAA
1 TAAAAAAA-AGAAA-AAAAAAATAAAAGT-AAAA
*
16430379 TAAAAAAAAGTAAAACAAAAATAAAAGTAAAA
1 TAAAAAAAAG-AAAAAAAAAATAAAAGTAAAA
16430411 TAAA
1 TAAA
16430415 GATAAAAACA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
32 9 0.27
33 21 0.64
34 3 0.09
ACGTcount: A:0.78, C:0.01, G:0.06, T:0.14
Consensus pattern (31 bp):
TAAAAAAAAGAAAAAAAAAATAAAAGTAAAA
Found at i:16430403 original size:11 final size:10
Alignment explanation
Indices: 16430346--16430414 Score: 50
Period size: 11 Copynumber: 6.4 Consensus size: 10
16430336 GGATTTTATT
16430346 TAAAAAAATAA
1 TAAAAAAA-AA
16430357 -AATAAAAAAA
1 TAA-AAAAAAA
*
16430367 TAAAAGTGAAAA
1 TAAAA--AAAAA
*
16430379 TAAAAAAAAG
1 TAAAAAAAAA
16430389 TAAAACAAAAA
1 TAAAA-AAAAA
*
16430400 TAAAAGTAAAA
1 TAAAA-AAAAA
16430411 TAAA
1 TAAA
16430415 GATAAAAACA
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
10 14 0.30
11 24 0.51
12 9 0.19
ACGTcount: A:0.78, C:0.01, G:0.06, T:0.14
Consensus pattern (10 bp):
TAAAAAAAAA
Found at i:16430406 original size:17 final size:16
Alignment explanation
Indices: 16430347--16430421 Score: 77
Period size: 17 Copynumber: 4.8 Consensus size: 16
16430337 GATTTTATTT
16430347 AAAAAAATAAAA-T--
1 AAAAAAATAAAAGTAA
16430360 AAAAAAATAAAAGTGAA
1 AAAAAAATAAAAGT-AA
*
16430377 AATAAAA-AAAAGTAA
1 AAAAAAATAAAAGTAA
16430392 AACAAAAATAAAAGTAA
1 AA-AAAAATAAAAGTAA
*
16430409 AATAAAGATAAAA
1 AA-AAAAATAAAA
16430422 ACATTAAATA
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
13 12 0.23
14 1 0.02
15 4 0.08
16 10 0.19
17 25 0.48
ACGTcount: A:0.79, C:0.01, G:0.07, T:0.13
Consensus pattern (16 bp):
AAAAAAATAAAAGTAA
Found at i:16430421 original size:11 final size:11
Alignment explanation
Indices: 16430363--16430414 Score: 54
Period size: 11 Copynumber: 4.7 Consensus size: 11
16430353 ATAAAATAAA
16430363 AAAATAAAAGT
1 AAAATAAAAGT
16430374 GAAAATAAAA--
1 -AAAATAAAAGT
**
16430384 AAAAGTAAAACA
1 AAAA-TAAAAGT
16430396 AAAATAAAAGT
1 AAAATAAAAGT
16430407 AAAATAAA
1 AAAATAAA
16430415 GATAAAAACA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
9 4 0.11
10 5 0.14
11 13 0.37
12 13 0.37
ACGTcount: A:0.77, C:0.02, G:0.08, T:0.13
Consensus pattern (11 bp):
AAAATAAAAGT
Found at i:16431782 original size:12 final size:12
Alignment explanation
Indices: 16431760--16431792 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
16431750 ATTAAAAATA
16431760 AAAATATTTATCT
1 AAAATATTTAT-T
16431773 AAAA-ATTTATT
1 AAAATATTTATT
16431784 AAAATATTT
1 AAAATATTT
16431793 TAAAATTGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 5 0.26
12 10 0.53
13 4 0.21
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (12 bp):
AAAATATTTATT
Found at i:16432832 original size:18 final size:19
Alignment explanation
Indices: 16432791--16432832 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
16432781 ATTTTGAATA
16432791 TAAAAATCTAAAAATTTTG
1 TAAAAATCTAAAAATTTTG
* *
16432810 GAAAAATCTAAATATTTT-
1 TAAAAATCTAAAAATTTTG
16432828 TAAAA
1 TAAAA
16432833 TTTTGTAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.36
Consensus pattern (19 bp):
TAAAAATCTAAAAATTTTG
Found at i:16433029 original size:7 final size:7
Alignment explanation
Indices: 16433017--16433041 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
16433007 TTTTTAAAAA
16433017 TTTTAAT
1 TTTTAAT
16433024 TTTTAAT
1 TTTTAAT
16433031 TTTTAAT
1 TTTTAAT
16433038 TTTT
1 TTTT
16433042 TTATAATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTAAT
Found at i:16433127 original size:17 final size:17
Alignment explanation
Indices: 16433107--16433166 Score: 72
Period size: 16 Copynumber: 3.6 Consensus size: 17
16433097 TTTAATTTTT
16433107 AATTTTTTATTTATTAA
1 AATTTTTTATTTATTAA
*
16433124 AATTTCATT-TTTATTAA
1 AATTT-TTTATTTATTAA
*
16433141 AA-TTTTCATTTATT-A
1 AATTTTTTATTTATTAA
16433156 AATTTTTTATT
1 AATTTTTTATT
16433167 AAAATTTTGA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
15 4 0.11
16 15 0.42
17 15 0.42
18 2 0.06
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (17 bp):
AATTTTTTATTTATTAA
Found at i:16433154 original size:16 final size:16
Alignment explanation
Indices: 16433110--16433174 Score: 68
Period size: 17 Copynumber: 4.2 Consensus size: 16
16433100 AATTTTTAAT
*
16433110 TTTTTATTTATTAAAA
1 TTTTCATTTATTAAAA
16433126 -TTTCATTTTTATTAAAA
1 TTTTCA--TTTATTAAAA
16433143 TTTTCATTTATT-AAA
1 TTTTCATTTATTAAAA
16433158 -TTT--TTTATTAAAA
1 TTTTCATTTATTAAAA
16433171 TTTT
1 TTTT
16433175 GAATTTTTTA
Statistics
Matches: 43, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
12 6 0.14
13 3 0.07
14 6 0.14
15 7 0.16
16 6 0.14
17 10 0.23
18 5 0.12
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (16 bp):
TTTTCATTTATTAAAA
Found at i:16433164 original size:12 final size:13
Alignment explanation
Indices: 16433131--16433174 Score: 54
Period size: 13 Copynumber: 3.2 Consensus size: 13
16433121 TAAAATTTCA
16433131 TTTTTATTAAAATT
1 TTTTTATTAAAA-T
16433145 TTCATTTATT-AAAT
1 TT--TTTATTAAAAT
16433159 TTTTTATTAAAAT
1 TTTTTATTAAAAT
16433172 TTT
1 TTT
16433175 GAATTTTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
12 6 0.22
13 7 0.26
14 5 0.19
15 3 0.11
16 6 0.22
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (13 bp):
TTTTTATTAAAAT
Found at i:16433168 original size:28 final size:29
Alignment explanation
Indices: 16433131--16433189 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 29
16433121 TAAAATTTCA
*
16433131 TTTTTATTAAAATTTT-CATTTATTAAAT
1 TTTTTATTAAAATTTTGAATTTATTAAAT
*
16433159 TTTTTATTAAAATTTTGAATTTTTTAAAT
1 TTTTTATTAAAATTTTGAATTTATTAAAT
16433188 TT
1 TT
16433190 CCAAATTTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
28 16 0.57
29 12 0.43
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.63
Consensus pattern (29 bp):
TTTTTATTAAAATTTTGAATTTATTAAAT
Found at i:16433294 original size:19 final size:19
Alignment explanation
Indices: 16433222--16433338 Score: 73
Period size: 19 Copynumber: 6.2 Consensus size: 19
16433212 ATCTTTATAA
16433222 TTTTAAAAATATTTTAGAT-T
1 TTTTAAAAA-ATTTTA-ATAT
* *
16433242 TTTT-AAAAATTTTAAAAAA
1 TTTTAAAAAATTTT-AATAT
* *
16433261 ATTT-AAATA-TTTAATAT
1 TTTTAAAAAATTTTAATAT
*
16433278 TTTTAAAAAATTTTAATTT
1 TTTTAAAAAATTTTAATAT
* **
16433297 TTTTAGAATCTTTCTAAT-T
1 TTTTAAAAAATTT-TAATAT
*
16433316 TTTTAAAAAAATTTTAAAAT
1 TTTT-AAAAAATTTTAATAT
16433336 TTT
1 TTT
16433339 CTTGTAGTAC
Statistics
Matches: 74, Mismatches: 16, Indels: 14
0.71 0.15 0.13
Matches are distributed among these distances:
17 6 0.08
18 13 0.18
19 37 0.50
20 18 0.24
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (19 bp):
TTTTAAAAAATTTTAATAT
Found at i:16433301 original size:55 final size:56
Alignment explanation
Indices: 16433192--16433299 Score: 150
Period size: 55 Copynumber: 2.0 Consensus size: 56
16433182 TTAAATTTCC
* * *
16433192 AAATTTTCAAAATATTTTAAATCTTTATAATTTTAAAAATATTTTAGATTTTTTAA
1 AAATTTTCAAAAAAATTTAAATATTTATAATTTTAAAAATATTTTAGATTTTTTAA
*
16433248 AAATTTT-AAAAAAATTTAAATATTTAATATTTTTAAAAA-ATTTTA-ATTTTTT
1 AAATTTTCAAAAAAATTTAAATATTT-ATAATTTTAAAAATATTTTAGATTTTTT
16433300 TAGAATCTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
54 7 0.15
55 21 0.45
56 19 0.40
ACGTcount: A:0.45, C:0.02, G:0.01, T:0.52
Consensus pattern (56 bp):
AAATTTTCAAAAAAATTTAAATATTTATAATTTTAAAAATATTTTAGATTTTTTAA
Found at i:16433944 original size:38 final size:35
Alignment explanation
Indices: 16433880--16433968 Score: 90
Period size: 38 Copynumber: 2.4 Consensus size: 35
16433870 ACCTTTATAG
* *
16433880 CTCTTTTTTATTATTCTTTTAATTTTTTTAGCTTTTTT
1 CTCTTTTTTGTTTTTCTTTTAA--TTTTTA-CTTTTTT
**
16433918 CTCTTTTTTGTTTTTCTTTTGGTTTTTACTTTTTT
1 CTCTTTTTTGTTTTTCTTTTAATTTTTACTTTTTT
16433953 -TCATTTTGTTGTTTTT
1 CTC-TTTT-TTGTTTTT
16433969 TAATTAGATT
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
34 2 0.04
35 11 0.24
36 14 0.31
38 18 0.40
ACGTcount: A:0.08, C:0.10, G:0.07, T:0.75
Consensus pattern (35 bp):
CTCTTTTTTGTTTTTCTTTTAATTTTTACTTTTTT
Found at i:16434997 original size:23 final size:24
Alignment explanation
Indices: 16434953--16434999 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
16434943 TTTTTACTTT
*
16434953 TTTTGTTTATTTTTCTTATTTTTC
1 TTTTGTTTATTTTTATTATTTTTC
*
16434977 TTTTGTTTA-TTTTATTGTTTTTC
1 TTTTGTTTATTTTTATTATTTTTC
16435000 CATTTTTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 12 0.57
24 9 0.43
ACGTcount: A:0.09, C:0.06, G:0.06, T:0.79
Consensus pattern (24 bp):
TTTTGTTTATTTTTATTATTTTTC
Found at i:16436481 original size:9 final size:9
Alignment explanation
Indices: 16436469--16436514 Score: 51
Period size: 9 Copynumber: 5.2 Consensus size: 9
16436459 AATATTAATA
16436469 AAAATTATT
1 AAAATTATT
*
16436478 AAAATATATA
1 AAAAT-TATT
16436488 AAAATTATT
1 AAAATTATT
*
16436497 --TATTATT
1 AAAATTATT
16436504 AAAATTATT
1 AAAATTATT
16436513 AA
1 AA
16436515 TATTCAAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
7 6 0.20
9 16 0.53
10 8 0.27
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (9 bp):
AAAATTATT
Found at i:16436507 original size:16 final size:16
Alignment explanation
Indices: 16436488--16436568 Score: 60
Period size: 16 Copynumber: 4.9 Consensus size: 16
16436478 AAAATATATA
16436488 AAAATTATTTATTATT
1 AAAATTATTTATTATT
*
16436504 AAAATTA-TTAATATT
1 AAAATTATTTATTATT
*
16436519 CAAAATAATTATATT-TT
1 -AAAATTATT-TATTATT
*
16436536 AATAATAATATTTAATATT
1 AA-AAT--TATTTATTATT
16436555 AAAA-TATTATATTA
1 AAAATTATT-TATTA
16436569 ATATAAAAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
15 11 0.22
16 19 0.37
17 6 0.12
18 8 0.16
19 7 0.14
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (16 bp):
AAAATTATTTATTATT
Found at i:16436528 original size:19 final size:18
Alignment explanation
Indices: 16436458--16436576 Score: 65
Period size: 19 Copynumber: 6.6 Consensus size: 18
16436448 CTTTTTTAAA
*
16436458 TAATATTAATAAAAATTAT
1 TAATATTAA-AATAATTAT
*
16436477 TAAAATATATAAA-AATTAT
1 TAATAT-TA-AAATAATTAT
*
16436496 T--TATTATTAA-AATTAT
1 TAATATTA-AAATAATTAT
16436512 TAATATTCAAAATAATTA-
1 TAATATT-AAAATAATTAT
*
16436530 T-ATTTTAATAATAA-TATT
1 TAATATTAA-AATAATTA-T
*
16436548 TAATATTAAAATATTATAT
1 TAATATTAAAATAAT-TAT
16436567 TAATA-TAAAA
1 TAATATTAAAA
16436577 AATACTTAAA
Statistics
Matches: 81, Mismatches: 7, Indels: 25
0.72 0.06 0.22
Matches are distributed among these distances:
16 16 0.20
17 11 0.14
18 17 0.21
19 30 0.37
20 6 0.07
21 1 0.01
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.45
Consensus pattern (18 bp):
TAATATTAAAATAATTAT
Found at i:16436529 original size:35 final size:34
Alignment explanation
Indices: 16436463--16436567 Score: 101
Period size: 35 Copynumber: 3.0 Consensus size: 34
16436453 TTAAATAATA
*
16436463 TTAATAAAAATTATTAAAATATATAAA-AATTAT-TT
1 TTAAT-AAAATTATTAATAT-TA-AAATAATTATATT
*
16436498 ATTATTAAAATTATTAATATTCAAAATAATTATATT
1 -TTAATAAAATTATTAATATT-AAAATAATTATATT
16436534 TTAATAATAA-TATTTAATATTAAAAT-ATTATATT
1 TTAATAA-AATTA-TTAATATTAAAATAATTATATT
16436568 AATATAAAAA
Statistics
Matches: 61, Mismatches: 3, Indels: 12
0.80 0.04 0.16
Matches are distributed among these distances:
34 12 0.20
35 33 0.54
36 16 0.26
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (34 bp):
TTAATAAAATTATTAATATTAAAATAATTATATT
Found at i:16436532 original size:15 final size:15
Alignment explanation
Indices: 16436500--16436590 Score: 60
Period size: 16 Copynumber: 5.7 Consensus size: 15
16436490 AATTATTTAT
*
16436500 TATTAAAATTATTAA
1 TATTAAAATAATTAA
16436515 TATTCAAAATAATTATA
1 TATT-AAAATAATTA-A
*
16436532 TTTTAATAATAATATTTAA
1 TATTAA-AAT-A-A-TTAA
16436551 TATTAAAAT-ATT-A
1 TATTAAAATAATTAA
* **
16436564 TATTAATATAAAAAA
1 TATTAAAATAATTAA
16436579 TACTTAAAATAA
1 TA-TTAAAATAA
16436591 AACTACTTAT
Statistics
Matches: 60, Mismatches: 7, Indels: 17
0.71 0.08 0.20
Matches are distributed among these distances:
13 9 0.15
14 3 0.05
15 8 0.13
16 19 0.32
17 7 0.12
18 4 0.07
19 7 0.12
20 3 0.05
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (15 bp):
TATTAAAATAATTAA
Found at i:16436650 original size:13 final size:11
Alignment explanation
Indices: 16436617--16436741 Score: 82
Period size: 11 Copynumber: 11.2 Consensus size: 11
16436607 TTATTATTTT
16436617 TTAATATATTA
1 TTAATATATTA
16436628 -TAATATTATTCA
1 TTAATA-TATT-A
16436640 TTAATAATATTTA
1 TTAAT-ATA-TTA
16436653 TTAATATATTA
1 TTAATATATTA
* *
16436664 -TATTAATAGTA
1 TTAAT-ATATTA
*
16436675 -TATTAT-TTA
1 TTAATATATTA
16436684 TTAATATATTA
1 TTAATATATTA
*
16436695 TT-ATAATATTTG
1 TTAAT-ATA-TTA
*
16436707 TTAATTAAATTA
1 TTAA-TATATTA
*
16436719 ATAATAT-TTA
1 TTAATATATTA
16436729 TTAATATATTA
1 TTAATATATTA
16436740 TT
1 TT
16436742 TATTAATATA
Statistics
Matches: 91, Mismatches: 10, Indels: 26
0.72 0.08 0.20
Matches are distributed among these distances:
9 2 0.02
10 26 0.29
11 31 0.34
12 13 0.14
13 15 0.16
14 4 0.04
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.54
Consensus pattern (11 bp):
TTAATATATTA
Found at i:16436679 original size:67 final size:74
Alignment explanation
Indices: 16436608--16436762 Score: 182
Period size: 76 Copynumber: 2.1 Consensus size: 74
16436598 TATTATTCTT
* *
16436608 TATTATTT-TTTA-ATA-TATTATAATA-TT-ATT-CATTAATAATATTTATTAATATATTA-TA
1 TATTATTTATTAATATATTATTATAATATTTAATTAAATTAATAATATTTATTAATATATTATTA
16436666 TTAATAGTA
66 TTAATAGTA
16436675 TATTATTTATTAATATATTATTATAATATTTGTTAATTAAATTAATAATATTTATTAATATATTA
1 TATTATTTATTAATATATTATTATAATA--T-TTAATTAAATTAATAATATTTATTAATATATTA
16436740 TTTATTAATA-TAA
63 -TTATTAATAGT-A
*
16436753 TAATATTTAT
1 TATTATTTAT
16436763 AAGTAAAATT
Statistics
Matches: 73, Mismatches: 3, Indels: 13
0.82 0.03 0.15
Matches are distributed among these distances:
67 8 0.11
68 3 0.04
69 3 0.04
70 10 0.14
74 2 0.03
75 3 0.04
76 25 0.34
77 1 0.01
78 18 0.25
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (74 bp):
TATTATTTATTAATATATTATTATAATATTTAATTAAATTAATAATATTTATTAATATATTATTA
TTAATAGTA
Found at i:16436685 original size:18 final size:19
Alignment explanation
Indices: 16436621--16436704 Score: 61
Period size: 18 Copynumber: 4.3 Consensus size: 19
16436611 TATTTTTTAA
16436621 TATATT-ATAATATTATTCAT
1 TATATTAAT-ATATTATT-AT
16436641 TA-A-TAATATTTATTAATATAT
1 TATATTAATA--TATT-AT-TAT
16436662 TATATTAATAGTA-TATTAT
1 TATATTAATA-TATTATTAT
16436681 T-TATTAATATATTATTAT
1 TATATTAATATATTATTAT
*
16436699 AATATT
1 TATATT
16436705 TGTTAATTAA
Statistics
Matches: 53, Mismatches: 2, Indels: 19
0.72 0.03 0.26
Matches are distributed among these distances:
17 2 0.04
18 16 0.30
19 11 0.21
20 8 0.15
21 7 0.13
22 4 0.08
23 5 0.09
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (19 bp):
TATATTAATATATTATTAT
Found at i:16436691 original size:26 final size:26
Alignment explanation
Indices: 16436618--16436750 Score: 102
Period size: 26 Copynumber: 5.2 Consensus size: 26
16436608 TATTATTTTT
*
16436618 TAATATATTA-TAATATTAT-TCATTAA
1 TAATAT-TTATTAATATAATAT-ATTAA
*
16436644 TAATATTTATTAATATATTATATTAA
1 TAATATTTATTAATATAATATATTAA
* *
16436670 TAGTATATTATTTAT-TAATATATTATTA
1 TAATAT-TTATTAATATAATATATTA--A
*
16436698 TAATATTTGTTAAT-T-A-A-ATTAA
1 TAATATTTATTAATATAATATATTAA
* *
16436720 TAATATTTATTAATATATTAT-TTAT
1 TAATATTTATTAATATAATATATTAA
16436745 TAATAT
1 TAATAT
16436751 AATAATATTT
Statistics
Matches: 87, Mismatches: 11, Indels: 19
0.74 0.09 0.16
Matches are distributed among these distances:
22 14 0.16
23 1 0.01
24 4 0.05
25 14 0.16
26 33 0.38
27 15 0.17
28 6 0.07
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.54
Consensus pattern (26 bp):
TAATATTTATTAATATAATATATTAA
Found at i:16436731 original size:37 final size:33
Alignment explanation
Indices: 16436690--16436762 Score: 83
Period size: 37 Copynumber: 2.1 Consensus size: 33
16436680 TTTATTAATA
* *
16436690 TATTATTATAATATTTGTTAATTAAATTAATAATATT
1 TATTAATATAATATTTATTAA-T--A-TAATAATATT
*
16436727 TATTAATATATTATTTATTAATATAATAATATT
1 TATTAATATAATATTTATTAATATAATAATATT
16436760 TAT
1 TAT
16436763 AAGTAAAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
33 13 0.39
34 1 0.03
36 1 0.03
37 18 0.55
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (33 bp):
TATTAATATAATATTTATTAATATAATAATATT
Found at i:16436750 original size:13 final size:13
Alignment explanation
Indices: 16436608--16436750 Score: 81
Period size: 13 Copynumber: 11.2 Consensus size: 13
16436598 TATTATTCTT
*
16436608 TATTATTTTTTAA
1 TATTATTTATTAA
16436621 TA-TA-TTA-TAA
1 TATTATTTATTAA
*
16436631 TATTATTCATTAA
1 TATTATTTATTAA
*
16436644 TAATATTTATTAATA
1 TATTATTTATT-A-A
*
16436659 TATTATATTAATAGTA
1 TATTAT-TTATTA--A
16436675 TATTATTTATTAA
1 TATTATTTATTAA
16436688 TA-TA-TTATT-A
1 TATTATTTATTAA
* *
16436698 TAATATTTGTT-A
1 TATTATTTATTAA
*
16436710 -ATTA--AATTAA
1 TATTATTTATTAA
*
16436720 TAATATTTATTAATA
1 TATTATTTATT-A-A
16436735 TATTATTTATTAA
1 TATTATTTATTAA
16436748 TAT
1 TAT
16436751 AATAATATTT
Statistics
Matches: 101, Mismatches: 14, Indels: 30
0.70 0.10 0.21
Matches are distributed among these distances:
9 2 0.02
10 9 0.09
11 17 0.17
12 11 0.11
13 24 0.24
14 3 0.03
15 23 0.23
16 12 0.12
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (13 bp):
TATTATTTATTAA
Found at i:16436903 original size:22 final size:22
Alignment explanation
Indices: 16436875--16436925 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
16436865 AAAAATAATC
* **
16436875 TCATTTTTCATTTATCAGTAAA
1 TCATTTTTCATTGATCAACAAA
*
16436897 TCATTTTTTATTGATCAACAAA
1 TCATTTTTCATTGATCAACAAA
16436919 TCATTTT
1 TCATTTT
16436926 CCTTTAATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.31, C:0.14, G:0.04, T:0.51
Consensus pattern (22 bp):
TCATTTTTCATTGATCAACAAA
Found at i:16440659 original size:25 final size:24
Alignment explanation
Indices: 16440613--16440659 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
16440603 GATTTTAAAA
* **
16440613 TTAATAATTAAATTAATTAATTTT
1 TTAATAATTAAAATAAAAAATTTT
16440637 TTAATAAATTAAAATAAAAAATT
1 TTAAT-AATTAAAATAAAAAATT
16440660 AAAATAAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 5 0.26
25 14 0.74
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (24 bp):
TTAATAATTAAAATAAAAAATTTT
Found at i:16440660 original size:13 final size:13
Alignment explanation
Indices: 16440642--16440667 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
16440632 ATTTTTTAAT
16440642 AAATTAAAATAAA
1 AAATTAAAATAAA
16440655 AAATTAAAATAAA
1 AAATTAAAATAAA
16440668 TATTTTTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (13 bp):
AAATTAAAATAAA
Found at i:16440753 original size:12 final size:13
Alignment explanation
Indices: 16440736--16440781 Score: 60
Period size: 12 Copynumber: 3.6 Consensus size: 13
16440726 TTTGAATGAT
16440736 ATTTAAATTTA-A
1 ATTTAAATTTATA
16440748 ATTTAAATTTATTA
1 ATTTAAATTTA-TA
*
16440762 AATTAAATTTATA
1 ATTTAAATTTATA
16440775 A-TTAAAT
1 ATTTAAAT
16440782 AGTTTTTTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
12 17 0.55
13 3 0.10
14 11 0.35
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
ATTTAAATTTATA
Found at i:16440764 original size:21 final size:21
Alignment explanation
Indices: 16440738--16440777 Score: 64
Period size: 20 Copynumber: 1.9 Consensus size: 21
16440728 TGAATGATAT
16440738 TTAAATTTAAATTTA-AATTTA
1 TTAAA-TTAAATTTATAATTTA
16440759 TTAAATTAAATTTATAATT
1 TTAAATTAAATTTATAATT
16440778 AAATAGTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
TTAAATTAAATTTATAATTTA
Found at i:16441977 original size:18 final size:20
Alignment explanation
Indices: 16441956--16441996 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
16441946 AAAAATAGCT
*
16441956 TTTTATTTA-ATA-TCATTA
1 TTTTATTTAGAAATTCATTA
*
16441974 TTTTTTTTAGAAATTCATTA
1 TTTTATTTAGAAATTCATTA
16441994 TTT
1 TTT
16441997 CAAATTTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
18 8 0.42
19 2 0.11
20 9 0.47
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.63
Consensus pattern (20 bp):
TTTTATTTAGAAATTCATTA
Found at i:16442188 original size:20 final size:20
Alignment explanation
Indices: 16442165--16442210 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 20
16442155 ACTAATTTTA
16442165 TTATTTCATTTATT-TTTAAT
1 TTATTTC-TTTATTATTTAAT
16442185 TTA-TTCTTTATTAATTTAAT
1 TTATTTCTTTATT-ATTTAAT
*
16442205 TAATTT
1 TTATTT
16442211 TCATATTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
18 6 0.27
19 3 0.14
20 11 0.50
21 2 0.09
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.67
Consensus pattern (20 bp):
TTATTTCTTTATTATTTAAT
Found at i:16442557 original size:19 final size:20
Alignment explanation
Indices: 16442525--16442562 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
16442515 ATAATTGCAA
*
16442525 AATAAAATATATAATTAAAG
1 AATAAAATATATAAATAAAG
16442545 AATAAAA-ATATAAATAAA
1 AATAAAATATATAAATAAA
16442563 TATAATTCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (20 bp):
AATAAAATATATAAATAAAG
Found at i:16442656 original size:18 final size:17
Alignment explanation
Indices: 16442609--16442656 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 17
16442599 TGATGGATTC
16442609 ATTTGGACTTGATATTGG
1 ATTT-GACTTGATATTGG
*
16442627 ATTTGAATTTGATATTGG
1 ATTTG-ACTTGATATTGG
16442645 ATTTAGACTTGA
1 ATTT-GACTTGA
16442657 CTAATTAGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 1 0.04
18 24 0.92
19 1 0.04
ACGTcount: A:0.27, C:0.04, G:0.23, T:0.46
Consensus pattern (17 bp):
ATTTGACTTGATATTGG
Found at i:16448561 original size:26 final size:26
Alignment explanation
Indices: 16448477--16448565 Score: 78
Period size: 26 Copynumber: 3.4 Consensus size: 26
16448467 GCGTATTTCA
* *
16448477 GTTTTTTTTTTATTTTT-TAAATA-T
1 GTTTTATTTTTATTTTTGTAATTATT
* *
16448501 GTTTTCATTTTTCCTTTTTGGT-ATAATT
1 GTTTT-ATTTTT-ATTTTT-GTAATTATT
16448529 -TTCTTATTTTTATTTTTGTAATTATT
1 GTT-TTATTTTTATTTTTGTAATTATT
16448555 GTTTTATTTTT
1 GTTTTATTTTT
16448566 TTTATCAAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 14
0.72 0.08 0.20
Matches are distributed among these distances:
24 5 0.10
25 7 0.14
26 23 0.45
27 12 0.24
28 4 0.08
ACGTcount: A:0.17, C:0.04, G:0.07, T:0.72
Consensus pattern (26 bp):
GTTTTATTTTTATTTTTGTAATTATT
Found at i:16450246 original size:23 final size:23
Alignment explanation
Indices: 16450197--16450239 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
16450187 AATTTGCAGA
*
16450197 AATTTGTTTGGGTTTTGGTTACC
1 AATTTGTTTGAGTTTTGGTTACC
*
16450220 AATTTG-TTGAGTTTTTGTTA
1 AATTTGTTTGAGTTTTGGTTA
16450240 GCTAATTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.16, C:0.05, G:0.23, T:0.56
Consensus pattern (23 bp):
AATTTGTTTGAGTTTTGGTTACC
Found at i:16453480 original size:14 final size:14
Alignment explanation
Indices: 16453461--16453487 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
16453451 AGTTTTTTAT
16453461 TTTATTTTGTTTTG
1 TTTATTTTGTTTTG
16453475 TTTATTTTGTTTT
1 TTTATTTTGTTTT
16453488 TTTGTTTTAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.00, G:0.11, T:0.81
Consensus pattern (14 bp):
TTTATTTTGTTTTG
Found at i:16453731 original size:22 final size:22
Alignment explanation
Indices: 16453706--16453755 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
16453696 ACTCTTGAAA
16453706 GTCTTAAAGATTATGCCAAGAG
1 GTCTTAAAGATTATGCCAAGAG
* **
16453728 GTCTTAGAGATTATGCCCGGAG
1 GTCTTAAAGATTATGCCAAGAG
16453750 GTCTTA
1 GTCTTA
16453756 CAAATCTCGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (22 bp):
GTCTTAAAGATTATGCCAAGAG
Found at i:16454277 original size:23 final size:23
Alignment explanation
Indices: 16454219--16454287 Score: 93
Period size: 23 Copynumber: 3.0 Consensus size: 23
16454209 AATCTTGTCG
* *
16454219 GTGCCAGCTAATATAAGTTTAAA
1 GTGCCAGCTAATCTAAGCTTAAA
* *
16454242 GTGCCAGTTAATCTAAACTTAAA
1 GTGCCAGCTAATCTAAGCTTAAA
*
16454265 GTGCCAGCTAATCTGAGCTTAAA
1 GTGCCAGCTAATCTAAGCTTAAA
16454288 ATCTCAATTA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.29
Consensus pattern (23 bp):
GTGCCAGCTAATCTAAGCTTAAA
Found at i:16454650 original size:10 final size:11
Alignment explanation
Indices: 16454634--16454673 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
16454624 TTTTTTTTGC
16454634 TATTTTTCCTT
1 TATTTTTCCTT
*
16454645 TATTTTTCTTT
1 TATTTTTCCTT
16454656 TATTTTTCTCTT
1 TATTTTTC-CTT
16454668 T-TTTTT
1 TATTTTT
16454674 AAACTATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
11 23 0.88
12 3 0.12
ACGTcount: A:0.07, C:0.12, G:0.00, T:0.80
Consensus pattern (11 bp):
TATTTTTCCTT
Found at i:16455167 original size:70 final size:71
Alignment explanation
Indices: 16455066--16455210 Score: 166
Period size: 70 Copynumber: 2.0 Consensus size: 71
16455056 GTCTTTCTTA
* * **
16455066 TGATGCAAATGTGAATGCCTTGGTTATGATATAAATG-ATGTGAATGTCTATCGCATGATACAGA
1 TGATGCAAATGTAAATGCCTTGGTTAAGATATAAATGAATACGAATGTCTATCGCATGATACAGA
16455130 TGCAAG
66 TGCAAG
* ** * * *
16455136 TGATGCAAATGTAAATGTCTTTTTTAAGATATAGATGCAAATACGAATGTCTTTCTCATGATACA
1 TGATGCAAATGTAAATGCCTTGGTTAAGATATAAATG--AATACGAATGTCTATCGCATGATACA
*
16455201 TATGCAAG
64 GATGCAAG
16455209 TG
1 TG
16455211 TGAATGCAAG
Statistics
Matches: 61, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
70 31 0.51
73 30 0.49
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.34
Consensus pattern (71 bp):
TGATGCAAATGTAAATGCCTTGGTTAAGATATAAATGAATACGAATGTCTATCGCATGATACAGA
TGCAAG
Found at i:16456326 original size:142 final size:141
Alignment explanation
Indices: 16456158--16456773 Score: 528
Period size: 148 Copynumber: 4.4 Consensus size: 141
16456148 TGCTTTTTTT
* * *
16456158 TTTTTTTTTAAACATTTGGCTTCAACTTTAGTATTCTACTTTCTTGAATTCTAT-TGTC-TTTTT
1 TTTTTTTTTAAACATTTGACTTCAACTTTAGCATTCTATTTTCTTGAATTCTATCT-TCATTTTT
* *
16456221 ACTT-AAGATTCTAACTAATGCTTCATTCACTTTTTGCCCTAGGCATTCATCTCTGAGGTGCATG
65 ACTTGAA-ATTCTAACTAAAGCTTTATTCACTTTTTGCCCTA-GCATTCATCTCTGAGGTGCATG
16456285 TCTTCCTTTCTTTGC
128 TCTT-CTTTCTTTGC
* * * * *
16456300 TTTTTTTTTAAACATTTGAATTCAACTTTGGCATTCTATTTTCTCGAATTCTATCTTC-CTTTTG
1 TTTTTTTTTAAACATTTGACTTCAACTTTAGCATTCTATTTTCTTGAATTCTATCTTCATTTTTA
* * * * * * *
16456364 CTTGAAATTCTAATTGAAA-CTTTATTTACCTTTTG-CCTCG-ATT-ATGTCT----T-TATTTC
66 CTTGAAATTCTAACT-AAAGCTTTATTCACTTTTTGCCCTAGCATTCATCTCTGAGGTGCATGTC
*
16456420 TT-TACTCTTTG-
130 TTCT-TTCTTTGC
** * * * * *
16456431 -TTTTTTAGAAACATCTGACTTCAACTTTAGCATTTTATTTTCTTAAATTTTATCTTCTTTTTTA
1 TTTTTTTTTAAACATTTGACTTCAACTTTAGCATTCTATTTTCTTGAATTCTATCTTCATTTTTA
* * * * * * *
16456495 CTTGGAATTCTAACTAAAGCTTTATTCACTTTTGGCCCTAAACTTTCATCTTTGAGTTGTATGTC
66 CTTGAAATTCTAACTAAAGCTTTATTCACTTTTTGCCCT-AGCATTCATCTCTGAGGTGCATGTC
16456560 TTTCTTTCTTTGC
130 -TTCTTTCTTTGC
* * * * *
16456573 TTTTTTTTTTTTTGAAATATTTGACTTTAACTGTAGTATTCTACTTTCTTGAATTCTATCTTCAT
1 ----TTTTTTTTT-AAACATTTGACTTCAACTTTAGCATTCTATTTTCTTGAATTCTATCTTCAT
* * * * * * * *
16456638 TTTTATTTGAAATTCTAACGAAAGTTTTATTCACTTTTT-ACCTTGAACTCTCATATCTGATGTG
61 TTTTACTTGAAATTCTAACTAAAGCTTTATTCACTTTTTGCCCTAGCA-T-TCATCTCTGAGGTG
16456702 CATGTCTATCTTTCTTTGC
124 CATGTCT-TCTTTCTTTGC
* * *
16456721 TCTTTTTTTGAAACATTTGACTTCATCTTTAGCAATCTATTTTCTTGAATTCT
1 T-TTTTTTTTAAACATTTGACTTCAACTTTAGCATTCTATTTTCTTGAATTCT
16456774 TGGGATTTCA
Statistics
Matches: 370, Mismatches: 76, Indels: 54
0.74 0.15 0.11
Matches are distributed among these distances:
130 51 0.14
131 31 0.08
132 9 0.02
133 6 0.02
134 3 0.01
135 4 0.01
138 5 0.01
139 4 0.01
140 6 0.02
141 11 0.03
142 79 0.21
143 5 0.01
144 37 0.10
145 7 0.02
147 11 0.03
148 101 0.27
ACGTcount: A:0.21, C:0.18, G:0.09, T:0.52
Consensus pattern (141 bp):
TTTTTTTTTAAACATTTGACTTCAACTTTAGCATTCTATTTTCTTGAATTCTATCTTCATTTTTA
CTTGAAATTCTAACTAAAGCTTTATTCACTTTTTGCCCTAGCATTCATCTCTGAGGTGCATGTCT
TCTTTCTTTGC
Found at i:16465688 original size:19 final size:22
Alignment explanation
Indices: 16465649--16465688 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
16465639 TGGATATTTT
16465649 ATTTAGAGGCTTATGTGTGGTG
1 ATTTAGAGGCTTATGTGTGGTG
16465671 ATTT-GAGG-TTAT-TGTGGT
1 ATTTAGAGGCTTATGTGTGGT
16465689 AGGAATGTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 4 0.22
21 4 0.22
22 4 0.22
ACGTcount: A:0.17, C:0.03, G:0.35, T:0.45
Consensus pattern (22 bp):
ATTTAGAGGCTTATGTGTGGTG
Found at i:16470227 original size:23 final size:22
Alignment explanation
Indices: 16470180--16470234 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
16470170 CTCAGGGTAT
*
16470180 AATCTTTAAAATTTTCAATGAA
1 AATCTTTGAAATTTTCAATGAA
*
16470202 AATCTTTGAAATTTTCAAATGGA
1 AATCTTTGAAATTTTC-AATGAA
*
16470225 AATATTTGAA
1 AATCTTTGAA
16470235 CGTTTCTAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
22 15 0.52
23 14 0.48
ACGTcount: A:0.44, C:0.07, G:0.09, T:0.40
Consensus pattern (22 bp):
AATCTTTGAAATTTTCAATGAA
Found at i:16470240 original size:23 final size:22
Alignment explanation
Indices: 16470192--16470240 Score: 53
Period size: 23 Copynumber: 2.2 Consensus size: 22
16470182 TCTTTAAAAT
* *
16470192 TTTCAATGAAAATCTTTGAAAT
1 TTTCAATGAAAATATTTGAAAG
* *
16470214 TTTCAAATGGAAATATTTGAACG
1 TTTC-AATGAAAATATTTGAAAG
16470237 TTTC
1 TTTC
16470241 TAATATGAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
22 4 0.18
23 18 0.82
ACGTcount: A:0.37, C:0.10, G:0.12, T:0.41
Consensus pattern (22 bp):
TTTCAATGAAAATATTTGAAAG
Found at i:16470667 original size:22 final size:22
Alignment explanation
Indices: 16470633--16470696 Score: 110
Period size: 22 Copynumber: 2.9 Consensus size: 22
16470623 TTCTAATGTC
* *
16470633 GAATCTTTGAATTTCAAATTAA
1 GAATTTTTTAATTTCAAATTAA
16470655 GAATTTTTTAATTTCAAATTAA
1 GAATTTTTTAATTTCAAATTAA
16470677 GAATTTTTTAATTTCAAATT
1 GAATTTTTTAATTTCAAATT
16470697 TTAAACCTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.48
Consensus pattern (22 bp):
GAATTTTTTAATTTCAAATTAA
Found at i:16472880 original size:2 final size:2
Alignment explanation
Indices: 16472875--16472899 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
16472865 TGATTATGTT
16472875 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 T
16472900 CTTGTATGCA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:16480283 original size:55 final size:55
Alignment explanation
Indices: 16480203--16480403 Score: 200
Period size: 55 Copynumber: 3.7 Consensus size: 55
16480193 TTGAAAATGA
*
16480203 TAAGAAAAAAGTTGAAATA-CTAATCTTTCCTTAAAATAAATTGTTTTTGAAAAAT
1 TAAGAAAATAGTTGAAATATC-AATCTTTCCTTAAAATAAATTGTTTTTGAAAAAT
* *
16480258 TAA-AGAAATAGTTGAAATATCAATCTTTCATTGAAATAAATTG-TTTTGAAAAAT
1 TAAGA-AAATAGTTGAAATATCAATCTTTCCTTAAAATAAATTGTTTTTGAAAAAT
* * * *
16480312 TACGAAAATAGTTGAAATATAAAAT-TTTTCTTAATAT-AATAT-TTTTTGAAAAATAT
1 TAAGAAAATAGTTGAAATAT-CAATCTTTCCTTAAAATAAAT-TGTTTTTG-AAAA-AT
* * * *
16480368 TTAGAAAAAAGTTGAAATATTAATTTTTCC-TAAAAT
1 TAAGAAAATAGTTGAAATATCAATCTTTCCTTAAAAT
16480404 TGTGAAAAAC
Statistics
Matches: 122, Mismatches: 15, Indels: 18
0.79 0.10 0.12
Matches are distributed among these distances:
53 3 0.02
54 43 0.35
55 52 0.43
56 24 0.20
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.39
Consensus pattern (55 bp):
TAAGAAAATAGTTGAAATATCAATCTTTCCTTAAAATAAATTGTTTTTGAAAAAT
Found at i:16487243 original size:16 final size:16
Alignment explanation
Indices: 16487201--16487243 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
16487191 TAATAATTAA
16487201 AATATTAAAAATTATTT
1 AATATT-AAAATTATTT
*
16487218 ATTATTAAAATTA-TT
1 AATATTAAAATTATTT
16487233 AATATTCAAAA
1 AATATT-AAAA
16487244 AAATTATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 7 0.30
16 11 0.48
17 5 0.22
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
AATATTAAAATTATTT
Found at i:16487347 original size:47 final size:44
Alignment explanation
Indices: 16487281--16487369 Score: 124
Period size: 47 Copynumber: 2.0 Consensus size: 44
16487271 TATTAAAATA
16487281 TTATATTAATATAAAAATATTTAAAATAAAACTATTTATTATTCT
1 TTATATTAATATAAAAATATTTAAAATAAAACTATTT-TTATTCT
* * *
16487326 TTATATTAATATTTTAAAATATTTAAAATAATATTATTTTTATT
1 TTATATTAATA--TAAAAATATTTAAAATAAAACTATTTTTATT
16487370 AATATTAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
45 11 0.28
46 5 0.13
47 23 0.59
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (44 bp):
TTATATTAATATAAAAATATTTAAAATAAAACTATTTTTATTCT
Found at i:16487395 original size:27 final size:27
Alignment explanation
Indices: 16487343--16487398 Score: 78
Period size: 26 Copynumber: 2.1 Consensus size: 27
16487333 AATATTTTAA
*
16487343 AATATTTAAAATAATATTATTTTTATT
1 AATATTTAAAATAATAATATTTTTATT
*
16487370 AATA-TTAAAATAGTAATATTTATTATT
1 AATATTTAAAATAATAATATTT-TTATT
16487397 AA
1 AA
16487399 AATATTTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
26 15 0.58
27 11 0.42
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (27 bp):
AATATTTAAAATAATAATATTTTTATT
Found at i:16487398 original size:21 final size:21
Alignment explanation
Indices: 16487372--16487411 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
16487362 TTTTTATTAA
16487372 TATTAAAATAGTAATATTTAT
1 TATTAAAATAGTAATATTTAT
* *
16487393 TATTAAAATATTTATATTT
1 TATTAAAATAGTAATATTT
16487412 TATATTGAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (21 bp):
TATTAAAATAGTAATATTTAT
Found at i:16487417 original size:21 final size:20
Alignment explanation
Indices: 16487366--16487417 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
16487356 ATATTATTTT
*
16487366 TATTAATATTAAAATAGTAA
1 TATTTATATTAAAATAGTAA
* *
16487386 TATTTATTATTAAAATATTTA
1 TATTTA-TATTAAAATAGTAA
16487407 TATTTTATATT
1 TA-TTTATATT
16487418 GAAAGTATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.19
21 18 0.67
22 4 0.15
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (20 bp):
TATTTATATTAAAATAGTAA
Found at i:16488237 original size:15 final size:14
Alignment explanation
Indices: 16488210--16488239 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
16488200 TTAAAAAATA
16488210 TAAAAATTATTTTT
1 TAAAAATTATTTTT
16488224 TAAAAATTATTTTT
1 TAAAAATTATTTTT
16488238 TA
1 TA
16488240 CGAAACAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TAAAAATTATTTTT
Found at i:16488962 original size:13 final size:13
Alignment explanation
Indices: 16488935--16488984 Score: 50
Period size: 12 Copynumber: 3.9 Consensus size: 13
16488925 AAAATTTTCA
*
16488935 AATTAATTTATTAT
1 AATT-ATTTAATAT
16488949 AATTATTTAATAT
1 AATTATTTAATAT
*
16488962 -ATCATTT-ATAT
1 AATTATTTAATAT
*
16488973 AATTCTTTAATA
1 AATTATTTAATA
16488985 AATAAATAGA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
11 4 0.13
12 11 0.37
13 11 0.37
14 4 0.13
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (13 bp):
AATTATTTAATAT
Found at i:16498176 original size:10 final size:10
Alignment explanation
Indices: 16498161--16498191 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
16498151 GTAATTTAAT
16498161 TTTAAATATG
1 TTTAAATATG
16498171 TTTAAATATG
1 TTTAAATATG
16498181 TTTAAATATG
1 TTTAAATATG
16498191 T
1 T
16498192 AATATTTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.39, C:0.00, G:0.10, T:0.52
Consensus pattern (10 bp):
TTTAAATATG
Found at i:16498196 original size:27 final size:28
Alignment explanation
Indices: 16498165--16498223 Score: 68
Period size: 27 Copynumber: 2.1 Consensus size: 28
16498155 TTTAATTTTA
* * *
16498165 AATATGTTT-AAATATGTTTAAAT-ATGT
1 AATAT-TTTGAAACATGCTTAAATCATAT
16498192 AATATTTTGAAACATGCTTAAATCATAT
1 AATATTTTGAAACATGCTTAAATCATAT
16498220 AATA
1 AATA
16498224 GAAAATCTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 3 0.11
27 17 0.63
28 7 0.26
ACGTcount: A:0.44, C:0.05, G:0.08, T:0.42
Consensus pattern (28 bp):
AATATTTTGAAACATGCTTAAATCATAT
Found at i:16501783 original size:2 final size:2
Alignment explanation
Indices: 16501776--16501806 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
16501766 ACATGGCTTG
16501776 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 T
16501807 GTAAAAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:16504944 original size:10 final size:11
Alignment explanation
Indices: 16504921--16504956 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
16504911 AAGTAATACA
*
16504921 ATAAAATTAAT
1 ATAAAAATAAT
16504932 ATAAAAA-AAT
1 ATAAAAATAAT
16504942 ATAAAAATAAT
1 ATAAAAATAAT
16504953 ATAA
1 ATAA
16504957 TTTAAATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 10 0.43
11 13 0.57
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
ATAAAAATAAT
Found at i:16505336 original size:28 final size:29
Alignment explanation
Indices: 16505271--16505335 Score: 130
Period size: 29 Copynumber: 2.2 Consensus size: 29
16505261 CTTTTCAATT
16505271 TTTTTTTTGTTTTTTACTTAAACTTTTTA
1 TTTTTTTTGTTTTTTACTTAAACTTTTTA
16505300 TTTTTTTTGTTTTTTACTTAAACTTTTTA
1 TTTTTTTTGTTTTTTACTTAAACTTTTTA
16505329 TTTTTTT
1 TTTTTTT
16505336 GGGGTTTTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.15, C:0.06, G:0.03, T:0.75
Consensus pattern (29 bp):
TTTTTTTTGTTTTTTACTTAAACTTTTTA
Found at i:16505343 original size:29 final size:29
Alignment explanation
Indices: 16505282--16505344 Score: 99
Period size: 29 Copynumber: 2.2 Consensus size: 29
16505272 TTTTTTTGTT
* **
16505282 TTTTACTTAAACTTTTTATTTTTTTTGTT
1 TTTTACTTAAACTTTTTATTTTTTTGGGG
16505311 TTTTACTTAAACTTTTTATTTTTTTGGGG
1 TTTTACTTAAACTTTTTATTTTTTTGGGG
16505340 TTTTA
1 TTTTA
16505345 ACTTTAATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.17, C:0.06, G:0.08, T:0.68
Consensus pattern (29 bp):
TTTTACTTAAACTTTTTATTTTTTTGGGG
Found at i:16506127 original size:2 final size:2
Alignment explanation
Indices: 16506120--16506149 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
16506110 CTCCACTCCA
16506120 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
16506150 TGTTATTTAT
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:16509891 original size:42 final size:42
Alignment explanation
Indices: 16509845--16509981 Score: 159
Period size: 42 Copynumber: 3.3 Consensus size: 42
16509835 TTTTATTTAT
* * *
16509845 GGTTTTCTATTATTATTTTTAATTGCTCAAATTTATAGTTAA
1 GGTTTTCTGTTATTGTTCTTAATTGCTCAAATTTATAGTTAA
* * * *
16509887 GGTTTTCTGCTATTGTTCTTAATTGCTTAAATTTATATTTGA
1 GGTTTTCTGTTATTGTTCTTAATTGCTCAAATTTATAGTTAA
* * * *
16509929 GGTTTTTTGTTGTTGTTCTTAATTGCTCGAAA-TAATAGTTAG
1 GGTTTTCTGTTATTGTTCTTAATTGCTC-AAATTTATAGTTAA
16509971 GGTTTTCTGTT
1 GGTTTTCTGTT
16509982 CTTAATTGGT
Statistics
Matches: 78, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
42 75 0.96
43 3 0.04
ACGTcount: A:0.22, C:0.08, G:0.16, T:0.54
Consensus pattern (42 bp):
GGTTTTCTGTTATTGTTCTTAATTGCTCAAATTTATAGTTAA
Found at i:16509982 original size:36 final size:36
Alignment explanation
Indices: 16509942--16510015 Score: 121
Period size: 36 Copynumber: 2.1 Consensus size: 36
16509932 TTTTTGTTGT
*
16509942 TGTTCTTAATTGCTCGAAATAATAGTTAGGGTTTTC
1 TGTTCTTAATTGCTCGAAATAATAGTTAGGGCTTTC
* *
16509978 TGTTCTTAATTGGTCGAAATTATAGTTAGGGCTTTC
1 TGTTCTTAATTGCTCGAAATAATAGTTAGGGCTTTC
16510014 TG
1 TG
16510016 CTATTTAAGC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.23, C:0.11, G:0.22, T:0.45
Consensus pattern (36 bp):
TGTTCTTAATTGCTCGAAATAATAGTTAGGGCTTTC
Found at i:16510763 original size:18 final size:18
Alignment explanation
Indices: 16510707--16510763 Score: 50
Period size: 18 Copynumber: 3.4 Consensus size: 18
16510697 TTATAACATG
*
16510707 ATTATAACAAAGTAAAAG
1 ATTATAACAAAGTAAAAA
* *
16510725 CTTATAAC--A-T-AAAT
1 ATTATAACAAAGTAAAAA
*
16510739 TTTATAACAAAGTAAAAA
1 ATTATAACAAAGTAAAAA
16510757 ATTATAA
1 ATTATAA
16510764 TAGAAATTAG
Statistics
Matches: 30, Mismatches: 5, Indels: 8
0.70 0.12 0.19
Matches are distributed among these distances:
14 10 0.33
15 1 0.03
16 2 0.07
17 1 0.03
18 16 0.53
ACGTcount: A:0.58, C:0.07, G:0.05, T:0.30
Consensus pattern (18 bp):
ATTATAACAAAGTAAAAA
Found at i:16510771 original size:32 final size:32
Alignment explanation
Indices: 16510708--16510771 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
16510698 TATAACATGA
** *
16510708 TTATAACAAAGTAAAAGCTTATAACATAAATT
1 TTATAACAAAGTAAAAAATTATAACAGAAATT
*
16510740 TTATAACAAAGTAAAAAATTATAATAGAAATT
1 TTATAACAAAGTAAAAAATTATAACAGAAATT
16510772 AGATAATAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.56, C:0.06, G:0.06, T:0.31
Consensus pattern (32 bp):
TTATAACAAAGTAAAAAATTATAACAGAAATT
Found at i:16511347 original size:42 final size:43
Alignment explanation
Indices: 16511283--16511389 Score: 128
Period size: 42 Copynumber: 2.5 Consensus size: 43
16511273 TGAAAGATGC
* * *
16511283 AGTTGAGGTAGTAGAGAGTGAAACGGTAAAAAATTAACATGT-
1 AGTTGAGGTAGTAGGGAATGAAACGGTAAAAAATCAACATGTA
* * * *
16511325 AGTTGATGTAGTAGGGAATGAAATGGTAGAAAATCAATATGTA
1 AGTTGAGGTAGTAGGGAATGAAACGGTAAAAAATCAACATGTA
*
16511368 AG-TGAGGCAGTAGGGAATGAAA
1 AGTTGAGGTAGTAGGGAATGAAA
16511390 AGATAGAAAC
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
42 53 0.96
43 2 0.04
ACGTcount: A:0.42, C:0.04, G:0.31, T:0.23
Consensus pattern (43 bp):
AGTTGAGGTAGTAGGGAATGAAACGGTAAAAAATCAACATGTA
Found at i:16515477 original size:22 final size:23
Alignment explanation
Indices: 16515443--16515500 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 23
16515433 ATCAAAAAGC
* * *
16515443 AAATACTAGTAAAAATA-TAAAA
1 AAATACCAATAAAAATACCAAAA
*
16515465 AAATACCAATAAAAATACCAAAG
1 AAATACCAATAAAAATACCAAAA
*
16515488 AAATATCAATAAA
1 AAATACCAATAAA
16515501 TTTATCGAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 15 0.50
23 15 0.50
ACGTcount: A:0.67, C:0.10, G:0.03, T:0.19
Consensus pattern (23 bp):
AAATACCAATAAAAATACCAAAA
Found at i:16515478 original size:12 final size:12
Alignment explanation
Indices: 16515463--16515500 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
16515453 AAAAATATAA
16515463 AAAAATACCAAT
1 AAAAATACCAAT
16515475 AAAAATACCAA-
1 AAAAATACCAAT
* *
16515486 AGAAATATCAAT
1 AAAAATACCAAT
16515498 AAA
1 AAA
16515501 TTTATCGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
11 9 0.41
12 13 0.59
ACGTcount: A:0.68, C:0.13, G:0.03, T:0.16
Consensus pattern (12 bp):
AAAAATACCAAT
Found at i:16515491 original size:23 final size:22
Alignment explanation
Indices: 16515438--16515500 Score: 63
Period size: 23 Copynumber: 2.8 Consensus size: 22
16515428 AAAATATCAA
* * *
16515438 AAAGCAAATACTAGTAAAAATAT
1 AAAG-AAATACCAATAAAAATAC
*
16515461 AAAAAAATACCAATAAAAATACC
1 AAAGAAATACCAATAAAAATA-C
*
16515484 AAAGAAATATCAATAAA
1 AAAGAAATACCAATAAA
16515501 TTTATCGAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
22 15 0.45
23 18 0.55
ACGTcount: A:0.67, C:0.11, G:0.05, T:0.17
Consensus pattern (22 bp):
AAAGAAATACCAATAAAAATAC
Found at i:16516386 original size:2 final size:2
Alignment explanation
Indices: 16516379--16516408 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
16516369 TCAATCAGTG
16516379 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
16516409 TCAAATACAT
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:16519374 original size:26 final size:28
Alignment explanation
Indices: 16519331--16519389 Score: 70
Period size: 26 Copynumber: 2.2 Consensus size: 28
16519321 TTATTATTTG
*
16519331 TTATATATAGATAATATTTTA-TAGAATA
1 TTATATATAGATAATATTTGACTA-AATA
*
16519359 TTATATATA-A-AGTATTTGACTAAATA
1 TTATATATAGATAATATTTGACTAAATA
16519385 TTATA
1 TTATA
16519390 AACATATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 16 0.57
27 3 0.11
28 9 0.32
ACGTcount: A:0.46, C:0.02, G:0.07, T:0.46
Consensus pattern (28 bp):
TTATATATAGATAATATTTGACTAAATA
Found at i:16519903 original size:18 final size:17
Alignment explanation
Indices: 16519857--16519890 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
16519847 TTTTTATTTT
**
16519857 ATAAAAATTTTTAAAAA
1 ATAAAAATTAATAAAAA
16519874 ATAAAAATTAATAAAAA
1 ATAAAAATTAATAAAAA
16519891 TATATAATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
ATAAAAATTAATAAAAA
Found at i:16520695 original size:22 final size:22
Alignment explanation
Indices: 16520669--16520734 Score: 63
Period size: 22 Copynumber: 3.3 Consensus size: 22
16520659 TAAACATGAT
16520669 TAATTTTTATTTGTACAGTCAA
1 TAATTTTTATTTGTACAGTCAA
* *
16520691 TAA--TTTA-TAG-A-AATC-A
1 TAATTTTTATTTGTACAGTCAA
*
16520707 TAATTTTTATTTGTACTGTCAA
1 TAATTTTTATTTGTACAGTCAA
16520729 TAATTT
1 TAATTT
16520735 ATAGAAATCA
Statistics
Matches: 33, Mismatches: 5, Indels: 12
0.66 0.10 0.24
Matches are distributed among these distances:
16 4 0.12
17 3 0.09
18 5 0.15
19 4 0.12
20 5 0.15
21 2 0.06
22 10 0.30
ACGTcount: A:0.35, C:0.08, G:0.08, T:0.50
Consensus pattern (22 bp):
TAATTTTTATTTGTACAGTCAA
Found at i:16520713 original size:38 final size:38
Alignment explanation
Indices: 16520669--16520744 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
16520659 TAAACATGAT
16520669 TAATTTTTATTTGTACAGTCAATAATTTATAGAAATCA
1 TAATTTTTATTTGTACAGTCAATAATTTATAGAAATCA
*
16520707 TAATTTTTATTTGTACTGTCAATAATTTATAGAAATCA
1 TAATTTTTATTTGTACAGTCAATAATTTATAGAAATCA
16520745 ATCATTTGTA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (38 bp):
TAATTTTTATTTGTACAGTCAATAATTTATAGAAATCA
Found at i:16521718 original size:2 final size:2
Alignment explanation
Indices: 16521711--16521737 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
16521701 TAATTTTGTG
16521711 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
16521738 TATCAGTGAA
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:16525147 original size:30 final size:30
Alignment explanation
Indices: 16525111--16525179 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 30
16525101 ACTTTACATT
* *
16525111 TAAATAAATCCTTCAA-CTTTAATTTGTATA
1 TAAATAAATCATT-AATATTTAATTTGTATA
*
16525141 TAAATAAATCATTAATATTTAATTTGTATT
1 TAAATAAATCATTAATATTTAATTTGTATA
16525171 TAAATAAAT
1 TAAATAAAT
16525180 TTTTAACATA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
29 2 0.06
30 33 0.94
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.45
Consensus pattern (30 bp):
TAAATAAATCATTAATATTTAATTTGTATA
Found at i:16525268 original size:25 final size:27
Alignment explanation
Indices: 16525207--16525273 Score: 68
Period size: 29 Copynumber: 2.5 Consensus size: 27
16525197 ATTTTGTTTG
16525207 AAATAAAA-ATATATTTAAATATAATA
1 AAATAAAATATATATTTAAATATAATA
*
16525233 AAAGTACAAATATTTATTTAAATA-AA-A
1 AAA-TA-AAATATATATTTAAATATAATA
* *
16525260 CAATAAAATTTATA
1 AAATAAAATATATA
16525274 AATTTTTTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
25 7 0.21
26 5 0.15
27 5 0.15
28 5 0.15
29 12 0.35
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.34
Consensus pattern (27 bp):
AAATAAAATATATATTTAAATATAATA
Found at i:16526883 original size:25 final size:26
Alignment explanation
Indices: 16526832--16526905 Score: 66
Period size: 26 Copynumber: 2.9 Consensus size: 26
16526822 AAAATTAATA
*
16526832 TTTATTTATTAATAAATTATTATAAT
1 TTTATTTATTAATAAATTATTAAAAT
*
16526858 TTTATTTATTGAT-AA-TATATAAAA-
1 TTTATTTATTAATAAATTAT-TAAAAT
**
16526882 TTTATACATTAA-AAATATATTAAA
1 TTTATTTATTAATAAAT-TATTAAA
16526906 TATAATTTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
24 14 0.36
25 10 0.26
26 15 0.38
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (26 bp):
TTTATTTATTAATAAATTATTAAAAT
Found at i:16528100 original size:126 final size:128
Alignment explanation
Indices: 16527871--16528139 Score: 312
Period size: 126 Copynumber: 2.1 Consensus size: 128
16527861 AATTTTGGAG
* * * * * * *
16527871 AGAGAATATTAAAGGTGTTTTTGACAGAAAAATACTTTCAATAATCCATAGAAAAAAATTTGGAA
1 AGAGATTATTAAAGGCGGTTTTGACAGAAAAACACCTTCAATAATCCATACAAAAAAATTTGAAA
** *
16527936 TGGATTCTTAAAGGCATTTTTGACCAAAAGTGCATTTAATAATTCA-ATCAATAAACTTTTATA
66 CAGATTCTTAAAGGCATTTTTGACCAAAAGTGCATTTAATAATCCATAT-AATAAACTTTTATA
* *
16527999 AGAGATTATTAAAGGCGGTTTTGATA-AAAAACACCTTCAATAATTCATACAAAAAAA-TTGAAA
1 AGAGATTATTAAAGGCGGTTTTGACAGAAAAACACCTTCAATAATCCATACAAAAAAATTTGAAA
* * * * * *
16528062 CAGATTCTTGAAGGTATTTTTAGCCCAAAA-TGCCTTTAATAATCCATATAATAAATTTTTATG
66 CAGATTCTTAAAGGCATTTTT-GACCAAAAGTGCATTTAATAATCCATATAATAAACTTTTATA
* *
16528125 AGGGATTATTGAAGG
1 AGAGATTATTAAAGG
16528140 TGGCTTTGGT
Statistics
Matches: 119, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
126 61 0.51
127 36 0.30
128 22 0.18
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.33
Consensus pattern (128 bp):
AGAGATTATTAAAGGCGGTTTTGACAGAAAAACACCTTCAATAATCCATACAAAAAAATTTGAAA
CAGATTCTTAAAGGCATTTTTGACCAAAAGTGCATTTAATAATCCATATAATAAACTTTTATA
Found at i:16528167 original size:126 final size:127
Alignment explanation
Indices: 16527905--16528167 Score: 289
Period size: 126 Copynumber: 2.1 Consensus size: 127
16527895 CAGAAAAATA
* * **
16527905 CTTTCAATAATCCATAGAAAAAAATTTGGAATGGATTCTTAAAGGCATTTTTGACCAAAAGTGCA
1 CTTT-AATAATCCATACAAAAAAATTTGAAACAGATTCTTAAAGGCATTTTTGACCAAAAGTGCA
* *
16527970 TTTAATAATTCAATCAATAAACTTTTATAAGAGATTATTAAAGGCGGTTTTGATAAAAAACAC
65 TTTAATAATCCAATCAATAAACTTTTATAAGAGATTATTAAAGGCGGCTTTGATAAAAAACAC
* * * * * *
16528033 CTTCAATAATTCATACAAAAAAA-TTGAAACAGATTCTTGAAGGTATTTTTAGCCCAAAA-TGCC
1 CTTTAATAATCCATACAAAAAAATTTGAAACAGATTCTTAAAGGCATTTTT-GACCAAAAGTGCA
* * * * * * * **
16528096 TTTAATAATCCATAT-AATAAATTTTTATGAGGGATTATTGAAGGTGGCTTTGGTCAAAAATGC
65 TTTAATAATCCA-ATCAATAAACTTTTATAAGAGATTATTAAAGGCGGCTTTGATAAAAAACAC
16528159 CTTTAATAA
1 CTTTAATAA
16528168 CATTTTGTTA
Statistics
Matches: 111, Mismatches: 22, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
126 82 0.74
127 26 0.23
128 3 0.03
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.34
Consensus pattern (127 bp):
CTTTAATAATCCATACAAAAAAATTTGAAACAGATTCTTAAAGGCATTTTTGACCAAAAGTGCAT
TTAATAATCCAATCAATAAACTTTTATAAGAGATTATTAAAGGCGGCTTTGATAAAAAACAC
Found at i:16528306 original size:35 final size:35
Alignment explanation
Indices: 16528250--16528326 Score: 109
Period size: 35 Copynumber: 2.2 Consensus size: 35
16528240 ATTTAATTAT
*
16528250 ATATGTGAAGTCAGTTATAGGTTTATACCAAGAAA
1 ATATTTGAAGTCAGTTATAGGTTTATACCAAGAAA
* * * *
16528285 ATATTTGAAGTTAGTTGTAGGTTTATGCCCAGAAA
1 ATATTTGAAGTCAGTTATAGGTTTATACCAAGAAA
16528320 ATATTTG
1 ATATTTG
16528327 GTTTATATAT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.35, C:0.08, G:0.21, T:0.36
Consensus pattern (35 bp):
ATATTTGAAGTCAGTTATAGGTTTATACCAAGAAA
Found at i:16531551 original size:28 final size:28
Alignment explanation
Indices: 16531519--16531593 Score: 105
Period size: 28 Copynumber: 2.7 Consensus size: 28
16531509 ATCATTCAAA
*
16531519 AATACCATTCAGCAAACCAATATTATAC
1 AATACCATTCAGCAAACCAATATCATAC
* **
16531547 AATACCATTCAACAAAATAATATCATAC
1 AATACCATTCAGCAAACCAATATCATAC
*
16531575 AATACCATTCAGTAAACCA
1 AATACCATTCAGCAAACCA
16531594 CAATATTTAA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.49, C:0.24, G:0.03, T:0.24
Consensus pattern (28 bp):
AATACCATTCAGCAAACCAATATCATAC
Found at i:16533814 original size:318 final size:321
Alignment explanation
Indices: 16533234--16533832 Score: 841
Period size: 318 Copynumber: 1.9 Consensus size: 321
16533224 GCAAAAAATA
* * * *
16533234 CTTTCAATAAATTCTTCTTAAAAATTGGAGTGATTTATTGCAAGCATTTTTAGTAGAAAATCGCA
1 CTTTCAATAAATTCTTCTTAAAAATTGGAGTGAATTATTGCAAGCAGTTTTAGTAAAAAATCACA
* **** *
16533299 TTCACTTGTATTCCCCTGATAAAAATGGAGAAAAATTGTTAAAGGCATATTATGTGGAAAACGCC
66 TTCACTTGTATTCCCCTGATAAAAATGGAGAAAAATTATTAAAGGCATATTATACAAAAAACACC
* *
16533364 TTCAATAAATTCTTTTAAAAAATTAGAGGGAATTAATGAAGGTATTTTTCTGGCAAAAATGCCTT
131 TTCAATAAATTCTTTTAAAAAATTAGAGGGAATTAATAAAGGCATTTTTCTGGCAAAAATGCCTT
* * * *
16533429 CAATAATTACTTTAAAATTTTACTATGAGATTCTTGAAGGCGTTTTTTTTACTAAAAGACACCTT
196 CAATAATCACTTTAAAATTTTACTACGAGATTATTGAAGGCATTTTTTTTACTAAAAGACACCTT
16533494 TAATAA-TCCAAAATTTTTTTTTAAAATTATTGAAGGTGTTTTTTCTAAAAAAATGCTACG
261 TAATAATTCCAAAATTTTTTTTTAAAATTATTGAAGGTGTTTTTTCTAAAAAAATGCTACG
*
16533554 CTTTCAATAAATT-TATCTTAAAAATTGGAGTGAATTATTG-AAGGCAGTTTTAGTAAAAAATTA
1 CTTTCAATAAATTCT-TCTTAAAAATTGGAGTGAATTATTGCAA-GCAGTTTTAGTAAAAAATCA
* * * * * *
16533617 CCTTCAC-TGATATTCTCTTGATAAAAATTGAG-AAAATTATTGAAGGCATATTATACAAAAAAT
64 CATTCACTTG-TATTCCCCTGATAAAAATGGAGAAAAATTATTAAAGGCATATTATACAAAAAAC
* * *
16533680 ACTTTCAATAAATTC-TTTAAAAAATTAGAGGGAATTAGTAAAGGCATTTTTCTGGCAAGAATGC
128 ACCTTCAATAAATTCTTTTAAAAAATTAGAGGGAATTAATAAAGGCATTTTTCTGGCAAAAATGC
* * * **
16533744 CTTCAATAATCCCTTTAAAATTTTACTACGGGATTATTGAATGCATTTTTTTTACTAAAAGATGC
193 CTTCAATAATCACTTTAAAATTTTACTACGAGATTATTGAAGGCATTTTTTTTACTAAAAGACAC
*
16533809 CTTTAATAATTCTAAAATTTTTTT
258 CTTTAATAATTCCAAAATTTTTTT
16533833 AAAAGGAATT
Statistics
Matches: 243, Mismatches: 32, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
318 110 0.45
319 55 0.23
320 78 0.32
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.38
Consensus pattern (321 bp):
CTTTCAATAAATTCTTCTTAAAAATTGGAGTGAATTATTGCAAGCAGTTTTAGTAAAAAATCACA
TTCACTTGTATTCCCCTGATAAAAATGGAGAAAAATTATTAAAGGCATATTATACAAAAAACACC
TTCAATAAATTCTTTTAAAAAATTAGAGGGAATTAATAAAGGCATTTTTCTGGCAAAAATGCCTT
CAATAATCACTTTAAAATTTTACTACGAGATTATTGAAGGCATTTTTTTTACTAAAAGACACCTT
TAATAATTCCAAAATTTTTTTTTAAAATTATTGAAGGTGTTTTTTCTAAAAAAATGCTACG
Found at i:16536405 original size:12 final size:12
Alignment explanation
Indices: 16536390--16536425 Score: 72
Period size: 12 Copynumber: 3.0 Consensus size: 12
16536380 ATGTTGAAAG
16536390 CGATGAAGAAGA
1 CGATGAAGAAGA
16536402 CGATGAAGAAGA
1 CGATGAAGAAGA
16536414 CGATGAAGAAGA
1 CGATGAAGAAGA
16536426 TGACCCCAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.50, C:0.08, G:0.33, T:0.08
Consensus pattern (12 bp):
CGATGAAGAAGA
Found at i:16542585 original size:13 final size:13
Alignment explanation
Indices: 16542567--16542592 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
16542557 TTCAGGTATT
16542567 TTTTTATTTTTTA
1 TTTTTATTTTTTA
16542580 TTTTTATTTTTTA
1 TTTTTATTTTTTA
16542593 AAATTTTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTTATTTTTTA
Found at i:16542919 original size:17 final size:16
Alignment explanation
Indices: 16542876--16542930 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
16542866 AATTATATAA
16542876 AATTTTTTTAATAA-T
1 AATTTTTTTAATAATT
** **
16542891 AATAATAATAATAAATT
1 AATTTTTTTAAT-AATT
16542908 AATTTTTTTAATAATT
1 AATTTTTTTAATAATT
16542924 AATTTTT
1 AATTTTT
16542931 ATAAAAAATG
Statistics
Matches: 30, Mismatches: 8, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
15 8 0.27
16 13 0.43
17 9 0.30
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
AATTTTTTTAATAATT
Found at i:16543125 original size:14 final size:14
Alignment explanation
Indices: 16543077--16543158 Score: 78
Period size: 14 Copynumber: 5.9 Consensus size: 14
16543067 CCTAAAATTT
16543077 TAAAATCCCTAAA-C
1 TAAAA-CCCTAAATC
* *
16543091 CAAAACCTTAAAT-
1 TAAAACCCTAAATC
*
16543104 TGAAACCCTAAATC
1 TAAAACCCTAAATC
16543118 TAAAACCCTAAAATC
1 TAAAACCCT-AAATC
* *
16543133 CAAAACCTTAAATC
1 TAAAACCCTAAATC
*
16543147 TAAATCCCTAAA
1 TAAAACCCTAAA
16543159 ATTCAAAATC
Statistics
Matches: 54, Mismatches: 11, Indels: 6
0.76 0.15 0.08
Matches are distributed among these distances:
13 16 0.30
14 26 0.48
15 12 0.22
ACGTcount: A:0.50, C:0.27, G:0.01, T:0.22
Consensus pattern (14 bp):
TAAAACCCTAAATC
Found at i:16543137 original size:15 final size:15
Alignment explanation
Indices: 16543106--16543180 Score: 82
Period size: 15 Copynumber: 5.1 Consensus size: 15
16543096 CCTTAAATTG
*
16543106 AAACCCT-AAATCTA
1 AAACCCTAAAATCCA
16543120 AAACCCTAAAATCCA
1 AAACCCTAAAATCCA
* *
16543135 AAA-CCTTAAATCTA
1 AAACCCTAAAATCCA
* *
16543149 AATCCCTAAAATTCA
1 AAACCCTAAAATCCA
*
16543164 AAATCCTAAAATCCA
1 AAACCCTAAAATCCA
16543179 AA
1 AA
16543181 CCCCAAAAGT
Statistics
Matches: 49, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
14 18 0.37
15 31 0.63
ACGTcount: A:0.52, C:0.27, G:0.00, T:0.21
Consensus pattern (15 bp):
AAACCCTAAAATCCA
Found at i:16543145 original size:29 final size:29
Alignment explanation
Indices: 16543106--16543176 Score: 97
Period size: 29 Copynumber: 2.4 Consensus size: 29
16543096 CCTTAAATTG
*
16543106 AAACCCTAAATCTAAAACCCTAAAATCCA
1 AAACCTTAAATCTAAAACCCTAAAATCCA
* *
16543135 AAACCTTAAATCTAAATCCCTAAAATTCA
1 AAACCTTAAATCTAAAACCCTAAAATCCA
*
16543164 AAATCCTAAAATC
1 AAA-CCTTAAATC
16543177 CAAACCCCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
29 29 0.78
30 8 0.22
ACGTcount: A:0.51, C:0.27, G:0.00, T:0.23
Consensus pattern (29 bp):
AAACCTTAAATCTAAAACCCTAAAATCCA
Found at i:16543174 original size:8 final size:8
Alignment explanation
Indices: 16543113--16543177 Score: 52
Period size: 7 Copynumber: 8.8 Consensus size: 8
16543103 TTGAAACCCT
16543113 AAAT-CTA
1 AAATCCTA
*
16543120 AAACCCTA
1 AAATCCTA
16543128 AAATCC-A
1 AAATCCTA
*
16543135 AAA-CCTT
1 AAATCCTA
16543142 AAAT-CT-
1 AAATCCTA
16543148 AAATCCCTA
1 AAAT-CCTA
*
16543157 AAATTC-A
1 AAATCCTA
16543164 AAATCCTA
1 AAATCCTA
16543172 AAATCC
1 AAATCC
16543178 AAACCCCAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 13
0.72 0.08 0.20
Matches are distributed among these distances:
6 6 0.13
7 18 0.39
8 18 0.39
9 4 0.09
ACGTcount: A:0.51, C:0.26, G:0.00, T:0.23
Consensus pattern (8 bp):
AAATCCTA
Found at i:16543188 original size:29 final size:28
Alignment explanation
Indices: 16543120--16543209 Score: 92
Period size: 29 Copynumber: 3.1 Consensus size: 28
16543110 CCTAAATCTA
* * *
16543120 AAACCCTAAAATCCAAAACCTTAAATCT
1 AAACCCTAAAATTCAAAACCTAAAATCC
16543148 AAATCCCTAAAATTCAAAATCCTAAAATCC
1 AAA-CCCTAAAATTCAAAA-CCTAAAATCC
* *
16543178 AAACCCCAAAAGTTTCGAAACCTAAAA-CC
1 AAACCCTAAAA--TTCAAAACCTAAAATCC
16543207 AAA
1 AAA
16543210 ATTTTTAAAC
Statistics
Matches: 53, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
28 3 0.06
29 26 0.49
30 18 0.34
31 6 0.11
ACGTcount: A:0.51, C:0.28, G:0.02, T:0.19
Consensus pattern (28 bp):
AAACCCTAAAATTCAAAACCTAAAATCC
Found at i:16543208 original size:22 final size:22
Alignment explanation
Indices: 16543183--16543232 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
16543173 AATCCAAACC
16543183 CCAAAAGTTTCGAAA-CCTAAAA
1 CCAAAA-TTTCGAAACCCTAAAA
**
16543205 CCAAAATTTTTAAACCCTAAAA
1 CCAAAATTTCGAAACCCTAAAA
*
16543227 TCAAAA
1 CCAAAA
16543233 CTCCAAACCT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 6 0.25
22 18 0.75
ACGTcount: A:0.52, C:0.22, G:0.04, T:0.22
Consensus pattern (22 bp):
CCAAAATTTCGAAACCCTAAAA
Found at i:16543233 original size:14 final size:14
Alignment explanation
Indices: 16543216--16543356 Score: 65
Period size: 14 Copynumber: 9.8 Consensus size: 14
16543206 CAAAATTTTT
16543216 AAACCCTAAAATCA
1 AAACCCTAAAATCA
*
16543230 AAACTCC-AAACCTC-
1 AAAC-CCTAAA-ATCA
** *
16543244 AAACTTTAAAACCA
1 AAACCCTAAAATCA
*
16543258 AAACCCTAAAATGTCC
1 AAACCCTAAAA--TCA
*
16543274 AAACCTTAAAATCA
1 AAACCCTAAAATCA
* **
16543288 AAACCCTAAACCTTTT
1 AAACCCTAAA--ATCA
*
16543304 ATACCCTAAAATTC-
1 AAACCCTAAAA-TCA
*
16543318 AAGCCCTAAAATCCA
1 AAACCCTAAAAT-CA
* *
16543333 AACCCCTAAAA-CT
1 AAACCCTAAAATCA
16543346 AAACCCTAAAA
1 AAACCCTAAAA
16543357 CCCTTAAAAC
Statistics
Matches: 93, Mismatches: 23, Indels: 23
0.67 0.17 0.17
Matches are distributed among these distances:
13 13 0.14
14 44 0.47
15 15 0.16
16 21 0.23
ACGTcount: A:0.49, C:0.30, G:0.01, T:0.19
Consensus pattern (14 bp):
AAACCCTAAAATCA
Found at i:16543358 original size:22 final size:21
Alignment explanation
Indices: 16543332--16543385 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 21
16543322 CCTAAAATCC
16543332 AAACCCCTAAAACT-AAACCCTA
1 AAACCCCTAAAACTCAAA-CC-A
*
16543354 AAACCCTTAAAACTCAAACCA
1 AAACCCCTAAAACTCAAACCA
16543375 AAA-CCCTAAAA
1 AAACCCCTAAAA
16543386 TCTGAATCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 7 0.24
21 4 0.14
22 15 0.52
23 3 0.10
ACGTcount: A:0.54, C:0.33, G:0.00, T:0.13
Consensus pattern (21 bp):
AAACCCCTAAAACTCAAACCA
Found at i:16543360 original size:21 final size:20
Alignment explanation
Indices: 16543330--16543385 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 20
16543320 GCCCTAAAAT
*
16543330 CCAAACCCCTAAAACT-AAA
1 CCAAAACCCTAAAACTCAAA
16543349 CCCTAAAACCCTTAAAACTCAAA
1 -CC-AAAACCC-TAAAACTCAAA
16543372 CCAAAACCCTAAAA
1 CCAAAACCCTAAAA
16543386 TCTGAATCTT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
20 7 0.22
21 13 0.41
22 9 0.28
23 3 0.09
ACGTcount: A:0.52, C:0.36, G:0.00, T:0.12
Consensus pattern (20 bp):
CCAAAACCCTAAAACTCAAA
Found at i:16549940 original size:1 final size:1
Alignment explanation
Indices: 16549936--16549974 Score: 51
Period size: 1 Copynumber: 39.0 Consensus size: 1
16549926 AGGCATCTTT
* * *
16549936 AAAAAAAAAGAAAAAAAAATAAAAAAATAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
16549975 CAAGAAGGAC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:0.92, C:0.00, G:0.03, T:0.05
Consensus pattern (1 bp):
A
Found at i:16549958 original size:20 final size:20
Alignment explanation
Indices: 16549935--16549974 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
16549925 AAGGCATCTT
16549935 TAAAAAAA-AAGAAAAAAAAA
1 TAAAAAAATAA-AAAAAAAAA
16549955 TAAAAAAATAAAAAAAAAAA
1 TAAAAAAATAAAAAAAAAAA
16549975 CAAGAAGGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 17 0.89
21 2 0.11
ACGTcount: A:0.90, C:0.00, G:0.03, T:0.07
Consensus pattern (20 bp):
TAAAAAAATAAAAAAAAAAA
Found at i:16549959 original size:19 final size:19
Alignment explanation
Indices: 16549935--16549973 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
16549925 AAGGCATCTT
*
16549935 TAAAAAAAAAGAAAAAAAAA
1 TAAAAAAATA-AAAAAAAAA
16549955 TAAAAAAATAAAAAAAAAA
1 TAAAAAAATAAAAAAAAAA
16549974 ACAAGAAGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.90, C:0.00, G:0.03, T:0.08
Consensus pattern (19 bp):
TAAAAAAATAAAAAAAAAA
Found at i:16549961 original size:18 final size:18
Alignment explanation
Indices: 16549938--16549972 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
16549928 GCATCTTTAA
16549938 AAAAAAAGAAAAAAAAAT
1 AAAAAAAGAAAAAAAAAT
*
16549956 AAAAAAATAAAAAAAAA
1 AAAAAAAGAAAAAAAAA
16549973 AACAAGAAGG
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:0.91, C:0.00, G:0.03, T:0.06
Consensus pattern (18 bp):
AAAAAAAGAAAAAAAAAT
Found at i:16552126 original size:127 final size:128
Alignment explanation
Indices: 16551829--16552109 Score: 309
Period size: 128 Copynumber: 2.2 Consensus size: 128
16551819 GTCATTTTAA
** * * * *
16551829 AAAAGATTTTCAAAA-TTTTAAAGTTTCATTGCCTTTGATTAGGAGAAGCATTCAAAGATTTTTT
1 AAAAGATTTT-AAAATTTTTAAAGTTTCATCACATCTGATTAGGAG-AGCATTCAAAGAATTTTA
* * * * * * * *
16551893 AGATTTGTAAGACCTCTGGACATAATCTCTAATACTTTTGGGCATAACTTTCAGGACCTTCAGGC
64 AGATTTATAAAACCTCCGAACATAATCTCTAATACCTTCGGGCATAACTTTCAAGACCTTCAAGC
* * *
16551958 AAAAGATTTTCAAATTTTTAAAGTTTCATCGCCTCTGATTAGGATGAGCATTCAAA-AATTTTAA
1 AAAAGATTTTAAAATTTTTAAAGTTTCATCACATCTGATTAGGA-GAGCATTCAAAGAATTTTAA
* ** *
16552022 GATTTATAAAACCTCCGAACGTAATCTCTAA-AGCCTTCGGGCATAACTTT-AAGATTTTCAAGT
65 GATTTATAAAACCTCCGAACATAATCTCTAATA-CCTTCGGGCATAACTTTCAAGACCTTCAAGC
16552085 AAAAGATTTTAAAATTTTTAAAGTT
1 AAAAGATTTTAAAATTTTTAAAGTT
16552110 CACAAACATC
Statistics
Matches: 131, Mismatches: 18, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
127 33 0.25
128 50 0.38
129 47 0.36
130 1 0.01
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.36
Consensus pattern (128 bp):
AAAAGATTTTAAAATTTTTAAAGTTTCATCACATCTGATTAGGAGAGCATTCAAAGAATTTTAAG
ATTTATAAAACCTCCGAACATAATCTCTAATACCTTCGGGCATAACTTTCAAGACCTTCAAGC
Found at i:16552345 original size:110 final size:110
Alignment explanation
Indices: 16552145--16552377 Score: 299
Period size: 110 Copynumber: 2.1 Consensus size: 110
16552135 TCAAAGATGT
* *
16552145 TGATCTTTAAGACCTTCAGACATAATTTTGATTTACGATGTTATATCGATTGATTCCTTATTTTT
1 TGATCTTTAAGACATTCAGACATAATTTTGATTTACGATGTTATATCGATTGATTCCTTATATTT
* *
16552210 TGACTTACGGTGTTATCCTGATCGATTCTGTAAGACCTCTGGGCA
66 TGACTTACGGTGTCATCCAGATCGATTCTGTAAGACCTCTGGGCA
* * * * *
16552255 TGATTTTTAAGACATTCAGGCATAATTTTGATTTATGATGTTATTTTGATTGATTCCTTATATTT
1 TGATCTTTAAGACATTCAGACATAATTTTGATTTACGATGTTATATCGATTGATTCCTTATATTT
* * * * *
16552320 TGACTTACGGTGTCCTCCCAG-TCGATTTTTTAAGA-CTTTCAGGCA
66 TGACTTACGGTGTCAT-CCAGATCGATTCTGTAAGACCTCT-GGGCA
*
16552365 TAATCTTTAAGAC
1 TGATCTTTAAGAC
16552378 CTCTGGGCGT
Statistics
Matches: 105, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
109 3 0.03
110 99 0.94
111 3 0.03
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.43
Consensus pattern (110 bp):
TGATCTTTAAGACATTCAGACATAATTTTGATTTACGATGTTATATCGATTGATTCCTTATATTT
TGACTTACGGTGTCATCCAGATCGATTCTGTAAGACCTCTGGGCA
Found at i:16552528 original size:22 final size:22
Alignment explanation
Indices: 16552458--16552517 Score: 111
Period size: 22 Copynumber: 2.7 Consensus size: 22
16552448 ATCAATTCTG
*
16552458 TAAGATCTTCGGACATGATTTC
1 TAAGATCTTCAGACATGATTTC
16552480 TAAGATCTTCAGACATGATTTC
1 TAAGATCTTCAGACATGATTTC
16552502 TAAGATCTTCAGACAT
1 TAAGATCTTCAGACAT
16552518 AATCTTTAAG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (22 bp):
TAAGATCTTCAGACATGATTTC
Done.