Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167838.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_11, 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: 23775123
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 69000 characters in sequence are not A, C, G, or T
File 74 of 129
Found at i:14026660 original size:22 final size:22
Alignment explanation
Indices: 14026636--14026676 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
14026626 TTTTTATATT
14026636 TTTTGTTTTT-TTTTTGTTTGC
1 TTTTGTTTTTGTTTTTGTTTGC
14026657 TTTTGTTTTTGTTTTTGTTT
1 TTTTGTTTTTGTTTTTGTTT
14026677 TTTTTTTAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.00, C:0.02, G:0.15, T:0.83
Consensus pattern (22 bp):
TTTTGTTTTTGTTTTTGTTTGC
Found at i:14026840 original size:81 final size:81
Alignment explanation
Indices: 14026691--14026892 Score: 318
Period size: 81 Copynumber: 2.5 Consensus size: 81
14026681 TTTAACCAAA
* * * *
14026691 GCTCCTCTAAACAGAGGCTCAACGACTTTGAAAAAATAAATTGCTCCTCTAAACAGAGGCTCAAC
1 GCTCCTCTAAACAGAGGCACCACGACTTTG--AAAGTAAATTGCTCCTCTAAACAGAGGCACAAC
14026756 GACTTTGGAAAA-TAAATT
64 GACTTT-GAAAAGTAAATT
*
14026774 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGA
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAGTAAATTGCTCCTCTAAACAGAGGCACAACGA
14026839 CTTTGAAAAGTAAATT
66 CTTTGAAAAGTAAATT
14026855 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAG-AAAT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAGTAAAT
14026893 GCTTAAAGGC
Statistics
Matches: 113, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
80 9 0.08
81 76 0.67
83 28 0.25
ACGTcount: A:0.37, C:0.24, G:0.17, T:0.22
Consensus pattern (81 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAGTAAATTGCTCCTCTAAACAGAGGCACAACGA
CTTTGAAAAGTAAATT
Found at i:14026885 original size:41 final size:41
Alignment explanation
Indices: 14026691--14026887 Score: 317
Period size: 41 Copynumber: 4.8 Consensus size: 41
14026681 TTTAACCAAA
* * *
14026691 GCTCCTCTAAACAGAGGCTCAACGACTTTGAAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTG-AAAAGTAAATT
* *
14026733 GCTCCTCTAAACAGAGGCTCAACGACTTTGGAAAA-TAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATT
14026774 GCTCCTCTAAACAGAGGCACCACGACTTTG-AAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
14026814 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
14026855 GCTCCTCTAAACAGAGGCACCACGACTTTGAAA
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAA
14026888 GAAATGCTTA
Statistics
Matches: 150, Mismatches: 2, Indels: 7
0.94 0.01 0.04
Matches are distributed among these distances:
39 3 0.02
40 37 0.25
41 76 0.51
42 33 0.22
43 1 0.01
ACGTcount: A:0.37, C:0.24, G:0.17, T:0.22
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
Found at i:14027961 original size:18 final size:18
Alignment explanation
Indices: 14027924--14027960 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
14027914 CCTTGAGTCC
14027924 TTCTTTTTTATTCACTTT
1 TTCTTTTTTATTCACTTT
*
14027942 TTCTTTTTTTTTC-CTTT
1 TTCTTTTTTATTCACTTT
14027959 TT
1 TT
14027961 TTTCATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.78
Consensus pattern (18 bp):
TTCTTTTTTATTCACTTT
Found at i:14027970 original size:28 final size:27
Alignment explanation
Indices: 14027924--14028007 Score: 89
Period size: 28 Copynumber: 3.1 Consensus size: 27
14027914 CCTTGAGTCC
* * **
14027924 TTCTTTTTTATTCACTTTTTCTTTTTTT
1 TTCTTTTTT-TTCATTTTTTCATCATTT
14027952 TTCCTTTTTTTTCATTTTTTCATCATTT
1 TT-CTTTTTTTTCATTTTTTCATCATTT
* *
14027980 TTCATTTTTTTCATTTTTT-TTCATTT
1 TTCTTTTTTTTCATTTTTTCATCATTT
14028006 TT
1 TT
14028008 TAAGCATAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
26 8 0.16
27 16 0.33
28 18 0.37
29 7 0.14
ACGTcount: A:0.10, C:0.14, G:0.00, T:0.76
Consensus pattern (27 bp):
TTCTTTTTTTTCATTTTTTCATCATTT
Found at i:14027980 original size:10 final size:9
Alignment explanation
Indices: 14027947--14028008 Score: 72
Period size: 10 Copynumber: 6.7 Consensus size: 9
14027937 ACTTTTTCTT
*
14027947 TTTTTTTCCT
1 TTTTTTT-CA
14027957 TTTTTTTCA
1 TTTTTTTCA
14027966 -TTTTTTCA
1 TTTTTTTCA
*
14027974 TCATTTTTCA
1 T-TTTTTTCA
14027984 TTTTTTTCA
1 TTTTTTTCA
14027993 TTTTTTTTCA
1 -TTTTTTTCA
14028003 TTTTTT
1 TTTTTT
14028009 AAGCATAATA
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
8 8 0.17
9 14 0.30
10 24 0.52
ACGTcount: A:0.10, C:0.13, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTTTTTCA
Found at i:14027991 original size:19 final size:19
Alignment explanation
Indices: 14027959--14028008 Score: 75
Period size: 19 Copynumber: 2.7 Consensus size: 19
14027949 TTTTTCCTTT
14027959 TTTTTCA-TTTTTTCATCA
1 TTTTTCATTTTTTTCATCA
**
14027977 TTTTTCATTTTTTTCATTT
1 TTTTTCATTTTTTTCATCA
14027996 TTTTTCATTTTTT
1 TTTTTCATTTTTT
14028009 AAGCATAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
18 7 0.24
19 22 0.76
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTTCATTTTTTTCATCA
Found at i:14038455 original size:14 final size:15
Alignment explanation
Indices: 14038424--14038452 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
14038414 TTTTCCTCAA
14038424 AAATTGATTTTTTTT
1 AAATTGATTTTTTTT
14038439 AAATTGATTTTTTT
1 AAATTGATTTTTTT
14038453 AAAGAAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.66
Consensus pattern (15 bp):
AAATTGATTTTTTTT
Found at i:14038472 original size:61 final size:59
Alignment explanation
Indices: 14038396--14038885 Score: 459
Period size: 61 Copynumber: 8.1 Consensus size: 59
14038386 TTGTGCAGGA
*
14038396 AAAATTGATTCTTTCAACTTTTCCTCAAAAATTGATTTTTTTTAAATTGATT-TTTTTAAAG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATT-ATTTTTTTTAAATT--TTATTTTTAAAG
* * * * *
14038457 AAAATTGCTATTTTCAACTTTTCCTCAAAAA-AATCTTTTTTGAAATTTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATTAT-TTTTTTTAAATTTTATTTTTAAAG
*
14038516 AAAATTGATACTTTTAACTTTTCCTCAAAAAACCTT-TTTTTTTTAAATTTTATTTTT-AAG
1 AAAATTGATACTTTCAACTTTTCCTC-AAAAA--TTATTTTTTTTAAATTTTATTTTTAAAG
* *
14038576 AAAAATTGATACTTTCAACTTTTCCTTAAAAAAATCTTTTTTTTTTTGAAATTTTATTTTT-AAG
1 -AAAATTGATACTTTCAACTTTTCC-T-CAAAAA--TTATTTTTTTT-AAATTTTATTTTTAAAG
* *
14038640 AAAAATTGATACTTTCAACTTTTACTAAAAAAAACTCT-TTTTTTTTAAATTTTATTTTTAATA-
1 -AAAATTGATACTTTCAACTTTTCCT--CAAAAA-T-TATTTTTTTTAAATTTTATTTTTAA-AG
* * *
14038703 AAAATTGATACTTTCAACTTTTCATCAAAAAACCTT-TTTTTTTGAAATTTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTC-AAAAA--TTATTTTTTTTAAATTTTATTTTTAAAG
* * * * * * *
14038764 AAAATTGATGCTTTCAACTTTTTCTCGAAAA--ATCTTTTTGAAATTTAATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATTATTTTTTTTAAATTTTATTTTTAAAG
* *
14038821 AAAATTGATACTTTCAACTTTTTCC-CAAAAATATATATTTTTT--ATTTT-TATTTAAAG
1 AAAATTGATACTTTCAAC-TTTTCCTCAAAAAT-TATTTTTTTTAAATTTTATTTTTAAAG
14038878 AAAATTGA
1 AAAATTGA
14038886 ATAATAAAAC
Statistics
Matches: 371, Mismatches: 35, Indels: 50
0.81 0.08 0.11
Matches are distributed among these distances:
57 60 0.16
58 11 0.03
59 33 0.09
60 29 0.08
61 121 0.33
62 48 0.13
63 20 0.05
64 49 0.13
ACGTcount: A:0.35, C:0.10, G:0.06, T:0.49
Consensus pattern (59 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATTATTTTTTTTAAATTTTATTTTTAAAG
Found at i:14038733 original size:187 final size:180
Alignment explanation
Indices: 14038394--14038842 Score: 563
Period size: 187 Copynumber: 2.5 Consensus size: 180
14038384 TCTTGTGCAG
* *
14038394 GAAAAATTGATTCTTTCAACTTTTCCTCAAAAAT-TGATTTTTTTT-AAATTGATT-TTTTTAA-
1 GAAAAATTGATACTTTCAACTTTTCCTAAAAAATCT--TTTTTTTTGAAATT--TTATTTTTAAG
* * * * *
14038455 AGAAAATTGCTATTTTCAACTTTTCCTCAAAAAAATCTTTTTTGAAATTTTATTTTTAAGGAAAA
62 A-AAAATTGATACTTTCAACTTTTACTAAAAAAAATCTTTTTTGAAATTTTATTTTTAAGAAAAA
* * *
14038520 TTGATACTTTTAACTTTTCCTCAAAAAACCTTTTTTTTTTAAATTTTATTTTTAA
126 TTGATACTTTCAACTTTTCATCAAAAAACCTTTTTTTTTGAAATTTTATTTTTAA
14038575 GAAAAATTGATACTTTCAACTTTTCCTTAAAAAAATCTTTTTTTTTTTGAAATTTTATTTTTAAG
1 GAAAAATTGATACTTTCAACTTTTCC-T-AAAAAATC--TTTTTTTTTGAAATTTTATTTTTAAG
* *
14038640 AAAAATTGATACTTTCAACTTTTACTAAAAAAAACTCTTTTTTTTTAAATTTTATTTTTAATAAA
62 AAAAATTGATACTTTCAACTTTTACTAAAAAAAA-TC--TTTTTTGAAATTTTATTTTTAAGAAA
14038705 AATTGATACTTTCAACTTTTCATCAAAAAACCTTTTTTTTTGAAATTTTATTTTTAA
124 AATTGATACTTTCAACTTTTCATCAAAAAACCTTTTTTTTTGAAATTTTATTTTTAA
* * * * * *
14038762 GGAAAATTGATGCTTTCAACTTTTTCTCGAAAAATC----TTTTTGAAATTTAATTTTTAAGGAA
1 GAAAAATTGATACTTTCAACTTTTCCT-AAAAAATCTTTTTTTTTGAAATTTTATTTTTAAGAAA
14038823 AATTGATACTTTCAACTTTT
65 AATTGATACTTTCAACTTTT
14038843 TCCCAAAAAT
Statistics
Matches: 238, Mismatches: 19, Indels: 23
0.85 0.07 0.08
Matches are distributed among these distances:
180 43 0.18
181 25 0.11
182 1 0.00
183 8 0.03
184 44 0.18
185 8 0.03
186 9 0.04
187 100 0.42
ACGTcount: A:0.35, C:0.11, G:0.06, T:0.49
Consensus pattern (180 bp):
GAAAAATTGATACTTTCAACTTTTCCTAAAAAATCTTTTTTTTTGAAATTTTATTTTTAAGAAAA
ATTGATACTTTCAACTTTTACTAAAAAAAATCTTTTTTGAAATTTTATTTTTAAGAAAAATTGAT
ACTTTCAACTTTTCATCAAAAAACCTTTTTTTTTGAAATTTTATTTTTAA
Found at i:14038901 original size:13 final size:11
Alignment explanation
Indices: 14038885--14038959 Score: 62
Period size: 11 Copynumber: 6.5 Consensus size: 11
14038875 AAGAAAATTG
14038885 AATAATAAAACAA
1 AATAA-AAAA-AA
14038898 AATAAAAATAAA
1 AATAAAAA-AAA
14038910 AATAAAAAAATA
1 AATAAAAAAA-A
*
14038922 AA-ATAAAGAAA
1 AATA-AAAAAAA
* *
14038933 AGTAAAACAAA
1 AATAAAAAAAA
*
14038944 AATAAAAATAA
1 AATAAAAAAAA
14038955 AATAA
1 AATAA
14038960 GGATAAAAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
11 24 0.46
12 22 0.42
13 6 0.12
ACGTcount: A:0.80, C:0.03, G:0.03, T:0.15
Consensus pattern (11 bp):
AATAAAAAAAA
Found at i:14038904 original size:5 final size:5
Alignment explanation
Indices: 14038888--14038959 Score: 51
Period size: 5 Copynumber: 14.0 Consensus size: 5
14038878 AAAATTGAAT
*
14038888 AATAA AACAA AATAAA AATAA AA-ATA AA-AA AATAA AATAA AGA-AA
1 AATAA AATAA AAT-AA AATAA AATA-A AATAA AATAA AATAA A-ATAA
* *
14038933 AGTAA AACAAA AATAAA AATAA AATAA
1 AATAA AA-TAA AAT-AA AATAA AATAA
14038960 GGATAAAAAA
Statistics
Matches: 54, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
4 4 0.07
5 35 0.65
6 15 0.28
ACGTcount: A:0.81, C:0.03, G:0.03, T:0.14
Consensus pattern (5 bp):
AATAA
Found at i:14038907 original size:6 final size:6
Alignment explanation
Indices: 14038896--14038956 Score: 59
Period size: 6 Copynumber: 9.5 Consensus size: 6
14038886 ATAATAAAAC
* * *
14038896 AAAATA AAAATA AAAATA AAAAAA TAAAATA AAGAAAA GTAAAACA AAAATA
1 AAAATA AAAATA AAAATA AAAATA -AAAATA AA-AATA --AAAATA AAAATA
14038948 AAAATA AAA
1 AAAATA AAA
14038957 TAAGGATAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
6 33 0.72
7 8 0.17
8 3 0.07
9 2 0.04
ACGTcount: A:0.82, C:0.02, G:0.03, T:0.13
Consensus pattern (6 bp):
AAAATA
Found at i:14039920 original size:23 final size:23
Alignment explanation
Indices: 14039873--14039920 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
14039863 ATAATTAGAA
*
14039873 AAGATAAATCAAAAAAATATTAT
1 AAGATAAATCAAAAAAATATAAT
14039896 AAGATAAAT-AAAAAAATAATAAT
1 AAGATAAATCAAAAAAAT-ATAAT
14039919 AA
1 AA
14039921 TAACAGATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 8 0.35
23 15 0.65
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.23
Consensus pattern (23 bp):
AAGATAAATCAAAAAAATATAAT
Found at i:14039956 original size:70 final size:68
Alignment explanation
Indices: 14039831--14040015 Score: 177
Period size: 70 Copynumber: 2.7 Consensus size: 68
14039821 CAACCTTCCA
* * * *
14039831 AAATAAA-AATAAAATAATAATAATAATA-ATAGATAATTAGA-AAAGATAAATCAAAAA-AATA
1 AAATAAATAAAAAAATAATAATAATAA-AGATATATAATTAGATAAATAAAAATCAAAAACAATA
**
14039892 TTAT
65 AAAT
14039896 AAGATAAATAAAAAAATAATAATAATAACAGATATATAATTAGATAAATAAAAATACAAAAATCA
1 AA-ATAAATAAAAAAATAATAATAATAA-AGATATATAATTAGATAAATAAAAAT-CAAAAA-CA
14039961 ATAAAAT
62 ATAAAAT
* *
14039968 AAA-AAATAAAAATA-AATAAAAATAAAGATAAATATATATTA-ATAAATA
1 AAATAAATAAAAAAATAATAATAATAAAGAT--ATATA-ATTAGATAAATA
14040016 GTAATAATAA
Statistics
Matches: 101, Mismatches: 9, Indels: 15
0.81 0.07 0.12
Matches are distributed among these distances:
65 2 0.02
66 5 0.05
67 19 0.19
68 16 0.16
69 18 0.18
70 28 0.28
71 5 0.05
72 8 0.08
ACGTcount: A:0.69, C:0.02, G:0.04, T:0.25
Consensus pattern (68 bp):
AAATAAATAAAAAAATAATAATAATAAAGATATATAATTAGATAAATAAAAATCAAAAACAATAA
AAT
Found at i:14039965 original size:18 final size:16
Alignment explanation
Indices: 14039946--14039989 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
14039936 TAGATAAATA
14039946 AAAATACAAAAATCAAT
1 AAAATA-AAAAATCAAT
* *
14039963 AAAATAAAAAATAAAA
1 AAAATAAAAAATCAAT
14039979 ATAAATAAAAA
1 A-AAATAAAAA
14039990 TAAAGATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 9 0.38
17 15 0.62
ACGTcount: A:0.80, C:0.05, G:0.00, T:0.16
Consensus pattern (16 bp):
AAAATAAAAAATCAAT
Found at i:14039967 original size:23 final size:23
Alignment explanation
Indices: 14039941--14039993 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
14039931 ATAATTAGAT
*
14039941 AAATAAAAATACAAAAATCAAT-A
1 AAATAAAAA-ACAAAAATAAATAA
*
14039964 AAATAAAAAATAAAAATAAATAA
1 AAATAAAAAACAAAAATAAATAA
14039987 AAATAAA
1 AAATAAA
14039994 GATAAATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
22 10 0.37
23 17 0.63
ACGTcount: A:0.79, C:0.04, G:0.00, T:0.17
Consensus pattern (23 bp):
AAATAAAAAACAAAAATAAATAA
Found at i:14039975 original size:12 final size:13
Alignment explanation
Indices: 14039941--14039983 Score: 50
Period size: 13 Copynumber: 3.0 Consensus size: 13
14039931 ATAATTAGAT
14039941 AAATAAAAATACAA
1 AAATAAAAATA-AA
14039955 AAATCAATAAAATAAA
1 AAAT--A-AAAATAAA
14039971 AAATAAAAATAAA
1 AAATAAAAATAAA
14039984 TAAAAATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
13 8 0.31
14 5 0.19
16 7 0.27
17 6 0.23
ACGTcount: A:0.79, C:0.05, G:0.00, T:0.16
Consensus pattern (13 bp):
AAATAAAAATAAA
Found at i:14039984 original size:10 final size:10
Alignment explanation
Indices: 14039939--14040043 Score: 63
Period size: 11 Copynumber: 9.7 Consensus size: 10
14039929 ATATAATTAG
14039939 ATAAATAAAA
1 ATAAATAAAA
14039949 ATACAA-AAATCA
1 ATA-AATAAA--A
*
14039961 ATAAA-ATAA
1 ATAAATAAAA
14039970 A-AAATAAAA
1 ATAAATAAAA
14039979 ATAAATAAAA
1 ATAAATAAAA
*
14039989 ATAAAGATAAAT
1 AT-AA-ATAAAA
*
14040001 ATATATTAATAA
1 ATA-AATAA-AA
14040013 ATAGTAATAATAA
1 ATA--AATAA-AA
14040026 ATAAATAAATA
1 ATAAATAAA-A
14040037 ATAAATA
1 ATAAATA
14040044 CATAGGATAA
Statistics
Matches: 78, Mismatches: 6, Indels: 21
0.74 0.06 0.20
Matches are distributed among these distances:
8 3 0.04
9 6 0.08
10 17 0.22
11 25 0.32
12 16 0.21
13 11 0.14
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.25
Consensus pattern (10 bp):
ATAAATAAAA
Found at i:14039986 original size:4 final size:4
Alignment explanation
Indices: 14039939--14040043 Score: 50
Period size: 4 Copynumber: 26.8 Consensus size: 4
14039929 ATATAATTAG
*
14039939 ATAA AT-A A-AA ATACA A-AA ATCA ATAAA ATAA A-AA AT-A A-AA ATAA
1 ATAA ATAA ATAA ATA-A ATAA ATAA AT-AA ATAA ATAA ATAA ATAA ATAA
*
14039983 AT-A A-AA ATAAA GATAA ATATA TATTA ATAA ATAGTA AT-A ATAA ATAA
1 ATAA ATAA AT-AA -ATAA ATA-A -ATAA ATAA ATA--A ATAA ATAA ATAA
14040030 ATAA AT-A ATAA ATA
1 ATAA ATAA ATAA ATA
14040044 CATAGGATAA
Statistics
Matches: 79, Mismatches: 4, Indels: 36
0.66 0.03 0.30
Matches are distributed among these distances:
3 23 0.29
4 38 0.48
5 11 0.14
6 7 0.09
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.25
Consensus pattern (4 bp):
ATAA
Found at i:14040105 original size:16 final size:16
Alignment explanation
Indices: 14040084--14040117 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
14040074 AATATGGAAT
14040084 AAAATAAAAAAAATAA
1 AAAATAAAAAAAATAA
*
14040100 AAAATAACAAAAATAA
1 AAAATAAAAAAAATAA
14040116 AA
1 AA
14040118 TTGGACTTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.85, C:0.03, G:0.00, T:0.12
Consensus pattern (16 bp):
AAAATAAAAAAAATAA
Found at i:14043690 original size:3 final size:3
Alignment explanation
Indices: 14043682--14043728 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
14043672 TGTTGAAGGG
14043682 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
14043729 TATTATTATT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:14043733 original size:3 final size:3
Alignment explanation
Indices: 14043727--14043759 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
14043717 AATAATAATA
14043727 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
14043760 GACTCATTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:14046478 original size:24 final size:24
Alignment explanation
Indices: 14046446--14046503 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
14046436 TTAACCCTCA
* * *
14046446 AATTATAATTAATCTCATAATGGT
1 AATTATAATTAACCTCAAAATGAT
*
14046470 AATTATAATTAACCTCAAAATTAT
1 AATTATAATTAACCTCAAAATGAT
14046494 AATTATAATT
1 AATTATAATT
14046504 TTATTCAGGA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.47, C:0.09, G:0.03, T:0.41
Consensus pattern (24 bp):
AATTATAATTAACCTCAAAATGAT
Found at i:14046993 original size:22 final size:22
Alignment explanation
Indices: 14046968--14047011 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
14046958 AATTTCTCTA
14046968 TCTAATTACCATAATT-GATTTT
1 TCTAATTACCAT-ATTAGATTTT
* *
14046990 TCTAGTTAGCATATTAGATTTT
1 TCTAATTACCATATTAGATTTT
14047012 AACAAAATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.30, C:0.11, G:0.09, T:0.50
Consensus pattern (22 bp):
TCTAATTACCATATTAGATTTT
Found at i:14047376 original size:33 final size:33
Alignment explanation
Indices: 14047335--14047417 Score: 87
Period size: 33 Copynumber: 2.5 Consensus size: 33
14047325 GAATTTCCAT
* **
14047335 AAAA-GTATATGACTTTTGGAAACCCATTTTCG
1 AAAAGGTATATGAATTTTGGAAACAAATTTTCG
* * * *
14047367 AAAAGGTATATGATTTTTTGAAATAAATTTTTG
1 AAAAGGTATATGAATTTTGGAAACAAATTTTCG
*
14047400 AAAAGTTATATGAATTTT
1 AAAAGGTATATGAATTTT
14047418 TAAATTTTTC
Statistics
Matches: 42, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
32 4 0.10
33 38 0.90
ACGTcount: A:0.39, C:0.06, G:0.14, T:0.41
Consensus pattern (33 bp):
AAAAGGTATATGAATTTTGGAAACAAATTTTCG
Found at i:14047418 original size:33 final size:32
Alignment explanation
Indices: 14047360--14047422 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
14047350 TTGGAAACCC
*
14047360 ATTTTCGAAAAGGTATATGATTTTTTGAAATAA
1 ATTTTCGAAAAGGTATATGAATTTTT-AAATAA
* *
14047393 ATTTTTGAAAAGTTATATGAATTTTTAAAT
1 ATTTTCGAAAAGGTATATGAATTTTTAAAT
14047423 TTTTCTTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 4 0.15
33 23 0.85
ACGTcount: A:0.40, C:0.02, G:0.13, T:0.46
Consensus pattern (32 bp):
ATTTTCGAAAAGGTATATGAATTTTTAAATAA
Found at i:14053383 original size:147 final size:141
Alignment explanation
Indices: 14053174--14053485 Score: 351
Period size: 147 Copynumber: 2.2 Consensus size: 141
14053164 TAAAAAAATG
* * * * * *
14053174 ATATTTTTAAGA-CAAAAACACAATGGATGTTGAAACTATTTTTTAAAATTTTTAAATTTTAACA
1 ATATTTTTAAAATAAAAAACATAATAGATGTTGAAACTATTTTTTAAAATTCTAAAATTTTAACA
*
14053238 AAAATTGAATTTT-TTAAATAAAAAACGTAGTGAATATTATTAAAATTATATTTTCAAAATTCTG
66 AAAATTGAATTTTGTT-AATAAAAAACATAGTGAATATTA-T-AAATT-TATTTTCAAAATTCT-
14053302 AATTTTAAACAAAGACT
126 AATTTT-AACAAAGACT
*
14053319 ATATTTTTAAAATAAAAAATATAATAGATGTTGAAA-TATTATTTTCAAAATTCTAAAATTTTAA
1 ATATTTTTAAAATAAAAAACATAATAGATGTTGAAACTATT-TTTT-AAAATTCTAAAATTTTAA
* ** * * * **
14053383 CAAATATTGTGTTTTGTTAATAAAAAACATTGTGGATATTATAACTTTATTTTTGAAATTCTAAT
64 CAAAAATTGAATTTTGTTAATAAAAAACATAGTGAATATTATAAATTTATTTTCAAAATTCTAAT
**
14053448 TTTAACAATTACT
129 TTTAACAAAGACT
* *
14053461 GTATTTTTAAGATAAAAAACATAAT
1 ATATTTTTAAAATAAAAAACATAAT
14053486 TTTTGTTACT
Statistics
Matches: 142, Mismatches: 21, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
142 30 0.21
143 6 0.04
144 13 0.09
145 19 0.13
146 24 0.17
147 48 0.34
148 2 0.01
ACGTcount: A:0.45, C:0.06, G:0.07, T:0.41
Consensus pattern (141 bp):
ATATTTTTAAAATAAAAAACATAATAGATGTTGAAACTATTTTTTAAAATTCTAAAATTTTAACA
AAAATTGAATTTTGTTAATAAAAAACATAGTGAATATTATAAATTTATTTTCAAAATTCTAATTT
TAACAAAGACT
Found at i:14053405 original size:72 final size:73
Alignment explanation
Indices: 14053199--14053410 Score: 186
Period size: 72 Copynumber: 2.9 Consensus size: 73
14053189 AAACACAATG
* *
14053199 GATGTTGAAACTATT-TTTT-AAAATTTTTAAATTTTAACAAAAATTGAATTTTTTAAATAAAAA
1 GATGTTGAAA-TATTATTTTCAAAA-TTCTAAATTTTAACAAAAATTGTATTTTTT-AATAAAAA
14053262 ACGTAGTGAATA
63 AC-TAGTGAATA
* * * * * * * *
14053274 -TTATTAAAAT-TATATTTTCAAAATTCTGAATTTTAAACAAAGACTATATTTTTAAAATAAAAA
1 GATGTTGAAATAT-TATTTTCAAAATTCTAAATTTT-AACAAAAATTGTATTTTT-TAATAAAAA
14053337 A-TA-T-AATA
63 ACTAGTGAATA
* *
14053345 GATGTTGAAATATTATTTTCAAAATTCTAAAATTTTAACAAATATTGTGTTTTGTTAATAAAAAA
1 GATGTTGAAATATTATTTTCAAAATTCT-AAATTTTAACAAAAATTGTATTTT-TTAATAAAAAA
14053410 C
64 C
14053411 ATTGTGGATA
Statistics
Matches: 108, Mismatches: 19, Indels: 22
0.72 0.13 0.15
Matches are distributed among these distances:
71 4 0.04
72 46 0.43
73 12 0.11
74 19 0.18
75 27 0.25
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.42
Consensus pattern (73 bp):
GATGTTGAAATATTATTTTCAAAATTCTAAATTTTAACAAAAATTGTATTTTTTAATAAAAAACT
AGTGAATA
Found at i:14053916 original size:18 final size:17
Alignment explanation
Indices: 14053876--14053916 Score: 57
Period size: 16 Copynumber: 2.4 Consensus size: 17
14053866 CACTTTTCTC
*
14053876 CAAAATTACTTTCCTTT
1 CAAAATCACTTTCCTTT
14053893 -AAAATCACTTTCCTTTT
1 CAAAATCACTTTCC-TTT
14053910 CAAAATC
1 CAAAATC
14053917 TAAAAACTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 12 0.57
17 3 0.14
18 6 0.29
ACGTcount: A:0.34, C:0.24, G:0.00, T:0.41
Consensus pattern (17 bp):
CAAAATCACTTTCCTTT
Found at i:14054678 original size:19 final size:19
Alignment explanation
Indices: 14054651--14054688 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
14054641 ATAAATTTTG
*
14054651 TTATATTAAATTAATAAAA
1 TTATATTAAATGAATAAAA
*
14054670 TTATTTTAAATGAATAAAA
1 TTATATTAAATGAATAAAA
14054689 AATAAAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (19 bp):
TTATATTAAATGAATAAAA
Found at i:14054989 original size:19 final size:21
Alignment explanation
Indices: 14054960--14055007 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
14054950 GAAAGATATT
*
14054960 TAATA-TTTTTA-ATAGAAAA
1 TAATATTTTTTAGATAAAAAA
14054979 TAA-ATTTTTTAGATAAAAAA
1 TAATATTTTTTAGATAAAAAA
14054999 TAATATTTT
1 TAATATTTT
14055008 CTATTATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 1 0.04
19 9 0.36
20 10 0.40
21 5 0.20
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (21 bp):
TAATATTTTTTAGATAAAAAA
Found at i:14058389 original size:10 final size:10
Alignment explanation
Indices: 14058374--14058400 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
14058364 TTCATTGGGT
14058374 TTGAATTTAC
1 TTGAATTTAC
14058384 TTGAATTTAC
1 TTGAATTTAC
14058394 TTGAATT
1 TTGAATT
14058401 GTATCCACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.30, C:0.07, G:0.11, T:0.52
Consensus pattern (10 bp):
TTGAATTTAC
Found at i:14072990 original size:7 final size:6
Alignment explanation
Indices: 14072967--14073015 Score: 53
Period size: 6 Copynumber: 7.8 Consensus size: 6
14072957 ATGGAAGAAG
* * *
14072967 AGAAGA AGAAAG AGAAAA ACGAAAA ACGAAAA AAAAAA AGAAAA AGAAA
1 AGAAAA AGAAAA AGAAAA A-GAAAA A-GAAAA AGAAAA AGAAAA AGAAA
14073016 GGAAAAAAGA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
6 24 0.65
7 13 0.35
ACGTcount: A:0.78, C:0.04, G:0.18, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:14073010 original size:18 final size:18
Alignment explanation
Indices: 14072967--14073025 Score: 55
Period size: 19 Copynumber: 3.2 Consensus size: 18
14072957 ATGGAAGAAG
* *
14072967 AGAAGAAGAAAGAGAAAAA
1 AGAAAAAGAAA-AAAAAAA
*
14072986 CGAAAAACGAAAAAAAAAA
1 AGAAAAA-GAAAAAAAAAA
**
14073005 AGAAAAAGAAAGGAAAAA
1 AGAAAAAGAAAAAAAAAA
14073023 AGA
1 AGA
14073026 GATAAAGAGA
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
18 12 0.36
19 17 0.52
20 4 0.12
ACGTcount: A:0.76, C:0.03, G:0.20, T:0.00
Consensus pattern (18 bp):
AGAAAAAGAAAAAAAAAA
Found at i:14073307 original size:22 final size:22
Alignment explanation
Indices: 14073282--14073324 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
14073272 TGAAATTTAC
* * *
14073282 TTAATAAAAAAGTGAAAAATAT
1 TTAAAAAAAAACTAAAAAATAT
14073304 TTAAAAAAAAACTAAAAAATA
1 TTAAAAAAAAACTAAAAAATA
14073325 AAAAACGATG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.70, C:0.02, G:0.05, T:0.23
Consensus pattern (22 bp):
TTAAAAAAAAACTAAAAAATAT
Found at i:14074222 original size:28 final size:29
Alignment explanation
Indices: 14074178--14074247 Score: 97
Period size: 29 Copynumber: 2.4 Consensus size: 29
14074168 TGACCTCTGT
* *
14074178 CTGAAACCAAATAAGA-CCCTTGTCTAAA
1 CTGAAACCAAATGAGACCCCTAGTCTAAA
* *
14074206 CTTAAACCAAATGAGACCCCTAGTCTAAT
1 CTGAAACCAAATGAGACCCCTAGTCTAAA
14074235 CTGAAACCAAATG
1 CTGAAACCAAATG
14074248 TTCATCTTCG
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
28 14 0.39
29 22 0.61
ACGTcount: A:0.41, C:0.26, G:0.11, T:0.21
Consensus pattern (29 bp):
CTGAAACCAAATGAGACCCCTAGTCTAAA
Found at i:14075291 original size:2 final size:2
Alignment explanation
Indices: 14075284--14075308 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
14075274 TTTAGCAATT
14075284 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
14075309 TTACCAAATA
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:14078181 original size:2 final size:2
Alignment explanation
Indices: 14078176--14078218 Score: 52
Period size: 2 Copynumber: 21.5 Consensus size: 2
14078166 ATTTAAACAC
* *
14078176 TA TA TA TA TCA TA TA TA T- TT TA AA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14078218 T
1 T
14078219 GAAATCCACA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
1 1 0.03
2 33 0.92
3 2 0.06
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:14079427 original size:11 final size:11
Alignment explanation
Indices: 14079393--14079430 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
14079383 ATTATTTCAC
14079393 AATTTGAGAC-A
1 AATTT-AGACAA
14079404 AATTTAGACAA
1 AATTTAGACAA
14079415 AATTTAGACAA
1 AATTTAGACAA
14079426 AATTT
1 AATTT
14079431 CTCACATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 4 0.15
11 22 0.85
ACGTcount: A:0.50, C:0.08, G:0.11, T:0.32
Consensus pattern (11 bp):
AATTTAGACAA
Found at i:14080471 original size:16 final size:16
Alignment explanation
Indices: 14080450--14080496 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
14080440 AAATCAACTA
14080450 AAAAATGAAAA-AAAAG
1 AAAAAT-AAAATAAAAG
*
14080466 AAAAATAAAATAAAAT
1 AAAAATAAAATAAAAG
14080482 AAAAA-AATAATAAAA
1 AAAAATAA-AATAAAA
14080497 ATCACAGATA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
15 6 0.21
16 22 0.79
ACGTcount: A:0.83, C:0.00, G:0.04, T:0.13
Consensus pattern (16 bp):
AAAAATAAAATAAAAG
Found at i:14080471 original size:28 final size:27
Alignment explanation
Indices: 14080434--14080543 Score: 91
Period size: 27 Copynumber: 3.9 Consensus size: 27
14080424 AAAAAATGCT
* *
14080434 AAAGATAAATCAACTAA-AAAATGAAAAA
1 AAAGAAAAATCAA--AATAAAATAAAAAA
14080462 AAAGAAAAAT-AAAATAAAATAAAAAA
1 AAAGAAAAATCAAAATAAAATAAAAAA
* *
14080488 ATAATAAAAATCACAGATAAACATAAAAATAA
1 A-AAGAAAAATCA-AAATAAA-AT-AAAA-AA
*
14080520 AAATAAAAAT-AAAATAAAATAAAA
1 AAAGAAAAATCAAAATAAAATAAAA
14080544 CCCATAAATA
Statistics
Matches: 70, Mismatches: 5, Indels: 15
0.78 0.06 0.17
Matches are distributed among these distances:
25 2 0.03
26 11 0.16
27 14 0.20
28 12 0.17
29 12 0.17
30 3 0.04
31 13 0.19
32 3 0.04
ACGTcount: A:0.76, C:0.05, G:0.04, T:0.15
Consensus pattern (27 bp):
AAAGAAAAATCAAAATAAAATAAAAAA
Found at i:14080475 original size:5 final size:5
Alignment explanation
Indices: 14080467--14080543 Score: 64
Period size: 5 Copynumber: 13.8 Consensus size: 5
14080457 AAAAAAAAGA
* *
14080467 AAAAT AAAAT AAAAT AAAAA AATAAT AAAAAT CACAGAT AAACAT AAAAAT
1 AAAAT AAAAT AAAAT AAAAT AA-AAT -AAAAT -A-AAAT AAA-AT -AAAAT
14080518 AAAAAT AAAAAT AAAAT AAAAT AAAA
1 -AAAAT -AAAAT AAAAT AAAAT AAAA
14080544 CCCATAAATA
Statistics
Matches: 62, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
5 31 0.50
6 23 0.37
7 8 0.13
ACGTcount: A:0.78, C:0.04, G:0.01, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:14080475 original size:11 final size:10
Alignment explanation
Indices: 14080457--14080569 Score: 66
Period size: 10 Copynumber: 10.2 Consensus size: 10
14080447 CTAAAAAATG
*
14080457 AAAAA-AAAG
1 AAAAATAAAA
14080466 AAAAATAAAA
1 AAAAATAAAA
*
14080476 TAAAATAAAA
1 AAAAATAAAA
14080486 AAATAATAAAA
1 AAA-AATAAAA
*
14080497 ATCACAGATAAACA
1 A--A-AAATAAA-A
14080511 TAAAAATAAAAA
1 -AAAAAT-AAAA
14080523 TAAAAATAAAA
1 -AAAAATAAAA
*
14080534 TAAAATAAAA
1 AAAAATAAAA
*
14080544 CCCATAAATAAATA
1 ---AAAAATAAA-A
14080558 AAAAATAAAA
1 AAAAATAAAA
14080568 AA
1 AA
14080570 CAGTTGGGCC
Statistics
Matches: 83, Mismatches: 9, Indels: 23
0.72 0.08 0.20
Matches are distributed among these distances:
9 5 0.06
10 26 0.31
11 20 0.24
12 11 0.13
13 17 0.20
14 3 0.04
15 1 0.01
ACGTcount: A:0.78, C:0.05, G:0.02, T:0.15
Consensus pattern (10 bp):
AAAAATAAAA
Found at i:14080476 original size:21 final size:21
Alignment explanation
Indices: 14080451--14080543 Score: 61
Period size: 21 Copynumber: 4.4 Consensus size: 21
14080441 AATCAACTAA
14080451 AAAATGAAAA-AAAAGAAA-AAT
1 AAAAT-AAAATAAAA-AAATAAT
14080472 AAAATAAAATAAAAAAATAAT
1 AAAATAAAATAAAAAAATAAT
* * * * *
14080493 AAAAATCACAGATAAACAT-A-
1 -AAAATAAAATAAAAAAATAAT
14080513 AAAATAAAAATAAAAATAA-AAT
1 AAAAT-AAAATAAAAA-AATAAT
14080535 AAAATAAAA
1 AAAATAAAA
14080544 CCCATAAATA
Statistics
Matches: 55, Mismatches: 10, Indels: 14
0.70 0.13 0.18
Matches are distributed among these distances:
19 5 0.09
20 13 0.24
21 19 0.35
22 18 0.33
ACGTcount: A:0.78, C:0.03, G:0.03, T:0.15
Consensus pattern (21 bp):
AAAATAAAATAAAAAAATAAT
Found at i:14080486 original size:6 final size:6
Alignment explanation
Indices: 14080460--14080543 Score: 79
Period size: 6 Copynumber: 14.7 Consensus size: 6
14080450 AAAAATGAAA
* * * *
14080460 AAAAAG AAAAAT -AAAAT -AAAAT AAAAA- AATAAT AAAAAT CACAGAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT -AAAAAT
*
14080506 AAACAT AAAAAT AAAAAT AAAAAT -AAAAT -AAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAA
14080544 CCCATAAATA
Statistics
Matches: 66, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
5 24 0.36
6 38 0.58
7 4 0.06
ACGTcount: A:0.79, C:0.04, G:0.02, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:14080569 original size:47 final size:47
Alignment explanation
Indices: 14080466--14080568 Score: 122
Period size: 47 Copynumber: 2.2 Consensus size: 47
14080456 GAAAAAAAAG
* *
14080466 AAAAAT-AAAATAAAATAAAAAAATAATAAAAATCACAGATAAACAT
1 AAAAATAAAAATAAAATAAAAAAATAATAAAAACCACAAATAAACAT
* * * *
14080512 AAAAATAAAAATAAAAATAAAATAA-AATAAAACCCATAAATAAATA-
1 AAAAATAAAAAT-AAAATAAAAAAATAATAAAAACCACAAATAAACAT
14080558 AAAAATAAAAA
1 AAAAATAAAAA
14080569 ACAGTTGGGC
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
46 17 0.35
47 21 0.43
48 11 0.22
ACGTcount: A:0.77, C:0.06, G:0.01, T:0.17
Consensus pattern (47 bp):
AAAAATAAAAATAAAATAAAAAAATAATAAAAACCACAAATAAACAT
Found at i:14080780 original size:7 final size:7
Alignment explanation
Indices: 14080768--14080801 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
14080758 CAAATTCTTT
14080768 TTTTTTG
1 TTTTTTG
*
14080775 TTTTTTTA
1 -TTTTTTG
14080783 TTTTTTG
1 TTTTTTG
14080790 TTTTTTG
1 TTTTTTG
14080797 TTTTT
1 TTTTT
14080802 AAATTAGACA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
7 18 0.75
8 6 0.25
ACGTcount: A:0.03, C:0.00, G:0.09, T:0.88
Consensus pattern (7 bp):
TTTTTTG
Found at i:14080801 original size:15 final size:14
Alignment explanation
Indices: 14080765--14080801 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 14
14080755 TAACAAATTC
14080765 TTTTTTTTTGTTTT
1 TTTTTTTTTGTTTT
14080779 TTTATTTTTTGTTTT
1 TTT-TTTTTTGTTTT
*
14080794 TTGTTTTT
1 TTTTTTTT
14080802 AAATTAGACA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.03, C:0.00, G:0.08, T:0.89
Consensus pattern (14 bp):
TTTTTTTTTGTTTT
Found at i:14080942 original size:41 final size:41
Alignment explanation
Indices: 14080843--14081241 Score: 327
Period size: 41 Copynumber: 9.8 Consensus size: 41
14080833 AAAACTCCCT
* *
14080843 TAAACAGAGGCTC-ACAACTTTGAAAAAATAAATATGGCTCCTC
1 TAAACAAAGGCTCAACGACTTTG-AAAAATAAA-A-GGCTCCTC
* * *
14080886 TAATA-AGAGGCTCAACGACTTTGAAAAATAAAAGGCTCATT
1 TAA-ACAAAGGCTCAACGACTTTGAAAAATAAAAGGCTCCTC
** * **
14080927 TAAGTAAAGGTTCAACGACTTTGGAAAAATAAAAGGCTTTTC
1 TAAACAAAGGCTCAACGACTTT-GAAAAATAAAAGGCTCCTC
* * *
14080969 TAAACAGAGGCTCAACGACATTTGAAAAATAAAAGTCTCCTT
1 TAAACAAAGGCTCAACGAC-TTTGAAAAATAAAAGGCTCCTC
* * * * * *
14081011 TAAATAAAAGCTTAACAACTTTAAAAAATAAAAAGC-CCATC
1 TAAACAAAGGCTCAACGACTTTGAAAAATAAAAGGCTCC-TC
* * *
14081052 TAAATAGAGGCTTAACGACTTTTGAAAAATAAAAGGCTCCTC
1 TAAACAAAGGCTCAACGAC-TTTGAAAAATAAAAGGCTCCTC
* * * *
14081094 TAAGC-AA----CAAC--TTTTGAAAAATAAATGGGTCCTC
1 TAAACAAAGGCTCAACGACTTTGAAAAATAAAAGGCTCCTC
14081128 TAAACAGAA-GCTCAACGACTTTGAAAAATAAAAGGC-CCATC
1 TAAACA-AAGGCTCAACGACTTTGAAAAATAAAAGGCTCC-TC
* * *
14081169 TAAACAGAGGTTCAATGACTTTGAAAAATAAAAGGCTCCTC
1 TAAACAAAGGCTCAACGACTTTGAAAAATAAAAGGCTCCTC
* * *
14081210 TAAGCAAAGGCACAACAACTTTTGAAAAATAA
1 TAAACAAAGGCTCAACGAC-TTTGAAAAATAA
14081242 CAAGCTCTTC
Statistics
Matches: 286, Mismatches: 51, Indels: 39
0.76 0.14 0.10
Matches are distributed among these distances:
34 24 0.08
36 2 0.01
37 3 0.01
39 4 0.01
40 5 0.02
41 119 0.42
42 95 0.33
43 25 0.09
44 9 0.03
ACGTcount: A:0.45, C:0.17, G:0.15, T:0.24
Consensus pattern (41 bp):
TAAACAAAGGCTCAACGACTTTGAAAAATAAAAGGCTCCTC
Found at i:14080983 original size:83 final size:83
Alignment explanation
Indices: 14080856--14081241 Score: 366
Period size: 83 Copynumber: 4.7 Consensus size: 83
14080846 ACAGAGGCTC
14080856 ACAACTTTGAAAAAATAAATATGGCTCCTCTAATA-AGAGGCTCAACGAC-TTTGAAAAATAAAA
1 ACAACTTTG-AAAAATAAA-A-GGCTCCTCTAA-ACAGAGGCTCAACGACTTTTGAAAAATAAAA
* *
14080919 GGCTCATTTAAGTAAAGGTTCA
62 GGCTCATCTAAATAAAGGTTCA
* ** * *
14080941 ACGACTTTGGAAAAATAAAAGGCTTTTCTAAACAGAGGCTCAACGACATTTGAAAAATAAAAGTC
1 ACAACTTT-GAAAAATAAAAGGCTCCTCTAAACAGAGGCTCAACGACTTTTGAAAAATAAAAGGC
* * *
14081006 TCCTTTAAATAAAAGCTT-A
65 TCATCTAAAT-AAAGGTTCA
* * * *
14081025 ACAACTTTAAAAAATAAAAAGC-CCATCTAAATAGAGGCTTAACGACTTTTGAAAAATAAAAGGC
1 ACAACTTTGAAAAATAAAAGGCTCC-TCTAAACAGAGGCTCAACGACTTTTGAAAAATAAAAGGC
*
14081089 TC--CT--CT-AA-G--CA
65 TCATCTAAATAAAGGTTCA
* * *
14081100 ACAACTTTTGAAAAATAAATGGGTCCTCTAAACAGAAGCTCAACGAC-TTTGAAAAATAAAAGGC
1 ACAAC-TTTGAAAAATAAAAGGCTCCTCTAAACAGAGGCTCAACGACTTTTGAAAAATAAAAGGC
* * *
14081164 CCATCTAAACAGAGGTTCA
65 TCATCTAAATAAAGGTTCA
** * * * *
14081183 ATGACTTTGAAAAATAAAAGGCTCCTCTAAGCAAAGGCACAACAACTTTTGAAAAATAA
1 ACAACTTTGAAAAATAAAAGGCTCCTCTAAACAGAGGCTCAACGACTTTTGAAAAATAA
14081242 CAAGCTCTTC
Statistics
Matches: 245, Mismatches: 39, Indels: 36
0.77 0.12 0.11
Matches are distributed among these distances:
75 24 0.10
76 31 0.13
77 6 0.02
79 1 0.00
80 1 0.00
81 2 0.01
82 35 0.14
83 89 0.36
84 33 0.13
85 22 0.09
86 1 0.00
ACGTcount: A:0.45, C:0.17, G:0.14, T:0.24
Consensus pattern (83 bp):
ACAACTTTGAAAAATAAAAGGCTCCTCTAAACAGAGGCTCAACGACTTTTGAAAAATAAAAGGCT
CATCTAAATAAAGGTTCA
Found at i:14081425 original size:15 final size:16
Alignment explanation
Indices: 14081379--14081428 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
14081369 ATTGAAATTT
*
14081379 GATTCTCAAAATTTTA
1 GATTCACAAAATTTTA
*
14081395 GTTTCACAAGAA-TTTA
1 GATTCACAA-AATTTTA
14081411 -ATTCACAAAATTTTA
1 GATTCACAAAATTTTA
14081426 GAT
1 GAT
14081429 ATGTAAGAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
14 2 0.07
15 11 0.39
16 13 0.46
17 2 0.07
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.40
Consensus pattern (16 bp):
GATTCACAAAATTTTA
Found at i:14081443 original size:16 final size:15
Alignment explanation
Indices: 14081417--14081455 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
14081407 TTTAATTCAC
14081417 AAAATTTTAGATATGT
1 AAAA-TTTAGATATGT
*
14081433 AAGAATTTAGATTTGT
1 AA-AATTTAGATATGT
14081449 AAAATTT
1 AAAATTT
14081456 CAAGATTCAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 5 0.24
16 14 0.67
17 2 0.10
ACGTcount: A:0.44, C:0.00, G:0.13, T:0.44
Consensus pattern (15 bp):
AAAATTTAGATATGT
Found at i:14081820 original size:45 final size:43
Alignment explanation
Indices: 14081729--14081830 Score: 143
Period size: 45 Copynumber: 2.3 Consensus size: 43
14081719 GATTTCATAT
* * *
14081729 CTCAAATATTCTTATTTAAAGTTTAAAGATTCTCATTTGAAAA
1 CTCAAAGATTCTTATTTAAAGTTAAAAAATTCTCATTTGAAAA
14081772 CTCAAAGATTCTTCATTTGAAA-TTAAAAAATTCCTCATTTGAAAA
1 CTCAAAGATTCTT-ATTT-AAAGTTAAAAAATT-CTCATTTGAAAA
14081817 CTCAAAGATTCTTA
1 CTCAAAGATTCTTA
14081831 ATTCTTATTT
Statistics
Matches: 53, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
43 12 0.23
44 13 0.25
45 28 0.53
ACGTcount: A:0.40, C:0.15, G:0.07, T:0.38
Consensus pattern (43 bp):
CTCAAAGATTCTTATTTAAAGTTAAAAAATTCTCATTTGAAAA
Found at i:14081877 original size:21 final size:21
Alignment explanation
Indices: 14081831--14081928 Score: 79
Period size: 21 Copynumber: 4.5 Consensus size: 21
14081821 AAGATTCTTA
* * * *
14081831 ATTCTTATTTAAGACTCAAAA
1 ATTCTCATTTAAAACTTAAAG
14081852 ATTCTCATTTAAAACTTAAAG
1 ATTCTCATTTAAAACTTAAAG
* *
14081873 GTTCTCATTTGAAAATGTTTTAAAG
1 ATTCTCATTT-AAAA---CTTAAAG
* *
14081898 ATTCTCATTTAAGACTCAAAG
1 ATTCTCATTTAAAACTTAAAG
*
14081919 ATTTTCATTT
1 ATTCTCATTT
14081929 GAGGATTCAA
Statistics
Matches: 62, Mismatches: 11, Indels: 8
0.77 0.14 0.10
Matches are distributed among these distances:
21 40 0.65
22 4 0.06
24 3 0.05
25 15 0.24
ACGTcount: A:0.37, C:0.13, G:0.08, T:0.42
Consensus pattern (21 bp):
ATTCTCATTTAAAACTTAAAG
Found at i:14082472 original size:79 final size:79
Alignment explanation
Indices: 14082327--14082479 Score: 184
Period size: 79 Copynumber: 1.9 Consensus size: 79
14082317 CTTGATCGTA
** * * * *
14082327 ATTCACAGGCTTTTCAGCACTAGCAATTTTAAAATAAATTTTATCCTCTTATTCACATTATGTTC
1 ATTCACAGGCTTTTCAGCACTAGCAATTCCAAAATAAATTTCATCCTCTGACTCACATCATGTTC
14082392 ATCATTTGATCACC
66 ATCATTTGATCACC
* * * *
14082406 ATTCACAGGCTTTTCAGCACTAGTC-ATTCCAAAATAAGTTTCATCCAT-TGCCTCATATCATTT
1 ATTCACAGGCTTTTCAGCACTAG-CAATTCCAAAATAAATTTCATCC-TCTGACTCACATCATGT
14082469 TCATCATTTGA
64 TCATCATTTGA
14082480 CCATATCTCA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
79 60 0.97
80 2 0.03
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.39
Consensus pattern (79 bp):
ATTCACAGGCTTTTCAGCACTAGCAATTCCAAAATAAATTTCATCCTCTGACTCACATCATGTTC
ATCATTTGATCACC
Found at i:14083029 original size:6 final size:6
Alignment explanation
Indices: 14083027--14083060 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
14083017 CTCATTTTCA
14083027 TTTT-T TTTTAT TTTTAT TTTTATT TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTA-T TTTTAT TTTT
14083061 TCCTTTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 4 0.15
6 17 0.63
7 6 0.22
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (6 bp):
TTTTAT
Found at i:14083034 original size:10 final size:10
Alignment explanation
Indices: 14083021--14083100 Score: 53
Period size: 10 Copynumber: 8.1 Consensus size: 10
14083011 TTTTCCCTCA
14083021 TTTTCATTTT
1 TTTTCATTTT
*
14083031 TTTTTATTTT
1 TTTTCATTTT
14083041 TATTT--TTATT
1 T-TTTCATT-TT
14083051 TTTT-A--TT
1 TTTTCATTTT
*
14083058 TTTTCCTTTT
1 TTTTCATTTT
14083068 TTTTCCATTTT
1 TTTT-CATTTT
**
14083079 TTTTTGTTTT
1 TTTTCATTTT
14083089 TTTTCCATTTT
1 TTTT-CATTTT
14083100 T
1 T
14083101 CATTTTTCGT
Statistics
Matches: 55, Mismatches: 7, Indels: 15
0.71 0.09 0.19
Matches are distributed among these distances:
7 6 0.11
9 5 0.09
10 27 0.49
11 17 0.31
ACGTcount: A:0.09, C:0.09, G:0.01, T:0.81
Consensus pattern (10 bp):
TTTTCATTTT
Found at i:14083053 original size:13 final size:12
Alignment explanation
Indices: 14083027--14083060 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
14083017 CTCATTTTCA
14083027 TTTT-TTTTTAT
1 TTTTATTTTTAT
14083038 TTTTATTTTTATT
1 TTTTATTTTTA-T
14083051 TTTTATTTTT
1 TTTTATTTTT
14083061 TCCTTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 4 0.19
12 6 0.29
13 11 0.52
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (12 bp):
TTTTATTTTTAT
Found at i:14083090 original size:37 final size:37
Alignment explanation
Indices: 14083021--14083107 Score: 97
Period size: 37 Copynumber: 2.3 Consensus size: 37
14083011 TTTTCCCTCA
*
14083021 TTTTCATTTTTTTTTATTTTTATTTTTATTTTTTATT
1 TTTTCATTTTTTTTCATTTTTATTTTTATTTTTTATT
* *
14083058 TTTTCCTTTTTTTTCCATTTTT-TTTTGTTTTTTTTCCA-T
1 TTTTCATTTTTTTT-CATTTTTATTTT-TATTTTTT--ATT
14083097 TTTTCATTTTT
1 TTTTCATTTTT
14083108 CGTCCATTAG
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
37 17 0.40
38 13 0.31
39 11 0.26
40 1 0.02
ACGTcount: A:0.09, C:0.09, G:0.01, T:0.80
Consensus pattern (37 bp):
TTTTCATTTTTTTTCATTTTTATTTTTATTTTTTATT
Found at i:14088140 original size:31 final size:31
Alignment explanation
Indices: 14088075--14088140 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
14088065 AAGCTTGCCA
* * *
14088075 AAAAATTCAATCGATGCCAAAAAGTTCACTG
1 AAAAATTCAATCGATGCAAAAAAATTCACCG
* *
14088106 AAAAATTCAATCGGTGCAAAAAAATTCCCCG
1 AAAAATTCAATCGATGCAAAAAAATTCACCG
14088137 AAAA
1 AAAA
14088141 CTAGAAAAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.48, C:0.20, G:0.12, T:0.20
Consensus pattern (31 bp):
AAAAATTCAATCGATGCAAAAAAATTCACCG
Found at i:14088554 original size:3 final size:3
Alignment explanation
Indices: 14088537--14088620 Score: 107
Period size: 3 Copynumber: 27.7 Consensus size: 3
14088527 AGAAAAGAAA
*
14088537 AAT AA- AAT AAAT AAT AAT AAG AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
14088582 AAT AAT AAT AAT AAT AAT CAT ATAT AAA AAT AAA AAT AA
1 AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AA
14088621 CATACAATAA
Statistics
Matches: 70, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
2 2 0.03
3 62 0.89
4 6 0.09
ACGTcount: A:0.69, C:0.01, G:0.01, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:14088630 original size:22 final size:21
Alignment explanation
Indices: 14088529--14088662 Score: 77
Period size: 18 Copynumber: 6.5 Consensus size: 21
14088519 AAATGAAAAG
* *
14088529 AAAAGAAAAATAAAATAAATA
1 AAAATAAAAATAACATAAATA
* *
14088550 ATAATAAGAAT-A-AT-AATA
1 AAAATAAAAATAACATAAATA
* *
14088568 ATAATAATAAT-A-AT-AATA
1 AAAATAAAAATAACATAAATA
* * *
14088586 ATAATAATAATAATCATATATA
1 AAAATAAAAATAA-CATAAATA
14088608 AAAATAAAAATAACATACAAT-
1 AAAATAAAAATAACATA-AATA
14088629 AAAATAAAACCCATAA-ATAAATAA
1 AAAATAAAA---ATAACATAAAT-A
14088653 AAAATAAAAA
1 AAAATAAAAA
14088663 AAATAGTTGG
Statistics
Matches: 95, Mismatches: 8, Indels: 20
0.77 0.07 0.16
Matches are distributed among these distances:
18 32 0.34
19 3 0.03
20 1 0.01
21 24 0.25
22 19 0.20
23 3 0.03
24 13 0.14
ACGTcount: A:0.71, C:0.04, G:0.01, T:0.23
Consensus pattern (21 bp):
AAAATAAAAATAACATAAATA
Found at i:14088632 original size:21 final size:21
Alignment explanation
Indices: 14088536--14088637 Score: 75
Period size: 21 Copynumber: 4.6 Consensus size: 21
14088526 AAGAAAAGAA
14088536 AAATAAAATAAATAATAAT-A-
1 AAATAAAATAAA-AATAATCAT
* *
14088556 AGAATAATAATAATAATAATAAT
1 A-AATAA-AATAAAAATAATCAT
*
14088579 AATAATAATAATAATAATAATCAT
1 -A-AATAA-AATAAAAATAATCAT
*
14088603 ATATAAAAATAAAAATAA-CAT
1 AAAT-AAAATAAAAATAATCAT
14088624 ACAATAAAATAAAA
1 A-AATAAAATAAAA
14088638 CCCATAAATA
Statistics
Matches: 69, Mismatches: 6, Indels: 13
0.78 0.07 0.15
Matches are distributed among these distances:
20 1 0.01
21 24 0.35
22 20 0.29
23 3 0.04
24 21 0.30
ACGTcount: A:0.70, C:0.03, G:0.01, T:0.26
Consensus pattern (21 bp):
AAATAAAATAAAAATAATCAT
Found at i:14089287 original size:25 final size:24
Alignment explanation
Indices: 14089259--14089381 Score: 84
Period size: 25 Copynumber: 4.9 Consensus size: 24
14089249 GTGCTTAGAC
14089259 ACACCTTTGAGCAAACCACTCAAAA
1 ACACCTTT-AGCAAACCACTCAAAA
* *
14089284 ACACCATTCAGCAAACCATTCAAAA
1 ACACC-TTTAGCAAACCACTCAAAA
* * * *
14089309 ACACCATTTAGTAAACCATTTAGAA
1 ACACC-TTTAGCAAACCACTCAAAA
* * * * *
14089334 ACATCATTCAGTAAACCATTGAAAA
1 ACA-CCTTTAGCAAACCACTCAAAA
* *
14089359 ACACCATTTAGTAAACCATTCAA
1 ACACC-TTTAGCAAACCACTCAA
14089382 CATACAATTT
Statistics
Matches: 82, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
24 1 0.01
25 78 0.95
26 3 0.04
ACGTcount: A:0.46, C:0.26, G:0.07, T:0.22
Consensus pattern (24 bp):
ACACCTTTAGCAAACCACTCAAAA
Found at i:14089316 original size:13 final size:13
Alignment explanation
Indices: 14089282--14089380 Score: 71
Period size: 12 Copynumber: 7.9 Consensus size: 13
14089272 AACCACTCAA
14089282 AAACACCATTCAG
1 AAACACCATTCAG
* *
14089295 CAA-ACCATTCAA
1 AAACACCATTCAG
*
14089307 AAACACCATTTAG
1 AAACACCATTCAG
* *
14089320 TAA-ACCATTTAG
1 AAACACCATTCAG
*
14089332 AAACATCATTCAG
1 AAACACCATTCAG
* * *
14089345 TAA-ACCATTGAA
1 AAACACCATTCAG
*
14089357 AAACACCATTTAG
1 AAACACCATTCAG
*
14089370 TAA-ACCATTCA
1 AAACACCATTCA
14089381 ACATACAATT
Statistics
Matches: 65, Mismatches: 18, Indels: 7
0.72 0.20 0.08
Matches are distributed among these distances:
12 36 0.55
13 29 0.45
ACGTcount: A:0.46, C:0.24, G:0.06, T:0.23
Consensus pattern (13 bp):
AAACACCATTCAG
Found at i:14089325 original size:50 final size:50
Alignment explanation
Indices: 14089271--14089381 Score: 168
Period size: 50 Copynumber: 2.2 Consensus size: 50
14089261 ACCTTTGAGC
*
14089271 AAACCACTCAAAAACACCATTCAGCAAACCATTCAAAAACACCATTTAGT
1 AAACCATTCAAAAACACCATTCAGCAAACCATTCAAAAACACCATTTAGT
* * * * *
14089321 AAACCATTTAGAAACATCATTCAGTAAACCATTGAAAAACACCATTTAGT
1 AAACCATTCAAAAACACCATTCAGCAAACCATTCAAAAACACCATTTAGT
14089371 AAACCATTCAA
1 AAACCATTCAA
14089382 CATACAATTT
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 53 1.00
ACGTcount: A:0.48, C:0.25, G:0.05, T:0.22
Consensus pattern (50 bp):
AAACCATTCAAAAACACCATTCAGCAAACCATTCAAAAACACCATTTAGT
Found at i:14089423 original size:28 final size:28
Alignment explanation
Indices: 14089383--14089439 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
14089373 ACCATTCAAC
* * *
14089383 ATACAATTTAGCATACCAATATCATACA
1 ATACAATTTAGCAAAACAATATCACACA
*
14089411 ATACCATTTAGCAAAACAATATCACACA
1 ATACAATTTAGCAAAACAATATCACACA
14089439 A
1 A
14089440 CAAGGTTCAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.49, C:0.23, G:0.04, T:0.25
Consensus pattern (28 bp):
ATACAATTTAGCAAAACAATATCACACA
Found at i:14090369 original size:186 final size:184
Alignment explanation
Indices: 14089932--14091276 Score: 1357
Period size: 186 Copynumber: 7.2 Consensus size: 184
14089922 TGTACAAAAA
* * * * * * *
14089932 TTAAAAAAAATTAGTGAAGGGGTTTGTTCCCAAAAAATACATTCAATGAATATGTATGTAAATTA
1 TTAAAAGAAATTATTGAAGGCGTTTGTTCTCAAAAAATACCTTCAATTATTATGTATGTAAATTA
* * * *
14089997 GAATGAATTAGTGAAGGCATTTTTCTAGAATAAATGCCTTCACTAACCATATTAAATTTTGAGTT
66 GAAGGAATTAGTGAAGGTATTTTTCTAGAATAAATGCCTTCACTAACCATCTTAAAATTTGAG-T
* * * **
14090062 GTAGG-AAATTGAAGGCGT-TTTTTTATTGGAAAACGCCTTTAATAATCCCAAAAATT
130 -TAGGAAAATTGAA-G-GTATTTTTCACTGGAAGACGCCTTTAATAATCTAAAAAATT
* * ** * *
14090118 TTAAAAGAAAATTATTGAAGGTGTTTGTTCTCAAAAATTGGCATCAATTATTATGTATATAAATT
1 TTAAAAG-AAATTATTGAAGGCGTTTGTTCTCAAAAAATACCTTCAATTATTATGTATGTAAATT
* *** *
14090183 AGAAGGAATTAGTGAAAGTATTTTTCTAGAATAAATGCCTTCACTAATTGTCTTAAAATTAGAGT
65 AGAAGGAATTAGTGAAGGTATTTTTCTAGAATAAATGCCTTCACTAACCATCTTAAAATTTGAGT
* ** *
14090248 TACGGGAAATTGAAAATATTTTTCACTGGAAGATGCCTTTAATAATCTAAAAAATT
130 TA-GGAAAATTGAAGGTATTTTTCACTGGAAGACGCCTTTAATAATCTAAAAAATT
* * * *
14090304 TTAAGAAGAAATTATTGAAGGCATTTGTTTTCAAAAAACACCTTCAATAATTATGTATGTAAATT
1 TTAA-AAGAAATTATTGAAGGCGTTTGTTCTCAAAAAATACCTTCAATTATTATGTATGTAAATT
* * *
14090369 AGAAGGAATTAGTGAAGGTATTTTTCTAGAATAAATACCTTTACTAACCATCTTAAAATTAGAGT
65 AGAAGGAATTAGTGAAGGTATTTTTCTAGAATAAATGCCTTCACTAACCATCTTAAAATTTGAGT
* * ** * *
14090434 TATGGAAATTTGAATGCGTTTTTCACTGGAAAACCCCTTTAATAATCCT-AAAAATT
130 TA-GGAAAATTGAAGGTATTTTTCACTGGAAGACGCCTTTAATAAT-CTAAAAAATT
* * * * * *
14090490 TTAAGAGGGAATTATTGAAGGTGTTTGTTATCAAAAAACT-CATTCAATAATTATGTATGTAAAT
1 TTAA-AAGAAATTATTGAAGGCGTTTGTTCTCAAAAAA-TACCTTCAATTATTATGTATGTAAAT
* * * * * * *
14090554 TGAGTTA-TAATGAGTGAAGGTGTTTTTCTAGTATAAATGCCTTCACTATCCATCTTAAATTTTG
64 T-AG-AAGGAATTAGTGAAGGTATTTTTCTAGAATAAATGCCTTCACTAACCATCTTAAAATTTG
* * * *
14090618 AATTATGAAAATTGAAGGTATTTTTCACTGGAAGACGCCTTTAATAATTTCAAAAATT
127 AGTTAGGAAAATTGAAGGTATTTTTCACTGGAAGACGCCTTTAATAATCTAAAAAATT
* * * * * *
14090676 TTAAAAGAAAATTATTGAAGGCATTTATTATAAAAAAATATCTTCAATTATTATGTACGTAAATT
1 TTAAAAG-AAATTATTGAAGGCGTTTGTTCTCAAAAAATACCTTCAATTATTATGTATGTAAATT
* * * *
14090741 AG-AGTGGATTAGTGAAGGTATTTTTCTAGAATAAATGCTTTCACTAACCGTTTTAAAATTTGAG
65 AGAAG-GAATTAGTGAAGGTATTTTTCTAGAATAAATGCCTTCACTAACCATCTTAAAATTTGAG
* * * *
14090805 TT-GTAAAAAATTGAAGGTGTTTTTCACTGGAAGACACCTTTAATAATTTAAAAAAATTT
129 TTAG--GAAAATTGAAGGTATTTTTCACTGGAAGACGCCTTTAATAATCT-AAAAAA-TT
* * *
14090864 TTAAAA-AAA-TATTAAAGGCGTTTGTTCTCAAAAAATGCCTTCAATTATTATGTACGTAAATTA
1 TTAAAAGAAATTATTGAAGGCGTTTGTTCTCAAAAAATACCTTCAATTATTATGTATGTAAATTA
* ** * *
14090927 G-AGTGAATTAGT-AAGGCATTTTTCTAGAATAAACACCTTCACTAACCATATTAAAATTAGAGT
66 GAAG-GAATTAGTGAAGGTATTTTTCTAGAATAAATGCCTTCACTAACCATCTTAAAATTTGAGT
* * * * * *** *
14090990 TGTGGAAAATTAAAAGT-GTTTTCACTAGAAGACATATTTAATAATCCAAAAAATT
130 T-AGGAAAATTGAAGGTATTTTTCACTGGAAGACGCCTTTAATAATCTAAAAAATT
* * * * * * * * *
14091045 TTAAGAGAAAATTATTAAAGGTGTTTATTCTCAGAAAATGCTTTTAATTATTATGTACGTAAATT
1 TTAAAAG-AAATTATTGAAGGCGTTTGTTCTCAAAAAATACCTTCAATTATTATGTATGTAAATT
* * * * * * *
14091110 AGAAGGAATTAATGAAGATATTTTTCTAAAATAAATGCCTTTACTAAACGTGTTAAAATTTGAGT
65 AGAAGGAATTAGTGAAGGTATTTTTCTAGAATAAATGCCTTCACTAACCATCTTAAAATTTGAGT
*
14091175 T-GTGAAATATTGAAGGCATTTTTCACTGGAAGACGCCTTTAATAATCTAAAAAATT
130 TAG-GAAA-ATTGAAGGTATTTTTCACTGGAAGACGCCTTTAATAATCTAAAAAATT
* ** *
14091231 TTAAAAAAAAATTATTGAAAACGTTTGTTCTAAAAAAATACCTTCA
1 TT-AAAAGAAATTATTGAAGGCGTTTGTTCTCAAAAAATACCTTCA
14091277 CTAACTATCT
Statistics
Matches: 961, Mismatches: 169, Indels: 58
0.81 0.14 0.05
Matches are distributed among these distances:
181 7 0.01
182 6 0.01
183 29 0.03
184 116 0.12
185 167 0.17
186 451 0.47
187 176 0.18
188 9 0.01
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.36
Consensus pattern (184 bp):
TTAAAAGAAATTATTGAAGGCGTTTGTTCTCAAAAAATACCTTCAATTATTATGTATGTAAATTA
GAAGGAATTAGTGAAGGTATTTTTCTAGAATAAATGCCTTCACTAACCATCTTAAAATTTGAGTT
AGGAAAATTGAAGGTATTTTTCACTGGAAGACGCCTTTAATAATCTAAAAAATT
Found at i:14097327 original size:9 final size:9
Alignment explanation
Indices: 14097309--14097339 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
14097299 TTATTGTATT
*
14097309 GTTTTAATA
1 GTTTTGATA
14097318 GTTTTGATA
1 GTTTTGATA
14097327 GTTTTGATA
1 GTTTTGATA
14097336 GTTT
1 GTTT
14097340 CAATACATGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.23, C:0.00, G:0.19, T:0.58
Consensus pattern (9 bp):
GTTTTGATA
Found at i:14099097 original size:34 final size:34
Alignment explanation
Indices: 14099059--14099134 Score: 116
Period size: 34 Copynumber: 2.2 Consensus size: 34
14099049 TGTCAAAGGT
*
14099059 ACAAATGCCACTAATATAGCAACATTTTTCAGAC
1 ACAAATGCCACTAATATAACAACATTTTTCAGAC
** *
14099093 ACAAATGCCACTAATATAACGGCATTTTTCAGAT
1 ACAAATGCCACTAATATAACAACATTTTTCAGAC
14099127 ACAAATGC
1 ACAAATGC
14099135 TGTTATAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.41, C:0.22, G:0.11, T:0.26
Consensus pattern (34 bp):
ACAAATGCCACTAATATAACAACATTTTTCAGAC
Found at i:14103047 original size:59 final size:59
Alignment explanation
Indices: 14102937--14103050 Score: 174
Period size: 59 Copynumber: 1.9 Consensus size: 59
14102927 CTTATCCCTT
* * * *
14102937 AGGCTTGATAGTGCCCCTCCTACATAAACATCATCTCACAATCTTTTTAGCTCAAAGAG
1 AGGCCTGATAGTGCCCCTCCTACACAAACATCATCTCACAATCCTTCTAGCTCAAAGAG
**
14102996 AGGCCTGATAGTGCCCCTCCTACACAAACATCATCTCATGATCCTTCTAGCTCAA
1 AGGCCTGATAGTGCCCCTCCTACACAAACATCATCTCACAATCCTTCTAGCTCAA
14103051 GGAAGGGAAC
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
59 49 1.00
ACGTcount: A:0.29, C:0.31, G:0.13, T:0.27
Consensus pattern (59 bp):
AGGCCTGATAGTGCCCCTCCTACACAAACATCATCTCACAATCCTTCTAGCTCAAAGAG
Found at i:14104349 original size:6 final size:6
Alignment explanation
Indices: 14104338--14104366 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
14104328 TGTTGAATGG
14104338 ATTAAT ATTAAT ATTAAT ATTAAT -TTAAT
1 ATTAAT ATTAAT ATTAAT ATTAAT ATTAAT
14104367 TTATTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
ATTAAT
Found at i:14105029 original size:19 final size:21
Alignment explanation
Indices: 14105000--14105050 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
14104990 GTAAAAACAT
14105000 TTAATATCTTATGC-T-TCTAA
1 TTAA-ATCTTATGCATCTCTAA
*
14105020 TTAAATCTTATGCATCTTTAA
1 TTAAATCTTATGCATCTCTAA
14105041 TTAAA-CTTAT
1 TTAAATCTTAT
14105051 AAAGGCACAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 9 0.32
20 10 0.36
21 9 0.32
ACGTcount: A:0.33, C:0.14, G:0.04, T:0.49
Consensus pattern (21 bp):
TTAAATCTTATGCATCTCTAA
Found at i:14105962 original size:62 final size:64
Alignment explanation
Indices: 14105852--14105972 Score: 183
Period size: 62 Copynumber: 1.9 Consensus size: 64
14105842 TGAATAGGAT
* **
14105852 TATTAAAGGCATTTTTGACAAAAAAATACCTTCAATAATCCATTCAAAAAATTTTGGAGAAAGAA
1 TATTAAAGGCATTTTTGACAAAAAAACACCTTC-ATAATCCACACAAAAAATTTTGGAGAAAGAA
*
14105917 TATTAAAGGCATTTTTGAC-CAAAAACACCTTC-TAATCCACACAAAAAATTTTGGAG
1 TATTAAAGGCATTTTTGACAAAAAAACACCTTCATAATCCACACAAAAAATTTTGGAG
14105973 GGACAAAAAT
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
62 22 0.42
64 11 0.21
65 19 0.37
ACGTcount: A:0.45, C:0.16, G:0.11, T:0.29
Consensus pattern (64 bp):
TATTAAAGGCATTTTTGACAAAAAAACACCTTCATAATCCACACAAAAAATTTTGGAGAAAGAA
Found at i:14106057 original size:64 final size:64
Alignment explanation
Indices: 14105989--14106155 Score: 151
Period size: 64 Copynumber: 2.6 Consensus size: 64
14105979 AAATGTTTTT
* * * *
14105989 AATAATCCAAGCA-AAAAATTTTGTTGAGAGGATTATTG-AAGATGTTTTTGGC-CAAAATGCCT
1 AATAATCC-AGCATAAAAA-TTTATTAAGAGGATTATTGAAAG-TGTTTTTGACTAAAAATGCCT
14106051 TC
63 TC
* ** * *
14106053 AATAAACCCTCATAAAAATTTATTAAGGGGATTATTGAAAGTTTTTTTGACTAAAAATGCCTTC
1 AATAATCCAGCATAAAAATTTATTAAGAGGATTATTGAAAGTGTTTTTGACTAAAAATGCCTTC
**** * *
14106117 AATAATTGTTCATAAAAATTTATTAACAGGACTATTGAA
1 AATAATCCAGCATAAAAATTTATTAAGAGGATTATTGAA
14106156 GGGATTTTTG
Statistics
Matches: 84, Mismatches: 16, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
63 26 0.31
64 58 0.69
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.35
Consensus pattern (64 bp):
AATAATCCAGCATAAAAATTTATTAAGAGGATTATTGAAAGTGTTTTTGACTAAAAATGCCTTC
Found at i:14106164 original size:64 final size:64
Alignment explanation
Indices: 14106042--14106167 Score: 162
Period size: 64 Copynumber: 2.0 Consensus size: 64
14106032 GTTTTTGGCC
** * **
14106042 AAAATGCCTTCAATAAACCCTCATAAAAATTTATTAAGGGGATTATTGAAAGTTTTTTTGACTA
1 AAAATGCCTTCAATAAACCCTCATAAAAATTTATTAACAGGACTATTGAAAGGATTTTTGACTA
**** *
14106106 AAAATGCCTTCAATAATTGTTCATAAAAATTTATTAACAGGACTATTGAAGGGATTTTTGAC
1 AAAATGCCTTCAATAAACCCTCATAAAAATTTATTAACAGGACTATTGAAAGGATTTTTGAC
14106168 CAAATCTGTC
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
64 52 1.00
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.36
Consensus pattern (64 bp):
AAAATGCCTTCAATAAACCCTCATAAAAATTTATTAACAGGACTATTGAAAGGATTTTTGACTA
Found at i:14107736 original size:125 final size:125
Alignment explanation
Indices: 14107511--14108390 Score: 999
Period size: 125 Copynumber: 7.1 Consensus size: 125
14107501 ACAAACATAT
* * * * *
14107511 GATGGTTTTGCTTATTGATCTTTTGCATAAAACATAGCGAACATAGCAAATAGTTTATTTTGCAT
1 GATGGTTTTGCATATTGATCTTTTGCATAAAACATAGCAAACACAACAAATAG-TTGTTTTGCAT
* * *
14107576 ATTCATTCTATGTTGATTTAATAGCTAGATCTTTTGCATATTGATGCAGGACAATATGGAA-
65 ATTCATTCTATGTTGAATTAATAGCTACATCTTTTGCATATTGATGCATGACAATAT-GAAG
*
14107637 GATGGTTTTGCATATTTATCTTTTGCATAAAACATAGCAAACACAACAAATAGTTGTTTTGCATA
1 GATGGTTTTGCATATTGATCTTTTGCATAAAACATAGCAAACACAACAAATAGTTGTTTTGCATA
*
14107702 TTCATTTTATGTTGAATTAATAGCTACATCTTTTGCATATTGATGCATGACAATATGAAG
66 TTCATTCTATGTTGAATTAATAGCTACATCTTTTGCATATTGATGCATGACAATATGAAG
* * * * * *
14107762 GATGGTTTTGCATTTTGATCTTTTGCATTACACATAGCAAACATAGCAAATAGTATGTTTTG-GT
1 GATGGTTTTGCATATTGATCTTTTGCATAAAACATAGCAAACACAACAAATAGT-TGTTTTGCAT
* * * *
14107826 ATTCATTCTGTGTTGAATTAGTAGCTACATCTTTTGCAAATTAATGCATGACAATATGAAG
65 ATTCATTCTATGTTGAATTAATAGCTACATCTTTTGCATATTGATGCATGACAATATGAAG
* * * *
14107887 GATGGTTTTGCATATTGATTTTTTGCA-AAAGACATAGCAAACACAACAAACAATTTATTTTGCA
1 GATGGTTTTGCATATTGATCTTTTGCATAAA-ACATAGCAAACACAACAAA-TAGTTGTTTTGCA
* * * ** *
14107951 TATTCATTTTATGTTGAATTAGTAGCTACATCATTTAAATATTGATGCATGACAATATAAAG
64 TATTCATTCTATGTTGAATTAATAGCTACATCTTTTGCATATTGATGCATGACAATATGAAG
* ***
14108013 GATGGTTTTGCATATTGATCTTATGCAT-TCGCATAGC-AA-ACAAC---TA----TTTTGCATA
1 GATGGTTTTGCATATTGATCTTTTGCATAAAACATAGCAAACACAACAAATAGTTGTTTTGCATA
* *
14108068 TTCATTCTATGTTGAATTAGTAGCTACATCTTTTGCATATTGATGCATGATAATATGAAG
66 TTCATTCTATGTTGAATTAATAGCTACATCTTTTGCATATTGATGCATGACAATATGAAG
* * * * *
14108128 GATGGTTTTGCATATTGATCTTTTGCATTACACATAGCGAACACAACAAACAATTTGTTTTGCAT
1 GATGGTTTTGCATATTGATCTTTTGCATAAAACATAGCAAACACAACAAA-TAGTTGTTTTGCAT
* * * * *
14108193 ATTCATTCTGTGTTGAATTAATAGCTATATCTTATGCATATTGATGAATGACAAAATGAAG
65 ATTCATTCTATGTTGAATTAATAGCTACATCTTTTGCATATTGATGCATGACAATATGAAG
* *
14108254 GATGGTTTTGCATATTGAACTTTTGTATATGACATAGCAATCATAGCAAACACAACAAATAGTTT
1 GATGGTTTTGCATATTG-A--TCT-T-T-TG-CATA--AAACATAGCAAACACAACAAATAG-TT
* * * *
14108319 GTTTTG------CATT-TGTGTTGAATTAATAGCTACATGTTTTGCATATTGATGCATGATAGTA
56 GTTTTGCATATTCATTCTATGTTGAATTAATAGCTACATCTTTTGCATATTGATGCATGACAATA
14108377 TGAAG
121 TGAAG
*
14108382 GATGCTTTT
1 GATGGTTTT
14108391 TGATCACAAC
Statistics
Matches: 649, Mismatches: 78, Indels: 52
0.83 0.10 0.07
Matches are distributed among these distances:
115 90 0.14
116 7 0.01
117 2 0.00
118 5 0.01
119 1 0.00
122 1 0.00
123 5 0.01
124 6 0.01
125 222 0.34
126 215 0.33
127 1 0.00
128 54 0.08
129 6 0.01
130 1 0.00
131 1 0.00
132 2 0.00
133 3 0.00
134 1 0.00
135 26 0.04
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.39
Consensus pattern (125 bp):
GATGGTTTTGCATATTGATCTTTTGCATAAAACATAGCAAACACAACAAATAGTTGTTTTGCATA
TTCATTCTATGTTGAATTAATAGCTACATCTTTTGCATATTGATGCATGACAATATGAAG
Found at i:14108024 original size:126 final size:125
Alignment explanation
Indices: 14107511--14108390 Score: 948
Period size: 126 Copynumber: 7.1 Consensus size: 125
14107501 ACAAACATAT
* * * * * *
14107511 GATGGTTTTGCTTATTGATCTTTTGCATAAAACATAGCGAACATAGCAAATAGTTTATTTTGCAT
1 GATGGTTTTGCATATTGATCTTTTGCA-AAAACATAGCAAACACAACAAACAATTTATTTTGCAT
* * *
14107576 ATTCATTCTATGTTGATTTAATAGCTAGATCTTTTGCATATTGATGCAGGACAATATGGAA-
65 ATTCATTCTATGTTGAATTAATAGCTACATCTTTTGCATATTGATGCATGACAATAT-GAAG
* * * *
14107637 GATGGTTTTGCATATTTATCTTTTGCATAAAACATAGCAAACACAACAAA-TAGTTGTTTTGCAT
1 GATGGTTTTGCATATTGATCTTTTGCA-AAAACATAGCAAACACAACAAACAATTTATTTTGCAT
*
14107701 ATTCATTTTATGTTGAATTAATAGCTACATCTTTTGCATATTGATGCATGACAATATGAAG
65 ATTCATTCTATGTTGAATTAATAGCTACATCTTTTGCATATTGATGCATGACAATATGAAG
* * * * * * * * * *
14107762 GATGGTTTTGCATTTTGATCTTTTGCATTACACATAGCAAACATAGCAAATAGTATGTTTTG-GT
1 GATGGTTTTGCATATTGATCTTTTGCA-AAAACATAGCAAACACAACAAACAATTTATTTTGCAT
* * * *
14107826 ATTCATTCTGTGTTGAATTAGTAGCTACATCTTTTGCAAATTAATGCATGACAATATGAAG
65 ATTCATTCTATGTTGAATTAATAGCTACATCTTTTGCATATTGATGCATGACAATATGAAG
*
14107887 GATGGTTTTGCATATTGATTTTTTGCAAAAGACATAGCAAACACAACAAACAATTTATTTTGCAT
1 GATGGTTTTGCATATTGATCTTTTGCAAAA-ACATAGCAAACACAACAAACAATTTATTTTGCAT
* * * ** *
14107952 ATTCATTTTATGTTGAATTAGTAGCTACATCATTTAAATATTGATGCATGACAATATAAAG
65 ATTCATTCTATGTTGAATTAATAGCTACATCTTTTGCATATTGATGCATGACAATATGAAG
* ****
14108013 GATGGTTTTGCATATTGATCTTATGCATTCGCATAG----CA-AAC-AAC----TATTTTGCATA
1 GATGGTTTTGCATATTGATCTTTTGCAAAAACATAGCAAACACAACAAACAATTTATTTTGCATA
* *
14108068 TTCATTCTATGTTGAATTAGTAGCTACATCTTTTGCATATTGATGCATGATAATATGAAG
66 TTCATTCTATGTTGAATTAATAGCTACATCTTTTGCATATTGATGCATGACAATATGAAG
* * * *
14108128 GATGGTTTTGCATATTGATCTTTTGCATTACACATAGCGAACACAACAAACAATTTGTTTTGCAT
1 GATGGTTTTGCATATTGATCTTTTGCA-AAAACATAGCAAACACAACAAACAATTTATTTTGCAT
* * * * *
14108193 ATTCATTCTGTGTTGAATTAATAGCTATATCTTATGCATATTGATGAATGACAAAATGAAG
65 ATTCATTCTATGTTGAATTAATAGCTACATCTTTTGCATATTGATGCATGACAATATGAAG
* * ** * * *
14108254 GATGGTTTTGCATATTGAACTTTTGTATATGACATAGCAATCATAGCAAACACAACAA-ATAGTT
1 GATGGTTTTGCATATTGATCTTTTGCA-AAAACATAGCAA--ACA-C-AACA-AACAATTTATTT
* * * * *
14108318 TG--TTTTGCATT-TGTGTTGAATTAATAGCTACATGTTTTGCATATTGATGCATGATAGTATGA
60 TGCATATT-CATTCTATGTTGAATTAATAGCTACATCTTTTGCATATTGATGCATGACAATATGA
14108380 AG
124 AG
*
14108382 GATGCTTTT
1 GATGGTTTT
14108391 TGATCACAAC
Statistics
Matches: 643, Mismatches: 90, Indels: 40
0.83 0.12 0.05
Matches are distributed among these distances:
115 91 0.14
116 7 0.01
119 3 0.00
120 5 0.01
121 5 0.01
122 3 0.00
124 4 0.01
125 219 0.34
126 228 0.35
128 59 0.09
129 5 0.01
130 9 0.01
131 5 0.01
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.39
Consensus pattern (125 bp):
GATGGTTTTGCATATTGATCTTTTGCAAAAACATAGCAAACACAACAAACAATTTATTTTGCATA
TTCATTCTATGTTGAATTAATAGCTACATCTTTTGCATATTGATGCATGACAATATGAAG
Found at i:14108145 original size:241 final size:243
Alignment explanation
Indices: 14107511--14108271 Score: 978
Period size: 241 Copynumber: 3.1 Consensus size: 243
14107501 ACAAACATAT
* * * * *
14107511 GATGGTTTTGCTTATTGATCTTTTGCATAAAACATAGCGAACATAGCAAATAGTTTATTTTGCAT
1 GATGGTTTTGCATATTGATCTTATGCATTACACATAGCAAACATAGC----A---TATTTTGCAT
* * * *
14107576 ATTCATTCTATGTTGATTTAATAGCTAGATCTTTTGCATATTGATGCAGGACAATATGGAA-GAT
59 ATTCATTCTATGTTGAATTAGTAGCTACATCTTTTGCATATTGATGCATGACAATAT-GAAGGAT
* * *
14107640 GGTTTTGCATATTTATCTTTTGCATAAAACATAGCAAACACAACAAA-TAGTTGTTTTGCATATT
123 GGTTTTGCATATTGATCTTTTGCA-AAAACATAGCAAACACAACAAACAATTTGTTTTGCATATT
14107704 CATTTTATGTTGAATTAATAGCTACATCTTTTGCATATTGATGCATGACAATATGAAG
187 CATTTTATGTTGAATTAATAGCTACATC-TTTGCATATTGATGCATGACAATATGAAG
* * *
14107762 GATGGTTTTGCATTTTGATCTTTTGCATTACACATAGCAAACATAGCAAATAGTATGTTTTG-GT
1 GATGGTTTTGCATATTGATCTTATGCATTACACATAGCAAACATAGC----A-TA--TTTTGCAT
* * *
14107826 ATTCATTCTGTGTTGAATTAGTAGCTACATCTTTTGCAAATTAATGCATGACAATATGAAGGATG
59 ATTCATTCTATGTTGAATTAGTAGCTACATCTTTTGCATATTGATGCATGACAATATGAAGGATG
* *
14107891 GTTTTGCATATTGATTTTTTGCAAAAGACATAGCAAACACAACAAACAATTTATTTTGCATATTC
124 GTTTTGCATATTGATCTTTTGCAAAA-ACATAGCAAACACAACAAACAATTTGTTTTGCATATTC
* ** *
14107956 ATTTTATGTTGAATTAGTAGCTACATCATTTAAATATTGATGCATGACAATATAAAG
188 ATTTTATGTTGAATTAATAGCTACATC-TTTGCATATTGATGCATGACAATATGAAG
*
14108013 GATGGTTTTGCATATTGATCTTATGCATT-CGCATAGCAAACA-A-C-TATTTTGCATATTCATT
1 GATGGTTTTGCATATTGATCTTATGCATTACACATAGCAAACATAGCATATTTTGCATATTCATT
*
14108074 CTATGTTGAATTAGTAGCTACATCTTTTGCATATTGATGCATGATAATATGAAGGATGGTTTTGC
66 CTATGTTGAATTAGTAGCTACATCTTTTGCATATTGATGCATGACAATATGAAGGATGGTTTTGC
* * * * *
14108139 ATATTGATCTTTTGCATTACACATAGCGAACACAACAAACAATTTGTTTTGCATATTCATTCTGT
131 ATATTGATCTTTTGCA-AAAACATAGCAAACACAACAAACAATTTGTTTTGCATATTCATTTTAT
* * *
14108204 GTTGAATTAATAGCTATATCTTATGCATATTGATGAATGACAAAATGAAG
195 GTTGAATTAATAGCTACATCTT-TGCATATTGATGCATGACAATATGAAG
14108254 GATGGTTTTGCATATTGA
1 GATGGTTTTGCATATTGA
14108272 ACTTTTGTAT
Statistics
Matches: 456, Mismatches: 46, Indels: 26
0.86 0.09 0.05
Matches are distributed among these distances:
240 7 0.02
241 183 0.40
242 3 0.01
248 1 0.00
249 9 0.02
250 107 0.23
251 146 0.32
ACGTcount: A:0.32, C:0.13, G:0.16, T:0.39
Consensus pattern (243 bp):
GATGGTTTTGCATATTGATCTTATGCATTACACATAGCAAACATAGCATATTTTGCATATTCATT
CTATGTTGAATTAGTAGCTACATCTTTTGCATATTGATGCATGACAATATGAAGGATGGTTTTGC
ATATTGATCTTTTGCAAAAACATAGCAAACACAACAAACAATTTGTTTTGCATATTCATTTTATG
TTGAATTAATAGCTACATCTTTGCATATTGATGCATGACAATATGAAG
Found at i:14108921 original size:61 final size:60
Alignment explanation
Indices: 14108846--14109012 Score: 185
Period size: 61 Copynumber: 2.8 Consensus size: 60
14108836 GGTTTATGGC
* * *** *
14108846 TTAAAATATATCAATTAGTACGTTTCTTTTAAATAAATGCAGTAATTAAGTTGA-TTAATTT
1 TTAAAA-A-ATCAATTACTATGTTTCTTTTAAATAAATGCAGTAATTAAGACAAGTAAATTT
* *
14108907 ATTAAAAAGATCAATTACTATGTTTGTTTTAAATAAATGCAGTAATTGAGACAAGTAAATTT
1 -TTAAAAA-ATCAATTACTATGTTTCTTTTAAATAAATGCAGTAATTAAGACAAGTAAATTT
* * *
14108969 TTAAACAATCAATTATTATGTTTC-TTTAAATAAATGTAGTAATT
1 TTAAAAAATCAATTACTATGTTTCTTTTAAATAAATGCAGTAATT
14109013 GTTCCTCTTA
Statistics
Matches: 91, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
59 19 0.21
60 15 0.16
61 45 0.49
62 12 0.13
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.42
Consensus pattern (60 bp):
TTAAAAAATCAATTACTATGTTTCTTTTAAATAAATGCAGTAATTAAGACAAGTAAATTT
Found at i:14112475 original size:25 final size:25
Alignment explanation
Indices: 14112437--14112484 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
14112427 AGCACATCAG
14112437 ATTTATTTATTTTAAGA-TTAAATGT
1 ATTTATTTATTTTAA-ATTTAAATGT
14112462 ATTTATTT-TATTTAAATTTAAAT
1 ATTTATTTAT-TTTAAATTTAAAT
14112485 TAAATGTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 2 0.10
25 19 0.90
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (25 bp):
ATTTATTTATTTTAAATTTAAATGT
Found at i:14113868 original size:7 final size:7
Alignment explanation
Indices: 14113845--14114041 Score: 94
Period size: 7 Copynumber: 30.9 Consensus size: 7
14113835 TAGATTTTTA
14113845 GTTTAGG
1 GTTTAGG
14113852 GTTT--G
1 GTTTAGG
*
14113857 ATTTAGG
1 GTTTAGG
14113864 GTTTAGG
1 GTTTAGG
*
14113871 GTTTAGA
1 GTTTAGG
14113878 GTTTA--
1 GTTTAGG
**
14113883 G-TTACA
1 GTTTAGG
*
14113889 GTTTAAG
1 GTTTAGG
*
14113896 GCTTAGG
1 GTTTAGG
*
14113903 ATTTA--
1 GTTTAGG
14113908 GTTTAGG
1 GTTTAGG
14113915 GTTTAGG
1 GTTTAGG
*
14113922 GCTT--G
1 GTTTAGG
14113927 GTTTAGG
1 GTTTAGG
*
14113934 ATTTAGG
1 GTTTAGG
14113941 G-TTA-G
1 GTTTAGG
*
14113946 ATTT--G
1 GTTTAGG
14113951 GTTTAGG
1 GTTTAGG
14113958 GTTTAGG
1 GTTTAGG
14113965 GTTT-GAG
1 GTTTAG-G
*
14113972 TTTTAGG
1 GTTTAGG
14113979 G-TTA-G
1 GTTTAGG
14113984 GTTTAGG
1 GTTTAGG
14113991 GTTTAGG
1 GTTTAGG
*
14113998 GCTT--G
1 GTTTAGG
*
14114003 GTTTTGG
1 GTTTAGG
*
14114010 GTGTTAAG
1 GT-TTAGG
14114018 G-TTA--
1 GTTTAGG
*
14114022 GTGTAGG
1 GTTTAGG
14114029 GTTTAGG
1 GTTTAGG
14114036 GTTTAG
1 GTTTAG
14114042 ATATAGTTAA
Statistics
Matches: 144, Mismatches: 24, Indels: 44
0.68 0.11 0.21
Matches are distributed among these distances:
4 4 0.03
5 26 0.18
6 16 0.11
7 93 0.65
8 5 0.03
ACGTcount: A:0.17, C:0.02, G:0.37, T:0.44
Consensus pattern (7 bp):
GTTTAGG
Found at i:14113892 original size:44 final size:42
Alignment explanation
Indices: 14113844--14113998 Score: 133
Period size: 44 Copynumber: 3.6 Consensus size: 42
14113834 TTAGATTTTT
* *
14113844 AGTTTAGGGTTTGATTTAGGGTTTAGGGTTTAGAGTTTAGTTA
1 AGTTTAGGGTTAGATTTA-GGTTTAGGGTTTAGGGTTTAGTTA
* * *
14113887 CAGTTTAAGGCTTAGGATTTA-GTTTAGGGTTTAGGGCTTGGTTTA
1 -AGTTT-AGGGTTA-GATTTAGGTTTAGGGTTTAGGGTTTAG-TTA
*
14113932 GGATTTAGGGTTAGATTT-GGTTTAGGGTTTAGGGTTT-G---
1 AG-TTTAGGGTTAGATTTAGGTTTAGGGTTTAGGGTTTAGTTA
*
14113970 AGTTTTAGGGTTAGGTTTAGGGTTTAGGG
1 AG-TTTAGGGTTAGATTTA-GGTTTAGGG
14113999 CTTGGTTTTG
Statistics
Matches: 93, Mismatches: 11, Indels: 18
0.76 0.09 0.15
Matches are distributed among these distances:
38 15 0.16
40 9 0.10
42 1 0.01
43 22 0.24
44 29 0.31
45 11 0.12
46 6 0.06
ACGTcount: A:0.19, C:0.02, G:0.35, T:0.44
Consensus pattern (42 bp):
AGTTTAGGGTTAGATTTAGGTTTAGGGTTTAGGGTTTAGTTA
Found at i:14113920 original size:19 final size:19
Alignment explanation
Indices: 14113888--14113989 Score: 55
Period size: 19 Copynumber: 5.1 Consensus size: 19
14113878 GTTTAGTTAC
* *
14113888 AGTTTAAGGCTTAGGATTT
1 AGTTTAGGGTTTAGGATTT
**
14113907 AGTTTAGGGTTTAGGGCTT
1 AGTTTAGGGTTTAGGATTT
* *
14113926 GGTTTAGGATTTAGGGTTAGATTT
1 AGTTTAGGGTTTA--G---GATTT
* *
14113950 GGTTTAGGGTTTAGGGTTT
1 AGTTTAGGGTTTAGGATTT
14113969 GAGTTTTAGGG-TTAGG-TTT
1 -AG-TTTAGGGTTTAGGATTT
14113988 AG
1 AG
14113990 GGTTTAGGGC
Statistics
Matches: 65, Mismatches: 11, Indels: 15
0.71 0.12 0.16
Matches are distributed among these distances:
18 2 0.03
19 33 0.51
20 6 0.09
21 8 0.12
22 1 0.02
24 15 0.23
ACGTcount: A:0.19, C:0.02, G:0.35, T:0.44
Consensus pattern (19 bp):
AGTTTAGGGTTTAGGATTT
Found at i:14113925 original size:26 final size:26
Alignment explanation
Indices: 14113858--14113943 Score: 81
Period size: 26 Copynumber: 3.3 Consensus size: 26
14113848 TAGGGTTTGA
*
14113858 TTTAGGGTTTAGGGTTTA-GAGTTTAG
1 TTTAGGGTTTAGGGCTTAGGA-TTTAG
** *
14113884 -TTACAGTTTAAGGCTTAGGATTTAG
1 TTTAGGGTTTAGGGCTTAGGATTTAG
14113909 TTTAGGGTTTAGGGCTT-GG-TTTAGG
1 TTTAGGGTTTAGGGCTTAGGATTTA-G
14113934 ATTTAGGGTT
1 -TTTAGGGTT
14113944 AGATTTGGTT
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
24 4 0.08
25 21 0.43
26 24 0.49
ACGTcount: A:0.20, C:0.03, G:0.33, T:0.44
Consensus pattern (26 bp):
TTTAGGGTTTAGGGCTTAGGATTTAG
Found at i:14113951 original size:24 final size:24
Alignment explanation
Indices: 14113924--14113993 Score: 79
Period size: 24 Copynumber: 2.8 Consensus size: 24
14113914 GGTTTAGGGC
14113924 TTGGTTTAGGATTTAGGGTT-AGAT
1 TTGGTTTAGG-TTTAGGGTTGAGAT
*
14113948 TTGGTTTAGGGTTTAGGGTTTGAGTT
1 TTGGTTTA-GGTTTAGGG-TTGAGAT
*
14113974 TTAGGGTTAGGTTTAGGGTT
1 TT-GGTTTAGGTTTAGGGTT
14113994 TAGGGCTTGG
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
24 15 0.38
25 6 0.15
26 14 0.35
27 5 0.12
ACGTcount: A:0.16, C:0.00, G:0.37, T:0.47
Consensus pattern (24 bp):
TTGGTTTAGGTTTAGGGTTGAGAT
Found at i:14113995 original size:19 final size:19
Alignment explanation
Indices: 14113908--14114038 Score: 112
Period size: 19 Copynumber: 6.9 Consensus size: 19
14113898 TTAGGATTTA
14113908 GTTTAGGGTTTAGGGCTT-G
1 GTTTAGGGTTTAGGG-TTAG
*
14113927 GTTTAGGATTTAGGGTTAG
1 GTTTAGGGTTTAGGGTTAG
*
14113946 ATTT--GGTTTAGGGTTTAGG
1 GTTTAGGGTTTAGGG-TTA-G
*
14113965 GTTT-GAGTTTTAGGGTTAG
1 GTTTAG-GGTTTAGGGTTAG
14113984 GTTTAGGGTTTAGGGCTT-G
1 GTTTAGGGTTTAGGG-TTAG
* *
14114003 GTTTTGGGTGTTAAGGTTA-
1 GTTTAGGGT-TTAGGGTTAG
*
14114022 GTGTAGGGTTTAGGGTT
1 GTTTAGGGTTTAGGGTT
14114039 TAGATATAGT
Statistics
Matches: 92, Mismatches: 11, Indels: 19
0.75 0.09 0.16
Matches are distributed among these distances:
17 8 0.09
18 12 0.13
19 53 0.58
20 11 0.12
21 8 0.09
ACGTcount: A:0.15, C:0.02, G:0.40, T:0.44
Consensus pattern (19 bp):
GTTTAGGGTTTAGGGTTAG
Found at i:14114034 original size:57 final size:54
Alignment explanation
Indices: 14113904--14114038 Score: 128
Period size: 57 Copynumber: 2.4 Consensus size: 54
14113894 AGGCTTAGGA
* *
14113904 TTTAGTTTAGGGTTTAGGGCTTGGTTTAGGATTTAGGGTTAGATTTGGTTTAGGG
1 TTTAGTGTAGGGTTTAGGG-TTGGTTTAGGATTTAGGGTTAGATTTGGTTTAAGG
* * * * * *
14113959 TTTAGGGTTTGAGTTTTAGGGTTAGGTTTAGGGTTTAGGGCTTGGTTTTGGGTGTTAAGG
1 TTTAGTG-TAG-GGTTTAGGGTT-GGTTTAGGATTTAGGG-TTAGATTT-GGT-TTAAGG
14114019 -TTAGTGTAGGGTTTAGGGTT
1 TTTAGTGTAGGGTTTAGGGTT
14114039 TAGATATAGT
Statistics
Matches: 63, Mismatches: 11, Indels: 10
0.75 0.13 0.12
Matches are distributed among these distances:
55 5 0.08
56 4 0.06
57 33 0.52
58 8 0.13
59 8 0.13
60 5 0.08
ACGTcount: A:0.15, C:0.01, G:0.39, T:0.45
Consensus pattern (54 bp):
TTTAGTGTAGGGTTTAGGGTTGGTTTAGGATTTAGGGTTAGATTTGGTTTAAGG
Found at i:14116079 original size:37 final size:36
Alignment explanation
Indices: 14116012--14116092 Score: 85
Period size: 38 Copynumber: 2.2 Consensus size: 36
14116002 TTTGGTTATT
*
14116012 ATTTTTTTTGGACTTTTTATATTTCGTATTTATTTTGA
1 ATTTTTTTTGGACTTTTGATATTTCGTA-TT-TTTTGA
**
14116050 ATTTTTTTTGGA-TTCTTGA-ATTTTTTATTTTTTGA
1 ATTTTTTTTGGACTT-TTGATATTTCGTATTTTTTGA
*
14116085 AATTTTTT
1 ATTTTTTT
14116093 GAATTTTTGA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
35 13 0.34
36 2 0.05
37 8 0.21
38 15 0.39
ACGTcount: A:0.19, C:0.04, G:0.10, T:0.68
Consensus pattern (36 bp):
ATTTTTTTTGGACTTTTGATATTTCGTATTTTTTGA
Found at i:14116091 original size:18 final size:18
Alignment explanation
Indices: 14116053--14116104 Score: 63
Period size: 17 Copynumber: 3.0 Consensus size: 18
14116043 ATTTTGAATT
* *
14116053 TTTTTTGGATTCTTG-AA
1 TTTTTTGAATTTTTGAAA
*
14116070 TTTTTT-ATTTTTTGAAA
1 TTTTTTGAATTTTTGAAA
14116087 TTTTTTGAATTTTTGAAA
1 TTTTTTGAATTTTTGAAA
14116105 AACTCCACTC
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
16 5 0.17
17 14 0.48
18 10 0.34
ACGTcount: A:0.23, C:0.02, G:0.12, T:0.63
Consensus pattern (18 bp):
TTTTTTGAATTTTTGAAA
Found at i:14116971 original size:62 final size:62
Alignment explanation
Indices: 14116734--14117107 Score: 268
Period size: 62 Copynumber: 5.9 Consensus size: 62
14116724 AAGAAGTTTT
* * * * * * * *
14116734 AATAAAATCCATATATTATCACCAAAACATGCAAAAAACTTGGATATCACCATC-GAGGAGTTTG
1 AATAAAAT-CATATATCATCA-TAAAATATGCAAAAAAGTTGGATATCACCAACAAAAGA-ATTG
* * * ** *
14116798 AATAAAATCCTATATCATCACTAAAACATACAAAAATCTCGGATATCACC-ACTAGAAA-AATTT
1 AATAAAATCATATATCATCA-TAAAATATGCAAAAAAGTTGGATATCACCAAC-A-AAAGAA-TT
*
14116861 T
62 G
* * *** * * *** *** *
14116862 AATAAGATCCATATATCATTATAAGGCATTCAAAAAACTCAAATATCACCATTGAGAGAATTG
1 AATAAAAT-CATATATCATCATAAAATATGCAAAAAAGTTGGATATCACCAACAAAAGAATTG
* * * * * *
14116925 AATAAAATCATATATCGTCATAAAATATGTAGAAAGGTTGGGTATCACCAACAAAAAAATTG
1 AATAAAATCATATATCATCATAAAATATGCAAAAAAGTTGGATATCACCAACAAAAGAATTG
* *
14116987 AATAAAATCATATATCATCATCAAATATGCAAAAAATTTGGATATCACCAACAAAAGAATTG
1 AATAAAATCATATATCATCATAAAATATGCAAAAAAGTTGGATATCACCAACAAAAGAATTG
* * * * *
14117049 AATAAAATTATATATCATCATAAAATATACAAAAAACTTAGATATCACCACCAAGAAGA
1 AATAAAATCATATATCATCATAAAATATGCAAAAAAGTTGGATATCACCAACAA-AAGA
14117108 GAAGCAAATT
Statistics
Matches: 243, Mismatches: 59, Indels: 17
0.76 0.18 0.05
Matches are distributed among these distances:
62 138 0.57
63 51 0.21
64 43 0.18
65 11 0.05
ACGTcount: A:0.49, C:0.16, G:0.09, T:0.26
Consensus pattern (62 bp):
AATAAAATCATATATCATCATAAAATATGCAAAAAAGTTGGATATCACCAACAAAAGAATTG
Found at i:14117003 original size:32 final size:31
Alignment explanation
Indices: 14116967--14117065 Score: 80
Period size: 32 Copynumber: 3.2 Consensus size: 31
14116957 AAAGGTTGGG
14116967 TATCACCAACAAAAAAATTGAATAAAATCATA
1 TATCACCAACAAAAAAATTGAATAAAAT-ATA
* * * *
14116999 TATCATCATC--AAATA-TGCAA-AAAATTTGGA
1 TATCACCAACAAAAAAATTG-AATAAAATAT--A
*
14117029 TATCACCAACAAAAGAATTGAATAAAATTATA
1 TATCACCAACAAAAAAATTGAATAAAA-TATA
14117061 TATCA
1 TATCA
14117066 TCATAAAATA
Statistics
Matches: 50, Mismatches: 9, Indels: 16
0.67 0.12 0.21
Matches are distributed among these distances:
28 1 0.02
29 7 0.14
30 15 0.30
32 19 0.38
33 6 0.12
34 2 0.04
ACGTcount: A:0.54, C:0.14, G:0.06, T:0.26
Consensus pattern (31 bp):
TATCACCAACAAAAAAATTGAATAAAATATA
Found at i:14117094 original size:30 final size:29
Alignment explanation
Indices: 14116998--14117095 Score: 70
Period size: 30 Copynumber: 3.2 Consensus size: 29
14116988 ATAAAATCAT
* * *
14116998 ATATCATCATCAAATATGCAAAAAATTTGG
1 ATATCATCATAAAATATACAAAAAA-TTAG
* * * ** *
14117028 ATATCACCAACAAAAGAATTGAATAAAATTAT
1 ATATCATC-ATAAAA-TATACAA-AAAATTAG
14117060 ATATCATCATAAAATATACAAAAAACTTAG
1 ATATCATCATAAAATATACAAAAAA-TTAG
14117090 ATATCA
1 ATATCA
14117096 CCACCAAGAA
Statistics
Matches: 50, Mismatches: 14, Indels: 8
0.69 0.19 0.11
Matches are distributed among these distances:
29 4 0.08
30 20 0.40
31 9 0.18
32 13 0.26
33 4 0.08
ACGTcount: A:0.53, C:0.13, G:0.06, T:0.28
Consensus pattern (29 bp):
ATATCATCATAAAATATACAAAAAATTAG
Found at i:14117095 original size:124 final size:124
Alignment explanation
Indices: 14116707--14117098 Score: 358
Period size: 124 Copynumber: 3.1 Consensus size: 124
14116697 GAGTTTGAAG
* * * * * *
14116707 ACTTAAATATCACCACCAAGAAGTTTTAATAAAATCCATATATTATCACCAAAACATGCAAAAAA
1 ACTTAGATATCACCAACAAAAAATTTTAATAAAATCCATATATCATCATC-AAACATGCAAAAAA
* * * * *
14116772 CTTGGATATCACCATCGAGGAGTTTGAATAAAATCCTATATCATCACTAAAACATACAAAAA
65 CTTGGATATCACCATCAAAGA-ATTGAATAAAATCATATATCATCA-TAAAATATACAAAAA
* ** * * * *
14116834 TCTCGGATATCACC-ACTAGAAAAATTTTAATAAGATCCATATATCATTAT-AAGGCATTCAAAA
1 ACTTAGATATCACCAAC-A-AAAAATTTTAATAAAATCCATATATCATCATCAA-ACATGCAAAA
*** * * * ** *
14116897 AACTCAAATATCACCATTGAGAGAATTGAATAAAATCATATATCGTCATAAAATATGTAGAAA
63 AACTTGGATATCACCA-TCAAAGAATTGAATAAAATCATATATCATCATAAAATATACAAAAA
** * * * * * *
14116960 GGTTGGGTATCACCAACAAAAAAATTGAATAAAAT-CATATATCATCATCAAATATGCAAAAAAT
1 ACTTAGATATCACCAACAAAAAATTTTAATAAAATCCATATATCATCATCAAACATGCAAAAAAC
* *
14117024 TTGGATATCACCAACAAAAGAATTGAATAAAATTATATATCATCATAAAATATACAAAAA
66 TTGGATATCACCATC-AAAGAATTGAATAAAATCATATATCATCATAAAATATACAAAAA
14117084 ACTTAGATATCACCA
1 ACTTAGATATCACCA
14117099 CCAAGAAGAG
Statistics
Matches: 204, Mismatches: 54, Indels: 17
0.74 0.20 0.06
Matches are distributed among these distances:
124 80 0.39
125 16 0.08
126 25 0.12
127 55 0.27
128 28 0.14
ACGTcount: A:0.48, C:0.16, G:0.09, T:0.27
Consensus pattern (124 bp):
ACTTAGATATCACCAACAAAAAATTTTAATAAAATCCATATATCATCATCAAACATGCAAAAAAC
TTGGATATCACCATCAAAGAATTGAATAAAATCATATATCATCATAAAATATACAAAAA
Found at i:14117837 original size:19 final size:19
Alignment explanation
Indices: 14117813--14117859 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
14117803 AGAAAAAAAC
14117813 AAAAAAAAACTA-AAGCAA
1 AAAAAAAAACTAGAAGCAA
* *
14117831 AAAAAAATACTAGCAGCAA
1 AAAAAAAAACTAGAAGCAA
14117850 AAAGAAAAAA
1 AAA-AAAAAA
14117860 GAACGTGAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 11 0.46
19 8 0.33
20 5 0.21
ACGTcount: A:0.74, C:0.11, G:0.09, T:0.06
Consensus pattern (19 bp):
AAAAAAAAACTAGAAGCAA
Found at i:14131963 original size:14 final size:13
Alignment explanation
Indices: 14131942--14132155 Score: 161
Period size: 14 Copynumber: 15.8 Consensus size: 13
14131932 CTAGGGTTGG
14131942 GGTTTAGGTTTTA
1 GGTTTAGGTTTTA
14131955 GGATTTAGGTTTTAA
1 GG-TTTAGGTTTT-A
14131970 GGTTTAGG-TTTA
1 GGTTTAGGTTTTA
*
14131982 GGGTTTAGGTTTTGG
1 -GGTTTAGGTTTT-A
*
14131997 GGTTTTAGGTTTTG
1 GG-TTTAGGTTTTA
*
14132011 GGTTTTGGGTTTTA
1 GG-TTTAGGTTTTA
*
14132025 GGTTTAGGGTTTA
1 GGTTTAGGTTTTA
* *
14132038 GGATTTATG-TTAA
1 GG-TTTAGGTTTTA
*
14132051 GGGTTTAGGTTTAA
1 -GGTTTAGGTTTTA
*
14132065 GATTT-GG-TTTA
1 GGTTTAGGTTTTA
*
14132076 GGGTTTATAG-TTTA
1 -GGTTTA-GGTTTTA
14132090 GGGTTTACGGTTTTA
1 -GGTTTA-GGTTTTA
*
14132105 GGTTTAGGATTTA
1 GGTTTAGGTTTTA
14132118 GGGTTTAGG-TTTA
1 -GGTTTAGGTTTTA
*
14132131 GGTTTAGGTTTAA
1 GGTTTAGGTTTTA
14132144 GGTTTAGAGTTT
1 GGTTTAG-GTTT
14132156 GGGGTAGGGT
Statistics
Matches: 169, Mismatches: 16, Indels: 31
0.78 0.07 0.14
Matches are distributed among these distances:
11 3 0.02
12 15 0.09
13 56 0.33
14 78 0.46
15 17 0.10
ACGTcount: A:0.17, C:0.00, G:0.33, T:0.49
Consensus pattern (13 bp):
GGTTTAGGTTTTA
Found at i:14132149 original size:7 final size:6
Alignment explanation
Indices: 14131942--14132155 Score: 142
Period size: 7 Copynumber: 31.8 Consensus size: 6
14131932 CTAGGGTTGG
*
14131942 GGTTTA GGTTTTA GGATTTA GGTTTTAA GGTTTA GGTTTA GGGTTTA GGTTTTGG
1 GGTTTA GG-TTTA GG-TTTA GG-TTT-A GGTTTA GGTTTA -GGTTTA GG-TTT-A
* *
14131997 GGTTTTA GGTTTTG GGTTTTG GGTTTTA GGTTTA GGGTTTA GGATTTA
1 GG-TTTA GG-TTTA GG-TTTA GG-TTTA GGTTTA -GGTTTA GG-TTTA
* * * *
14132045 TGTTAA GGGTTTA GGTTTAA GATTT- GGTTTA GGGTTTA TAGTTTA GGGTTTA
1 GGTTTA -GGTTTA GGTTT-A GGTTTA GGTTTA -GGTTTA -GGTTTA -GGTTTA
14132097 CGGTTTTA GGTTTA GGATTTA GGGTTTA GGTTTA GGTTTA GGTTTAA GGTTTA
1 -GG-TTTA GGTTTA GG-TTTA -GGTTTA GGTTTA GGTTTA GGTTT-A GGTTTA
14132150 GAGTTT
1 G-GTTT
14132156 GGGGTAGGGT
Statistics
Matches: 175, Mismatches: 17, Indels: 31
0.78 0.08 0.14
Matches are distributed among these distances:
5 4 0.02
6 50 0.29
7 106 0.61
8 15 0.09
ACGTcount: A:0.17, C:0.00, G:0.33, T:0.49
Consensus pattern (6 bp):
GGTTTA
Found at i:14133864 original size:143 final size:142
Alignment explanation
Indices: 14133606--14133870 Score: 329
Period size: 143 Copynumber: 1.9 Consensus size: 142
14133596 GTTTTTGCAA
* *
14133606 TTTTAAAGCACCAAAAATCTTAAAATAATATAAATTATGATATGAAAATTTTTATGAAAAACCAA
1 TTTTAAAGCACCAAAAATCATAAAATAATATAAATTATGATATGAAAATGTTTATGAAAAACCAA
* * * * * * * *
14133671 CCTCGAGAAGGTCAAATTACGAAAATACCCTTTAACGATATTTTAGTAATTTTACACCTCTTAAG
66 CCTCAAAAAGGTCAAATTACAAAAATACCCCTTAAAGACATTTTAATAATTTCACACCTCTTAAG
14133736 GTGCGGTAAGGT
131 GTGCGGTAAGGT
* * * *
14133748 TTTTAATA-CACCAAAAATCATAAGATAATATAAAATTATGATCT-AGAGTGTTT-TGCAAAAAA
1 TTTTAA-AGCACCAAAAATCATAAAATAATAT-AAATTATGATATGAAAATGTTTATG--AAAAA
* *
14133810 CTAACCTCAAAAAGGTCAAATTACAAAAATACCCCTTAAAGGCATTTTAATAATTTCACAC
62 CCAACCTCAAAAAGGTCAAATTACAAAAATACCCCTTAAAGACATTTTAATAATTTCACAC
14133871 TAAAAATCAA
Statistics
Matches: 103, Mismatches: 16, Indels: 7
0.82 0.13 0.06
Matches are distributed among these distances:
141 2 0.02
142 33 0.32
143 68 0.66
ACGTcount: A:0.44, C:0.15, G:0.11, T:0.31
Consensus pattern (142 bp):
TTTTAAAGCACCAAAAATCATAAAATAATATAAATTATGATATGAAAATGTTTATGAAAAACCAA
CCTCAAAAAGGTCAAATTACAAAAATACCCCTTAAAGACATTTTAATAATTTCACACCTCTTAAG
GTGCGGTAAGGT
Found at i:14136146 original size:42 final size:42
Alignment explanation
Indices: 14136087--14136172 Score: 154
Period size: 42 Copynumber: 2.0 Consensus size: 42
14136077 TATATATGTG
*
14136087 TGTGTGTGTGTGATATATACATTATCAATATAAAAAAGTATT
1 TGTGTGTGTGTGATATATACATTATCAATATAAAAAAGAATT
*
14136129 TGTGTGTGTGTGATATATACATTATTAATATAAAAAAGAATT
1 TGTGTGTGTGTGATATATACATTATCAATATAAAAAAGAATT
14136171 TG
1 TG
14136173 CATATTAAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.38, C:0.03, G:0.17, T:0.41
Consensus pattern (42 bp):
TGTGTGTGTGTGATATATACATTATCAATATAAAAAAGAATT
Found at i:14136396 original size:11 final size:12
Alignment explanation
Indices: 14136360--14136391 Score: 57
Period size: 11 Copynumber: 2.8 Consensus size: 12
14136350 TATCGTACTA
14136360 ATATTATTATTT
1 ATATTATTATTT
14136372 ATATTA-TATTT
1 ATATTATTATTT
14136383 ATATTATTA
1 ATATTATTA
14136392 ATATAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 11 0.58
12 8 0.42
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
ATATTATTATTT
Found at i:14136568 original size:9 final size:9
Alignment explanation
Indices: 14136556--14136589 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
14136546 ATAAAAAATG
*
14136556 TGTTCAACA
1 TGTTAAACA
14136565 TGTTAAACA
1 TGTTAAACA
14136574 TGTTAAACA
1 TGTTAAACA
14136583 TGTTAAA
1 TGTTAAA
14136590 TGTGTACCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (9 bp):
TGTTAAACA
Found at i:14142766 original size:8 final size:9
Alignment explanation
Indices: 14142743--14142775 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
14142733 CAATTTGTCT
14142743 TTAAAAACA
1 TTAAAAACA
14142752 TTAAAAACA
1 TTAAAAACA
14142761 TTAAAAAC-
1 TTAAAAACA
14142769 TTAAAAA
1 TTAAAAA
14142776 GGTAGGTATG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 7 0.29
9 17 0.71
ACGTcount: A:0.67, C:0.09, G:0.00, T:0.24
Consensus pattern (9 bp):
TTAAAAACA
Found at i:14152797 original size:20 final size:21
Alignment explanation
Indices: 14152760--14152800 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
14152750 CTCTTATAAT
14152760 AAAATCATATAGAATAAACAAG
1 AAAATCATATA-AATAAACAAG
14152782 AAAATCATAT-AATAAACAA
1 AAAATCATATAAATAAACAA
14152801 CAATAAACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.47
22 10 0.53
ACGTcount: A:0.66, C:0.10, G:0.05, T:0.20
Consensus pattern (21 bp):
AAAATCATATAAATAAACAAG
Found at i:14153085 original size:60 final size:59
Alignment explanation
Indices: 14152974--14153102 Score: 152
Period size: 60 Copynumber: 2.2 Consensus size: 59
14152964 GTTTAGAGGA
* * * * * *
14152974 AGGGACCAAATTGACACACATTTGGGTAATTAAGGACTCAATTAGAACTTTTCAAATTTT
1 AGGGACCAAATTAACACACATTTGGGCAATTAA-GACCCAACTACAACTTTTCAAAGTTT
*
14153034 AGGGACCAAATTAACACACATTTGGGCAATTTCAA-ACCCAACTACAGCTTTTCAAAGTTT
1 AGGGACCAAATTAACACACATTTGGGCAA-TT-AAGACCCAACTACAACTTTTCAAAGTTT
*
14153094 AAGGACCAA
1 AGGGACCAA
14153103 TATAAAATCT
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
60 55 0.93
61 2 0.03
62 2 0.03
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.27
Consensus pattern (59 bp):
AGGGACCAAATTAACACACATTTGGGCAATTAAGACCCAACTACAACTTTTCAAAGTTT
Found at i:14153544 original size:24 final size:24
Alignment explanation
Indices: 14153517--14153570 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
14153507 GAACTGAAAG
* *
14153517 TGAGTAATCTGACTATATGGACAA
1 TGAGTAATCTAACTATAGGGACAA
* *
14153541 TGAGGACTCTAACTATAGGGACAA
1 TGAGTAATCTAACTATAGGGACAA
14153565 TGAGTA
1 TGAGTA
14153571 TGAGTTAGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.13, G:0.24, T:0.26
Consensus pattern (24 bp):
TGAGTAATCTAACTATAGGGACAA
Found at i:14154966 original size:164 final size:164
Alignment explanation
Indices: 14154770--14155097 Score: 611
Period size: 164 Copynumber: 2.0 Consensus size: 164
14154760 AAGGGCAAGC
*
14154770 CATATACTAGAATTCAATGCAATCATGGAAAAGATAAAAGAAAAGCACCTAAAAGCACATGGTAG
1 CATATACCAGAATTCAATGCAATCATGGAAAAGATAAAAGAAAAGCACCTAAAAGCACATGGTAG
14154835 GCTTACAGAAAGGCCAACACAAAAGTGGTCAAGGTCTCAGTTCAACACAGTCCCTAAATGTGATA
66 GCTTACAGAAAGGCCAACACAAAAGTGGTCAAGGTCTCAGTTCAACACAGTCCCTAAATGTGATA
*
14154900 GTTTACTTAATAACTTGTGCAAATGTTTCAACAA
131 GTTTACTTAACAACTTGTGCAAATGTTTCAACAA
*
14154934 CATATACCAGAATTCAATGCAATCATGGAAAAGATAGAAGAAAAGCACCTAAAAGCACATGGTAG
1 CATATACCAGAATTCAATGCAATCATGGAAAAGATAAAAGAAAAGCACCTAAAAGCACATGGTAG
*
14154999 GCTTACAGAAAGGCCAACACAAAAGTGGTCAAGGTTTCAGTTCAACACAGTCCCTAAATGTGATA
66 GCTTACAGAAAGGCCAACACAAAAGTGGTCAAGGTCTCAGTTCAACACAGTCCCTAAATGTGATA
*
14155064 TTTTACTTAACAACTTGTGCAAATGTTTCAACAA
131 GTTTACTTAACAACTTGTGCAAATGTTTCAACAA
14155098 GTACATTTTG
Statistics
Matches: 159, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
164 159 1.00
ACGTcount: A:0.41, C:0.19, G:0.17, T:0.23
Consensus pattern (164 bp):
CATATACCAGAATTCAATGCAATCATGGAAAAGATAAAAGAAAAGCACCTAAAAGCACATGGTAG
GCTTACAGAAAGGCCAACACAAAAGTGGTCAAGGTCTCAGTTCAACACAGTCCCTAAATGTGATA
GTTTACTTAACAACTTGTGCAAATGTTTCAACAA
Found at i:14158484 original size:43 final size:43
Alignment explanation
Indices: 14158434--14158520 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
14158424 ATCTAAAAAG
14158434 TATGCTTCAGGCCCAATAGTATGCTTCAGCACCTTTGAACTTT
1 TATGCTTCAGGCCCAATAGTATGCTTCAGCACCTTTGAACTTT
*
14158477 TATGCTTCAGGCTCAATAGTATGCTTCAGCACCTTTGAACTTT
1 TATGCTTCAGGCCCAATAGTATGCTTCAGCACCTTTGAACTTT
14158520 T
1 T
14158521 TAATACTTAT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.37
Consensus pattern (43 bp):
TATGCTTCAGGCCCAATAGTATGCTTCAGCACCTTTGAACTTT
Found at i:14168949 original size:20 final size:21
Alignment explanation
Indices: 14168920--14168964 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 21
14168910 ACAAATTTCC
14168920 AATTTCCATAATAATTTC-TA
1 AATTTCCATAATAATTTCATA
*
14168940 AATTTTCATAATAATTTCATA
1 AATTTCCATAATAATTTCATA
14168961 AATT
1 AATT
14168965 CACAATTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 17 0.74
21 6 0.26
ACGTcount: A:0.42, C:0.11, G:0.00, T:0.47
Consensus pattern (21 bp):
AATTTCCATAATAATTTCATA
Found at i:14168959 original size:11 final size:11
Alignment explanation
Indices: 14168920--14168961 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
14168910 ACAAATTTCC
14168920 AATTTCCATAAT
1 AATTT-CATAAT
14168932 AATTTC-TAA-
1 AATTTCATAAT
*
14168941 ATTTTCATAAT
1 AATTTCATAAT
14168952 AATTTCATAA
1 AATTTCATAA
14168962 ATTCACAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
9 5 0.19
10 6 0.23
11 10 0.38
12 5 0.19
ACGTcount: A:0.43, C:0.12, G:0.00, T:0.45
Consensus pattern (11 bp):
AATTTCATAAT
Found at i:14168989 original size:28 final size:28
Alignment explanation
Indices: 14168958--14169035 Score: 86
Period size: 28 Copynumber: 2.7 Consensus size: 28
14168948 TAATAATTTC
*
14168958 ATAAATTCACAATTTTACAAA-TTCAACA
1 ATAAATT-AAAATTTTACAAATTTCAACA
* *
14168986 ATAAATTAAAATTTTCCAAATTTCCACA
1 ATAAATTAAAATTTTACAAATTTCAACA
*
14169014 ATAATAATATAAATTTTACAAA
1 ATAA-ATTA-AAATTTTACAAA
14169036 AACACAATAT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
27 11 0.26
28 17 0.40
29 3 0.07
30 11 0.26
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (28 bp):
ATAAATTAAAATTTTACAAATTTCAACA
Found at i:14168989 original size:56 final size:56
Alignment explanation
Indices: 14168864--14168989 Score: 123
Period size: 56 Copynumber: 2.2 Consensus size: 56
14168854 ATAACCTAAT
* * *
14168864 AAATTAAACATTAATTCCCTAAATTTCATAAATTCCATTAAATTCAACAAATTTCC
1 AAATTCAACAATAATTCCCTAAATTTCATAAATTCCATTAAATTCAACAAATTTAC
* * * * * *
14168920 AATTTCCATAATAATT-TCTAAATTTTCATAATAATTTCA-TAAATTC-ACAATTTTAC
1 AAATTCAACAATAATTCCCTAAA-TTTCAT-A-AATTCCATTAAATTCAACAAATTTAC
14168976 AAATTCAACAATAA
1 AAATTCAACAATAA
14168990 ATTAAAATTT
Statistics
Matches: 55, Mismatches: 12, Indels: 6
0.75 0.16 0.08
Matches are distributed among these distances:
55 5 0.09
56 36 0.65
57 8 0.15
58 6 0.11
ACGTcount: A:0.45, C:0.17, G:0.00, T:0.38
Consensus pattern (56 bp):
AAATTCAACAATAATTCCCTAAATTTCATAAATTCCATTAAATTCAACAAATTTAC
Found at i:14169155 original size:16 final size:16
Alignment explanation
Indices: 14169134--14169186 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 16
14169124 TTTTCATAAT
14169134 AATTTCACAAATTCAC
1 AATTTCACAAATTCAC
*
14169150 AATTTC-CAAAATTCCAA
1 AATTTCAC-AAATT-CAC
*
14169167 AATTCCACAAATTCAAC
1 AATTTCACAAATTC-AC
14169184 AAT
1 AAT
14169187 AAATTAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
15 1 0.03
16 12 0.40
17 16 0.53
18 1 0.03
ACGTcount: A:0.47, C:0.25, G:0.00, T:0.28
Consensus pattern (16 bp):
AATTTCACAAATTCAC
Found at i:14169185 original size:9 final size:9
Alignment explanation
Indices: 14169134--14169185 Score: 56
Period size: 8 Copynumber: 6.1 Consensus size: 9
14169124 TTTTCATAAT
*
14169134 AATTTCACA
1 AATTCCACA
14169143 AATT-CACA
1 AATTCCACA
*
14169151 ATTTCCA-A
1 AATTCCACA
14169159 AATTCCA-A
1 AATTCCACA
14169167 AATTCCACA
1 AATTCCACA
*
14169176 AATTCAACA
1 AATTCCACA
14169185 A
1 A
14169186 TAAATTAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
8 22 0.58
9 16 0.42
ACGTcount: A:0.48, C:0.25, G:0.00, T:0.27
Consensus pattern (9 bp):
AATTCCACA
Found at i:14171458 original size:18 final size:18
Alignment explanation
Indices: 14171414--14171449 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
14171404 AATAATATTC
14171414 CAATTATTTGGAATAAAA
1 CAATTATTTGGAATAAAA
* *
14171432 CAAATATTTGTAATAAAA
1 CAATTATTTGGAATAAAA
14171450 TATTTATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.06, G:0.08, T:0.33
Consensus pattern (18 bp):
CAATTATTTGGAATAAAA
Found at i:14174599 original size:253 final size:251
Alignment explanation
Indices: 14174116--14174626 Score: 844
Period size: 253 Copynumber: 2.0 Consensus size: 251
14174106 AATTATACCA
14174116 TTTAAATTTGAAAATTAGATGAATATTAATCAATTGCACAAATTACTAAAATATTATTAGTTCAA
1 TTTAAATTTGAAAATTAGATGAATATTAATCAATTGCACAAATTACTAAAATATTATTAGTTCAA
* * * *
14174181 ATATTTGTCATTCAGATAATTTAGATAAATTCAAGTATTTATTTTAAATTTTTACAATTTGATCG
66 ATACTTATCATTAAGATAATCTAGATAAATTCAAGTATTTATTTTAAATTTTTACAATTTGAT--
*
14174246 CCAACATTTGTGGAATTATTAATATTTTTATGTCATTATCAACATAGCTTTAAAATGATTTAATC
129 CCAACATCTGTGGAATTATTAATATTTTTATGTCATTATCAACATAGCTTTAAAATGATTTAATC
* *
14174311 ACCAATAGTTTATGAAATTTAATATAATATATTTTATTTCATTTTTATTTTTATTTCT
194 ACCAATAGTTTATGAAATTTAATATAATATATTTTATTTCATTTTTATCTATATTTCT
*
14174369 TTTAAATTTGAAAATTAGATGAATATTAATCAATTGCACAAATTACTAAAATATTATTAGTTTAA
1 TTTAAATTTGAAAATTAGATGAATATTAATCAATTGCACAAATTACTAAAATATTATTAGTTCAA
* *
14174434 ATACTTATCATTAAGTTAATCTAGATAAATTCAAGTATTTATTTTAAGTTTTTACAATTTGAT-C
66 ATACTTATCATTAAGATAATCTAGATAAATTCAAGTATTTATTTTAAATTTTTACAATTTGATCC
* * *
14174498 ACCATCTGTGGAATTATTAATATTTTTATGTCATTGTCAACGTAGCTTTAAAATGATTTAATCAC
131 AACATCTGTGGAATTATTAATATTTTTATGTCATTATCAACATAGCTTTAAAATGATTTAATCAC
*
14174563 CAATAGTTTATGAAATTTAATATAATAAATTATTTTATTTTATTTTTATCTATATTTCT
196 CAATAGTTTATGAAATTTAATATAAT--A-TATTTTATTTCATTTTTATCTATATTTCT
14174622 TTTAA
1 TTTAA
14174627 TGTTTTATTA
Statistics
Matches: 241, Mismatches: 14, Indels: 6
0.92 0.05 0.02
Matches are distributed among these distances:
250 88 0.37
252 1 0.00
253 152 0.63
ACGTcount: A:0.38, C:0.09, G:0.08, T:0.46
Consensus pattern (251 bp):
TTTAAATTTGAAAATTAGATGAATATTAATCAATTGCACAAATTACTAAAATATTATTAGTTCAA
ATACTTATCATTAAGATAATCTAGATAAATTCAAGTATTTATTTTAAATTTTTACAATTTGATCC
AACATCTGTGGAATTATTAATATTTTTATGTCATTATCAACATAGCTTTAAAATGATTTAATCAC
CAATAGTTTATGAAATTTAATATAATATATTTTATTTCATTTTTATCTATATTTCT
Found at i:14182355 original size:84 final size:83
Alignment explanation
Indices: 14182168--14182417 Score: 203
Period size: 84 Copynumber: 3.0 Consensus size: 83
14182158 AATATTGCTC
* *
14182168 AAAAGACTTAGAGACTATACCTTGAAGTCTTATAAGTCTCAACATTTAAATAGATTCAGCTTAGA
1 AAAAGACTTAGAGACTAT-GCTAGAAGTCTTATAAGTCTCAACATTTAAATAGATTCAGCTTAGA
** ** * *
14182233 AAACTTGTGGGTTTTGCCT
65 AAACTTACGAATCTTACCT
* ** * * *
14182252 AAAAGATTTCTAGATTATGCTAGAAAGTCTTATAAGTCTCAATATTTAAATAGATTCAGCTTGGA
1 AAAAGACTTAGAGACTATGCTAG-AAGTCTTATAAGTCTCAACATTTAAATAGATTCAGCTTAGA
* *
14182317 AGACTTACGAATCTTATCT
65 AAACTTACGAATCTTACCT
** * * * * * * * * *
14182336 GGAGGACTTAGAGACTATGCTTGGAGATTTTATAAGTCTTAACACTTAAACAGATTTAGCTCAGA
1 AAAAGACTTAGAGACTATGCTAGAAG-TCTTATAAGTCTCAACATTTAAATAGATTCAGCTTAGA
* * *
14182401 AGACTTATGAATTTTAC
65 AAACTTACGAATCTTAC
14182418 TTGGAGGATT
Statistics
Matches: 128, Mismatches: 36, Indels: 4
0.76 0.21 0.02
Matches are distributed among these distances:
83 5 0.04
84 123 0.96
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.34
Consensus pattern (83 bp):
AAAAGACTTAGAGACTATGCTAGAAGTCTTATAAGTCTCAACATTTAAATAGATTCAGCTTAGAA
AACTTACGAATCTTACCT
Found at i:14182484 original size:40 final size:39
Alignment explanation
Indices: 14182427--14182588 Score: 130
Period size: 40 Copynumber: 4.1 Consensus size: 39
14182417 CTTGGAGGAT
* *
14182427 TTGGAATTCACTCAAAAATTTAAAATTTTGCTCAAAGGTC
1 TTGGAATTCATTCAAAAATCTAAAATTTTGC-CAAAGGTC
* * * * * *
14182467 TTGGAATTCATTAAAAAAACTGAAGTTTTGCCTAGAGTTC
1 TTGGAATTCATTCAAAAATCTAAAATTTTGCC-AAAGGTC
* * *
14182507 TAT--AATTCATTTAAAAATCTGAAATTTTGCCCGAAGGTC
1 T-TGGAATTCATTCAAAAATCTAAAATTTTG-CCAAAGGTC
** * *
14182546 TTAAAATTCATTCAAAAATCTAAAATTTTACCTAGAGGTC
1 TTGGAATTCATTCAAAAATCTAAAATTTTGCC-AAAGGTC
14182586 TTG
1 TTG
14182589 AAAATTGTTA
Statistics
Matches: 96, Mismatches: 20, Indels: 12
0.75 0.16 0.09
Matches are distributed among these distances:
38 1 0.01
39 31 0.32
40 63 0.66
41 1 0.01
ACGTcount: A:0.37, C:0.14, G:0.13, T:0.36
Consensus pattern (39 bp):
TTGGAATTCATTCAAAAATCTAAAATTTTGCCAAAGGTC
Found at i:14182563 original size:79 final size:79
Alignment explanation
Indices: 14182431--14182582 Score: 187
Period size: 79 Copynumber: 1.9 Consensus size: 79
14182421 GAGGATTTGG
* * ** * *
14182431 AATTCACTCAAAAATTTAAAATTTTGCTCAAAGGTCTTGGAATTCATTAAAAAAACTGAAGTTTT
1 AATTCACTCAAAAATCTAAAATTTTGCCCAAAGGTCTTAAAATTCATTAAAAAAACTAAAATTTT
*
14182496 GCCTAGAGTTCTAT
66 ACCTAGAGTTCTAT
* * * * * *
14182510 AATTCATTTAAAAATCTGAAATTTTGCCCGAAGGTCTTAAAATTCATTCAAAAATCTAAAATTTT
1 AATTCACTCAAAAATCTAAAATTTTGCCCAAAGGTCTTAAAATTCATTAAAAAAACTAAAATTTT
14182575 ACCTAGAG
66 ACCTAGAG
14182583 GTCTTGAAAA
Statistics
Matches: 60, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
79 60 1.00
ACGTcount: A:0.39, C:0.14, G:0.11, T:0.35
Consensus pattern (79 bp):
AATTCACTCAAAAATCTAAAATTTTGCCCAAAGGTCTTAAAATTCATTAAAAAAACTAAAATTTT
ACCTAGAGTTCTAT
Found at i:14182748 original size:40 final size:40
Alignment explanation
Indices: 14182513--14182757 Score: 129
Period size: 40 Copynumber: 6.1 Consensus size: 40
14182503 GTTCTATAAT
* * * * *
14182513 TCATTTAAAAATCTGAA-ATTTTGCCCGAAGGTCTT-AAAA
1 TCATTAAAAAATCT-AAGATTTTACCTGAAAGTCTTGGAAA
* * * *
14182552 TTCATTCAAAAATCTAAAATTTTACCT-AGAGGTCTTGAAAA
1 -TCATTAAAAAATCTAAGATTTTACCTGA-AAGTCTTGGAAA
** * * * * * * * **
14182593 TTGTTAAGAAATCTAAGGTTTTGCTTGGAGGTTTTAAAAA
1 TCATTAAAAAATCTAAGATTTTACCTGAAAGTCTTGGAAA
* * * * *
14182633 TCATTCAAAATTTTAAGATTTTAGCC-GAAGGTTTTTGGAAA
1 TCATTAAAAAATCTAAGATTTTA-CCTGAAAG-TCTTGGAAA
* *** *
14182674 TCATTCAAAAATCTAAGATTTTACCTGGTGGTCTTGGAGA
1 TCATTAAAAAATCTAAGATTTTACCTGAAAGTCTTGGAAA
* *
14182714 TCATTAAAAAATCTAAGTTTTTACTTGAAAGTCTTGGAAA
1 TCATTAAAAAATCTAAGATTTTACCTGAAAGTCTTGGAAA
14182754 TCAT
1 TCAT
14182758 GTACTTATTT
Statistics
Matches: 159, Mismatches: 39, Indels: 14
0.75 0.18 0.07
Matches are distributed among these distances:
39 3 0.02
40 120 0.75
41 36 0.23
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.37
Consensus pattern (40 bp):
TCATTAAAAAATCTAAGATTTTACCTGAAAGTCTTGGAAA
Done.